Author: Jeffrey A. Ryan, Josh M. Ulrich
Title: Extensible Time Series
Description: Provide for uniform handling of R's different time-based data classes by extending zoo, maximizing native format information preservation and allowing for user level customization and extension, while simplifying cross-class interoperability.
Diff between xts versions 0.0-16 dated 2008-11-18 and 0.6-2 dated 2008-12-31
xts-0.0-16/xts/R/axTicksByTimeold.R |only xts-0.0-16/xts/R/xts2.R |only xts-0.0-16/xts/inst/doc/intro.pdf |only xts-0.0-16/xts/inst/unitTests/pbcopy |only xts-0.6-2/xts/DESCRIPTION | 9 xts-0.6-2/xts/DEVELOPMENT-NOTES |only xts-0.6-2/xts/NAMESPACE | 100 + xts-0.6-2/xts/R/Date.R | 21 xts-0.6-2/xts/R/Math.xts.R |only xts-0.6-2/xts/R/OHLC.R | 44 xts-0.6-2/xts/R/Ops.xts.R | 75 xts-0.6-2/xts/R/POSIX.R |only xts-0.6-2/xts/R/as.numeric.R |only xts-0.6-2/xts/R/axTicksByTime.R | 21 xts-0.6-2/xts/R/bind.R |only xts-0.6-2/xts/R/coredata.xts.R | 81 xts-0.6-2/xts/R/data.frame.R | 25 xts-0.6-2/xts/R/dimnames.R |only xts-0.6-2/xts/R/endpoints.R | 66 xts-0.6-2/xts/R/fillIndex.R | 21 xts-0.6-2/xts/R/first.R | 34 xts-0.6-2/xts/R/fts.R |only xts-0.6-2/xts/R/index.R |only xts-0.6-2/xts/R/indexClass.R | 67 xts-0.6-2/xts/R/indexFormat.R |only xts-0.6-2/xts/R/irts.R | 21 xts-0.6-2/xts/R/isOrdered.R |only xts-0.6-2/xts/R/its.R | 23 xts-0.6-2/xts/R/lag.xts.R | 99 - xts-0.6-2/xts/R/last.R | 34 xts-0.6-2/xts/R/list.R |only xts-0.6-2/xts/R/matrix.R | 28 xts-0.6-2/xts/R/merge.R |only xts-0.6-2/xts/R/na.R |only xts-0.6-2/xts/R/nperiods.R | 21 xts-0.6-2/xts/R/origin.fix.R | 21 xts-0.6-2/xts/R/period.R | 28 xts-0.6-2/xts/R/periodicity.R | 86 - xts-0.6-2/xts/R/plot.R | 24 xts-0.6-2/xts/R/print.R |only xts-0.6-2/xts/R/sort.xts.R | 21 xts-0.6-2/xts/R/start.R |only xts-0.6-2/xts/R/startOfYear.R |only xts-0.6-2/xts/R/str.R |only xts-0.6-2/xts/R/timeBasedRange.R | 25 xts-0.6-2/xts/R/timeBasedSeq.R | 92 - xts-0.6-2/xts/R/timeDate.R |only xts-0.6-2/xts/R/timeSeries.R | 28 xts-0.6-2/xts/R/tis.R |only xts-0.6-2/xts/R/toperiod.R | 23 xts-0.6-2/xts/R/ts.R | 46 xts-0.6-2/xts/R/utils.R |only xts-0.6-2/xts/R/write.xts.R |only xts-0.6-2/xts/R/xts.R | 112 + xts-0.6-2/xts/R/xts.methods.R | 409 +--- xts-0.6-2/xts/R/xtsible.R | 46 xts-0.6-2/xts/R/yearmon.R |only xts-0.6-2/xts/R/zoo.R | 43 xts-0.6-2/xts/WISHLIST | 13 xts-0.6-2/xts/inst/api_example |only xts-0.6-2/xts/inst/doc/xts.pdf | 1690 ++++++++++---------- xts-0.6-2/xts/inst/include |only xts-0.6-2/xts/inst/unitTests/Makefile | 2 xts-0.6-2/xts/inst/unitTests/report.html | 117 + xts-0.6-2/xts/inst/unitTests/report.txt | 166 + xts-0.6-2/xts/inst/unitTests/reportSummary.txt | 23 xts-0.6-2/xts/inst/unitTests/runit.Ops.R |only xts-0.6-2/xts/inst/unitTests/runit.data.frame.R | 36 xts-0.6-2/xts/inst/unitTests/runit.indexClass.R | 14 xts-0.6-2/xts/inst/unitTests/runit.indexClass.R.old |only xts-0.6-2/xts/inst/unitTests/runit.irts.R | 8 xts-0.6-2/xts/inst/unitTests/runit.its.R | 12 xts-0.6-2/xts/inst/unitTests/runit.merge.R |only xts-0.6-2/xts/inst/unitTests/runit.timeSeries.R | 4 xts-0.6-2/xts/inst/unitTests/runit.timeSeries.R.old |only xts-0.6-2/xts/inst/unitTests/runit.xts.methods.R | 25 xts-0.6-2/xts/inst/unitTests/runit.zoo.R | 2 xts-0.6-2/xts/man/as.xts.Rd | 8 xts-0.6-2/xts/man/as.xts.methods.Rd | 5 xts-0.6-2/xts/man/coredata.xts.Rd | 10 xts-0.6-2/xts/man/diff.Rd |only xts-0.6-2/xts/man/dimnames.xts.Rd |only xts-0.6-2/xts/man/endpoints.Rd | 8 xts-0.6-2/xts/man/first.Rd | 21 xts-0.6-2/xts/man/indexClass.Rd | 43 xts-0.6-2/xts/man/isOrdered.Rd |only xts-0.6-2/xts/man/merge.Rd |only xts-0.6-2/xts/man/plot.xts.Rd | 2 xts-0.6-2/xts/man/rbind.xts.Rd |only xts-0.6-2/xts/man/timeBased.Rd | 2 xts-0.6-2/xts/man/to.period.Rd | 9 xts-0.6-2/xts/man/xts-internals.Rd |only xts-0.6-2/xts/man/xts-package.Rd | 6 xts-0.6-2/xts/man/xts.Rd | 32 xts-0.6-2/xts/man/xtsAPI.Rd |only xts-0.6-2/xts/src/add_class.c |only xts-0.6-2/xts/src/attr.c |only xts-0.6-2/xts/src/coredata.c |only xts-0.6-2/xts/src/diff.c |only xts-0.6-2/xts/src/init.c |only xts-0.6-2/xts/src/isOrdered.c |only xts-0.6-2/xts/src/isXts.c |only xts-0.6-2/xts/src/merge.c |only xts-0.6-2/xts/src/period.max.f | 51 xts-0.6-2/xts/src/period.min.f |only xts-0.6-2/xts/src/period.prod.f |only xts-0.6-2/xts/src/period.sum.f | 57 xts-0.6-2/xts/src/rbind.c |only xts-0.6-2/xts/src/runSum.c |only xts-0.6-2/xts/src/startofyear.c |only xts-0.6-2/xts/src/subset.c |only xts-0.6-2/xts/src/toperiod.c |only xts-0.6-2/xts/src/totalcols.c |only xts-0.6-2/xts/src/tryXts.c |only xts-0.6-2/xts/src/xts.h |only 115 files changed, 2562 insertions(+), 1598 deletions(-)
Author: Russell V. Lenth
Title: Response-surface analysis
Description: Provides functions to
generate response-surface designs,
fit first- and second-order response-surface models,
make contour plots, obtain the path of steepest ascent,
and do canonical analysis.
Diff between rsm versions 1.01 dated 2008-12-05 and 1.10 dated 2008-12-31
DESCRIPTION | 18 +++++---- R/bbd.R |only R/ccd.R |only R/ccd.pick.R |only R/coding.R | 2 - R/rsm.R | 20 +++++++--- inst/CITATION |only inst/NEWS |only inst/doc/rsm.Rtex | 101 +++++++++++++++++++++++++++++++++++++++++++---------- inst/doc/rsm.pdf |binary man/bbd.Rd |only man/ccd.Rd |only man/ccd.pick.Rd |only man/coded.data.Rd | 23 +++++++----- man/contour.lm.Rd | 2 - man/model.data.Rd | 4 +- man/rsm-package.Rd | 12 +++++- man/rsm.Rd | 11 +++++ man/steepest.Rd | 3 + 19 files changed, 147 insertions(+), 49 deletions(-)
Author: Jochen Knaus
Title: Easier cluster computing (based on snow).
Description: Usability wrapper around snow for easier development of
parallel R programs. This package offers e.g. extended error checks,
and additional functions.
All functions work in sequential mode, too, if no cluster is present
or wished.
Package is also designed as connector to the cluster management tool
sfCluster, but can also used without it.
Diff between snowfall versions 1.60 dated 2008-10-22 and 1.70 dated 2008-12-30
snowfall-1.60/snowfall/inst/doc/snowfall.aux |only snowfall-1.60/snowfall/inst/doc/snowfall.dvi |only snowfall-1.60/snowfall/inst/doc/snowfall.log |only snowfall-1.60/snowfall/inst/doc/snowfall.tex |only snowfall-1.60/snowfall/inst/doc/snowfall.toc |only snowfall-1.70/snowfall/DESCRIPTION | 11 snowfall-1.70/snowfall/R/clusterFunctions.R | 19 snowfall-1.70/snowfall/R/init.R | 442 +++++++++++++++-------- snowfall-1.70/snowfall/R/snowWrappers.R | 24 - snowfall-1.70/snowfall/R/snowfall-internal.R | 44 +- snowfall-1.70/snowfall/data/config.txt | 13 snowfall-1.70/snowfall/inst/doc/all-bib.bib | 10 snowfall-1.70/snowfall/inst/doc/snowfall.Snw | 64 ++- snowfall-1.70/snowfall/inst/doc/snowfall.pdf |binary snowfall-1.70/snowfall/man/snowfall-a-package.Rd | 8 snowfall-1.70/snowfall/man/snowfall-b-init.Rd | 19 snowfall-1.70/snowfall/man/snowfall-d-tools.Rd | 36 - snowfall-1.70/snowfall/man/snowfall-e-data.Rd | 2 18 files changed, 458 insertions(+), 234 deletions(-)
Author: Simon Urbanek
Diff between rJava versions 0.6-0 dated 2008-09-22 and 0.6-1 dated 2008-12-30
Title: Low-level R to Java interface
Description: Low-level interface to Java VM very much like .C/.Call and friends. Allows creation of objects, calling methods and accessing fields.
DESCRIPTION | 2 +-
NEWS | 8 ++++++++
configure | 22 +++++++++++++++++-----
configure.ac | 17 +++++++++++++----
jri/NEWS | 6 +++++-
jri/configure | 19 ++++++++++++++++---
jri/configure.ac | 18 +++++++++++++++---
jri/src/Rcallbacks.c | 17 +++++++++--------
jri/src/Rcallbacks.h | 17 ++++++++++++-----
jri/src/jri.c | 23 +++++++++++++++++------
jri/src/jri.h | 12 +++++++++++-
man/jcall.Rd | 18 ++++++++++++++++++
src/Rglue.c | 32 ++++++++++++++++++++------------
src/arrayc.c | 2 +-
src/rJava.h | 13 ++++++++++++-
src/tools.c | 2 +-
16 files changed, 176 insertions(+), 52 deletions(-)
Author: Jose Pinheiro
Diff between nlme versions 3.1-89 dated 2008-06-09 and 3.1-90 dated 2008-12-30
Title: Linear and Nonlinear Mixed Effects Models
Description: Fit and compare Gaussian linear and nonlinear mixed-effects models.
ChangeLog | 14 ++++++++
DESCRIPTION | 6 +--
R/gls.R | 4 +-
man/Gasoline.Rd | 6 +--
man/Muscle.Rd | 6 +--
man/Oats.Rd | 8 ++--
man/Phenobarb.Rd | 2 -
man/fdHess.Rd | 2 -
man/gls.Rd | 2 -
man/gnls.Rd | 2 -
man/lme.Rd | 72 +++++++++++++++++++++-----------------------
man/lme.groupedData.Rd | 2 -
man/lme.lmList.Rd | 79 ++++++++++++++++++++++++-------------------------
man/logLik.lme.Rd | 2 -
man/nlme.Rd | 2 -
man/nlme.nlsList.Rd | 2 -
src/nlOptimizer.c | 5 +--
tests/gls.R | 5 +++
18 files changed, 120 insertions(+), 101 deletions(-)
Author: J. R. M. Hosking
Title: L-moments
Description: Functions related to L-moments: computation of L-moments
of distributions and data samples; parameter estimation; L-moment
ratio diagram; plot vs. quantiles of an extreme-value distribution.
Diff between lmom versions 1.0 dated 2008-07-05 and 1.1 dated 2008-12-30
DESCRIPTION | 6 +- NAMESPACE | 8 +++ NEWS | 14 +++++ R/lmom.r | 127 ++++++++++++++++++++++++++++++++++++++++++++------- inst |only man/0-lmom.Rd | 6 +- man/cdfgev.Rd | 2 man/cdfgno.Rd | 8 ++- man/cdfln3.Rd |only man/cdfpe3.Rd | 2 man/cdfwei.Rd |only man/lmr-functions.Rd | 14 ++++- man/lmrd.Rd | 4 - man/lmrp.Rd | 2 man/pel-functions.Rd | 16 ++++-- man/pelp.Rd | 2 16 files changed, 177 insertions(+), 34 deletions(-)
Author: Beth Atkinson (atkinson@mayo.edu) for pedigree
functions. Terry Therneau (therneau@mayo.edu) for all other functions.
Title: mixed-effects Cox models, sparse matrices, and modeling data from large pedigrees
Description: coxme: general mixed-effects Cox models; kinship: routines
to create and manipulate n by n matrices that describe the
genetic relationships between n persons; pedigree: create and
plot pedigrees; bdsmatrix: a class of objects for sparse
block-diagonal matrices (which is how kinship matrices are
stored); gchol: generalized cholesky decompositions
Diff between kinship versions 1.1.0-21 dated 2008-04-14 and 1.1.0-22 dated 2008-12-30
ChangeLog | 106 ++++++++++++++++++----------------- DESCRIPTION | 9 +- R/alignped4.R | 28 ++++++++- R/pedigree.R | 15 +--- R/plot.pedigree.R | 25 +++----- inst/tests/plot.pedigree.R |only inst/tests/plot.pedigree.Rd |only inst/tests/testpedigree/Readme | 2 inst/tests/testpedigree/Twins.pdf |only inst/tests/testpedigree/_ped2.R | 93 +++++++++++++++--------------- inst/tests/testpedigree/hsrcolor.s |only inst/tests/testpedigree/testplots.R | 5 - inst/tests/testpedigree/twin.R | 2 inst/tests/testpedigree/twin.nonsq.R | 18 ----- man/kinship.ops.Rd | 1 man/plot.pedigree.Rd | 4 - 16 files changed, 158 insertions(+), 150 deletions(-)
Author: John Fox
Diff between car versions 1.2-9 dated 2008-10-23 and 1.2-10 dated 2008-12-30
Title: Companion to Applied Regression
Description:
This package accompanies J. Fox, An R and S-PLUS Companion to Applied Regression,
Sage, 2002.
The package contains mostly functions for applied regression, linear models, and
generalized linear models, with an emphasis on regression diagnostics, particularly
graphical diagnostic methods. There are also some utility functions.
With some exceptions, I have tried not to duplicate capabilities in the basic distribution of R,
nor in widely used packages. Where relevant, the functions in car are consistent with
na.action = na.omit or na.exclude.
DESCRIPTION | 8
NAMESPACE | 6
R/Anova.R | 877 +++++++++++++++++++++++++++++++++++---------------
R/linear.hypothesis.R | 20 +
inst/CHANGES | 4
man/Anova.Rd | 50 +-
man/car-package.Rd | 4
man/n.bins.Rd | 2
8 files changed, 681 insertions(+), 290 deletions(-)
Author: Duncan Temple Lang (duncan@wald.ucdavis.edu)
Title: Tools for parsing and generating XML within R and S-Plus.
Description: Parsing facilities for arbitrary XML files, DTDs and HTML, offering both
event and tree based parsers which are customizable with R functions.
Diff between XML versions 1.98-1 dated 2008-10-20 and 1.99-0 dated 2008-12-30
Changes | 20 ++ DESCRIPTION | 4 INSTALL | 2 NAMESPACE | 5 R/XMLClasses.R | 23 +-- R/applyDOM.R | 2 R/catalog.R | 10 - R/createNode.R | 3 R/error.R | 4 R/hashTree.R | 9 - R/htmlParse.R | 10 - R/nodeAccessors.R | 45 ++++-- R/parseDTD.R | 13 + R/schema.S | 12 - R/tangle.R |only R/version.R | 4 R/xmlEventParse.R | 9 - R/xmlInternalSource.R | 9 - R/xmlNodes.R | 334 +++++++++++++++++++++++++++++------------------ R/xmlTree.R | 14 - R/xmlTreeParse.R | 15 -- R/zzz.R | 8 - configure | 17 +- configure.in | 16 +- inst/exampleData/foo.dtd | 1 man/parseDTD.Rd | 8 - man/xmlFlatListTree.Rd | 2 man/xmlTreeParse.Rd | 2 man/xmlValue.Rd | 27 +++ src/DocParse.c | 2 src/RSDTD.c | 6 src/Utils.c | 6 src/XMLTree.c | 70 +++++++++ 33 files changed, 482 insertions(+), 230 deletions(-)
Author: Duncan Temple Lang
Title: HTTP request interface
Description: The package allows one to compose HTTP requests to fetch URIs, post forms,
etc. and process the results returned by the Web server.
This provides a great deal of control over the HTTP connection and the form
of the request while providing a higher-level interface than is available just
using R socket connections. Additionally, the underlying implementation is robust
and extensive, supporting SSL/HTTPS, cookies, redirects, authentication, etc.
Diff between RCurl versions 0.92-0 dated 2008-11-18 and 0.93-0 dated 2008-12-30
Changes.html | 15 ++++++++++++++- DESCRIPTION | 4 ++-- NAMESPACE | 4 ++++ R/curl.S | 10 ++++++++++ man/reset.Rd |only src/Rcurl.h | 3 +++ src/curl.c | 15 ++++++++++++++- src/curlInit.c | 1 + 8 files changed, 48 insertions(+), 4 deletions(-)
Author: Adrian Dusa
Diff between QCA versions 0.5-0 dated 2007-10-18 and 0.5-1 dated 2008-12-30
Title: Qualitative Comparative Analysis
Description: Performs the Quine-McCluskey algorithm for Qualitative Comparative Analysis, as described in Ragin, Charles C. 1987 "The Comparative Method. Moving beyond qualitative and quantitative strategies", Berkeley: University of California Press. In the classical approach it currently handles about 15 conditions and one outcome, but since version 0.4-5 the package has an enhanced, faster function that obtains the same exact solutions with a substantially lower memory consumption, and it handles even more causal conditions. The next versions of this algorithm will be oriented towards multi-value and fuzzy-set functions. Also, in the near future the current functions will deal with missing values in the data
DESCRIPTION | 10 +-
R/createMatrix.R | 2
R/eqmcc.R | 13 +-
R/findPrimes.R | 4
R/findSubsets.R | 11 --
R/print.is.tt.R | 6 -
R/qmcc.R | 8 -
R/rowDominance2.R | 4
R/solveChart.R | 2
R/verifyQCA.R | 244 +++++++++++++++++++++++++-------------------------
inst/CHANGES | 8 +
inst/TODO | 1
man/QCA-internal.Rd | 11 +-
man/QCA.package.Rd | 9 -
man/allExpressions.Rd | 8 -
man/createMatrix.Rd | 2
man/createString.Rd | 2
man/demoChart.Rd | 2
man/eqmcc.Rd | 2
man/factorize.Rd | 2
man/findPrimes.Rd | 2
man/findSubsets.Rd | 2
man/getRow.Rd | 2
man/prettyString.Rd | 2
man/prettyTable.Rd | 2
man/qmcc.Rd | 2
man/solveChart.Rd | 2
man/truthTable.Rd | 56 +++++++++--
28 files changed, 226 insertions(+), 195 deletions(-)
Author: Uwe Ligges
Diff between tuneR versions 0.2-6 dated 2007-09-21 and 0.2-7 dated 2008-12-23
Title: Analysis of music
Description: Collection of tools to analyze music, handling wave files, transcription, ...
.project |only
DESCRIPTION | 12 ++++++------
R/FFrq.R | 2 +-
R/melodyplot.R | 50 ++++++++++++++++++++++++++++++++++----------------
R/plot-Wave.R | 2 +-
R/writeWave.R | 2 +-
man/FF.Rd | 2 +-
man/MFCC.Rd | 2 +-
man/MonoStereo.Rd | 2 +-
man/WavPlayer.Rd | 2 +-
man/Wave.Rd | 2 +-
man/WaveArith.Rd | 2 +-
man/WaveIO.Rd | 2 +-
man/Waveforms.Rd | 2 +-
man/Wspec.Rd | 2 +-
man/WspecMat.Rd | 2 +-
man/bind.Rd | 2 +-
man/channel.Rd | 2 +-
man/downsample.Rd | 2 +-
man/equalWave.Rd | 2 +-
man/extractWave.Rd | 2 +-
man/lilyinput.Rd | 2 +-
man/melodyplot.Rd | 24 ++++++++++++++++--------
man/noSilence.Rd | 2 +-
man/normalize.Rd | 2 +-
man/noteFromFF.Rd | 2 +-
man/notenames.Rd | 2 +-
man/periodogram.Rd | 2 +-
man/play.Rd | 2 +-
man/plot-Wave.Rd | 2 +-
man/plot-Wspec.Rd | 2 +-
man/plot-WspecMat.Rd | 2 +-
man/prepComb.Rd | 2 +-
man/quantize.Rd | 2 +-
man/quantplot.Rd | 2 +-
man/show.Rd | 2 +-
man/smoother.Rd | 2 +-
man/summary.Rd | 2 +-
man/tuneR.Rd | 2 +-
39 files changed, 91 insertions(+), 65 deletions(-)
Author: Adelchi Azzalini
Diff between sn versions 0.4-8 dated 2008-11-19 and 0.4-10 dated 2008-12-23
Title: The skew-normal and skew-t distributions
Description: Functions for manipulating skew-normal and skew-t probability
distributions, and for fitting them to data, in the scalar and in the
multivariate case.
DESCRIPTION | 8 +++---
R/sn.R | 70 +++++++++++++++++++++++++++++++++++-------------------------
man/dsn.Rd | 38 +++++++++++++++++---------------
man/dst.Rd | 4 +--
4 files changed, 67 insertions(+), 53 deletions(-)
Author: Jerome Friedman, Trevor Hastie, Rob Tibshirani
Title: Lasso and elastic-net regularized generalized linear models
Description: Extremely efficient procedures for fitting the entire lasso or elastic-net regularization path for linear regression, logistic and multinomial regression models. The algorithm uses cyclical coordinate descent in a pathwise fashion, as described in the paper on the maintainer's website.
Diff between glmnet versions 1.1-1 dated 2008-06-27 and 1.1-2 dated 2008-12-23
DESCRIPTION | 6 +++--- R/glmnet.R | 14 ++++++++------ 2 files changed, 11 insertions(+), 9 deletions(-)
Author: R-core members, Saikat DebRoy
Diff between foreign versions 0.8-29 dated 2008-08-08 and 0.8-30 dated 2008-12-23
Title: Read Data Stored by Minitab, S, SAS, SPSS, Stata, Systat, dBase, ...
Description: Functions for reading and writing data stored by statistical
packages such as Minitab, S, SAS, SPSS, Stata, Systat, ...,
and for reading and writing .dbf (dBase) files.
ChangeLog | 25 +++++
DESCRIPTION | 6 -
R/R_systat.R | 2
R/Sread.R | 10 +-
R/arff.R | 47 ++++++-----
R/dbf.R | 10 --
R/octave.R | 14 +--
R/read.dta.R | 19 ++--
R/read.epiinfo.R | 8 -
R/read.ssd.R | 55 +++++++++++--
R/spss.R | 6 -
R/writeForeignCode.R | 108 +++++++++++++------------
R/writeForeignSAS.R | 209 ++++++++++++++++++++++++--------------------------
man/read.arff.Rd | 3
man/read.spss.Rd | 8 +
man/read.ssd.Rd | 2
man/read.xport.Rd | 2
man/write.arff.Rd | 15 +++
man/write.dta.Rd | 51 ++++++------
src/sfm-read.c | 4
tests/stata.Rout.save | 28 +++---
21 files changed, 365 insertions(+), 267 deletions(-)
Author: J L Marchini
Diff between fastICA versions 1.1-9 dated 2007-10-11 and 1.1-10 dated 2008-12-23
Title: FastICA Algorithms to perform ICA and Projection Pursuit
Description: Implementation of FastICA algorithm to perform
Independent Component Analysis (ICA) and Projection Pursuit.
DESCRIPTION | 8 ++++----
R/fastICA.R | 55 ++++++++++++++++++++++++++-----------------------------
tests |only
3 files changed, 30 insertions(+), 33 deletions(-)
Author: Juliane Schaefer, Rainer Opgen-Rhein, and Korbinian Strimmer.
Title: Efficient Estimation of Covariance and (Partial) Correlation
Description: This package implements a James-Stein-type shrinkage estimator for
the covariance matrix, with separate shrinkage for variances and correlations.
The details of the method are explained in Sch\"afer and Strimmer (2005) and
Opgen-Rhein and Strimmer (2007). The approach is both computationally as well
as statistically very efficient, it is applicable to "small n, large p" data,
and always returns a positive definite and well-conditioned covariance matrix.
In addition to inferring the covariance matrix the package also provides
shrinkage estimators for partial correlations, partial variances, and
regression coefficients. The inverse of the covariance and correlation matrix
can be efficiently computed, and as well as any arbitrary power of the
shrinkage correlation matrix. Furthermore, functions are available for fast
singular value decomposition, for computing the pseudoinverse, and for
checking the rank and positive definiteness of a matrix.
Diff between corpcor versions 1.5.0 dated 2008-12-01 and 1.5.1 dated 2008-12-23
DESCRIPTION | 31 ++++++++++++++++--------------- NEWS | 7 +++++++ R/powcor.shrink.R | 4 ++-- man/corpcor.package.Rd | 30 +++++++++++++++++------------- man/powcor.shrink.Rd | 28 +++++++++++++++++----------- 5 files changed, 59 insertions(+), 41 deletions(-)
More information about RcmdrPlugin.qcc at CRAN
Permanent link
Author: Alan Genz, Frank Bretz, Tetsuhisa Miwa, Xuefei Mi, Friedrich Leisch,
Fabian Scheipl, Torsten Hothorn
Title: Multivariate Normal and t Distributions
Description: Computes multivariate normal and t probabilities, quantiles,
random deviates and densities.
Diff between mvtnorm versions 0.9-2 dated 2008-07-08 and 0.9-3 dated 2008-12-22
CHANGES | 6 +++++- DESCRIPTION | 11 +++++------ inst/CHANGES | 6 +++++- inst/CITATION |only inst/doc/MVT_Rnews.pdf |binary 5 files changed, 15 insertions(+), 8 deletions(-)
Author: Klaus Schliep
Title: Phylogenetic analysis in R
Description: Phylogenetic analysis in R (Estimation of phylogenetic
trees and networks using Maximum Likelihood, Maximum Parsimony,
Distance methods & Hadamard conjugation)
Diff between phangorn versions 0.0-3 dated 2008-10-28 and 0.0-4 dated 2008-12-22
Changes | 24 + DESCRIPTION | 8 NAMESPACE | 6 R/phylo.R | 806 +++++++++++++++++++++++++++++++++++------------- Thanks | 4 data/chloroplast.RData |only man/chloroplast.Rd |only man/designTree.Rd | 11 man/distanceHadamard.Rd | 6 man/hadamard.Rd | 2 man/pmlMix.Rd | 34 +- man/pmlPart.Rd | 21 - man/splitsNetwork.Rd |only src/init.c | 1 src/phangorn.c | 48 ++ 15 files changed, 728 insertions(+), 243 deletions(-)
Author: Peter Solymos
Title: Multivariate Data Handling in Ecology and Biogeography
Description: A framework package aimed to provide standardized computational environment for specialist work via object classes to represent the data coded by samples, taxa and segments (i.e. subpopulations, repeated measures). It supports easy processing of the data along with cross tabulation and relational data tables for samples and taxa. An object of class `mefa' is a project specific compendium of the data and can be easily used in further analyses. Methods are provided for extraction, aggregation, conversion, plotting, summary and reporting of `mefa' objects. Reports can be generated in plain text or LaTeX format. Vignette contains worked examples.
Diff between mefa versions 2.1-0 dated 2008-11-17 and 2.1-2 dated 2008-12-22
DESCRIPTION | 11 +- R/as.data.frame.mefa.R |only R/boxplot.mefa.R | 8 - R/boxplot.stcs.R | 4 R/extract.mefa.R | 8 + R/image.mefa.R | 26 +++- R/image.stcs.R | 6 - R/label.R |only R/mefa.R | 4 R/mefaTables.R | 4 R/melt.mefa.R | 3 R/msr.R |only R/mss.R |only R/mtr.R |only R/mts.R |only R/plot.mefa.R | 8 + R/plot.stcs.R | 4 R/print.mefa.R | 13 +- R/stcs.R | 3 demo/mefa.R | 41 ++++--- inst/CITATION | 14 +- inst/ChangeLog | 48 ++++++++ inst/SampleReport | 12 +- inst/doc/mefa.Rnw | 252 +++++++++++++++++++++++----------------------- inst/doc/mefa.bib | 50 ++++----- inst/doc/mefa.pdf |binary man/aggregate.mefa.Rd | 2 man/as.data.frame.mefa.Rd |only man/label.Rd |only man/mefa.Rd | 29 ++--- man/melt.mefa.Rd | 2 man/plot.mefa.Rd | 51 +++++---- 32 files changed, 349 insertions(+), 254 deletions(-)
Author: Nicholas L. Crookston
Diff between yaImpute versions 1.0-6 dated 2008-08-08 and 1.0-7 dated 2008-12-21
Title: yaImpute: An R Package for k-NN Imputation
Description: Performs popular nearest neighbor routines for imputation
DESCRIPTION | 8
R/asciigridimpute.R | 9
R/impute.R | 607 +++++++++++++++++++++++++------------------------
R/newtargets.R | 91 ++++---
R/print.yai.R | 2
R/whatsMax.R | 14 -
R/yai.R | 68 +++--
man/asciigridimpute.Rd | 2
man/impute.yai.Rd | 12
man/newtargets.Rd | 6
man/rmsd.yai.Rd | 2
man/yai.Rd | 12
src/ANN.cpp | 2
src/ANN/ANNx.h | 2
src/perf.cpp | 2
src/rfoneprox.cpp | 68 ++++-
src/util.cpp | 2
src/util.h | 2
18 files changed, 524 insertions(+), 387 deletions(-)
Author: Ingo Feinerer, with contributions from Christian Buchta, Kurt Hornik, David Meyer, and Fridolin Wild
Title: Text Mining Package
Description: A framework for text mining applications within R.
Diff between tm versions 0.3-2 dated 2008-11-11 and 0.3-3 dated 2008-12-21
DESCRIPTION | 6 - NAMESPACE | 4 R/AAA.R | 8 + R/aobjects.R | 12 +- R/preprocess.R | 4 R/reader.R | 13 +-- R/source.R | 174 ++++++++++++++++--------------------------- R/termdocmatrix.R | 12 +- R/textdoccol.R | 6 - inst/NEWS | 27 ++++++ inst/doc/tm.Rnw | 3 inst/doc/tm.pdf |binary man/CSVSource.Rd | 5 - man/DataframeSource-class.Rd |only man/DataframeSource.Rd |only man/GmaneSource.Rd | 5 - man/ReutersSource.Rd | 5 - man/URISource-class.Rd |only man/URISource.Rd |only man/eoi-methods.Rd | 6 + man/getElem-methods.Rd | 4 man/readPDF.Rd | 6 + man/stepNext-methods.Rd | 14 --- man/termFreq.Rd | 6 - 24 files changed, 161 insertions(+), 159 deletions(-)
Author: Garrett M. Dancik
Title: Maximum Likelihood Estimates of Gaussian Processes
Description: Maximum likelihood Gaussian process modeling for univariate and multi-dimensional outputs with diagnostic plots and sensitivity analysis.
Diff between mlegp versions 2.2.4 dated 2008-04-24 and 2.2.5 dated 2008-12-21
CHANGES | 3 +++ DESCRIPTION | 8 ++++---- man/CV.Rd | 2 +- man/FANOVADecomposition.Rd | 2 +- man/FANOVAFunctions.Rd | 2 +- man/createGP.Rd | 2 +- man/createWindow.Rd | 2 +- man/gp.list.Rd | 2 +- man/is.gp.Rd | 2 +- man/mlegp-internal.Rd | 2 +- man/mlegp-naming-functions.Rd | 2 +- man/mlegp-package.Rd | 2 +- man/mlegp-sa-internal.Rd | 2 +- man/mlegp-svd-functions.Rd | 2 +- man/mlegp.Rd | 2 +- man/nice.Rd | 2 +- man/nugget.Rd | 2 +- man/paramLookup.Rd | 2 +- man/plot.gp.Rd | 2 +- man/plot.gp.list.Rd | 2 +- man/plotInteractionEffect.Rd | 2 +- man/plotMainEffects.Rd | 2 +- man/plotObservedEffects.Rd | 2 +- man/predict.gp.Rd | 2 +- man/print.gp.Rd | 2 +- man/print.gp.list.Rd | 2 +- man/summary.gp.Rd | 2 +- man/summary.gp.list.Rd | 2 +- src/fit_gp.h | 2 +- src/gp.h | 2 +- src/matrix_vector.h | 2 +- 31 files changed, 36 insertions(+), 33 deletions(-)
Author: Ronja Foraita, Fabian Sobotka
Title: Validation of graphical models
Description: Simulate data sets given a dependence model,
validate graphical models using the bootstrap,
find the best prediction model using cross validation.
Diff between gmvalid versions 1.1 dated 2008-07-28 and 1.2 dated 2008-12-21
gmvalid-1.1/gmvalid/man/unix/gm.csi.Rd |only gmvalid-1.1/gmvalid/man/windows/gm.csi.Rd |only gmvalid-1.2/gmvalid/ChangeLog | 26 ++ gmvalid-1.2/gmvalid/DESCRIPTION | 29 +- gmvalid-1.2/gmvalid/R/gm.boot.coco.R | 263 +++++---------------- gmvalid-1.2/gmvalid/R/gm.si.R | 80 +++--- gmvalid-1.2/gmvalid/R/unix/gm.validation.R | 36 -- gmvalid-1.2/gmvalid/R/windows/gm.boot.mim.R | 214 +++-------------- gmvalid-1.2/gmvalid/R/windows/gm.cv.R | 26 +- gmvalid-1.2/gmvalid/R/windows/gm.sim.ixj.R | 82 ++++-- gmvalid-1.2/gmvalid/R/windows/gm.validation.R | 36 -- gmvalid-1.2/gmvalid/man/gm.csi.Rd |only gmvalid-1.2/gmvalid/man/gm.generate.Rd | 4 gmvalid-1.2/gmvalid/man/gm.modelsim.Rd | 8 gmvalid-1.2/gmvalid/man/gm.or.Rd | 20 - gmvalid-1.2/gmvalid/man/gm.plot.Rd | 6 gmvalid-1.2/gmvalid/man/gm.screening.Rd | 24 + gmvalid-1.2/gmvalid/man/gm.si.Rd | 8 gmvalid-1.2/gmvalid/man/gm.sim.ixj.Rd | 4 gmvalid-1.2/gmvalid/man/idd35.Rd | 2 gmvalid-1.2/gmvalid/man/unix/dp.Rd | 10 gmvalid-1.2/gmvalid/man/unix/gm.analysis.Rd | 13 - gmvalid-1.2/gmvalid/man/unix/gm.boot.coco.Rd | 52 +--- gmvalid-1.2/gmvalid/man/unix/gm.coco.Rd | 28 +- gmvalid-1.2/gmvalid/man/unix/gm.gms.Rd | 34 +- gmvalid-1.2/gmvalid/man/unix/gm.validation.Rd | 75 +++-- gmvalid-1.2/gmvalid/man/unix/gmvalid-package.Rd | 18 - gmvalid-1.2/gmvalid/man/windows/dp.Rd | 10 gmvalid-1.2/gmvalid/man/windows/gm.analysis.Rd | 16 - gmvalid-1.2/gmvalid/man/windows/gm.boot.coco.Rd | 47 +-- gmvalid-1.2/gmvalid/man/windows/gm.boot.mim.Rd | 59 ++-- gmvalid-1.2/gmvalid/man/windows/gm.coco.Rd | 29 +- gmvalid-1.2/gmvalid/man/windows/gm.cv.Rd | 22 - gmvalid-1.2/gmvalid/man/windows/gm.gms.Rd | 31 +- gmvalid-1.2/gmvalid/man/windows/gm.mim.Rd | 28 +- gmvalid-1.2/gmvalid/man/windows/gm.validation.Rd | 77 +++--- gmvalid-1.2/gmvalid/man/windows/gmvalid-package.Rd | 19 - 37 files changed, 631 insertions(+), 805 deletions(-)
Author: Roger D. Peng
Diff between filehash versions 2.0 dated 2008-08-26 and 2.0-1 dated 2008-12-21
Title: Simple key-value database
Description: Simple key-value database
DESCRIPTION | 6 +++---
R/filehash-DB1.R | 4 ++--
R/queue.R | 4 ++--
inst/doc/filehash.pdf |binary
tests/reg-tests.R | 11 +++++++++++
tests/reg-tests.Rout.save | 20 ++++++++++++++++----
tests/versions.Rout.save | 4 ++--
7 files changed, 36 insertions(+), 13 deletions(-)
Author: Sřren Hřjsgaard
Diff between doBy versions 3.6 dated 2008-10-15 and 3.7 dated 2008-12-21
Title: Groupwise computations of summary statistics and other utilities
Description: Facilities for groupwise computations of summary statistics and other facilities for working with grouped data (similar to what can be achieved by proc means or proc summary of the SAS system).
ChangeLog | 6
DESCRIPTION | 4
R/splitBy.R | 208 ++++++--
inst/doc/doBy.pdf | 1355 ++++++++++++++++++++++++++----------------------------
4 files changed, 837 insertions(+), 736 deletions(-)
Author: Rasmus E. Benestad
Diff between clim.pact versions 2.2-23 dated 2008-10-25 and 2.2-26 dated 2008-12-21
Title: Climate analysis and empirical-statistical downscaling (ESD) package for monthly and daily data.
Description: The package contains R functions for retrieving data, making climate analysis and downscaling of monthly mean and daily mean global climate scenarios. (Windows-users may need to obtain the 'ncdf' package from URL 'http://www.stats.ox.ac.uk/pub/RWin/' to get clim.pact to work). The package is also described in the book 'Empirical-Statistical Downscaling (http://www.worldscibooks.com/environsci/6908.html)
clim.pact-2.2-23/clim.pact/man/plotDSobj.Rd |only
clim.pact-2.2-26/clim.pact/DESCRIPTION | 6
clim.pact-2.2-26/clim.pact/R/DSpdf.exp.R | 11
clim.pact-2.2-26/clim.pact/R/distAB.R | 12 -
clim.pact-2.2-26/clim.pact/R/map.R | 2
clim.pact-2.2-26/clim.pact/R/map.eof.R | 9
clim.pact-2.2-26/clim.pact/R/mapField.R | 6
clim.pact-2.2-26/clim.pact/R/monthly.R | 8
clim.pact-2.2-26/clim.pact/R/objDS.R | 33 +-
clim.pact-2.2-26/clim.pact/R/plotEOF.R | 9
clim.pact-2.2-26/clim.pact/R/plotField.R | 2
clim.pact-2.2-26/clim.pact/R/plotStation.R | 7
clim.pact-2.2-26/clim.pact/R/retrieve.nc.R | 301 +++++++++++++-------------
clim.pact-2.2-26/clim.pact/R/satellite.R | 87 +++++++
clim.pact-2.2-26/clim.pact/man/DSpdf.exp.Rd | 13 -
clim.pact-2.2-26/clim.pact/man/objDS.Rd | 42 ++-
clim.pact-2.2-26/clim.pact/man/retrieve.nc.Rd | 9
clim.pact-2.2-26/clim.pact/man/satellite.Rd | 14 +
18 files changed, 367 insertions(+), 204 deletions(-)
Author: Roger D. Peng
Diff between cacher versions 0.2-1 dated 2008-04-29 and 1.0 dated 2008-12-21
Title: Tools for caching and distributing statistical analyses
Description: This package provides tools for caching statistical analyses in key-value databases which can subsequently be distributed over the web.
DESCRIPTION | 6 +++---
R/remote.R | 13 ++-----------
R/vizcache.R | 20 +++++++++++---------
inst/CITATION |only
inst/doc |only
inst/examples/faithful.R |only
inst/examples/faithful.csv |only
7 files changed, 16 insertions(+), 23 deletions(-)
Author: Carsten F. Dormann and Bernd Gruber, with additional code from Jochen Fruend, also based on C-code developed by Nils Bluethgen and by Miguel Rodriguez-Girones.
Title: Visualises bipartite networks and calculates some ecological indices.
Description: See bipartite-package for more details.
Diff between bipartite versions 0.74 dated 2008-10-25 and 0.8 dated 2008-12-21
bipartite-0.74/bipartite/.hg |only bipartite-0.74/bipartite/GOE_workshop.r |only bipartite-0.74/bipartite/Read-and-delete-me |only bipartite-0.74/bipartite/Wishlist.txt |only bipartite-0.74/bipartite/bipartite_C.score.r |only bipartite-0.74/bipartite/man/discrepancy.rd |only bipartite-0.8/bipartite/DESCRIPTION | 6 +-- bipartite-0.8/bipartite/R/H2fun.R | 1 bipartite-0.8/bipartite/R/networklevel.R | 44 +++++++++++++---------- bipartite-0.8/bipartite/R/shuffle.web.R | 2 - bipartite-0.8/bipartite/man/bipartite-package.Rd | 12 ++++-- bipartite-0.8/bipartite/man/discrepancy.Rd |only bipartite-0.8/bipartite/man/networklevel.Rd | 11 +++-- 13 files changed, 45 insertions(+), 31 deletions(-)
Author: John Fox
Diff between Rcmdr versions 1.4-5 dated 2008-11-10 and 1.4-6 dated 2008-12-21
Title: R Commander
Description:
A platform-independent basic-statistics GUI (graphical user interface) for R, based on the tcltk package.
DESCRIPTION | 8
NAMESPACE | 14
R/commander.R | 1507 +++++++++++++++++++++---------------------
R/data-menu.R | 3
R/distributions-menu.R | 2
R/model-menu.R | 2
R/statistics-means-menu.R | 233 +++---
R/statistics-models-menu.R | 45 -
R/statistics-summaries-menu.R | 6
R/utilities.R | 190 +++--
inst/CHANGES | 21
inst/etc/Rcmdr-menus.txt | 14
man/Commander.Rd | 6
man/Rcmdr-package.Rd | 4
man/Rcmdr.Utilities.Rd | 26
15 files changed, 1121 insertions(+), 960 deletions(-)
Author: Thomas Lumley, Achim Zeileis
Title: Robust Covariance Matrix Estimators
Description: Model-robust standard error estimators for cross-sectional,
time series and longitudinal data.
Diff between sandwich versions 2.1-0 dated 2008-01-26 and 2.2-0 dated 2008-12-19
sandwich-2.1-0/sandwich/inst/doc/sandwich-OOP.tex |only sandwich-2.2-0/sandwich/DESCRIPTION | 8 - sandwich-2.2-0/sandwich/NAMESPACE | 6 + sandwich-2.2-0/sandwich/NEWS | 12 ++ sandwich-2.2-0/sandwich/R/bread.R | 17 ++++ sandwich-2.2-0/sandwich/R/estfun.R | 26 ++++++ sandwich-2.2-0/sandwich/R/vcovHAC.R | 6 + sandwich-2.2-0/sandwich/R/vcovHC.R | 6 + sandwich-2.2-0/sandwich/inst/doc/hac.bib | 92 ++++++++++++++-------- sandwich-2.2-0/sandwich/inst/doc/sandwich-OOP.Rnw | 59 ++++++++------ sandwich-2.2-0/sandwich/inst/doc/sandwich-OOP.pdf |binary sandwich-2.2-0/sandwich/inst/doc/sandwich.Rnw | 31 +++++-- sandwich-2.2-0/sandwich/inst/doc/sandwich.pdf |binary sandwich-2.2-0/sandwich/man/NeweyWest.Rd | 4 sandwich-2.2-0/sandwich/man/bread.Rd | 3 sandwich-2.2-0/sandwich/man/estfun.Rd | 3 sandwich-2.2-0/sandwich/man/vcovHAC.Rd | 16 ++- sandwich-2.2-0/sandwich/man/vcovHC.Rd | 20 +++- sandwich-2.2-0/sandwich/man/weightsAndrews.Rd | 4 sandwich-2.2-0/sandwich/man/weightsLumley.Rd | 4 20 files changed, 228 insertions(+), 89 deletions(-)
Author: Yves Croissant
Diff between mlogit versions 0.1-1 dated 2008-08-27 and 0.1-2 dated 2008-12-19
Title: multinomial logit model
Description: Estimation of the multinomial logit model with choice specific variables
DESCRIPTION | 10 +-
NAMESPACE | 21 +----
R/logitform.R | 3
R/methods.mlogit.R | 20 ++---
R/mlogit.R | 196 +++++++++++++++++++++++++++++++++++++----------------
R/mlogit.test.R | 21 ++---
changelog | 8 --
data |only
man/Car.Rd |only
man/Catsup.Rd |only
man/Cracker.Rd |only
man/Fishing.Rd |only
man/HC.Rd |only
man/Heating.Rd |only
man/Ketchup.Rd |only
man/Mode.Rd |only
man/Train.Rd |only
man/Tuna.Rd |only
man/Yogurt.Rd |only
man/hmftest.Rd | 12 +--
man/mlogit.Rd | 15 ----
man/mlogit.data.Rd | 42 +++++------
22 files changed, 197 insertions(+), 151 deletions(-)
Author: S original by Trevor Hastie & Robert Tibshirani. R port by
Friedrich Leisch, Kurt Hornik and Brian D. Ripley.
Title: Mixture and flexible discriminant analysis
Description: Mixture and flexible discriminant analysis, multivariate
additive regression splines (MARS), BRUTO, ...
Diff between mda versions 0.3-2 dated 2006-10-04 and 0.3-3 dated 2008-12-19
ChangeLog | 10 ++++++++-- DESCRIPTION | 6 +++--- man/model.matrix.mars.Rd | 3 +-- 3 files changed, 12 insertions(+), 7 deletions(-)
Author: Madeleine Cule, Robert Gramacy, Richard Samworth
Title: Log-concave Density Estimation in Arbitrary Dimensions
Description: Computes a log-concave (maximum likelihood) estimator for i.i.d. data in any number of dimensions.
Diff between LogConcDEAD versions 1.3-0 dated 2008-12-13 and 1.3-1 dated 2008-12-19
LogConcDEAD-1.3-0/LogConcDEAD/.cvsignore |only LogConcDEAD-1.3-0/LogConcDEAD/qhull_out.txt |only LogConcDEAD-1.3-1/LogConcDEAD/ChangeLog | 1 + LogConcDEAD-1.3-1/LogConcDEAD/DESCRIPTION | 6 +++--- LogConcDEAD-1.3-1/LogConcDEAD/R/plot.LogConcDEAD.R | 9 ++++----- LogConcDEAD-1.3-1/LogConcDEAD/inst |only LogConcDEAD-1.3-1/LogConcDEAD/man/plot.LogConcDEAD.Rd | 4 +++- 7 files changed, 11 insertions(+), 9 deletions(-)
Author: Jari Oksanen, Roeland Kindt, Pierre Legendre, Bob O'Hara, Gavin L. Simpson,
Peter Solymos, M. Henry H. Stevens, Helene Wagner
Title: Community Ecology Package
Description: Ordination methods, diversity analysis and other
functions for community and vegetation ecologists.
Diff between vegan versions 1.15-0 dated 2008-09-30 and 1.15-1 dated 2008-12-19
vegan-1.15-0/vegan/inst/doc/.build.timestamp |only vegan-1.15-1/vegan/DESCRIPTION | 6 vegan-1.15-1/vegan/R/anova.betadisper.R | 3 vegan-1.15-1/vegan/R/betadisper.R | 35 vegan-1.15-1/vegan/R/fitted.radfit.R | 7 vegan-1.15-1/vegan/R/head.summary.cca.R |only vegan-1.15-1/vegan/R/nesteddisc.R | 6 vegan-1.15-1/vegan/R/ordiParseFormula.R | 10 vegan-1.15-1/vegan/R/permatfull.R | 4 vegan-1.15-1/vegan/R/permatswap.R | 1 vegan-1.15-1/vegan/R/permutest.betadisper.R | 3 vegan-1.15-1/vegan/R/plot.betadisper.R | 41 vegan-1.15-1/vegan/R/plot.cca.R | 6 vegan-1.15-1/vegan/R/plot.radfit.R | 4 vegan-1.15-1/vegan/R/plot.radfit.frame.R | 8 vegan-1.15-1/vegan/R/print.nesteddisc.R | 3 vegan-1.15-1/vegan/R/print.radfit.R | 4 vegan-1.15-1/vegan/R/rad.lognormal.R | 15 vegan-1.15-1/vegan/R/rad.null.R | 11 vegan-1.15-1/vegan/R/rad.preempt.R | 21 vegan-1.15-1/vegan/R/rad.zipf.R | 14 vegan-1.15-1/vegan/R/rad.zipfbrot.R | 16 vegan-1.15-1/vegan/R/radfit.data.frame.R | 2 vegan-1.15-1/vegan/R/radfit.default.R | 3 vegan-1.15-1/vegan/R/scores.betadisper.R | 19 vegan-1.15-1/vegan/R/text.decorana.R | 2 vegan-1.15-1/vegan/R/wcmdscale.R | 3 vegan-1.15-1/vegan/inst/ChangeLog | 33 vegan-1.15-1/vegan/inst/NEWS | 26 vegan-1.15-1/vegan/inst/doc/FAQ-vegan.pdf |binary vegan-1.15-1/vegan/inst/doc/decision-vegan.pdf | 2684 ++++++++++++++---------- vegan-1.15-1/vegan/inst/doc/decision-vegan.tex | 18 vegan-1.15-1/vegan/inst/doc/diversity-vegan.pdf |binary vegan-1.15-1/vegan/inst/doc/diversity-vegan.tex | 65 vegan-1.15-1/vegan/inst/doc/intro-vegan.pdf |binary vegan-1.15-1/vegan/inst/doc/intro-vegan.tex | 70 vegan-1.15-1/vegan/man/betadisper.Rd | 8 vegan-1.15-1/vegan/man/permCheck.Rd | 6 vegan-1.15-1/vegan/man/permatfull.Rd | 26 vegan-1.15-1/vegan/man/permuted.index2.Rd | 4 vegan-1.15-1/vegan/man/plot.cca.Rd | 19 vegan-1.15-1/vegan/man/tsallis.Rd | 3 vegan-1.15-1/vegan/man/varpart.Rd | 4 43 files changed, 1923 insertions(+), 1290 deletions(-)
Author: Robert Castelo
Diff between qp versions 0.2-1 dated 2006-12-21 and 0.3-1 dated 2008-12-19
Title: q-order partial correlation graph search algorithm
Description: This package is deprecated and it is now only a stub for the
newer version called qpgraph available through the Bioconductor
project. The q-order partial correlation graph search algorithm,
q-partial, or qp, algorithm for short, is a robust procedure for
structure learning of undirected Gaussian graphical Markov models
from "small n, large p" data, that is, multivariate normal data
coming from a number of random variables p larger than the number
of multidimensional data points n as in the case of, e.g.,
microarray data.
qp-0.2-1/qp/NAMESPACE |only
qp-0.2-1/qp/R/qp.R |only
qp-0.2-1/qp/cleanup |only
qp-0.2-1/qp/configure |only
qp-0.2-1/qp/configure.ac |only
qp-0.2-1/qp/man/qp.analyse.Rd |only
qp-0.2-1/qp/man/qp.ci.test.Rd |only
qp-0.2-1/qp/man/qp.clique.Rd |only
qp-0.2-1/qp/man/qp.edge.prob.Rd |only
qp-0.2-1/qp/man/qp.get.cliques.Rd |only
qp-0.2-1/qp/man/qp.graph.Rd |only
qp-0.2-1/qp/man/qp.hist.Rd |only
qp-0.2-1/qp/man/qp.matrix.image.Rd |only
qp-0.2-1/qp/man/qp.search.Rd |only
qp-0.2-1/qp/src |only
qp-0.2-1/qp/tools |only
qp-0.3-1/qp/DESCRIPTION | 22 ++++++++++--------
qp-0.3-1/qp/R/zzz.R |only
qp-0.3-1/qp/man/jmlr06data.Rd | 4 +--
qp-0.3-1/qp/man/qp.Rd | 44 ++++++++++++++++---------------------
20 files changed, 34 insertions(+), 36 deletions(-)
Author: Mark Stevenson
Diff between epiR versions 0.9-11 dated 2008-10-08 and 0.9-14 dated 2008-12-19
Title: Functions for analysing epidemiological data
Description: A package for analysing epidemiological data. Contains functions
for directly and indirectly adjusting measures of disease frequency,
quantifying measures of association on the basis of single or multiple
strata of count data presented in a contingency table, and computing
confidence intervals around incidence risk and incidence rate estimates.
Miscellaneous functions for use in meta-analysis, diagnostic test
interpretation, and sample size calculations.
epiR-0.9-11/epiR/R/epi.covpattern.R |only
epiR-0.9-11/epiR/man/epi.covpattern.Rd |only
epiR-0.9-14/epiR/DESCRIPTION | 6
epiR-0.9-14/epiR/R/epi.2by2.R | 9
epiR-0.9-14/epiR/R/epi.cp.R |only
epiR-0.9-14/epiR/R/epi.cpresids.r |only
epiR-0.9-14/epiR/R/epi.pooled.R |only
epiR-0.9-14/epiR/R/epi.prev.R | 42
epiR-0.9-14/epiR/doc/epiR.pdf | 7863 ++++++++++++++++---------------
epiR-0.9-14/epiR/man/epi.2by2.Rd | 2
epiR-0.9-14/epiR/man/epi.bohning.Rd | 2
epiR-0.9-14/epiR/man/epi.cluster1size.Rd | 18
epiR-0.9-14/epiR/man/epi.cluster2size.Rd | 13
epiR-0.9-14/epiR/man/epi.clustersize.Rd | 2
epiR-0.9-14/epiR/man/epi.cp.Rd |only
epiR-0.9-14/epiR/man/epi.cpresids.Rd |only
epiR-0.9-14/epiR/man/epi.empbayes.Rd | 2
epiR-0.9-14/epiR/man/epi.herdtest.Rd | 2
epiR-0.9-14/epiR/man/epi.indirectadj.Rd | 1
epiR-0.9-14/epiR/man/epi.insthaz.Rd | 2
epiR-0.9-14/epiR/man/epi.interaction.Rd | 3
epiR-0.9-14/epiR/man/epi.ltd.Rd | 2
epiR-0.9-14/epiR/man/epi.pooled.Rd |only
epiR-0.9-14/epiR/man/epi.popsize.Rd | 1
epiR-0.9-14/epiR/man/epi.prcc.Rd | 2
epiR-0.9-14/epiR/man/epi.prev.Rd | 17
epiR-0.9-14/epiR/man/epi.stratasize.Rd | 6
27 files changed, 4225 insertions(+), 3770 deletions(-)
Author: Thibaut Jombart
Diff between adegenet versions 1.2-1 dated 2008-08-01 and 1.2-2 dated 2008-12-19
Title: adegenet: a R package for the multivariate analysis of genetic markers.
Description: Classes and functions for genetic data analysis within the multivariate framework.
ChangeLog | 16 --
DESCRIPTION | 6 -
R/auxil.R | 137 +++++++++++++++-------
R/chooseCN.R | 48 ++++++--
R/colorplot.R |only
R/import.R | 125 +++++++++++---------
R/loadingplot.R |only
R/monmonier.R | 169 +++++++++++++++-------------
R/old2new.R | 2
R/scale.R | 24 +++-
R/spca.R | 288 ++++++++++++++++++++++++++++--------------------
TODO | 48 +++++++-
data/rupica.RData |only
man/accessors.Rd | 12 +-
man/adegenet.package.Rd | 2
man/auxil.Rd | 19 ++-
man/chooseCN.Rd | 11 +
man/colorplot.Rd |only
man/loadingplot.Rd |only
man/microbov.Rd | 4
man/monmonier.Rd | 4
man/read.structure.Rd | 2
man/rupica.Rd |only
man/scale.Rd | 4
man/spca.Rd | 55 +++++++--
man/spca.rtests.Rd | 2
man/spcaIllus.Rd | 11 +
misc |only
src/monmonier-utils.c | 20 +--
29 files changed, 634 insertions(+), 375 deletions(-)
Author: Bjoern Bornkamp, Jose Pinheiro and Frank Bretz
Title: Design and Analysis of Dose-Finding Studies
Description: This package implements a methodology for the design and analysis of
dose-response studies that combines aspects of multiple comparison procedures
and modeling approaches (Bretz, Pinheiro and Branson, 2005, Biometrics 61, 738-748).
The package provides tools for the analysis of dose finding trials as well as a variety
of tools necessary to plan a trial to be conducted with the MCPMod methodology.
Diff between MCPMod versions 0.1-5 dated 2008-11-17 and 0.2-1 dated 2008-12-19
ChangeLog | 30 ++++++++++++++++++++---------- DESCRIPTION | 10 +++++----- R/analysisMM.R | 15 ++++++++------- R/planMCPMod.R | 2 +- man/MCPMod-package.Rd | 4 ++-- man/MCPMod.Rd | 8 +++++++- man/getPars.Rd | 2 +- 7 files changed, 44 insertions(+), 27 deletions(-)
Author: Christine Porzelius, Harald Binder
Title: Parallelised Estimation of Prediction Error
Description: Package peperr is designed for prediction error estimation through resampling techniques, possibly accelerated by parallel execution on a compute cluster. Newly developed model fitting routines can be easily incorporated.
Diff between peperr versions 1.1 dated 2008-10-29 and 1.1-1 dated 2008-12-18
peperr-1.1-1/peperr/DESCRIPTION | 5 +--- peperr-1.1-1/peperr/R/aggregation.pmpec.R | 28 ++++++++++++------------ peperr-1.1-1/peperr/R/complexity.LASSO.R | 3 +- peperr-1.1-1/peperr/R/fit.LASSO.R | 2 + peperr-1.1-1/peperr/R/peperr.R | 31 +++++++++++++++++---------- peperr-1.1-1/peperr/R/plot.peperr.R | 20 +++++++++++++---- peperr-1.1-1/peperr/R/pmpec.R | 3 +- peperr-1.1-1/peperr/R/predictProb.CoxBoost.R | 7 +++++- peperr-1.1-1/peperr/changeLog | 5 ++++ peperr-1.1-1/peperr/man/peperr.Rd | 18 ++++++++++----- peperr-1.1-1/peperr/man/resample.indices.Rd | 4 +-- peperr-1.1/peperr/changeLog.backup |only peperr-1.1/peperr/peperr_1.0-3.tar.gz |only 13 files changed, 82 insertions(+), 44 deletions(-)
Author: L. Andries van der Ark
Diff between mokken versions 1.2 dated 2008-10-19 and 1.4 dated 2008-12-18
Title: Mokken Scale Analysis in R
Description: mokken contains functions for performing mokken
scale analysis on test and questionnaire data. It includes an automated
item selection algorithm, and various checks of model assumptions.
DESCRIPTION | 6 ++---
NAMESPACE | 2 -
R/check.iio.R |only
R/check.restscore.R | 22 ++++++++++++++++++-
man/acl.Rd | 24 ++++++++++-----------
man/check.iio.Rd |only
man/check.monotonicity.Rd | 5 ++--
man/check.pmatrix.Rd | 7 ++----
man/check.reliability.Rd | 6 ++---
man/check.restscore.Rd | 5 +---
man/coefH.Rd | 4 +--
man/coefZ.Rd | 7 ++----
man/mokken-package.Rd | 43 ++++++++++++++++++++-------------------
man/plot.monotonicity.class.Rd | 5 +---
man/plot.pmatrix.class.Rd | 5 +---
man/plot.restscore.class.Rd | 5 +---
man/search.normal.Rd | 4 ---
man/summary.monotonicity.cass.Rd | 5 +---
man/summary.pmatrix.class.Rd | 4 +--
man/summary.restscore.class.Rd | 5 +---
20 files changed, 88 insertions(+), 76 deletions(-)
Author: Arthur Allignol
Title: Empirical Transition Matrix
Description: Matrix of transition probabilities for any time-inhomogeneous multistate model with finite state space
Diff between etm versions 0.3-3 dated 2008-10-30 and 0.3-5 dated 2008-12-18
etm-0.3-3/etm/src/risk_set_etm.cc |only etm-0.3-5/etm/ChangeLog | 17 ++++ etm-0.3-5/etm/DESCRIPTION | 6 - etm-0.3-5/etm/NAMESPACE | 5 - etm-0.3-5/etm/R/etm.R | 129 +++++++++++++++--------------------- etm-0.3-5/etm/R/plot.etm.R | 66 ++++++++++-------- etm-0.3-5/etm/R/print.etm.R | 47 +++++++------ etm-0.3-5/etm/R/print.summary.etm.R |only etm-0.3-5/etm/R/summary.etm.R | 84 +++++++++++++---------- etm-0.3-5/etm/R/xyplot.etm.R | 61 ++++++++--------- etm-0.3-5/etm/man/etm.Rd | 6 - etm-0.3-5/etm/man/plot.etm.Rd | 39 ++++------ etm-0.3-5/etm/man/print.etm.Rd | 27 +++---- etm-0.3-5/etm/man/summary.etm.Rd |only etm-0.3-5/etm/src/cov_dna.c |only etm-0.3-5/etm/src/risk_set_etm.c |only 16 files changed, 254 insertions(+), 233 deletions(-)
Author: Hsin-ya Lee
Diff between bear versions 2.0.2 dated 2008-10-29 and 2.1.0 dated 2008-12-18
Title: Average bioequivalence and bioavailability data analysis tool
Description: An average bioequivalence (ABE) and bioavailability data analysis tool including sample size estimation, noncompartmental analysis (NCA) and ANOVA (lm) for a standard RT/TR 2-treatment, 2-sequence, 2-period, and cross-over design
DESCRIPTION | 8
R/ARS.r | 2
R/BANOVA.r | 450 +++++++++++++++++++++++++++++++++++++++------
R/BANOVAanalyze.r | 184 ++++++++++++++++++
R/BANOVAcsv.r | 18 -
R/BANOVAdata.r | 4
R/BANOVAoutput.r | 23 ++
R/BANOVAplot.r |only
R/NCA.r | 2
R/NCAoutput.r | 84 ++++----
R/NCAplot.r | 48 +---
R/TTT.r | 2
R/TTTAIC.r | 2
R/TTTARS.r | 2
R/aic.r | 2
R/demoBANOVA.r | 9
R/description_plot.r |only
R/description_version.r | 2
R/zzz.R | 2
man/BANOVAplot.rd |only
man/description_plot.rd |only
man/description_version.rd | 2
22 files changed, 688 insertions(+), 158 deletions(-)
Author: John Verzani
Title: Toolkit implementation of gWidgets for tcltk package
Description: Port of gWidgets API to the tcltk package. Requires TK 8.5 or greater for the tile (ttk)widgets http://www.tcl.tk/software/tcltk/8.5.tml. This is default on Windows. Under linux, it must be installed. Under Mac OS X (10.5) it must be upgraded. See www.tcl.tk to download source. Under the Mac it compiles and installs cleanly.
Diff between gWidgetstcltk versions 0.0-21 dated 2008-11-17 and 0.0-22 dated 2008-12-18
DESCRIPTION | 6 - NAMESPACE | 4 NEWS | 33 +++++++ R/aaaGenerics.R | 80 ++++++++++++------ R/aaaHandlers.R | 16 ++- R/aabClasses.R | 4 R/gaction.R | 14 ++- R/gbutton.R | 2 R/gcalendar.R | 30 +++++-- R/gcheckbox.R | 2 R/gcheckboxgroup.R | 22 ++++- R/gdialogs.R | 161 +++++++++++++++++++++++++++++++------- R/gdroplist.R | 19 +++- R/gedit.R | 2 R/gexpandgroup.R | 53 ++++++++---- R/gframe.R | 2 R/ggroup.R | 66 ++++++++++++++- R/gimage.R | 8 - R/glabel.R | 4 R/glayout.R | 14 ++- R/gmenu.R | 31 ++++--- R/gnotebook.R | 55 ++++++++---- R/gpanedgroup.R | 10 +- R/gradio.R | 12 +- R/gseparator.R | 16 +++ R/gslider.R | 13 +-- R/gspinbutton.R | 2 R/gstatusbar.R | 15 ++- R/gtable.R | 96 +++++++++++++--------- R/gtext.R | 85 ++++++++++++-------- R/gtoolbar.R | 33 +++++-- R/gtree.R | 11 +- R/gwindow.R | 150 +++++++++++++++++++++-------------- R/tcltkFuns.R | 2 R/zzz.R | 7 + inst |only man/gWidgetstcltk-package.Rd | 2 man/gWidgetstcltk-undocumented.Rd | 14 +++ tests/runRUnit.R |only 39 files changed, 785 insertions(+), 311 deletions(-)
Author: John Verzani
Title: Toolkit implementation of gWidgets for rJava
Description: Port of gWidgets API to the rJava interface between R and Java.
Diff between gWidgetsrJava versions 0.0-14 dated 2008-11-17 and 0.0-15 dated 2008-12-18
gWidgetsrJava-0.0-14/gWidgetsrJava/R/ghelp.R |only gWidgetsrJava-0.0-14/gWidgetsrJava/inst/images |only gWidgetsrJava-0.0-15/gWidgetsrJava/DESCRIPTION | 6 gWidgetsrJava-0.0-15/gWidgetsrJava/NAMESPACE | 20 +- gWidgetsrJava-0.0-15/gWidgetsrJava/R/gaction.R | 25 ++- gWidgetsrJava-0.0-15/gWidgetsrJava/R/gcalendar.R | 28 ++- gWidgetsrJava-0.0-15/gWidgetsrJava/R/gcheckboxgroup.R | 34 +++- gWidgetsrJava-0.0-15/gWidgetsrJava/R/gdialogs.R | 78 +++++++++- gWidgetsrJava-0.0-15/gWidgetsrJava/R/gdroplist.R | 4 gWidgetsrJava-0.0-15/gWidgetsrJava/R/gmenu.R | 6 gWidgetsrJava-0.0-15/gWidgetsrJava/R/gseparator.R | 5 gWidgetsrJava-0.0-15/gWidgetsrJava/R/gtext.R | 12 + gWidgetsrJava-0.0-15/gWidgetsrJava/R/gtoolbar.R | 4 gWidgetsrJava-0.0-15/gWidgetsrJava/R/gwindow.R | 2 gWidgetsrJava-0.0-15/gWidgetsrJava/R/icons.R | 18 +- gWidgetsrJava-0.0-15/gWidgetsrJava/R/rJavaStuff.R | 3 gWidgetsrJava-0.0-15/gWidgetsrJava/inst/java/gWidgetsrJava/gDialog.java | 5 gWidgetsrJava-0.0-15/gWidgetsrJava/man/gWidgetsrJava-undocumented.Rd | 33 +++- gWidgetsrJava-0.0-15/gWidgetsrJava/tests/runRUnit.R |only 19 files changed, 244 insertions(+), 39 deletions(-)
Author: Michael Lawrence, John Verzani
Title: Toolkit implementation of gWidgets for RGtk2
Description: Port of gWidgets API to RGtk2
Diff between gWidgetsRGtk2 versions 0.0-47 dated 2008-11-17 and 0.0-48 dated 2008-12-18
ChangeLog | 29 +++++++ DESCRIPTION | 6 - NAMESPACE | 18 ++-- NEWS | 8 ++ R/gaction.R | 19 +++- R/gbutton.R | 11 +- R/gcalendar.R | 29 ++++++- R/gcheckboxgroup.R | 22 ++++- R/gdialogs.R | 147 +++++++++++++++++++++++++++++++++++--- R/gedit.R | 8 ++ R/gmenu.R | 7 + R/gseparator.R | 5 + R/gtext.R | 21 +++++ R/gtoolbar.R | 6 + man/gWidgetsRGtk2-undocumented.Rd | 24 +++++- tests/runRUnit.R |only 16 files changed, 319 insertions(+), 41 deletions(-)
Author: John Verzani. Based on the iwidgets code of Simon Urbanek and suggestions by Simon Urbanek, Philippe Grosjean and Michael Lawrence
Title: gWidgets API for building toolkit-independent, interactive GUIs
Description: gWidgets provides a toolkit-independent API for building interactive GUIs. Atleast one of the gWidgetsXXX packages, such as gWidgetstcltk, needs to be installed. Some icons are on loan from the scigraphica project http://scigraphica.sourceforge.net.
Diff between gWidgets versions 0.0-31 dated 2008-11-17 and 0.0-32 dated 2008-12-18
ChangeLog | 14 DESCRIPTION | 4 NAMESPACE | 11 R/aaaGenerics.R | 82 ++ R/common.R | 11 R/gformlayout.R | 47 - R/ghelp.R | 55 + R/zzz.R | 4 TODO.txt | 15 inst/doc/addingToolkit.pdf |binary inst/doc/addingToolkit.pdf.r207 |only inst/doc/addingToolkit.pdf.r214 |only inst/doc/gWidgets.pdf | 1106 +++++++++++++++++++--------------------- inst/doc/gWidgets.pdf.mine |only inst/doc/gWidgets.pdf.r207 |only inst/doc/gWidgets.pdf.r214 |only inst/images/quit.gif |only inst/install |only inst/tests/ex-gwindow.R | 12 man/gWidgets-dialogs.Rd | 34 - man/gWidgets-methods.Rd | 16 man/gWidgets-package.Rd | 5 man/gcheckbox.Rd | 7 man/gcheckboxgroup.Rd |only man/gcombobox.Rd |only man/ghelp.Rd | 18 man/gmenu.Rd | 24 man/gradio.Rd | 56 -- man/gtext.Rd | 23 29 files changed, 836 insertions(+), 708 deletions(-)
Author: Eric Gilleland, Rick Katz, Greg Young
Title: Extreme value toolkit.
Description: Uses Stuart Coles' (Coles, Stewart, "An introduction to
statistical modeling of extreme values", Springer-Verlag, London 2001)
S-plus functions as ported to the R programming language (ismev) by Alec
Stephenson (http://www.maths.lancs.ac.uk/~stephena/). This toolkit provides
a Graphical User Interface (GUI) to ismev for pedagogical purposes.
Diff between extRemes versions 1.57 dated 2008-01-07 and 1.58 dated 2008-12-18
DESCRIPTION | 4 ++-- R/extremes.gui.R | 2 +- R/gevf.gui.R | 4 ++-- R/gpdf.gui.R | 4 ++-- R/ppfit.gui.R | 4 ++-- R/rlargf.gui.R | 4 ++-- R/zzz.R | 2 +- man/fpp.Rd | 5 +++-- 8 files changed, 15 insertions(+), 14 deletions(-)
Author: Lukasz Nieweglowski.
Diff between clv versions 0.2 dated 2008-05-16 and 0.3 dated 2008-12-18
Title: Cluster Validation Techniques
Description:
Package contains most of the popular internal and external cluster validation methods ready to use for the most of the outputs
produced by functions coming from package "cluster". Package contains also functions and examples of usage for cluster
stability approach that might be applied to algorithms implemented in "cluster" package as well as user defined clustering algorithms.
clv-0.2/clv/R/cluster_stability.R |only
clv-0.3/clv/DESCRIPTION | 8 +--
clv-0.3/clv/NAMESPACE | 5 +-
clv-0.3/clv/R/01_wrappers.R | 15 ++++++
clv-0.3/clv/R/02_constants.R | 19 +++++++
clv-0.3/clv/R/SD_SDbw_indicies.R | 6 +-
clv-0.3/clv/R/cluster_scatter.R | 4 -
clv-0.3/clv/R/cluster_stability_base.R |only
clv-0.3/clv/R/cluster_stability_main.R |only
clv-0.3/clv/R/cluster_stability_pred.R |only
clv-0.3/clv/R/cluster_stability_usr.R |only
clv-0.3/clv/R/connectivity.R | 4 -
clv-0.3/clv/R/dot_product.R | 6 +-
clv-0.3/clv/R/internals.R | 40 ++++++++++++++--
clv-0.3/clv/R/matrix_scatter_measures.R | 2
clv-0.3/clv/R/similarity_index.R | 21 +++++---
clv-0.3/clv/R/standard_external_measures.R | 8 +--
clv-0.3/clv/README | 16 +++++-
clv-0.3/clv/man/Dis.Rd | 2
clv-0.3/clv/man/cluster_attrib.Rd | 2
clv-0.3/clv/man/cluster_scatter.Rd | 14 ++---
clv-0.3/clv/man/cluster_stability.Rd | 62 +++++++++++++-------------
clv-0.3/clv/man/cluster_stability_usr.Rd |only
clv-0.3/clv/man/standard_external_measures.Rd | 8 +--
clv-0.3/clv/man/wcls_bcls_matrices.Rd | 4 -
25 files changed, 166 insertions(+), 80 deletions(-)
Author: Jake Bowers
Diff between RItools versions 0.1-3 dated 2008-10-07 and 0.1-4 dated 2008-12-18
Title: Randomization inference tools
Description: Tools for randomization inference.
DESCRIPTION | 6 ++---
R/naImpute.R | 70 +++++++++++++++++++++++++++++++----------------------------
2 files changed, 40 insertions(+), 36 deletions(-)
Author: Jan de Leeuw, Patrick Mair
Title: smacof for Multidimensional Scaling.
Description: This package provides the following approaches of multidimensional scaling (MDS) based on stress minimization by means of majorization (smacof): Simple smacof on symmetric dissimilarity matrices, smacof for rectangular matrices (unfolding models), smacof with constraints on the configuration, three-way smacof for individual differences (including constraints for idioscal, indscal, and identity), and spherical smacof (primal and dual algorithm). Each of these approaches is implemented in a metric and nonmetric manner including primary, secondary, and tertiary approaches for tie handling.
Diff between smacof versions 0.9-1 dated 2008-12-13 and 0.9-2 dated 2008-12-17
DESCRIPTION | 25 ++++++++++++------------- R/smacofIndDiff.R | 12 ++++++------ man/ekman.Rd | 5 ++++- 3 files changed, 22 insertions(+), 20 deletions(-)
Author: Jerome Sueur
Diff between seewave versions 1.5.0 dated 2008-09-28 and 1.5.1 dated 2008-12-17
Title: Time wave analysis and graphical representation
Description: seewave provides functions for analysing, manipulating, displaying, editing and synthesizing time waves (particularly sound). This package processes time analysis (oscillograms and envelopes), spectral content, resonance quality factor, entropy, cross correlation and autocorrelation, zero-crossing, dominant frequency, analytic signal, frequency coherence, 2D and 3D spectrograms and many other analyses.
DESCRIPTION | 10
R/seewave.r | 706 +++++++++++++++++++++++++++++++-----------------
R/zzz.r | 2
demo/seewave.R | 3
inst/CITATION | 4
inst/doc |only
man/H.Rd | 9
man/addsilw.Rd | 9
man/afilter.Rd | 10
man/ama.Rd | 21 -
man/autoc.Rd | 9
man/ccoh.Rd | 16 -
man/ceps.Rd | 13
man/cepstro.Rd | 10
man/coh.Rd | 16 -
man/convSPL.Rd | 5
man/corenv.Rd | 17 -
man/covspectro.Rd | 16 -
man/csh.Rd | 9
man/cutspec.Rd |only
man/cutw.Rd | 10
man/deletew.Rd | 10
man/dfreq.Rd | 10
man/diffenv.Rd | 20 -
man/diffspec.Rd | 6
man/diffwave.Rd | 20 -
man/discrets.Rd |only
man/drawenv.Rd | 11
man/dynspec.rd | 10
man/echo.rd | 9
man/env.Rd | 13
man/export.Rd | 18 -
man/fadew.rd | 9
man/ffilter.Rd | 9
man/fir.Rd | 9
man/fma.Rd |only
man/fund.Rd | 9
man/hilbert.Rd | 13
man/ifreq.Rd | 11
man/lfs.Rd | 9
man/listen.Rd | 11
man/meanspec.Rd | 21 -
man/mel.Rd | 16 -
man/micsens.Rd |only
man/mutew.Rd | 9
man/noise.Rd | 7
man/oscillo.Rd | 9
man/oscilloST.Rd | 19 -
man/pastew.Rd | 16 -
man/repw.rd | 10
man/resamp.Rd | 9
man/revw.Rd | 9
man/rmam.Rd | 9
man/rmoffset.Rd | 9
man/savewav.Rd | 9
man/seewave.internal.rd | 1
man/seewave.package.Rd | 4
man/setenv.rd | 17 -
man/spec.Rd | 21 -
man/specprop.Rd | 7
man/spectro.Rd | 10
man/spectro3D.Rd | 10
man/symba.Rd |only
man/th.Rd | 2
man/timer.Rd | 10
man/zapsilw.rd | 9
man/zc.rd | 10
67 files changed, 814 insertions(+), 541 deletions(-)
Author: Aaron A. King
Diff between ouch versions 2.4-2 dated 2008-09-12 and 2.5-1 dated 2008-12-17
Title: Ornstein-Uhlenbeck models for phylogenetic comparative hypotheses
Description: Fit and compare Ornstein-Uhlenbeck models for evolution along a phylogenetic tree.
DESCRIPTION | 7 ++++---
R/hansen.R | 23 ++++++++++++++---------
inst/CITATION | 4 ++--
inst/ChangeLog | 17 +++++++++++++++++
4 files changed, 37 insertions(+), 14 deletions(-)
Author: Sřren Hřjsgaard
Diff between gRbase versions 0.6.4 dated 2008-12-04 and 0.6.6 dated 2008-12-17
Title: A package for graphical modelling in R
Description: This package defines S3-classes gmData (graphical meta data), gModel (graphical model). Several other graphical modelling packages rely on these fundamental constructs. gRbase illustrates how hierarchical log-linear models (hllm) may be implemented.
ChangeLog | 18 ++++++++++++++++++
DESCRIPTION | 4 ++--
INDEX | 3 ++-
R/GraphSH2.R | 13 ++++++-------
R/Graphsh-mcs-moral-rip.R | 24 ++++++++++++++----------
R/Graphsh-querygSH2.R | 46 ++++++++++++++++++++++++++++++++--------------
R/TabOpArray.R | 5 ++---
R/utilities.R | 13 -------------
R/utility.R | 11 +++++++++--
inst/doc/.build.timestamp |only
inst/doc/.timestamp |only
inst/doc/gRbase.pdf |binary
man/cov2pcor.Rd |only
man/graph-operations1.Rd | 3 +--
man/newUG.Rd | 17 +++--------------
man/ptable.Rd | 7 ++-----
man/querygraph.Rd | 3 ++-
man/triangulate.Rd | 4 ++--
18 files changed, 95 insertions(+), 76 deletions(-)
Author: Sřren Hřjsgaard
Diff between gRain versions 0.4.1 dated 2008-12-04 and 0.5.0 dated 2008-12-17
Title: Graphical Independence Networks
Description: A package for probability propagation in graphical independence networks, also known as probabilistic expert systems (which includes Bayesian networks as a special case).
gRain-0.4.1/gRain/R/gmInstance.R |only
gRain-0.4.1/gRain/man/gRain.Rd |only
gRain-0.4.1/gRain/man/gmInstance.Rd |only
gRain-0.5.0/gRain/DESCRIPTION | 4
gRain-0.5.0/gRain/INDEX | 9 +-
gRain-0.5.0/gRain/NAMESPACE | 114 ++++++++-------------------
gRain-0.5.0/gRain/R/Evidence.R | 50 ++++++-----
gRain-0.5.0/gRain/R/Generics.R |only
gRain-0.5.0/gRain/R/SimulateArray.R | 8 +
gRain-0.5.0/gRain/R/asxxx.R | 75 +----------------
gRain-0.5.0/gRain/R/compile-grain.R |only
gRain-0.5.0/gRain/R/cpt.R | 19 +---
gRain-0.5.0/gRain/R/display.R | 25 +++--
gRain-0.5.0/gRain/R/grain-main.R |only
gRain-0.5.0/gRain/R/methods.R |only
gRain-0.5.0/gRain/R/potentialList.R | 4
gRain-0.5.0/gRain/R/predict.R | 14 +--
gRain-0.5.0/gRain/R/propagate.R | 18 +---
gRain-0.5.0/gRain/R/querygm.R | 13 +--
gRain-0.5.0/gRain/R/summary.R | 6 -
gRain-0.5.0/gRain/R/utilities.R | 80 ++++++------------
gRain-0.5.0/gRain/inst/doc/.build.timestamp |only
gRain-0.5.0/gRain/inst/doc/gRain-intro.Rnw | 4
gRain-0.5.0/gRain/inst/doc/gRain-intro.pdf |binary
gRain-0.5.0/gRain/man/compile.grain.Rd |only
gRain-0.5.0/gRain/man/gRain-package.Rd |only
gRain-0.5.0/gRain/man/grain.Rd |only
gRain-0.5.0/gRain/man/internal-gRain.Rd | 31 -------
gRain-0.5.0/gRain/man/loadSaveHuginNet.Rd | 10 +-
gRain-0.5.0/gRain/man/predict.Rd | 14 +--
gRain-0.5.0/gRain/man/propagate.compgrain.Rd |only
gRain-0.5.0/gRain/man/querygm.Rd | 42 ++++-----
gRain-0.5.0/gRain/man/simulate.Rd | 10 +-
33 files changed, 196 insertions(+), 354 deletions(-)
Author: Felipe de Mendiburu
Title: Statistical Procedures for Agricultural Research
Description: Agricolae is a project in order to obtain the degree of master in Systems Engineering in the National University of Engineering in Lima-Peru (UNI in Spanish). These functions are currently utilized by the International Potato Center Research (CIP), the Universidad Nacional Agraria La Molina (UNALM-PERU), and the Instituto Nacional de Investigacion Agricola (INIA-PERU). It comprises the functionality of statistical analysis into experimental designs applied specially for field experiments in agriculture and plant breeding: Lattice, factorial, complete and incomplete block, Latin Square, Greaco, Alpha designs, Cyclic designs, comparison of multi-location trials, comparison between treatments, resampling, simulation, biodiversity indexes and consensus cluster.
Diff between agricolae versions 1.0-5 dated 2008-07-28 and 1.0-6 dated 2008-12-17
DESCRIPTION | 6 ++-- R/index.bio.R | 4 +- R/stability.par.R | 69 +++++++++++++++++++---------------------------- data/CIC.rda |binary data/Chz2006.rda |binary data/ComasOxapampa.rda |binary data/DC.rda |binary data/Glycoalkaloids.rda |binary data/Hco2006.rda |binary data/LxT.rda |binary data/RioChillon.rda |binary data/clay.rda |binary data/corn.rda |binary data/cotton.rda |binary data/disease.rda |binary data/frijol.rda |binary data/genxenv.rda |binary data/grass.rda |binary data/greenhouse.rda |binary data/growth.rda |binary data/haynes.rda |binary data/heterosis.rda |binary data/huasahuasi.rda |binary data/markers.rda |binary data/melon.rda |binary data/natives.rda |binary data/pamCIP.rda |binary data/paracsho.rda |binary data/plots.rda |binary data/plrv.rda |binary data/potato.rda |binary data/ralstonia.rda |binary data/rice.rda |binary data/sinRepAmmi.rda |binary data/soil.rda |binary data/sweetpotato.rda |binary data/wilt.rda |binary data/yacon.rda |binary man/Chz2006.Rd | 9 ++++++ man/Hco2006.Rd | 9 ++++++ man/agricolae.package.Rd | 4 +- man/index.bio.Rd | 40 +++++++++++---------------- man/plots.Rd | 21 ++++++++++++++ man/resampling.cv.Rd | 1 man/resampling.model.Rd | 1 man/stability.par.Rd | 45 ++++++++++++++++++++---------- 46 files changed, 123 insertions(+), 86 deletions(-)
Author: Adrian Baddeley
Diff between spatstat versions 1.14-8 dated 2008-12-10 and 1.14-9 dated 2008-12-17
Title: Spatial Point Pattern analysis, model-fitting, simulation, tests
Description: A package for analysing spatial data,
mainly Spatial Point Patterns, including multitype/marked points
and spatial covariates, in any two-dimensional spatial region.
Contains functions for plotting spatial data,
exploratory data analysis, model-fitting, simulation,
spatial sampling, model diagnostics,
and formal inference. Data types include point patterns,
line segment patterns, spatial windows, and
pixel images. Point process models can be
fitted to point pattern data. Cluster type models are fitted
by the method of minimum contrast. Very general Gibbs point
process models can be fitted to point pattern data
using a function ppm similar to lm or glm. Models may
include dependence on covariates, interpoint interaction
and dependence on marks. Fitted models can be simulated automatically.
Also provides facilities for formal inference (such as chi-squared
tests) and model diagnostics (including simulation
envelopes, residuals, residual plots and Q-Q plots).
DESCRIPTION | 6 +++---
R/density.ppp.R | 8 ++------
R/morishita.R | 7 +++----
R/plot.im.R | 23 +++++++++++++++++------
man/00spatstat.Rd | 31 +++++++++++++++----------------
man/miplot.Rd | 11 +++++++++++
6 files changed, 51 insertions(+), 35 deletions(-)
Author: S original by David James
Diff between chron versions 2.3-26 dated 2008-12-14 and 2.3-27 dated 2008-12-17
Title: Chronological objects which can handle dates and times
Description: Chronological objects which can handle dates and times
ChangeLog | 7 +++++++
DESCRIPTION | 6 +++---
NAMESPACE | 16 ++++++++--------
3 files changed, 18 insertions(+), 11 deletions(-)
Author: Andrej-Nikolai Spiess
Diff between qpcR versions 1.1-5 dated 2008-08-20 and 1.1-7 dated 2008-12-16
Title: Modelling and analysis of real-time PCR data
Description: Model fitting, optimal model selection and calculation of various features that are essential in the analysis of quantitative real-time polymerase chain reaction (qPCR).
DESCRIPTION | 6 ++--
NAMESPACE | 2 -
R/Cy0.R |only
R/confband.R | 4 +--
R/curvemean.R | 25 ++++++++++---------
R/efficiency.R | 36 ++++++++++++++++++---------
R/expfit.R | 2 -
R/maxRatio.r |only
R/modlist.R | 44 +++++++++++++++++++++++----------
R/pcrbatch.R | 70 +++++++++++++++++++++++++++++++++++++++---------------
R/residplot.R | 2 -
man/Cy0.rd |only
man/curvemean.Rd | 9 ++++--
man/efficiency.Rd | 15 +++++++++--
man/maxRatio.rd |only
man/mchoice.Rd | 4 ++-
man/modlist.Rd | 18 +++++++------
man/pcrbatch.Rd | 32 ++++++++++++++++--------
man/qpcR.Rd | 9 ++++--
man/ratiocalc.Rd | 6 +---
man/ratioplot.Rd | 2 -
21 files changed, 189 insertions(+), 97 deletions(-)
Author: Harald Binder
Diff between GAMBoost versions 0.9-3 dated 2006-10-02 and 1.0 dated 2008-12-16
Title: Generalized linear and additive models by likelihood based boosting
Description: This package provides routines for fitting generalized linear and and generalized additive models by likelihood based boosting, using penalized B-splines
DESCRIPTION | 11 +
NAMESPACE | 5
R/GAMBoost.R | 254 ++++++++++++++++++++++++++++++--------------
R/GLMBoost.R |only
changeLog | 20 +++
man/GAMBoost.Rd | 10 -
man/GLMBoost.Rd |only
man/cv.GAMBoost.Rd | 12 +-
man/cv.GLMBoost.Rd |only
man/optimGAMBoostPenalty.Rd | 12 +-
man/optimGLMBoostPenalty.Rd |only
man/plot.GAMBoost.Rd | 4
man/predict.GAMBoost.Rd | 4
man/predict.GLMBoost.Rd |only
src |only
15 files changed, 228 insertions(+), 104 deletions(-)
Author: Bernhard Pfaff
Title: VAR Modelling
Description: Estimation, lag selection, diagnostic testing, forecasting, causality analysis, forecast error variance decomposition and impulse response functions of VAR models and estimation of SVAR/SVEC models.
Diff between vars versions 1.4-1 dated 2008-11-29 and 1.4-2 dated 2008-12-16
DESCRIPTION | 8 ++++---- R/plot.varest.R | 2 +- inst/ChangeLog | 4 ++++ inst/doc/vars.pdf |binary 4 files changed, 9 insertions(+), 5 deletions(-)
Author: Rob J Hyndman
Diff between forecasting versions 1.20 dated 2008-12-14 and 1.21 dated 2008-12-16
Bundle: forecasting
Contains: forecast fma Mcomp expsmooth
DESCRIPTION | 6 +-
forecast/NAMESPACE | 1
forecast/R/arima.R | 126 +++++++++++++++++++++++++++++++++++--------------
forecast/R/newarima2.R | 8 ++-
4 files changed, 103 insertions(+), 38 deletions(-)
Author: Andrew Parnell and Andrew Jackson
Title: Stable Isotope Analysis in R
Description: This package takes data on organism isotopes and fits a Bayesian model to their dietary habits based upon a Gaussian likelihood with a mixture dirichlet-distributed prior on the mean. Latest version (4.0) includes the feature to add in concentration dependence. See siardemo() for an example.
Diff between siar versions 3.3 dated 2008-08-08 and 4.0 dated 2008-12-16
siar-3.3/siar/R/siaraddcross.r |only siar-3.3/siar/R/siarmcmcdirichlet.R |only siar-3.3/siar/R/siarplotdata.r |only siar-3.3/siar/R/siarplotdatawrapper.r |only siar-3.3/siar/R/siarplottarget.r |only siar-3.3/siar/R/siarproportionbygroupplot.r |only siar-3.3/siar/R/siarsolomcmc.r |only siar-3.3/siar/R/siarsolomultigrouprun.r |only siar-3.3/siar/R/siarsolosinglegrouprun.r |only siar-3.3/siar/Read-and-delete-me |only siar-3.3/siar/man/siarmcmcdirichlet.Rd |only siar-3.3/siar/man/siarproportionbygroupplot.rd |only siar-3.3/siar/man/siarsolomcmc.Rd |only siar-3.3/siar/src/siarmcmcv3.c |only siar-3.3/siar/src/siarsolomcmcv3.c |only siar-4.0/siar/DESCRIPTION | 10 ++-- siar-4.0/siar/NAMESPACE | 2 siar-4.0/siar/R/concdepdemo.R |only siar-4.0/siar/R/siaraddcross.R |only siar-4.0/siar/R/siardemo.R | 18 +++++--- siar-4.0/siar/R/siarelicit.r | 6 +- siar-4.0/siar/R/siarloaddata.R | 52 +++++++++++++++++++++++- siar-4.0/siar/R/siarmcmcdirichletv4.R |only siar-4.0/siar/R/siarmenu.R | 10 ++-- siar-4.0/siar/R/siarmultigrouprun.R | 4 - siar-4.0/siar/R/siarplotdata.R |only siar-4.0/siar/R/siarplotdatawrapper.R |only siar-4.0/siar/R/siarplottarget.R |only siar-4.0/siar/R/siarproportionbygroupplot.R |only siar-4.0/siar/R/siarproportionbysourceplot.R | 11 ++--- siar-4.0/siar/R/siarsinglegrouprun.R | 4 - siar-4.0/siar/R/siarsolomcmcv4.R |only siar-4.0/siar/R/siarsolomultigrouprun.R |only siar-4.0/siar/R/siarsolosinglegrouprun.R |only siar-4.0/siar/data/allgroups.rda |only siar-4.0/siar/data/concdepdemo.rda |only siar-4.0/siar/data/concdepdemo.txt |only siar-4.0/siar/data/correctionsdemo.rda |only siar-4.0/siar/data/geese1demo.rda |only siar-4.0/siar/data/geese2demo.rda |only siar-4.0/siar/data/sourcesdemo.rda |only siar-4.0/siar/man/concdepdemo.Rd |only siar-4.0/siar/man/siar-package.Rd | 4 - siar-4.0/siar/man/siarelicit.Rd | 2 siar-4.0/siar/man/siarmcmcdirichletv4.Rd |only siar-4.0/siar/man/siarmenu.Rd | 2 siar-4.0/siar/man/siarproportionbygroupplot.Rd |only siar-4.0/siar/man/siarproportionbysourceplot.Rd | 4 - siar-4.0/siar/man/siarsolomcmcv4.Rd |only siar-4.0/siar/src/siarmcmcv4.c |only siar-4.0/siar/src/siarsolomcmcv4.c |only 51 files changed, 93 insertions(+), 36 deletions(-)
Author: Patrick Mair, Marcus Hudec
Title: Mixtures of proportional hazard models.
Description: This package fits multiple variable mixtures of various parametric proportional hazard models using the EM-Algorithm. Proportionality restrictions can be imposed on the latent groups and/or on the variables. Several survival distributions can be specified. Missing values and censored values are allowed. Independence is assumed over the single variables.
Diff between mixPHM versions 0.6.2 dated 2008-07-05 and 0.7.0 dated 2008-12-16
DESCRIPTION | 8 ++++---- R/Eclass.R | 14 ++++++-------- R/Mclass.R | 3 ++- R/phmclust.R | 6 ++---- R/s.check.R | 15 ++++----------- man/mixPHM-package.Rd | 12 ++++++------ man/phmclust.Rd | 11 ++++++----- 7 files changed, 30 insertions(+), 39 deletions(-)
Author: Chun-Ying Lee, Yung-Jin Lee
Diff between PKfit versions 1.1.5 dated 2007-05-21 and 1.1.6 dated 2008-12-16
Title: A Data Analysis Tool for Pharmacokinetics
Description: PKfit is a nonlinear regression (including a genetic algorithm) program which was designed to perform model/curve fitting and model simulations for pharmacokinetics.
PKfit-1.1.5/PKfit/man/check.Rd |only
PKfit-1.1.6/PKfit/DESCRIPTION | 10
PKfit-1.1.6/PKfit/R/PKmenu.R | 40 --
PKfit-1.1.6/PKfit/R/extravascular-f.R | 505 +++++++++++++++++++++++++++----
PKfit-1.1.6/PKfit/R/extravascular-z.R | 246 ++++++++++++++-
PKfit-1.1.6/PKfit/R/infusion.R | 209 ++++++++++++-
PKfit-1.1.6/PKfit/R/iv.R | 256 ++++++++++++++--
PKfit-1.1.6/PKfit/R/macroconstant.R | 509 ++++++++++++++++++++++++++++++--
PKfit-1.1.6/PKfit/R/two.R | 537 ++++++++++++++++++++++++++++++++--
PKfit-1.1.6/PKfit/demo/iv.bolus.R | 2
PKfit-1.1.6/PKfit/demo/mcsim.R | 2
PKfit-1.1.6/PKfit/demo/mmpk.R | 2
12 files changed, 2107 insertions(+), 211 deletions(-)
Author: Yves Tillé
Diff between sampling versions 2.0 dated 2008-06-20 and 2.1 dated 2008-12-15
Title: Survey Sampling
Description: Functions for drawing and calibrating samples.
sampling-2.0/sampling/inst/doc/Rplots.ps |only
sampling-2.0/sampling/inst/doc/UPexamples.aux |only
sampling-2.0/sampling/inst/doc/UPexamples.log |only
sampling-2.0/sampling/inst/doc/UPexamples.tex |only
sampling-2.0/sampling/inst/doc/calibration.aux |only
sampling-2.0/sampling/inst/doc/calibration.log |only
sampling-2.0/sampling/inst/doc/calibration.tex |only
sampling-2.1/sampling/DESCRIPTION | 8
sampling-2.1/sampling/R/UPbrewer.R | 3
sampling-2.1/sampling/R/UPmaxentropy.R | 3
sampling-2.1/sampling/R/UPpoisson.R | 3
sampling-2.1/sampling/R/UPsampford.R | 3
sampling-2.1/sampling/R/UPsystematic.R | 3
sampling-2.1/sampling/R/UPsystematicpi2.R | 3
sampling-2.1/sampling/R/UPtille.R | 3
sampling-2.1/sampling/R/UPtillepi2.R | 3
sampling-2.1/sampling/R/as_int.r |only
sampling-2.1/sampling/R/calib.r | 6
sampling-2.1/sampling/R/calibev.r | 1
sampling-2.1/sampling/inst/doc/Rplots.pdf | 269 +++++++++++++------------
sampling-2.1/sampling/inst/doc/UPexamples.Snw | 21 +
sampling-2.1/sampling/inst/doc/UPexamples.pdf |binary
sampling-2.1/sampling/inst/doc/calibration.pdf |binary
sampling-2.1/sampling/man/mstage.Rd | 2
sampling-2.1/sampling/man/regest.Rd | 2
sampling-2.1/sampling/man/regest_strata.Rd | 2
26 files changed, 181 insertions(+), 154 deletions(-)
Author: Sarah Goslee and Dean Urban
Title: Dissimilarity-based functions for ecological analysis
Description: Dissimilarity-based analysis functions including ordination and Mantel test functions, intended for use with spatial and community data.
Diff between ecodist versions 1.2.1 dated 2008-09-10 and 1.2.2 dated 2008-12-15
DESCRIPTION | 6 +++--- R/distance.R | 3 ++- man/distance.Rd | 5 ++++- 3 files changed, 9 insertions(+), 5 deletions(-)
Author: Dimitris Rizopoulos
Diff between ltm versions 0.8-7 dated 2008-11-17 and 0.8-8 dated 2008-12-15
Title: Latent Trait Models under IRT
Description: Analysis of multivariate dichotomous and polytomous data using latent trait models under the Item Response Theory approach. It includes the Rasch, the Two-Parameter Logistic, the Birnbaum's Three-Parameter, and the Graded Response Models.
DESCRIPTION | 6 +++---
R/grm.R | 1 +
R/onAttach.R | 2 +-
inst/NEWS | 9 +++++++++
man/ltm-package.Rd | 4 ++--
5 files changed, 16 insertions(+), 6 deletions(-)
Author: Dimitris Rizopoulos
Diff between bootStepAIC versions 1.1-0 dated 2008-09-15 and 1.1-1 dated 2008-12-15
Title: Bootstrap stepAIC
Description: Model selection by bootstrapping the stepAIC() procedure.
DESCRIPTION | 6 +++---
R/boot.stepAIC.R | 15 ++++++++-------
2 files changed, 11 insertions(+), 10 deletions(-)
Author: Dimitris Rizopoulos
Diff between JM versions 0.2-1 dated 2008-09-15 and 0.2-2 dated 2008-12-15
Title: Joint Modelling of Longitudinal and Survival Data
Description: Shared parameter models for the joint modelling of longitudinal and time-to-event data.
JM-0.2-1/JM/R/onAttach.R |only
JM-0.2-1/JM/R/onLoad.R |only
JM-0.2-2/JM/DESCRIPTION | 6 +++---
JM-0.2-2/JM/R/posterior.b.R | 21 +--------------------
JM-0.2-2/JM/data/aids.id.rda |binary
JM-0.2-2/JM/data/aids.rda |binary
JM-0.2-2/JM/data/pbc2.id.rda |binary
JM-0.2-2/JM/data/pbc2.rda |binary
JM-0.2-2/JM/man/JM.Rd | 8 ++++----
JM-0.2-2/JM/man/jointModel.Rd | 4 ++--
10 files changed, 10 insertions(+), 29 deletions(-)
Author: Scott Payseur
Diff between realized versions 0.8 dated 2007-11-17 and 0.81 dated 2008-12-15
Title: Realized
Description: Realized Variance Toolkit
DESCRIPTION | 10 +++++-----
R/realized.R | 14 ++++++++++----
inst/LICENCE | 2 +-
inst/RELEASENOTES.txt |only
src/realized.c | 2 +-
5 files changed, 17 insertions(+), 11 deletions(-)
Author: G. Grothendieck
Title: Utilities for strings and function arguments.
Description: gsubfn is like gsub but can take a replacement function
or certain other objects instead of the replacement string.
Matches and back references are input to the replacement function and
replaced by the function output. gsubfn can be used to split strings
based on content rather than delimiters and for quasi-perl-style string
interpolation. The package also has facilities for translating formulas
to functions and allowing such formulas in function calls instead of
functions. This can be used with R functions such as apply, sapply,
lapply, optim, integrate, xyplot, Filter and any other function that
expects another function as an input argument or functions like cat
or sql calls that may involve strings where substitution is desirable.
Diff between gsubfn versions 0.3-7 dated 2008-10-17 and 0.3-8 dated 2008-12-15
gsubfn-0.3-7/gsubfn/inst/doc/.build.timestamp |only gsubfn-0.3-8/gsubfn/DESCRIPTION | 29 gsubfn-0.3-8/gsubfn/R/fn.R | 24 gsubfn-0.3-8/gsubfn/R/gsubfn.R | 40 gsubfn-0.3-8/gsubfn/inst/NEWS | 11 gsubfn-0.3-8/gsubfn/inst/WISHLIST | 3 gsubfn-0.3-8/gsubfn/inst/doc/Rplots.pdf | 1978 ++++++++++++++++++++--- gsubfn-0.3-8/gsubfn/inst/doc/gsubfn.pdf | 2214 ++++++++++++++++++-------- gsubfn-0.3-8/gsubfn/man/gsubfn-package.Rd | 9 gsubfn-0.3-8/gsubfn/man/gsubfn.Rd | 27 gsubfn-0.3-8/gsubfn/man/match.funfn.Rd | 10 gsubfn-0.3-8/gsubfn/man/strapply.Rd | 6 12 files changed, 3443 insertions(+), 908 deletions(-)
Author: Stephen Gardiner
Title: Quality Control for Graphics in R
Description: The package provides functions to generate
graphics files, compare them with ``model'' files,
and report the results.
Diff between graphicsQC versions 1.0 dated 2008-12-11 and 1.0-1 dated 2008-12-15
DESCRIPTION | 4 ++-- R/compare.R | 28 +++++++++++++++++----------- 2 files changed, 19 insertions(+), 13 deletions(-)
Author: Daniel Chessel, Anne-Beatrice Dufour
Diff between ade4 versions 1.4-9 dated 2008-05-25 and 1.4-10 dated 2008-12-15
Title: Analysis of Ecological Data : Exploratory and Euclidean methods in Environmental sciences
Description: Multivariate data analysis and graphical display.
ChangeLog | 488 ++++++++++++++++++++++++++++++++++-------------
DESCRIPTION | 5
R/combine.4thcorner.R |only
R/dudi.acm.R | 1
R/dudi.coa.R | 1
R/dudi.dec.R | 1
R/dudi.fca.R | 1
R/dudi.hillsmith.R | 4
R/dudi.mix.R | 1
R/dudi.nsc.R | 2
R/dudi.pca.R | 2
R/fourthcorner.R |only
R/fourthcorner2.R |only
R/gearymoran.R | 5
R/niche.R | 3
R/plot.4thcorner.R |only
R/print.4thcorner.R |only
R/s.logo.R | 168 ++++++++--------
R/summary.4thcorner.R |only
R/testdim.R | 72 +++---
man/RVdist.randtest.Rd | 2
man/dudi.fca.Rd | 12 -
man/fourthcorner.Rd |only
man/randtest-internal.Rd | 3
man/s.logo.Rd | 2
man/scatterutil.Rd | 3
man/witwit.coa.Rd | 6
src/adesub.c | 198 ++++++++++++++++++-
src/adesub.h | 6
src/fourthcorner.c |only
src/testdim.c | 43 ----
31 files changed, 714 insertions(+), 315 deletions(-)
Author: Thomas D. Fletcher
Title: Applied Psychometric Theory
Description: Contains functions useful for correlation theory,
meta-analysis (validity-generalization),
reliability, item analysis, inter-rater reliability,
and classical utility
Diff between psychometric versions 2.0 dated 2008-07-14 and 2.1 dated 2008-12-14
DESCRIPTION | 6 +++--- R/Qrbar.R | 2 +- R/SERHET.R | 2 +- R/SERHOM.R | 2 +- R/aRxx.R | 4 ++-- R/aprox.Qrbar.R | 2 +- R/aprox.vare.R | 2 +- R/bRyy.R | 4 ++-- R/cRR.R | 4 ++-- R/rbar.R | 2 +- R/vare.R | 2 +- R/vare36.R | 2 +- R/varr.R | 2 +- README.txt | 6 ++++++ man/ICC.lme.Rd | 2 +- man/Qrbar.Rd | 2 +- man/artifacts.Rd | 2 +- man/psychometric-package.Rd | 4 ++-- man/vare.Rd | 4 ++-- 19 files changed, 31 insertions(+), 25 deletions(-)
Author: Thomas D. Fletcher
Title: Quantitative Psychology Tools
Description: Contains functions useful for data screening,
testing moderation, mediation and estimating power.
Diff between QuantPsyc versions 1.2 dated 2008-07-14 and 1.3 dated 2008-12-14
DESCRIPTION | 6 +++--- README.txt |only man/QuantPsyc-package.Rd | 4 ++-- man/distInd.ef.Rd | 2 +- man/proxInd.ef.Rd | 2 +- 5 files changed, 7 insertions(+), 7 deletions(-)
Author: Rob J Hyndman
Diff between forecasting versions 1.19 dated 2008-11-07 and 1.20 dated 2008-12-14
Bundle: forecasting
Contains: forecast fma Mcomp expsmooth
DESCRIPTION | 6 +-
fma/man/airpass.Rd | 2
forecast/R/arima.R | 98 ++++++++++++++++++-----------------------
forecast/R/newarima2.R | 96 +++++++++++++++++++++-------------------
forecast/man/auto.arima.Rd | 11 ++--
forecast/man/forecast.Arima.Rd | 4 -
6 files changed, 107 insertions(+), 110 deletions(-)
Author: Virasakdi Chongsuvivatwong
Diff between epicalc versions 2.8.0.0 dated 2008-12-01 and 2.8.0.1 dated 2008-12-14
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.
DESCRIPTION | 6 +++---
R/epicalc.R | 25 ++++++++++++++++++++++++-
man/Outbreak.rd | 2 +-
man/merge.lab.rd |only
4 files changed, 28 insertions(+), 5 deletions(-)
Author: S original by David James
Diff between chron versions 2.3-25 dated 2008-11-13 and 2.3-26 dated 2008-12-14
Title: Chronological objects which can handle dates and times
Description: Chronological objects which can handle dates and times
ChangeLog | 86 +++++++++++++++++++++++++++++++++---------------------------
DESCRIPTION | 6 ++--
NAMESPACE | 3 ++
R/chron.R | 5 +++
R/dates.R | 4 ++
R/times.R | 4 ++
6 files changed, 67 insertions(+), 41 deletions(-)
Author: Rainer Opgen-Rhein, Verena Zuber, and Korbinian Strimmer.
Title: Shrinkage t Statistic and Correlation-Adjusted t Score
Description: This package implements the "shrinkage t" statistic
introduced in Opgen-Rhein and Strimmer (2007) and a shrinkage estimate
of the "correlation-adjusted t-score" (cat score) described in
Zuber and Strimmer (2008). It also offers a convenient interface
to a number of other regularized t-statistics commonly
employed in high-dimensional case-control studies.
Diff between st versions 1.0.3 dated 2008-10-27 and 1.1.0 dated 2008-12-14
st-1.0.3/st/CHANGES |only st-1.1.0/st/DESCRIPTION | 20 +++++----- st-1.1.0/st/NEWS |only st-1.1.0/st/R/efront.R | 19 ++++------ st-1.1.0/st/R/modt.R | 4 +- st-1.1.0/st/R/sam.R | 4 +- st-1.1.0/st/R/samL1.R | 20 ++++------ st-1.1.0/st/R/shrinkcat.R |only st-1.1.0/st/R/shrinkt.R | 53 ++++++++++++--------------- st-1.1.0/st/R/studentt.R | 72 ++++++-------------------------------- st-1.1.0/st/man/regularizedt.Rd | 2 - st-1.1.0/st/man/shrinkcat.stat.Rd |only st-1.1.0/st/man/shrinkt.stat.Rd | 10 +++-- st-1.1.0/st/man/st-internal.Rd | 1 st-1.1.0/st/man/st.package.Rd | 12 +++--- 15 files changed, 81 insertions(+), 136 deletions(-)
Author: Delphine Charif and Jean R. Lobry and Anamaria Necsulea and Leonor Palmeira and Simon Penel
Title: Biological Sequences Retrieval and Analysis
Description: Exploratory data analysis and data visualization
for biological sequence (DNA and protein) data. Include also
utilities for sequence data management under the ACNUC system.
Diff between seqinr versions 2.0-0 dated 2008-10-27 and 2.0-1 dated 2008-12-14
seqinr-2.0-0/seqinr/inst/doc/seqinr_2_0-0.pdf |only seqinr-2.0-1/seqinr/DESCRIPTION | 7 seqinr-2.0-1/seqinr/R/read.abif.R |only seqinr-2.0-1/seqinr/R/words.pos.R | 2 seqinr-2.0-1/seqinr/inst/doc/seqinr_2_0-1.pdf |only seqinr-2.0-1/seqinr/inst/doc/src/appendix/releasenotes.rnw | 15 seqinr-2.0-1/seqinr/inst/doc/src/appendix/releasenotes.tex | 21 seqinr-2.0-1/seqinr/inst/doc/src/figs/cover.pdf | 1941 ++++++------- seqinr-2.0-1/seqinr/inst/doc/src/frontmatter/cover.tex | 6 seqinr-2.0-1/seqinr/inst/doc/src/tables/aacost.tex | 4 seqinr-2.0-1/seqinr/inst/doc/src/tables/dpqrtable.tex | 4 seqinr-2.0-1/seqinr/inst/doc/src/tables/toyaa.tex | 6 seqinr-2.0-1/seqinr/inst/doc/src/tables/toycodon.tex | 4 seqinr-2.0-1/seqinr/inst/doc/src/template/template.pdf |binary seqinr-2.0-1/seqinr/inst/doc/src/template/template.tex | 37 seqinr-2.0-1/seqinr/man/pK.Rd | 3 seqinr-2.0-1/seqinr/man/read.abif.Rd |only seqinr-2.0-1/seqinr/man/stresc.Rd | 5 seqinr-2.0-1/seqinr/man/words.pos.Rd | 2 19 files changed, 1041 insertions(+), 1016 deletions(-)
Author: Timothy H. Keitt
Diff between rgdal versions 0.5-30 dated 2008-11-02 and 0.5-33 dated 2008-12-14
Title: Bindings for the Geospatial Data Abstraction Library
Description: Provides bindings to Frank Warmerdam's Geospatial Data Abstraction Library (GDAL) (>= 1.3.1) and access to projection/transformation operations from the PROJ.4 library. The GDAL and PROJ.4 libraries are external to the package, and, when installing the package from source, must be correctly installed first. Both GDAL raster and OGR vector map data can be imported into R, and GDAL raster data and OGR vector data exported. Use is made of classes defined in the sp package.
rgdal-0.5-30/rgdal/inst/gdal/GDALLogoBW.svg |only
rgdal-0.5-30/rgdal/inst/gdal/GDALLogoColor.svg |only
rgdal-0.5-30/rgdal/inst/gdal/GDALLogoGS.svg |only
rgdal-0.5-33/rgdal/DESCRIPTION | 8 +-
rgdal-0.5-33/rgdal/NAMESPACE | 2
rgdal-0.5-33/rgdal/R/gdal.R | 33 ---------
rgdal-0.5-33/rgdal/R/sp_gdal.R | 27 +++++--
rgdal-0.5-33/rgdal/man/GDALMajorObject-class.Rd | 26 -------
rgdal-0.5-33/rgdal/src/gdal-bindings.cpp | 83 ------------------------
9 files changed, 26 insertions(+), 153 deletions(-)
Author: Douglas Bates
Diff between lme4 versions 0.999375-27 dated 2008-09-28 and 0.999375-28 dated 2008-12-14
Title: Linear mixed-effects models using S4 classes
Description: Fit linear and generalized linear mixed-effects models.
ChangeLog | 7 +++++++
DESCRIPTION | 6 +++---
R/lmer.R | 17 +++++++++--------
inst/doc/Implementation.pdf |binary
inst/doc/PLSvGLS.pdf |binary
inst/doc/Theory.pdf |binary
man/lmer.Rd | 27 +++++++++++++++++++--------
man/ranef.Rd | 5 ++++-
8 files changed, 42 insertions(+), 20 deletions(-)
Author: Hadley Wickham
Diff between ggplot2 versions 0.8 dated 2008-11-21 and 0.8.1 dated 2008-12-14
Title: An implementation of the Grammar of Graphics
Description: An implementation of the grammar of graphics in R. It combines the advantages of both base and lattice graphics: conditioning and shared axes are handled automatically, and you can still build up a plot step by step from multiple data sources. It also implements a sophisticated multidimensional conditioning system and a consistent interface to map data to aesthetic attributes. See the ggplot2 website for more information, documentation and examples.
ggplot2-0.8.1/ggplot2/ANNOUNCE | 6
ggplot2-0.8.1/ggplot2/CHANGELOG | 70 ++++++
ggplot2-0.8.1/ggplot2/DESCRIPTION | 10
ggplot2-0.8.1/ggplot2/NEWS | 98 +++-----
ggplot2-0.8.1/ggplot2/R/aaa-.r | 2
ggplot2-0.8.1/ggplot2/R/aes.r | 4
ggplot2-0.8.1/ggplot2/R/coord-.r | 8
ggplot2-0.8.1/ggplot2/R/coord-cartesian-.r | 9
ggplot2-0.8.1/ggplot2/R/coord-cartesian-flipped.r | 8
ggplot2-0.8.1/ggplot2/R/date-time-breaks.r |only
ggplot2-0.8.1/ggplot2/R/date-time.r | 40 +++
ggplot2-0.8.1/ggplot2/R/facet-.r | 4
ggplot2-0.8.1/ggplot2/R/facet-grid-.r | 8
ggplot2-0.8.1/ggplot2/R/facet-wrap.r | 50 ++--
ggplot2-0.8.1/ggplot2/R/fortify.r |only
ggplot2-0.8.1/ggplot2/R/geom-abline.r | 29 --
ggplot2-0.8.1/ggplot2/R/geom-defaults.r | 19 +
ggplot2-0.8.1/ggplot2/R/geom-freqpoly.r | 1
ggplot2-0.8.1/ggplot2/R/geom-hline.r | 19 +
ggplot2-0.8.1/ggplot2/R/geom-path-.r | 24 +-
ggplot2-0.8.1/ggplot2/R/geom-path-line.r | 1
ggplot2-0.8.1/ggplot2/R/geom-point-.r | 30 ++
ggplot2-0.8.1/ggplot2/R/geom-polygon.r | 2
ggplot2-0.8.1/ggplot2/R/geom-smooth.r | 12 -
ggplot2-0.8.1/ggplot2/R/geom-vline.r | 25 +-
ggplot2-0.8.1/ggplot2/R/guides-legend.r | 215 +++++++++----------
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ggplot2-0.8.1/ggplot2/R/plot-construction.r | 6
ggplot2-0.8.1/ggplot2/R/plot-render.r | 62 +++--
ggplot2-0.8.1/ggplot2/R/plot.r | 26 +-
ggplot2-0.8.1/ggplot2/R/position-collide.r | 7
ggplot2-0.8.1/ggplot2/R/position-dodge.r | 2
ggplot2-0.8.1/ggplot2/R/position-fill.r | 2
ggplot2-0.8.1/ggplot2/R/position-jitter.r | 2
ggplot2-0.8.1/ggplot2/R/position-stack.r | 2
ggplot2-0.8.1/ggplot2/R/quick-plot.r | 26 +-
ggplot2-0.8.1/ggplot2/R/scale-.r | 21 -
ggplot2-0.8.1/ggplot2/R/scale-continuous-.r | 2
ggplot2-0.8.1/ggplot2/R/scale-date.r | 28 +-
ggplot2-0.8.1/ggplot2/R/scale-datetime.r |only
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ggplot2-0.8.1/ggplot2/R/scale-discrete-colour.r | 18 -
ggplot2-0.8.1/ggplot2/R/scale-discrete-position.r | 10
ggplot2-0.8.1/ggplot2/R/scale-identity.r | 26 --
ggplot2-0.8.1/ggplot2/R/scale-linetype.r | 3
ggplot2-0.8.1/ggplot2/R/scales-.r | 31 ++
ggplot2-0.8.1/ggplot2/R/stat-density.r | 1
ggplot2-0.8.1/ggplot2/R/stat-smooth-methods.r |only
ggplot2-0.8.1/ggplot2/R/stat-smooth.r | 76 ++++--
ggplot2-0.8.1/ggplot2/R/stat-vline.r | 63 ++++-
ggplot2-0.8.1/ggplot2/R/summary.r | 12 -
ggplot2-0.8.1/ggplot2/R/templates.r | 2
ggplot2-0.8.1/ggplot2/R/theme-defaults.r | 24 +-
ggplot2-0.8.1/ggplot2/R/theme.r | 5
ggplot2-0.8.1/ggplot2/R/trans-.r | 9
ggplot2-0.8.1/ggplot2/R/utilities-colour.r | 2
ggplot2-0.8.1/ggplot2/R/utilities-facet.r | 2
ggplot2-0.8.1/ggplot2/R/utilities-grid.r | 4
ggplot2-0.8.1/ggplot2/R/utilities-layer.r | 9
ggplot2-0.8.1/ggplot2/R/utilities-position.r | 9
ggplot2-0.8.1/ggplot2/R/xxx-digest.r | 5
ggplot2-0.8.1/ggplot2/R/xxx.r | 3
ggplot2-0.8.1/ggplot2/man/bolus-ggplot-9x.rd | 2
ggplot2-0.8.1/ggplot2/man/ceiling-date-i2.rd | 3
ggplot2-0.8.1/ggplot2/man/date-breaks-d1.rd |only
ggplot2-0.8.1/ggplot2/man/expand-range-8l.rd | 3
ggplot2-0.8.1/ggplot2/man/facet_grid.rd | 7
ggplot2-0.8.1/ggplot2/man/facet_wrap.rd | 14 -
ggplot2-0.8.1/ggplot2/man/floor-date-i9.rd | 3
ggplot2-0.8.1/ggplot2/man/fortify-dm.rd |only
ggplot2-0.8.1/ggplot2/man/fortify-lm-nd.rd |only
ggplot2-0.8.1/ggplot2/man/fullseq-date-ol.rd | 5
ggplot2-0.8.1/ggplot2/man/geom_abline.rd | 10
ggplot2-0.8.1/ggplot2/man/geom_hline.rd | 10
ggplot2-0.8.1/ggplot2/man/geom_jitter.rd | 3
ggplot2-0.8.1/ggplot2/man/geom_line.rd | 1
ggplot2-0.8.1/ggplot2/man/geom_point.rd | 26 ++
ggplot2-0.8.1/ggplot2/man/geom_polygon.rd | 2
ggplot2-0.8.1/ggplot2/man/geom_vline.rd | 16 -
ggplot2-0.8.1/ggplot2/man/ggpcp-g3.rd | 2
ggplot2-0.8.1/ggplot2/man/ggplot-data-frame-d3.rd |only
ggplot2-0.8.1/ggplot2/man/ggplot-dk.rd |only
ggplot2-0.8.1/ggplot2/man/guide-legends-3p.rd | 23 +-
ggplot2-0.8.1/ggplot2/man/guide-legends-box-m7.rd | 5
ggplot2-0.8.1/ggplot2/man/ignore.rd | 1
ggplot2-0.8.1/ggplot2/man/labs-df.rd |only
ggplot2-0.8.1/ggplot2/man/muted-5j.rd | 2
ggplot2-0.8.1/ggplot2/man/predictdf-62.rd |only
ggplot2-0.8.1/ggplot2/man/qplot-ay.rd | 10
ggplot2-0.8.1/ggplot2/man/scale_brewer.rd | 8
ggplot2-0.8.1/ggplot2/man/scale_continuous.rd | 2
ggplot2-0.8.1/ggplot2/man/scale_datetime.rd |only
ggplot2-0.8.1/ggplot2/man/scale_discrete.rd | 6
ggplot2-0.8.1/ggplot2/man/scale_identity.rd | 13 -
ggplot2-0.8.1/ggplot2/man/scale_linetype.rd | 5
ggplot2-0.8.1/ggplot2/man/stat_abline.rd |only
ggplot2-0.8.1/ggplot2/man/stat_hline.rd | 3
ggplot2-0.8.1/ggplot2/man/stat_smooth.rd | 11
ggplot2-0.8.1/ggplot2/man/stat_vline.rd | 3
ggplot2-0.8.1/ggplot2/man/theme-update-wy.rd | 7
ggplot2-0.8.1/ggplot2/man/time-breaks-om.rd |only
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ggplot2-0.8.1/ggplot2/man/update-geom-defaults-1v.rd | 4
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ggplot2-0.8.1/ggplot2/templates/index.html | 2
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111 files changed, 897 insertions(+), 525 deletions(-)
Author: Michael Hahsler, Christian Buchta, Bettina Gruen and Kurt Hornik
Title: Mining Association Rules and Frequent Itemsets
Description: Provides the infrastructure for representing,
manipulating and analyzing transaction data and patterns (frequent
itemsets and association rules). Also provides interfaces to
C implementations of the association mining algorithms Apriori and Eclat
by C. Borgelt.
Diff between arules versions 0.6-6 dated 2008-06-11 and 0.6-7 dated 2008-12-14
arules-0.6-6/arules/inst/doc/Rplots.pdf |only arules-0.6-6/arules/inst/doc/arules-019.eps |only arules-0.6-6/arules/inst/doc/arules-019.pdf |only arules-0.6-6/arules/inst/doc/arules-035.eps |only arules-0.6-6/arules/inst/doc/arules-035.pdf |only arules-0.6-6/arules/inst/doc/arules-037.eps |only arules-0.6-6/arules/inst/doc/arules-037.pdf |only arules-0.6-6/arules/inst/doc/arules-epub.eps |only arules-0.6-6/arules/inst/doc/arules-epub.pdf |only arules-0.6-6/arules/inst/doc/arules.aux |only arules-0.6-6/arules/inst/doc/arules.log |only arules-0.6-6/arules/inst/doc/arules.out |only arules-0.6-6/arules/inst/doc/arules.tex |only arules-0.6-7/arules/DESCRIPTION | 6 arules-0.6-7/arules/R/dissimilarity.R | 21 arules-0.6-7/arules/R/is.superset.R | 1 arules-0.6-7/arules/R/random.transactions.R | 3 arules-0.6-7/arules/R/sets.R | 2 arules-0.6-7/arules/inst/doc/arules.pdf | 6391 +++++++++++++-------------- arules-0.6-7/arules/man/dissimilarity.Rd | 24 arules-0.6-7/arules/man/ruleInduction.Rd | 5 arules-0.6-7/arules/src/rapriori.c | 27 22 files changed, 3363 insertions(+), 3117 deletions(-)
Author: Mohamed Abdolell and Sam Stewart
Title: Using GUIs to help teach statistics to non-statistics students
Description:
Diff between ResearchMethods versions 1.0 dated 2008-08-08 and 1.01 dated 2008-12-14
ResearchMethods-1.0/ResearchMethods/R/caseDist.R |only ResearchMethods-1.0/ResearchMethods/R/mainGUI.R |only ResearchMethods-1.0/ResearchMethods/R/transRegression.R |only ResearchMethods-1.0/ResearchMethods/man/GUIdemo.Rd |only ResearchMethods-1.0/ResearchMethods/man/caseDist.Rd |only ResearchMethods-1.0/ResearchMethods/man/mainGUI.Rd |only ResearchMethods-1.0/ResearchMethods/man/transRegression.Rd |only ResearchMethods-1.01/ResearchMethods/DESCRIPTION | 10 ResearchMethods-1.01/ResearchMethods/R/BlandAltman.R | 280 +++++------- ResearchMethods-1.01/ResearchMethods/R/bootSequence.R |only ResearchMethods-1.01/ResearchMethods/R/bootSingle.R |only ResearchMethods-1.01/ResearchMethods/R/clt.R |only ResearchMethods-1.01/ResearchMethods/R/minimAllocGUI.R | 29 - ResearchMethods-1.01/ResearchMethods/R/myHist.R |only ResearchMethods-1.01/ResearchMethods/R/powerDemo.R |only ResearchMethods-1.01/ResearchMethods/R/ratioCompare.R |only ResearchMethods-1.01/ResearchMethods/R/reaction.R |only ResearchMethods-1.01/ResearchMethods/Rplots.pdf |only ResearchMethods-1.01/ResearchMethods/man/BlandAltman.Rd | 5 ResearchMethods-1.01/ResearchMethods/man/ResearchMethods.Rd |only ResearchMethods-1.01/ResearchMethods/man/bootSequence.Rd |only ResearchMethods-1.01/ResearchMethods/man/bootSingle.Rd |only ResearchMethods-1.01/ResearchMethods/man/cltDemo.Rd |only ResearchMethods-1.01/ResearchMethods/man/menuSampleSize.Rd | 1 ResearchMethods-1.01/ResearchMethods/man/myHist.Rd |only ResearchMethods-1.01/ResearchMethods/man/powerDemo.Rd |only ResearchMethods-1.01/ResearchMethods/man/ratioCompare.Rd |only ResearchMethods-1.01/ResearchMethods/man/reactGame.Rd |only 28 files changed, 142 insertions(+), 183 deletions(-)
More information about ResearchMethods at CRAN
Permanent link
Author: Sameer Kumar Prayaga
Diff between RPostgreSQL versions 0.1-2 dated 2008-11-03 and 0.1-3 dated 2008-12-14
Title: R interface to the PostgreSQL database system
Description: Database interface and PostgreSQL driver for R.
This version complies with the database interface
definition as implemented in the package DBI.
DESCRIPTION | 5 +++--
inst/ChangeLog | 12 +++++++++++-
man/PostgreSQL.Rd | 9 ++++++---
src/RS-DBI.c | 15 +++++++++++++--
tests/dataTypeTests.R | 2 +-
tests/dataTypeTests.Rout.save | 2 +-
tests/datetimeTests.R | 2 +-
tests/datetimeTests.Rout.save | 2 +-
8 files changed, 37 insertions(+), 12 deletions(-)
Author: Kurt Hornik and David Meyer
Title: Data Structures and Algorithms for Relations
Description: Data structures and algorithms for k-ary relations with
arbitrary domains, featuring relational algebra, predicate functions,
and fitters for consensus relations.
Diff between relations versions 0.4-0 dated 2008-08-11 and 0.5 dated 2008-12-13
relations-0.4-0/relations/R/milp.R |only relations-0.5/relations/DESCRIPTION | 14 relations-0.5/relations/NAMESPACE | 61 relations-0.5/relations/NEWS | 48 relations-0.5/relations/R/choice.R | 393 +-- relations-0.5/relations/R/consensus.R | 492 ++++ relations-0.5/relations/R/data.R |only relations-0.5/relations/R/domain.R | 43 relations-0.5/relations/R/ensemble.R | 3 relations-0.5/relations/R/fitters.R | 1023 +++------- relations-0.5/relations/R/getters.R | 162 + relations-0.5/relations/R/graph.R | 2 relations-0.5/relations/R/incidence.R | 14 relations-0.5/relations/R/mip.R |only relations-0.5/relations/R/multiset.R |only relations-0.5/relations/R/operators.R | 42 relations-0.5/relations/R/plot.R | 115 - relations-0.5/relations/R/predicates.R | 18 relations-0.5/relations/R/ranking.R |only relations-0.5/relations/R/relation.R | 87 relations-0.5/relations/R/sparse.R | 117 - relations-0.5/relations/R/utilities.R | 28 relations-0.5/relations/R/violations.R | 2 relations-0.5/relations/data/SVM_Benchmarking_Classification_Consensus.rda |binary relations-0.5/relations/data/SVM_Benchmarking_Regression_Consensus.rda |binary relations-0.5/relations/inst/NEWS | 48 relations-0.5/relations/inst/doc/relations.Rnw | 193 + relations-0.5/relations/inst/doc/relations.bib | 245 +- relations-0.5/relations/inst/doc/relations.pdf |binary relations-0.5/relations/inst/po/en@quot/LC_MESSAGES/R-relations.mo |binary relations-0.5/relations/man/Cetacea.Rd | 2 relations-0.5/relations/man/SVMBench.Rd | 64 relations-0.5/relations/man/algebra.Rd | 2 relations-0.5/relations/man/choice.Rd | 24 relations-0.5/relations/man/closure.Rd | 11 relations-0.5/relations/man/consensus.Rd | 71 relations-0.5/relations/man/cover.Rd |only relations-0.5/relations/man/dissimilarity.Rd | 16 relations-0.5/relations/man/elements.Rd |only relations-0.5/relations/man/pclust.Rd | 4 relations-0.5/relations/man/plot.Rd | 21 relations-0.5/relations/man/predicates.Rd | 24 relations-0.5/relations/man/ranking.Rd |only relations-0.5/relations/man/reduction.Rd | 13 relations-0.5/relations/man/scores.Rd | 10 relations-0.5/relations/man/trace.Rd |only relations-0.5/relations/man/transform.Rd | 2 relations-0.5/relations/po/R-en@quot.po | 107 - relations-0.5/relations/po/R-relations.pot | 84 49 files changed, 2270 insertions(+), 1335 deletions(-)
Author: Simon Wood
Diff between mgcv versions 1.4-1 dated 2008-06-19 and 1.4-1.1 dated 2008-12-13
Title: GAMs with GCV smoothness estimation and GAMMs by REML/PQL
Description: Routines for GAMs and other generalized ridge regression
with multiple smoothing parameter selection by GCV or
UBRE/AIC. Also GAMMs by REML or PQL. Includes a gam()
function.
DESCRIPTION | 4 ++--
man/smooth.construct.cr.smooth.spec.Rd | 3 +--
2 files changed, 3 insertions(+), 4 deletions(-)
Author: Jan de Leeuw, Patrick Mair
Title: smacof for Multidimensional Scaling.
Description: This package provides the following approaches of multidimensional scaling (MDS) based on stress minimization by means of majorization (smacof): Simple smacof on symmetric dissimilarity matrices, smacof for rectangular matrices (unfolding models), smacof with constraints on the configuration, three-way smacof for individual differences (including constraints for idioscal, indscal, and identity), and spherical smacof (primal and dual algorithm). Each of these approaches is implemented in a metric and nonmetric manner including primary, secondary, and tertiary approaches for tie handling.
Diff between smacof versions 0.9-0 dated 2008-05-26 and 0.9-1 dated 2008-12-13
DESCRIPTION | 7 ++++--- R/normDissN.R |only R/smacofIndDiff.R | 8 ++++---- 3 files changed, 8 insertions(+), 7 deletions(-)
Author: Bowman, Bowman, Gibson and Crawford
Title: Simple interactive controls for R using the tcltk library.
Description: rpanel provides a set of functions to build simple
GUI controls for R functions. These are built on the tcltk package.
Uses could include changing a parameter on a graph by animating it
with a slider or a "doublebutton", up to more sophisticated control panels.
Diff between rpanel versions 1.0-4 dated 2006-12-19 and 1.0-5 dated 2008-12-13
rpanel-1.0-4/rpanel/R/ancova.r |only rpanel-1.0-4/rpanel/R/gulls.r |only rpanel-1.0-4/rpanel/R/power.r |only rpanel-1.0-4/rpanel/R/regression2.r |only rpanel-1.0-4/rpanel/R/rmplot-rp.r |only rpanel-1.0-4/rpanel/R/rmplot.r |only rpanel-1.0-4/rpanel/R/rpanel.R |only rpanel-1.0-4/rpanel/R/rpblock.R |only rpanel-1.0-4/rpanel/R/rpclearlines.R |only rpanel-1.0-4/rpanel/R/rpdeleteline.R |only rpanel-1.0-4/rpanel/R/rpdoublebutton.R |only rpanel-1.0-4/rpanel/R/rpimage.R |only rpanel-1.0-4/rpanel/R/rpline.R |only rpanel-1.0-4/rpanel/R/rpmessagebox.R |only rpanel-1.0-4/rpanel/R/rpradiogroup.R |only rpanel-1.0-4/rpanel/R/rptkrplot.R |only rpanel-1.0-4/rpanel/R/rptkrreplot.R |only rpanel-1.0-4/rpanel/R/tables.r |only rpanel-1.0-4/rpanel/README |only rpanel-1.0-4/rpanel/data/gulllmks.gif |only rpanel-1.0-4/rpanel/data/gulls.rda |only rpanel-1.0-4/rpanel/demo/rp.pos.r |only rpanel-1.0-4/rpanel/man/gulls.Rd |only rpanel-1.0-4/rpanel/man/rp.ancova.rd |only rpanel-1.0-4/rpanel/man/rp.gulls.rd |only rpanel-1.0-4/rpanel/man/rp.power.rd |only rpanel-1.0-4/rpanel/man/rp.regression2.Rd |only rpanel-1.0-4/rpanel/man/rp.rmplot.rd |only rpanel-1.0-4/rpanel/man/rp.tables.rd |only rpanel-1.0-4/rpanel/old files |only rpanel-1.0-5/rpanel/ChangeLog | 12 + rpanel-1.0-5/rpanel/DESCRIPTION | 12 - rpanel-1.0-5/rpanel/Licence.txt | 4 rpanel-1.0-5/rpanel/NAMESPACE | 6 rpanel-1.0-5/rpanel/R/rp-ancova.r |only rpanel-1.0-5/rpanel/R/rp-cartoons.r |only rpanel-1.0-5/rpanel/R/rp-ci.r |only rpanel-1.0-5/rpanel/R/rp-firth.r |only rpanel-1.0-5/rpanel/R/rp-geosim.r |only rpanel-1.0-5/rpanel/R/rp-gulls.r |only rpanel-1.0-5/rpanel/R/rp-likelihood.r |only rpanel-1.0-5/rpanel/R/rp-logistic.r |only rpanel-1.0-5/rpanel/R/rp-mururoa.r |only rpanel-1.0-5/rpanel/R/rp-normal.r |only rpanel-1.0-5/rpanel/R/rp-plot3d.r |only rpanel-1.0-5/rpanel/R/rp-power.r |only rpanel-1.0-5/rpanel/R/rp-regression.r |only rpanel-1.0-5/rpanel/R/rp-regression2.r |only rpanel-1.0-5/rpanel/R/rp-rmplot.r |only rpanel-1.0-5/rpanel/R/rp-tables.r |only rpanel-1.0-5/rpanel/R/rp.pos.r |only rpanel-1.0-5/rpanel/R/rpanel.r |only rpanel-1.0-5/rpanel/R/rpblock.r |only rpanel-1.0-5/rpanel/R/rpbutton.r | 47 ++++- rpanel-1.0-5/rpanel/R/rpcheckbox.r | 251 ++++++++++++++++++++++++--- rpanel-1.0-5/rpanel/R/rpclearlines.r |only rpanel-1.0-5/rpanel/R/rpcontrol.r | 26 +- rpanel-1.0-5/rpanel/R/rpdeleteline.r |only rpanel-1.0-5/rpanel/R/rpdoublebutton.r |only rpanel-1.0-5/rpanel/R/rpgrid.r |only rpanel-1.0-5/rpanel/R/rpimage.r |only rpanel-1.0-5/rpanel/R/rpline.r |only rpanel-1.0-5/rpanel/R/rplistbox.r | 42 ++++ rpanel-1.0-5/rpanel/R/rpmessagebox.r |only rpanel-1.0-5/rpanel/R/rpradiogroup.r |only rpanel-1.0-5/rpanel/R/rpslider.r | 45 ++++ rpanel-1.0-5/rpanel/R/rptext.r |only rpanel-1.0-5/rpanel/R/rptextentry.r | 175 +++++++++++++++--- rpanel-1.0-5/rpanel/R/rptkrplot.r |only rpanel-1.0-5/rpanel/R/rptkrreplot.r |only rpanel-1.0-5/rpanel/R/sysdata.rda |only rpanel-1.0-5/rpanel/data/CofE.rda |binary rpanel-1.0-5/rpanel/data/aircond.rda |only rpanel-1.0-5/rpanel/data/gullweight.rda |only rpanel-1.0-5/rpanel/data/river.rda |only rpanel-1.0-5/rpanel/data/rodent.rda |only rpanel-1.0-5/rpanel/demo/00Index | 1 rpanel-1.0-5/rpanel/inst/CITATION |only rpanel-1.0-5/rpanel/inst/COPYING |only rpanel-1.0-5/rpanel/inst/history.txt |only rpanel-1.0-5/rpanel/inst/images/Thumbs.db |only rpanel-1.0-5/rpanel/inst/images/cartoons.gif |only rpanel-1.0-5/rpanel/man/CofE.Rd | 14 - rpanel-1.0-5/rpanel/man/aircond.Rd |only rpanel-1.0-5/rpanel/man/gullweight.Rd |only rpanel-1.0-5/rpanel/man/luthor.Rd | 23 +- rpanel-1.0-5/rpanel/man/river.Rd |only rpanel-1.0-5/rpanel/man/rodent.Rd |only rpanel-1.0-5/rpanel/man/rp.ancova.Rd |only rpanel-1.0-5/rpanel/man/rp.block.Rd | 55 ++--- rpanel-1.0-5/rpanel/man/rp.button.Rd | 34 ++- rpanel-1.0-5/rpanel/man/rp.cartoons.Rd |only rpanel-1.0-5/rpanel/man/rp.checkbox.Rd | 76 +++++--- rpanel-1.0-5/rpanel/man/rp.ci.Rd |only rpanel-1.0-5/rpanel/man/rp.clearlines.Rd | 22 +- rpanel-1.0-5/rpanel/man/rp.control.Rd | 45 ++-- rpanel-1.0-5/rpanel/man/rp.deleteline.Rd | 27 +- rpanel-1.0-5/rpanel/man/rp.do.Rd | 45 ++-- rpanel-1.0-5/rpanel/man/rp.doublebutton.Rd | 35 ++- rpanel-1.0-5/rpanel/man/rp.firth.Rd |only rpanel-1.0-5/rpanel/man/rp.geosim.Rd |only rpanel-1.0-5/rpanel/man/rp.grid.Rd |only rpanel-1.0-5/rpanel/man/rp.gulls.Rd |only rpanel-1.0-5/rpanel/man/rp.image.Rd | 33 ++- rpanel-1.0-5/rpanel/man/rp.likelihood.Rd |only rpanel-1.0-5/rpanel/man/rp.line.Rd | 49 ++--- rpanel-1.0-5/rpanel/man/rp.listbox.Rd | 42 ++-- rpanel-1.0-5/rpanel/man/rp.logistic.Rd |only rpanel-1.0-5/rpanel/man/rp.menu.Rd | 29 +-- rpanel-1.0-5/rpanel/man/rp.messagebox.Rd | 16 - rpanel-1.0-5/rpanel/man/rp.mururoa.Rd |only rpanel-1.0-5/rpanel/man/rp.normal.Rd |only rpanel-1.0-5/rpanel/man/rp.panel.Rd | 22 +- rpanel-1.0-5/rpanel/man/rp.panelname.Rd | 30 +-- rpanel-1.0-5/rpanel/man/rp.plot3d.Rd | 30 ++- rpanel-1.0-5/rpanel/man/rp.pos.Rd | 138 +++++++++----- rpanel-1.0-5/rpanel/man/rp.power.Rd |only rpanel-1.0-5/rpanel/man/rp.radiogroup.Rd | 42 ++-- rpanel-1.0-5/rpanel/man/rp.regression.Rd |only rpanel-1.0-5/rpanel/man/rp.rmplot.Rd |only rpanel-1.0-5/rpanel/man/rp.slider.Rd | 30 ++- rpanel-1.0-5/rpanel/man/rp.tables.Rd |only rpanel-1.0-5/rpanel/man/rp.textentry.Rd | 75 +++++--- rpanel-1.0-5/rpanel/man/rp.tkrplot.Rd | 45 +++- rpanel-1.0-5/rpanel/man/rpanel.package.Rd | 82 +++++--- 125 files changed, 1135 insertions(+), 525 deletions(-)
Author: Roland Fried
Diff between robfilter versions 2.3 dated 2008-10-13 and 2.4 dated 2008-12-13
Title: Robust Time Series Filters
Description: A set of functions to filter time series based on concepts from robust statistics.
DESCRIPTION | 6 -
R/adore.filter.R | 11 +
R/robregfilter.R | 7 -
src/RMquick.h | 5
src/hammock.cpp | 162 ++++++++++++++++-------------
src/hammock.h | 59 ++++++----
src/robust.cpp | 303 +++++++++++++++++++++++++++++--------------------------
7 files changed, 310 insertions(+), 243 deletions(-)
Author: Hadley Wickham
Diff between plyr versions 0.1.3 dated 2008-11-19 and 0.1.4 dated 2008-12-13
Title: Tools for splitting, applying and combining data
Description: plyr is a set of tools that solves a common set of problems: you need to break a big problem down into manageable pieces, operate on each pieces and then put all the pieces back together.
DESCRIPTION | 8 ++++----
NEWS | 5 +++++
R/indexed-list.r |only
R/ply-data-frame.r | 7 +++----
R/ply-list.r | 19 ++++++++++++-------
R/simplify.r | 2 +-
R/split.r | 25 +++++++++++++++++--------
man/ddply-5k.rd | 3 ++-
man/dlply-7t.rd | 3 ++-
man/indexed-list-55.rd |only
man/splitter-d-cs.rd | 3 ++-
11 files changed, 48 insertions(+), 27 deletions(-)
Author: Edzer J. Pebesma
Diff between gstat versions 0.9-56 dated 2008-11-26 and 0.9-57 dated 2008-12-13
Title: geostatistical modelling, prediction and simulation
Description: variogram modelling; simple, ordinary and universal point
or block (co)kriging, sequential Gaussian or indicator (co)simulation;
variogram and variogram map plotting utility functions.
DESCRIPTION | 6
R/fit.variogram.R | 5
R/show.vgms.R | 4
inst/doc/gstat.pdf |28691 ++++++++++++++++++++++++++---------------------------
man/show.vgms.Rd | 5
src/vario.c | 1
6 files changed, 14143 insertions(+), 14569 deletions(-)
Author: Tarn Duong
Diff between feature versions 1.1-14 dated 2008-11-04 and 1.1-15 dated 2008-12-13
Title: Feature significance for multivariate kernel density estimation
Description: Feature significance for multivariate kernel density estimation
feature-1.1-14/feature/inst/doc/feature.aux |only
feature-1.1-14/feature/inst/doc/feature.log |only
feature-1.1-14/feature/inst/doc/feature.tex |only
feature-1.1-15/feature/DESCRIPTION | 6 +++---
feature-1.1-15/feature/R/featureSignif.R | 10 +++++++---
feature-1.1-15/feature/inst/doc/feature.pdf |binary
6 files changed, 10 insertions(+), 6 deletions(-)
Author: John Fox
Diff between effects versions 2.0-2 dated 2008-12-12 and 2.0-3 dated 2008-12-13
Title: Effect Displays for Linear, Generalized Linear, Multinomial-Logit, and Proportional-Odds Logit Models
Description:
Graphical and tabular effect displays, e.g., of interactions, for linear
generalized linear, multinomial-logit, and proportional-odds logit models.
DESCRIPTION | 8 ++++----
R/effects.R | 15 ++++++++-------
inst/CHANGES | 5 +++++
3 files changed, 17 insertions(+), 11 deletions(-)
Author: Bob Gray
Diff between cmprsk versions 2.1-7 dated 2007-01-01 and 2.2-0 dated 2008-12-13
Title: Subdistribution Analysis of Competing Risks
Description: Estimation, testing and regression modeling of
subdistribution functions in competing risks, as described in Gray
(1988), A class of K-sample tests for comparing the cumulative
incidence of a competing risk, Ann. Stat. 16:1141-1154, and Fine JP and
Gray RJ (1999), A proportional hazards model for the subdistribution
of a competing risk, JASA, 94:496-509.
DESCRIPTION | 8 +-
R/cmprsk.R | 112 +++++++++++++++++++++++++++++++++++++-
man/crr.Rd | 23 ++++++--
man/plot.cuminc.Rd | 5 +
man/plot.predict.crr.Rd | 4 -
man/predict.crr.Rd | 2
man/print.crr.Rd | 2
man/print.cuminc.Rd | 2
man/summary.crr.Rd |only
tests/Rplots.ps |only
tests/test.R | 2
tests/test.Rout.save | 138 +++++++++++++++++++++++++++++++++++++-----------
12 files changed, 252 insertions(+), 46 deletions(-)
Author: Madeleine Cule, Robert Gramacy, Richard Samworth
Title: Log-concave Density Estimation in Arbitrary Dimensions
Description: Computes a log-concave (maximum likelihood) estimator for i.i.d. data in any number of dimensions.
Diff between LogConcDEAD versions 1.2-0 dated 2008-07-07 and 1.3-0 dated 2008-12-13
LogConcDEAD-1.2-0/LogConcDEAD/R/lcd.eval.R |only LogConcDEAD-1.2-0/LogConcDEAD/R/lcd.getweights.R |only LogConcDEAD-1.2-0/LogConcDEAD/R/lcd.interp.R |only LogConcDEAD-1.2-0/LogConcDEAD/R/lcd.marg.R |only LogConcDEAD-1.2-0/LogConcDEAD/R/lcd.mle.R |only LogConcDEAD-1.2-0/LogConcDEAD/R/lcd.sample.R |only LogConcDEAD-1.2-0/LogConcDEAD/man/lcd.eval.Rd |only LogConcDEAD-1.2-0/LogConcDEAD/man/lcd.getweights.Rd |only LogConcDEAD-1.2-0/LogConcDEAD/man/lcd.interp.Rd |only LogConcDEAD-1.2-0/LogConcDEAD/man/lcd.marg.Rd |only LogConcDEAD-1.2-0/LogConcDEAD/man/lcd.marg.eval.Rd |only LogConcDEAD-1.2-0/LogConcDEAD/man/lcd.mle.Rd |only LogConcDEAD-1.2-0/LogConcDEAD/man/lcd.sample.Rd |only LogConcDEAD-1.3-0/LogConcDEAD/.cvsignore |only LogConcDEAD-1.3-0/LogConcDEAD/ChangeLog | 9 - LogConcDEAD-1.3-0/LogConcDEAD/DESCRIPTION | 10 - LogConcDEAD-1.3-0/LogConcDEAD/R/dlcd.R |only LogConcDEAD-1.3-0/LogConcDEAD/R/getweights.R |only LogConcDEAD-1.3-0/LogConcDEAD/R/interplcd.R |only LogConcDEAD-1.3-0/LogConcDEAD/R/interpmarglcd.R |only LogConcDEAD-1.3-0/LogConcDEAD/R/mlelcd.R |only LogConcDEAD-1.3-0/LogConcDEAD/R/plot.LogConcDEAD.R | 76 +++++---- LogConcDEAD-1.3-0/LogConcDEAD/R/rlcd.R |only LogConcDEAD-1.3-0/LogConcDEAD/R/summary.LogConcDEAD.R | 4 LogConcDEAD-1.3-0/LogConcDEAD/man/LogConcDEAD-internal.Rd | 7 LogConcDEAD-1.3-0/LogConcDEAD/man/LogConcDEAD-package.Rd | 117 ++++++++------ LogConcDEAD-1.3-0/LogConcDEAD/man/dlcd.Rd |only LogConcDEAD-1.3-0/LogConcDEAD/man/dmarglcd.Rd |only LogConcDEAD-1.3-0/LogConcDEAD/man/getweights.Rd |only LogConcDEAD-1.3-0/LogConcDEAD/man/interplcd.Rd |only LogConcDEAD-1.3-0/LogConcDEAD/man/interpmarglcd.Rd |only LogConcDEAD-1.3-0/LogConcDEAD/man/mlelcd.Rd |only LogConcDEAD-1.3-0/LogConcDEAD/man/plot.LogConcDEAD.Rd | 95 ++++++----- LogConcDEAD-1.3-0/LogConcDEAD/man/print.LogConcDEAD.Rd |only LogConcDEAD-1.3-0/LogConcDEAD/man/rlcd.Rd |only LogConcDEAD-1.3-0/LogConcDEAD/qhull_out.txt |only 36 files changed, 186 insertions(+), 132 deletions(-)
Author: S. M. Barbosa
Title: Time series autoregressive-based decomposition
Description: Package ArDec implements autoregressive-based decomposition of a time series based on the constructive approach in West (1997). Particular cases include the extraction of trend and seasonal components. Uncertainty on the resulting components can be derived from sampling of the autoregressive model which is written as a linear regression model and handled on a Bayesian framework.
Diff between ArDec versions 1.2-0 dated 2008-09-22 and 1.2-1 dated 2008-12-13
ArDec-1.2-0/ArDec/ChangeLog |only ArDec-1.2-1/ArDec/DESCRIPTION | 6 - ArDec-1.2-1/ArDec/R/ardec.R | 117 +++++++++++++++++---------------- ArDec-1.2-1/ArDec/R/ardec.components.R | 32 ++++----- ArDec-1.2-1/ArDec/R/ardec.lm.R | 36 +++++----- ArDec-1.2-1/ArDec/R/ardec.lm.bayes.R | 48 +++++++------ ArDec-1.2-1/ArDec/R/ardec.sampling.R | 26 ++++--- ArDec-1.2-1/ArDec/data/tempEng.rda |binary 8 files changed, 143 insertions(+), 122 deletions(-)
Author: Friedrich Leisch
Title: Flexible Cluster Algorithms
Description: The main function kcca implements a general framework for
k-centroids cluster analysis supporting arbitrary
distance measures and centroid computation. Further
cluster methods include hard competitive learning, neural gas, and QT
clustering.
Diff between flexclust versions 0.99-1 dated 2008-11-03 and 1.0-0 dated 2008-12-12
DESCRIPTION | 6 +++--- NAMESPACE | 1 + NEWS | 5 +++++ R/bundestag.R |only data/btw2002.RData |only data/btw2005.RData |only inst/NEWS | 5 +++++ man/bundestag.Rd |only 8 files changed, 14 insertions(+), 3 deletions(-)
Author: Hana Sevcikova, A. J. Rossini
Title: Fault Tolerant Simple Network of Workstations
Description: Extension of the snow package supporting fault tolerant and reproducible applications. It is written for the PVM communication layer.
Diff between snowFT versions 0.0-2 dated 2005-11-29 and 0.0-4 dated 2008-12-12
snowFT-0.0-2/snowFT/.arch-ids |only snowFT-0.0-2/snowFT/R/.arch-ids |only snowFT-0.0-2/snowFT/man/.arch-ids |only snowFT-0.0-4/snowFT/DESCRIPTION | 9 +++++---- snowFT-0.0-4/snowFT/R/pvm.R | 1 + snowFT-0.0-4/snowFT/R/snowFT.R | 4 ++-- snowFT-0.0-4/snowFT/man/snowFT-internal.Rd | 26 +++++++++++++------------- 7 files changed, 21 insertions(+), 19 deletions(-)
Author: John Fox
Diff between effects versions 2.0-1 dated 2008-12-08 and 2.0-2 dated 2008-12-12
Title: Effect Displays for Linear, Generalized Linear, Multinomial-Logit, and Proportional-Odds Logit Models
Description:
Graphical and tabular effect displays, e.g., of interactions, for linear
generalized linear, multinomial-logit, and proportional-odds logit models.
DESCRIPTION | 8 ++++----
R/plot-summary-print-methods.R | 24 +++++++++++++++++-------
inst/CHANGES | 4 ++++
3 files changed, 25 insertions(+), 11 deletions(-)
Author: Tarn Duong
Diff between prim versions 1.0.5 dated 2008-07-05 and 1.0.6 dated 2008-12-11
Title: Patient Rule Induction Method (PRIM)
Description: PRIM for bump hunting in high-dimensional data
prim-1.0.5/prim/inst/doc/prim-2d.aux |only
prim-1.0.5/prim/inst/doc/prim-2d.log |only
prim-1.0.5/prim/inst/doc/prim-2d.tex |only
prim-1.0.5/prim/inst/doc/prim-3d.aux |only
prim-1.0.5/prim/inst/doc/prim-3d.log |only
prim-1.0.5/prim/inst/doc/prim-3d.tex |only
prim-1.0.6/prim/DESCRIPTION | 10 +++----
prim-1.0.6/prim/R/boxfun.R | 32 +++++++++++++-----------
prim-1.0.6/prim/R/prim.R | 46 +++++++++++++++--------------------
prim-1.0.6/prim/inst/doc/prim-2d.Rnw | 4 +--
prim-1.0.6/prim/inst/doc/prim-2d.pdf |binary
prim-1.0.6/prim/inst/doc/prim-3d.Rnw | 40 ++++++++++++------------------
prim-1.0.6/prim/inst/doc/prim-3d.pdf |binary
prim-1.0.6/prim/man/plot.prim.Rd | 2 -
prim-1.0.6/prim/man/prim.box.Rd | 4 +--
15 files changed, 65 insertions(+), 73 deletions(-)
Author: Robert B. Gramacy
Diff between monomvn versions 1.6 dated 2008-12-04 and 1.6-1 dated 2008-12-11
Title: Estimation for multivariate normal data with monotone missingness
Description: Estimation of multivariate normal data of arbitrary dimension
where the pattern of missing data is monotone. Through the use of
parsimonious/shrinkage regressions (plsr, pcr, lasso, ridge,
etc.), where standard regressions fail, the package can handle an
(almost) arbitrary amount of missing data. The current version
supports maximum likelihood inference and implementation
of a Bayesian version employing a Bayesian lasso. A fully
functional standalone interface to the Bayesian lasso
(from Park & Casella) and ridge regression with model selection
via Reversible Jump is also provided
monomvn-1.6-1/monomvn/ChangeLog | 7 +
monomvn-1.6-1/monomvn/DESCRIPTION | 6
monomvn-1.6-1/monomvn/R/blasso.R | 22 ++-
monomvn-1.6-1/monomvn/R/blasso.s3.R | 28 +++-
monomvn-1.6-1/monomvn/R/bmonomvn.R | 16 +-
monomvn-1.6-1/monomvn/R/bmonomvn.traces.R | 9 -
monomvn-1.6-1/monomvn/R/monomvn.s3.R | 6
monomvn-1.6-1/monomvn/man/blasso.Rd | 13 +
monomvn-1.6-1/monomvn/man/blasso.s3.Rd | 5
monomvn-1.6-1/monomvn/man/bmonomvn.Rd | 14 +-
monomvn-1.6-1/monomvn/man/default.QP.Rd | 26 +--
monomvn-1.6-1/monomvn/man/monomvn-package.Rd | 4
monomvn-1.6-1/monomvn/man/monomvn.Rd | 2
monomvn-1.6-1/monomvn/man/monomvn.solve.QP.Rd | 9 -
monomvn-1.6-1/monomvn/man/plot.monomvn.Rd | 9 -
monomvn-1.6-1/monomvn/man/returns.Rd | 20 +--
monomvn-1.6-1/monomvn/src/blasso.cc | 171 ++++++++++++++++++--------
monomvn-1.6-1/monomvn/src/blasso.h | 22 ++-
monomvn-1.6-1/monomvn/src/bmonomvn.cc | 12 +
monomvn-1.6-1/monomvn/src/bmonomvn.h | 4
monomvn-1.6/monomvn/.Rbuildindex.20799 |only
21 files changed, 276 insertions(+), 129 deletions(-)
Author: G. Grothendieck
Diff between sqldf versions 0-1.2 dated 2008-12-10 and 0-1.4 dated 2008-12-11
Title: Perform SQL Selects on R Data Frames
Description: Manipulate R data frames using SQL.
sqldf-0-1.2/sqldf/R/osqldf.R |only
sqldf-0-1.4/sqldf/DESCRIPTION | 6 +++---
sqldf-0-1.4/sqldf/inst/NEWS | 7 +++++++
3 files changed, 10 insertions(+), 3 deletions(-)
Author: Chris Stubben, Brook Milligan, Patrick Nantel
Title: Construction and analysis of matrix population models
Description: Construct and analyze projection matrix models from a demography study of marked individuals classified by age or stage. The package covers methods described in Matrix Population Models by Caswell (2001) and Quantitative Conservation Biology by Morris and Doak (2002).
Diff between popbio versions 1.1.9 dated 2008-07-16 and 1.1.11 dated 2008-12-11
popbio-1.1.11/popbio/DESCRIPTION | 6 +- popbio-1.1.11/popbio/R/image2.R |only popbio-1.1.11/popbio/R/stage.vector.plot.R | 6 +- popbio-1.1.11/popbio/inst/ChangeLog | 17 ++++- popbio-1.1.11/popbio/man/01Introduction.Rd | 10 +-- popbio-1.1.11/popbio/man/LTRE.Rd | 3 - popbio-1.1.11/popbio/man/aq.matrix.Rd | 1 popbio-1.1.11/popbio/man/aq.trans.Rd | 5 - popbio-1.1.11/popbio/man/calathea.Rd | 16 +++-- popbio-1.1.11/popbio/man/eigen.analysis.Rd | 34 ++++++----- popbio-1.1.11/popbio/man/hudcorrs.Rd | 1 popbio-1.1.11/popbio/man/hudsonia.Rd | 5 + popbio-1.1.11/popbio/man/image2.Rd |only popbio-1.1.11/popbio/man/monkeyflower.Rd | 33 +++++++---- popbio-1.1.11/popbio/man/stage.vector.plot.Rd | 2 popbio-1.1.11/popbio/man/stoch.growth.rate.Rd | 4 - popbio-1.1.11/popbio/man/teasel.Rd | 74 +++++++++----------------- popbio-1.1.11/popbio/man/tortoise.Rd | 23 ++++---- popbio-1.1.11/popbio/man/whale.Rd | 2 popbio-1.1.9/popbio/inst/._CITATION |only 20 files changed, 123 insertions(+), 119 deletions(-)
Author: Martin Elff
Title: Tools for Management of Survey Data, Graphics, Programming, Statistics, and Simulation
Description: One of the aims of this package is to make life easier for useRs
who deal with survey data sets. It provides an infrastructure for the management of
survey data including value labels, definable missing values, recoding of variables,
production of code books, and import of (subsets of) SPSS and Stata files.
Further, it provides functionality to produce tables and data frames of
arbitrary descriptive statistics and (almost) publication-ready tables
of regression model estimates. Also some convenience tools for
graphics, programming, and simulation are provided.
Diff between memisc versions 0.95-5 dated 2008-10-28 and 0.95-8 dated 2008-12-11
DESCRIPTION | 6 +++--- R/spss-syntax-methods.R | 8 ++++++-- inst/doc/anes48.pdf |binary 3 files changed, 9 insertions(+), 5 deletions(-)
Author: Sanford Weisberg
Diff between dr versions 3.0.2 dated 2007-10-11 and 3.0.3 dated 2008-12-11
Title: Methods for dimension reduction for regression
Description: Functions, methods, and datasets for fitting dimension
reduction regression, using slicing (methods SAVE and SIR), Principal
Hessian Directions (phd, using residuals and the response), and an
iterative IRE. Partial methods, that condition on categorical
predictors are also available. A variety of tests, and stepwise
deletion of predictors, is also included. Also included is
code for computing permutation tests of dimension. Adding additional
methods of estimating dimension is straightforward.
For documentation, see the vignette in the package. Version 3.0.1 corrects
an error in psir and psave first detected with R 2.8.0.
DESCRIPTION | 11
R/psave.R | 10
R/psir.R | 31
Rnew |only
data/banknote.txt | 402 +--
data/mussels.txt | 166 -
inst/doc/.build.timestamp |only
inst/doc/overview.R | 2
inst/doc/overview.Rnw | 31
inst/doc/overview.bbl |only
inst/doc/overview.blg |only
inst/doc/overview.pdf | 5733 +++++++++++++++++++++++-----------------------
inst/doc/overview.pdfsync |only
inst/doc/overview.synctex |only
man/ais.Rd | 1
man/banknote.Rd | 1
man/coord.hyp.basis.Rd | 2
man/dr.coordinate.test.Rd | 2
man/dr.directions.Rd | 2
man/drop1.dr.Rd | 1
man/mussels.Rd | 3
man/plot.dr.Rd | 2
22 files changed, 3258 insertions(+), 3142 deletions(-)
Author: Henrik Bengtsson
Diff between R.utils versions 1.1.0 dated 2008-10-30 and 1.1.1 dated 2008-12-11
Title: Various programming utilities
Description: This package provides utility classes and methods useful when programming in R and developing R packages.
DESCRIPTION | 6 +--
R/Arguments.R | 7 ++--
R/Verbose.R | 14 ++++++++
R/fileAccess.R |only
R/filePath.R | 18 ++++++----
R/gzip.R | 28 ++++++++++++++--
R/readWindowsShortcut.R | 54 +++++++++++++++++++++++--------
R/sourceTo.R | 4 +-
inst/NEWS | 22 ++++++++++++
inst/data-ex/lnkFileWith10BitsInFlag.lnk |only
man/fileAccess.Rd |only
man/gzip.Rd | 3 +
man/readWindowsShortcut.Rd | 13 +++++--
13 files changed, 137 insertions(+), 32 deletions(-)
Author: Douglas Bates
Diff between Matrix versions 0.999375-16 dated 2008-10-19 and 0.999375-17 dated 2008-12-11
Title: Sparse and Dense Matrix Classes and Methods
Description: Classes and methods for dense and sparse matrices and
operations on them using Lapack and SuiteSparse.
ChangeLog | 65 ++
DESCRIPTION | 6
inst/doc/Comparisons.pdf | 964 ++++++++++++++---------------------
inst/doc/Design-issues.pdf |binary
inst/doc/Intro2Matrix.pdf | 1193 ++++++++++++++++++--------------------------
inst/doc/Introduction.pdf |binary
inst/doc/factor2sparse.pdf |only
inst/doc/sparseModels.pdf |binary
inst/include/Matrix.h | 16
inst/include/Matrix_stubs.c | 96 +--
inst/include/cholmod.h | 16
man/CsparseMatrix-class.Rd | 7
src/AMD/Source/Makefile | 4
src/CHMfactor.c | 24
src/CHOLMOD/Lib/Makefile | 210 +++----
src/COLAMD/Source/Makefile | 4
src/Csparse.c | 84 +--
src/Tsparse.c | 4
src/UFconfig/UFconfig.h | 28 +
src/chm_common.c | 101 +--
src/chm_common.h | 6
src/dense.c | 6
src/dgCMatrix.c | 57 --
src/dsCMatrix.c | 36 -
src/init.c | 77 +-
src/t_gCMatrix_colSums.c | 4
tests/validObj.R | 28 -
27 files changed, 1391 insertions(+), 1645 deletions(-)
Author: Dan Bode
Diff between Rsge versions 0.4 dated 2008-09-05 and 0.6.1 dated 2008-12-10
Title: Interface to the SGE Queuing System
Description: This package provides functions for using R with the
SGE cluster/grid queuing system.
DESCRIPTION | 6 +-
ENVIRONMENTS |only
R/sge.get.result.R | 26 +++++++--
R/sge.helpers.R | 19 +++++--
R/sge.options.R | 33 ++++++++++--
R/sge.parApply.R | 127 +++++++++++++++++++++++++++++++-----------------
R/sge.parPrep.R | 104 ++++++++++++++++++++++++++++++++++-----
R/sge.submit.R | 28 ++++++----
README | 56 +++++++++++++++------
TEST_NOTES | 6 +-
inst/README | 56 +++++++++++++++------
inst/RunSgeJob | 41 ++++++++++++++-
man/sge.checkNotNow.Rd | 2
man/sge.get.result.Rd | 10 +--
man/sge.job.status.Rd | 6 --
man/sge.options.Rd |only
man/sge.parApply.Rd | 76 ++++++++++++++++++++--------
man/sge.parPrep.Rd | 2
man/sge.submit.Rd | 62 ++++++++++++++++++++---
test/testEnv.R |only
test/testGlobal.R |only
test/testPar.R | 116 +++++++++++++++++++++-----------------------
test/testSapply.R | 7 +-
test/testSubmit.R | 129 ++++++++++++++++++++++++++++++++++++++++++-------
24 files changed, 670 insertions(+), 242 deletions(-)
Author: G. Grothendieck
Diff between sqldf versions 0-1.1 dated 2007-07-29 and 0-1.2 dated 2008-12-10
Title: Perform SQL Selects on R Data Frames
Description: Manipulate R data frames using SQL.
sqldf-0-1.1/sqldf/a.a |only
sqldf-0-1.2/sqldf/DESCRIPTION | 8 -
sqldf-0-1.2/sqldf/R/osqldf.R |only
sqldf-0-1.2/sqldf/R/sqldf.R | 143 ++++++++++++++++++---
sqldf-0-1.2/sqldf/demo |only
sqldf-0-1.2/sqldf/inst/NEWS | 26 +++
sqldf-0-1.2/sqldf/inst/THANKS |only
sqldf-0-1.2/sqldf/inst/WISHLIST | 17 +-
sqldf-0-1.2/sqldf/inst/sqldf.ann | 24 ++-
sqldf-0-1.2/sqldf/man/sqldf-package.Rd | 2
sqldf-0-1.2/sqldf/man/sqldf.Rd | 215 ++++++++++++++++++++++++++++-----
11 files changed, 362 insertions(+), 73 deletions(-)
Author: Adrian Baddeley
Diff between spatstat versions 1.14-7 dated 2008-11-17 and 1.14-8 dated 2008-12-10
Title: Spatial Point Pattern analysis, model-fitting, simulation, tests
Description: A package for analysing spatial data,
mainly Spatial Point Patterns, including multitype/marked points
and spatial covariates, in any two-dimensional spatial region.
Contains functions for plotting spatial data,
exploratory data analysis, model-fitting, simulation,
spatial sampling, model diagnostics,
and formal inference. Data types include point patterns,
line segment patterns, spatial windows, and
pixel images. Point process models can be
fitted to point pattern data. Cluster type models are fitted
by the method of minimum contrast. Very general Gibbs point
process models can be fitted to point pattern data
using a function ppm similar to lm or glm. Models may
include dependence on covariates, interpoint interaction
and dependence on marks. Fitted models can be simulated automatically.
Also provides facilities for formal inference (such as chi-squared
tests) and model diagnostics (including simulation
envelopes, residuals, residual plots and Q-Q plots).
DESCRIPTION | 6 +++---
INDEX | 3 +++
R/First.R | 10 +++++-----
R/Kmeasure.R | 11 ++++++++---
R/as.im.R | 6 +++++-
R/fryplot.R |only
R/morishita.R |only
R/mpl.R | 16 +++++++++-------
R/quadscheme.S | 7 +++++--
demo/data.R | 6 +++++-
demo/diagnose.R | 6 +++++-
demo/spatstat.R | 17 +++++++++++++----
man/00spatstat.Rd | 9 ++++++++-
man/Kmeasure.Rd | 1 +
man/as.im.Rd | 8 +++++++-
man/fryplot.Rd |only
man/internal.Rd | 2 --
man/miplot.Rd |only
man/pixellate.Rd |only
man/plot.owin.Rd | 9 ++++++++-
man/plot.ppp.Rd | 4 ++++
man/quadratcount.Rd | 3 ++-
22 files changed, 91 insertions(+), 33 deletions(-)
Author: S original by Venables & Ripley.
R port by Brian Ripley
Diff between VR versions 7.2-44 dated 2008-08-14 and 7.2-45 dated 2008-12-10
Bundle: VR
Contains: MASS class nnet spatial
DESCRIPTION | 6
MASS/R/add.R | 5
MASS/R/confint.R | 4
MASS/R/lda.R | 8
MASS/R/polr.R | 8
MASS/R/profiles.R | 3
MASS/R/qda.R | 4
MASS/R/rlm.R | 8
MASS/inst/NEWS | 2
MASS/man/Aids2.Rd | 54 ++--
MASS/man/Animals.Rd | 26 +
MASS/man/Boston.Rd | 109 ++++----
MASS/man/Cars93.Rd | 197 +++++++--------
MASS/man/Cushings.Rd | 40 +--
MASS/man/DDT.Rd | 22 -
MASS/man/GAGurine.Rd | 32 +-
MASS/man/Insurance.Rd | 60 ++--
MASS/man/MASS-internal.Rd | 2
MASS/man/Melanoma.Rd | 59 ++--
MASS/man/Null.Rd | 24 -
MASS/man/OME.Rd | 124 ++++-----
MASS/man/Pima.tr.Rd | 96 +++----
MASS/man/Rabbit.Rd | 64 ++--
MASS/man/Rubber.Rd | 39 +-
MASS/man/SP500.Rd | 8
MASS/man/Sitka.Rd | 42 +--
MASS/man/Sitka89.Rd | 40 +--
MASS/man/Skye.Rd | 40 +--
MASS/man/Traffic.Rd | 53 ++--
MASS/man/UScereal.Rd | 86 +++---
MASS/man/UScrime.Rd | 124 ++++-----
MASS/man/VA.Rd | 58 ++--
MASS/man/abbey.Rd | 6
MASS/man/accdeaths.Rd | 17 -
MASS/man/anorexia.Rd | 39 +-
MASS/man/bacteria.Rd | 27 --
MASS/man/beav1.Rd | 60 ++--
MASS/man/beav2.Rd | 58 ++--
MASS/man/biopsy.Rd | 102 +++----
MASS/man/birthwt.Rd | 58 +---
MASS/man/cabbages.Rd | 46 +--
MASS/man/caith.Rd | 17 -
MASS/man/cats.Rd | 36 +-
MASS/man/cement.Rd | 39 +-
MASS/man/chem.Rd | 12
MASS/man/con2tr.Rd | 17 -
MASS/man/confint.Rd | 56 ++--
MASS/man/coop.Rd | 45 +--
MASS/man/corresp.Rd | 43 +--
MASS/man/cov.rob.Rd | 4
MASS/man/cov.trob.Rd | 8
MASS/man/cpus.Rd | 73 ++---
MASS/man/crabs.Rd | 72 ++---
MASS/man/deaths.Rd | 10
MASS/man/drivers.Rd | 15 -
MASS/man/eagles.Rd | 53 ++--
MASS/man/epil.Rd | 79 +++---
MASS/man/farms.Rd | 12
MASS/man/fgl.Rd | 65 +---
MASS/man/forbes.Rd | 29 --
MASS/man/galaxies.Rd | 36 +-
MASS/man/gehan.Rd | 53 +---
MASS/man/genotype.Rd | 46 +--
MASS/man/gilgais.Rd | 90 +++---
MASS/man/glmmPQL.Rd | 2
MASS/man/hills.Rd | 44 +--
MASS/man/housing.Rd | 56 ++--
MASS/man/immer.Rd | 53 +---
MASS/man/leuk.Rd | 28 +-
MASS/man/lqs.Rd | 4
MASS/man/mammals.Rd | 49 +--
MASS/man/mcycle.Rd | 29 +-
MASS/man/menarche.Rd | 46 +--
MASS/man/michelson.Rd | 43 +--
MASS/man/minn38.Rd | 65 ++--
MASS/man/motors.Rd | 50 +--
MASS/man/muscle.Rd | 51 +--
MASS/man/newcomb.Rd | 27 --
MASS/man/nlschools.Rd | 62 ++--
MASS/man/npk.Rd | 48 +--
MASS/man/npr1.Rd | 38 +-
MASS/man/oats.Rd | 56 ++--
MASS/man/painters.Rd | 81 +++---
MASS/man/petrol.Rd | 68 ++---
MASS/man/phones.Rd | 26 -
MASS/man/quine.Rd | 55 ++--
MASS/man/road.Rd | 53 ++--
MASS/man/rotifer.Rd | 54 +---
MASS/man/ships.Rd | 46 +--
MASS/man/shoes.Rd | 11
MASS/man/shrimp.Rd | 19 -
MASS/man/shuttle.Rd | 65 ++--
MASS/man/snails.Rd | 68 ++---
MASS/man/steam.Rd | 28 +-
MASS/man/stormer.Rd | 50 +--
MASS/man/summary.negbin.Rd | 2
MASS/man/survey.Rd | 100 +++----
MASS/man/waders.Rd | 171 ++++++-------
MASS/man/wtloss.Rd | 26 +
WHATS.NEW | 2
class/R/SOM.R | 14 -
class/R/lvq.R | 16 -
class/R/multiedit.R | 10
nnet/R/multinom.R | 106 ++++----
nnet/R/nnet.R | 587 ++++++++++++++++++++++-----------------------
spatial/R/kr.R | 108 ++++----
spatial/R/pp.R | 10
107 files changed, 2639 insertions(+), 2658 deletions(-)
Author: Paulo J. Ribeiro Jr
Diff between geoR versions 1.6-22 dated 2008-10-14 and 1.6-23 dated 2008-12-09
Title: Analysis of geostatistical data
Description: Geostatistical analysis including traditional, likelihood-based and Bayesian methods.
DESCRIPTION | 6 ++---
INDEX | 1
R/geodata.R | 1
R/likGRF.R | 6 ++---
data/ca20.R | 57 +++++++++++++++++++++++++++----------------------------
data/landim1.rda |only
inst/doc/CHANGES | 14 ++++++++++++-
man/landim1.Rd |only
src/geoR.c | 8 -------
9 files changed, 49 insertions(+), 44 deletions(-)
Author: Stefan Theussl and Kurt Hornik
Title: R/GNU Linear Programming Kit Interface
Description: R interface to the GNU Linear Programing Kit (GLPK version 4.34).
GLPK is open source software for solving large-scale linear programming (LP),
mixed integer linear programming (MILP) and other related problems.
Diff between Rglpk versions 0.2-6 dated 2008-11-17 and 0.2-7 dated 2008-12-09
DESCRIPTION | 10 SVN-REVISION | 4 inst/CHANGELOG | 5 src/glpapi16.c | 9 src/glpapi17.c | 6 src/glpios03.c | 13 src/glpk.h | 12 src/glplib.h | 2 src/glplib01.c | 4 src/glplib02.c | 68 -- src/glplib11.c | 46 - src/glpmpl.h | 153 ++--- src/glpmpl01.c | 62 ++ src/glpmpl03.c | 63 +- src/glpmpl05.c | 1443 +++++++++++++++++-------------------------------- src/glpmpl06.c |only work/integrate_GLPK.sh | 2 17 files changed, 771 insertions(+), 1131 deletions(-)
Author: Vinzenz Erhardt
Title: Zero Inflated Generalized Poisson (ZIGP) regression models
Description: Fit and analyze and compare GP, ZIP and ZIGP regression models
Diff between ZIGP versions 3.0 dated 2008-12-04 and 3.1 dated 2008-12-09
DESCRIPTION | 8 ++++---- R/est.zigp.r | 5 +++-- R/mle.zigp.r | 3 ++- man/ZIGP-package.rd | 13 +++++++------ man/clarke.rd | 20 ++++++++++---------- man/dzigp.rd | 2 +- man/eda.od.rd | 8 ++++---- man/eda.zi.rd | 10 +++++----- man/est.zigp.rd | 15 ++++++++++----- man/mle.zigp.rd | 7 ++++--- man/pzigp.rd | 2 +- man/vuong.rd | 20 ++++++++++---------- 12 files changed, 61 insertions(+), 52 deletions(-)
Author: Achim Zeileis, Friedrich Leisch, Bruce Hansen,
Kurt Hornik, Christian Kleiber
Title: Testing, Monitoring and Dating Structural Changes
Description: Testing, monitoring and dating structural changes in (linear)
regression models. strucchange features tests/methods from
the generalized fluctuation test framework as well as from
the F test (Chow test) framework. This includes methods to
fit, plot and test fluctuation processes (e.g., CUSUM, MOSUM,
recursive/moving estimates) and F statistics, respectively.
It is possible to monitor incoming data online using
fluctuation processes.
Finally, the breakpoints in regression models with structural
changes can be estimated together with confidence intervals.
Emphasis is always given to methods for visualizing the data.
Diff between strucchange versions 1.3-4 dated 2008-10-04 and 1.3-5 dated 2008-12-09
DESCRIPTION | 6 NEWS | 8 inst/doc/strucchange-intro.Rnw | 34 inst/doc/strucchange-intro.pdf | 3535 ++++++++++++++++++++------------------ inst/doc/strucchange.bib |only man/efp.Rd | 3 man/efpFunctional.Rd | 3 man/gefp.Rd | 3 man/sctest.Fstats.Rd | 13 man/sctest.Rd | 13 man/sctest.efp.Rd | 13 tests/strucchange-tests.R | 11 tests/strucchange-tests.Rout.save | 27 13 files changed, 1946 insertions(+), 1723 deletions(-)
Author: Torsten Hothorn, Achim Zeileis, Giovanni Millo, David Mitchell
Title: Testing Linear Regression Models
Description: A collection of tests, data sets and examples
for diagnostic checking in linear regression models.
Diff between lmtest versions 0.9-21 dated 2007-07-26 and 0.9-22 dated 2008-12-09
lmtest-0.9-21/lmtest/README |only lmtest-0.9-21/lmtest/cleanup |only lmtest-0.9-22/lmtest/DESCRIPTION | 6 +++--- lmtest-0.9-22/lmtest/NEWS | 15 ++++++++++++++- lmtest-0.9-22/lmtest/inst/doc/lmtest-intro.pdf |binary lmtest-0.9-22/lmtest/inst/doc/lmtest.bib |only lmtest-0.9-22/lmtest/man/dwtest.Rd | 9 ++++----- lmtest-0.9-22/lmtest/man/resettest.Rd | 11 +++++------ 8 files changed, 26 insertions(+), 15 deletions(-)
Author: Achim Zeileis, Ajay Shah, Ila Patnaik
Title: Exchange Rate Regime Analysis
Description: Exchange rate regression and structural change tools
for estimating, testing, dating, and monitoring
(de facto) exchange rate regimes.
Diff between fxregime versions 0.2-0 dated 2008-08-19 and 0.2-1 dated 2008-12-09
DESCRIPTION | 6 +++--- NEWS | 5 +++++ inst/doc/CNY.pdf |binary inst/doc/INR.pdf |binary man/fxmonitor.Rd | 1 - 5 files changed, 8 insertions(+), 4 deletions(-)
Author: Achim Zeileis (R code) and the R community (fortunes).
Fortune contributions by Torsten Hothorn, Peter Dalgaard,
Uwe Ligges, Kevin Wright, Martin Maechler, Kjetil
Brinchmann Halvorsen, Kurt Hornik, Duncan Murdoch,
Andy Bunn, Ray Brownrigg, Roger Bivand, Spencer Graves,
Jim Lemon, Christian Kleiber, David L. Reiner,
Berton Gunter, Roger Koenker, Charles Berry, Marc Schwartz,
Michael Dewey, Ben Bolker, Peter Dunn, Sarah Goslee.
Title: R Fortunes
Description: R Fortunes
Diff between fortunes versions 1.3-5 dated 2008-06-18 and 1.3-6 dated 2008-12-09
DESCRIPTION | 22 ++++++++++++---------- inst/fortunes/fortunes.csv | 11 +++++++++-- man/fortunes.Rd | 3 +-- 3 files changed, 22 insertions(+), 14 deletions(-)
Author: Achim Zeileis, Kurt Hornik
Title: CRAN Task Views
Description: Server-side and client-side tools for task views
to CRAN-style repositories
Diff between ctv versions 0.4-6 dated 2008-11-05 and 0.4-7 dated 2008-12-09
DESCRIPTION | 6 - NEWS | 5 inst/ctv/Finance.ctv | 28 ++--- inst/ctv/Genetics.ctv | 244 ++++++++++++++++++++++++++++----------------- inst/ctv/Psychometrics.ctv | 4 inst/doc/ctv-howto.pdf |binary man/ctv-server.Rd | 1 7 files changed, 179 insertions(+), 109 deletions(-)
Author: Heloise Lavigne and Aurelien Proye and Jean-Pierre Gattuso. Portions of code and/or corrections were contributed by Jean-Marie Epitalon, Bernard Gentili, Jim Orr and Karline Soetaert
Title: Calculates parameters of the seawater carbonate system
Description: Calculates parameters of the seawater carbonate system
Diff between seacarb versions 2.0.3 dated 2008-11-04 and 2.0.5 dated 2008-12-08
ChangeLog | 15 +++++++++++++++ DESCRIPTION | 6 +++--- R/K1.R | 2 +- R/K1p.R | 2 +- R/K2.R | 4 ++-- R/K2p.R | 2 +- R/K3p.R | 2 +- R/Kb.R | 2 +- R/Kf.R | 11 +++-------- R/Khs.R | 4 ++-- R/Kn.R | 2 +- R/Ks.R | 2 +- R/Ksi.R | 2 +- R/Kspa.R | 2 +- R/Kspc.R | 2 +- R/Kw.R | 2 +- R/carb.R | 2 +- R/kconv.R | 35 ++++++++--------------------------- R/pCa.R | 4 ++-- R/pTA.R | 12 ++++++------ R/pgas.R | 4 ++-- R/pmix.R | 8 ++++---- R/ppH.R | 8 ++++---- man/buffer.Rd | 4 ++-- man/carb.Rd | 4 ++-- man/pCa.Rd | 12 +++++++----- man/pTA.Rd | 10 ++++++---- man/pgas.Rd | 10 ++++++---- man/pmix.Rd | 10 ++++++---- man/ppH.Rd | 10 ++++++---- 30 files changed, 98 insertions(+), 97 deletions(-)
Author: Miika Ahdesmaki and Korbinian Strimmer
Title: Shrinkage Discriminant Analysis
Description: This package performs linear and diagonal discriminant analysis
where the classifier is trained using Stein-type shrinkage estimators.
This approach is particularly suited for high-dimensional classification.
Diff between sda versions 1.0.2 dated 2008-12-04 and 1.0.3 dated 2008-12-08
DESCRIPTION | 10 +- NEWS | 9 ++ R/centroids.R | 9 +- R/predict.sda.R | 8 - R/sda.R | 226 ++++++++++++++++++++++++++++++++++++----------------- man/sda.Rd | 50 +++++++---- man/sda.package.Rd | 2 7 files changed, 214 insertions(+), 100 deletions(-)
Author: Fortran code by Alan Genz, R code by Adelchi Azzalini
Title: The multivariate normal and t distributions
Description: This package provides functions for computing the density and
the distribution function of, and for generating random vectors from the
multivariate normal and multivariate t distributions. It provides functions
similar in scope to those of the package 'mvtnorm', but with some
differences; one of these is that probabilities are computed via a
non-Monte Carlo method.
Diff between mnormt versions 1.2-1 dated 2007-03-18 and 1.3-1 dated 2008-12-08
DESCRIPTION | 6 +++--- R/mnormt.R | 51 ++++++++++++++++++++++++++++++++++++++++++--------- history.txt | 1 + man/dmnorm.Rd | 17 ++++++++++++----- man/dmt.Rd | 44 +++++++++++++++++++++++++++++++++----------- src/biv-nt.f |only 6 files changed, 91 insertions(+), 28 deletions(-)
Author: Guido Schwarzer
Diff between meta versions 0.8-2 dated 2007-02-13 and 0.9-15 dated 2008-12-08
Title: Meta-Analysis
Description: Fixed and random effects meta-analysis. Functions for tests of bias, forest and funnel plot.
DESCRIPTION | 9 -
INDEX | 6
NAMESPACE | 6
R/addSpace.R |only
R/addvar.R |only
R/as.data.frame.meta.R |only
R/forest.R |only
R/funnel.R | 70 +++++++--
R/metabias.R | 4
R/metabin.R | 179 ++++++++++++++++++-----
R/metacont.R | 74 +++++++--
R/metacum.R | 105 ++++++++++---
R/metagen.R | 44 +++++
R/metainf.R | 86 ++++++++---
R/metaprop.R |only
R/p.ci.R | 8 -
R/plot.meta.R | 376 ++++++++++++++++++++++++++++++++-----------------
R/print.meta.R | 166 +++++++++++++++------
R/print.summary.meta.R | 81 +++++++---
R/radial.R | 4
R/summary.meta.R | 103 +++++++++++--
R/trimfill.R | 23 ++
man/addvar.Rd |only
man/forest.Rd |only
man/funnel.Rd | 21 +-
man/metabias.Rd | 23 ++
man/metabin.Rd | 80 +++++++---
man/metacont.Rd | 28 ++-
man/metacum.Rd | 25 ++-
man/metagen.Rd | 15 +
man/metainf.Rd | 30 ++-
man/metaprop.Rd |only
man/plot.meta.Rd | 68 +++++---
man/print.meta.Rd | 25 ++-
man/read.mtv.Rd | 2
man/trimfill.Rd | 37 +++-
36 files changed, 1252 insertions(+), 446 deletions(-)
Author: Holger Froehlich
Diff between gene2pathway versions 1.0.5 dated 2008-11-26 and 1.0.5.3 dated 2008-12-08
Title: Prediction of KEGG pathway membership for individual genes based on InterPro domain signatures
Description: The package takes a list of genes and predicts to which KEGG pathway each gene maps to. This is done by looking at the InterPro domains of each gene. Each prediction is assigned a confidence score. The package also allows to predict connected component membership of genes within signaling pathways. Separate models for each organism supported by KEGG can be trained.
gene2pathway-1.0.5.3/gene2pathway/DESCRIPTION | 7 +-
gene2pathway-1.0.5.3/gene2pathway/R/KEGG2Entrez.R | 8 +-
gene2pathway-1.0.5.3/gene2pathway/R/buildTrainingSet.R | 13 ++--
gene2pathway-1.0.5.3/gene2pathway/R/buildTrainingSet.signaltrans.R | 10 +--
gene2pathway-1.0.5.3/gene2pathway/R/code_train.R | 4 +
gene2pathway-1.0.5.3/gene2pathway/R/color.pathway.by.elements.R | 6 +-
gene2pathway-1.0.5.3/gene2pathway/R/gene2pathway.R | 23 ++++----
gene2pathway-1.0.5.3/gene2pathway/R/gene2pathway.signaltrans.R | 27 ++++------
gene2pathway-1.0.5.3/gene2pathway/R/get.element.relations.by.pathway.R | 6 +-
gene2pathway-1.0.5.3/gene2pathway/R/get.elements.by.pathway.R | 6 +-
gene2pathway-1.0.5.3/gene2pathway/R/getComponents.R | 2
gene2pathway-1.0.5.3/gene2pathway/R/getInterProDomains.R | 2
gene2pathway-1.0.5.3/gene2pathway/R/getKEGGHierarchy.R | 3 -
gene2pathway-1.0.5.3/gene2pathway/R/retrain.R | 12 ++--
gene2pathway-1.0.5.3/gene2pathway/R/test.overrepresentation.R | 15 +++--
gene2pathway-1.0.5.3/gene2pathway/data/classificationModelSignalTrans_dme.rda |binary
gene2pathway-1.0.5.3/gene2pathway/data/classificationModelSignalTrans_hsa.rda |binary
gene2pathway-1.0.5.3/gene2pathway/data/classificationModel_dme.rda |binary
gene2pathway-1.0.5.3/gene2pathway/inst/doc/gene2pathway.Rnw | 2
gene2pathway-1.0.5.3/gene2pathway/inst/doc/gene2pathway.pdf |binary
gene2pathway-1.0.5.3/gene2pathway/man/classificationModel.Rd | 2
gene2pathway-1.0.5.3/gene2pathway/man/classificationModelSignalTrans.Rd | 2
gene2pathway-1.0.5.3/gene2pathway/man/gene2pathway.Rd | 2
gene2pathway-1.0.5/gene2pathway/inst/doc/.build.timestamp |only
24 files changed, 81 insertions(+), 71 deletions(-)
Author: Jun Yan
Diff between geepack versions 1.0-15 dated 2008-12-01 and 1.0-16 dated 2008-12-08
Title: Generalized Estimating Equation Package
Description: Generalized estimating equations solver for parameters in mean, scale, and correlation structures, through mean link, scale link, and correlation link. Can also handle clustered categorical responses.
ChangeLog | 18 ++++++++++++++++++
DESCRIPTION | 4 ++--
R/geeglm.R | 16 ++++++++++++----
man/geeglm.Rd | 6 +++++-
4 files changed, 37 insertions(+), 7 deletions(-)
Author: Tim Coelli
Diff between frontier versions 0.9-4 dated 2008-10-16 and 0.9-6 dated 2008-12-08
Title: Stochastic Frontier Analysis
Description: Maximum Likelihood Estimation of
Stochastic Frontier Production and Cost Functions.
Two specifications are available:
the error components specification with time-varying efficiencies
(Battese and Coelli, 1992)
and a model specification in which the firm effects are directly
influenced by a number of variables (Battese and Coelli, 1995).
DESCRIPTION | 6
NAMESPACE | 9 +
R/checkNames.R |only
R/coef.front41Output.R |only
R/front41Est.R |only
R/front41ReadOutput.R |only
R/front41WriteInput.R |only
R/print.front41Output.R |only
R/print.summary.front41Output.R |only
R/summary.front41Output.R |only
inst |only
man/coef.front41Output.Rd |only
man/front41Est.Rd |only
man/front41ReadOutput.Rd |only
man/front41WriteInput.Rd |only
man/summary.front41Output.Rd |only
tests/frontier41.R |only
tests/frontier41.Rout.save |only
tests/frontierTest.Rout.save | 276 ++++++++++++++++++++--------------------
19 files changed, 150 insertions(+), 141 deletions(-)
Author: John Fox
Diff between effects versions 2.0-0 dated 2008-11-28 and 2.0-1 dated 2008-12-08
Title: Effect Displays for Linear, Generalized Linear, Multinomial-Logit, and Proportional-Odds Logit Models
Description:
Graphical and tabular effect displays, e.g., of interactions, for linear
generalized linear, multinomial-logit, and proportional-odds logit models.
DESCRIPTION | 8 ++++----
R/effects.R | 4 ++--
inst/CHANGES | 4 ++++
3 files changed, 10 insertions(+), 6 deletions(-)
Author: Andy Bunn
Title: Dendrochronology Program Library in R
Description: This package contains functions for performing some standard tree-ring analyses.
Diff between dplR versions 1.1.3 dated 2008-09-17 and 1.1.5 dated 2008-12-08
DESCRIPTION | 6 +-- R/skel.plot.R | 89 ++++++++++++++++++++++++++++++++++++++++--------------- inst/CITATION | 3 + man/skel.plot.Rd | 13 +++++--- 4 files changed, 80 insertions(+), 31 deletions(-)
Author: Florian Camphausen, Matthias Kohl, Peter Ruckdeschel, Thomas
Stabla
Title: Estimation and Testing classes based on package distr
Description: Evaluation (S4-)classes based on package distr for
evaluating procedures (estimators/tests) at data/simulation in
a unified way.
Diff between distrTEst versions 2.0.3 dated 2008-11-30 and 2.0.4 dated 2008-12-08
DESCRIPTION | 6 +++--- man/0distrTEst-package.Rd | 5 +++-- man/evaluate-methods.Rd | 4 ++-- 3 files changed, 8 insertions(+), 7 deletions(-)
Author: Matthias Kohl, Peter Ruckdeschel
Title: Object orientated implementation of probability models
Description: Object orientated implementation of probability models
based on packages 'distr' and 'distrEx'
Diff between distrMod versions 2.0.3 dated 2008-11-30 and 2.0.4 dated 2008-12-08
DESCRIPTION | 6 +++--- man/0distrMod-package.Rd | 4 ++-- man/solve-methods.Rd | 6 +++--- man/sqrt-methods.Rd | 2 +- 4 files changed, 9 insertions(+), 9 deletions(-)
Author: Lester L. Yuan
Title: Compute biological inferences
Description: Imports benthic count data, reformats this data, and computes environmental inferences from this data.
Diff between bio.infer versions 1.1-4 dated 2008-11-24 and 1.1-5 dated 2008-12-08
DESCRIPTION | 6 ++--- R/get.taxonomic.R | 61 +++++++++++++++++++++++++-------------------------- data/itis.ttable.rda |binary 3 files changed, 34 insertions(+), 33 deletions(-)
Author: Matthias Kohl, Peter Ruckdeschel
Title: Robust Asymptotic Statistics
Description: Base S4-classes and functions for robust asymptotic
statistics.
Diff between RobAStBase versions 0.1.3 dated 2008-11-30 and 0.1.4 dated 2008-12-08
DESCRIPTION | 6 +++--- R/ddPlot.R | 14 ++++---------- man/0RobAStBase-package.Rd | 7 ++++--- man/infoPlot.Rd | 4 ++-- man/plot-methods.Rd | 2 +- 5 files changed, 14 insertions(+), 19 deletions(-)
Author: Peter Frommolt
Title: Standardized high-throughput evaluation of cell-based compound screens
Description: Calculation of IC50 values, automatic drawing of dose-response curves and validation of compound screens on 96- and 384-well plates.
Diff between ic50 versions 1.3 dated 2008-10-14 and 1.4.1 dated 2008-12-06
DESCRIPTION | 10 +++++----- R/evaluation.R | 2 +- R/ic50.96.R | 4 ++-- R/ic50.R | 2 +- man/design.Rd | 14 +++++++------- man/hts.Rd | 22 ++++++++++++---------- man/ic50.Rd | 22 ++++++++++++---------- man/nsclc.Rd | 14 +++++++------- 8 files changed, 47 insertions(+), 43 deletions(-)
Author: Max Kuhn, Steve Weston
Title: Classification and Regression Training in Parallel Using NetworkSpaces
Description: Augment some caret functions using parallel processing
Diff between caretNWS versions 0.23 dated 2008-09-05 and 0.25 dated 2008-12-06
DESCRIPTION | 7 ++++--- R/trainNWS.R | 2 +- man/trainNWS.Rd | 46 +++++++++++++++++++++++++++++----------------- 3 files changed, 34 insertions(+), 21 deletions(-)
Author: Max Kuhn, Nathan Coulter
Title: Classification and Regression Training LSF Style
Description: Augment some caret functions for parallel processing
Diff between caretLSF versions 1.23 dated 2008-09-05 and 1.25 dated 2008-12-06
DESCRIPTION | 7 ++++--- R/trainLSF.R | 2 +- man/trainLSF.Rd | 45 ++++++++++++++++++++++++++++----------------- 3 files changed, 33 insertions(+), 21 deletions(-)
Author: Max Kuhn. Contributions from Jed Wing, Steve Weston and Andre Williams
Title: Classification and Regression Training
Description: Misc functions for training and plotting classification and regression models
Diff between caret versions 3.45 dated 2008-10-19 and 3.51 dated 2008-12-06
DESCRIPTION | 9 NAMESPACE | 2 R/bagEarth.R | 19 R/createGrid.R | 9 R/createModel.R | 183 R/misc.R | 84 R/plsda.R | 24 R/predictionFunction.R | 53 R/probFunction.R | 46 R/resampleHist.R | 2 R/selection.R | 13 R/train.default.R | 2 inst/CHANGES | 39 inst/doc/caretMisc.R |only inst/doc/caretMisc.pdf |16562 +++++++++++++++++++++++++++++++++++++++++++-- inst/doc/caretTrain.R |only inst/doc/caretTrain.Rnw | 87 inst/doc/caretTrain.pdf |binary inst/doc/caretVarImp.R |only inst/doc/caretVarImp.pdf |binary man/applyProcessing.Rd | 3 man/aucRoc.Rd | 12 man/bagEarth.Rd | 10 man/confusionMatrix.Rd | 16 man/createDataPartition.Rd | 9 man/extractPrediction.Rd | 18 man/maxDissim.Rd | 55 man/plot.train.Rd | 2 man/preProcess.Rd | 4 man/train.Rd | 15 30 files changed, 16446 insertions(+), 832 deletions(-)
Author: Arnost Komarek
Diff between bayesSurv versions 0.6 dated 2008-11-26 and 0.6-1 dated 2008-12-06
Title: Bayesian Survival Regression with Flexible Error and Random Effects Distributions
Description: Later
CHANGES | 3 +++
DESCRIPTION | 6 +++---
R/bayessurvreg2.R | 2 +-
R/bayessurvreg2.priorBeta.R | 3 ++-
4 files changed, 9 insertions(+), 5 deletions(-)
Author: Rory Michelland
Diff between StatFingerprints versions 1.0 dated 2008-11-21 and 1.1 dated 2008-12-06
More information about StatFingerprints at CRAN
Title: StatFingerprints
Description: processing and statistical analysis of molecular fingerprint profiles
DESCRIPTION | 10 +++---
R/StatFingerprints.R | 65 +++++++++-------------------------------
R/iterative.testGUI.R | 22 ++++++++++++-
R/plotordGUI.R | 3 +
inst/doc/StatFingerprintsUM.pdf |binary
5 files changed, 43 insertions(+), 57 deletions(-)
Permanent link
Author: Mathieu Ribatet
Diff between SpatialExtremes versions 1.0-0 dated 2008-10-16 and 1.0-1 dated 2008-12-06
More information about SpatialExtremes at CRAN
Title: Modelling Spatial Extremes
Description: This package proposes several approaches for spatial extremes modelling.
ChangeLog | 880 ---
DESCRIPTION | 12
R/covariance.R | 2
R/extcoeff.R | 104
R/fitcovmat.R | 173
R/fitmaxstable.R | 67
R/geomgauss.R | 2
R/gradients.R | 29
R/nsgeomgauss.R |only
R/plots.R | 28
R/smith.R | 212
R/starting.values.R | 119
inst/doc/SpatialExtremesGuide.pdf | 8378 ++++++++++++++++++++++----------------
man/fitcovmat.Rd | 9
man/fitmaxstab.Rd | 9
man/internals.Rd | 3
man/madogram.Rd | 16
man/qqextcoeff.Rd |only
src/covariance.c | 162
src/extcoeff.c | 5
src/fitcovmat.c | 49
src/geomgauss.c | 66
src/header.h | 31
src/nsgeomgauss.c |only
src/pairwiselik.c | 11
src/schlather.c | 85
src/schlatherind.c | 95
src/smith.c | 70
src/smith3d.c | 59
src/univllik.c | 12
src/utils.c | 76
31 files changed, 6021 insertions(+), 4743 deletions(-)
Permanent link
Author: Hao Yu
Title: Interface (Wrapper) to MPI (Message-Passing Interface)
Description: Rmpi provides an interface (wrapper) to MPI APIs. It also
provides interactive R slave environment.
Diff between Rmpi versions 0.5-5 dated 2007-10-24 and 0.5-6 dated 2008-12-06
Rmpi-0.5-5/Rmpi/inst/sleep.exe |only Rmpi-0.5-6/Rmpi/DESCRIPTION | 8 Rmpi-0.5-6/Rmpi/R/Rcoll.R | 752 ++++++++++++++++---------------- Rmpi-0.5-6/Rmpi/R/Rmpi.R | 15 Rmpi-0.5-6/Rmpi/R/Rparutilities.R | 51 +- Rmpi-0.5-6/Rmpi/R/zzz.R | 17 Rmpi-0.5-6/Rmpi/README | 14 Rmpi-0.5-6/Rmpi/configure | 5 Rmpi-0.5-6/Rmpi/configure.ac | 5 Rmpi-0.5-6/Rmpi/inst/Rprofile | 6 Rmpi-0.5-6/Rmpi/inst/Rslaves.bat | 2 Rmpi-0.5-6/Rmpi/man/mpi.bcast.Robj.Rd | 7 Rmpi-0.5-6/Rmpi/man/mpi.scatter.Robj.Rd | 16 Rmpi-0.5-6/Rmpi/src/Makevars.win | 8 Rmpi-0.5-6/Rmpi/src/Rmpi.c | 24 - 15 files changed, 495 insertions(+), 435 deletions(-)
Author: Russell V. Lenth
Title: Response-surface analysis
Description: Provides functions to fit first- and second-order
response-surface models, make contour plots, obtain the path
of steepest ascent, and do canonical analysis.
Diff between rsm versions 1.0 dated 2008-12-01 and 1.01 dated 2008-12-05
rsm-1.0/rsm/R/contour-code.R |only rsm-1.0/rsm/Read-and-delete-me |only rsm-1.0/rsm/inst/doc/index.html |only rsm-1.0/rsm/inst/doc/rsm-vignette.pdf |only rsm-1.01/rsm/DESCRIPTION | 10 ++--- rsm-1.01/rsm/R/coding.R | 21 ++++++----- rsm-1.01/rsm/R/contour-lm.R |only rsm-1.01/rsm/inst/doc/rsm.Rtex |only rsm-1.01/rsm/inst/doc/rsm.pdf |only rsm-1.01/rsm/man/contour.lm.Rd | 63 ++++++++++++++++++---------------- rsm-1.01/rsm/man/model.data.Rd | 5 +- rsm-1.01/rsm/man/rsm-package.Rd | 18 +-------- rsm-1.01/rsm/man/steepest.Rd | 2 - 13 files changed, 59 insertions(+), 60 deletions(-)
Author: David A. James and Saikat DebRoy
Title: R interface to the MySQL database
Description: Database interface and MySQL driver for R.
This version complies with the database interface
definition as implemented in the package DBI 0.2-2.
Diff between RMySQL versions 0.6-1 dated 2008-09-08 and 0.7-2 dated 2008-12-05
RMySQL-0.6-1/RMySQL/inst/Copyrights |only RMySQL-0.6-1/RMySQL/inst/gnu |only RMySQL-0.6-1/RMySQL/src/getopt.h |only RMySQL-0.7-2/RMySQL/DESCRIPTION | 10 RMySQL-0.7-2/RMySQL/NAMESPACE | 2 RMySQL-0.7-2/RMySQL/R/MySQLSupport.R | 62 +++-- RMySQL-0.7-2/RMySQL/R/zzz.R | 66 ++++- RMySQL-0.7-2/RMySQL/configure.win | 53 +--- RMySQL-0.7-2/RMySQL/inst/FindMySQLhome.R |only RMySQL-0.7-2/RMySQL/inst/INSTALL.win | 10 RMySQL-0.7-2/RMySQL/inst/NEWS | 16 + RMySQL-0.7-2/RMySQL/inst/README.windows | 76 ------ RMySQL-0.7-2/RMySQL/man/MySQL.Rd | 19 - RMySQL-0.7-2/RMySQL/man/dbConnect-methods.Rd | 16 - RMySQL-0.7-2/RMySQL/src/Makevars |only RMySQL-0.7-2/RMySQL/src/Makevars.win | 16 - RMySQL-0.7-2/RMySQL/src/RS-MySQL.c | 326 ++++++++++----------------- RMySQL-0.7-2/RMySQL/src/RS-MySQL.h | 41 +-- RMySQL-0.7-2/RMySQL/tests |only 19 files changed, 311 insertions(+), 402 deletions(-)
Author: Andrew D. Martin
Diff between MCMCpack versions 0.9-4 dated 2008-03-03 and 0.9-5 dated 2008-12-05
Title: Markov chain Monte Carlo (MCMC) Package
Description: This package contains functions to perform Bayesian
inference using posterior simulation for a number of statistical
models. Most simulation is done in compiled C++ written in the Scythe
Statistical Library Version 1.0.2. All models return coda mcmc objects
that can then be summarized using the coda package. MCMCpack
also contains some useful utility functions, including some
additional density functions and pseudo-random number generators
for statistical distributions, a general purpose Metropolis
sampling algorithm, and tools for visualization.
DESCRIPTION | 8 +--
HISTORY | 9 ++++
LICENSE | 14 +++---
NAMESPACE | 3 -
R/BayesFactors.R | 13 +++++
R/MCMCSVDreg.R | 11 ++++
R/MCMCdynamicEI.R | 19 ++++++--
R/MCMCfactanal.R | 9 +++-
R/MCMChierEI.R | 19 ++++++--
R/MCMCirt1d.R | 10 ++++
R/MCMCirtHier1d.R |only
R/MCMCirtKd.R | 7 +++
R/MCMCirtKdRob.R | 7 +++
R/MCMClogit.R | 14 +++++-
R/MCMCmetrop1R.R | 10 ++++
R/MCMCmixfactanal.R | 7 +++
R/MCMCmnl.R | 12 ++++-
R/MCMCoprobit.R | 10 ++++
R/MCMCordfactanal.R | 7 +++
R/MCMCpoisson.R | 23 +++++++---
R/MCMCpoissonChangepoint.R | 10 ++++
R/MCMCprobit.R | 14 +++++-
R/MCMCregress.R | 14 +++++-
R/MCMCtobit.R | 18 +++++++-
R/MCmodels.R | 14 ++++++
R/automate.R | 11 ++++
R/btsutil.R | 20 +++++++--
R/distn.R | 21 +++++----
R/hidden.R | 7 +--
R/procrust.R | 10 ++++
R/scythe.R | 12 ++++-
R/tomog.R | 15 +++++-
R/utility.R | 13 +++++
R/zzz.R | 12 +++++
README | 5 --
man/MCMCSVDreg.Rd | 2
man/MCMCfactanal.Rd | 2
man/MCMCirt1d.Rd | 2
man/MCMCirtHier1d.Rd |only
man/MCMClogit.Rd | 2
man/MCMCmnl.Rd | 10 ++--
man/MCMCpoisson.Rd | 2
man/MCMCprobit.Rd | 2
man/MCMCregress.Rd | 2
man/MCMCtobit.Rd | 2
src/MCMCSVDreg.cc | 8 ++-
src/MCMCdynamicEI.cc | 8 +++
src/MCMCdynamicIRT1d-b.cc |only
src/MCMCdynamicIRT1d.cc |only
src/MCMCfactanal.cc | 8 ++-
src/MCMCfcds.h | 93 ++++++++++++++++++++++++++++++++++++++++--
src/MCMChierEI.cc | 6 ++
src/MCMCirt1d.cc | 6 ++
src/MCMCirtHier1d.cc |only
src/MCMCirtKdRob.cc | 8 ++-
src/MCMClogit.cc | 10 +++-
src/MCMClogituserprior.cc | 9 ++--
src/MCMCmetrop1R.cc | 8 ++-
src/MCMCmixfactanal.cc | 8 ++-
src/MCMCmnl.h | 9 +++-
src/MCMCmnlMH.cc | 9 +++-
src/MCMCmnlslice.cc | 9 +++-
src/MCMCoprobit.cc | 9 +++-
src/MCMCordfactanal.cc | 8 ++-
src/MCMCpoisson.cc | 9 +++-
src/MCMCpoissonChangepoint.cc | 6 ++
src/MCMCprobit.cc | 8 ++-
src/MCMCprobitres.cc | 9 +++-
src/MCMCregress.cc | 8 ++-
src/MCMCrng.h | 8 ++-
src/MCMCtobit.cc | 9 +++-
71 files changed, 591 insertions(+), 116 deletions(-)
Author: Diethelm Wuertz and Yohan Chalabi
Title: Rmetrics - Financial Time Series Objects
Description: Environment for teaching "Financial Engineering and
Computational Finance"
Diff between timeSeries versions 280.78 dated 2008-10-27 and 290.79 dated 2008-12-04
DESCRIPTION | 16 +++++++++------- R/time.R | 5 +++-- 2 files changed, 12 insertions(+), 9 deletions(-)
Author: Sřren Hřjsgaard
Diff between gRbase versions 0.6.0 dated 2008-10-13 and 0.6.4 dated 2008-12-04
Title: A package for graphical modelling in R
Description: This package defines S3-classes gmData (graphical meta data), gModel (graphical model). Several other graphical modelling packages rely on these fundamental constructs. gRbase illustrates how hierarchical log-linear models (hllm) may be implemented.
gRbase-0.6.0/gRbase/man/DATA-cad1.Rd |only
gRbase-0.6.0/gRbase/man/graph-operations.Rd |only
gRbase-0.6.4/gRbase/ChangeLog | 22 +++
gRbase-0.6.4/gRbase/DESCRIPTION | 6
gRbase-0.6.4/gRbase/INDEX | 8 -
gRbase-0.6.4/gRbase/R/GraphSH2.R | 31 ----
gRbase-0.6.4/gRbase/R/Graphsh-mcs-moral-rip.R | 18 +-
gRbase-0.6.4/gRbase/R/Graphsh-querygSH2.R | 178 +++++++++++++++-----------
gRbase-0.6.4/gRbase/R/formulae.R | 58 --------
gRbase-0.6.4/gRbase/R/hllm.R | 34 ++++
gRbase-0.6.4/gRbase/R/processFormula.R |only
gRbase-0.6.4/gRbase/R/processFormula2.R |only
gRbase-0.6.4/gRbase/R/setopsR.R | 7 +
gRbase-0.6.4/gRbase/R/utilities.R |only
gRbase-0.6.4/gRbase/R/utility.R | 3
gRbase-0.6.4/gRbase/data/breastcancer.RData |only
gRbase-0.6.4/gRbase/data/carcassall.txt |only
gRbase-0.6.4/gRbase/inst/doc/gRbase.pdf |binary
gRbase-0.6.4/gRbase/man/DATA-breastcancer.Rd |only
gRbase-0.6.4/gRbase/man/DATA-cad.Rd |only
gRbase-0.6.4/gRbase/man/DATA-carcass.Rd | 45 ++++--
gRbase-0.6.4/gRbase/man/gRbase-internal.Rd | 3
gRbase-0.6.4/gRbase/man/gRbase-utilities.Rd | 2
gRbase-0.6.4/gRbase/man/graph-operations1.Rd |only
gRbase-0.6.4/gRbase/man/graph-operations2.Rd |only
gRbase-0.6.4/gRbase/man/newUG.Rd | 60 +++++---
gRbase-0.6.4/gRbase/man/querygraph.Rd | 13 -
gRbase-0.6.4/gRbase/src/Makevars |only
28 files changed, 279 insertions(+), 209 deletions(-)
Author: Sřren Hřjsgaard
Diff between gRain versions 0.4.0 dated 2008-10-28 and 0.4.1 dated 2008-12-04
Title: Graphical Independence Networks
Description: A package for probability propagation in graphical independence networks, also known as probabilistic expert systems (which includes Bayesian networks as a special case).
ChangeLog | 7 +++++++
DESCRIPTION | 4 ++--
R/gmInstance.R | 2 +-
inst/doc/gRain-intro.pdf |binary
4 files changed, 10 insertions(+), 3 deletions(-)
Author: Karsten Tabelow
Diff between dti versions 0.5-4 dated 2008-05-21 and 0.6-0 dated 2008-12-04
Title: DTI Analysis
Description: Diffusion Weighted Imaging is a Magnetic Resonance Imaging
modality, that measures diffusion of water in tissues like the human brain.
The package contains R-functions to process diffusion-weighted data in the
context of the diffusion tensor model (DTI). This includes the calculation
of anisotropy measures and, most important, the implementation of our structural
adaptive smoothing algorithm as described in K. Tabelow, J. Polzehl, V. Spokoiny,
and H.U. Voss, Diffusion Tensor Imaging: Structural Adaptive Smoothing,
Neuroimage 39(4), 1763-1773 (2008).
dti-0.5-4/dti/R/awsvar.r |only
dti-0.5-4/dti/R/propagation.r |only
dti-0.5-4/dti/man/dti.smooth.Rd |only
dti-0.5-4/dti/man/dtiData-class.Rd |only
dti-0.5-4/dti/man/dtiData.Rd |only
dti-0.5-4/dti/man/dtiIndices-class.Rd |only
dti-0.5-4/dti/man/dtiIndices.Rd |only
dti-0.5-4/dti/man/dtiTensor-class.Rd |only
dti-0.5-4/dti/man/dtiTensor.Rd |only
dti-0.5-4/dti/man/medinria2tensor.Rd |only
dti-0.5-4/dti/man/plot.Rd |only
dti-0.5-4/dti/man/print.Rd |only
dti-0.5-4/dti/man/summary.Rd |only
dti-0.5-4/dti/man/tensor2medinria.Rd |only
dti-0.5-4/dti/src/dtinraws.f |only
dti-0.5-4/dti/src/nlrdti.f |only
dti-0.5-4/dti/src/riemann.f |only
dti-0.6-0/dti/DESCRIPTION | 8
dti-0.6-0/dti/HISTORY | 10
dti-0.6-0/dti/NAMESPACE | 7
dti-0.6-0/dti/R/Classes.r | 25
dti-0.6-0/dti/R/aws.r | 256 +------
dti-0.6-0/dti/R/aws2.r | 188 +++--
dti-0.6-0/dti/R/dti.r | 1039 +++++++++++++++++++++++++++++---
dti-0.6-0/dti/R/misc.r | 69 +-
dti-0.6-0/dti/R/varest.r |only
dti-0.6-0/dti/README | 59 +
dti-0.6-0/dti/demo/dti_art.r | 254 ++-----
dti-0.6-0/dti/inst/rcode |only
dti-0.6-0/dti/man/dti-class.Rd | 113 ++-
dti-0.6-0/dti/man/dti-package.Rd |only
dti-0.6-0/dti/man/dti.smooth-methods.Rd |only
dti-0.6-0/dti/man/dtiIndices-methods.Rd |only
dti-0.6-0/dti/man/dtiTensor-methods.Rd |only
dti-0.6-0/dti/man/extract-methods.Rd |only
dti-0.6-0/dti/man/medinria.Rd |only
dti-0.6-0/dti/man/plot-methods.Rd |only
dti-0.6-0/dti/man/print-methods.Rd |only
dti-0.6-0/dti/man/readDWIdata.Rd |only
dti-0.6-0/dti/man/sdpar-methods.Rd |only
dti-0.6-0/dti/man/show-methods.Rd |only
dti-0.6-0/dti/man/show3d-methods.Rd |only
dti-0.6-0/dti/man/summary-methods.Rd |only
dti-0.6-0/dti/src/aniso.f | 381 ++++++-----
dti-0.6-0/dti/src/awsvar.f | 233 +++++--
dti-0.6-0/dti/src/dtinraw2.f | 588 ++++++------------
dti-0.6-0/dti/src/misc.f | 124 +++
dti-0.6-0/dti/src/nlrdtirg.f | 129 +--
dti-0.6-0/dti/src/rice.f |only
49 files changed, 2148 insertions(+), 1335 deletions(-)
Author: Susanne Gammelgaard Bottcher
Diff between deal versions 1.2-30 dated 2007-04-20 and 1.2-31 dated 2008-12-04
Title: Learning Bayesian Networks with Mixed Variables
Description: Bayesian networks with continuous and/or discrete variables can be learned and compared from data.
deal-1.2-30/deal/CHANGES.txt |only
deal-1.2-31/deal/CHANGELOG |only
deal-1.2-31/deal/DESCRIPTION | 8 ++++----
deal-1.2-31/deal/R/autosearch.R | 6 +++---
deal-1.2-31/deal/R/heuristic.R | 6 +++---
deal-1.2-31/deal/R/jointdisc.R | 9 ++++++---
deal-1.2-31/deal/man/autosearch.Rd | 8 +++++---
deal-1.2-31/deal/man/deal-internal.Rd | 6 +++---
deal-1.2-31/deal/man/drawnetwork.Rd | 8 +++++---
deal-1.2-31/deal/man/genlatex.Rd | 30 +++++++++++++++---------------
deal-1.2-31/deal/man/insert.Rd | 8 ++++----
deal-1.2-31/deal/man/jointprior.Rd | 12 ++++++------
deal-1.2-31/deal/man/learn.Rd | 12 ++++++------
deal-1.2-31/deal/man/makesimprob.Rd | 8 ++++----
deal-1.2-31/deal/man/maketrylist.Rd | 8 ++++----
deal-1.2-31/deal/man/network.Rd | 8 ++++----
deal-1.2-31/deal/man/networkfamily.Rd | 8 ++++----
deal-1.2-31/deal/man/node.Rd | 8 ++++----
deal-1.2-31/deal/man/numbermixed.Rd | 12 ++++++------
deal-1.2-31/deal/man/nwfsort.Rd | 7 ++++---
deal-1.2-31/deal/man/nwfunique.Rd | 8 ++++----
deal-1.2-31/deal/man/perturb.Rd | 8 ++++----
deal-1.2-31/deal/man/prob.Rd | 8 ++++----
deal-1.2-31/deal/man/readnet.Rd | 3 ++-
deal-1.2-31/deal/man/rnetwork.Rd | 8 ++++----
deal-1.2-31/deal/man/score.Rd | 11 +++++++----
26 files changed, 115 insertions(+), 103 deletions(-)
Author: Dirk Eddelbuettel
Diff between RQuantLib versions 0.2.9 dated 2008-08-11 and 0.2.10 dated 2008-12-04
Title: R interface to the QuantLib library
Description: The RQuantLib package makes selected parts of QuantLib
visible to the R user. Currently some basic option pricing
functions are included, as well as fixed-income functions that
can be used for interest rate curve construction and Bermuda
swaption pricing. Further software contributions are welcome.
The QuantLib project aims to provide a comprehensive software
framework for quantitative finance. The goal is to provide a
standard open source library for quantitative analysis,
modeling, trading, and risk management of financial
assets.
The Windows binary version is self-contained and does not require
a QuantLib (or Boost) installation.
RQuantLib use the Rcpp R/C++ interface class library. See the Rcpp
package on CRAN (or R-Forge) for more information on Rcpp.
Note that while RQuantLib's code is licensed under the GPL (v2 or
later), QuantLib itself is released under a somewhat less
restrictive Open Source license (see QuantLib-License.txt).
RQuantLib-0.2.10/RQuantLib/DESCRIPTION | 53 +-
RQuantLib-0.2.10/RQuantLib/INDEX | 1
RQuantLib-0.2.10/RQuantLib/configure | 676 +++++++++++----------------
RQuantLib-0.2.10/RQuantLib/configure.in | 93 ++-
RQuantLib-0.2.10/RQuantLib/configure.win | 13
RQuantLib-0.2.10/RQuantLib/inst/ChangeLog | 22
RQuantLib-0.2.10/RQuantLib/src/Makefile.win | 23
RQuantLib-0.2.10/RQuantLib/src/bermudan.cpp | 14
RQuantLib-0.2.10/RQuantLib/src/discount.cpp | 10
RQuantLib-0.2.10/RQuantLib/src/rquantlib.hpp | 13
RQuantLib-0.2.10/RQuantLib/src/utils.cpp | 6
RQuantLib-0.2.9/RQuantLib/R/RcppVersion.R |only
RQuantLib-0.2.9/RQuantLib/RcppSrc |only
RQuantLib-0.2.9/RQuantLib/man/RcppVersion.Rd |only
14 files changed, 442 insertions(+), 482 deletions(-)
Author: Korbinian Strimmer
Title: Shrinkage Discriminant Analysis
Description: This package performs linear and diagonal discriminant analysis
where the classifier is trained using Stein-type shrinkage estimators.
This approach is particularly suited for high-dimensional classification.
Diff between sda versions 1.0.1 dated 2008-11-22 and 1.0.2 dated 2008-12-04
DESCRIPTION | 8 ++--- NEWS | 15 ++++++++- R/centroids.R | 57 +++++++++++++++++++++++------------ R/predict.sda.R | 51 +++++++++++++------------------- R/sda.R | 84 +++++++++++++++++++++++++++++++++++------------------ data |only man/centroids.Rd | 33 +++++++++++++------- man/khan2001.Rd |only man/sda.Rd | 82 +++++++++++++++++++++++++-------------------------- man/sda.package.Rd | 2 - 10 files changed, 194 insertions(+), 138 deletions(-)
Author: Alberto Viglione
Title: Non-supervised Regional Frequency Analysis
Description: A collection of statistical tools for objective (non-supervised) applications
of the Regional Frequency Analysis methods in hydrology.
The package refers to the index-value method and, more precisely, helps the
hydrologist to: (1) regionalize the index-value; (2) form homogeneous regions
with similar growth curves; (3) fit distribution functions to the
empirical regional growth curves.
Diff between nsRFA versions 0.6-2 dated 2008-09-19 and 0.6-4 dated 2008-12-04
nsRFA-0.6-2/nsRFA/inst/doc/.build.timestamp |only nsRFA-0.6-4/nsRFA/DESCRIPTION | 6 nsRFA-0.6-4/nsRFA/R/BayesianMCMC.R | 324 ++++++++++++++++++++++- nsRFA-0.6-4/nsRFA/inst/doc/Fig1ElamirSeheult.pdf |binary nsRFA-0.6-4/nsRFA/inst/doc/MSClaio2008.pdf |binary nsRFA-0.6-4/nsRFA/inst/doc/nsRFA_ex01.pdf |binary nsRFA-0.6-4/nsRFA/inst/doc/nsRFA_ex02.pdf |binary nsRFA-0.6-4/nsRFA/man/BayesianMCMC.Rd | 4 nsRFA-0.6-4/nsRFA/man/nsRFA-package.Rd | 1 9 files changed, 321 insertions(+), 14 deletions(-)
Author: Robert B. Gramacy
Diff between monomvn versions 1.5 dated 2008-11-13 and 1.6 dated 2008-12-04
Title: Estimation for multivariate normal data with monotone missingness
Description: Estimation of multivariate normal data of arbitrary dimension
where the pattern of missing data is monotone. Through the use of
parsimonious/shrinkage regressions (plsr, pcr, lasso, ridge,
etc.), where standard regressions fail, the package can handle an
(almost) arbitrary amount of missing data. The current version
supports maximum likelihood inference and implementation
of a Bayesian version employing a Bayesian lasso. A fully
functional standalone interface to the Bayesian lasso
(from Park & Casella) and ridge regression with model selection
via Reversible Jump is also provided
monomvn-1.5/monomvn/INDEX |only
monomvn-1.6/monomvn/ChangeLog | 32 +
monomvn-1.6/monomvn/DESCRIPTION | 6
monomvn-1.6/monomvn/R/bmonomvn.R | 319 ++++++----------
monomvn-1.6/monomvn/R/bmonomvn.traces.R |only
monomvn-1.6/monomvn/R/default.QP.R | 178 ++++++++
monomvn-1.6/monomvn/R/monomvn.R | 4
monomvn-1.6/monomvn/R/monomvn.s3.R | 53 ++
monomvn-1.6/monomvn/R/regress.fact.R | 1
monomvn-1.6/monomvn/R/util.R | 50 ++
monomvn-1.6/monomvn/data/market.rda |only
monomvn-1.6/monomvn/data/market.test.rda |only
monomvn-1.6/monomvn/data/returns.rda |only
monomvn-1.6/monomvn/data/returns.test.rda |only
monomvn-1.6/monomvn/man/blasso.Rd | 1
monomvn-1.6/monomvn/man/bmonomvn.Rd | 102 +++--
monomvn-1.6/monomvn/man/default.QP.Rd | 30 +
monomvn-1.6/monomvn/man/monomvn-internal.Rd | 7
monomvn-1.6/monomvn/man/monomvn.Rd | 16
monomvn-1.6/monomvn/man/monomvn.solve.QP.Rd |only
monomvn-1.6/monomvn/man/returns.Rd |only
monomvn-1.6/monomvn/src/blasso.cc | 555 +++++++++++++++++++++-------
monomvn-1.6/monomvn/src/blasso.h | 76 ++-
monomvn-1.6/monomvn/src/bmonomvn.cc | 526 +++++++-------------------
monomvn-1.6/monomvn/src/bmonomvn.h | 77 ---
monomvn-1.6/monomvn/src/matrix.c | 66 +++
monomvn-1.6/monomvn/src/matrix.h | 3
monomvn-1.6/monomvn/src/ustructs.cc |only
monomvn-1.6/monomvn/src/ustructs.h |only
29 files changed, 1233 insertions(+), 869 deletions(-)
Author: Venkatraman E. Seshan
Title: Clinical Trial Design and Data Analysis Functions
Description: Utilities to make your clinical collaborations easier if not fun.
Diff between clinfun versions 0.8.3 dated 2008-11-18 and 0.8.4 dated 2008-12-04
CHANGES | 7 ++++++ DESCRIPTION | 4 +-- R/pselect.R | 64 ++++++++++++++++++++++++++++++++++++++++++++++----------- man/pselect.Rd | 30 ++++++++++++++++---------- 4 files changed, 79 insertions(+), 26 deletions(-)
Author: David Ardia
Diff between bayesGARCH versions 1-00.01 dated 2008-06-03 and 1-00.02 dated 2008-12-04
Title: Bayesian Estimation of the GARCH(1,1) Model with Student-t Innovations
Description: This package provides the bayesGARCH function which performs the
Bayesian estimation of the GARCH(1,1) model with Student's t innovations.
DESCRIPTION | 8 ++++----
R/onload.R | 4 ++--
README | 1 +
man/addPriorConditions.Rd | 5 ++++-
man/bayesGARCH.Rd | 12 +++++++-----
man/formSmpl.Rd | 5 ++++-
6 files changed, 22 insertions(+), 13 deletions(-)
Author: Vinzenz Erhardt
Title: Zero Inflated Generalized Poisson (ZIGP) regression models
Description: Adapt and analyze and compare GP, ZIP and ZIGP regression models
Diff between ZIGP versions 2.7 dated 2008-11-14 and 3.0 dated 2008-12-04
ZIGP-2.7/ZIGP/R/wald.test.r |only ZIGP-2.7/ZIGP/man/wald.test.rd |only ZIGP-3.0/ZIGP/DESCRIPTION | 6 +- ZIGP-3.0/ZIGP/NAMESPACE | 2 ZIGP-3.0/ZIGP/R/eda.od.r |only ZIGP-3.0/ZIGP/R/eda.zi.r |only ZIGP-3.0/ZIGP/R/est.zigp.r |only ZIGP-3.0/ZIGP/R/fit.zigp1.r | 2 ZIGP-3.0/ZIGP/R/gradient.r | 12 ++--- ZIGP-3.0/ZIGP/R/gradient1.r | 14 +++--- ZIGP-3.0/ZIGP/R/loglikelihood.zigp.full.r | 26 ++++++------ ZIGP-3.0/ZIGP/R/loglikelihood.zigp.r | 14 +++--- ZIGP-3.0/ZIGP/R/loglikelihood.zigp.vuong.r | 14 +++--- ZIGP-3.0/ZIGP/R/mle.zigp.full.like.r | 50 ++++++++++++------------ ZIGP-3.0/ZIGP/R/mle.zigp.r | 27 +++++++++---- ZIGP-3.0/ZIGP/R/optimized.run.r | 16 +++---- ZIGP-3.0/ZIGP/man/ZIGP-package.rd | 9 ++-- ZIGP-3.0/ZIGP/man/clarke.rd | 39 ++++++++++--------- ZIGP-3.0/ZIGP/man/eda.od.rd |only ZIGP-3.0/ZIGP/man/eda.zi.rd |only ZIGP-3.0/ZIGP/man/est.zigp.rd |only ZIGP-3.0/ZIGP/man/gradient.rd | 3 - ZIGP-3.0/ZIGP/man/loglikelihood.zigp.rd | 3 - ZIGP-3.0/ZIGP/man/mle.zigp.rd | 45 +++++++++------------- ZIGP-3.0/ZIGP/man/vuong.rd | 59 +++++++++++++++-------------- 25 files changed, 179 insertions(+), 162 deletions(-)
Author: Dominick Samperi and Dirk Eddelbuettel
Title: Rcpp R/C++ interface library and package template
Description: R/C++ interface class library and package template.
The Rcpp library maps data types betweeen R and C++,
and includes support for R types real, integer, character,
vector, matrix, Date, datetime (i.e. POSIXct) data frame,
and function. It supports calling R functions from C++.
See the package documentation file doc/RcppAPI.pdf for more
information, including details on building binary R packages
for Windows.
Diff between Rcpp versions 0.6.1 dated 2008-11-30 and 0.6.2 dated 2008-12-04
DESCRIPTION | 6 +++--- R/RcppLdpath.R | 2 +- inst/ChangeLog | 12 +++++++++--- inst/doc/RcppAPI.pdf |binary 4 files changed, 13 insertions(+), 7 deletions(-)
Author: David Harte
Title: Time Dependent Point Process Modelling
Description: This package fits and analyses time dependent marked point process models with an emphasis on earthquake modelling. For a more detailed introduction to the package, see the topic "PtProcess". A list of recent changes can be found in the topic "Changes".
Diff between PtProcess versions 3.1-1 dated 2008-11-18 and 3.1-2 dated 2008-12-04
DESCRIPTION | 6 +++--- data/Phuket.R |only data/Phuket.txt |only man/Changes.Rd | 4 ++++ man/Phuket.Rd |only man/mpp.Rd | 4 ++-- 6 files changed, 9 insertions(+), 5 deletions(-)
Author: Jarrod Hadfield
Title: ML and MCMC Methods for Pedigree Reconstruction and Analysis
Description: The primary aim of MasterBayes is to use MCMC techniques to integrate over uncertainty in pedigree configurations estimated from molecular markers and phenotypic data. Emphasis is put on the marginal distribution of parameters that relate the phenotypic data to the pedigree. All simulation is done in compiled C++ for efficency.
Diff between MasterBayes versions 2.4 dated 2008-09-05 and 2.41 dated 2008-12-04
DESCRIPTION | 6 R/ErrorCheck.R | 4 R/MCMCped.R | 2 R/getXlist.R | 96 ++-- R/getsPandtP.R | 9 inst/doc/Tutorial.pdf | 1065 ++++++++++++++++++++++++-------------------------- src/SampP.cc | 12 7 files changed, 602 insertions(+), 592 deletions(-)
Author: Holger Froehlich
Diff between GOSim versions 1.1.5.3 dated 2008-12-01 and 1.1.5.4 dated 2008-12-04
Title: Computation of functional similarities between GO terms and gene products; GO enrichement analysis
Description: This package implements several functions useful for
computing similarities between GO terms and gene products based on their GO annotation. Moreover it allows for computing a GO enrichment analysis
DESCRIPTION | 6
R/GOenrichment.R | 36 +
inst/doc/GOSim.pdf | 1254 +++++++++++++++++++++++++---------------------------
man/GOenrichment.Rd | 12
man/internal.Rd | 2
5 files changed, 663 insertions(+), 647 deletions(-)
Author: David Ardia
Diff between DEoptim versions 1.2-1 dated 2007-09-12 and 1.3-0 dated 2008-12-04
Title: Differential Evolution Optimization
Description: This package provides the DEoptim function which performs
Differential Evolution Optimization (evolutionary algorithm).
CHANGES | 5 ++++
DESCRIPTION | 6 ++---
R/DEoptim.R | 57 +++++++++++++++++++++++++++++++++++++++--------------
XEmacs-21.4.20.lnk |only
man/DEoptim.Rd | 10 ++++++++-
5 files changed, 60 insertions(+), 18 deletions(-)
Author: Torsten Hothorn, Peter Buhlmann, Thomas Kneib, Matthias Schmid and
Benjamin Hofner
Title: Model-Based Boosting
Description: Functional gradient descent algorithms
(boosting) for optimizing general loss functions utilizing
componentwise least squares, either of parametric linear form or
smoothing splines, or regression trees as base learners for fitting
generalized linear, additive and interaction models to potentially
high-dimensional data.
Diff between mboost versions 1.0-4 dated 2008-11-13 and 1.0-5 dated 2008-12-02
DESCRIPTION | 7 +++---- R/crossvalidation.R | 2 -- R/gamboost.R | 2 -- inst/CHANGES | 5 +++++ inst/doc/SurvivalEnsembles.pdf |binary inst/doc/mboost_illustrations.pdf |binary svn-commit.tmp |only tests/setup.Rout.save |only 8 files changed, 8 insertions(+), 8 deletions(-)
Author: Franck Picard
Diff between segclust versions 0.73 dated 2008-02-14 and 0.74 dated 2008-12-01
Title: SegClust : a package for Segmentation and Segmentation/Clustering.
Description: SegClust corresponds to the implementation of the statistical model described in : Picard et al., A segmentation/clustering model for the analysis of array CGH data. Biometrics, 63(3) 2007. Segmentation functions are also available (from Picard et al. A statistical approach for array CGH data analysis. BMC Bioinformatics. 2005 Feb 11;6:27).
segclust-0.73/segclust/configure |only
segclust-0.73/segclust/src/Makevars.in |only
segclust-0.74/segclust/DESCRIPTION | 8 ++--
segclust-0.74/segclust/R/clustersegments.R | 3 +
segclust-0.74/segclust/R/segclust.R | 21 +++++++++++-
segclust-0.74/segclust/src/Makevars | 4 +-
segclust-0.74/segclust/src/Rwrappers.cc | 39 ++++++++++++++++++++++--
segclust-0.74/segclust/src/Rwrappers.h | 3 +
segclust-0.74/segclust/src/Segmentation_mean.cc | 2 +
segclust-0.74/segclust/src/Segmentation_mixt.cc | 3 +
10 files changed, 71 insertions(+), 12 deletions(-)
Author: Hans Peter Wolf
Diff between relax versions 1.083 dated 2008-06-23 and 1.1 dated 2008-12-01
Title: relax -- R Editor for Literate Analysis and lateX
Description: package relax contains some functions for report
writing, presentation, and programming: relax(), tangleR(),
weaveR(), slider(). "relax" is written in R and Tcl/Tk.
relax creates a new window (top level Tcl/Tk widget) that consists
of two text fields and some buttons and menus.
Text (chunks) and code (chunks) are inserted in the upper text field (report field).
Code chunks are evaluated by clicking on EvalRCode.
Results are shown in the lower text field (output field) and
will be transfered to the report field by pressing on Insert.
In this way you get correct reports. These reports can be
loaded again in cause of presentation, modification and result checking.
tangleR() and weaveR() implement a plain kind of tangling
and weaving. slider() is designed to define sliders for interactive
experiments in a simple way.
The syntax rules of code chunks and text chunks are defined by
the noweb system proposed by Norman Ramsey
(http://www.eecs.harvard.edu/~nr/noweb/intro.html).
For integrating jpeg graphics into the text field you need the
Tcl/Tk Img package of Jan Nijtmans
(see: http://members.chello.nl/~j.nijtmans/img.html,
http://home.kpnplanet.nl/~J.Nijtmans@kpnplanet.nl/img.html or
http://tkimg.sourceforge.net/, the package is found on
http://sourceforge.net/projects/tkimg).
If an Img version is integrated in the relax package
the license terms concerning the img package will be found in
the source file of the package, for example in: relax/src/tkimg1.3.tar.gz.
Older windows versions of relax
contain the Tcl/Tk img package, so no further installations
have to be done.
relax-1.083/relax/inst/src/tkimg1.3.tar.gz |only
relax-1.1/relax/DESCRIPTION | 20 -
relax-1.1/relax/R/relax.R | 316 ++++++++++++++++-------
relax-1.1/relax/R/slider.R | 4
relax-1.1/relax/R/tangleR.R | 55 ++--
relax-1.1/relax/R/weaveR.R | 29 ++
relax-1.1/relax/R/weaveRhtml.R | 3
relax-1.1/relax/inst/config/settings.init | 2
relax-1.1/relax/inst/config/settings.relax | 2
relax-1.1/relax/inst/lib/HOWJPEGINRELAX |only
relax-1.1/relax/inst/src/relax.rev | 394 +++++++++++++++++++++++++----
relax-1.1/relax/inst/src/webR.rev | 103 +++++--
relax-1.1/relax/man/relax.Rd | 42 +++
relax-1.1/relax/man/slider.Rd | 4
relax-1.1/relax/man/tangleR.Rd | 4
15 files changed, 777 insertions(+), 201 deletions(-)
Author: Juliane Schaefer, Rainer Opgen-Rhein, and Korbinian Strimmer.
Title: Efficient Estimation of Covariance and (Partial) Correlation
Description: This package implements an analytic shrinkage approach
for inferring the covariance matrix. The estimator is statistically
highly accurate and efficient, applicable to "small n, large p" data,
and always returns a positive definite and well-conditioned matrix.
Nevertheless, this method requires only little a priori modeling and is
computationally cheap. In addition to covariance estimation the
package contains similar functions for inferring variances, correlations,
partial correlations, partial variances, and regression coefficients.
Furthermore, it provides functions for fast SVD computation, for computing
the pseudoinverse, for checking the rank and positive definiteness of a
matrix, and for the computationally fast inversion of the covariance
and correlation matrix.
Diff between corpcor versions 1.4.8 dated 2008-11-17 and 1.5.0 dated 2008-12-01
corpcor-1.4.8/corpcor/CHANGES |only corpcor-1.5.0/corpcor/DESCRIPTION | 6 - corpcor-1.5.0/corpcor/NEWS |only corpcor-1.5.0/corpcor/R/cov.shrink.R | 10 - corpcor-1.5.0/corpcor/R/mpower.R |only corpcor-1.5.0/corpcor/R/powcor.shrink.R |only corpcor-1.5.0/corpcor/R/shrink.internal.R | 141 -------------------------- corpcor-1.5.0/corpcor/man/cor2pcor.Rd | 10 - corpcor-1.5.0/corpcor/man/corpcor-internal.Rd | 3 corpcor-1.5.0/corpcor/man/corpcor.package.Rd | 2 corpcor-1.5.0/corpcor/man/cov.shrink.Rd | 28 ++--- corpcor-1.5.0/corpcor/man/fast.svd.Rd | 12 +- corpcor-1.5.0/corpcor/man/invcov.shrink.Rd | 25 ++-- corpcor-1.5.0/corpcor/man/mpower.Rd |only corpcor-1.5.0/corpcor/man/mvr.shrink.Rd | 22 ++-- corpcor-1.5.0/corpcor/man/pcor.shrink.Rd | 12 +- corpcor-1.5.0/corpcor/man/powcor.shrink.Rd |only corpcor-1.5.0/corpcor/man/pseudoinverse.Rd | 6 - corpcor-1.5.0/corpcor/man/rank.condition.Rd | 8 - corpcor-1.5.0/corpcor/man/rebuild.cov.Rd | 10 - corpcor-1.5.0/corpcor/man/smtools.Rd | 10 - corpcor-1.5.0/corpcor/man/wt.scale.Rd | 8 - 22 files changed, 85 insertions(+), 228 deletions(-)
Author: Holger Froehlich
Diff between GOSim versions 1.1.5.2 dated 2008-11-04 and 1.1.5.3 dated 2008-12-01
Title: Computation of functional similarities between GO terms and gene products; GO enrichement analysis
Description: This package implements several functions useful for
computing similarities between GO terms and gene products based on their GO annotation. Moreover it allows for computing a GO enrichment analysis
GOSim-1.1.5.2/GOSim/inst/doc/.build.timestamp |only
GOSim-1.1.5.3/GOSim/DESCRIPTION | 6
GOSim-1.1.5.3/GOSim/NAMESPACE | 2
GOSim-1.1.5.3/GOSim/R/GOenrichment.R | 60
GOSim-1.1.5.3/GOSim/R/clusterEvaluation.R | 28
GOSim-1.1.5.3/GOSim/R/geneSimilarity.R | 3
GOSim-1.1.5.3/GOSim/inst/doc/GOSim.Rnw | 3
GOSim-1.1.5.3/GOSim/inst/doc/GOSim.pdf | 1901 ++++++++++++--------------
GOSim-1.1.5.3/GOSim/man/GOenrichment.Rd | 14
GOSim-1.1.5.3/GOSim/man/evaluateClustering.Rd | 24
GOSim-1.1.5.3/GOSim/man/setEvidenceLevel.Rd | 2
11 files changed, 1003 insertions(+), 1040 deletions(-)
Author: David Ardia, Lennart F. Hoogerheide and Herman K. van Dijk
Title: Adaptive Mixture of Student-t distributions
Description: This package provides functions to perform the fitting of an
adaptive mixture of Student-t distributions to a target density through its kernel function.
The mixture approximation can then be used as the importance density
in importance sampling or as the candidate density in the Metropolis-Hastings algorithm to
obtain quantities of interest for the target density itself.
Diff between AdMit versions 1-00.02 dated 2008-06-11 and 1-00.04 dated 2008-12-01
DESCRIPTION | 11 +- R/onload.R | 3 README | 32 +++++--- demo/AdMit.R | 199 ++++++++++++++++++++++++++++++++++++++++++++++++++++-- inst/ArticleJSS.R |only inst/CITATION | 50 ++++++++++--- man/AdMit.Rd | 164 +++++++++++++++++++++++++++++++++++++++++--- man/AdMitIS.Rd | 34 +++++---- man/AdMitMH.Rd | 24 ++++-- man/Mit.Rd | 16 ++-- tests/AdMit.R | 7 + 11 files changed, 461 insertions(+), 79 deletions(-)
Author: Thomas Petzoldt
Title: Simulation of ecological (and other) dynamic systems
Description: Object oriented framework to simulate ecological (and other) dynamic systems
Diff between simecol versions 0.6 dated 2008-09-22 and 0.6-1 dated 2008-12-01
DESCRIPTION | 7 ++++--- NAMESPACE | 5 +++-- R/accessors.R | 1 + R/sim.R | 3 ++- inst/NEWS | 4 ++++ inst/doc/simecol-howtos.Rnw |only inst/doc/simecol-howtos.pdf |only inst/doc/simecol-introduction.pdf |binary man/p.constrain.Rd | 4 ++-- man/simecol-package.Rd | 10 ++++++---- 10 files changed, 22 insertions(+), 12 deletions(-)
Author: Jun Yan
Diff between geepack versions 1.0-14 dated 2008-07-14 and 1.0-15 dated 2008-12-01
Title: Generalized Estimating Equation Package
Description: Generalized estimating equations solver for parameters in mean, scale, and correlation structures, through mean link, scale link, and correlation link. Can also handle clustered categorical responses.
ChangeLog | 9
DESCRIPTION | 4
R/geeglm.R | 602 +++++++++++++++++++++++++++++++-----------------------------
3 files changed, 325 insertions(+), 290 deletions(-)
Author: Virasakdi Chongsuvivatwong
Diff between epicalc versions 2.7.2.3 dated 2008-10-07 and 2.8.0.0 dated 2008-12-01
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.
DESCRIPTION | 6 +++---
R/epicalc.R | 23 +++++++++++++++--------
man/cc.rd | 2 +-
man/sortBy.rd | 20 ++++++++++++++------
4 files changed, 33 insertions(+), 18 deletions(-)
Author: Peter Ruckdeschel
Title: Utilities for start-up messages
Description: Utilities for start-up messages
Diff between startupmsg versions 0.5.2 dated 2008-11-06 and 0.5.3 dated 2008-11-30
DESCRIPTION | 6 ++--- NAMESPACE | 5 ++-- R/illustration.R | 47 ++++++++++++++++++++++++++-------------------- R/mySMHandler.R |only R/startUpMessage.R | 14 ++++++++----- inst/NEWS | 10 +++++++++ man/StartupUtilities.Rd | 15 +++++++++----- man/myStartupUtilities.Rd | 3 +- 8 files changed, 64 insertions(+), 36 deletions(-)
Author: Chris Fraley and Adrian Raftery
Title: Model-Based Clustering / Normal Mixture Modeling
Description: Model-based clustering and normal mixture modeling
including Bayesian regularization
Diff between mclust versions 3.1-9 dated 2008-10-08 and 3.1-10 dated 2008-11-30
CHANGELOG |only DESCRIPTION | 6 +++--- R/mclust.R | 16 ++++++++-------- man/cdensE.Rd | 8 +++++++- man/dens.Rd | 8 ++++++-- man/emE.Rd | 2 +- man/mclust1Dplot.Rd | 5 ++++- man/mclust2Dplot.Rd | 6 ++++++ 8 files changed, 35 insertions(+), 16 deletions(-)
Author: Peter Ruckdeschel, Matthias Kohl, Anja Hueller, Eleonara Feist
Title: Extensions of package distr for teaching Stochastics/Statistics
in secondary school
Description: Extensions of package distr and some additional
functionality
Diff between distrTeach versions 2.0.2 dated 2008-11-06 and 2.0.3 dated 2008-11-30
DESCRIPTION | 6 +++--- R/AllClass.R | 2 +- R/illustCLT.R | 20 +++++++++++--------- R/illustLLN.R | 4 ++-- demo/illustCLT.R | 1 + demo/illustCLT_tcl.R | 2 ++ demo/illustLLN.R | 1 + inst/NEWS | 13 +++++++++++++ man/0distrTeach-package.Rd | 8 ++++---- 9 files changed, 38 insertions(+), 19 deletions(-)
Author: Florian Camphausen, Matthias Kohl, Peter Ruckdeschel, Thomas
Stabla
Title: Estimation and Testing classes based on package distr
Description: Evaluation (S4-)classes based on package distr for
evaluating procedures (estimators/tests) at data/simulation in
a unified way.
Diff between distrTEst versions 2.0.2 dated 2008-11-06 and 2.0.3 dated 2008-11-30
DESCRIPTION | 6 +++--- R/AllClasses.R | 2 +- R/plot-methods.R | 17 ++++++++++------- demo/SimulateandEstimate.R | 1 + inst/NEWS | 11 +++++++++++ man/0distrTEst-package.Rd | 11 +++++------ 6 files changed, 31 insertions(+), 17 deletions(-)
Author: Florian Camphausen, Matthias Kohl, Peter Ruckdeschel, Thomas
Stabla
Title: Simulation classes based on package distr
Description: Simulation (S4-)classes based on package distr
Diff between distrSim versions 2.0.2 dated 2008-11-06 and 2.0.3 dated 2008-11-30
DESCRIPTION | 6 +++--- R/01.R | 4 ++-- R/plot-methods.R | 27 +++++++++++++++------------ demo/Simulate.R | 1 + inst/NEWS | 14 ++++++++++++++ man/0distrSim-package.Rd | 8 ++++---- 6 files changed, 39 insertions(+), 21 deletions(-)
Author: Matthias Kohl, Peter Ruckdeschel
Title: Object orientated implementation of probability models
Description: Object orientated implementation of probability models
based on packages 'distr' and 'distrEx'
Diff between distrMod versions 2.0.2 dated 2008-11-06 and 2.0.3 dated 2008-11-30
DESCRIPTION | 6 +++--- R/AllClass.R | 6 +++--- R/AllPlot.R | 6 +++--- R/AllShow.R | 9 +++++++-- demo/censoredPois.R | 3 +++ demo/modelExp3.R | 3 +++ inst/NEWS | 21 +++++++++++++++++++++ inst/scripts/BetaFam.R | 1 + inst/scripts/PoisFam.R | 1 + inst/scripts/censoredPois.R | 2 ++ inst/scripts/example_CvMMDE.R | 5 +++-- inst/scripts/examples2.R | 1 + inst/scripts/modelExp3.R | 1 + man/0distrMod-package.Rd | 8 ++++---- man/Confint-class.Rd | 5 ++++- 15 files changed, 60 insertions(+), 18 deletions(-)
Author: Matthias Kohl, Peter Ruckdeschel
Title: Extensions of package distr
Description: Extensions of package distr and some additional
functionality
Diff between distrEx versions 2.0.2 dated 2008-11-06 and 2.0.3 dated 2008-11-30
DESCRIPTION | 6 ++--- R/AllClass.R | 4 +-- R/AllMaskedMethods.R | 57 ++++++++++++++++++++++++++---------------------- R/AllShow.R | 16 ++++++++----- R/ContaminationSize.R | 4 +-- R/CvMDist.R | 8 +++--- R/Expectation_LebDec.R | 1 R/HellingerDist.R | 8 +++--- R/Internalfunctions.R | 5 ++-- R/KolmogorovDist.R | 21 +++++++++-------- R/Skewness.R | 6 ++--- R/TotalVarDist.R | 8 +++--- demo/Prognose.R | 1 demo/distrExUse.R | 20 ---------------- inst/NEWS | 19 ++++++++++++++++ man/0distrEx-package.Rd | 5 +--- man/Var.Rd | 9 ++++--- 17 files changed, 106 insertions(+), 92 deletions(-)
Author: Florian Camphausen, Matthias Kohl, Peter Ruckdeschel, Thomas
Stabla
Title: Documentation for packages distr, distrEx, distrSim, distrTEst
Description: provides documentation in form of a common vignette to
packages distr, distrEx, distrMod, distrSim, distrTEst
Diff between distrDoc versions 2.0.2 dated 2008-11-06 and 2.0.3 dated 2008-11-30
DESCRIPTION | 6 R/distrDoc.R | 2 inst/NEWS | 13 inst/doc/distr.Rnw | 93 inst/doc/distr.pdf | 9959 ++++++++++++++++++++++------------------------- man/0distrDoc-package.Rd | 5 6 files changed, 4915 insertions(+), 5163 deletions(-)
Author: Florian Camphausen, Matthias Kohl, Peter Ruckdeschel, Thomas
Stabla
Title: Object orientated implementation of distributions
Description: Object orientated implementation of distributions
Diff between distr versions 2.0.2 dated 2008-11-06 and 2.0.3 dated 2008-11-30
DESCRIPTION | 9 +++-- R/0distrOptions.R | 3 + R/0pre270.R | 4 +- R/AllClasses.R | 9 ++--- R/ContDistribution.R | 10 ++++-- R/DiscreteDistribution.R | 36 ++++++++++++++-------- R/ExpOrdGammaOrChisq.R | 23 ++++++++------ R/LatticeDistribution.R | 3 + R/LognormalDistribution.R | 3 + R/NormalDistribution.R | 6 ++- R/UnivarLebDecDistribution.R | 2 + R/bAcDcLcDistribution.R | 55 +++++++++++++++++++++++++++++++--- R/bAffLinUnivarLebDecDistribution.R | 17 +++++++++- R/internalUtils.R | 54 ++++++++++++++++++++++++--------- R/internalUtils_LCD.R | 13 ++++++++ R/plot-methods.R | 47 ++++++++++++++++------------- R/plot-methods_LebDec.R | 22 +++++++------ demo/ComparisonFFTandRtoDPQ.R | 1 demo/ConvolutionNormalDistr.R | 1 demo/Expectation.R | 1 demo/NormApprox.R | 1 demo/StationaryRegressorDistr.R | 1 demo/destructive.R | 1 demo/nFoldConvolution.R | 1 demo/range.R | 1 inst/NEWS | 28 +++++++++++++++++ inst/doc/newDistributions.Rnw | 16 ++++++++- inst/doc/newDistributions.pdf |binary man/0distr-package.Rd | 8 ++-- man/ContDistribution-class.Rd | 2 + man/DiscreteDistribution-class.Rd | 4 +- man/UnivarLebDecDistribution-class.Rd | 3 + man/UnivariateDistribution-class.Rd | 4 +- man/internals.Rd | 8 ++++ man/options.Rd |only 35 files changed, 296 insertions(+), 101 deletions(-)
Author: Peter Ruckdeschel
Title: Utilities for Sweave together with TeX listings package
Description: provides utilities for defining R / Rd as
Tex-package-listings "language" and including R / Rd source
file (sniplets) copied from R-forge in its most recent version
(or another url) thereby avoiding inconsistencies between
vignette and documented source code
Diff between SweaveListingUtils versions 0.1 dated 2008-11-06 and 0.1.1 dated 2008-11-30
DESCRIPTION | 19 +++--- NAMESPACE | 4 - R/SweaveListingOptions.R | 39 +++++++++--- R/SweaveListingUtils.R | 115 ++++++++++++++++++++++++------------- R/keywordsRbyRobertDenham.R |only R/keywordsStyle.R |only inst |only man/0SweaveListingUtils-package.Rd | 91 ++++++++++++++++++++++++++--- man/SweaveListingMASK.Rd |only man/SweaveListingOptions.Rd | 71 ++++++++++++++++------ man/SweaveListingPreparations.Rd | 20 +++++- man/changeKeywordstyles.Rd |only man/copySourceFromRForge.Rd | 7 +- man/library.Rd |only man/lstinputSourceFromRForge.Rd | 12 ++- man/lstset.Rd | 11 ++- man/lstsetLanguage.Rd |only man/readSourceFromRForge.Rd | 7 +- man/setToBeDefinedPkgs.Rd |only 19 files changed, 294 insertions(+), 102 deletions(-)
More information about SweaveListingUtils at CRAN
Permanent link
Author: Matthias Kohl
Diff between RobLox versions 0.6.0 dated 2008-09-15 and 0.6.1 dated 2008-11-30
Title: Optimally robust influence curves for location and scale
Description: Functions for the determination of optimally robust
influence curves and estimators in case of normal location with unknown scale
DESCRIPTION | 15 +++++++--------
R/rlsOptIC_AL.R | 2 +-
R/roblox.R | 2 +-
R/rsOptIC.R | 2 +-
inst/CITATION |only
inst/NEWS |only
6 files changed, 10 insertions(+), 11 deletions(-)
Author: Matthias Kohl, Peter Ruckdeschel
Title: Robust Asymptotic Statistics
Description: Base S4-classes and functions for robust asymptotic
statistics.
Diff between RobAStBase versions 0.1.1 dated 2008-10-12 and 0.1.3 dated 2008-11-30
DESCRIPTION | 14 +- NAMESPACE | 5 R/AllClass.R | 9 + R/AllGeneric.R | 11 ++ R/AllPlot.R | 132 +++++++++++++++++++++----- R/bALEstimate.R | 155 ++++++++++++++++++++++++++++++ R/comparePlot.R | 139 +++++++++++++++++++++++---- R/cutoff-class.R |only R/ddPlot.R |only R/ddPlot_utils.R |only R/infoPlot.R | 228 +++++++++++++++++++++++++++++++-------------- R/kStepEstimator.R | 24 ++-- R/oneStepEstimator.R | 8 - R/outlyingPlot.R |only R/utils.R | 4 inst |only man/0RobAStBase-package.Rd |only man/ALEstimate-class.Rd | 19 +++ man/IC-class.Rd | 4 man/comparePlot.Rd | 48 +++++++++ man/cutoff-class.Rd |only man/cutoff.Rd |only man/ddPlot-methods.Rd |only man/infoPlot.Rd | 51 +++++++++- man/internals_ddPlot.Rd |only man/outlyingPlotIC.Rd |only man/plot-methods.Rd |only 27 files changed, 709 insertions(+), 142 deletions(-)
Author: Dominick Samperi and Dirk Eddelbuettel
Title: Rcpp R/C++ interface library and package template
Description: R/C++ interface class library and package template.
The Rcpp library maps data types betweeen R and C++,
and includes support for R types real, integer, character,
vector, matrix, Date, datetime (i.e. POSIXct) data frame,
and function. It supports calling R functions from C++.
See the package documentation file doc/RcppAPI.pdf for more
information, including details on building binary R packages
for Windows.
Diff between Rcpp versions 0.6.0 dated 2008-11-06 and 0.6.1 dated 2008-11-30
Rcpp-0.6.0/Rcpp/src/Makefile |only Rcpp-0.6.1/Rcpp/DESCRIPTION | 15 +++++---- Rcpp-0.6.1/Rcpp/NAMESPACE | 3 + Rcpp-0.6.1/Rcpp/R/RcppExample.R | 37 ++++++++++++++++++++--- Rcpp-0.6.1/Rcpp/R/RcppLdpath.R |only Rcpp-0.6.1/Rcpp/cleanup | 5 +-- Rcpp-0.6.1/Rcpp/inst/ChangeLog | 30 +++++++++++++++++++ Rcpp-0.6.1/Rcpp/inst/doc/RcppAPI.pdf |binary Rcpp-0.6.1/Rcpp/man/Rcpp-package.Rd | 55 ++++++++++++++--------------------- Rcpp-0.6.1/Rcpp/man/RcppResultSet.Rd | 13 ++++++++ Rcpp-0.6.1/Rcpp/man/RcppVector.Rd | 11 +++++++ Rcpp-0.6.1/Rcpp/src/Makefile.old |only Rcpp-0.6.1/Rcpp/src/Makefile.win | 2 - Rcpp-0.6.1/Rcpp/src/Makevars |only Rcpp-0.6.1/Rcpp/src/Rcpp.cpp | 33 ++------------------- Rcpp-0.6.1/Rcpp/src/Rcpp.h | 34 +++++++-------------- Rcpp-0.6.1/Rcpp/src/RcppExample.cpp | 41 ++++++++++++++++++++++++++ 17 files changed, 178 insertions(+), 101 deletions(-)
Author: Matthias Kohl, Peter Ruckdeschel
Title: Implementation of random variables
Description: Implementation of random variables by means of S4 classes
and methods
Diff between RandVar versions 0.6.5 dated 2008-11-06 and 0.6.6 dated 2008-11-30
DESCRIPTION | 10 +++++----- inst/CITATION | 27 +++++++++++++++++---------- inst/NEWS |only inst/doc/RandVar.Rnw | 1 + inst/doc/RandVar.pdf |binary man/0RandVar-package.Rd | 8 ++++---- 6 files changed, 27 insertions(+), 19 deletions(-)
Author: Matthias Kohl, Peter Ruckdeschel
Title: Optimally robust estimation
Description: Optimally robust estimation in general smoothly
parameterized models using S4 classes and methods.
Diff between ROptEst versions 0.6.0 dated 2008-09-15 and 0.6.2 dated 2008-11-30
DESCRIPTION | 14 +++-- NAMESPACE | 3 - R/AllGeneric.R | 9 +++ R/cniperCont.R |only R/getAsRisk.R | 1 R/getInfRobIC_asBias.R | 1 R/getModifyIC.R | 5 +- R/getRiskIC.R | 5 +- R/leastFavorableRadius.R | 2 R/lowerCaseRadius.R | 7 +- R/optIC.R | 11 ++-- R/optRisk.R | 7 +- R/radiusMinimaxIC.R | 5 -- R/roptest.R | 2 inst/CITATION |only inst/NEWS |only inst/scripts/BinomialModel.R | 48 +++++++++++++++++++ inst/scripts/ExponentialScaleModel.R | 19 +++++++ inst/scripts/GammaModel.R | 35 +++++++++++--- inst/scripts/GumbelLocationModel.R | 61 ++++++++++++++++++++----- inst/scripts/LognormalAndNormalModel.R | 31 +++++++++++- inst/scripts/NormalLocationScaleModel.R | 32 ++++++++----- inst/scripts/NormalScaleModel.R | 28 +++++++++++ inst/scripts/PoissonModel.R | 32 +++++++++++++ inst/scripts/UnderOverShootRisk.R | 11 ++++ man/0ROptEst-package.Rd |only man/cniperCont.Rd |only man/roptest.Rd | 78 ++++++++++++++++++++++++++------ 28 files changed, 378 insertions(+), 69 deletions(-)
Author: Ollivier TARAMASCO
Title: Hidden Markov Models simulations and estimations
Description: Discrete, univariate or multivariate gaussian, mixture of univariate or multivariate gaussian HMM functions for simulation and estimation.
Diff between RHmm versions 1.0.4 dated 2008-08-11 and 1.2.0 dated 2008-11-30
RHmm-1.0.4/RHmm/R/RHmm-New.R |only RHmm-1.0.4/RHmm/man/forwardbackward.rd |only RHmm-1.0.4/RHmm/src/alldistributions.h |only RHmm-1.0.4/RHmm/src/cbaumwelch.cpp |only RHmm-1.0.4/RHmm/src/cbaumwelch.h |only RHmm-1.0.4/RHmm/src/cbaumwelchinparam.cpp |only RHmm-1.0.4/RHmm/src/cbaumwelchinparam.h |only RHmm-1.0.4/RHmm/src/cdiscrete.cpp |only RHmm-1.0.4/RHmm/src/cdiscrete.h |only RHmm-1.0.4/RHmm/src/cdistribution.h |only RHmm-1.0.4/RHmm/src/chmm.cpp |only RHmm-1.0.4/RHmm/src/chmm.h |only RHmm-1.0.4/RHmm/src/chmmfit.cpp |only RHmm-1.0.4/RHmm/src/chmmfit.h |only RHmm-1.0.4/RHmm/src/cinparam.cpp |only RHmm-1.0.4/RHmm/src/cinparam.h |only RHmm-1.0.4/RHmm/src/cmixtmultivariatemormal.cpp |only RHmm-1.0.4/RHmm/src/cmixtmultivariatenormal.h |only RHmm-1.0.4/RHmm/src/cmixtunivariatenormal.cpp |only RHmm-1.0.4/RHmm/src/cmixtunivariatenormal.h |only RHmm-1.0.4/RHmm/src/cmultivariatenormal.h |only RHmm-1.0.4/RHmm/src/cmutivariatenormal.cpp |only RHmm-1.0.4/RHmm/src/coterror.cpp |only RHmm-1.0.4/RHmm/src/coterror.h |only RHmm-1.0.4/RHmm/src/cotmatrix.cpp |only RHmm-1.0.4/RHmm/src/cotmatrix.h |only RHmm-1.0.4/RHmm/src/cotvector.cpp |only RHmm-1.0.4/RHmm/src/cotvector.h |only RHmm-1.0.4/RHmm/src/crandomgenerator.h |only RHmm-1.0.4/RHmm/src/crutils.cpp |only RHmm-1.0.4/RHmm/src/crutils.h |only RHmm-1.0.4/RHmm/src/cunivariatenormal.cpp |only RHmm-1.0.4/RHmm/src/cunivariatenormal.h |only RHmm-1.0.4/RHmm/src/cviterbi.cpp |only RHmm-1.0.4/RHmm/src/cviterbi.h |only RHmm-1.0.4/RHmm/src/hmm.h |only RHmm-1.0.4/RHmm/src/kmeans.cpp |only RHmm-1.0.4/RHmm/src/kmeans.h |only RHmm-1.0.4/RHmm/src/multivariatenormalutil.cpp |only RHmm-1.0.4/RHmm/src/multivariatenormalutil.h |only RHmm-1.0.4/RHmm/src/otmathutil.h |only RHmm-1.0.4/RHmm/src/r_equivalents.h |only RHmm-1.0.4/RHmm/src/rhmm.cpp |only RHmm-1.0.4/RHmm/src/rhmm.h |only RHmm-1.0.4/RHmm/src/samplesutil.cpp |only RHmm-1.0.4/RHmm/src/samplesutil.h |only RHmm-1.2.0/RHmm/DESCRIPTION | 22 +- RHmm-1.2.0/RHmm/NAMESPACE | 2 RHmm-1.2.0/RHmm/R/RHmm-HyperNew.R |only RHmm-1.2.0/RHmm/R/RHmm-internals.R | 126 +++++++++---- RHmm-1.2.0/RHmm/R/RHmm.R | 218 +++++++++++++++++------- RHmm-1.2.0/RHmm/README | 10 - RHmm-1.2.0/RHmm/data/n1d_3s.RData |only RHmm-1.2.0/RHmm/data/n3d_2s.RData |only RHmm-1.2.0/RHmm/man/HMMFit.rd | 63 ++++-- RHmm-1.2.0/RHmm/man/HMMGraphicDiag.rd | 25 -- RHmm-1.2.0/RHmm/man/HMMPlotSerie.rd | 11 - RHmm-1.2.0/RHmm/man/HMMSim.rd | 9 RHmm-1.2.0/RHmm/man/asymptoticCovMat.rd |only RHmm-1.2.0/RHmm/man/data_mixture.rd | 44 ++-- RHmm-1.2.0/RHmm/man/forwardBackward.rd |only RHmm-1.2.0/RHmm/man/obs_n1d_3s.rd |only RHmm-1.2.0/RHmm/man/obs_n3d_2s.rd |only RHmm-1.2.0/RHmm/man/viterbi.rd | 10 - RHmm-1.2.0/RHmm/src/AllDistributions.h |only RHmm-1.2.0/RHmm/src/Debogage.h |only RHmm-1.2.0/RHmm/src/Hmm.h |only RHmm-1.2.0/RHmm/src/Kmeans.cpp |only RHmm-1.2.0/RHmm/src/Kmeans.h |only RHmm-1.2.0/RHmm/src/Makevars.win | 2 RHmm-1.2.0/RHmm/src/MultivariateNormalUtil.cpp |only RHmm-1.2.0/RHmm/src/MultivariateNormalUtil.h |only RHmm-1.2.0/RHmm/src/OTMathUtil.h |only RHmm-1.2.0/RHmm/src/REquivalents.h |only RHmm-1.2.0/RHmm/src/RHmm.cpp |only RHmm-1.2.0/RHmm/src/RHmm.h |only RHmm-1.2.0/RHmm/src/SamplesUtil.cpp |only RHmm-1.2.0/RHmm/src/SamplesUtil.h |only RHmm-1.2.0/RHmm/src/cBaumWelch.cpp |only RHmm-1.2.0/RHmm/src/cBaumWelch.h |only RHmm-1.2.0/RHmm/src/cBaumWelchInParam.cpp |only RHmm-1.2.0/RHmm/src/cBaumWelchInParam.h |only RHmm-1.2.0/RHmm/src/cDiscrete.cpp |only RHmm-1.2.0/RHmm/src/cDiscrete.h |only RHmm-1.2.0/RHmm/src/cDistribution.h |only RHmm-1.2.0/RHmm/src/cHmm.cpp |only RHmm-1.2.0/RHmm/src/cHmm.h |only RHmm-1.2.0/RHmm/src/cHmmFit.cpp |only RHmm-1.2.0/RHmm/src/cHmmFit.h |only RHmm-1.2.0/RHmm/src/cInParam.cpp |only RHmm-1.2.0/RHmm/src/cInParam.h |only RHmm-1.2.0/RHmm/src/cLogBaumWelch.cpp |only RHmm-1.2.0/RHmm/src/cLogBaumWelch.h |only RHmm-1.2.0/RHmm/src/cMixtMultivariateNormal.cpp |only RHmm-1.2.0/RHmm/src/cMixtMultivariateNormal.h |only RHmm-1.2.0/RHmm/src/cMixtUnivariateNormal.cpp |only RHmm-1.2.0/RHmm/src/cMixtUnivariateNormal.h |only RHmm-1.2.0/RHmm/src/cMultivariateNormal.cpp |only RHmm-1.2.0/RHmm/src/cMultivariateNormal.h |only RHmm-1.2.0/RHmm/src/cOTError.cpp |only RHmm-1.2.0/RHmm/src/cOTError.h |only RHmm-1.2.0/RHmm/src/cOTMatrix.cpp |only RHmm-1.2.0/RHmm/src/cOTMatrix.h |only RHmm-1.2.0/RHmm/src/cOTVector.cpp |only RHmm-1.2.0/RHmm/src/cOTVector.h |only RHmm-1.2.0/RHmm/src/cRUtils.cpp |only RHmm-1.2.0/RHmm/src/cRUtils.h |only RHmm-1.2.0/RHmm/src/cRandomGenerator.h |only RHmm-1.2.0/RHmm/src/cUnivariateNormal.cpp |only RHmm-1.2.0/RHmm/src/cUnivariateNormal.h |only RHmm-1.2.0/RHmm/src/cViterbi.cpp |only RHmm-1.2.0/RHmm/src/cViterbi.h |only RHmm-1.2.0/RHmm/src/logprob.cpp |only RHmm-1.2.0/RHmm/src/logprob.h |only 114 files changed, 350 insertions(+), 192 deletions(-)
Author: Matthias Kohl
Title: Miscellaneous Functions from M. Kohl
Description: Miscellaneous Functions from M. Kohl
Diff between MKmisc versions 0.1 dated 2008-09-05 and 0.3 dated 2008-11-30
DESCRIPTION | 11 ++++++----- R/pairwiseFC.R | 12 ++++++++---- R/qboxplot.R | 3 ++- inst/CITATION | 2 +- man/MKmisc-package.Rd | 11 ++++++----- man/pairwiseFC.Rd | 7 ++++--- 6 files changed, 27 insertions(+), 19 deletions(-)
Author: Bernhard Pfaff
Title: VAR Modelling
Description: Estimation, lag selection, diagnostic testing, forecasting, causality analysis, forecast error variance decomposition and impulse response functions of VAR models and estimation of SVAR/SVEC models.
Diff between vars versions 1.4-0 dated 2008-07-11 and 1.4-1 dated 2008-11-29
vars-1.4-0/vars/inst/doc/Rplots.pdf |only vars-1.4-0/vars/inst/doc/vars.tex |only vars-1.4-1/vars/DESCRIPTION | 7 +- vars-1.4-1/vars/R/VAR.R | 3 + vars-1.4-1/vars/inst/ChangeLog | 7 ++ vars-1.4-1/vars/inst/book-ex/Rcode-1-1.R | 20 +++---- vars-1.4-1/vars/inst/book-ex/Rcode-1-2.R | 44 ++++++++--------- vars-1.4-1/vars/inst/book-ex/Rcode-1-3.R | 76 +++++++++++++++--------------- vars-1.4-1/vars/inst/book-ex/Rcode-2-10.R | 12 ++-- vars-1.4-1/vars/inst/book-ex/Rcode-2-11.R | 12 ++-- vars-1.4-1/vars/inst/book-ex/Rcode-2-2.R | 52 ++++++++++---------- vars-1.4-1/vars/inst/book-ex/Rcode-2-4.R | 6 +- vars-1.4-1/vars/inst/book-ex/Rcode-2-8.R | 56 +++++++++++----------- vars-1.4-1/vars/inst/book-ex/Rcode-2-9.R | 50 +++++++++---------- vars-1.4-1/vars/inst/book-ex/Rcode-3-1.R | 42 ++++++++-------- vars-1.4-1/vars/inst/book-ex/Rcode-3-2.R | 44 ++++++++--------- vars-1.4-1/vars/inst/book-ex/Rcode-3-3.R | 24 ++++----- vars-1.4-1/vars/inst/book-ex/Rcode-3-4.R | 18 +++---- vars-1.4-1/vars/inst/book-ex/Rcode-4-1.R | 18 +++---- vars-1.4-1/vars/inst/book-ex/Rcode-4-2.R | 28 +++++------ vars-1.4-1/vars/inst/book-ex/Rcode-4-3.R | 42 ++++++++-------- vars-1.4-1/vars/inst/book-ex/Rcode-4-4.R | 20 +++---- vars-1.4-1/vars/inst/book-ex/Rcode-5-1.R | 18 +++---- vars-1.4-1/vars/inst/book-ex/Rcode-5-2.R | 24 ++++----- vars-1.4-1/vars/inst/book-ex/Rcode-5-3.R | 24 ++++----- vars-1.4-1/vars/inst/book-ex/Rcode-5-4.R | 14 ++--- vars-1.4-1/vars/inst/book-ex/Rcode-5-5.R | 12 ++-- vars-1.4-1/vars/inst/book-ex/Rcode-6-1.R | 18 +++---- vars-1.4-1/vars/inst/book-ex/Rcode-6-2.R | 16 +++--- vars-1.4-1/vars/inst/book-ex/Rcode-6-3.R | 34 ++++++------- vars-1.4-1/vars/inst/book-ex/Rcode-7-1.R | 54 ++++++++++----------- vars-1.4-1/vars/inst/book-ex/Rcode-7-2.R | 24 ++++----- vars-1.4-1/vars/inst/book-ex/Rcode-7-3.R | 30 +++++------ vars-1.4-1/vars/inst/book-ex/Rcode-8-1.R | 26 +++++----- vars-1.4-1/vars/inst/book-ex/Rcode-8-10.R | 2 vars-1.4-1/vars/inst/book-ex/Rcode-8-11.R | 58 +++++++++++----------- vars-1.4-1/vars/inst/book-ex/Rcode-8-12.R | 12 ++-- vars-1.4-1/vars/inst/book-ex/Rcode-8-13.R | 40 +++++++-------- vars-1.4-1/vars/inst/book-ex/Rcode-8-14.R | 32 ++++++------ vars-1.4-1/vars/inst/book-ex/Rcode-8-15.R | 14 ++--- vars-1.4-1/vars/inst/book-ex/Rcode-8-16.R | 12 ++-- vars-1.4-1/vars/inst/book-ex/Rcode-8-17.R | 2 vars-1.4-1/vars/inst/book-ex/Rcode-8-2.R | 18 +++---- vars-1.4-1/vars/inst/book-ex/Rcode-8-3.R | 16 +++--- vars-1.4-1/vars/inst/book-ex/Rcode-8-4.R | 12 ++-- vars-1.4-1/vars/inst/book-ex/Rcode-8-5.R | 8 +-- vars-1.4-1/vars/inst/book-ex/Rcode-8-6.R | 8 +-- vars-1.4-1/vars/inst/book-ex/Rcode-8-7.R | 16 +++--- vars-1.4-1/vars/inst/book-ex/Rcode-8-8.R | 8 +-- vars-1.4-1/vars/inst/book-ex/Rcode-8-9.R | 38 +++++++-------- vars-1.4-1/vars/inst/book-ex/ex2.tar.gz |binary vars-1.4-1/vars/inst/doc/vars.pdf |binary 52 files changed, 591 insertions(+), 580 deletions(-)
Author: Bernhard Pfaff
Diff between urca versions 1.1-7 dated 2008-07-11 and 1.2-1 dated 2008-11-29
Title: Unit root and cointegration tests for time series data
Description: Unit root and cointegration tests encountered in applied
econometric analysis are implemented.
urca-1.1-7/urca/inst/inst |only
urca-1.2-1/urca/DESCRIPTION | 7 +-
urca-1.2-1/urca/NAMESPACE | 3 -
urca-1.2-1/urca/R/internal.R | 1
urca-1.2-1/urca/R/methods-show.R | 2
urca-1.2-1/urca/inst/CITATION | 6 +-
urca-1.2-1/urca/inst/ChangeLog | 17 +++++-
urca-1.2-1/urca/inst/Rcmdr |only
urca-1.2-1/urca/inst/book-ex/Rcode-1-1.R | 20 +++----
urca-1.2-1/urca/inst/book-ex/Rcode-1-2.R | 44 ++++++++---------
urca-1.2-1/urca/inst/book-ex/Rcode-1-3.R | 76 +++++++++++++++---------------
urca-1.2-1/urca/inst/book-ex/Rcode-2-10.R | 12 ++--
urca-1.2-1/urca/inst/book-ex/Rcode-2-11.R | 12 ++--
urca-1.2-1/urca/inst/book-ex/Rcode-2-2.R | 52 ++++++++++----------
urca-1.2-1/urca/inst/book-ex/Rcode-2-4.R | 6 +-
urca-1.2-1/urca/inst/book-ex/Rcode-2-8.R | 56 +++++++++++-----------
urca-1.2-1/urca/inst/book-ex/Rcode-2-9.R | 50 +++++++++----------
urca-1.2-1/urca/inst/book-ex/Rcode-3-1.R | 42 ++++++++--------
urca-1.2-1/urca/inst/book-ex/Rcode-3-2.R | 44 ++++++++---------
urca-1.2-1/urca/inst/book-ex/Rcode-3-3.R | 24 ++++-----
urca-1.2-1/urca/inst/book-ex/Rcode-3-4.R | 18 +++----
urca-1.2-1/urca/inst/book-ex/Rcode-4-1.R | 18 +++----
urca-1.2-1/urca/inst/book-ex/Rcode-4-2.R | 28 +++++------
urca-1.2-1/urca/inst/book-ex/Rcode-4-3.R | 42 ++++++++--------
urca-1.2-1/urca/inst/book-ex/Rcode-4-4.R | 20 +++----
urca-1.2-1/urca/inst/book-ex/Rcode-5-1.R | 18 +++----
urca-1.2-1/urca/inst/book-ex/Rcode-5-2.R | 24 ++++-----
urca-1.2-1/urca/inst/book-ex/Rcode-5-3.R | 24 ++++-----
urca-1.2-1/urca/inst/book-ex/Rcode-5-4.R | 14 ++---
urca-1.2-1/urca/inst/book-ex/Rcode-5-5.R | 12 ++--
urca-1.2-1/urca/inst/book-ex/Rcode-6-1.R | 18 +++----
urca-1.2-1/urca/inst/book-ex/Rcode-6-2.R | 16 +++---
urca-1.2-1/urca/inst/book-ex/Rcode-6-3.R | 34 ++++++-------
urca-1.2-1/urca/inst/book-ex/Rcode-7-1.R | 54 ++++++++++-----------
urca-1.2-1/urca/inst/book-ex/Rcode-7-2.R | 24 ++++-----
urca-1.2-1/urca/inst/book-ex/Rcode-7-3.R | 30 +++++------
urca-1.2-1/urca/inst/book-ex/Rcode-8-1.R | 26 +++++-----
urca-1.2-1/urca/inst/book-ex/Rcode-8-10.R | 2
urca-1.2-1/urca/inst/book-ex/Rcode-8-11.R | 58 +++++++++++-----------
urca-1.2-1/urca/inst/book-ex/Rcode-8-12.R | 12 ++--
urca-1.2-1/urca/inst/book-ex/Rcode-8-13.R | 40 +++++++--------
urca-1.2-1/urca/inst/book-ex/Rcode-8-14.R | 32 ++++++------
urca-1.2-1/urca/inst/book-ex/Rcode-8-15.R | 14 ++---
urca-1.2-1/urca/inst/book-ex/Rcode-8-16.R | 12 ++--
urca-1.2-1/urca/inst/book-ex/Rcode-8-17.R | 2
urca-1.2-1/urca/inst/book-ex/Rcode-8-2.R | 18 +++----
urca-1.2-1/urca/inst/book-ex/Rcode-8-3.R | 16 +++---
urca-1.2-1/urca/inst/book-ex/Rcode-8-4.R | 12 ++--
urca-1.2-1/urca/inst/book-ex/Rcode-8-5.R | 8 +--
urca-1.2-1/urca/inst/book-ex/Rcode-8-6.R | 8 +--
urca-1.2-1/urca/inst/book-ex/Rcode-8-7.R | 16 +++---
urca-1.2-1/urca/inst/book-ex/Rcode-8-8.R | 8 +--
urca-1.2-1/urca/inst/book-ex/Rcode-8-9.R | 38 +++++++--------
urca-1.2-1/urca/inst/book-ex/ex2.tar.gz |binary
54 files changed, 602 insertions(+), 588 deletions(-)
Author: Donghoh Kim
Diff between CVThresh versions 1.0.5 dated 2006-10-04 and 1.1.0 dated 2008-11-29
Title: Level-Dependent Cross-Validation Thresholding
Description: This package carries out level-dependent
cross-validation method for the selection of thresholding
value in wavelet shrinkage. This procedure is implemented
by coupling a conventional cross validation with an
imputation method due to a limitation of data length,
a power of 2. It can be easily applied to classical
leave-one-out and k-fold cross validation.
Since the procedure is computationally fast,
a level-dependent cross validation can be performed for
wavelet shrinkage of various data such as a data
with correlated errors.
DESCRIPTION | 10 +++++-----
R/CVThresh.R | 14 ++++++++------
man/cvwavelet.image.Rd | 2 +-
3 files changed, 14 insertions(+), 12 deletions(-)
Author: David Meyer and Kurt Hornik (with contributions by Christian Buchta)
Title: Sets, Generalized Sets, and Customizable Sets.
Description: Data structures and basic operations for ordinary sets,
generalizations such as fuzzy sets, multisets, and
fuzzy multisets, and customizable sets.
Diff between sets versions 0.3-2 dated 2008-08-12 and 0.4 dated 2008-11-28
sets-0.3-2/sets/R/fuzzy.R |only sets-0.3-2/sets/inst/doc/.build.timestamp |only sets-0.3-2/sets/inst/doc/set.Rnw |only sets-0.3-2/sets/inst/doc/set.pdf |only sets-0.4/sets/DESCRIPTION | 6 sets-0.4/sets/NAMESPACE | 120 +++++++++++------ sets-0.4/sets/NEWS | 12 + sets-0.4/sets/R/cardinality.R | 23 ++- sets-0.4/sets/R/complement.R | 10 - sets-0.4/sets/R/converters.R | 24 ++- sets-0.4/sets/R/cset.R | 31 ++-- sets-0.4/sets/R/element.R | 2 sets-0.4/sets/R/extractors.R | 47 ++++++ sets-0.4/sets/R/fuzzyfuns.R |only sets-0.4/sets/R/fuzzylogic.R |only sets-0.4/sets/R/gset.R | 98 ++++++++------ sets-0.4/sets/R/intersection.R | 10 - sets-0.4/sets/R/labels.R | 4 sets-0.4/sets/R/mean.R |only sets-0.4/sets/R/memberships.R | 39 +++++ sets-0.4/sets/R/options.R | 4 sets-0.4/sets/R/outer.R | 10 - sets-0.4/sets/R/plot.R | 210 ++++++++++++++++++++++++++++-- sets-0.4/sets/R/product.R |only sets-0.4/sets/R/set.R | 61 +++++--- sets-0.4/sets/R/summary.R | 2 sets-0.4/sets/R/utilities.R | 63 +++++++-- sets-0.4/sets/inst/NEWS | 12 + sets-0.4/sets/inst/doc/sets.Rnw |only sets-0.4/sets/inst/doc/sets.pdf |only sets-0.4/sets/man/cset.Rd | 43 +++++- sets-0.4/sets/man/fuzzy.Rd | 11 + sets-0.4/sets/man/fuzzyfuns.Rd |only sets-0.4/sets/man/gset.Rd | 90 ++++++++++-- sets-0.4/sets/man/labels.Rd | 2 sets-0.4/sets/man/options.Rd | 18 +- sets-0.4/sets/man/outer.Rd | 14 +- sets-0.4/sets/man/plot.Rd |only sets-0.4/sets/man/set.Rd | 17 +- sets-0.4/sets/paper |only 40 files changed, 772 insertions(+), 211 deletions(-)
Author: R. Gentleman, Elizabeth Whalen, W. Huber, S. Falcon
Title: graph: A package to handle graph data structures
Description: A package that implements some simple graph handling
capabilities.
Diff between graph versions 1.19.6 dated 2008-10-08 and 1.20.0 dated 2008-11-28
DESCRIPTION | 4 inst/doc/GraphClass.pdf | 6 inst/doc/clusterGraph.pdf |binary inst/doc/graph.pdf | 275 +++++++++++++++++++++---------------------- inst/doc/graphAttributes.pdf |binary 5 files changed, 145 insertions(+), 140 deletions(-)
Author: Sergej Potapov
Diff between TWIX versions 0.2.5 dated 2008-11-27 and 0.2.6 dated 2008-11-28
Title: Trees WIth eXtra splits
Description: Trees with extra splits
DESCRIPTION | 8 ++++----
R/twix.R | 7 ++++---
clean.sh | 28 ++++++++++++++++++++++++----
man/Devplot.Rd | 4 ++--
man/bagg.default.Rd | 12 ++++++++----
man/bootwix.Rd | 13 +++++++++----
man/deviance.twix.Rd | 2 +-
man/export.Rd | 4 ++--
man/get.splitvar.Rd | 2 +-
man/get.tree.Rd | 2 +-
man/olives.Rd | 6 ++----
man/plot.twix.Rd | 3 +--
man/predict.twix.Rd | 2 +-
man/print.single.tree.Rd | 2 +-
man/scree.plot.Rd | 2 +-
man/trace.plot.Rd | 2 +-
man/tuneTWIX.Rd | 2 +-
man/twix.Rd | 6 +++---
18 files changed, 67 insertions(+), 40 deletions(-)
Author: Vince Carey
Diff between RBGL versions 1.17.2 dated 2008-10-08 and 1.18.0 dated 2008-11-28
Title: An interface to the BOOST graph library
Description: A fairly extensive and comprehensive interface to the graph
algorithms contained in the BOOST library.
DESCRIPTION | 4
inst/doc/RBGL.pdf | 1141 ++++++++++++++++++++++++++----------------------------
2 files changed, 571 insertions(+), 574 deletions(-)
Author: John Fox
Diff between sem versions 0.9-13 dated 2008-09-22 and 0.9-14 dated 2008-11-28
Title: Structural Equation Models
Description: This package contains functions for fitting general linear structural
equation models (with observed and unobserved variables) by the method of
maximum likelihood using the RAM approach, and for fitting structural equations
in observed-variable models by two-stage least squares.
DESCRIPTION | 7 ++++---
R/boot.sem.R | 4 ++--
R/sem.R | 9 ++++-----
R/summary.sem.R | 12 +++++++++++-
inst/CHANGES | 10 ++++++++++
5 files changed, 31 insertions(+), 11 deletions(-)
Author: John Fox
Diff between effects versions 1.0-12 dated 2008-04-06 and 2.0-0 dated 2008-11-28
Title: Effect Displays for Linear, Generalized Linear, Multinomial-Logit, and Proportional-Odds Logit Models
Description:
Graphical and tabular effect displays, e.g., of interactions, for linear
generalized linear, multinomial-logit, and proportional-odds logit models.
effects-1.0-12/effects/R/effects-plots.R |only
effects-1.0-12/effects/data/Arrests.txt |only
effects-1.0-12/effects/data/Cowles.txt |only
effects-1.0-12/effects/data/Prestige.txt |only
effects-2.0-0/effects/DESCRIPTION | 15 -
effects-2.0-0/effects/NAMESPACE | 19 +-
effects-2.0-0/effects/R/effects.R |only
effects-2.0-0/effects/R/plot-summary-print-methods.R |only
effects-2.0-0/effects/R/utilities.R |only
effects-2.0-0/effects/data/BEPS.rda |only
effects-2.0-0/effects/data/WVS.rda |only
effects-2.0-0/effects/inst/CHANGES | 7
effects-2.0-0/effects/man/BEPS.Rd |only
effects-2.0-0/effects/man/WVS.Rd |only
effects-2.0-0/effects/man/effect.Rd | 167 +++++++++++--------
effects-2.0-0/effects/man/effects-deprecated.Rd |only
effects-2.0-0/effects/man/summary.effect.Rd | 160 +++++++++++-------
17 files changed, 234 insertions(+), 134 deletions(-)
Author: Chunquan Li
Title: Annotation and identification of the KEGG pathways.
Description: SubpathwayMiner facilitates sub-pathway annotation and identification of metabolic pathways. It also provides annotation and identification of entire pathways.
Diff between SubpathwayMiner versions 1.0 dated 2008-11-27 and 1.1 dated 2008-11-28
DESCRIPTION | 8 ++++---- inst/doc/Rplots.pdf | 4 ++-- inst/doc/SubpathwayMiner.pdf |binary man/gotoKEGG.Rd | 4 ++-- man/plotAnn.Rd | 2 +- 5 files changed, 9 insertions(+), 9 deletions(-)
More information about SubpathwayMiner at CRAN
Permanent link
Author: Rolf Turner
Diff between Iso versions 0.0-5 dated 2008-06-12 and 0.0-6 dated 2008-11-28
Title: Functions to perform isotonic regression.
Description: Does linear order and unimodal order isotonic regression.
DESCRIPTION | 6 +++---
INDEX | 8 ++++----
R/First.R | 3 +++
R/pava.R | 24 ++++++++++++++++--------
R/pava.sa.R | 38 +++++++++++++++++++++++++-------------
R/ufit.R | 19 +++++++++++++++----
man/pava.Rd | 43 ++++++++++++++++++++++++++++++++++++-------
man/ufit.Rd | 48 ++++++++++++++++++++++++++++--------------------
8 files changed, 130 insertions(+), 59 deletions(-)
Author: Donghoh Kim
Diff between EMD versions 1.1.0 dated 2008-05-08 and 1.2.0 dated 2008-11-28
Title: Empirical Mode Decomposition and Hilbert Spectral Analysis
Description: This package carries out empirical mode decompostion and Hilbert spectral
analysis.
DESCRIPTION | 6 -
R/EMD1d.R | 32 +++++-----
R/Hilbert.R | 2
man/EMD-internal.Rd | 26 ++++----
man/cvtype.Rd | 66 ++++++++++-----------
man/emd.Rd | 134 ++++++++++++++++++++++----------------------
man/emd.pred.Rd | 52 ++++++++---------
man/emd2d.Rd | 102 ++++++++++++++++-----------------
man/emddenoise.Rd | 148 ++++++++++++++++++++++++------------------------
man/extractimf.Rd | 108 +++++++++++++++++------------------
man/extractimf2d.Rd | 102 ++++++++++++++++-----------------
man/extrema.Rd | 78 ++++++++++++-------------
man/extrema2dC.Rd | 86 ++++++++++++++--------------
man/hilbertspec.Rd | 104 +++++++++++++++++-----------------
man/imageEMD.Rd | 52 ++++++++---------
man/kospi200.Rd | 38 ++++++------
man/lena.Rd | 36 +++++------
man/lennon.Rd | 36 +++++------
man/solar.Rd | 158 ++++++++++++++++++++++++++--------------------------
man/spectrogram.Rd | 122 ++++++++++++++++++++--------------------
man/sunspot.Rd | 54 ++++++++---------
21 files changed, 771 insertions(+), 771 deletions(-)
Author: Vinzenz Erhardt
Title: Generate correlated count random variables
Description: Generate high-dimensional correlated count random variables with a prespecified Pearson correlation.
Diff between corcounts versions 1.1 dated 2008-11-13 and 1.2 dated 2008-11-27
DESCRIPTION | 6 +- NAMESPACE | 2 R/modified.cvine.alg.reg.R |only R/rcounts.R | 2 R/rcounts.reg.R |only man/c2pc.Rd | 54 ++++++++++++++++++++++- man/corcounts-package.Rd | 76 +++++++++++++++++---------------- man/modified.cvine.alg.reg.Rd |only man/pc2c.Rd | 62 ++++++++++++++++++++++++++- man/rcounts.Rd | 95 ++++++++++++++++++++---------------------- man/rcounts.reg.Rd |only 11 files changed, 201 insertions(+), 96 deletions(-)
Author: Wolfgang Breymann, David Luethi
Title: A package on the generalized hyperbolic distribution and its special cases
Description: This package provides detailed functionality for working with the univariate and multivariate Generalized Hyperbolic distribution and its special cases (Hyperbolic (hyp), Normal Inverse Gaussian (NIG), Variance Gamma (VG), skewed Student-t and Gaussian distribution). Especially, it contains fitting procedures, an AIC-based model selection routine, and functions for the computation of density, quantile, probability, random variates, expected shortfall and some portfolio optimization and plotting routines as well as the likelihood ratio test. In addition, it contains the Generalized Inverse Gaussian distribution.
Diff between ghyp versions 1.4.0 dated 2008-10-29 and 1.5.0 dated 2008-11-27
ChangeLog | 20 DESCRIPTION | 6 NAMESPACE | 1 R/ghypGIG.R | 457 + R/ghypGenericMethods.R | 107 inst/doc/Generalized_Hyperbolic_Distribution.pdf | 6674 +++++++++++------------ man/ghyp-distribution.Rd | 12 man/ghyp-internal.Rd | 16 man/ghyp-mle.ghyp-classes.Rd | 1 man/ghyp-package.Rd | 5 man/gig-distribution.Rd | 22 man/scale-methods.Rd |only man/transform-extract-methods.Rd | 25 13 files changed, 3787 insertions(+), 3559 deletions(-)
Author: Sergej Potapov
Diff between TWIX versions 0.2.4 dated 2007-11-27 and 0.2.5 dated 2008-11-27
Title: Trees WIth eXtra splits
Description: Trees with extra splits
TWIX-0.2.4/TWIX/R/Devplot.r |only
TWIX-0.2.4/TWIX/R/bagg.boottwix.r |only
TWIX-0.2.4/TWIX/R/boottwix.r |only
TWIX-0.2.4/TWIX/R/deviance.twix.r |only
TWIX-0.2.4/TWIX/R/export.r |only
TWIX-0.2.4/TWIX/R/get.splitvar.r |only
TWIX-0.2.4/TWIX/R/get.tree.r |only
TWIX-0.2.4/TWIX/R/iDevplot.R |only
TWIX-0.2.4/TWIX/R/nlogn.r |only
TWIX-0.2.4/TWIX/R/plot.twix.r |only
TWIX-0.2.4/TWIX/R/pred.value.r |only
TWIX-0.2.4/TWIX/R/predict.bootwix.r |only
TWIX-0.2.4/TWIX/R/predict_twix.R |only
TWIX-0.2.4/TWIX/R/print.padj.tree.r |only
TWIX-0.2.4/TWIX/R/print.single.tree.r |only
TWIX-0.2.4/TWIX/R/print.twix.r |only
TWIX-0.2.4/TWIX/R/sb_padj.R |only
TWIX-0.2.4/TWIX/R/sp.slave.r |only
TWIX-0.2.4/TWIX/R/splitt.r |only
TWIX-0.2.4/TWIX/R/splitt_padj.R |only
TWIX-0.2.4/TWIX/R/summary.twix.r |only
TWIX-0.2.4/TWIX/R/zzz.r |only
TWIX-0.2.4/TWIX/cleanup.sh |only
TWIX-0.2.4/TWIX/data/cancer.tsv |only
TWIX-0.2.4/TWIX/man/Dev.leaf.Rd |only
TWIX-0.2.4/TWIX/man/iDevplot.Rd |only
TWIX-0.2.4/TWIX/man/nlogn.Rd |only
TWIX-0.2.4/TWIX/man/pred.value.Rd |only
TWIX-0.2.4/TWIX/man/sp.slave.Rd |only
TWIX-0.2.5/TWIX/DESCRIPTION | 20
TWIX-0.2.5/TWIX/NAMESPACE | 13
TWIX-0.2.5/TWIX/R/Devplot.R |only
TWIX-0.2.5/TWIX/R/bagg.boottwix.R |only
TWIX-0.2.5/TWIX/R/boottwix.R |only
TWIX-0.2.5/TWIX/R/deviance.twix.R |only
TWIX-0.2.5/TWIX/R/export.R |only
TWIX-0.2.5/TWIX/R/get.splitvar.R |only
TWIX-0.2.5/TWIX/R/get.tree.R |only
TWIX-0.2.5/TWIX/R/impor.R | 63 -
TWIX-0.2.5/TWIX/R/ncmaxstat.R | 188 +--
TWIX-0.2.5/TWIX/R/nlogn.R |only
TWIX-0.2.5/TWIX/R/plot.twix.R |only
TWIX-0.2.5/TWIX/R/pred.value.R |only
TWIX-0.2.5/TWIX/R/predict.boot.R |only
TWIX-0.2.5/TWIX/R/predict.bootwix.R |only
TWIX-0.2.5/TWIX/R/predict.twix.R |only
TWIX-0.2.5/TWIX/R/print.padj.tree.R |only
TWIX-0.2.5/TWIX/R/print.single.tree.R |only
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TWIX-0.2.5/TWIX/R/sb.padj.R |only
TWIX-0.2.5/TWIX/R/sp.bagg.R |only
TWIX-0.2.5/TWIX/R/sp.slave.R |only
TWIX-0.2.5/TWIX/R/splitt.deviance.R |only
TWIX-0.2.5/TWIX/R/splitt.padj.R |only
TWIX-0.2.5/TWIX/R/summary.twix.R |only
TWIX-0.2.5/TWIX/R/trace.plot.R | 4
TWIX-0.2.5/TWIX/R/tuneTWIX.R | 90 -
TWIX-0.2.5/TWIX/R/twix.R | 1922 ++++++++++++++-----------------
TWIX-0.2.5/TWIX/R/zzz.R |only
TWIX-0.2.5/TWIX/clean.sh |only
TWIX-0.2.5/TWIX/man/Devplot.Rd | 31
TWIX-0.2.5/TWIX/man/bagg.default.Rd | 65 -
TWIX-0.2.5/TWIX/man/bootwix.Rd | 101 -
TWIX-0.2.5/TWIX/man/deviance.twix.Rd | 10
TWIX-0.2.5/TWIX/man/export.Rd | 15
TWIX-0.2.5/TWIX/man/fullrks.Rd | 10
TWIX-0.2.5/TWIX/man/get.splitvar.Rd | 17
TWIX-0.2.5/TWIX/man/get.tree.Rd | 10
TWIX-0.2.5/TWIX/man/olives.Rd | 6
TWIX-0.2.5/TWIX/man/plot.twix.Rd | 40
TWIX-0.2.5/TWIX/man/predict.twix.Rd | 63 -
TWIX-0.2.5/TWIX/man/print.id.tree.Rd | 4
TWIX-0.2.5/TWIX/man/print.single.tree.Rd | 25
TWIX-0.2.5/TWIX/man/print.twix.Rd | 3
TWIX-0.2.5/TWIX/man/scree.plot.Rd | 12
TWIX-0.2.5/TWIX/man/splitt.Rd | 12
TWIX-0.2.5/TWIX/man/splitt_padj.Rd |only
TWIX-0.2.5/TWIX/man/trace.plot.Rd | 34
TWIX-0.2.5/TWIX/man/tuneTWIX.Rd | 22
TWIX-0.2.5/TWIX/man/twix.Rd | 115 +
TWIX-0.2.5/TWIX/src/Devleaf.c |only
TWIX-0.2.5/TWIX/src/Devleaf.h |only
TWIX-0.2.5/TWIX/src/important.c |only
TWIX-0.2.5/TWIX/src/maxstat.c |only
TWIX-0.2.5/TWIX/src/pLausen94.c |only
TWIX-0.2.5/TWIX/src/pLausen94.h |only
TWIX-0.2.5/TWIX/src/pred.c | 143 +-
TWIX-0.2.5/TWIX/src/split-sum.c | 56
TWIX-0.2.5/TWIX/src/split-sum_cr.c | 28
TWIX-0.2.5/TWIX/src/split_cat.c | 282 +++-
TWIX-0.2.5/TWIX/src/split_cross.c | 25
TWIX-0.2.5/TWIX/src/split_rule.c | 232 +++
TWIX-0.2.5/TWIX/src/tw_table.c | 153 ++
TWIX-0.2.5/TWIX/src/tw_table.h |only
TWIX-0.2.5/TWIX/src/utils.c |only
TWIX-0.2.5/TWIX/src/utils.h |only
96 files changed, 2107 insertions(+), 1707 deletions(-)
Author: Julian Taylor
Diff between wgaim versions 0.1-2 dated 2008-07-15 and 0.2 dated 2008-11-27
Title: Whole Genome Average Interval Mapping for QTL detection using mixed models
Description: This package integrates sophisticated mixed modelling methods with a whole genome approach to detecting significant QTL's in linkage maps.
DESCRIPTION | 4
R/wgaim.R | 278 +++++++++++++++++++++++++++---------------------
man/link.map.cross.Rd | 7 -
man/link.map.default.Rd |only
man/link.map.wgaim.Rd | 24 ++--
man/wgaim-internal.Rd | 6 -
6 files changed, 186 insertions(+), 133 deletions(-)
Author: Robert B. Gramacy
Diff between tgp versions 2.1-5 dated 2008-10-25 and 2.1-6 dated 2008-11-27
Title: Bayesian treed Gaussian process models
Description: Bayesian nonstationary, semiparametric nonlinear regression
and design by treed Gaussian processes with jumps to the limiting
linear model (LLM). Special cases also implemented include Bayesian
linear models, CART, treed linear models, stationary separable and
isotropic Gaussian processes. Provides 1-d and 2-d plotting functions
(with projection and slice capabilities) and tree drawing, designed for
visualization of tgp-class output. Sensitivity analysis and
multi-resolution models are supported, and a limited set of experimental
design and adaptive sampling functions are also provided, including ALM,
ALC, and expected improvement.
ChangeLog | 8 +++
DESCRIPTION | 4 -
R/tgp.default.params.R | 2
demo/cat.R | 44 +++++++++++++---
demo/it.R | 129 +++++++++++++++++++++++++++++++++++++------------
src/temper.cc | 3 +
6 files changed, 149 insertions(+), 41 deletions(-)
More information about SubpathwayMiner at CRAN
Permanent link
Author: Yurii Aulchenko, Maksim Struchalin
Title: genome-wide SNP association analysis
Description: a package for genome-wide association analysis between
quantitative or binary traits and single-nucleiotide
polymorphisms (SNPs).
Diff between GenABEL versions 1.4-0 dated 2008-08-22 and 1.4-1 dated 2008-11-27
CHANGES.LOG | 902 +-- DESCRIPTION | 26 NAMESPACE | 5 R/egscore.R | 3 R/egscore.old.R |only R/hom.R | 20 R/hom.old.R |only R/ibs.R | 73 R/ibs.old.R |only R/load.gwaa.data.R | 9 R/mlreg.R | 24 R/mlreg.p.R |only R/perid.summary.R | 17 R/r2fast.R | 60 R/r2fast.old.R |only TODO | 3 inst/doc/ABEL-tutorial.pdf |12343 +++++++++++++++++++++----------------------- inst/doc/GenABEL-manual.pdf | 7509 +++++++++++++------------- man/GenABEL-package.Rd | 4 man/egscore.Rd | 6 man/egscore.old.Rd |only man/hom.Rd | 18 man/hom.old.Rd |only man/ibs.Rd | 10 man/ibs.old.Rd |only man/mlreg.Rd | 11 man/mlreg.p.Rd |only man/perid.summary.Rd | 3 man/r2fast.Rd | 6 man/r2fast.old.Rd |only src/gwaa.c | 231 src/lm_gwaa.cpp | 9 src/merge.snp.data.cpp | 242 33 files changed, 10964 insertions(+), 10570 deletions(-)
Author: Sanjay Chaudhuri
Diff between glmc versions 0.2-1 dated 2006-12-06 and 0.2-2 dated 2008-11-26
Title: Fitting Generalized Linear Models Subject to Constraints
Description: Fits generalized linear models where the parameters are subject to linear constraints. The model is specified by giving a symbolic description of the linear predictor, a description of the error distribution, and a matrix of constraints on the parameters.
DESCRIPTION | 4 ++--
R/glmc.r | 2 +-
2 files changed, 3 insertions(+), 3 deletions(-)
Author: Holger Froehlich
Diff between gene2pathway versions 1.0.3 dated 2008-11-12 and 1.0.5 dated 2008-11-26
Title: Prediction of KEGG pathway membership for individual genes based on InterPro domain signatures
Description: The package takes a list of genes and predicts to which KEGG pathway each gene maps to. This is done by looking at the InterPro domains of each gene. Each prediction is assigned a confidence score. The package also allows to predict connected component membership of genes within signaling pathways. Separate models for each organism supported by KEGG can be trained.
CITATION |only
DESCRIPTION | 6 +--
NAMESPACE | 5 ++-
R/buildTrainingSet.R | 2 -
R/gene2pathway.R | 45 ++++++++++++++++++----------
R/gene2pathway.signaltrans.R | 22 ++++++++-----
R/test.overrepresentation.R | 11 ++++--
data/classificationModelSignalTrans_hsa.rda |binary
inst/doc/gene2pathway.Rnw | 6 +--
inst/doc/gene2pathway.pdf |binary
man/ORF2Entrez.Rd | 1
man/getComponents.Rd | 2 +
man/internal.Rd | 2 -
man/retrain.Rd | 5 +++
man/retrain.signaltrans.Rd | 5 +++
man/test.overrepresentation.Rd | 5 ++-
16 files changed, 78 insertions(+), 39 deletions(-)
Author: Jose L. Izquierdo
Diff between Metabonomic versions 2.1 dated 2008-11-24 and 2.2 dated 2008-11-26
Title: GUI for Metabonomic Analysis
Description: Graphical User Interface for the Metabonomic Analysis (Baseline, Normalization, Peak Detection,
PCA, PLS, Nearest Neigbourgt, Neural Network) developed to make easy this data analysis.
DESCRIPTION | 6 +++---
R/Baseline.Correction.R | 18 +++++++++---------
R/Met.delete.R | 10 +++++-----
R/Met.spectrum.2.R | 10 +++++-----
R/Met.spectrum.R | 10 +++++-----
R/Metabonomic-internal.R | 2 +-
inst |only
7 files changed, 28 insertions(+), 28 deletions(-)
Author: Arnost Komarek
Diff between bayesSurv versions 0.5-10 dated 2008-06-26 and 0.6 dated 2008-11-26
Title: Bayesian Survival Regression with Flexible Error and Random Effects Distributions
Description: Later
CHANGES | 5 +++++
DESCRIPTION | 6 +++---
R/bayesBisurvreg.writeHeaders.R | 10 ++++++----
R/bayessurvreg.design.R | 8 ++++----
R/bayessurvreg1.writeHeaders.R | 20 +++++++++++---------
R/bayessurvreg2.R | 2 +-
R/bayessurvreg2.priorBeta.R | 29 +++++++++++++++++++++--------
R/bayessurvreg2.writeHeaders.R | 14 ++++++++------
R/bayessurvreg3.writeHeaders.R | 12 +++++++-----
R/files.Gspline.R | 28 ++++++++++++++++------------
src/bayessurvreg2.cpp | 16 +++++++++++-----
src/classBetaGamma.cpp | 3 +--
src/classRandomEff.cpp | 7 ++++---
src/classRandomEff.h | 2 +-
14 files changed, 99 insertions(+), 63 deletions(-)
Author: Brian J. Smith
Diff between ramps versions 0.6-6 dated 2008-07-28 and 0.6-7 dated 2008-11-26
Title: Bayesian Geostatistical Modeling with RAMPS
Description: Bayesian geostatistical modeling of Gaussian processes using a reparameterized and marginalized posterior sampling (RAMPS) algorithm designed to lower autocorrelation in MCMC samples. Package performance is tuned for large spatial datasets.
DESCRIPTION | 6 +++---
R/graphics.R | 6 +++---
2 files changed, 6 insertions(+), 6 deletions(-)
Author: Ioannis Kosmidis
Diff between profileModel versions 0.5-5 dated 2008-11-21 and 0.5-6 dated 2008-11-26
Title: Tools for profiling inference functions for various model classes
Description: profileModel provides tools that can be used to calculate, evaluate, plot and use for inference the profiles of *arbitrary* inference functions for *arbitrary* 'glm'-like fitted models with linear predictors.
DESCRIPTION | 6 +++---
NAMESPACE | 2 +-
R/plot.profileModel.R | 7 ++++---
R/print.profileModel.R | 24 +++++++++++++++++++++---
R/profileModel.R | 2 +-
inst/CHANGES | 6 ++++++
inst/CITATION | 2 +-
man/confintModel.Rd | 9 ++-------
man/profileModel.Rd | 3 +--
9 files changed, 40 insertions(+), 21 deletions(-)
Author: Edzer J. Pebesma
Diff between gstat versions 0.9-55 dated 2008-11-13 and 0.9-56 dated 2008-11-26
Title: geostatistical modelling, prediction and simulation
Description: variogram modelling; simple, ordinary and universal point
or block (co)kriging, sequential Gaussian or indicator (co)simulation;
variogram and variogram map plotting utility functions.
DESCRIPTION | 6 +++---
man/show.vgms.Rd | 3 +++
src/mapio.c | 3 +++
src/s.c | 18 +++++++++++-------
src/vario.c | 7 +++++++
src/vario_fn.c | 35 +++++++++++++++++++++++++----------
6 files changed, 52 insertions(+), 20 deletions(-)
Author: Ioannis Kosmidis
Diff between brglm versions 0.5-3 dated 2008-04-10 and 0.5-4 dated 2008-11-26
Title: Bias reduction in binomial-response GLMs.
Description: Fit binomial-response GLMs using either a modified-score approach to bias reduction or maximum penalized likelihood where penalization is by Jeffreys invariant prior. Fitting takes place by iteratively fitting a local GLM on a pseudo-data representation. The interface is essentially the same as 'glm'. More flexibility is provided by the fact that custom pseudo-data representations can be specified and used for model fitting. Functions are provided for the construction of confidence intervals for the bias-reduced estimates.
DESCRIPTION | 10 +++++-----
R/brglm.R | 40 +++++++++++++++++++++++++++++-----------
R/confint.brglm.R | 4 ++--
R/plot.profile.brglm.R | 4 ++--
R/profile.brglm.R | 16 ++++++++--------
R/separation.detection.R | 6 ++++--
inst/CHANGES | 14 ++++++++++++--
inst/CITATION |only
man/brglm.Rd | 44 +++++++++++++++-----------------------------
man/lizards.Rd | 5 +----
10 files changed, 78 insertions(+), 65 deletions(-)
Author: Andrew Gelman
Diff between arm versions 1.1-16 dated 2008-10-01 and 1.1-17 dated 2008-11-26
Title: Data Analysis Using Regression and Multilevel/Hierarchical Models
Description: R functions for processing lm, glm, mer and polr outputs.
CHANGELOG | 27 +++++++++++++--
DESCRIPTION | 6 +--
R/AllInternal.R | 77 +++++++++++++++++++++++++++++++++++++++++++-
R/coefplot.R | 28 ++++++++--------
R/matching.R | 87 +++++++++++++++++++++++++++++++++++++++++++++-----
R/se.coef.R | 2 -
R/sim.R | 10 ++---
man/coefplot.Rd | 6 +--
man/matching.Rd | 9 +++--
man/multicomp.plot.Rd | 2 -
man/sim.Rd | 13 ++++++-
11 files changed, 223 insertions(+), 44 deletions(-)
More information about RcmdrPlugin.orloca at CRAN
Permanent link
Author: Ravi Varadhan
Title: Solving and optimizing large-scale nonlinear systems
Description: Barzilai-Borwein Spectral Methods for solving nonlinear system of
equations, and for optimizing nonlinear objective functions subject to simple
constraints.
Diff between BB versions 2008.8-1 dated 2008-08-06 and 2008.11-1 dated 2008-11-26
DESCRIPTION | 6 NEWS | 23 +++ R/dfsane.R | 391 ++++++++++++++++++++++++++++++------------------------- R/sane.R | 376 ++++++++++++++++++++++++++++------------------------ Rplots.pdf |only inst/doc/BB.pdf |binary man/dfsane.Rd | 102 +++++++++----- man/sane.Rd | 155 ++++++++++++++------- man/spg.Rd | 2 tests/broyds.R |only tests/broydt2.R |only tests/ccreact.R |only tests/dfsane.R | 11 - tests/expo3.R |only tests/extrosbk.R |only tests/sane.R | 5 tests/trigexp.R |only tests/troesch.R |only 18 files changed, 628 insertions(+), 443 deletions(-)
Author: Mario Hasler
Title: Simultaneous Comparisons for Multiple Endpoints
Description: Simultaneous tests and confidence intervals for general
linear hypotheses when there is more than one primary
response variable (endpoint). The procedure of Hasler
(2008) is applied for differences or ratios of means of
normally distributed data. The covariance matrices
(containing the covariances between the endpoints) may
be assumed to be equal or possibly unequal for the
different groups.
Diff between SimComp versions 1.1 dated 2008-11-24 and 1.2 dated 2008-11-25
DESCRIPTION | 4 ++-- man/SimComp-package.Rd | 4 ++-- 2 files changed, 4 insertions(+), 4 deletions(-)
Author: Josef Leydold and Wolfgang H\"ormann
Title: R interface to the UNU.RAN random variate generators
Description: Interface to the UNU.RAN library for Universal Non-Uniform RANdom variate generators
Diff between Runuran versions 0.7.1 dated 2008-06-05 and 0.8.0 dated 2008-11-25
Runuran-0.7.1/Runuran/R/unuran_methods.R |only Runuran-0.7.1/Runuran/man/unuran.sample-methods.Rd |only Runuran-0.7.1/Runuran/src/Runuran_special.c |only Runuran-0.7.1/Runuran/tests/test_methods.R |only Runuran-0.7.1/Runuran/tests/test_special.R |only Runuran-0.8.0/Runuran/DESCRIPTION | 8 Runuran-0.8.0/Runuran/NAMESPACE | 7 Runuran-0.8.0/Runuran/NEWS | 75 +- Runuran-0.8.0/Runuran/R/Runuran.R | 22 Runuran-0.8.0/Runuran/R/deprecated.R |only Runuran-0.8.0/Runuran/R/universal.R |only Runuran-0.8.0/Runuran/R/unuran_cmv.R | 12 Runuran-0.8.0/Runuran/R/unuran_cont.R | 19 Runuran-0.8.0/Runuran/R/unuran_discr.R | 19 Runuran-0.8.0/Runuran/R/unuran_distr.R | 6 Runuran-0.8.0/Runuran/cleanup |only Runuran-0.8.0/Runuran/inst |only Runuran-0.8.0/Runuran/man/Runuran-package.Rd | 269 +++++--- Runuran-0.8.0/Runuran/man/ars.new.Rd |only Runuran-0.8.0/Runuran/man/dari.new.Rd |only Runuran-0.8.0/Runuran/man/dau.new.Rd |only Runuran-0.8.0/Runuran/man/dgt.new.Rd |only Runuran-0.8.0/Runuran/man/hitro.new.Rd |only Runuran-0.8.0/Runuran/man/itdr.new.Rd |only Runuran-0.8.0/Runuran/man/pinv.new.Rd |only Runuran-0.8.0/Runuran/man/r-method.Rd |only Runuran-0.8.0/Runuran/man/srou.new.Rd |only Runuran-0.8.0/Runuran/man/tdr.new.Rd |only Runuran-0.8.0/Runuran/man/unuran-class.Rd | 52 - Runuran-0.8.0/Runuran/man/unuran.cmv-class.Rd | 65 - Runuran-0.8.0/Runuran/man/unuran.cmv.new.Rd |only Runuran-0.8.0/Runuran/man/unuran.cont-class.Rd | 26 Runuran-0.8.0/Runuran/man/unuran.cont.new.Rd |only Runuran-0.8.0/Runuran/man/unuran.details.Rd | 6 Runuran-0.8.0/Runuran/man/unuran.discr-class.Rd | 33 Runuran-0.8.0/Runuran/man/unuran.discr.new.Rd |only Runuran-0.8.0/Runuran/man/unuran.distr-class.Rd | 12 Runuran-0.8.0/Runuran/man/unuran.distr.deprecated.Rd |only Runuran-0.8.0/Runuran/man/unuran.new.Rd | 334 +--------- Runuran-0.8.0/Runuran/man/uq.Rd |only Runuran-0.8.0/Runuran/man/uqhinv.Rd | 27 Runuran-0.8.0/Runuran/man/ur.Rd |only Runuran-0.8.0/Runuran/man/urbeta.Rd | 2 Runuran-0.8.0/Runuran/man/urbinom.Rd | 6 Runuran-0.8.0/Runuran/man/urburr.Rd | 4 Runuran-0.8.0/Runuran/man/urcauchy.Rd | 2 Runuran-0.8.0/Runuran/man/urchi.Rd | 2 Runuran-0.8.0/Runuran/man/urchisq.Rd | 2 Runuran-0.8.0/Runuran/man/urdgt.Rd | 20 Runuran-0.8.0/Runuran/man/urexp.Rd | 4 Runuran-0.8.0/Runuran/man/urextremeI.Rd | 2 Runuran-0.8.0/Runuran/man/urextremeII.Rd | 4 Runuran-0.8.0/Runuran/man/urf.Rd | 2 Runuran-0.8.0/Runuran/man/urgamma.Rd | 4 Runuran-0.8.0/Runuran/man/urgeom.Rd | 4 Runuran-0.8.0/Runuran/man/urgig.Rd | 2 Runuran-0.8.0/Runuran/man/urhitro.Rd | 64 - Runuran-0.8.0/Runuran/man/urhyper.Rd | 4 Runuran-0.8.0/Runuran/man/urhyperbolic.Rd | 6 Runuran-0.8.0/Runuran/man/urlaplace.Rd | 4 Runuran-0.8.0/Runuran/man/urlnorm.Rd | 2 Runuran-0.8.0/Runuran/man/urlogarithmic.Rd | 4 Runuran-0.8.0/Runuran/man/urlogis.Rd | 4 Runuran-0.8.0/Runuran/man/urlomax.Rd | 4 Runuran-0.8.0/Runuran/man/urnbinom.Rd | 2 Runuran-0.8.0/Runuran/man/urnorm.Rd | 4 Runuran-0.8.0/Runuran/man/urpareto.Rd | 2 Runuran-0.8.0/Runuran/man/urplanck.Rd | 11 Runuran-0.8.0/Runuran/man/urpois.Rd | 6 Runuran-0.8.0/Runuran/man/urpowerexp.Rd | 2 Runuran-0.8.0/Runuran/man/urrayleigh.Rd | 6 Runuran-0.8.0/Runuran/man/urt.Rd | 4 Runuran-0.8.0/Runuran/man/urtdr.Rd | 45 - Runuran-0.8.0/Runuran/man/urtriang.Rd | 6 Runuran-0.8.0/Runuran/man/urweibull.Rd | 2 Runuran-0.8.0/Runuran/man/vnrou.new.Rd |only Runuran-0.8.0/Runuran/src/Makevars.in | 2 Runuran-0.8.0/Runuran/src/Runuran.c | 75 ++ Runuran-0.8.0/Runuran/src/Runuran.h | 19 Runuran-0.8.0/Runuran/src/Runuran_distr.c | 67 +- Runuran-0.8.0/Runuran/src/unuran-src/distr/cemp.c | 42 - Runuran-0.8.0/Runuran/src/unuran-src/distr/condi.c | 30 Runuran-0.8.0/Runuran/src/unuran-src/distr/cont.c | 50 - Runuran-0.8.0/Runuran/src/unuran-src/distr/corder.c | 28 Runuran-0.8.0/Runuran/src/unuran-src/distr/cvec.c | 76 +- Runuran-0.8.0/Runuran/src/unuran-src/distr/cvemp.c | 22 Runuran-0.8.0/Runuran/src/unuran-src/distr/cxtrans.c | 44 - Runuran-0.8.0/Runuran/src/unuran-src/distr/discr.c | 40 - Runuran-0.8.0/Runuran/src/unuran-src/distr/matr.c | 14 Runuran-0.8.0/Runuran/src/unuran-src/distributions/c_gamma.c | 2 Runuran-0.8.0/Runuran/src/unuran-src/distributions/c_gig_gen.c | 10 Runuran-0.8.0/Runuran/src/unuran-src/distributions/c_normal_gen.c | 9 Runuran-0.8.0/Runuran/src/unuran-src/distributions/d_binomial_gen.c | 50 - Runuran-0.8.0/Runuran/src/unuran-src/distributions/d_hypergeometric_gen.c | 47 - Runuran-0.8.0/Runuran/src/unuran-src/distributions/d_logarithmic_gen.c | 2 Runuran-0.8.0/Runuran/src/unuran-src/distributions/d_negativebinomial.c | 2 Runuran-0.8.0/Runuran/src/unuran-src/distributions/d_poisson_gen.c | 14 Runuran-0.8.0/Runuran/src/unuran-src/methods/arou.c | 227 +++--- Runuran-0.8.0/Runuran/src/unuran-src/methods/ars.c | 212 +++--- Runuran-0.8.0/Runuran/src/unuran-src/methods/auto.c | 14 Runuran-0.8.0/Runuran/src/unuran-src/methods/cext.c | 12 Runuran-0.8.0/Runuran/src/unuran-src/methods/cstd.c | 46 - Runuran-0.8.0/Runuran/src/unuran-src/methods/dari.c | 74 +- Runuran-0.8.0/Runuran/src/unuran-src/methods/dau.c | 52 - Runuran-0.8.0/Runuran/src/unuran-src/methods/dext.c | 12 Runuran-0.8.0/Runuran/src/unuran-src/methods/dgt.c | 52 - Runuran-0.8.0/Runuran/src/unuran-src/methods/dsrou.c | 56 - Runuran-0.8.0/Runuran/src/unuran-src/methods/dss.c | 22 Runuran-0.8.0/Runuran/src/unuran-src/methods/dstd.c | 34 - Runuran-0.8.0/Runuran/src/unuran-src/methods/empk.c | 64 - Runuran-0.8.0/Runuran/src/unuran-src/methods/empl.c | 16 Runuran-0.8.0/Runuran/src/unuran-src/methods/gibbs.c | 76 +- Runuran-0.8.0/Runuran/src/unuran-src/methods/hinv.c | 135 +--- Runuran-0.8.0/Runuran/src/unuran-src/methods/hist.c | 18 Runuran-0.8.0/Runuran/src/unuran-src/methods/hitro.c | 103 +-- Runuran-0.8.0/Runuran/src/unuran-src/methods/hrb.c | 36 - Runuran-0.8.0/Runuran/src/unuran-src/methods/hrd.c | 32 Runuran-0.8.0/Runuran/src/unuran-src/methods/hri.c | 40 - Runuran-0.8.0/Runuran/src/unuran-src/methods/itdr.c | 62 - Runuran-0.8.0/Runuran/src/unuran-src/methods/mcorr.c | 20 Runuran-0.8.0/Runuran/src/unuran-src/methods/mvstd.c | 22 Runuran-0.8.0/Runuran/src/unuran-src/methods/mvtdr_debug.ch | 102 +-- Runuran-0.8.0/Runuran/src/unuran-src/methods/mvtdr_info.ch | 5 Runuran-0.8.0/Runuran/src/unuran-src/methods/mvtdr_init.ch | 2 Runuran-0.8.0/Runuran/src/unuran-src/methods/ninv.c | 60 - Runuran-0.8.0/Runuran/src/unuran-src/methods/norta.c | 38 - Runuran-0.8.0/Runuran/src/unuran-src/methods/nrou.c | 37 - Runuran-0.8.0/Runuran/src/unuran-src/methods/pinv.c |only Runuran-0.8.0/Runuran/src/unuran-src/methods/pinv.h |only Runuran-0.8.0/Runuran/src/unuran-src/methods/pinv_debug.ch |only Runuran-0.8.0/Runuran/src/unuran-src/methods/pinv_info.ch |only Runuran-0.8.0/Runuran/src/unuran-src/methods/pinv_init.ch |only Runuran-0.8.0/Runuran/src/unuran-src/methods/pinv_lobatto.ch |only Runuran-0.8.0/Runuran/src/unuran-src/methods/pinv_newset.ch |only Runuran-0.8.0/Runuran/src/unuran-src/methods/pinv_newton.ch |only Runuran-0.8.0/Runuran/src/unuran-src/methods/pinv_prep.ch |only Runuran-0.8.0/Runuran/src/unuran-src/methods/pinv_sample.ch |only Runuran-0.8.0/Runuran/src/unuran-src/methods/pinv_struct.h |only Runuran-0.8.0/Runuran/src/unuran-src/methods/srou.c | 70 +- Runuran-0.8.0/Runuran/src/unuran-src/methods/ssr.c | 60 - Runuran-0.8.0/Runuran/src/unuran-src/methods/tabl_debug.ch | 152 ++-- Runuran-0.8.0/Runuran/src/unuran-src/methods/tabl_init.ch | 4 Runuran-0.8.0/Runuran/src/unuran-src/methods/tdr_debug.ch | 200 ++--- Runuran-0.8.0/Runuran/src/unuran-src/methods/tdr_gw_debug.ch | 154 ++-- Runuran-0.8.0/Runuran/src/unuran-src/methods/tdr_info.ch | 3 Runuran-0.8.0/Runuran/src/unuran-src/methods/tdr_init.ch | 4 Runuran-0.8.0/Runuran/src/unuran-src/methods/tdr_ps_debug.ch | 166 ++-- Runuran-0.8.0/Runuran/src/unuran-src/methods/utdr.c | 40 - Runuran-0.8.0/Runuran/src/unuran-src/methods/vempk.c | 50 - Runuran-0.8.0/Runuran/src/unuran-src/methods/vnrou.c | 47 - Runuran-0.8.0/Runuran/src/unuran-src/methods/x_gen.c | 18 Runuran-0.8.0/Runuran/src/unuran-src/methods/x_gen.h | 1 Runuran-0.8.0/Runuran/src/unuran-src/parser/functparser.c | 2 Runuran-0.8.0/Runuran/src/unuran-src/parser/functparser_debug.ch | 64 - Runuran-0.8.0/Runuran/src/unuran-src/parser/functparser_parser.ch | 4 Runuran-0.8.0/Runuran/src/unuran-src/parser/functparser_scanner.ch | 2 Runuran-0.8.0/Runuran/src/unuran-src/parser/stringparser.c | 171 +++-- Runuran-0.8.0/Runuran/src/unuran-src/parser/stringparser_lists.ch | 47 + Runuran-0.8.0/Runuran/src/unuran-src/specfunct/gamma.c | 4 Runuran-0.8.0/Runuran/src/unuran-src/specfunct/ndtri.c | 8 Runuran-0.8.0/Runuran/src/unuran-src/tests/inverror.c |only Runuran-0.8.0/Runuran/src/unuran-src/tests/tests.c | 12 Runuran-0.8.0/Runuran/src/unuran-src/tests/timing.c | 10 Runuran-0.8.0/Runuran/src/unuran-src/tests/unuran_tests.h | 4 Runuran-0.8.0/Runuran/src/unuran-src/unur_cookies.h | 5 Runuran-0.8.0/Runuran/src/unuran-src/unuran.h | 13 Runuran-0.8.0/Runuran/src/unuran-src/unuran.h.in | 1 Runuran-0.8.0/Runuran/src/unuran-src/utils/debug_source.h | 2 Runuran-0.8.0/Runuran/src/unuran-src/utils/eigensystem.c | 32 Runuran-0.8.0/Runuran/src/unuran-src/utils/error.c | 16 Runuran-0.8.0/Runuran/src/unuran-src/utils/matrix.c | 28 Runuran-0.8.0/Runuran/src/unuran-src/utils/matrix_source.h | 4 Runuran-0.8.0/Runuran/src/unuran-src/utils/mrou_rectangle.c | 2 Runuran-0.8.0/Runuran/src/unuran-src/utils/string.c | 2 Runuran-0.8.0/Runuran/src/unuran-src/utils/umath.c | 14 Runuran-0.8.0/Runuran/src/unuran-src/utils/unur_errno.h | 1 Runuran-0.8.0/Runuran/src/unuran-src/utils/unur_fp.c | 2 Runuran-0.8.0/Runuran/tests/test_advanced.R |only Runuran-0.8.0/Runuran/tests/test_deprecated.R |only Runuran-0.8.0/Runuran/tests/test_universal.R |only Runuran-0.8.0/Runuran/tests/test_unuran.R | 82 ++ 181 files changed, 2717 insertions(+), 2344 deletions(-)
Author: Patrick Brown
Title: Generalised Linear Mixed Models with WinBUGS
Description: works with R2WinBUGS, writing model files and dealing with unbalanced data
Diff between glmmBUGS versions 1.1 dated 2008-11-21 and 1.2 dated 2008-11-25
DESCRIPTION | 10 +++++----- R/glmmBUGS.R | 7 ++++--- R/writeBugsModel.R | 6 ++++-- man/glmmBUGS.Rd | 11 +++++------ 4 files changed, 18 insertions(+), 16 deletions(-)
Author: Robin K. S. Hankin (R) and Luke G. West (C++)
Title: A generalization of Fisher's exact test
Description: A generalization of Fisher's exact test that allows for
structural zeros.
Diff between aylmer versions 1.0-1 dated 2008-11-13 and 1.0-2 dated 2008-11-25
aylmer-1.0-1/aylmer/inst/doc/jss.bst |only aylmer-1.0-1/aylmer/inst/doc/jss.cls |only aylmer-1.0-2/aylmer/DESCRIPTION | 6 aylmer-1.0-2/aylmer/inst/CITATION |only aylmer-1.0-2/aylmer/inst/doc/.build.timestamp |only aylmer-1.0-2/aylmer/inst/doc/fishergen.bib | 14 aylmer-1.0-2/aylmer/inst/doc/fishervig.Rnw | 117 aylmer-1.0-2/aylmer/inst/doc/fishervig.pdf | 4213 ++++++++++++-------------- 8 files changed, 2179 insertions(+), 2171 deletions(-)
Author: Martin Maechler and many others.
Title: Utilities from Seminar fuer Statistik ETH Zurich
Description: Useful utilities ['goodies'] from Seminar fuer Statistik ETH
Zurich, many ported from S-plus times.
Diff between sfsmisc versions 1.0-5 dated 2008-11-02 and 1.0-6 dated 2008-11-25
ChangeLog | 18 +++++++++++++++++- DESCRIPTION | 6 +++--- DESCRIPTION+ |only NAMESPACE | 4 ++-- R/p.goodies.R | 3 ++- R/prettylab.R | 2 +- inst/ChangeLog | 18 +++++++++++++++++- man/eaxis.Rd | 6 +++--- man/p.profileTraces.Rd | 7 +++++-- 9 files changed, 50 insertions(+), 14 deletions(-)
Author: Arnaud Estoup, Gilles Guillot, Filipe Santos
Title: Simulation and MCMC inference of structure from genetic data
Description: Detection of structure from multilocus genetic data.
Diff between Geneland versions 3.1.3 dated 2008-11-03 and 3.1.4 dated 2008-11-25
ChangeLog | 11 ++----- DESCRIPTION | 6 +-- R/Geneland.GUI.R | 10 +++--- R/zzz.R | 2 - man/Geneland-package.Rd | 75 ++++++++++++++++++++++-------------------------- src/main.f | 13 +++++++- 6 files changed, 59 insertions(+), 58 deletions(-)
Author: Lester L. Yuan
Title: Compute biological inferences
Description: Imports benthic count data, reformats this data, and computes environmental inferences from this data.
Diff between bio.infer versions 1.1-3 dated 2008-06-25 and 1.1-4 dated 2008-11-24
DESCRIPTION | 6 ++--- R/get.taxonomic.R | 55 +++++++++++++++++++++++++++++++++------------------ data/itis.ttable.rda |binary man/itis.ttable.Rd | 2 - 4 files changed, 40 insertions(+), 23 deletions(-)
Author: Mario Hasler
Title: Simultaneous Comparisons for Multiple Endpoints
Description: Simultaneous tests and confidence intervals for general
linear hypotheses when there is more than one primary
response variable (endpoint). The procedure of Hasler
(2008) is applied for differences or ratios of means of
normally distributed data. The covariance matrices
(containing the covariances between the endpoints) may
be assumed to be equal or possibly unequal for the
different groups.
Diff between SimComp versions 1.0 dated 2008-10-27 and 1.1 dated 2008-11-24
SimComp-1.0/SimComp/R/SimSciDiff.R |only SimComp-1.0/SimComp/R/SimSciDiffHet.R |only SimComp-1.0/SimComp/R/SimSciDiffHom.R |only SimComp-1.0/SimComp/R/SimSciRat.R |only SimComp-1.0/SimComp/R/SimSciRatHet.R |only SimComp-1.0/SimComp/R/SimSciRatHom.R |only SimComp-1.0/SimComp/R/print.SimSci.R |only SimComp-1.0/SimComp/R/summary.SimSci.R |only SimComp-1.0/SimComp/man/SimSciDiff.Rd |only SimComp-1.0/SimComp/man/SimSciRat.Rd |only SimComp-1.0/SimComp/man/print.SimSci.Rd |only SimComp-1.0/SimComp/man/summary.SimSci.Rd |only SimComp-1.1/SimComp/DESCRIPTION | 6 +++--- SimComp-1.1/SimComp/NAMESPACE | 6 +++--- SimComp-1.1/SimComp/R/SimCiDiff.R |only SimComp-1.1/SimComp/R/SimCiDiffHet.R |only SimComp-1.1/SimComp/R/SimCiDiffHom.R |only SimComp-1.1/SimComp/R/SimCiRat.R |only SimComp-1.1/SimComp/R/SimCiRatHet.R |only SimComp-1.1/SimComp/R/SimCiRatHom.R |only SimComp-1.1/SimComp/R/print.SimCi.R |only SimComp-1.1/SimComp/R/summary.SimCi.R |only SimComp-1.1/SimComp/man/SimCiDiff.Rd |only SimComp-1.1/SimComp/man/SimCiRat.Rd |only SimComp-1.1/SimComp/man/SimComp-package.Rd | 4 ++-- SimComp-1.1/SimComp/man/SimTestDiff.Rd | 6 +++--- SimComp-1.1/SimComp/man/SimTestRat.Rd | 6 +++--- SimComp-1.1/SimComp/man/print.SimCi.Rd |only SimComp-1.1/SimComp/man/print.SimTest.Rd | 2 +- SimComp-1.1/SimComp/man/summary.SimCi.Rd |only SimComp-1.1/SimComp/man/summary.SimTest.Rd | 2 +- 31 files changed, 16 insertions(+), 16 deletions(-)
Author: Jose L. Izquierdo
Diff between Metabonomic versions 2.0 dated 2008-11-18 and 2.1 dated 2008-11-24
Title: GUI for Metabonomic Analysis
Description: Graphical User Interface for the Metabonomic Analysis (Baseline, Normalization, Peak Detection,
PCA, PLS, Nearest Neigbourgt, Neural Network) developed to make easy this data analysis.
Metabonomic-2.0/Metabonomic/inst |only
Metabonomic-2.1/Metabonomic/DESCRIPTION | 6 ++--
Metabonomic-2.1/Metabonomic/R/Baseline.Correction.R | 29 +++++++++-----------
3 files changed, 17 insertions(+), 18 deletions(-)
Author: Ken Kelley
Title: MBESS
Description: MBESS implements methods that are especially useful to researchers working within the behavioral, educational, and social sciences (both substantive researchers and methodologists). Many of the methods contained within MBESS are applicable to quantitative research in general.
Diff between MBESS versions 1.0.1 dated 2008-02-16 and 2.0.0 dated 2008-11-24
ACKNOWLEDGEMENTS | 6 ++++ DESCRIPTION | 14 +++++------ NAMESPACE | 2 - R/CFA.1.R |only R/Expected.R2.R | 12 ++++++++- R/Variance.R2.R | 13 ++++++++-- R/ci.R2.R | 13 +++++++++- R/ci.reliability.R |only R/ci.reliability.bs.R |only R/covmat.from.cfm.R |only R/power.density.equivalence.md.R |only R/power.equivalence.md.R |only R/power.equivalence.md.plot.R |only R/ss.aipe.R2.R | 13 +++++++++- R/ss.aipe.R2.sensitivity.R | 12 +++++++++ R/ss.aipe.reg.coef.R | 12 ++++++++- R/ss.aipe.reliability.R |only R/ss.power.lrd.R |only man/CFA.1.Rd |only man/Expected.R2.Rd | 15 ++++++------ man/F.and.R2.Noncentral.Conversion.Rd | 2 - man/MBESS-package.Rd | 15 +++++------- man/Variance.R2.Rd | 11 ++++---- man/aipe.smd.Rd | 2 - man/ancova.random.data.Rd | 2 - man/ci.R.Rd | 2 - man/ci.R2.Rd | 26 ++++++++++----------- man/ci.c.Rd | 2 - man/ci.c.ancova.Rd | 2 - man/ci.cv.Rd | 2 - man/ci.pvaf.Rd | 2 - man/ci.rc.Rd | 2 - man/ci.reg.coef.Rd | 2 - man/ci.reliability.Rd |only man/ci.reliability.bs.Rd |only man/ci.rmsea.Rd | 2 - man/ci.sc.Rd | 2 - man/ci.sc.ancova.Rd | 2 - man/ci.sm.Rd | 2 - man/ci.smd.Rd | 2 - man/ci.smd.c.Rd | 2 - man/ci.snr.Rd | 2 - man/ci.src.Rd | 2 - man/ci.srsnr.Rd | 2 - man/conf.limits.nc.chisq.Rd | 2 - man/conf.limits.ncf.Rd | 2 - man/conf.limits.nct.M1.Rd | 2 - man/conf.limits.nct.M2.Rd | 2 - man/conf.limits.nct.M3.Rd | 2 - man/conf.limits.nct.Rd | 2 - man/cor2cov.Rd | 2 - man/covmat.from.cfm.Rd |only man/cv.Rd | 2 - man/intr.plot.2d.Rd | 4 +-- man/intr.plot.Rd | 5 +--- man/power.density.equivalence.md.Rd |only man/power.equivalence.md.Rd |only man/power.equivalence.md.plot.Rd |only man/s.u.Rd | 2 - man/signal.to.noise.R2.Rd | 2 - man/smd.Rd | 2 - man/smd.c.Rd | 2 - man/ss.aipe.R2.Rd | 18 +++++++------- man/ss.aipe.R2.sensitivity.Rd | 6 ++-- man/ss.aipe.c.Rd | 2 - man/ss.aipe.c.ancova.Rd | 2 - man/ss.aipe.c.ancova.sensitivity.Rd | 2 - man/ss.aipe.cv.Rd | 2 - man/ss.aipe.cv.sensitivity.Rd | 2 - man/ss.aipe.rc.Rd | 16 ++++++------ man/ss.aipe.rc.sensitivity.Rd | 2 - man/ss.aipe.reg.coef.Rd | 32 ++++++++++++------------- man/ss.aipe.reg.coef.sensitivity.Rd | 6 ++++ man/ss.aipe.reliability.Rd |only man/ss.aipe.rmsea.Rd | 4 +-- man/ss.aipe.sc.Rd | 4 +-- man/ss.aipe.sc.ancova.Rd | 8 +++--- man/ss.aipe.sc.ancova.sensitivity.Rd | 2 - man/ss.aipe.sc.sensitivity.Rd | 2 - man/ss.aipe.sm.Rd | 4 +-- man/ss.aipe.sm.sensitivity.Rd | 20 ++++++++-------- man/ss.aipe.smd.Rd | 8 +++--- man/ss.aipe.smd.sensitivity.Rd | 34 +++++++++++++-------------- man/ss.aipe.src.Rd | 16 ++++++------ man/ss.aipe.src.sensitivity.Rd | 2 - man/ss.power.R2.Rd | 12 ++++----- man/ss.power.lrd.Rd |only man/ss.power.rc.Rd | 32 ++++++++++++------------- man/ss.power.reg.coef.Rd | 42 +++++++++++++++++----------------- man/t.and.smd.conversion.Rd | 6 ++-- man/verify.ss.aipe.R2.Rd | 2 - man/vit.Rd | 26 ++++++++++----------- man/vit.fitted.Rd | 16 ++++++------ 93 files changed, 318 insertions(+), 247 deletions(-)
Author: Reinhard Harter, Kurt Hornik and Stefan Theussl
Title: Symphony in R
Description: An R interface to the SYMPHONY MILP solver (version 5.1.10).
Diff between Rsymphony versions 0.1-5 dated 2008-06-12 and 0.1-6 dated 2008-11-24
DESCRIPTION | 8 R/symphony.R | 10 src/SYMPHONY/BuildTools/coin.m4 | 159 src/SYMPHONY/BuildTools/compile_f2c/INSTALL | 4 src/SYMPHONY/BuildTools/headers/configall_system_msc.h | 2 src/SYMPHONY/BuildTools/prepare_new_release | 6 src/SYMPHONY/BuildTools/run_autotools | 4 src/SYMPHONY/Cgl/MSVisualStudio/v8/libCgl/libCgl.vcproj | 18 src/SYMPHONY/Cgl/configure | 115 src/SYMPHONY/Cgl/configure.ac | 4 src/SYMPHONY/Cgl/src/CglClique/CglClique.cpp | 26 src/SYMPHONY/Cgl/src/CglClique/CglClique.hpp | 3 src/SYMPHONY/Cgl/src/CglDuplicateRow/CglDuplicateRow.cpp | 215 src/SYMPHONY/Cgl/src/CglFlowCover/CglFlowCover.cpp | 123 src/SYMPHONY/Cgl/src/CglGomory/CglGomory.cpp | 34 src/SYMPHONY/Cgl/src/CglGomory/CglGomory.hpp | 10 src/SYMPHONY/Cgl/src/CglMessage.cpp | 6 src/SYMPHONY/Cgl/src/CglMessage.hpp | 2 src/SYMPHONY/Cgl/src/CglPreProcess/CglPreProcess.cpp | 367 + src/SYMPHONY/Cgl/src/CglPreProcess/CglPreProcess.hpp | 45 src/SYMPHONY/Cgl/src/CglProbing/CglProbing.cpp | 2546 +++++++--- src/SYMPHONY/Cgl/src/CglProbing/CglProbing.hpp | 71 src/SYMPHONY/Cgl/src/CglTreeInfo.cpp | 215 src/SYMPHONY/Cgl/src/CglTreeInfo.hpp | 19 src/SYMPHONY/Cgl/src/CglTwomir/CglTwomir.cpp | 66 src/SYMPHONY/Cgl/src/CglTwomir/CglTwomir.hpp | 10 src/SYMPHONY/Cgl/src/Makefile.am | 4 src/SYMPHONY/Cgl/src/Makefile.in | 2 src/SYMPHONY/Cgl/test/unitTest.cpp | 10 src/SYMPHONY/Clp/MSVisualStudio/v8/Clp.suo |binary src/SYMPHONY/Clp/MSVisualStudio/v8/clp/clp.vcproj | 20 src/SYMPHONY/Clp/MSVisualStudio/v8/libClp/libClp.vcproj | 26 src/SYMPHONY/Clp/configure | 115 src/SYMPHONY/Clp/configure.ac | 4 src/SYMPHONY/Clp/src/CbcOrClpParam.cpp | 106 src/SYMPHONY/Clp/src/CbcOrClpParam.hpp | 5 src/SYMPHONY/Clp/src/ClpCholeskyBase.cpp | 12 src/SYMPHONY/Clp/src/ClpCholeskyDense.cpp | 6 src/SYMPHONY/Clp/src/ClpCholeskyTaucs.cpp | 16 src/SYMPHONY/Clp/src/ClpCholeskyUfl.cpp | 2 src/SYMPHONY/Clp/src/ClpConstraintLinear.cpp | 2 src/SYMPHONY/Clp/src/ClpConstraintQuadratic.cpp | 2 src/SYMPHONY/Clp/src/ClpDualRowDantzig.cpp | 6 src/SYMPHONY/Clp/src/ClpDualRowDantzig.hpp | 4 src/SYMPHONY/Clp/src/ClpDualRowPivot.hpp | 8 src/SYMPHONY/Clp/src/ClpDualRowSteepest.cpp | 128 src/SYMPHONY/Clp/src/ClpDualRowSteepest.hpp | 7 src/SYMPHONY/Clp/src/ClpDynamicExampleMatrix.cpp | 4 src/SYMPHONY/Clp/src/ClpDynamicExampleMatrix.hpp | 8 src/SYMPHONY/Clp/src/ClpDynamicMatrix.cpp | 10 src/SYMPHONY/Clp/src/ClpDynamicMatrix.hpp | 12 src/SYMPHONY/Clp/src/ClpFactorization.cpp | 322 + src/SYMPHONY/Clp/src/ClpFactorization.hpp | 30 src/SYMPHONY/Clp/src/ClpGubDynamicMatrix.cpp | 6 src/SYMPHONY/Clp/src/ClpGubDynamicMatrix.hpp | 8 src/SYMPHONY/Clp/src/ClpGubMatrix.cpp | 16 src/SYMPHONY/Clp/src/ClpGubMatrix.hpp | 18 src/SYMPHONY/Clp/src/ClpInterior.cpp | 14 src/SYMPHONY/Clp/src/ClpInterior.hpp | 28 src/SYMPHONY/Clp/src/ClpMain.cpp | 684 ++ src/SYMPHONY/Clp/src/ClpModel.cpp | 325 - src/SYMPHONY/Clp/src/ClpModel.hpp | 16 src/SYMPHONY/Clp/src/ClpNetworkBasis.cpp | 58 src/SYMPHONY/Clp/src/ClpNetworkBasis.hpp | 2 src/SYMPHONY/Clp/src/ClpNetworkMatrix.cpp | 10 src/SYMPHONY/Clp/src/ClpNode.cpp | 913 +++ src/SYMPHONY/Clp/src/ClpNode.hpp | 186 src/SYMPHONY/Clp/src/ClpNonLinearCost.cpp | 44 src/SYMPHONY/Clp/src/ClpNonLinearCost.hpp | 19 src/SYMPHONY/Clp/src/ClpPackedMatrix.cpp | 479 - src/SYMPHONY/Clp/src/ClpPackedMatrix.hpp | 27 src/SYMPHONY/Clp/src/ClpPdco.cpp | 10 src/SYMPHONY/Clp/src/ClpPlusMinusOneMatrix.cpp | 28 src/SYMPHONY/Clp/src/ClpPredictorCorrector.cpp | 44 src/SYMPHONY/Clp/src/ClpPresolve.cpp | 55 src/SYMPHONY/Clp/src/ClpPrimalColumnSteepest.cpp | 15 src/SYMPHONY/Clp/src/ClpQuadraticObjective.cpp | 42 src/SYMPHONY/Clp/src/ClpSimplex.cpp | 2155 +++++++- src/SYMPHONY/Clp/src/ClpSimplex.hpp | 58 src/SYMPHONY/Clp/src/ClpSimplexDual.cpp | 372 + src/SYMPHONY/Clp/src/ClpSimplexDual.hpp | 5 src/SYMPHONY/Clp/src/ClpSimplexNonlinear.cpp | 137 src/SYMPHONY/Clp/src/ClpSimplexOther.cpp | 15 src/SYMPHONY/Clp/src/ClpSimplexPrimal.cpp | 450 + src/SYMPHONY/Clp/src/ClpSimplexPrimal.hpp | 3 src/SYMPHONY/Clp/src/ClpSolve.cpp | 169 src/SYMPHONY/Clp/src/Clp_C_Interface.cpp | 11 src/SYMPHONY/Clp/src/IdiSolve.cpp | 40 src/SYMPHONY/Clp/src/Idiot.cpp | 60 src/SYMPHONY/Clp/src/MyMessageHandler.cpp | 6 src/SYMPHONY/CoinUtils/MSVisualStudio/v6/libCoinUtils/libCoinUtils.dsp | 8 src/SYMPHONY/CoinUtils/MSVisualStudio/v8/CoinUtils.suo |binary src/SYMPHONY/CoinUtils/MSVisualStudio/v8/libCoinUtils/libCoinUtils.vcproj | 47 src/SYMPHONY/CoinUtils/configure | 298 - src/SYMPHONY/CoinUtils/configure.ac | 9 src/SYMPHONY/CoinUtils/inc/config_coinutils.h.in | 3 src/SYMPHONY/CoinUtils/src/CoinAlloc.cpp | 2 src/SYMPHONY/CoinUtils/src/CoinDenseFactorization.cpp | 38 src/SYMPHONY/CoinUtils/src/CoinDenseFactorization.hpp | 10 src/SYMPHONY/CoinUtils/src/CoinDenseVector.cpp | 6 src/SYMPHONY/CoinUtils/src/CoinError.cpp | 12 src/SYMPHONY/CoinUtils/src/CoinError.hpp | 5 src/SYMPHONY/CoinUtils/src/CoinFactorization.hpp | 538 ++ src/SYMPHONY/CoinUtils/src/CoinFactorization1.cpp | 53 src/SYMPHONY/CoinUtils/src/CoinFactorization2.cpp | 499 + src/SYMPHONY/CoinUtils/src/CoinFactorization3.cpp | 371 + src/SYMPHONY/CoinUtils/src/CoinFactorization4.cpp | 221 src/SYMPHONY/CoinUtils/src/CoinFileIO.cpp | 2 src/SYMPHONY/CoinUtils/src/CoinFinite.hpp | 17 src/SYMPHONY/CoinUtils/src/CoinHelperFunctions.hpp | 40 src/SYMPHONY/CoinUtils/src/CoinIndexedVector.cpp | 45 src/SYMPHONY/CoinUtils/src/CoinLpIO.cpp | 62 src/SYMPHONY/CoinUtils/src/CoinMessageHandler.cpp | 4 src/SYMPHONY/CoinUtils/src/CoinMessageHandler.hpp | 3 src/SYMPHONY/CoinUtils/src/CoinModel.cpp | 50 src/SYMPHONY/CoinUtils/src/CoinModelUseful.cpp | 18 src/SYMPHONY/CoinUtils/src/CoinModelUseful.hpp | 30 src/SYMPHONY/CoinUtils/src/CoinModelUseful2.cpp | 4 src/SYMPHONY/CoinUtils/src/CoinMpsIO.cpp | 149 src/SYMPHONY/CoinUtils/src/CoinPackedMatrix.cpp | 123 src/SYMPHONY/CoinUtils/src/CoinPackedMatrix.hpp | 28 src/SYMPHONY/CoinUtils/src/CoinPackedVector.cpp | 2 src/SYMPHONY/CoinUtils/src/CoinParamUtils.cpp | 1 src/SYMPHONY/CoinUtils/src/CoinPostsolveMatrix.cpp | 3 src/SYMPHONY/CoinUtils/src/CoinPrePostsolveMatrix.cpp | 10 src/SYMPHONY/CoinUtils/src/CoinPresolveDoubleton.cpp | 53 src/SYMPHONY/CoinUtils/src/CoinPresolveDual.cpp | 215 src/SYMPHONY/CoinUtils/src/CoinPresolveDupcol.cpp | 6 src/SYMPHONY/CoinUtils/src/CoinPresolveEmpty.cpp | 15 src/SYMPHONY/CoinUtils/src/CoinPresolveFixed.cpp | 34 src/SYMPHONY/CoinUtils/src/CoinPresolveForcing.cpp | 56 src/SYMPHONY/CoinUtils/src/CoinPresolveImpliedFree.cpp | 14 src/SYMPHONY/CoinUtils/src/CoinPresolveMatrix.cpp | 2 src/SYMPHONY/CoinUtils/src/CoinPresolveMatrix.hpp | 63 src/SYMPHONY/CoinUtils/src/CoinPresolvePsdebug.cpp | 187 src/SYMPHONY/CoinUtils/src/CoinPresolvePsdebug.hpp | 6 src/SYMPHONY/CoinUtils/src/CoinPresolveSingleton.cpp | 143 src/SYMPHONY/CoinUtils/src/CoinPresolveSubst.cpp | 14 src/SYMPHONY/CoinUtils/src/CoinPresolveTighten.cpp | 12 src/SYMPHONY/CoinUtils/src/CoinPresolveTripleton.cpp | 45 src/SYMPHONY/CoinUtils/src/CoinPresolveUseless.cpp | 13 src/SYMPHONY/CoinUtils/src/CoinWarmStartBasis.cpp | 93 src/SYMPHONY/CoinUtils/src/CoinWarmStartBasis.hpp | 14 src/SYMPHONY/CoinUtils/src/Makefile.am | 2 src/SYMPHONY/CoinUtils/test/CoinMessageHandlerTest.cpp | 1 src/SYMPHONY/CoinUtils/test/CoinModelTest.cpp | 8 src/SYMPHONY/Data/Sample/app0110.cor |only src/SYMPHONY/Data/Sample/app0110.stoch |only src/SYMPHONY/Data/Sample/app0110.time |only src/SYMPHONY/Data/Sample/app0110R.cor |only src/SYMPHONY/Data/Sample/app0110R.stoch |only src/SYMPHONY/Data/Sample/app0110R.time |only src/SYMPHONY/Data/Sample/bug.cor |only src/SYMPHONY/Data/Sample/bug.stoch |only src/SYMPHONY/Data/Sample/bug.time |only src/SYMPHONY/Data/Sample/configure | 88 src/SYMPHONY/Data/Sample/configure.ac | 5 src/SYMPHONY/Externals | 20 src/SYMPHONY/FlopC++/configure | 115 src/SYMPHONY/FlopC++/configure.ac | 2 src/SYMPHONY/FlopC++/src/MP_variable.cpp | 4 src/SYMPHONY/INSTALL | 6 src/SYMPHONY/Makefile.am | 2 src/SYMPHONY/Osi/MSVisualStudio/v8/libOsi/libOsi.vcproj | 18 src/SYMPHONY/Osi/MSVisualStudio/v8/libOsiCbc/libOsiCbc.vcproj | 18 src/SYMPHONY/Osi/MSVisualStudio/v8/libOsiClp/libOsiClp.vcproj | 20 src/SYMPHONY/Osi/MSVisualStudio/v8/libOsiSym/libOsiSym.vcproj | 11 src/SYMPHONY/Osi/MSVisualStudio/v8/libOsiVol/libOsiVol.vcproj | 18 src/SYMPHONY/Osi/configure | 129 src/SYMPHONY/Osi/configure.ac | 18 src/SYMPHONY/Osi/src/OsiBranchingObject.cpp | 6 src/SYMPHONY/Osi/src/OsiBranchingObject.hpp | 10 src/SYMPHONY/Osi/src/OsiCbc/OsiCbcSolverInterface.hpp | 4 src/SYMPHONY/Osi/src/OsiChooseVariable.hpp | 2 src/SYMPHONY/Osi/src/OsiClp/OsiClpSolverInterface.cpp | 624 +- src/SYMPHONY/Osi/src/OsiClp/OsiClpSolverInterface.hpp | 64 src/SYMPHONY/Osi/src/OsiCpx/OsiCpxSolverInterface.cpp | 91 src/SYMPHONY/Osi/src/OsiDylp/OsiDylpMessages.cpp | 4 src/SYMPHONY/Osi/src/OsiDylp/OsiDylpPresolve.cpp | 79 src/SYMPHONY/Osi/src/OsiDylp/OsiDylpSolverInterface.cpp | 21 src/SYMPHONY/Osi/src/OsiDylp/OsiDylpWarmStartBasis.cpp | 12 src/SYMPHONY/Osi/src/OsiDylp/OsiDylpWarmStartBasis.hpp | 6 src/SYMPHONY/Osi/src/OsiGlpk/OsiGlpkSolverInterface.cpp | 24 src/SYMPHONY/Osi/src/OsiGlpk/OsiGlpkSolverInterface.hpp | 32 src/SYMPHONY/Osi/src/OsiPresolve.cpp | 261 - src/SYMPHONY/Osi/src/OsiRowCutDebugger.cpp | 74 src/SYMPHONY/Osi/src/OsiRowCutDebugger.hpp | 11 src/SYMPHONY/Osi/src/OsiSolverInterface.cpp | 2 src/SYMPHONY/Osi/src/OsiSolverInterface.hpp | 2 src/SYMPHONY/Osi/src/OsiSym/OsiSymSolverInterface.cpp | 5 src/SYMPHONY/Osi/src/OsiSym/OsiSymSolverInterface.hpp | 4 src/SYMPHONY/Osi/src/OsiVol/OsiVolSolverInterface.cpp | 9 src/SYMPHONY/Osi/src/OsiVol/OsiVolSolverInterface.hpp | 4 src/SYMPHONY/Osi/src/OsiVol/OsiVolSolverInterfaceIO.cpp | 2 src/SYMPHONY/Osi/src/OsiXpr/OsiXprSolverInterface.cpp | 28 src/SYMPHONY/Osi/test/Makefile.am | 6 src/SYMPHONY/Osi/test/Makefile.in | 4 src/SYMPHONY/Osi/test/OsiCbcSolverInterfaceTest.cpp | 12 src/SYMPHONY/Osi/test/OsiClpSolverInterfaceTest.cpp | 6 src/SYMPHONY/Osi/test/OsiDylpSolverInterfaceTest.cpp | 4 src/SYMPHONY/Osi/test/OsiGlpkSolverInterfaceTest.cpp | 8 src/SYMPHONY/Osi/test/OsiSolverInterfaceTest.cpp | 187 src/SYMPHONY/Osi/test/OsiSymSolverInterfaceTest.cpp | 6 src/SYMPHONY/Osi/test/OsiVolSolverInterfaceTest.cpp | 4 src/SYMPHONY/Osi/test/unitTest.cpp | 269 - src/SYMPHONY/README | 2 src/SYMPHONY/SYMPHONY/Doc/man-API.tex | 2 src/SYMPHONY/SYMPHONY/Doc/man-start.tex | 2 src/SYMPHONY/SYMPHONY/Doc/man.tex | 2 src/SYMPHONY/SYMPHONY/MSVisualStudio/v8/libSymphony.vcproj | 18 src/SYMPHONY/SYMPHONY/MSVisualStudio/v8/symphony.vcproj | 20 src/SYMPHONY/SYMPHONY/Makefile.am | 4 src/SYMPHONY/SYMPHONY/Makefile.in | 4 src/SYMPHONY/SYMPHONY/README | 34 src/SYMPHONY/SYMPHONY/configure | 115 src/SYMPHONY/SYMPHONY/configure.ac | 2 src/SYMPHONY/SYMPHONY/src/LP/lp_solver.c | 10 src/SYMPHONY/SYMPHONY/src/LP/lp_varfunc.c | 2 src/SYMPHONY/SYMPHONY/src/LP/lp_wrapper.c | 8 src/SYMPHONY/SYMPHONY/src/Master/main.c | 8 src/SYMPHONY/SYMPHONY/src/Master/master_io.c | 2 src/SYMPHONY/SYMPHONY/test/Makefile.am | 2 src/SYMPHONY/SYMPHONY/test/Makefile.in | 2 src/SYMPHONY/SYMPHONY/test/OsiSymSolverInterfaceTest.cpp | 4 src/SYMPHONY/ThirdParty/Blas/configure | 99 src/SYMPHONY/ThirdParty/Blas/configure.ac | 4 src/SYMPHONY/ThirdParty/Glpk/INSTALL.Glpk | 8 src/SYMPHONY/ThirdParty/Glpk/Makefile.am | 18 src/SYMPHONY/ThirdParty/Glpk/Makefile.in | 159 src/SYMPHONY/ThirdParty/Glpk/configure | 90 src/SYMPHONY/ThirdParty/Glpk/configure.ac | 11 src/SYMPHONY/ThirdParty/Glpk/get.Glpk | 4 src/SYMPHONY/ThirdParty/Glpk/glpk.patch | 26 src/SYMPHONY/ThirdParty/Lapack/Makefile.am | 11 src/SYMPHONY/ThirdParty/Lapack/Makefile.in | 12 src/SYMPHONY/ThirdParty/Lapack/configure | 111 src/SYMPHONY/ThirdParty/Lapack/configure.ac | 13 src/SYMPHONY/configure | 127 src/SYMPHONY/configure.ac | 4 239 files changed, 14348 insertions(+), 4147 deletions(-)
More information about hyperdirichlet at CRAN
Permanent link
Author: Pierre Chausse
Diff between gmm versions 0.1-0 dated 2008-10-19 and 1.0-0 dated 2008-11-24
Title: Generalized Method of Moments and Generalized Empirical Likelihood
Description: It is a complete suite to estimate models based on moment conditions. It includes the two step Generalized method of moments (GMM) of Hansen(1982), the iterated GMM and continuous updated estimator (CUE) of Hansen-Eaton-Yaron(1996) and several methods that belong to the Generalized Empirical Likelihood (GEL) family of estimators, as presented by Smith(1997), Kitamura(1997), Newey-Smith(2004) and Anatolyev(2005).
gmm-0.1-0/gmm/LICENCE |only
gmm-1.0-0/gmm/DESCRIPTION | 12 -
gmm-1.0-0/gmm/NAMESPACE | 5
gmm-1.0-0/gmm/R/gel.R |only
gmm-1.0-0/gmm/R/gel_tools.R |only
gmm-1.0-0/gmm/R/gmm.R | 291 +++++++++++++++++++++++++++++------
gmm-1.0-0/gmm/R/gmm_tools.R | 92 +++++++++--
gmm-1.0-0/gmm/licence |only
gmm-1.0-0/gmm/man/HAC.Rd | 20 ++
gmm-1.0-0/gmm/man/gel.Rd |only
gmm-1.0-0/gmm/man/get_dat.Rd |only
gmm-1.0-0/gmm/man/get_lamb.Rd |only
gmm-1.0-0/gmm/man/gmm.Rd | 112 ++++++++++---
gmm-1.0-0/gmm/man/lintest.Rd |only
gmm-1.0-0/gmm/man/rho.Rd |only
gmm-1.0-0/gmm/man/smooth_g.Rd |only
gmm-1.0-0/gmm/man/summary.gel.Rd |only
gmm-1.0-0/gmm/man/summary.gmm.Rd | 35 +---
gmm-1.0-0/gmm/man/weightsAndrews2.Rd | 45 +++--
19 files changed, 483 insertions(+), 129 deletions(-)
Author: Stephen A Sefick Jr.
Title: Stream Metabolism-A package for calculating single station metabolism from diurnal Oxygen curves
Description: This package contains functions for calculating GPP, NDM, and R from single station diurnal Oxygen curves
Diff between StreamMetabolism versions 0.02 dated 2008-11-20 and 0.03 dated 2008-11-24
StreamMetabolism-0.02/StreamMetabolism/R/Ecosystemproduction.20.R |only StreamMetabolism-0.03/StreamMetabolism/DESCRIPTION | 8 ++++---- StreamMetabolism-0.03/StreamMetabolism/R/EcosystemProduction.20.R |only StreamMetabolism-0.03/StreamMetabolism/man/EcosystemProduction.20.Rd | 4 ++-- 4 files changed, 6 insertions(+), 6 deletions(-)
More information about StreamMetabolism at CRAN
Permanent link
Author: Kenneth Knoblauch and Laurence T. Maloney,
based in part on C code written by Laurence T. Maloney
and J. N. Yang
Title: Maximum Likelihood Difference Scaling
Description: Difference scaling is a method for scaling perceived
supra-threshold differences. The package contains functions that
allow the user to design and run a difference scaling experiment,
to fit the resulting data by maximum likelihood and test the
internal validity of the estimated scale.
Diff between MLDS versions 0.1-4 dated 2008-10-02 and 0.1-5 dated 2008-11-24
DESCRIPTION | 6 +++--- R/runSampleExperiment.R | 6 +++--- inst/NEWS | 9 ++++++++- man/DisplayOneTrial.Rd | 4 ++-- man/runSampleExperiment.Rd | 2 +- 5 files changed, 17 insertions(+), 10 deletions(-)
Author: Jun Yan
Diff between rbugs versions 0.3-5 dated 2006-10-10 and 0.3-6 dated 2008-11-23
Title: Fusing R and OpenBugs
Description: Functions to prepare files needed for running BUGS
in batch-mode, and running BUGS from R. Support for Linux systems
with OpenBugs is emphasized.
ChangeLog | 6 ++++++
DESCRIPTION | 12 ++++++------
R/rbugs.R | 1 +
R/utils.R | 4 ++--
man/rbugs.Rd | 12 ++++++------
man/schools.Rd | 4 ++--
6 files changed, 23 insertions(+), 16 deletions(-)
Author: J. O. Ramsay
Diff between fda versions 2.0.4 dated 2008-11-11 and 2.0.5 dated 2008-11-23
Title: Functional Data Analysis
Description: These functions were developed to support
functional data analysis as described in Ramsay, J. O.
and Silverman, B. W. (2005) Functional Data Analysis.
New York: Springer. They were ported from earlier
versions in Matlab and S-PLUS. A manual that describes
the use of these functions is available in this
library. The library also contains a number of the
data sets used in the book along with R code for the
analyses that produced many of the figures in the book.
DESCRIPTION | 4
R/eval.basis.R | 19 +
R/eval.fd.R | 34 +++
R/eval.monfd.R | 30 ++-
R/eval.posfd.R | 20 +-
R/fRegress.R | 11 -
R/landmarkreg.R | 103 +++++-----
R/pda.fd.R | 38 ++-
R/plot.fd.R | 74 ++++---
R/smooth.monotone.R | 63 +++---
R/smooth.pos.R | 72 ++++---
demo/00Index | 1
demo/canadian-weather.R | 11 -
demo/gait.R | 426 ++++++++++++++++++++++++++------------------
demo/handwrit.pda.R |only
demo/weatherANOVA.R | 16 +
demo/weatherPCA.R | 11 -
demo/weatherlm.R | 11 -
demo/weathersetup.R | 32 ---
demo/weathersmooth.R | 35 +++
demo/weatherstats.R | 22 ++
inst/scripts/pda.fd.test.R |only
man/create.bspline.basis.Rd | 4
man/eval.basis.Rd | 74 ++++---
man/eval.fd.Rd | 82 +++++++-
man/eval.monfd.Rd | 101 +++++++---
man/eval.posfd.Rd | 87 ++++++--
man/fda-package.Rd | 20 +-
man/plot.fd.Rd | 32 +--
man/smooth.basis.Rd | 2
man/smooth.basisPar.Rd | 78 ++++----
man/smooth.monotone.Rd | 55 ++---
man/smooth.pos.Rd | 19 +
33 files changed, 1010 insertions(+), 577 deletions(-)
Author: Korbinian Strimmer
Title: Shrinkage Discriminant Analysis
Description: This package performs linear and diagonal discriminant analysis
where the classifier is trained using Stein-type shrinkage estimators.
This approach is particularly suited for high-dimensional classification.
Diff between sda versions 1.0.0 dated 2008-10-26 and 1.0.1 dated 2008-11-22
sda-1.0.0/sda/CHANGES |only sda-1.0.1/sda/DESCRIPTION | 10 ++--- sda-1.0.1/sda/NEWS |only sda-1.0.1/sda/R/centroids.R |only sda-1.0.1/sda/R/predict.sda.R | 23 ++++++------ sda-1.0.1/sda/R/sda.R | 68 ++++++++++++++++---------------------- sda-1.0.1/sda/man/centroids.Rd |only sda-1.0.1/sda/man/sda-internal.Rd | 3 + sda-1.0.1/sda/man/sda.Rd | 8 ++-- sda-1.0.1/sda/man/sda.package.Rd | 2 - 10 files changed, 53 insertions(+), 61 deletions(-)
Author: Deepayan Sarkar
Diff between lattice versions 0.17-15 dated 2008-09-18 and 0.17-17 dated 2008-11-22
Title: Lattice Graphics
Description: Implementation of Trellis Graphics. See ?Lattice for a
brief introduction
DESCRIPTION | 6 -
INDEX | 2
NAMESPACE | 8 +
NEWS | 17 ++-
R/bwplot.R | 262 +++++++++++++++++++++++++++++++++++++++++++++++++-
R/cloud.R | 10 -
R/common.R | 12 +-
R/densityplot.R | 9 -
R/histogram.R | 8 -
R/interaction.R | 90 ++++++++++++++---
R/levelplot.R | 171 +++++++++++++++++++++++++++-----
R/panels.R | 8 -
R/parallel.R | 9 -
R/print.trellis.R | 12 ++
R/qqmath.R | 6 -
R/scales.R | 20 +--
R/splom.R | 9 -
R/tmd.R | 4
R/update.trellis.R | 124 ++++++++++++++++-------
R/xyplot.R | 4
SvnLog | 242 ++++++++++++++++++++++++++++++++++++++++++++++
man/barchart.table.Rd | 2
man/interaction.Rd | 6 -
man/levelplot.Rd | 34 ++++--
man/panel.bwplot.Rd | 25 +++-
man/print.trellis.Rd | 2
man/simpleTheme.Rd | 2
man/splom.Rd | 13 +-
po/R-fr.po | 15 ++
po/R-lattice.pot | 13 ++
30 files changed, 977 insertions(+), 168 deletions(-)
Author: Jean Hauser and Korbinian Strimmer
Title: Entropy and Mutual Information Estimation
Description: This package implements various estimators of entropy, such
as the shrinkage estimator by Hausser and Strimmer, the maximum likelihood
and the Millow-Madow estimator, various Bayesian estimators, and the
Chao-Shen estimator. It also offers an R interface to the NSB estimator.
Furthermore, it provides functions for estimating mutual information.
Diff between entropy versions 1.1.1 dated 2008-10-26 and 1.1.2 dated 2008-11-22
entropy-1.1.1/entropy/CHANGES |only entropy-1.1.2/entropy/DESCRIPTION | 8 ++++---- entropy-1.1.2/entropy/NEWS |only entropy-1.1.2/entropy/R/entropy.shrink.R | 4 ++-- entropy-1.1.2/entropy/man/entropy.NSB.Rd | 2 +- entropy-1.1.2/entropy/man/entropy.package.Rd | 4 ++-- entropy-1.1.2/entropy/man/entropy.shrink.Rd | 4 ++-- 7 files changed, 11 insertions(+), 11 deletions(-)
Author: David Meyer, Achim Zeileis, Kurt Hornik
Title: Visualizing Categorical Data
Description: Visualization techniques, data sets, summary and inference
procedures aimed particularly at categorical data. Special
emphasis is given to highly extensible grid graphics. The
package was inspired by the book "Visualizing Categorical Data"
by Michael Friendly.
Diff between vcd versions 1.2-0 dated 2008-10-24 and 1.2-1 dated 2008-11-21
vcd-1.2-0/vcd/inst/doc/bkde.png |only vcd-1.2-0/vcd/inst/doc/bkde2.png |only vcd-1.2-0/vcd/inst/doc/class.png |only vcd-1.2-1/vcd/DESCRIPTION | 6 vcd-1.2-1/vcd/NEWS | 4 vcd-1.2-1/vcd/R/labeling.R | 2 vcd-1.2-1/vcd/inst/CITATION | 2 vcd-1.2-1/vcd/inst/NEWS |only vcd-1.2-1/vcd/inst/doc/hcl-colors.pdf |only vcd-1.2-1/vcd/inst/doc/residual-shadings.pdf | 3239 ++++++++++++++------------- vcd-1.2-1/vcd/inst/doc/strucplot.pdf |binary vcd-1.2-1/vcd/man/shadings.Rd | 28 12 files changed, 1710 insertions(+), 1571 deletions(-)
Author: Robin K. S. Hankin
Title: octonions and quaternions
Description:
A collection of routines to manipulate and visualize quaternions and
octonions.
Diff between onion versions 1.1-2 dated 2007-11-03 and 1.1-4 dated 2008-11-21
DESCRIPTION | 4 ++-- inst |only 2 files changed, 2 insertions(+), 2 deletions(-)
Author: Ioannis Kosmidis
Diff between profileModel versions 0.5-4 dated 2008-07-28 and 0.5-5 dated 2008-11-21
Title: Tools for profiling inference functions for various model classes
Description: profileModel provides tools that can be used to calculate, evaluate, plot and use for inference the profiles of *arbitrary* inference functions for *arbitrary* 'glm'-like fitted models with linear predictors.
DESCRIPTION | 6 +++---
R/profileModel.R | 6 ++++--
inst/CHANGES | 10 +++++++---
inst/CITATION |only
4 files changed, 14 insertions(+), 8 deletions(-)
Author: Rob J Hyndman
Diff between hdrcde versions 2.08 dated 2008-10-07 and 2.09 dated 2008-11-21
Title: Highest density regions and conditional density estimation
Description: Computation of highest density regions in one and two dimensions,
kernel estimation of univariate density functions conditional on one covariate,
and multimodal regression.
hdrcde-2.08/hdrcde/R/modalreg.R |only
hdrcde-2.09/hdrcde/DESCRIPTION | 6
hdrcde-2.09/hdrcde/R/cde.est.R | 444 ++++++++++++++++++++--------------------
hdrcde-2.09/hdrcde/R/modalreg.r |only
4 files changed, 225 insertions(+), 225 deletions(-)
Author: Robin K. S. Hankin
Title: elliptic functions
Description:
A suite of elliptic and related functions including Weierstrass and
Jacobi forms. Also includes various tools for manipulating and
visualizing complex functions.
Diff between elliptic versions 1.1-1 dated 2007-10-04 and 1.1-9 dated 2008-11-21
DESCRIPTION | 12 ++++++------ demo/elliptic.R | 4 ++-- inst/doc |only man/elliptic-package.Rd | 4 ++-- man/mob.Rd | 3 ++- man/myintegrate.Rd | 5 +++++ 6 files changed, 17 insertions(+), 11 deletions(-)
More information about StatFingerprints at CRAN
Permanent link
Author: Fernando Fernandez-Palacin
Diff between orloca.es versions 1.0 dated 2008-07-05 and 2.0 dated 2008-11-21
Title: Spanish version of orloca package
Description: Version espanola del paquete orloca que trata de los modelos de Localizacion en Investigacion Operativa (Operations Research LOCational Analysis). En particular, el problema de encontrar el punto que minimiza la suma ponderada de las distancias a un conjunto de puntos dados.
DESCRIPTION | 8 ++++----
man/as.Rd |only
man/czsum.Rd |only
man/czsummin.Rd |only
man/loca.p.Rd | 8 +++++---
man/orloca-es-package.Rd | 16 ++++++++--------
man/plot.loca.p.Rd | 2 +-
man/plot.zsum.Rd | 8 ++++----
man/rloca.p.Rd | 31 +++++++++++++++++++++++++++++--
man/zsum.Rd | 7 +++----
man/zsummin.Rd | 14 ++++++++------
11 files changed, 62 insertions(+), 32 deletions(-)
Author: William H. Asquith
Title: L-moments, Trimmed L-moments, L-comoments, and Many Distributions
Description: The package implements the statistical theory of L-moments including
L-moment estimation, probability-weighted moment estimation, parameter estimation
for numerous familiar and not-so-familiar distributions, and L-moment estimation
for the same distributions from the parameters. L-moments are derived from the
expectations of order statistics and are linear with respect to the probability-
weighted moments. L-moments are directly analogous to the well-known product
moments; however, L-moments have many advantages including unbiasedness,
robustness, and consistency with respect to the product moments. This package
is oriented around the FORTRAN algorithms of J.R.M. Hosking, and the
nomenclature for many of the functions parallels that of the Hosking library.
However, numerous extensions are made to aid in expand of the breadth and ease
of L-moment application. Much theoretical extension of L-moment theory has
occurred in recent years. E.A.H. Elamir and A.H. Seheult have developed the
trimmed L-moments, which are implemented in this package. Further, recent
developments by Robert Serfling and Peng Xiao have extended L-moments into
multivariate space; the so-called sample L-comoments are implemented here. The
supported distributions with moment type shown as L (L-moments) or TL (trimmed
L-moments) and additional support for right-tail censoring ([RC]) include:
Cauchy(TL), Exponential(L), Gamma(L), Generalized Extreme Value(L),
Generalized Lambda(L & TL), Generalized Logistic (L), Generalized Normal(L),
Generalized Pareto(L[RC] & TL), Gumbel(L), Normal(L), Kappa(L),
Pearson Type III(L), Reverse Gumbel(L[RC]), Wakeby(L), and Weibull(L).
Diff between lmomco versions 0.96 dated 2008-09-16 and 0.96.2 dated 2008-11-21
ChangeLog | 13 +++++++++++++ DESCRIPTION | 6 +++--- R/Lcomoment.matrix.R | 3 +++ R/are.parwak.valid.R | 27 +++++++++++---------------- R/lcomoms2.R | 6 +++--- R/pp.R | 21 +++++++++++---------- R/quawak.R | 31 ++++++++++++++++++++----------- man/Lcomoment.Lk12.Rd | 5 +---- man/Lcomoment.Wk.Rd | 6 +----- man/Lcomoment.coefficients.Rd | 5 +---- man/Lcomoment.correlation.Rd | 5 +---- man/Lcomoment.matrix.Rd | 5 +---- man/lcomoms2.Rd | 2 +- man/pp.Rd | 15 ++++++++++++--- 14 files changed, 82 insertions(+), 68 deletions(-)
Author: Patrick Brown
Title: Generalised Linear Mixed Models with WinBUGS
Description: works with R2WinBUGS, writing model files and dealing with unbalanced data
Diff between glmmBUGS versions 1.0 dated 2008-09-09 and 1.1 dated 2008-11-21
glmmBUGS-1.0/glmmBUGS/man/plotOne.Rd |only glmmBUGS-1.1/glmmBUGS/DESCRIPTION | 7 +- glmmBUGS-1.1/glmmBUGS/Makefile |only glmmBUGS-1.1/glmmBUGS/NAMESPACE | 13 +++- glmmBUGS-1.1/glmmBUGS/R/addSpatial.R |only glmmBUGS-1.1/glmmBUGS/R/getDesignMatrix.R | 6 +- glmmBUGS-1.1/glmmBUGS/R/getRaggedSeq.R | 2 glmmBUGS-1.1/glmmBUGS/R/getStartingValues.R | 45 ++++++++++++++++ glmmBUGS-1.1/glmmBUGS/R/glmmBUGS.R | 18 +++++- glmmBUGS-1.1/glmmBUGS/R/glmmPQLstrings.R | 8 +- glmmBUGS-1.1/glmmBUGS/R/restoreParams.R | 68 +++++++++++++++++-------- glmmBUGS-1.1/glmmBUGS/R/writeBugsModel.R | 26 ++++++++- glmmBUGS-1.1/glmmBUGS/data/ontario.RData |only glmmBUGS-1.1/glmmBUGS/data/ontarioResult.RData |only glmmBUGS-1.1/glmmBUGS/data/popDataAdjMat.RData |only glmmBUGS-1.1/glmmBUGS/man/addSpatial.Rd |only glmmBUGS-1.1/glmmBUGS/man/getStartingValues.Rd | 1 glmmBUGS-1.1/glmmBUGS/man/glmmBUGS.Rd | 62 +++++++++++++++++++++- glmmBUGS-1.1/glmmBUGS/man/ontario.Rd |only glmmBUGS-1.1/glmmBUGS/man/ontarioResult.Rd |only glmmBUGS-1.1/glmmBUGS/man/popDataAdjMat.Rd |only glmmBUGS-1.1/glmmBUGS/man/restoreParams.Rd | 6 +- glmmBUGS-1.1/glmmBUGS/man/writeBugsModel.Rd | 3 - 23 files changed, 225 insertions(+), 40 deletions(-)
Author: Hadley Wickham
Diff between ggplot2 versions 0.7 dated 2008-10-05 and 0.8 dated 2008-11-21
Title: An implementation of the Grammar of Graphics
Description: An implementation of the grammar of graphics in R. It combines the advantages of both base and lattice graphics: conditioning and shared axes are handled automatically, and you can still build up a plot step by step from multiple data sources. It also implements a sophisticated multidimensional conditioning system and a consistent interface to map data to aesthetic attributes. See the ggplot2 website for more information, documentation and examples.
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ggplot2-0.8/ggplot2/CHANGELOG | 64 +++
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ggplot2-0.8/ggplot2/R/geom-pointrange.r | 2
ggplot2-0.8/ggplot2/R/geom-polygon.r | 17
ggplot2-0.8/ggplot2/R/geom-rect.r | 10
ggplot2-0.8/ggplot2/R/geom-ribbon-.r | 17
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ggplot2-0.8/ggplot2/R/geom-smooth.r | 6
ggplot2-0.8/ggplot2/R/geom-text.r | 2
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ggplot2-0.8/ggplot2/R/geom-vline.r | 26 -
ggplot2-0.8/ggplot2/R/grob-absolute.r | 15
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ggplot2-0.8/ggplot2/R/guides-legend.r | 8
ggplot2-0.8/ggplot2/R/guides-strip.r | 2
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ggplot2-0.8/ggplot2/R/matrix.r | 11
ggplot2-0.8/ggplot2/R/plot-build.r | 62 +--
ggplot2-0.8/ggplot2/R/plot-construction.r | 4
ggplot2-0.8/ggplot2/R/plot-render.r | 10
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ggplot2-0.8/ggplot2/R/position-collide.r | 7
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ggplot2-0.8/ggplot2/R/quick-plot.r | 15
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ggplot2-0.8/ggplot2/R/scale-continuous-.r | 71 +---
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ggplot2-0.8/ggplot2/R/scale-identity.r | 4
ggplot2-0.8/ggplot2/R/scale-linetype.r | 6
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ggplot2-0.8/ggplot2/R/scales-.r | 44 --
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ggplot2-0.8/ggplot2/R/stat-function.r | 2
ggplot2-0.8/ggplot2/R/stat-quantile.r | 6
ggplot2-0.8/ggplot2/R/stat-smooth.r | 10
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Author: Luke Harmon
Diff between geiger versions 1.2-13 dated 2008-03-07 and 1.2-14 dated 2008-11-21
Title: Analysis of evolutionary diversification
Description: Running macroevolutionary simulation, and estimating parameters related to diversification from comparative phylogenetic data.
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Author: Ross Ihaka, Paul Murrell, Kurt Hornik, Achim Zeileis
Title: Color Space Manipulation
Description: Carries out mapping between assorted color spaces including
RGB, HSV, HLS, CIEXYZ, CIELUV, HCL (polar CIELUV),
CIELAB and polar CIELAB. Qualitative, sequential, and
diverging color palettes based on HCL colors are provided.
Diff between colorspace versions 0.97 dated 2008-10-24 and 1.0-0 dated 2008-11-21
DESCRIPTION | 6 NEWS | 9 inst/CITATION | 15 inst/doc/color.bib | 11 inst/doc/hcl-colors.Rnw | 5 inst/doc/hcl-colors.pdf | 2312 +++++++++++++++++++++++------------------------- man/rainbow_hcl.Rd | 4 src/colorspace.c | 2 8 files changed, 1165 insertions(+), 1199 deletions(-)
Author: Tristen Hayfield
Diff between np versions 0.20-3 dated 2008-11-14 and 0.20-4 dated 2008-11-20
Title: Nonparametric kernel smoothing methods for mixed data types
Description: This package provides a variety of nonparametric (and semiparametric) kernel methods that seamlessly handle a mix of continuous, unordered, and ordered factor data types. We would like to gratefully acknowledge support from the Natural Sciences and Engineering Research Council of Canada (NSERC:www.nserc.ca), the Social Sciences and Humanities Research Council of Canada (SSHRC:www.sshrc.ca), and the Shared Hierarchical Academic Research Computing Network (SHARCNET:www.sharcnet.ca).
CHANGELOG | 16
DESCRIPTION | 6
R/np.condensity.bw.R | 2
R/np.singleindex.bw.R | 6
R/np.smoothcoef.bw.R | 2
R/util.R | 9
R/zzz.R | 2
inst/doc/np.pdf | 1654 ++++++++++++++++++++--------------------
inst/doc/np_faq.pdf | 1937 ++++++++++++++++++++++++------------------------
man/np.condensity.bw.Rd | 61 -
man/np.density.bw.Rd | 62 -
man/np.regression.bw.Rd | 33
man/np.smoothcoef.bw.Rd | 33
src/statmods.c | 141 +--
14 files changed, 1997 insertions(+), 1967 deletions(-)
Author: Christian W. Hoffmann
Diff between cwhmisc versions 2.0 dated 2008-11-07 and 2.0.1 dated 2008-11-20
Title: CWH's functions for Maths, Plotting, Printing, Statistics, Strings, and Tools
Description: Miscellaneous useful functions collected over time
cwhmisc-2.0.1/cwhmisc/DESCRIPTION | 21 ++++++++++-----------
cwhmisc-2.0.1/cwhmisc/INDEX |only
cwhmisc-2.0.1/cwhmisc/R |only
cwhmisc-2.0.1/cwhmisc/doc |only
cwhmisc-2.0.1/cwhmisc/man |only
cwhmisc-2.0/cwhmisc/cwhmath |only
cwhmisc-2.0/cwhmisc/cwhplot |only
cwhmisc-2.0/cwhmisc/cwhprint |only
cwhmisc-2.0/cwhmisc/cwhstat |only
cwhmisc-2.0/cwhmisc/cwhstring |only
cwhmisc-2.0/cwhmisc/cwhtool |only
11 files changed, 10 insertions(+), 11 deletions(-)
Author: Stephen A Sefick Jr.
Title: Stream Metabolism-A package for calculating single station metabolism from diurnal Oxygen curves
Description: This package contains functions for calculating GPP, NDM, and R from single station diurnal Oxygen curves
Diff between StreamMetabolism versions 0.01 dated 2008-08-07 and 0.02 dated 2008-11-20
DESCRIPTION | 6 +++--- R/EcosystemProduction.R | 2 +- R/Ecosystemproduction.20.R |only R/contiguous.zoo.R |only R/sunrise.set.R |only man/EcosystemProduction.20.Rd |only man/EcosystemProduction.Rd | 10 +++++++++- man/StreamMetabolism-package.Rd | 11 ++++++++++- man/contiguous.zoo.Rd |only man/sunrise.set.Rd |only 10 files changed, 23 insertions(+), 6 deletions(-)
More information about StreamMetabolism at CRAN
Permanent link
Author: Richard M. Heiberger, with contributions from Burt Holland.
Title: Rcmdr support for the HH package
Description: Rcmdr menu support for many of the functions in the HH package.
The focus is on menu items for functions we use in our introductory courses.
Diff between RcmdrPlugin.HH versions 1.1-16 dated 2008-11-17 and 1.1-17 dated 2008-11-20
DESCRIPTION | 6 +++--- R/PredictModel.R | 2 +- 2 files changed, 4 insertions(+), 4 deletions(-)
More information about RcmdrPlugin.HH at CRAN
Permanent link
Author: Diethelm Wuertz, Yohan Chalabi
Title: Rmetrics - Chronological and Calendarical Objects
Description: Environment for teaching "Financial Engineering and
Computational Finance"
Diff between timeDate versions 280.80 dated 2008-10-27 and 290.81 dated 2008-11-19
timeDate-280.80/timeDate/tests/Rplots.pdf |only timeDate-290.81/timeDate/DESCRIPTION | 13 timeDate-290.81/timeDate/R/DaylightSavingTime.R | 417 +--------- timeDate-290.81/timeDate/R/firstDay.R | 16 timeDate-290.81/timeDate/R/methods-format.R | 8 timeDate-290.81/timeDate/R/midnightStandard.R | 29 timeDate-290.81/timeDate/R/nDay.R | 7 timeDate-290.81/timeDate/R/onOrAfter.R | 4 timeDate-290.81/timeDate/R/timeDate.R | 31 timeDate-290.81/timeDate/R/timeSequence.R | 218 +++-- timeDate-290.81/timeDate/inst/unitTests/runit.Class.R | 2 timeDate-290.81/timeDate/inst/unitTests/runit.DaylightSavingTime.R | 181 ++++ timeDate-290.81/timeDate/inst/unitTests/runit.seq.R |only timeDate-290.81/timeDate/man/timeSequence.Rd | 59 - 14 files changed, 499 insertions(+), 486 deletions(-)
More information about RcmdrPlugin.SurvivalT at CRAN
Permanent link
Author: Originally Michael Lapsley
Diff between RODBC versions 1.2-3 dated 2008-01-27 and 1.2-4 dated 2008-11-19
Title: ODBC Database Access
Description: An ODBC database interface
ChangeLog | 12 ++++++++++--
DESCRIPTION | 6 +++---
R/RODBC.R | 2 +-
R/sql.R | 7 +++++--
README | 2 +-
inst/README | 2 +-
man/setSqlTypeInfo.Rd | 4 ++--
man/sqlQuery.Rd | 5 ++++-
src/RODBC.c | 3 ++-
9 files changed, 29 insertions(+), 14 deletions(-)
Author: Adelchi Azzalini
Diff between sn versions 0.4-6 dated 2008-09-14 and 0.4-8 dated 2008-11-19
Title: The skew-normal and skew-t distributions
Description: Functions for manipulating skew-normal and skew-t probability
distributions, and for fitting them to data, in the scalar and in the
multivariate case.
DESCRIPTION | 6 +++---
INDEX | 27 ++++++++++++---------------
R/sn.R | 9 +++++----
inst/CITATION | 16 +++++++---------
man/msn.mle.Rd | 2 +-
man/sample.centralmoments.Rd | 2 +-
man/sn.mle.grouped.Rd | 2 +-
man/sn.mmle.Rd | 2 +-
man/st.cumulants.Rd | 2 +-
9 files changed, 32 insertions(+), 36 deletions(-)
Author: Hadley Wickham
Diff between plyr versions 0.1.2 dated 2008-11-18 and 0.1.3 dated 2008-11-19
Title: Tools for splitting, applying and combining data
Description: plyr is a set of tools that solves a common set of problems: you need to break a big problem down into manageable pieces, operate on each pieces and then put all the pieces back together.
DESCRIPTION | 6 +++---
NEWS | 6 +++++-
R/simplify.r | 2 +-
R/split.r | 3 ++-
man/list-to-dataframe-zb.rd | 2 +-
5 files changed, 12 insertions(+), 7 deletions(-)
Author: Jinko Graham
Diff between stepwise versions 0.2-2 dated 2008-06-03 and 0.2-4 dated 2008-11-19
Title: Stepwise detection of recombination breakpoints
Description: A stepwise approach to identifying recombination breakpoints in a sequence alignment.
DESCRIPTION | 4 ++--
R/summary.maxchi.R | 6 +++---
R/summary.phylpro.R | 4 ++--
src/stepwise.c | 6 ++++--
4 files changed, 11 insertions(+), 9 deletions(-)
Author: Gordon Smyth with contributions from Yifang Hu and Peter Dunn
Title: Statistical Modeling
Description: Various statistical modeling functions including growth curve comparisons, limiting dilution analysis, mixed linear models, heteroscedastic regression, Tweedie family generalized linear models, the inverse-Gaussian distribution and Gauss quadrature.
Diff between statmod versions 1.3.6 dated 2008-04-09 and 1.3.8 dated 2008-11-19
DESCRIPTION | 24 - R/qres.R | 8 inst/doc/changelog.txt | 15 man/growthcurve.Rd | 6 man/qresiduals.Rd | 8 tests/statmod-Tests.R | 7 tests/statmod-Tests.Rout.save | 968 +++++++++++++++++++++--------------------- 7 files changed, 544 insertions(+), 492 deletions(-)
Author: Charles Kooperberg
Diff between polspline versions 1.1.0 dated 2008-11-17 and 1.1.1 dated 2008-11-19
Title: Polynomial spline routines
Description: Routines for the polynomial spline fitting routines
hazard regression, hazard estimation with flexible tails, logspline,
lspec, polyclass, and polymars, by C. Kooperberg and co-authors
DESCRIPTION | 4 ++--
R/polspline.R | 2 +-
man/oldlogspline.to.logspline.Rd | 2 +-
3 files changed, 4 insertions(+), 4 deletions(-)
Author: Charles Kooperberg
Diff between logspline versions 2.1.0 dated 2008-11-17 and 2.1.1 dated 2008-11-19
Title: Logspline density estimation routines
Description: Routines for the logspline density estimation. oldlogspline
uses the same algorithm as the logspline 1.0.x package - the Kooperberg
and Stone (1992) algorithm (with an improved interface). The recomended
routine logspline uses an algorithm from Stone et al (1997).
DESCRIPTION | 4 ++--
R/logspline.R | 2 +-
man/oldlogspline.to.logspline.Rd | 2 +-
3 files changed, 4 insertions(+), 4 deletions(-)
Author: John Fox, Michael Friendly, and Georges Monette
Title: Visualizing Tests in Multivariate Linear Models
Description: Represents sums-of-squares-and-products matrices for linear hypotheses and for error using ellipses (in two dimensions) and ellipsoids (in three dimensions).
Diff between heplots versions 0.8-1 dated 2008-11-03 and 0.8-4 dated 2008-11-19
DESCRIPTION | 9 R/cross3d.R |only R/heplot.mlm.R | 419 ++++++++++++++++++++++----------------------- R/heplot3d.mlm.R | 438 ++++++++++++++++++++++++++++-------------------- R/utility.R |only inst/CHANGES | 34 +++ inst/CITATION |only man/Plastic.Rd | 5 man/cross3d.Rd |only man/heplot-package.Rd | 39 +++- man/heplot.Rd | 7 man/heplot3d.Rd | 42 +++- man/heplots-internal.Rd |only man/pairs.mlm.Rd | 6 14 files changed, 579 insertions(+), 420 deletions(-)
Author: Campo Elias Pardo
Diff between FactoClass versions 0.7.5 dated 2008-11-06 and 0.7.6 dated 2008-11-19
Title: Combination of Factorial Methods and Cluster Analysis
Description: Multivariate exploration of a data table with factorial analysis and cluster methods.
FactoClass-0.7.5/FactoClass/data/ColorAdjetive.rda |only
FactoClass-0.7.5/FactoClass/man/ColorAdjetive.Rd |only
FactoClass-0.7.6/FactoClass/DESCRIPTION | 12 +++++-------
FactoClass-0.7.6/FactoClass/R/FactoClass.R | 18 +++++++++---------
FactoClass-0.7.6/FactoClass/R/zzz.R | 6 +++---
FactoClass-0.7.6/FactoClass/data/ColorAdjective.rda |only
FactoClass-0.7.6/FactoClass/inst/CITATION | 8 ++++----
FactoClass-0.7.6/FactoClass/man/ColorAdjective.Rd |only
FactoClass-0.7.6/FactoClass/man/FactoClass.Rd | 9 +++++----
FactoClass-0.7.6/FactoClass/man/FactoClass.tex.Rd | 8 ++++----
FactoClass-0.7.6/FactoClass/src/kmnsw.f | 12 +++++++-----
11 files changed, 37 insertions(+), 36 deletions(-)
Author: Jeffrey A. Ryan, Josh M. Ulrich
Title: Extensible Time Series
Description: Provide for uniform handling of R's different time-based data classes by extending zoo, maximizing native format information preservation and allowing for user level customization and extension, while simplifying cross-class interoperability.
Diff between xts versions 0.0-15 dated 2008-06-10 and 0.0-16 dated 2008-11-18
xts-0.0-15/xts/inst/doc/Rplots.pdf |only xts-0.0-15/xts/inst/doc/xts-xtsplot.eps |only xts-0.0-15/xts/inst/doc/xts-xtsplot.pdf |only xts-0.0-15/xts/inst/doc/xts.aux |only xts-0.0-15/xts/inst/doc/xts.log |only xts-0.0-15/xts/inst/doc/xts.out |only xts-0.0-15/xts/inst/doc/xts.tex |only xts-0.0-15/xts/inst/doc/xts.toc |only xts-0.0-16/xts/DESCRIPTION | 8 xts-0.0-16/xts/NAMESPACE | 3 xts-0.0-16/xts/R/axTicksByTime.R | 58 xts-0.0-16/xts/R/axTicksByTimeold.R |only xts-0.0-16/xts/R/endpoints.R | 11 xts-0.0-16/xts/R/lag.xts.R | 30 xts-0.0-16/xts/R/timeBasedRange.R |only xts-0.0-16/xts/R/timeBasedSeq.R | 6 xts-0.0-16/xts/R/toperiod.R | 4 xts-0.0-16/xts/R/xts.R | 14 xts-0.0-16/xts/R/xts.methods.R | 50 xts-0.0-16/xts/R/xts2.R |only xts-0.0-16/xts/WISHLIST | 5 xts-0.0-16/xts/inst/doc/xts.pdf | 1251 ++++++++++----------- xts-0.0-16/xts/inst/unitTests/runit.timeBasedSeq.R |only xts-0.0-16/xts/man/as.xts.Rd | 8 xts-0.0-16/xts/man/axTicksByTime.Rd | 5 xts-0.0-16/xts/man/timeBasedSeq.Rd | 15 xts-0.0-16/xts/man/to.period.Rd | 2 xts-0.0-16/xts/man/xts-package.Rd | 7 28 files changed, 791 insertions(+), 686 deletions(-)
Author: Dan Kelley
Diff between oce versions 0.1.73 dated 2008-09-15 and 0.1.74 dated 2008-11-18
Title: Analysis of Oceanographic data
Description: Supports the analysis of Oceanographic data,
including CTD measurements, sea-level timeseries, coastline
files, etc. Also includes functions for calculating
seawater properties such as density, and derived properties
such as buoyancy frequency.
oce-0.1.73/oce/inst/doc/Rplots.ps |only
oce-0.1.73/oce/inst/doc/oce-coastlinefig.eps |only
oce-0.1.73/oce/inst/doc/oce-coastlinefig.pdf |only
oce-0.1.73/oce/inst/doc/oce-sectionfig.eps |only
oce-0.1.73/oce/inst/doc/oce-sectionfig.pdf |only
oce-0.1.73/oce/inst/doc/oce-tidefig.eps |only
oce-0.1.73/oce/inst/doc/oce-tidefig.pdf |only
oce-0.1.73/oce/inst/doc/oce.R |only
oce-0.1.73/oce/svn-commit.tmp |only
oce-0.1.74/oce/DESCRIPTION | 6
oce-0.1.74/oce/NAMESPACE | 5
oce-0.1.74/oce/NEWS | 26
oce-0.1.74/oce/R/as.ctd.R | 6
oce-0.1.74/oce/R/ctd.trim.R | 5
oce-0.1.74/oce/R/plot.TS.R | 17
oce-0.1.74/oce/R/plot.ctd.R | 13
oce-0.1.74/oce/R/plot.profile.R | 65
oce-0.1.74/oce/R/plot.rbrtdr.R |only
oce-0.1.74/oce/R/plot.section.R | 56
oce-0.1.74/oce/R/rbrtdr.trim.R |only
oce-0.1.74/oce/R/read.ctd.R | 39
oce-0.1.74/oce/R/read.oce.R | 4
oce-0.1.74/oce/R/read.rbrtdr.R |only
oce-0.1.74/oce/R/read.section.R | 4
oce-0.1.74/oce/R/summary.ctd.R | 1
oce-0.1.74/oce/R/summary.rbrtdr.R |only
oce-0.1.74/oce/R/sw.rho.R | 2
oce-0.1.74/oce/R/sw.spice.R | 24
oce-0.1.74/oce/data/ctd.rda |binary
oce-0.1.74/oce/inst/doc/oce.Rnw | 63
oce-0.1.74/oce/inst/doc/oce.pdf |28977 ++++++++++++++-------------
oce-0.1.74/oce/man/as.ctd.Rd | 50
oce-0.1.74/oce/man/plot.profile.Rd | 2
oce-0.1.74/oce/man/plot.rbrtdr.Rd |only
oce-0.1.74/oce/man/plot.section.Rd | 46
oce-0.1.74/oce/man/rbrtdr.trim.Rd |only
oce-0.1.74/oce/man/read.rbrtdr.Rd |only
oce-0.1.74/oce/man/section.grid.Rd | 5
oce-0.1.74/oce/man/summary.rbrtdr.Rd |only
oce-0.1.74/oce/src/sw_rho.c | 6
oce-0.1.74/oce/src/sw_spice.c | 45
oce-0.1.74/oce/svn-commit.2.tmp |only
oce-0.1.74/oce/svn-commit.3.tmp |only
oce-0.1.74/oce/svn-commit.4.tmp |only
oce-0.1.74/oce/tests/eos.R | 6
45 files changed, 15767 insertions(+), 13706 deletions(-)
Author: Jun Yan
Diff between copula versions 0.7-6 dated 2008-09-21 and 0.8-0 dated 2008-11-18
Title: Multivariate dependence with copulas
Description: Classes (S4) of commonly used copulas including elliptical (normal and t), Archimedean (Clayton, Gumbel, Frank, and Ali-Mikhail-Haq), extreme value (Husler-Reiss and Galambos), and other families (Plackett and Farlie-Gumbel-Morgenstern). Methods for density, distribution, random number generation, bivariate dependence measures, perspective and contour plots. Functions for fitting copula models. Independence tests among random variables and random vectors. Serial independence tests for univariate and multivariate continuous time series. Goodness-of-fit tests for copulas based on multipliers and on the parametric bootstrap.
copula-0.7-6/copula/inst/docs/assoc |only
copula-0.8-0/copula/ChangeLog | 38 +
copula-0.8-0/copula/DESCRIPTION | 8
copula-0.8-0/copula/NAMESPACE | 8
copula-0.8-0/copula/R/Classes.R | 26
copula-0.8-0/copula/R/claytonCopula.R | 39 -
copula-0.8-0/copula/R/ellipCopula.R | 11
copula-0.8-0/copula/R/fitCopula.R | 605 +++++++++++-------
copula-0.8-0/copula/R/fitMvdc.R |only
copula-0.8-0/copula/R/gofCopula.R | 223 ++----
copula-0.8-0/copula/R/gumbelCopula.R | 36 -
copula-0.8-0/copula/R/mgofMclt.R | 87 +-
copula-0.8-0/copula/R/mvdc.R | 5
copula-0.8-0/copula/R/plackettCopula.R | 51 +
copula-0.8-0/copula/R/sysdata.rda |binary
copula-0.8-0/copula/demo |only
copula-0.8-0/copula/inst/docs/obsolete/varEstCopula.R |only
copula-0.8-0/copula/man/Mvdc.Rd | 4
copula-0.8-0/copula/man/assocMeasures.Rd | 16
copula-0.8-0/copula/man/fitCopula-class.Rd | 14
copula-0.8-0/copula/man/fitCopula.Rd | 204 ++++--
copula-0.8-0/copula/man/fitMvdc.Rd |only
copula-0.8-0/copula/man/gofCopula.Rd | 134 ++-
copula-0.8-0/copula/man/multIndepTest.Rd | 3
copula-0.8-0/copula/man/mvdc-class.Rd | 7
25 files changed, 1009 insertions(+), 510 deletions(-)
Author: Venkatraman E. Seshan
Title: Clinical Trial Design and Data Analysis Functions
Description: Utilities to make your clinical collaborations easier if not fun.
Diff between clinfun versions 0.8.2 dated 2008-07-05 and 0.8.3 dated 2008-11-18
CHANGES | 9 +++++++++ DESCRIPTION | 4 ++-- R/fedesign.R | 2 +- R/jonkheere.R | 3 ++- 4 files changed, 14 insertions(+), 4 deletions(-)
Author: Jose L. Izquierdo
Diff between Metabonomic versions 1.1 dated 2008-07-14 and 2.0 dated 2008-11-18
Title: GUI for Metabonomic Analysis
Description: Graphical User Interface for the Metabonomic Analysis (Baseline, Normalization, Peak Detection,
PCA, PLS, Nearest Neigbourgt, Neural Network) developed to make easy this data analysis.
DESCRIPTION | 8 ++++----
R/Baseline.Correction.R |only
R/Import.data.R | 20 ++++++++++++++++----
R/Met.spectrum.2.R |only
R/Metabonomic-internal.R |only
R/Metabonomic.R | 2 ++
man/Baseline.Correction.Rd |only
man/Import.data.Rd | 7 ++++---
man/Manual.cut.Rd | 2 +-
man/Met.B.STAT.Rd | 2 +-
man/Met.Baseline.Rd | 4 +++-
man/Met.Binning.Rd | 3 ++-
man/Met.Checkbox1.Rd | 2 +-
man/Met.KNN.Rd | 7 +++++--
man/Met.LDA.Rd | 8 +++++++-
man/Met.LDA.multi.Rd | 2 +-
man/Met.Load.Data.Rd | 10 +++++-----
man/Met.NN1.Rd | 6 +++++-
man/Met.NN2.Rd | 5 +++--
man/Met.Norm.Rd | 6 ++++--
man/Met.Order.Rd | 2 +-
man/Met.Outliers.Rd | 4 ++--
man/Met.PCA.Rd | 8 ++++++--
man/Met.PLS1.Rd | 6 ++++--
man/Met.PLS2.Rd | 8 ++++++--
man/Met.PLS2.multi.Rd | 2 +-
man/Met.PLS2.multi2.Rd | 2 +-
man/Met.PLS3D.Rd | 2 +-
man/Met.RadioBox1.Rd | 2 +-
man/Met.RadioBox2.Rd | 2 +-
man/Met.Save.Data.Rd | 2 +-
man/Met.Selection.Rd | 7 ++++++-
man/Met.Show.Rd | 2 +-
man/Met.delete.Rd | 2 +-
man/Met.modalDialog.Rd | 2 +-
man/Met.modalDialog2.Rd | 2 +-
man/Met.modalDialog3.Rd | 2 +-
man/Met.modalDialog4.Rd | 2 +-
man/Met.model.1.Rd | 1 +
man/Met.peak.detection.Rd | 6 ++++--
man/Met.redo.Rd | 2 +-
man/Met.spectrum.2.Rd |only
man/Met.spectrum.Rd | 2 +-
man/Met.undo.Rd | 2 +-
man/Metabonomic-package.Rd | 1 +
man/Metabonomic.Rd | 8 ++++++--
man/Require.Rd | 2 +-
man/TABLE.Rd | 2 +-
man/Try.Rd | 2 +-
man/showData2.Rd | 1 +
50 files changed, 120 insertions(+), 62 deletions(-)
Author: Josselin Noirel and Guido Sanguinetti
Title: Mixture Model on Graphs
Description: This package implements the Mixture Model on Graphs
developed in Sanguinetti et al., Bioinformatics 2008. The
graph structure is used to infer quantities that were not
measured, based on the neighbours' measurements. This approach
was developed to address problems typical of Quantitative
Proteomics but could be applicable to many other domains.
Diff between MMG versions 1.2.2 dated 2008-05-20 and 1.4.0 dated 2008-11-18
MMG-1.2.2/MMG/inst/.DS_Store |only MMG-1.4.0/MMG/CHANGES | 8 ++- MMG-1.4.0/MMG/DESCRIPTION | 5 + MMG-1.4.0/MMG/R/MMG.compute.R | 28 ++++++++-- MMG-1.4.0/MMG/R/MMG.cut.graph.R | 6 +- MMG-1.4.0/MMG/R/MMG.make.dot.R | 2 MMG-1.4.0/MMG/inst/doc/.tex |only MMG-1.4.0/MMG/inst/doc/MMG.Rnw | 21 ++++++-- MMG-1.4.0/MMG/inst/doc/MMG.pdf |binary MMG-1.4.0/MMG/inst/doc/new.dat |only MMG-1.4.0/MMG/inst/doc/nostoc.dot | 18 +++--- MMG-1.4.0/MMG/inst/doc/test1.dot | 4 - MMG-1.4.0/MMG/inst/doc/test2.dot | 8 +-- MMG-1.4.0/MMG/man/MMG.compute.Rd | 6 +- MMG-1.4.0/MMG/src/MMG_compute.c | 99 +++++++++++++++++++++++++++++++++++++- MMG-1.4.0/MMG/src/MMG_cut_graph.c | 2 MMG-1.4.0/MMG/src/MMG_make_dot.c | 2 17 files changed, 174 insertions(+), 35 deletions(-)
Author: Jeff Gill
Diff between BaM versions 0.91 dated 2008-11-03 and 0.93 dated 2008-11-18
Title: Functions and datasets for books by Jeff Gill.
Description: Books is "Bayesian Methods: A Social and Behavioral Sciences Approach, Second Edition published by CRC Press, 2007"
DESCRIPTION | 6 +++---
R/china.wars.R |only
data/DA_cwp.rda |only
data/DA_cwp.tab |only
data/africa.rda |binary
data/pbc.vote.rda |binary
data/wars.rda |only
man/biv.norm.post.Rd | 2 +-
man/china.wars.Rd | 2 ++
man/experts.Rd | 2 +-
man/hanjack.Rd | 2 +-
man/iq.Rd | 2 +-
man/pbc.vote.Rd | 8 ++++----
man/wars.Rd |only
14 files changed, 13 insertions(+), 11 deletions(-)
Author: Jeffrey A. Ryan
Title: Quantitative Financial Modelling Framework
Description: Specify, build, trade, and analyse quantitative financial trading strategies
Diff between quantmod versions 0.3-6 dated 2008-06-11 and 0.3-7 dated 2008-11-18
CHANGES | 13 DESCRIPTION | 7 NAMESPACE | 168 ++++++---- R/OHLC.transformations.R | 33 +- R/TA.R |only R/addCMF.R |only R/addCMO.R |only R/addSMI.R |only R/addTA.R | 717 +------------------------------------------- R/addVo.R |only R/addWPR.R |only R/buildModel.R | 19 + R/chartSeries.R | 31 + R/chartSeries.chob.R | 65 ++- R/chob.R | 1 R/fast.to.period.R | 82 ++--- R/getSymbols.R | 12 R/months.R | 187 +---------- R/newTA.R | 57 ++- R/peak.R |only R/period.apply.R | 492 +++++++++++++++--------------- R/periodReturn.R | 11 R/reChart.R | 5 R/specifyModel.R | 47 ++ R/tools.R |only R/zoomChart.R | 14 R/zzz.R | 6 WISHLIST | 46 ++ demo |only man/OHLC.Transformations.Rd | 11 man/addVo.Rd | 7 man/chartSeries.Rd | 7 man/chob-class.Rd | 1 man/newTA.Rd | 23 + man/peak.Rd |only man/quantmod-package.Rd | 6 man/zoomChart.Rd | 3 37 files changed, 795 insertions(+), 1276 deletions(-)
Author: Hadley Wickham
Diff between plyr versions 0.1.1 dated 2008-10-08 and 0.1.2 dated 2008-11-18
Title: Tools for splitting, applying and combining data
Description: plyr is a set of tools that solves a common set of problems: you need to break a big problem down into manageable pieces, operate on each pieces and then put all the pieces back together.
DESCRIPTION | 4 +-
NEWS | 8 ++++
R/helper-col-wise.r | 1
R/ply-array.r | 73 ++++++--------------------------------------
R/ply-data-frame.r | 30 +-----------------
R/ply-list.r | 2 -
R/ply-replicate.r | 70 ++++++++++++++++++++++++++++++++++--------
R/quote.r | 7 +++-
R/simplify.r |only
R/split.r | 6 +++
man/aaply-ym.rd | 8 ++--
man/colwise-5m.rd | 3 -
man/daply-7r.rd | 10 +++---
man/laply-10.rd | 4 +-
man/list-to-array-ki.rd |only
man/list-to-dataframe-zb.rd |only
man/r-ply-qd.rd | 7 ++--
man/raply-uc.rd | 7 ++--
man/rdply-1o.rd | 5 +--
man/rlply-s7.rd | 4 +-
20 files changed, 116 insertions(+), 133 deletions(-)
Author: Stephen Milborrow
derived from mda:mars by Trevor Hastie and Rob Tibshirani.
Title: Multivariate Adaptive Regression Spline Models
Description: Build regression models using the techniques in Friedman's
papers "Fast MARS" and "Multivariate Adaptive Regression Splines".
(The term "MARS" is copyrighted and thus not used in the name of the package.)
Diff between earth versions 2.1-0 dated 2008-11-10 and 2.1-2 dated 2008-11-18
DESCRIPTION | 4 ++-- NEWS | 3 +++ man/evimp.Rd | 27 +++++++++++++++------------ 3 files changed, 20 insertions(+), 14 deletions(-)
Author: Duncan Temple Lang
Title: HTTP request interface
Description: The package allows one to compose HTTP requests to fetch URIs, post forms,
etc. and process the results returned by the Web server.
This provides a great deal of control over the HTTP connection and the form
of the request while providing a higher-level interface than is available just
using R socket connections. Additionally, the underlying implementation is robust
and extensive, supporting SSL/HTTPS, cookies, redirects, authentication, etc.
Diff between RCurl versions 0.91-0 dated 2008-10-17 and 0.92-0 dated 2008-11-18
Changes.html | 17 ++++++++++++++++- DESCRIPTION | 4 ++-- NAMESPACE | 2 +- R/getURLContent.R |only inst/doc/philosophy.html |only man/getBinaryURL.Rd | 11 +++++++++++ man/getURL.Rd | 40 +++++++++++++++++++++++++++++++++++++--- r_packets.tcp |only src/Makevars | 6 +++--- src/curl.c | 5 +++-- tests |only 11 files changed, 73 insertions(+), 12 deletions(-)
Author: David Harte
Title: Time Dependent Point Process Modelling
Description: This package fits and analyses time dependent marked point process models with an emphasis on earthquake modelling. For a more detailed introduction to the package, see the topic "PtProcess". A list of recent changes can be found in the topic "Changes".
Diff between PtProcess versions 3.1-0 dated 2008-08-08 and 3.1-1 dated 2008-11-18
DESCRIPTION | 6 ++-- R/etas_gif.R | 2 - R/simulate.linksrm.R | 8 ++--- R/simulate.mpp.R | 6 +++- man/Changes.Rd | 7 +++-- man/PtProcess.Rd | 2 + man/dpareto.Rd | 4 +- man/etas_gif.Rd | 2 - man/gif.Rd | 4 +- man/linksrm_gif.Rd | 2 - man/marks.Rd | 71 ++++++++++++++++++++++++++++----------------------- man/mpp.Rd | 21 +++++++++------ man/neglogLik.Rd | 4 +- man/plot.Rd | 4 +- man/simple_gif.Rd | 6 ++-- man/simulate.Rd | 32 +++++++++++++++++++--- man/srm_gif.Rd | 2 - 17 files changed, 114 insertions(+), 69 deletions(-)
Author: Jeffrey A. Ryan
Title: R API to Interactive Brokers Trader Workstation
Description: Provides native Raccess to Interactive Brokers Trader Workstation API.
Diff between IBrokers versions 0.1-0 dated 2008-05-06 and 0.1-3 dated 2008-11-18
IBrokers-0.1-0/IBrokers/R/cancelHistoricalData.R |only IBrokers-0.1-0/IBrokers/allibrokers.R |only IBrokers-0.1-3/IBrokers/DESCRIPTION | 6 IBrokers-0.1-3/IBrokers/NAMESPACE | 38 +- IBrokers-0.1-3/IBrokers/R/cancelOrder.R |only IBrokers-0.1-3/IBrokers/R/eventHandlers.R | 232 ++++++++++++ IBrokers-0.1-3/IBrokers/R/placeOrder.R |only IBrokers-0.1-3/IBrokers/R/reqAccountUpdates.R |only IBrokers-0.1-3/IBrokers/R/reqContractDetails.R |only IBrokers-0.1-3/IBrokers/R/reqCurrentTime.R | 10 IBrokers-0.1-3/IBrokers/R/reqHistoricalData.R | 48 +- IBrokers-0.1-3/IBrokers/R/reqIds.R |only IBrokers-0.1-3/IBrokers/R/reqMktData.R | 398 +++++++++++++++++++--- IBrokers-0.1-3/IBrokers/R/reqMktDepth.R | 135 +++++-- IBrokers-0.1-3/IBrokers/R/reqOpenOrders.R |only IBrokers-0.1-3/IBrokers/R/reqRealTimeBars.R | 124 ++++-- IBrokers-0.1-3/IBrokers/R/twsConnect.R | 77 +--- IBrokers-0.1-3/IBrokers/R/twsContract.R | 35 + IBrokers-0.1-3/IBrokers/R/twsCurrency.R |only IBrokers-0.1-3/IBrokers/R/twsDisconnect.R | 2 IBrokers-0.1-3/IBrokers/R/twsEquity.R | 4 IBrokers-0.1-3/IBrokers/R/twsExecution.R |only IBrokers-0.1-3/IBrokers/R/twsFuture.R | 1 IBrokers-0.1-3/IBrokers/R/twsIDs.R | 10 IBrokers-0.1-3/IBrokers/R/twsOption.R | 6 IBrokers-0.1-3/IBrokers/R/twsOrder.R |only IBrokers-0.1-3/IBrokers/R/twsOrderState.R |only IBrokers-0.1-3/IBrokers/R/zzz.R | 3 IBrokers-0.1-3/IBrokers/WISHLIST | 26 + IBrokers-0.1-3/IBrokers/inst |only IBrokers-0.1-3/IBrokers/man/IBrokers-package.Rd | 6 IBrokers-0.1-3/IBrokers/man/internal.Rd | 4 IBrokers-0.1-3/IBrokers/man/reqAccountUpdates.Rd |only IBrokers-0.1-3/IBrokers/man/reqContractDetails.Rd |only IBrokers-0.1-3/IBrokers/man/reqCurrentTime.Rd | 4 IBrokers-0.1-3/IBrokers/man/reqHistoricalData.Rd | 15 IBrokers-0.1-3/IBrokers/man/reqMktData.Rd | 9 IBrokers-0.1-3/IBrokers/man/reqMktDepth.Rd | 5 IBrokers-0.1-3/IBrokers/man/reqRealTimeBars.Rd | 12 IBrokers-0.1-3/IBrokers/man/twsConnect.Rd | 16 IBrokers-0.1-3/IBrokers/man/twsCurrency.Rd |only IBrokers-0.1-3/IBrokers/man/twsEquity.Rd | 1 IBrokers-0.1-3/IBrokers/man/twsFuture.Rd | 1 IBrokers-0.1-3/IBrokers/man/twsOption.Rd | 44 +- 44 files changed, 1029 insertions(+), 243 deletions(-)
Author: Charles Kooperberg
Diff between polspline versions 1.0.15 dated 2007-11-30 and 1.1.0 dated 2008-11-17
Title: Polynomial spline routines
Description: Routines for the polynomial spline fitting routines
hazard regression, hazard estimation with flexible tails, logspline,
lspec, polyclass, and polymars, by C. Kooperberg and co-authors
DESCRIPTION | 4 -
R/polspline.R | 79 ++++++++++++++++++++++++++++++---------
man/dhare.Rd | 1
man/dheft.Rd | 2
man/logspline.Rd | 33 +++++++++++++++-
man/oldlogspline.Rd | 5 +-
man/oldlogspline.to.logspline.Rd |only
man/persp.polymars.Rd | 2
man/plot.hare.Rd | 3 -
man/plot.heft.Rd | 2
man/plot.logspline.Rd | 2
man/plot.lspec.Rd | 2
man/plot.oldlogspline.Rd | 2
man/plot.polyclass.Rd | 2
man/plot.polymars.Rd | 2
man/predict.polymars.Rd | 2
man/summary.hare.Rd | 4 -
man/summary.heft.Rd | 4 -
man/summary.logspline.Rd | 4 -
man/summary.lspec.Rd | 4 -
man/summary.oldlogspline.Rd | 4 -
man/summary.polyclass.Rd | 4 -
man/summary.polymars.Rd | 5 --
man/testhare.Rd | 1
src/nlsd.c | 4 +
25 files changed, 125 insertions(+), 52 deletions(-)
Author: Peter Solymos
Title: Multivariate Data Handling in Ecology and Biogeography
Description: A framework package aimed to provide standardized computational environment for specialist work via object classes to represent the data coded by samples, taxa and segments (i.e. subpopulations, repeated measures). Supports easy processing of the data along with cross tabulation and relational data tables for samples and taxa. An object of class 'mefa' is a project specific compendium of the data and can be easily used in further analyses. Methods are provided for extraction, aggregation, conversion, plotting, summary and reporting of 'mefa' objects. Reports can be generated in plain text or LaTeX format. Vignette contains worked examples.
Diff between mefa versions 2.0-1 dated 2008-10-25 and 2.1-0 dated 2008-11-17
mefa-2.0-1/mefa/data/DOLINAcounts.rda |only mefa-2.0-1/mefa/data/DOLINAsamples.rda |only mefa-2.0-1/mefa/data/DOLINAtaxa.rda |only mefa-2.1-0/mefa/DESCRIPTION | 11 ++--- mefa-2.1-0/mefa/R/aggregate.mefa.R | 8 +++ mefa-2.1-0/mefa/R/as.mefa.R | 15 +++++-- mefa-2.1-0/mefa/R/boxplot.mefa.R | 23 +++++++--- mefa-2.1-0/mefa/R/boxplot.stcs.R |only mefa-2.1-0/mefa/R/extract.mefa.R | 30 ++++++++++++-- mefa-2.1-0/mefa/R/fill.na.R | 1 mefa-2.1-0/mefa/R/image.mefa.R | 8 ++- mefa-2.1-0/mefa/R/image.stcs.R |only mefa-2.1-0/mefa/R/is.stcs.R | 3 - mefa-2.1-0/mefa/R/mefa.R | 22 ++++++---- mefa-2.1-0/mefa/R/mefaCheck.R | 20 +++++---- mefa-2.1-0/mefa/R/mefaCompare.R |only mefa-2.1-0/mefa/R/mefaCrosstab.R | 9 ++-- mefa-2.1-0/mefa/R/mefaNestedless.R |only mefa-2.1-0/mefa/R/mefaTables.R | 18 +++++++- mefa-2.1-0/mefa/R/melt.mefa.R | 68 +++++++++++++++++++++++++++++--- mefa-2.1-0/mefa/R/plot.mefa.R | 11 ++--- mefa-2.1-0/mefa/R/plot.stcs.R |only mefa-2.1-0/mefa/R/print.mefa.R | 21 ++++++--- mefa-2.1-0/mefa/R/print.summary.mefa.R | 9 ++-- mefa-2.1-0/mefa/R/qvector.R | 4 - mefa-2.1-0/mefa/R/stcs.R | 34 +++++++++++++--- mefa-2.1-0/mefa/R/summary.mefa.R | 11 ++--- mefa-2.1-0/mefa/R/summary.stcs.R |only mefa-2.1-0/mefa/R/zzz.R | 3 - mefa-2.1-0/mefa/data/dol.count.rda |only mefa-2.1-0/mefa/data/dol.samp.rda |only mefa-2.1-0/mefa/data/dol.taxa.rda |only mefa-2.1-0/mefa/demo |only mefa-2.1-0/mefa/inst/ChangeLog | 70 +++++++++++++++++++++++++++++++-- mefa-2.1-0/mefa/inst/doc |only mefa-2.1-0/mefa/man/aggregate.mefa.Rd | 8 +-- mefa-2.1-0/mefa/man/dolina.Rd | 52 +++++++++--------------- mefa-2.1-0/mefa/man/mefa.Rd | 47 +++++++++++++--------- mefa-2.1-0/mefa/man/mefaCheck.Rd | 20 +++++++-- mefa-2.1-0/mefa/man/mefaCrosstab.Rd | 7 ++- mefa-2.1-0/mefa/man/mefaNestedless.Rd |only mefa-2.1-0/mefa/man/melt.mefa.Rd | 19 ++++++-- mefa-2.1-0/mefa/man/plot.mefa.Rd | 23 ++++++++-- mefa-2.1-0/mefa/man/qvector.Rd | 4 + mefa-2.1-0/mefa/man/report.mefa.Rd | 9 +--- mefa-2.1-0/mefa/man/stcs.Rd | 38 +++++++++++------ mefa-2.1-0/mefa/tests |only 47 files changed, 451 insertions(+), 175 deletions(-)
Author: Charles Kooperberg
Diff between logspline versions 2.0.4 dated 2007-09-28 and 2.1.0 dated 2008-11-17
Title: Logspline density estimation routines
Description: Routines for the logspline density estimation. oldlogspline
uses the same algorithm as the logspline 1.0.x package - the Kooperberg
and Stone (1992) algorithm (with an improved interface). The recomended
routine logspline uses an algorithm from Stone et al (1997).
DESCRIPTION | 4 -
R/logspline.R | 85 +++++++++++++++++++++++++++++----------
man/logspline.Rd | 33 ++++++++++++++-
man/oldlogspline.Rd | 5 +-
man/oldlogspline.to.logspline.Rd |only
man/plot.logspline.Rd | 2
man/plot.oldlogspline.Rd | 2
man/summary.logspline.Rd | 4 -
man/summary.oldlogspline.Rd | 4 -
src/nlsd.c | 4 +
src/x2c.h | 2
11 files changed, 111 insertions(+), 34 deletions(-)
Author: Marcelino de la Cruz Rot, with contributions of Philip M. Dixon and Jose M. Blanco-Moreno
Title: Functions for spatial point pattern analysis
Description: Some wrappers, functions and data sets for for spatial point pattern analysis (mainly based on spatstat), used in the book "Introduccion al Analisis Espacial de Datos en Ecologia y Ciencias Ambientales: Metodos y Aplicaciones".
Diff between ecespa versions 1.1-0 dated 2008-08-01 and 1.1-1 dated 2008-11-17
ecespa-1.1-0/ecespa/NAMESPACE |only ecespa-1.1-0/ecespa/man/syrjala.test.Rd |only ecespa-1.1-1/ecespa/DESCRIPTION | 10 + ecespa-1.1-1/ecespa/R/Kci.R | 4 ecespa-1.1-1/ecespa/R/Ki.R | 6 - ecespa-1.1-1/ecespa/R/Kinhom.log.R | 4 ecespa-1.1-1/ecespa/R/funciones_Ecespa_1-1-0.R |only ecespa-1.1-1/ecespa/R/ginv.R | 2 ecespa-1.1-1/ecespa/R/marksum.R | 2 ecespa-1.1-1/ecespa/R/plot.ecespa.getis.R | 16 +-- ecespa-1.1-1/ecespa/R/plot.ecespa.kci.R | 26 ++--- ecespa-1.1-1/ecespa/R/plot.ecespa.kmm.R | 10 - ecespa-1.1-1/ecespa/R/plot.ecespa.marksum.R | 42 +++++--- ecespa-1.1-1/ecespa/R/plot.ecespa.minconfit.R | 10 - ecespa-1.1-1/ecespa/R/plot.syrjala.test.R |only ecespa-1.1-1/ecespa/R/print.syrjala.test.R |only ecespa-1.1-1/ecespa/R/syrjala.R |only ecespa-1.1-1/ecespa/R/syrjala.test.R | 126 +++++++++---------------- ecespa-1.1-1/ecespa/R/syrjala0.R |only ecespa-1.1-1/ecespa/R/zzz.r |only ecespa-1.1-1/ecespa/inst/CITATION | 32 +++--- ecespa-1.1-1/ecespa/man/00ecespa.Rd | 13 +- ecespa-1.1-1/ecespa/man/Kci.Rd | 3 ecespa-1.1-1/ecespa/man/Kmm.Rd | 5 ecespa-1.1-1/ecespa/man/getis.rd | 3 ecespa-1.1-1/ecespa/man/ipc.estK.Rd | 4 ecespa-1.1-1/ecespa/man/marksum.rd | 10 + ecespa-1.1-1/ecespa/man/syrjala.Rd |only ecespa-1.1-1/ecespa/src |only 29 files changed, 162 insertions(+), 166 deletions(-)
Author: Stefan Theussl and Kurt Hornik
Title: R/GNU Linear Programming Kit Interface
Description: R interface to the GNU Linear Programing Kit (GLPK version 4.33).
GLPK is open source software for solving large-scale linear programming (LP),
mixed integer linear programming (MILP) and other related problems.
Diff between Rglpk versions 0.2-5 dated 2008-08-20 and 0.2-6 dated 2008-11-17
Rglpk-0.2-5/Rglpk/src/glpcli.c |only Rglpk-0.2-5/Rglpk/src/glpcli.h |only Rglpk-0.2-5/Rglpk/src/glplpx10.c |only Rglpk-0.2-5/Rglpk/src/glplpx11.c |only Rglpk-0.2-5/Rglpk/src/glplpx12.c |only Rglpk-0.2-5/Rglpk/src/glplpx13.c |only Rglpk-0.2-5/Rglpk/src/glplpx14.c |only Rglpk-0.2-5/Rglpk/src/glplpx15.c |only Rglpk-0.2-5/Rglpk/src/glplpx16.c |only Rglpk-0.2-5/Rglpk/src/glplpx17.c |only Rglpk-0.2-5/Rglpk/src/glplpx18.c |only Rglpk-0.2-5/Rglpk/src/glplpx19.c |only Rglpk-0.2-5/Rglpk/src/glpspx03.c |only Rglpk-0.2-6/Rglpk/DESCRIPTION | 9 Rglpk-0.2-6/Rglpk/SVN-REVISION |only Rglpk-0.2-6/Rglpk/inst/CHANGELOG | 11 Rglpk-0.2-6/Rglpk/man/Rglpk_solve.Rd | 2 Rglpk-0.2-6/Rglpk/src/glpapi.h | 101 Rglpk-0.2-6/Rglpk/src/glpapi01.c | 307 +- Rglpk-0.2-6/Rglpk/src/glpapi02.c | 23 Rglpk-0.2-6/Rglpk/src/glpapi03.c | 5 Rglpk-0.2-6/Rglpk/src/glpapi04.c | 51 Rglpk-0.2-6/Rglpk/src/glpapi05.c | 107 Rglpk-0.2-6/Rglpk/src/glpapi06.c | 429 +-- Rglpk-0.2-6/Rglpk/src/glpapi07.c | 532 +++- Rglpk-0.2-6/Rglpk/src/glpapi08.c | 1020 ++++--- Rglpk-0.2-6/Rglpk/src/glpapi09.c | 1046 ++++--- Rglpk-0.2-6/Rglpk/src/glpapi10.c | 1076 ++------ Rglpk-0.2-6/Rglpk/src/glpapi11.c | 1023 ++++--- Rglpk-0.2-6/Rglpk/src/glpapi12.c | 681 +++-- Rglpk-0.2-6/Rglpk/src/glpapi13.c | 2916 +-------------------- Rglpk-0.2-6/Rglpk/src/glpapi14.c | 1230 --------- Rglpk-0.2-6/Rglpk/src/glpapi15.c | 644 ---- Rglpk-0.2-6/Rglpk/src/glpapi16.c |only Rglpk-0.2-6/Rglpk/src/glpapi17.c |only Rglpk-0.2-6/Rglpk/src/glpcpx.c |only Rglpk-0.2-6/Rglpk/src/glpcpx.h |only Rglpk-0.2-6/Rglpk/src/glpdmp.c | 34 Rglpk-0.2-6/Rglpk/src/glpini.h |only Rglpk-0.2-6/Rglpk/src/glpini01.c |only Rglpk-0.2-6/Rglpk/src/glpini02.c |only Rglpk-0.2-6/Rglpk/src/glpios.h | 112 Rglpk-0.2-6/Rglpk/src/glpios01.c | 477 +++ Rglpk-0.2-6/Rglpk/src/glpios03.c | 834 +++--- Rglpk-0.2-6/Rglpk/src/glpios05.c | 19 Rglpk-0.2-6/Rglpk/src/glpios06.c | 16 Rglpk-0.2-6/Rglpk/src/glpios07.c |only Rglpk-0.2-6/Rglpk/src/glpios08.c |only Rglpk-0.2-6/Rglpk/src/glpios09.c |only Rglpk-0.2-6/Rglpk/src/glpipm.c | 4 Rglpk-0.2-6/Rglpk/src/glpk.h | 394 +- Rglpk-0.2-6/Rglpk/src/glplib.h | 26 Rglpk-0.2-6/Rglpk/src/glplib01.c | 3 Rglpk-0.2-6/Rglpk/src/glplib02.c | 6 Rglpk-0.2-6/Rglpk/src/glplib03.c | 3 Rglpk-0.2-6/Rglpk/src/glplib07.c | 31 Rglpk-0.2-6/Rglpk/src/glplib08.c | 4 Rglpk-0.2-6/Rglpk/src/glplib11.c | 119 Rglpk-0.2-6/Rglpk/src/glplib12.c | 6 Rglpk-0.2-6/Rglpk/src/glplpp01.c | 2 Rglpk-0.2-6/Rglpk/src/glplpx01.c | 219 + Rglpk-0.2-6/Rglpk/src/glplpx02.c | 125 Rglpk-0.2-6/Rglpk/src/glplpx04.c | 944 +++---- Rglpk-0.2-6/Rglpk/src/glplpx05.c | 882 ------ Rglpk-0.2-6/Rglpk/src/glplpx06.c | 1344 ++++++---- Rglpk-0.2-6/Rglpk/src/glplpx07.c | 1295 +++++---- Rglpk-0.2-6/Rglpk/src/glplpx08.c | 660 ++++ Rglpk-0.2-6/Rglpk/src/glplpx09.c | 966 +------ Rglpk-0.2-6/Rglpk/src/glpmat.c | 2 Rglpk-0.2-6/Rglpk/src/glpmat.h | 2 Rglpk-0.2-6/Rglpk/src/glpmpl01.c | 29 Rglpk-0.2-6/Rglpk/src/glpmpl03.c | 6 Rglpk-0.2-6/Rglpk/src/glpmpl04.c | 4 Rglpk-0.2-6/Rglpk/src/glpmpl05.c | 13 Rglpk-0.2-6/Rglpk/src/glpmps.h |only Rglpk-0.2-6/Rglpk/src/glpmps01.c |only Rglpk-0.2-6/Rglpk/src/glpmps02.c |only Rglpk-0.2-6/Rglpk/src/glpscl.c |only Rglpk-0.2-6/Rglpk/src/glpscl.h |only Rglpk-0.2-6/Rglpk/src/glpspx.h | 382 -- Rglpk-0.2-6/Rglpk/src/glpspx01.c | 4654 ++++++++++++++++++++--------------- Rglpk-0.2-6/Rglpk/src/glpspx02.c | 4024 +++++++++++++++++++++--------- Rglpk-0.2-6/Rglpk/src/glpsql.c | 115 Rglpk-0.2-6/Rglpk/work |only 84 files changed, 14595 insertions(+), 14374 deletions(-)
Author: Adrian Baddeley
Diff between spatstat versions 1.14-6 dated 2008-11-07 and 1.14-7 dated 2008-11-17
Title: Spatial Point Pattern analysis, model-fitting, simulation, tests
Description: A package for analysing spatial data,
mainly Spatial Point Patterns, including multitype/marked points
and spatial covariates, in any two-dimensional spatial region.
Contains functions for plotting spatial data,
exploratory data analysis, model-fitting, simulation,
spatial sampling, model diagnostics,
and formal inference. Data types include point patterns,
line segment patterns, spatial windows, and
pixel images. Point process models can be
fitted to point pattern data. Cluster type models are fitted
by the method of minimum contrast. Very general Gibbs point
process models can be fitted to point pattern data
using a function ppm similar to lm or glm. Models may
include dependence on covariates, interpoint interaction
and dependence on marks. Fitted models can be simulated automatically.
Also provides facilities for formal inference (such as chi-squared
tests) and model diagnostics (including simulation
envelopes, residuals, residual plots and Q-Q plots).
DESCRIPTION | 26 +++++-----
INDEX | 2
R/density.ppp.R | 12 ++++-
R/diagnoseppm.R | 12 ++---
R/distbdry.S | 124 +++++++++++++++++++++++++++++++---------------------
R/resid4plot.R | 16 ++++--
demo/spatstat.R | 26 ++++++++++
inst/ratfor/dppll.r | 2
man/00spatstat.Rd | 5 ++
man/closing.owin.Rd |only
man/dilate.owin.Rd | 11 +++-
man/erode.owin.Rd | 20 +++++++-
man/internal.Rd | 2
man/opening.owin.Rd |only
src/dppll.f | 2
tests/ppmBadData.R | 3 +
tests/segments.R | 11 ++++
17 files changed, 190 insertions(+), 84 deletions(-)
Author: Luc Wouters
Diff between mpm versions 1.0-11 dated 2008-08-26 and 1.0-12 dated 2008-11-17
Title: Multivariate Projection Methods
Description: Exploratory graphical analysis of multivariate data,
specifically gene expression data with different projection
methods: principal component analysis, correspondence
analysis, spectral map analysis.
mpm-1.0-11/mpm/NEWS |only
mpm-1.0-11/mpm/R/dump.summary.R |only
mpm-1.0-12/mpm/DESCRIPTION | 6 ++---
mpm-1.0-12/mpm/NAMESPACE |only
mpm-1.0-12/mpm/R/plot.mpm.R | 43 +++++++++++++++++++++++++---------------
mpm-1.0-12/mpm/R/zzz.R |only
mpm-1.0-12/mpm/inst/NEWS | 5 ++++
mpm-1.0-12/mpm/man/Golub.Rd | 9 +++++---
mpm-1.0-12/mpm/tests |only
9 files changed, 41 insertions(+), 22 deletions(-)
Author: Dimitris Rizopoulos
Diff between ltm versions 0.8-6 dated 2008-09-15 and 0.8-7 dated 2008-11-17
Title: Latent Trait Models under IRT
Description: Analysis of multivariate dichotomous and polytomous data using latent trait models under the Item Response Theory approach. It includes the Rasch, the Two-Parameter Logistic, the Birnbaum's Three-Parameter, and the Graded Response Models.
DESCRIPTION | 6 +++---
R/onAttach.R | 2 +-
R/plot.descript.R | 3 ++-
data/Abortion.rda |binary
data/Environment.rda |binary
data/LSAT.rda |binary
data/Mobility.rda |binary
data/Science.rda |binary
data/WIRS.rda |binary
man/ltm-package.Rd | 4 ++--
10 files changed, 8 insertions(+), 7 deletions(-)
Author: Rainer Opgen-Rhein and Korbinian Strimmer.
Title: Analysis of Multiple Time Course Data
Description: This package contains general data structures and
functions for longitudinal data with multiple variables,
repeated measurements, and irregularly spaced time points.
It also implements a shrinkage estimator of dynamical correlation
and dynamical covariance.
Diff between longitudinal versions 1.1.3 dated 2006-08-11 and 1.1.4 dated 2008-11-17
CHANGES |only DESCRIPTION | 14 +++---- R/dyn.cor.R | 56 +++++++++++++++--------------- R/dyn.scale.R | 38 ++++++++++---------- R/longitudinal.R | 52 +++++++++++++-------------- R/longitudinal.util.R | 82 ++++++++++++++++++++++---------------------- man/dyn.cor.Rd | 36 +++++++++---------- man/dyn.scale.Rd | 8 +--- man/longitudinal.Rd | 6 +-- man/longitudinal.package.Rd |only 10 files changed, 143 insertions(+), 149 deletions(-)
Author: Marcus G. Daniels mdaniels@lanl.gov
Title: HDF5
Description: Interface to the NCSA HDF5 library
Diff between hdf5 versions 1.6.7 dated 2008-06-16 and 1.6.8 dated 2008-11-17
ChangeLog | 4 ++++ DESCRIPTION | 2 +- config.log |only config.status |only src/ChangeLog | 8 ++++++++ src/Makevars | 4 ++-- src/hdf5.c | 7 +++---- 7 files changed, 18 insertions(+), 7 deletions(-)
Author: Paul Murrell and Richard Walton.
Title: Importing Vector Graphics
Description: Functions for converting, importing, and drawing PostScript
pictures in R plots.
Diff between grImport versions 0.3-1 dated 2008-08-01 and 0.4 dated 2008-11-17
DESCRIPTION | 5 +-- R/PostScript2RGML.R | 72 +++++++++++++++++++++++++++++++++++-------------- R/RGML2picture.R | 28 ++++++++++++------- R/picture2grid.R | 4 ++ inst/doc/changes.txt | 20 +++++++++++++ inst/doc/todo.txt |only inst/dtd |only man/PostScriptTrace.Rd | 5 ++- man/picturePaths.Rd | 3 +- tests/testpage.R | 2 + 10 files changed, 103 insertions(+), 36 deletions(-)
Author: John Verzani
Title: Toolkit implementation of gWidgets for tcltk package
Description: Port of gWidgets API to the tcltk package. Requires TK 8.5 or greater for the tile (ttk)widgets http://www.tcl.tk/software/tcltk/8.5.tml. This is default on Windows. Under linux, it must be installed. Under Mac OS X (10.5) it must be upgraded. See www.tcl.tk to download source. Under the Mac it compiles and installs cleanly.
Diff between gWidgetstcltk versions 0.0-20 dated 2008-10-13 and 0.0-21 dated 2008-11-17
DESCRIPTION | 4 +- R/aaaGenerics.R | 60 ++++++++++++++++++++++++++++--- R/aaaHandlers.R | 9 ++-- R/common.R | 7 +++ R/gaction.R |only R/gbutton.R | 48 +++++++++++++++++++++++- R/gcheckbox.R | 31 +++++++++------- R/gcheckboxgroup.R | 11 +---- R/gdialogs.R | 28 ++++++++------ R/gdroplist.R | 26 +++++++++---- R/gexpandgroup.R | 2 - R/gframe.R | 3 + R/ggraphics.R | 5 ++ R/ggraphicsnotebook.R | 1 R/gmenu.R | 73 ++++++++++++++++++++++++++++---------- R/gpanedgroup.R | 3 + R/gradio.R | 2 - R/gseparator.R | 8 ++++ R/gslider.R | 9 ++++ R/gspinbutton.R | 46 ++++++++++++++++++++++- R/gtable.R | 5 ++ R/gtext.R | 4 +- R/gtoolbar.R | 31 +++++++++++++--- R/gwindow.R | 2 - R/tcltkFuns.R | 4 +- man/gWidgetstcltk-package.Rd | 13 +++++- man/gWidgetstcltk-undocumented.Rd | 12 ++++++ tests/RunTests.R | 1 28 files changed, 352 insertions(+), 96 deletions(-)
Author: John Verzani
Title: Toolkit implementation of gWidgets for rJava
Description: Port of gWidgets API to the rJava interface between R and Java.
Diff between gWidgetsrJava versions 0.0-13 dated 2008-07-20 and 0.0-14 dated 2008-11-17
gWidgetsrJava-0.0-13/gWidgetsrJava/R/gcommandline.R |only gWidgetsrJava-0.0-14/gWidgetsrJava/DESCRIPTION | 6 gWidgetsrJava-0.0-14/gWidgetsrJava/NAMESPACE | 32 ++-- gWidgetsrJava-0.0-14/gWidgetsrJava/R/aaaGenerics.R | 77 +++++++++ gWidgetsrJava-0.0-14/gWidgetsrJava/R/aaaHandlers.R | 4 gWidgetsrJava-0.0-14/gWidgetsrJava/R/aabClasses.R | 2 gWidgetsrJava-0.0-14/gWidgetsrJava/R/gaction.R |only gWidgetsrJava-0.0-14/gWidgetsrJava/R/gbutton.R | 34 ++++ gWidgetsrJava-0.0-14/gWidgetsrJava/R/gcalendar.R | 2 gWidgetsrJava-0.0-14/gWidgetsrJava/R/gcheckbox.R | 2 gWidgetsrJava-0.0-14/gWidgetsrJava/R/gcheckboxgroup.R | 2 gWidgetsrJava-0.0-14/gWidgetsrJava/R/gdfnotebook.R | 2 gWidgetsrJava-0.0-14/gWidgetsrJava/R/gdialogs.R | 44 +++-- gWidgetsrJava-0.0-14/gWidgetsrJava/R/gdroplist.R | 29 ++- gWidgetsrJava-0.0-14/gWidgetsrJava/R/gedit.R | 4 gWidgetsrJava-0.0-14/gWidgetsrJava/R/gexpandgroup.R | 3 gWidgetsrJava-0.0-14/gWidgetsrJava/R/gfile.R | 2 gWidgetsrJava-0.0-14/gWidgetsrJava/R/gframe.R | 28 +++ gWidgetsrJava-0.0-14/gWidgetsrJava/R/ggraphics.R | 11 + gWidgetsrJava-0.0-14/gWidgetsrJava/R/ghtml.R |only gWidgetsrJava-0.0-14/gWidgetsrJava/R/gimage.R | 7 gWidgetsrJava-0.0-14/gWidgetsrJava/R/glabel.R | 2 gWidgetsrJava-0.0-14/gWidgetsrJava/R/glayout.R | 12 + gWidgetsrJava-0.0-14/gWidgetsrJava/R/gmenu.R | 62 ++++++- gWidgetsrJava-0.0-14/gWidgetsrJava/R/gnotebook.R | 9 + gWidgetsrJava-0.0-14/gWidgetsrJava/R/gpanedgroup.R | 39 +++-- gWidgetsrJava-0.0-14/gWidgetsrJava/R/gradio.R | 2 gWidgetsrJava-0.0-14/gWidgetsrJava/R/gslider.R | 2 gWidgetsrJava-0.0-14/gWidgetsrJava/R/gspinbutton.R | 2 gWidgetsrJava-0.0-14/gWidgetsrJava/R/gstatusbar.R | 43 ++++- gWidgetsrJava-0.0-14/gWidgetsrJava/R/gtable.R | 10 - gWidgetsrJava-0.0-14/gWidgetsrJava/R/gtext.R | 4 gWidgetsrJava-0.0-14/gWidgetsrJava/R/gtoolbar.R | 52 ++++++ gWidgetsrJava-0.0-14/gWidgetsrJava/R/gwindow.R | 26 ++- gWidgetsrJava-0.0-14/gWidgetsrJava/R/rJavaStuff.R | 14 + gWidgetsrJava-0.0-14/gWidgetsrJava/inst/java/gWidgetsrJava.jar |binary gWidgetsrJava-0.0-14/gWidgetsrJava/inst/java/gWidgetsrJava/gDialog.class |binary gWidgetsrJava-0.0-14/gWidgetsrJava/inst/java/gWidgetsrJava/gDialog.java | 8 - gWidgetsrJava-0.0-14/gWidgetsrJava/inst/java/gWidgetsrJava/gExpandGroup.class |binary gWidgetsrJava-0.0-14/gWidgetsrJava/inst/java/gWidgetsrJava/gExpandGroup.java | 4 gWidgetsrJava-0.0-14/gWidgetsrJava/inst/java/gWidgetsrJava/gTable$StringTransferHandler.class |binary gWidgetsrJava-0.0-14/gWidgetsrJava/inst/java/gWidgetsrJava/gTable$TableTransferHandler.class |binary gWidgetsrJava-0.0-14/gWidgetsrJava/inst/java/gWidgetsrJava/gTable$myTableModel.class |binary gWidgetsrJava-0.0-14/gWidgetsrJava/inst/java/gWidgetsrJava/gTable.class |binary gWidgetsrJava-0.0-14/gWidgetsrJava/inst/java/gWidgetsrJava/gTable.java | 5 gWidgetsrJava-0.0-14/gWidgetsrJava/man/gWidgetsrJava-package.Rd | 18 +- gWidgetsrJava-0.0-14/gWidgetsrJava/man/gWidgetsrJava-undocumented.Rd | 78 +++++++++- 47 files changed, 542 insertions(+), 141 deletions(-)
Author: Michael Lawrence, John Verzani
Title: Toolkit implementation of gWidgets for RGtk2
Description: Port of gWidgets API to RGtk2
Diff between gWidgetsRGtk2 versions 0.0-46 dated 2008-10-30 and 0.0-47 dated 2008-11-17
DESCRIPTION | 6 +-- NAMESPACE | 15 ++++----- NEWS | 8 ++++ R/aaaGenerics.R | 30 +++++++++++++++++- R/gaction.R |only R/gbutton.R | 53 ++++++++++++++++++++++++++++++++ R/gcommandline.R | 2 - R/gdialogs.R | 8 ++-- R/gexpandgroup.R | 2 - R/ggrid.R | 8 ++-- R/ggroup.R | 1 R/glabel.R | 2 - R/gmenu.R | 13 ++++++- R/gnotebook.R | 2 - R/gtkStuff.R | 2 - R/gtoolbar.R | 62 +++++++++++++++++++++++++++++++++++++- R/gvarbrowser.R | 2 - man/gWidgetsRGtk2-package.Rd | 14 ++++++++ man/gWidgetsRGtk2-undocumented.Rd | 26 +++++++++++++++ 19 files changed, 227 insertions(+), 29 deletions(-)
Author: John Verzani. Based on the iwidgets code of Simon Urbanek and suggestions by Simon Urbanek, Philippe Grosjean and Michael Lawrence
Title: gWidgets API for building toolkit-independent, interactive GUIs
Description: gWidgets provides a toolkit-independent API for building interactive GUIs. Atleast one of the gWidgetsXXX packages, such as gWidgetstcltk, needs to be installed. Some icons are on loan from the scigraphica project http://scigraphica.sourceforge.net.
Diff between gWidgets versions 0.0-30 dated 2008-10-13 and 0.0-31 dated 2008-11-17
gWidgets-0.0-30/gWidgets/inst/doc/.build.timestamp |only gWidgets-0.0-30/gWidgets/inst/tests/test-window.R |only gWidgets-0.0-31/gWidgets/ChangeLog | 4 gWidgets-0.0-31/gWidgets/DESCRIPTION | 6 gWidgets-0.0-31/gWidgets/NAMESPACE | 8 gWidgets-0.0-31/gWidgets/R/aaaGenerics.R | 37 gWidgets-0.0-31/gWidgets/R/gcommandline.R | 4 gWidgets-0.0-31/gWidgets/R/gformlayout.R |only gWidgets-0.0-31/gWidgets/R/ggenericwidget.R | 10 gWidgets-0.0-31/gWidgets/R/icons.R | 6 gWidgets-0.0-31/gWidgets/R/zzz.R | 38 gWidgets-0.0-31/gWidgets/TODO.txt | 24 gWidgets-0.0-31/gWidgets/inst/doc/addingToolkit.pdf |binary gWidgets-0.0-31/gWidgets/inst/doc/gWidgets.Rnw | 9 gWidgets-0.0-31/gWidgets/inst/doc/gWidgets.pdf | 1157 +++++------ gWidgets-0.0-31/gWidgets/inst/tests/ex-containers.R |only gWidgets-0.0-31/gWidgets/inst/tests/ex-gbutton.R |only gWidgets-0.0-31/gWidgets/inst/tests/ex-gcheckbox.R |only gWidgets-0.0-31/gWidgets/inst/tests/ex-gcheckboxgroup.R |only gWidgets-0.0-31/gWidgets/inst/tests/ex-gcombobox.R |only gWidgets-0.0-31/gWidgets/inst/tests/ex-gdialogs.R |only gWidgets-0.0-31/gWidgets/inst/tests/ex-gedit-gtext.R |only gWidgets-0.0-31/gWidgets/inst/tests/ex-gformlayout.R |only gWidgets-0.0-31/gWidgets/inst/tests/ex-glabel.R |only gWidgets-0.0-31/gWidgets/inst/tests/ex-gslider-gspinbutton.R |only gWidgets-0.0-31/gWidgets/inst/tests/ex-gtable.R |only gWidgets-0.0-31/gWidgets/inst/tests/ex-gwindow.R |only gWidgets-0.0-31/gWidgets/man/gWidgets-methods.Rd | 5 gWidgets-0.0-31/gWidgets/man/gbutton.Rd | 16 gWidgets-0.0-31/gWidgets/man/gmenu.Rd | 95 gWidgets-0.0-31/gWidgets/man/gtable.Rd | 8 gWidgets-0.0-31/gWidgets/man/guiWidget-class.Rd | 1 32 files changed, 801 insertions(+), 627 deletions(-)
Author: Juliane Schaefer, Rainer Opgen-Rhein, and Korbinian Strimmer.
Title: Efficient Estimation of Covariance and (Partial) Correlation
Description: This package implements an analytic shrinkage approach
for inferring the covariance matrix. The estimator is statistically
highly accurate and efficient, applicable to "small n, large p" data,
and always returns a positive definite and well-conditioned matrix.
Nevertheless, this method requires only little a priori modeling and is
computationally cheap. In addition to covariance estimation the
package contains similar functions for inferring variances, correlations,
partial correlations, partial variances, and regression coefficients.
Furthermore, it provides functions for fast SVD computation, for computing
the pseudoinverse, for checking the rank and positive definiteness of a
matrix, and for the computationally fast inversion of the covariance
and correlation matrix.
Diff between corpcor versions 1.4.7 dated 2007-10-21 and 1.4.8 dated 2008-11-17
CHANGES | 10 + DESCRIPTION | 10 - R/cov.shrink.R | 108 ++++++++---------- R/fast.svd.R | 50 ++++---- R/mvr.shrink.R | 79 ++++++------- R/partial.R | 46 +++---- R/pseudoinverse.R | 6 - R/rank.condition.R | 48 ++++---- R/rebuild.cov.R | 32 ++--- R/shrink.internal.R | 287 +++++++++++++++++------------------------------- R/smtools.R | 48 ++++---- R/wt.scale.R | 62 ++++------ R/zzz.R | 4 man/corpcor-internal.Rd | 5 man/corpcor.package.Rd |only man/cov.shrink.Rd | 33 ++--- man/invcov.shrink.Rd | 19 +-- man/mvr.shrink.Rd | 12 -- man/pcor.shrink.Rd | 14 +- man/wt.scale.Rd | 5 src/lambda.c | 2 21 files changed, 391 insertions(+), 489 deletions(-)
Author: Micah Altman, Jeff Gill, Michael P. McDonald
Title: Tools for testing and improving accuracy of statistical results.
Description: This is a suite of tools designed to test and improve the accuracy of
statistical computation, including: Summarization of the sensitivity of linear
and non-linear models (lm, glm, mle, nls) to
measurement and numerical error; Sensitivity analysis of dozens of models
as run through Zelig; A generalized cholesky method for
correcting non-invertable Hessians; Tests for
the global optimality of non-linear regression and maximum likelihood results;
Tools for obtaining true random numbers using entropy collected from the system
and/or entropy servers on the internet;
A method for converting floating point numbers to normalized fractions;
Benchmark data for checking the accuracy of basic distribution functions.
Diff between accuracy versions 1.29 dated 2007-12-08 and 1.31 dated 2008-11-17
accuracy-1.29/accuracy/inst/doc/Rplots.ps |only accuracy-1.31/accuracy/CHANGELOG | 4 accuracy-1.31/accuracy/DESCRIPTION | 6 accuracy-1.31/accuracy/R/html.R | 10 accuracy-1.31/accuracy/R/pzelig.R | 6 accuracy-1.31/accuracy/inst/CITATION | 6 accuracy-1.31/accuracy/inst/doc/Rplots.pdf |only accuracy-1.31/accuracy/inst/doc/Sweave.sty |only accuracy-1.31/accuracy/inst/doc/accuracy_vignette-plot1a.eps | 439 ++-- accuracy-1.31/accuracy/inst/doc/accuracy_vignette-plot1a.pdf | 703 ++++--- accuracy-1.31/accuracy/inst/doc/accuracy_vignette-plot2a.eps | 608 +++--- accuracy-1.31/accuracy/inst/doc/accuracy_vignette-plot2a.pdf | 1061 +++++------ accuracy-1.31/accuracy/inst/doc/accuracy_vignette.Rnw | 20 accuracy-1.31/accuracy/inst/doc/accuracy_vignette.aux | 30 accuracy-1.31/accuracy/inst/doc/accuracy_vignette.log | 92 accuracy-1.31/accuracy/inst/doc/accuracy_vignette.pdf |binary accuracy-1.31/accuracy/inst/doc/accuracy_vignette.tex | 95 accuracy-1.31/accuracy/man/pzelig.Rd | 17 18 files changed, 1741 insertions(+), 1356 deletions(-)
Author: Damian W. Betebenner
Diff between SGP versions 0.0-1 dated 2008-10-17 and 0.0-2 dated 2008-11-17
Title: Student Growth Percentile and Percentile Growth Projection/Trajectory Functions
Description: Functions to calculate growth percentiles and percentile growth projections/trajectories for students using large scale,
longitudinal assessment data. Functions use quantile regression to estimate the conditional density associated
with each students achievement history. Percentile growth projections/trajectories are calculated using the coefficient matrices derived from
the quantile regression analyses and specify what percentile growth is required for students to reach future achievement targets.
CITATION | 8 +-
DESCRIPTION | 17 ++--
NEWS | 12 +++
R/studentGrowthPercentiles.R | 9 +-
R/studentGrowthProjections.R | 137 +++++++++++++++++++++++++++++-----------
man/SGP-package.Rd | 8 +-
man/sgpData.Rd | 4 -
man/studentGrowthPercentiles.Rd | 19 +++--
man/studentGrowthProjections.Rd | 76 +++++++++++++---------
9 files changed, 195 insertions(+), 95 deletions(-)
Author: Richard M. Heiberger, with contributions from Burt Holland.
Title: Rcmdr support for the HH package
Description: Rcmdr menu support for many of the functions in the HH package.
The focus is on menu items for functions we use in our introductory courses.
Diff between RcmdrPlugin.HH versions 1.1-15 dated 2008-08-01 and 1.1-16 dated 2008-11-17
RcmdrPlugin.HH-1.1-15/RcmdrPlugin.HH/R/HH_regsubsets.R |only RcmdrPlugin.HH-1.1-15/RcmdrPlugin.HH/R/lm.regsubsets.R |only RcmdrPlugin.HH-1.1-15/RcmdrPlugin.HH/man/HH_regsubsets.Rd |only RcmdrPlugin.HH-1.1-15/RcmdrPlugin.HH/man/lm.regsubsets.Rd |only RcmdrPlugin.HH-1.1-16/RcmdrPlugin.HH/DESCRIPTION | 8 ++++---- 5 files changed, 4 insertions(+), 4 deletions(-)
More information about RcmdrPlugin.HH at CRAN
Permanent link
Author: Bjoern Bornkamp, Jose Pinheiro and Frank Bretz
Title: Design and Analysis of Dose-Finding Studies
Description: This package implements a methodology for the design and analysis of
dose-response studies that combines aspects of multiple comparison procedures
and modeling approaches (Bretz, Pinheiro and Branson, 2005, Biometrics 61, 738-748).
The package provides tools for the analysis of dose finding trials as well as a variety
of tools necessary to plan a trial to be conducted with the MCPMod methodology.
Diff between MCPMod versions 0.1-4 dated 2008-07-11 and 0.1-5 dated 2008-11-17
ChangeLog | 14 +++++++++++--- DESCRIPTION | 6 +++--- R/planMCPMod.R | 14 +++++++------- man/fullMod.Rd | 2 +- 4 files changed, 22 insertions(+), 14 deletions(-)
Author: Richard M. Heiberger
Title: Statistical Analysis and Data Display: Heiberger and Holland
Description: Support software for Statistical Analysis and Data
Display (Springer, ISBN 0-387-40270-5). This contemporary
presentation of statistical methods features extensive use of
graphical displays for exploring data and for displaying the
analysis. The authors demonstrate how to analyze data---showing
code, graphics, and accompanying computer listings---for all the
methods they cover. They emphasize how to construct and
interpret graphs, discuss principles of graphical design, and
show how accompanying traditional tabular results are used to
confirm the visual impressions derived directly from the
graphs. Many of the graphical formats are novel and appear
here for the first time in print. All chapters have exercises.
Diff between HH versions 2.1-15 dated 2008-08-01 and 2.1-16 dated 2008-11-17
DESCRIPTION | 8 ++-- R/HH_regsubsets.R |only R/ae.dotplot.R | 67 +++++++++++++++++++++++++++++++++++++++-- R/cp.R |only R/lm.regsubsets.R |only R/norm.curve.R | 17 ++++++---- R/vif.R | 28 +++++++++-------- man/HH_regsubsets.Rd |only man/ae.dotplot.Rd | 83 +++++++++++++++++++++++++++++++++++++++------------ man/cp.Rd |only man/lm.regsubsets.Rd |only man/vif.Rd | 12 +++---- 12 files changed, 163 insertions(+), 52 deletions(-)
Author: Juliane Schaefer, Rainer Opgen-Rhein, and
Korbinian Strimmer.
Title: Modeling and Inferring Gene Networks
Description: GeneNet is a package for analyzing gene expression
(time series) data with focus on the inference of gene networks.
In particular, GeneNet implements the methods of Schaefer and
Strimmer (2005a,b,c) and Opgen-Rhein and Strimmer (2006, 2007)
for learning large-scale gene association networks (including
assignment of putative directions).
Diff between GeneNet versions 1.2.2 dated 2008-08-18 and 1.2.3 dated 2008-11-17
CHANGES | 5 ++ DESCRIPTION | 14 ++++---- R/cor0.test.R | 18 +++++----- R/extract.network.R | 44 ++++++++++++------------- R/ggm.make.dot.R | 10 ++--- R/ggm.simulate.data.R | 18 +++++----- R/ggm.simulate.pcor.R | 26 +++++++-------- R/ggm.test.edges.R | 80 +++++++++++++++++++++++------------------------ R/kappa2n.R | 6 +-- R/z.transform.R | 8 ++-- man/GeneNet.package.Rd |only man/cor0.test.Rd | 2 - man/ggm.estimate.pcor.Rd | 8 ++-- man/ggm.make.graph.Rd | 4 +- man/ggm.simulate.data.Rd | 4 +- man/ggm.simulate.pcor.Rd | 6 +-- man/ggm.test.edges.Rd | 8 ++-- man/kappa2n.Rd | 2 - 18 files changed, 134 insertions(+), 129 deletions(-)
Author: Stefan Evert
Diff between zipfR versions 0.6-0 dated 2006-08-23 and 0.6-5 dated 2008-11-16
Title: Statistical models for word frequency distributions
Description: Statistical models and utilities for the analysis of word frequency distributions.
The utilities include functions for loading, manipulating and visualizing word frequency
data and vocabulary growth curves. The package also implements several statistical
models for the distribution of word frequencies in a population. (The name of this library
derives from the most famous word frequency distribution, Zipf's law.)
CHANGES | 16 ++++++++++++++++
DESCRIPTION | 17 +++++++++--------
NAMESPACE | 1 +
R/lnre.R | 1 -
R/lnre_spc.R | 3 ++-
R/plot_spc.R | 12 ++++++------
R/read_multiple_objects.R |only
R/read_vgc.R | 5 +++--
R/spc.R | 6 ++++--
R/vgc.R | 20 +++++++++++++-------
R/zipfR_plotutils.R | 2 +-
man/lnre_spc.Rd | 5 +++--
man/plot_spc.Rd | 17 ++++++++++-------
man/read_multiple_objects.Rd |only
man/sample_tfl.Rd | 2 --
man/spc.Rd | 1 +
man/vgc.Rd | 8 +++++++-
man/zipfR_package.Rd | 5 +++--
18 files changed, 79 insertions(+), 42 deletions(-)
Author: Nicholas Vinen
Title: Uncompress
Description: This R Add-On provides the function uncompress(raw) for
decompressing .Z files. It returns the decompressed data as a raw
(binary) string. The compressed data is passed in in the same format. It
returns NULL if the input data is invalid.
Diff between uncompress versions 1.3 dated 2008-07-05 and 1.31 dated 2008-11-16
DESCRIPTION | 6 +++--- src/uncompress.c | 48 ++++++++++++++++++++++++++++++++++++------------ 2 files changed, 39 insertions(+), 15 deletions(-)
More information about powerGWASinteraction at CRAN
Permanent link
Author: Felix Andrews
Diff between playwith versions 0.9-42 dated 2008-11-14 and 0.9-43 dated 2008-11-16
Title: A GUI for interactive plots using GTK+
Description: A GTK+ graphical user interface for editing and interacting with R plots.
DESCRIPTION | 6 +++---
R/playwith.R | 3 +--
demo/clusterApp.R | 2 +-
inst/NEWS | 4 ++++
4 files changed, 9 insertions(+), 6 deletions(-)
Author: Delia Bailey
Diff between pcse versions 1.5 dated 2007-09-05 and 1.6 dated 2008-11-16
Title: Panel-Corrected Standard Error Estimation in R
Description: This package contains a function to estimate panel-corrected standard errors. Data may contain balanced or unbalanced panels.
DESCRIPTION | 4 ++--
R/pcse.R | 4 ++--
2 files changed, 4 insertions(+), 4 deletions(-)
Author: Matthias Templ, Andreas Alfons
Title: Visualization and Imputation of Missing Values
Description: This package introduces new tools for the visualization of missing values in R, which can be used for exploring the data and the structure of the missing values. Depending on this structure, they may help to identify the mechanism generating the missings. A graphical user interface allows an easy handling of the implemented plot methods.
Diff between VIM versions 1.2.2 dated 2008-10-27 and 1.2.3 dated 2008-11-16
DESCRIPTION | 6 ++-- R/vmGUImenu.R | 72 +++++++++++++++++++++++++++++++++++------------------ man/VIM-package.Rd | 4 +- 3 files changed, 53 insertions(+), 29 deletions(-)
Author: Kim-Anh Le Cao and Patrick Chabrier
Title: Optimal Feature Weighting algorithm
Description: This package implements the stochastic meta algorithm called Optimal Feature Weighting for two multiclass classifiers, CART and SVM
Diff between ofw versions 0.1-3 dated 2008-08-20 and 1.0-0 dated 2008-11-16
ofw-0.1-3/ofw/inst/citation |only ofw-1.0-0/ofw/DESCRIPTION | 8 ++++---- ofw-1.0-0/ofw/R/evaluate.learn.R | 3 --- ofw-1.0-0/ofw/R/evaluateCART.learnCART.R | 13 ++++++------- ofw-1.0-0/ofw/R/evaluateCARTparallel.R | 14 +++++++------- ofw-1.0-0/ofw/R/evaluateSVM.learnSVM.R | 20 ++++++++++---------- ofw-1.0-0/ofw/R/learnCART.default.R | 12 ++++++------ ofw-1.0-0/ofw/R/learnSVM.default.R | 12 ++++++------ ofw-1.0-0/ofw/R/ofwCART.default.R | 3 +-- ofw-1.0-0/ofw/R/ofwSVM.default.R | 4 ++-- ofw-1.0-0/ofw/R/ofwTune.default.R | 4 ++-- ofw-1.0-0/ofw/R/svmlearn.R | 12 ++++++------ ofw-1.0-0/ofw/inst/CITATION |only ofw-1.0-0/ofw/man/evaluate.learn.Rd | 2 +- ofw-1.0-0/ofw/man/evaluateCARTparallel.Rd | 4 ++-- ofw-1.0-0/ofw/man/ofw.Rd | 2 +- 16 files changed, 54 insertions(+), 59 deletions(-)
Author: Jeremy Stephens
Diff between yaml versions 1.0 dated 2008-03-21 and 1.0.1 dated 2008-11-14
Title: Methods to convert R to YAML and back
Description: This package implements the Syck YAML parser by why (http://www.whytheluckystiff.net/syck) for R. There are also methods to convert R objects into YAML.
.gitignore |only
COPYING | 8 +++---
DESCRIPTION | 8 +++---
R/as.yaml.R | 15 +++++++-----
inst/CHANGELOG |only
inst/THANKS | 3 ++
src/yaml.c | 57 +++++++++++++++++++++++++------------------------
tests/as_yaml_test.R | 9 ++++++-
tests/yaml_load_test.R | 7 ++++++
9 files changed, 65 insertions(+), 42 deletions(-)
Author: Tristen Hayfield
Diff between np versions 0.20-2 dated 2008-11-02 and 0.20-3 dated 2008-11-14
Title: Nonparametric kernel smoothing methods for mixed data types
Description: This package provides a variety of nonparametric (and semiparametric) kernel methods that seamlessly handle a mix of continuous, unordered, and ordered factor data types. We would like to gratefully acknowledge support from the Natural Sciences and Engineering Research Council of Canada (NSERC:www.nserc.ca), the Social Sciences and Humanities Research Council of Canada (SSHRC:www.sshrc.ca), and the Shared Hierarchical Academic Research Computing Network (SHARCNET:www.sharcnet.ca).
CHANGELOG | 10
DESCRIPTION | 6
R/np.plregression.R | 2
R/plregression.R | 10
R/zzz.R | 2
inst/doc/np.pdf | 2196 ++++++++++++++++++++++++++--------------------------
inst/doc/np_faq.pdf | 2154 ++++++++++++++++++++++++++-------------------------
7 files changed, 2212 insertions(+), 2168 deletions(-)
Author: Vinzenz Erhardt
Title: Zero Inflated Generalized Poisson (ZIGP) regression models
Description: Adapt and analyze and compare GP, ZIP and ZIGP regression models
Diff between ZIGP versions 2.6 dated 2008-10-07 and 2.7 dated 2008-11-14
DESCRIPTION | 6 +-- NAMESPACE | 2 - R/clarke.r |only R/mle.zigp.r | 3 - R/vuong.r | 38 +++++++++++++---------- man/ZIGP-package.rd | 15 ++++++--- man/clarke.rd |only man/mle.zigp.rd | 21 +++++++++---- man/vuong.rd | 83 +++++++++++++++++++++++++++++++++------------------- man/wald.test.rd | 27 +++++++++++++++- 10 files changed, 131 insertions(+), 64 deletions(-)
Author: Felix Andrews
Diff between playwith versions 0.9-40 dated 2008-11-04 and 0.9-42 dated 2008-11-14
Title: A GUI for interactive plots using GTK+
Description: A GTK+ graphical user interface for editing and interacting with R plots.
DESCRIPTION | 8 ++++----
R/apiMain.R | 19 +++++++++++++++----
R/playwith.R | 18 +++++++++++-------
R/settings.R | 2 +-
R/uiAnnotationActions.R | 2 +-
R/uiManager.R | 14 ++++++--------
R/uiPlotActions.R | 33 +++++++++++++++++++++++++++++----
R/uiStyleActions.R | 28 +++++++++++++++++-----------
inst/NEWS | 16 +++++++++++++---
inst/etc/ui.menus.xml | 5 +++--
10 files changed, 100 insertions(+), 45 deletions(-)
Author: Felix Andrews
Diff between latticist versions 0.9-41 dated 2008-11-07 and 0.9-42 dated 2008-11-14
Title: A graphical user interface for exploratory visualisation
Description: Latticist provides a graphical user interface for exploratory
visualisation. It is primarily an interface to the Lattice graphics
system, but also produces displays from the vcd package for categorical
data. Given a multivariate dataset (either a data frame or a table),
latticist attempts to produce useful displays based on the properties
of the data. The displays can be customised by editing the calls used to
generate them.
latticist-0.9-41/latticist/demo |only
latticist-0.9-42/latticist/DESCRIPTION | 13 -
latticist-0.9-42/latticist/R/latticistCompose.R | 271 +++++++++++++++++++-----
latticist-0.9-42/latticist/R/options.R | 4
latticist-0.9-42/latticist/inst/NEWS | 11
latticist-0.9-42/latticist/inst/doc |only
latticist-0.9-42/latticist/man/latticist.Rd | 59 +++--
7 files changed, 276 insertions(+), 82 deletions(-)
Author: Roger Koenker
Diff between quantreg versions 4.23 dated 2008-10-12 and 4.24 dated 2008-11-13
Title: Quantile Regression
Description: Quantile regression and related methods.
DESCRIPTION | 6 +++---
R/nlrq.R | 35 +++++++++++++----------------------
R/quantreg.R | 13 ++++++++-----
inst/ChangeLog | 14 ++++++++++++++
inst/doc/Rplots.pdf | 4 ++--
inst/doc/rq.pdf |binary
man/crq.Rd | 5 +++--
man/nlrq.control.Rd | 6 +++++-
man/rq.fit.br.Rd | 2 +-
9 files changed, 49 insertions(+), 36 deletions(-)
Author: Robert B. Gramacy
Diff between monomvn versions 1.4-1 dated 2008-09-22 and 1.5 dated 2008-11-13
Title: Estimation for multivariate normal data with monotone missingness
Description: Estimation of multivariate normal data of arbitrary dimension
where the pattern of missing data is monotone. Through the use of
parsimonious/shrinkage regressions (plsr, pcr, lasso, ridge,
etc.), where standard regressions fail, the package can handle an
(almost) arbitrary amount of missing data. The current version
supports maximum likelihood inference and implementation
of a Bayesian version employing a Bayesian lasso. A fully
functional standalone interface to the Bayesian lasso
(from Park & Casella) and ridge regression with model selection
via Reversible Jump is also provided
ChangeLog | 28 ++
DESCRIPTION | 16 -
INDEX | 22 +-
R/blasso.R | 22 +-
R/blasso.s3.R | 17 +
R/bmonomvn.R | 113 +++++++++-
R/default.QP.R |only
R/monomvn.s3.R | 113 ++++++++++
man/blasso.Rd | 79 ++++---
man/blasso.s3.Rd | 12 -
man/bmonomvn.Rd | 156 ++++++++++----
man/cement.Rd | 6
man/default.QP.Rd |only
man/metrics.Rd | 4
man/monomvn-internal.Rd | 3
man/monomvn-package.Rd | 6
man/monomvn.Rd | 19 -
man/monomvn.s3.Rd | 25 +-
man/plot.monomvn.Rd |only
man/posdef.approx.Rd | 10
man/randmvn.Rd | 30 +-
man/regress.Rd | 13 -
man/rmono.Rd | 5
man/rwish.Rd | 6
src/blasso.cc | 226 ++++++++++++---------
src/blasso.h | 53 ++---
src/bmonomvn.cc | 508 +++++++++++++++++++++++++++++++++++++++++-------
src/bmonomvn.h | 98 +++++++--
src/linalg.c | 4
src/matrix.c | 16 +
src/matrix.h | 1
src/solve.QP.f |only
src/util.f |only
33 files changed, 1217 insertions(+), 394 deletions(-)
Author: Roger Bivand
Title: Interface between GRASS 6 geographical information system and R
Description: Interpreted interface between GRASS 6 geographical
information system and R, based on starting R from within the GRASS
environment.
Diff between spgrass6 versions 0.5-15 dated 2008-10-17 and 0.5-16 dated 2008-11-13
ChangeLog | 18 ++++++++++++++++++ DESCRIPTION | 8 ++++---- R/spgrass6.R | 1 + R/zzz.R | 28 ++++++++++++++++++++++------ inst/CITATION |only inst/ChangeLog | 18 ++++++++++++++++++ man/readRAST6.Rd | 20 ++++++++++---------- man/readVECT6.Rd | 4 ++-- 8 files changed, 75 insertions(+), 22 deletions(-)
Author: Tuomas Rajala
Title: Graphs for spatial point patterns
Description: Graphs, graph visualization and graph component calculations, ment to be used as a tool in
spatial point pattern analysis. See package 'spatstat' for more info about spatial point patterns.
Diff between spatgraphs versions 2.01 dated 2008-08-01 and 2.1 dated 2008-11-13
DESCRIPTION | 6 ++-- R/First.R | 2 - R/adjacency.R | 4 +- R/class.R | 28 +++++++++++++++--- R/clustering.R | 2 + R/mstoperations.R | 9 +++--- R/others.R | 4 +- R/plot.R | 31 ++++++++++---------- R/shortestPath.R |only R/spatgraph.R | 6 ++-- ToAdd.TXT0 | 31 ++++++++++++-------- change.log |only man/spatgraphs-package.Rd | 9 +++--- man/spatgraphs-sg.Rd | 1 man/spatgraphs-shortestPath.Rd |only man/spatgraphs-spatgraph.Rd | 10 ++++++ src/Graph.cpp | 61 ++++++++++++++++++++++++++++++++++------- src/Graph.h | 3 ++ src/Pp.cpp | 4 +- src/Rextras.cpp | 2 - src/clustering.cpp | 8 ++--- 21 files changed, 152 insertions(+), 69 deletions(-)
Author: Kaspar Rufibach
Title: Generate LaTeX tables of descriptive statistics
Description: The functions in this package are especially helpful when writing reports of data analysis using Sweave.
Diff between reporttools versions 1.0 dated 2008-11-04 and 1.0.1 dated 2008-11-13
reporttools-1.0.1/reporttools/CHANGES | 8 ++++++++ reporttools-1.0.1/reporttools/DESCRIPTION | 8 ++++---- reporttools-1.0.1/reporttools/R/NAtoCategory.R | 4 ++-- reporttools-1.0.1/reporttools/R/checkDateSuccession.R | 2 +- reporttools-1.0.1/reporttools/R/displayCI.R |only reporttools-1.0.1/reporttools/R/displayKbyC.R |only reporttools-1.0.1/reporttools/R/tableContinuous.R | 13 ++++++++++--- reporttools-1.0.1/reporttools/R/tableNominal.R | 15 +++++++++++---- reporttools-1.0.1/reporttools/man/checkDateSuccession.Rd | 2 +- reporttools-1.0.1/reporttools/man/displayCI.Rd |only reporttools-1.0.1/reporttools/man/displayKbyC.Rd |only reporttools-1.0.1/reporttools/man/eliminateNA.Rd | 2 +- reporttools-1.0.1/reporttools/man/reporttools-package.Rd | 6 +++--- reporttools-1.0.1/reporttools/man/tableContinuous.Rd | 14 ++++++++------ reporttools-1.0.1/reporttools/man/tableDate.Rd | 2 +- reporttools-1.0.1/reporttools/man/tableNominal.Rd | 9 +++++---- reporttools-1.0/reporttools/R/display2by2.R |only reporttools-1.0/reporttools/man/display2by2.Rd |only 18 files changed, 55 insertions(+), 30 deletions(-)
Author: Maja Pohar Perme
Title: Relative survival regression
Description: Various functions for
regression in relative survival.
Diff between relsurv versions 1.4 dated 2007-10-11 and 1.5 dated 2008-11-13
DESCRIPTION | 6 +++--- R/Rcode.r | 36 ++++++++++++++++++++++++++++++++---- R/rssurvrsadd.r | 2 -- R/survfitrsadd.r | 2 -- man/invtime.Rd | 9 +++++++++ man/joinrate.Rd | 10 ++++++++++ man/plotrszph.Rd | 13 +++++++++++++ man/resid.Rd | 12 ++++++++++++ man/rsadd.Rd | 50 +++++++++++++++++++++++++++++++++++++++----------- man/rsbr.Rd | 10 ++++++++-- man/rsmul.Rd | 34 ++++++++++++++++++++++++++++++---- man/rssurv.Rd | 25 +++++++++++++++++++++++-- man/rstrans.Rd | 33 ++++++++++++++++++++++++++++----- man/rszph.Rd | 10 +++++++--- man/survfitrsadd.rd | 10 ++++++++++ man/transrate.Rd | 6 +++++- man/transratehld.Rd | 7 ++++++- man/transratehmd.Rd | 10 ++++++++++ 18 files changed, 245 insertions(+), 40 deletions(-)
Author: Robin K. S. Hankin
Title: Additive partitions of integers
Description: Additive partitions of integers. Enumerates the
partitions, unequal partitions, and restricted partitions of an
integer; the three corresponding partition functions are also
given. Set partitions are now included.
Diff between partitions versions 1.7-5 dated 2008-08-22 and 1.8-2 dated 2008-11-13
DESCRIPTION | 6 +++--- inst/doc |only 2 files changed, 3 insertions(+), 3 deletions(-)
Author: Torsten Hothorn, Peter Buhlmann, Thomas Kneib, Matthias Schmid and
Benjamin Hofner
Title: Model-Based Boosting
Description: Functional gradient descent algorithms
(boosting) for optimizing general loss functions utilizing
componentwise least squares, either of parametric linear form or
smoothing splines, or regression trees as base learners for fitting
generalized linear, additive and interaction models to potentially
high-dimensional data.
Diff between mboost versions 1.0-3 dated 2008-11-07 and 1.0-4 dated 2008-11-13
mboost-1.0-3/mboost/tests/setup.Rout.save |only mboost-1.0-4/mboost/DESCRIPTION | 5 +-- mboost-1.0-4/mboost/R/family.R | 2 - mboost-1.0-4/mboost/inst/CHANGES | 6 +++ mboost-1.0-4/mboost/inst/doc/SurvivalEnsembles.pdf |binary mboost-1.0-4/mboost/inst/doc/mboost_illustrations.pdf |binary mboost-1.0-4/mboost/tests/bugfixes.R | 26 +++++++++++++++ mboost-1.0-4/mboost/tests/bugfixes.Rout.save | 30 ++++++++++++++++++ 8 files changed, 66 insertions(+), 3 deletions(-)
Author: Nicholas J. Lewin-Koh and Roger Bivand, contributions by Edzer J. Pebesma, Eric Archer, Adrian Baddeley, Stéphane Dray, David Forrest, Patrick Giraudoux, Duncan Golicher, Virgilio Gómez Rubio, Patrick Hausmann, Thomas Jagger, Sebastian P. Luque, Don MacQueen, Andrew Niccolai and Tom Short
Title: Tools for reading and handling spatial objects
Description: Set of tools for manipulating and reading geographic data, in particular ESRI shapefiles; C code used from shapelib. It includes binary access to GSHHS shoreline files. The package also provides interface wrappers for exchanging spatial objects with packages such as PBSmapping, spatstat, maps, RArcInfo, Stata tmap, WinBUGS, Mondrian, and others.
Diff between maptools versions 0.7-15 dated 2008-08-14 and 0.7-16 dated 2008-11-13
ChangeLog | 9 +++++++ DESCRIPTION | 8 +++--- NAMESPACE | 4 ++- R/SP2owin.R | 3 +- R/sp_spat1.R | 3 ++ R/spatstat1.R | 67 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++ inst/ChangeLog | 9 +++++++ man/as.ppp.Rd | 38 ++++++++++++++++++++++++++------ man/ppp.Rd | 1 9 files changed, 129 insertions(+), 13 deletions(-)
Author: Edzer J. Pebesma
Diff between gstat versions 0.9-53 dated 2008-10-30 and 0.9-55 dated 2008-11-13
Title: geostatistical modelling, prediction and simulation
Description: variogram modelling; simple, ordinary and universal point
or block (co)kriging, sequential Gaussian or indicator (co)simulation;
variogram and variogram map plotting utility functions.
DESCRIPTION | 6
R/fit.variogram.R | 4
R/load.variogram.model.R | 6
R/variogram.default.R | 4
inst/ChangeLog | 89
inst/doc/gstat.pdf |29417 +++++++++++++++++++++++------------------------
man/sic97.Rd | 3
man/tull.Rd | 2
man/vgm.panel.Rd | 3
src/s.c | 6
src/vario.c | 5
src/vario.h | 1
src/vario_fn.c | 31
src/vario_fn.h | 1
tests/covtable.Rout.save | 7
tests/fit.Rout.save | 8
tests/merge.Rout.save | 14
tests/sim.Rout.save | 28
18 files changed, 14636 insertions(+), 14999 deletions(-)
Author: Christian Ritz
Diff between drc versions 1.5-1 dated 2008-11-10 and 1.5-2 dated 2008-11-13
Title: Analysis of dose-response curves
Description: Analysis of one or multiple curves with focus on concentration-response, dose-response and time-response curves used, for example in biology, environmental sciences, medicine, pharmacology, toxicology.
DESCRIPTION | 6 +--
R/plot.drc.R | 8 ++--
R/simFct.R | 108 ++++++++++++++++++++++++++++++++++++++---------------------
3 files changed, 77 insertions(+), 45 deletions(-)
Author: Vinzenz Erhardt
Title: Generate correlated count random variables
Description: Generate high-dimensional correlated count random variables with a prespecified Pearson correlation.
Diff between corcounts versions 1.0 dated 2008-11-09 and 1.1 dated 2008-11-13
DESCRIPTION | 6 +++--- R/rcounts.R | 35 ++++++++++++++++++++++++++++++++--- man/corcounts-package.Rd | 4 ++-- man/rcounts.Rd | 20 +++++++++++++++++--- man/unstructured.Rd | 15 +++++++++++++-- 5 files changed, 67 insertions(+), 13 deletions(-)
Author: S original by David James
Diff between chron versions 2.3-24 dated 2008-07-18 and 2.3-25 dated 2008-11-13
Title: Chronological objects which can handle dates and times
Description: Chronological objects which can handle dates and times
ChangeLog | 7 +++++++
DESCRIPTION | 6 +++---
R/dates.R | 7 +++++--
R/utils.R | 18 ++++++++++++++++++
4 files changed, 33 insertions(+), 5 deletions(-)
Author: P. Filzmoser and K. Varmuza
Title: Multivariate Statistical Analysis in Chemometrics
Description: This package is the R companion to the book "Introduction to Multivariate Statistical Analysis in Chemometrics" written by K. Varmuza and P. Filzmoser, CRC Press
Diff between chemometrics versions 0.2 dated 2008-04-24 and 0.4 dated 2008-11-13
DESCRIPTION | 6 - R/mvr_dcv.R | 227 +++++++++++++++++++++++++------------------------------- data/Phenyl.rda |only data/cereal.rda |binary man/Phenyl.Rd |only man/cereal.Rd | 2 man/mvr_dcv.Rd | 5 - 7 files changed, 113 insertions(+), 127 deletions(-)
Author: Marcello D'Orazio
Title: Statistical Matching
Description: This package provides some functions to perform statistical matching between two data sources and to impute missing values in data sets through hot deck methods.
Diff between StatMatch versions 0.4 dated 2008-10-10 and 0.5 dated 2008-11-13
DESCRIPTION | 8 +++--- R/NND.hotdeck.R | 67 +++++++++++++++++++++++++++++---------------------- R/RANDwNND.hotdeck.R | 26 ++++++++++++------- R/gower.dist.R | 43 ++++++++++++-------------------- man/gower.dist.Rd | 2 - 5 files changed, 77 insertions(+), 69 deletions(-)
Author: Dongjun Chung
Diff between spls versions 1.0-1 dated 2008-11-09 and 1.0-2 dated 2008-11-12
Title: Sparse Partial Least Squares (SPLS) Regression
Description: This package provides functions for fitting a Sparse Partial Least Squares Regression
spls-1.0-1/spls/doc |only
spls-1.0-2/spls/DESCRIPTION | 6 +++---
spls-1.0-2/spls/inst |only
3 files changed, 3 insertions(+), 3 deletions(-)
Author: Holger Froehlich
Diff between gene2pathway versions 1.0.2 dated 2008-11-05 and 1.0.3 dated 2008-11-12
Title: Prediction of KEGG pathway membership for individual genes based on InterPro domain signatures
Description: The package takes a list of genes and predicts to which KEGG pathway each gene maps to. This is done by looking at the InterPro domains of each gene. Each prediction is assigned a confidence score. The package also allows to predict connected component membership of genes within signaling pathways. Separate models for each organism supported by KEGG can be trained.
DESCRIPTION | 6 +++---
R/buildTrainingSet.R | 2 +-
R/buildTrainingSet.signaltrans.R | 3 ++-
R/gene2pathway.R | 4 ++--
R/gene2pathway.signaltrans.R | 12 ++++++------
data/classificationModelSignalTrans_dme.rda |binary
data/classificationModelSignalTrans_hsa.rda |binary
data/classificationModel_dme.rda |binary
inst/doc/gene2pathway.pdf |binary
9 files changed, 14 insertions(+), 13 deletions(-)
Author: Corneliu Henegar
Diff between FunNet versions 1.00-4 dated 2008-10-06 and 1.00-5 dated 2008-11-12
Title: Integrative Functional Analysis of Transcriptional Networks
Description: FunNet is an integrative tool for analyzing gene co-expression networks built from
microarray expression data. The analytic model implemented in this library
involves two abstraction layers: transcriptional and functional (biological roles).
A functional profiling technique using Gene Ontology & KEGG annotations is
applied to extract a list of relevant biological themes from
microarray expression profiling data. Afterwards multiple-instance
representations are built to relate significant themes to their
transcriptional instances (i.e. the two layers of the model). An adapted
non-linear dynamical system model is used to quantify the proximity of relevant
genomic themes based on the similarity of the expression profiles of their gene instances.
Eventually an unsupervised multiple-instance clustering procedure, relying on
the two abstraction layers, is used to identify the structure of the co-expression
network composed from modules of functionally related transcripts. Functional
and transcriptional maps of the co-expression network are provided separately
together with detailed information on the network centrality of related transcripts
and genomic themes.
FunNet-1.00-4/FunNet/man/GeneInfo.Rd |only
FunNet-1.00-4/FunNet/man/GeneToUnigene.Rd |only
FunNet-1.00-4/FunNet/man/Kegg.Rd |only
FunNet-1.00-4/FunNet/man/LoadKEGG.Rd |only
FunNet-1.00-4/FunNet/man/MakeCorrespondanceLLGO.Rd |only
FunNet-1.00-4/FunNet/man/MakeGoHierarchy.Rd |only
FunNet-1.00-4/FunNet/man/MakeGoTerms.Rd |only
FunNet-1.00-4/FunNet/man/MakeLocusNames.Rd |only
FunNet-1.00-4/FunNet/man/MiseEnFormeKegg.Rd |only
FunNet-1.00-4/FunNet/man/MiseEnFormeKeggSC.Rd |only
FunNet-1.00-4/FunNet/man/PickHardThreshold.Rd |only
FunNet-1.00-4/FunNet/man/PickSoftThreshold.Rd |only
FunNet-1.00-4/FunNet/man/ScaleFreePlot.Rd |only
FunNet-1.00-4/FunNet/man/SoftConnectivity.Rd |only
FunNet-1.00-4/FunNet/man/TOMdist.Rd |only
FunNet-1.00-4/FunNet/man/TOMdistROW.Rd |only
FunNet-1.00-4/FunNet/man/TOMkdist.Rd |only
FunNet-1.00-4/FunNet/man/TroisiemeFiltrage.Rd |only
FunNet-1.00-4/FunNet/man/annot.citers.rank.Rd |only
FunNet-1.00-4/FunNet/man/annot.list.Rd |only
FunNet-1.00-4/FunNet/man/annot.recovery.Rd |only
FunNet-1.00-4/FunNet/man/annot.robustness.Rd |only
FunNet-1.00-4/FunNet/man/annotate.for.net.Rd |only
FunNet-1.00-4/FunNet/man/annotation.distance.Rd |only
FunNet-1.00-4/FunNet/man/build.coexp.net.Rd |only
FunNet-1.00-4/FunNet/man/central.plot.one.Rd |only
FunNet-1.00-4/FunNet/man/central.plot.two.Rd |only
FunNet-1.00-4/FunNet/man/check.parameters.Rd |only
FunNet-1.00-4/FunNet/man/clusters.plot.Rd |only
FunNet-1.00-4/FunNet/man/cyto.sym.Rd |only
FunNet-1.00-4/FunNet/man/cytoscape.one.Rd |only
FunNet-1.00-4/FunNet/man/cytoscape.two.Rd |only
FunNet-1.00-4/FunNet/man/dynamic.proximity.Rd |only
FunNet-1.00-4/FunNet/man/fdr.adjust.Rd |only
FunNet-1.00-4/FunNet/man/fdr.basic.Rd |only
FunNet-1.00-4/FunNet/man/fdr.master.Rd |only
FunNet-1.00-4/FunNet/man/filter.genes.Rd |only
FunNet-1.00-4/FunNet/man/funnet.version.Rd |only
FunNet-1.00-4/FunNet/man/genes.centrality.Rd |only
FunNet-1.00-4/FunNet/man/goAndLL.Rd |only
FunNet-1.00-4/FunNet/man/hc.cluster.Rd |only
FunNet-1.00-4/FunNet/man/main.loop.Rd |only
FunNet-1.00-4/FunNet/man/normalize.connect.Rd |only
FunNet-1.00-4/FunNet/man/part.distance.Rd |only
FunNet-1.00-4/FunNet/man/presumptive.distance.Rd |only
FunNet-1.00-4/FunNet/man/presumptive.proximity.Rd |only
FunNet-1.00-4/FunNet/man/profil.plot.one.Rd |only
FunNet-1.00-4/FunNet/man/profil.plot.two.Rd |only
FunNet-1.00-4/FunNet/man/prop.alt.Rd |only
FunNet-1.00-4/FunNet/man/pvalues.Rd |only
FunNet-1.00-4/FunNet/man/resmat.Rd |only
FunNet-1.00-4/FunNet/man/sigmoid.Rd |only
FunNet-1.00-4/FunNet/man/signum.Rd |only
FunNet-1.00-4/FunNet/man/sil.h.Rd |only
FunNet-1.00-4/FunNet/man/spectral.cluster.Rd |only
FunNet-1.00-4/FunNet/man/storey.Rd |only
FunNet-1.00-4/FunNet/man/sym.annotation.Rd |only
FunNet-1.00-4/FunNet/man/term.compare.Rd |only
FunNet-1.00-4/FunNet/man/uc.knn.Rd |only
FunNet-1.00-5/FunNet/DESCRIPTION | 6
FunNet-1.00-5/FunNet/R/Annotations.R | 157 +++---
FunNet-1.00-5/FunNet/R/FunNet.R | 501 ++++++++++-----------
FunNet-1.00-5/FunNet/R/sysdata.rda |binary
FunNet-1.00-5/FunNet/copying | 2
FunNet-1.00-5/FunNet/man/Annotations.Rd | 22
FunNet-1.00-5/FunNet/man/FunNet.R-package.Rd | 15
FunNet-1.00-5/FunNet/man/FunNet.Rd | 58 +-
67 files changed, 384 insertions(+), 377 deletions(-)
Author: Ingo Feinerer, with contributions from Christian Buchta, Kurt Hornik, David Meyer, and Fridolin Wild
Title: Text Mining Package
Description: A framework for text mining applications within R.
Diff between tm versions 0.3-1 dated 2008-04-29 and 0.3-2 dated 2008-11-11
tm-0.3-1/tm/man/createDictionary.Rd |only tm-0.3-1/tm/man/tm-internal.Rd |only tm-0.3-2/tm/DESCRIPTION | 11 +-- tm-0.3-2/tm/NAMESPACE | 5 - tm-0.3-2/tm/R/AAA.R |only tm-0.3-2/tm/R/aobjects.R | 2 tm-0.3-2/tm/R/cluster.R |only tm-0.3-2/tm/R/complete.R | 19 +++++- tm-0.3-2/tm/R/dictionary.R | 5 + tm-0.3-2/tm/R/filter.R | 30 +++++++++- tm-0.3-2/tm/R/plot.R | 2 tm-0.3-2/tm/R/reader.R | 36 +++++++++--- tm-0.3-2/tm/R/source.R | 29 ++++++--- tm-0.3-2/tm/R/termdocmatrix.R | 16 ++--- tm-0.3-2/tm/R/textdoccol.R | 96 +++++++++++++++----------------- tm-0.3-2/tm/R/transform.R | 37 +++++++----- tm-0.3-2/tm/R/weight.R | 19 +++--- tm-0.3-2/tm/inst/CITATION | 4 + tm-0.3-2/tm/inst/NEWS |only tm-0.3-2/tm/inst/doc/tm.Rnw | 15 +---- tm-0.3-2/tm/inst/doc/tm.pdf |binary tm-0.3-2/tm/man/CSVSource-class.Rd | 2 tm-0.3-2/tm/man/Dictionary.Rd | 12 +++- tm-0.3-2/tm/man/DirSource-class.Rd | 2 tm-0.3-2/tm/man/GmaneSource-class.Rd | 2 tm-0.3-2/tm/man/ReutersSource-class.Rd | 2 tm-0.3-2/tm/man/Source-class.Rd | 3 + tm-0.3-2/tm/man/TermDocMatrix.Rd | 4 - tm-0.3-2/tm/man/TextDocCol-class.Rd | 12 ++-- tm-0.3-2/tm/man/TextDocCol.Rd | 4 - tm-0.3-2/tm/man/VectorSource-class.Rd | 5 + tm-0.3-2/tm/man/VectorSource.Rd | 5 + tm-0.3-2/tm/man/WeightFunction-class.Rd | 2 tm-0.3-2/tm/man/WeightFunction.Rd | 10 ++- tm-0.3-2/tm/man/activateCluster.Rd |only tm-0.3-2/tm/man/asPlain.Rd | 18 +++--- tm-0.3-2/tm/man/c-methods.Rd | 13 ++++ tm-0.3-2/tm/man/completeStems.Rd | 5 + tm-0.3-2/tm/man/convertRCV1Plain.Rd | 7 +- tm-0.3-2/tm/man/deactivateCluster.Rd |only tm-0.3-2/tm/man/loadDoc.Rd | 3 + tm-0.3-2/tm/man/prescindMeta.Rd | 4 + tm-0.3-2/tm/man/readDOC.Rd | 13 ++-- tm-0.3-2/tm/man/readGmane.Rd | 13 ++-- tm-0.3-2/tm/man/readHTML.Rd | 15 +++-- tm-0.3-2/tm/man/readNewsgroup.Rd | 18 +++--- tm-0.3-2/tm/man/readPDF.Rd | 13 ++-- tm-0.3-2/tm/man/readPlain.Rd | 20 +++++- tm-0.3-2/tm/man/readRCV1.Rd | 15 +++-- tm-0.3-2/tm/man/readReut21578XML.Rd | 21 ++++--- tm-0.3-2/tm/man/removeCitation.Rd | 3 + tm-0.3-2/tm/man/removeMultipart.Rd | 3 + tm-0.3-2/tm/man/removeNumbers.Rd | 3 + tm-0.3-2/tm/man/removePunctuation.Rd | 3 + tm-0.3-2/tm/man/removeSignature.Rd | 3 + tm-0.3-2/tm/man/removeSparseTerms.Rd | 2 tm-0.3-2/tm/man/removeWords.Rd | 7 +- tm-0.3-2/tm/man/replacePatterns.Rd | 8 ++ tm-0.3-2/tm/man/sFilter.Rd | 3 + tm-0.3-2/tm/man/searchFullText.Rd | 3 + tm-0.3-2/tm/man/show-methods.Rd | 11 +-- tm-0.3-2/tm/man/termFreq.Rd | 3 - tm-0.3-2/tm/man/tmFilter-methods.Rd | 15 +++-- tm-0.3-2/tm/man/tmIndex-methods.Rd | 11 ++- tm-0.3-2/tm/man/tmIntersect.Rd | 5 + tm-0.3-2/tm/man/tmMap-methods.Rd | 2 tm-0.3-2/tm/man/weightBin.Rd | 2 tm-0.3-2/tm/man/weightLogical.Rd | 2 tm-0.3-2/tm/man/weightTf.Rd | 2 tm-0.3-2/tm/man/weightTfIdf.Rd | 2 tm-0.3-2/tm/man/writeCorpus-methods.Rd | 4 - 71 files changed, 425 insertions(+), 241 deletions(-)
Author: David Brahm
Diff between sudoku versions 2.0 dated 2006-01-30 and 2.1 dated 2008-11-11
Title: Sudoku Puzzle Generator and Solver
Description: Generates, plays, and solves Sudoku puzzles.
The GUI playSudoku() needs package "tkrplot" if you are not on Windows.
DESCRIPTION | 6 +++---
R/fetchSudokuUK.R | 2 +-
R/playSudoku.R | 4 ++--
3 files changed, 6 insertions(+), 6 deletions(-)
Author: Thomas Scheike with contributions from Torben Martinussen and Jeremy Silver
Title: timereg package
Description: Programs for Martinussen and Scheike (2006), `Dynamic Regression Models for Survival Data', Springer Verlag. Plus more recent developments. Additive survival model, semiparmetric proportional odds model, cumulative residuals, excess risk models and more.
Diff between timereg versions 1.1-1 dated 2008-11-07 and 1.1-2 dated 2008-11-11
DESCRIPTION | 8 - R/new.aalen.r | 15 +- R/new.cox-aalen.r | 18 +-- src/aalen-test.c | 105 +++++++++++-------- src/aalen.c | 235 ++++++++++++++++++++----------------------- src/comprisk.c | 219 ++++++++++++++++++++-------------------- src/cox-aalen.c | 74 +++++++------ src/matrix.c | 294 +++++++++++++++++++++++++++++++++++++++++++----------- src/matrix.h | 2 src/mgresid.c | 80 +++++++------- 10 files changed, 621 insertions(+), 429 deletions(-)
Author: J. O. Ramsay
Diff between fda versions 2.0.3 dated 2008-11-06 and 2.0.4 dated 2008-11-11
Title: Functional Data Analysis
Description: These functions were developed to support
functional data analysis as described in Ramsay, J. O.
and Silverman, B. W. (2005) Functional Data Analysis.
New York: Springer. They were ported from earlier
versions in Matlab and S-PLUS. A manual that describes
the use of these functions is available in this
library. The library also contains a number of the
data sets used in the book along with R code for the
analyses that produced many of the figures in the book.
fda-2.0.3/fda/fda_2.0.2.R.zip |only
fda-2.0.4/fda/DESCRIPTION | 4
fda-2.0.4/fda/NEWS | 5
fda-2.0.4/fda/R/create.bspline.basis.R | 23
fda-2.0.4/fda/R/create.exponential.basis.R | 220 +++-
fda-2.0.4/fda/R/create.monomial.basis.R | 240 ++++-
fda-2.0.4/fda/R/create.polygonal.basis.R | 163 ++-
fda-2.0.4/fda/R/create.polynomial.basis.R | 152 ++-
fda-2.0.4/fda/R/create.power.basis.R | 251 ++++-
fda-2.0.4/fda/R/fRegress.R | 2
fda-2.0.4/fda/R/pda.fd.R | 1155 +++++++++++++++-----------
fda-2.0.4/fda/demo/canadian-weather.R | 55 -
fda-2.0.4/fda/demo/gait.R | 6
fda-2.0.4/fda/demo/goodsindex.R | 6
fda-2.0.4/fda/demo/refinery.R | 326 +++----
fda-2.0.4/fda/demo/weatherlm.R | 6
fda-2.0.4/fda/man/create.basis.Rd | 6
fda-2.0.4/fda/man/create.bspline.basis.Rd | 24
fda-2.0.4/fda/man/create.exponential.basis.Rd | 95 +-
fda-2.0.4/fda/man/create.monomial.basis.Rd | 83 +
fda-2.0.4/fda/man/create.polygonal.basis.Rd | 84 +
fda-2.0.4/fda/man/create.polynomial.basis.Rd | 82 +
fda-2.0.4/fda/man/create.power.basis.Rd | 113 +-
fda-2.0.4/fda/man/pda.fd.Rd | 385 +++++++-
fda-2.0.4/fda/man/smooth.basis.Rd | 15
25 files changed, 2311 insertions(+), 1190 deletions(-)
Author: Steve Su
Title: Fitting Single and Mixture of Generalised Lambda Distributions (RS and FMKL) using Discretised and Maximum Likelihood Methods
Description: The fitting algorithms considered in this package have two major objectives. One is to provide a smoothing device to fit distributions to data using the weight and unweighted discretised approach based on the bin width of the histogram. The other is to provide a definitive fit to the data set using the maximum likelihood estimation. Diagnostics on goodness of fit can be done via qqplots, KS-resample tests and comparing mean, variance, skewness and kurtosis of the data with the fitted distribution.
Diff between GLDEX versions 1.0.2 dated 2008-02-11 and 1.0.3 dated 2008-11-11
GLDEX-1.0.2/GLDEX/src/gld.fm5.fx.c |only GLDEX-1.0.3/GLDEX/DESCRIPTION | 6 GLDEX-1.0.3/GLDEX/NAMESPACE |only GLDEX-1.0.3/GLDEX/R/085A-LowDiscrepancy.R | 251 ++++++++---------- GLDEX-1.0.3/GLDEX/R/dgl.R | 4 GLDEX-1.0.3/GLDEX/R/fun.auto.bimodal.ml.R | 4 GLDEX-1.0.3/GLDEX/R/fun.auto.bimodal.pml.R | 4 GLDEX-1.0.3/GLDEX/R/fun.class.regime.bi.R | 26 + GLDEX-1.0.3/GLDEX/R/fun.fmkl.L30.R |only GLDEX-1.0.3/GLDEX/R/fun.fmkl.L40.R |only GLDEX-1.0.3/GLDEX/R/fun.fmkl0.R |only GLDEX-1.0.3/GLDEX/R/fun.plot.fit.bm.R | 30 +- GLDEX-1.0.3/GLDEX/R/fun.rawmoments.R | 81 ++++- GLDEX-1.0.3/GLDEX/R/fun.theo.mv.gld.R | 106 ++++++- GLDEX-1.0.3/GLDEX/R/gl.check.lambda.alt1.R | 15 - GLDEX-1.0.3/GLDEX/R/hiddenfunctions.R | 50 ++- GLDEX-1.0.3/GLDEX/R/pgl.R | 14 - GLDEX-1.0.3/GLDEX/R/qdgl.R | 10 GLDEX-1.0.3/GLDEX/R/qgl.R | 6 GLDEX-1.0.3/GLDEX/R/qqplot.gld.R | 41 +- GLDEX-1.0.3/GLDEX/R/qqplot.gld.bi.R | 41 +- GLDEX-1.0.3/GLDEX/R/rgl.R | 4 GLDEX-1.0.3/GLDEX/man/085A-LowDiscrepancy.Rd | 30 -- GLDEX-1.0.3/GLDEX/man/FMKLfittingandbasicfunctions.Rd | 3 GLDEX-1.0.3/GLDEX/man/GLDEX.package.Rd | 2 GLDEX-1.0.3/GLDEX/man/GLDfunctions.Rd | 13 GLDEX-1.0.3/GLDEX/man/fun.plot.fit.bm.Rd | 20 + GLDEX-1.0.3/GLDEX/man/gl.check.lambda.alt1.Rd | 7 GLDEX-1.0.3/GLDEX/man/hiddenfunctions.Rd | 2 GLDEX-1.0.3/GLDEX/man/qqplot.gld.Rd | 8 GLDEX-1.0.3/GLDEX/man/qqplot.gld.bi.Rd | 8 31 files changed, 467 insertions(+), 319 deletions(-)
Author: Stephen Milborrow
derived from mda:mars by Trevor Hastie and Rob Tibshirani.
Title: Multivariate Adaptive Regression Spline Models
Description: Build regression models using the techniques in Friedman's
papers "Fast MARS" and "Multivariate Adaptive Regression Splines".
(The term "MARS" is copyrighted and thus not used in the name of the package.)
Diff between earth versions 2.0-6 dated 2008-10-30 and 2.1-0 dated 2008-11-10
earth-2.0-6/earth/src/tests/Rplots.ps |only earth-2.0-6/earth/src/tests/earth.times.Rout |only earth-2.0-6/earth/src/tests/test.earth.full.Rout |only earth-2.0-6/earth/src/tests/test.earth.glm.Rout |only earth-2.0-6/earth/src/tests/x |only earth-2.0-6/earth/src/tests/x.bat |only earth-2.0-6/earth/src/tests/xold |only earth-2.1-0/earth/DESCRIPTION | 4 earth-2.1-0/earth/NEWS | 6 earth-2.1-0/earth/R/earth.R | 100 earth-2.1-0/earth/R/earth.glm.R | 784 +++---- earth-2.1-0/earth/R/earth.regress.R | 154 - earth-2.1-0/earth/R/earthlib.R | 16 earth-2.1-0/earth/R/evimp.R | 374 +-- earth-2.1-0/earth/R/expand.arg.R | 234 +- earth-2.1-0/earth/R/format.earth.R | 568 ++--- earth-2.1-0/earth/R/model.matrix.earth.R | 717 +++--- earth-2.1-0/earth/R/plotmo.R | 265 +- earth-2.1-0/earth/R/print.earth.R | 355 +-- earth-2.1-0/earth/man/earth.Rd | 8 earth-2.1-0/earth/man/evimp.Rd | 64 earth-2.1-0/earth/man/format.earth.Rd | 15 earth-2.1-0/earth/man/plotmo.Rd | 95 earth-2.1-0/earth/man/predict.earth.Rd | 5 earth-2.1-0/earth/man/summary.earth.Rd | 5 earth-2.1-0/earth/src/tests/test.earth.full.R | 40 earth-2.1-0/earth/src/tests/test.earth.full.Rout.save | 1965 ++++++++---------- earth-2.1-0/earth/src/tests/test.earth.glm.R | 10 earth-2.1-0/earth/src/tests/test.earth.glm.Rout.save | 417 ++- earth-2.1-0/earth/src/tests/test.plotmo.R | 27 earth-2.1-0/earth/src/tests/test.plotmo.Rout.save | 99 31 files changed, 3323 insertions(+), 3004 deletions(-)
Author: Christian Ritz
Diff between drc versions 1.5-0 dated 2008-11-04 and 1.5-1 dated 2008-11-10
Title: Analysis of dose-response curves
Description: Analysis of one or multiple curves with focus on concentration-response, dose-response and time-response curves used, for example in biology, environmental sciences, medicine, pharmacology, toxicology.
DESCRIPTION | 6 +-
R/simFct.R | 134 ++++++++++++++++++++++++++++++++++++++++++++++++++++--------
2 files changed, 120 insertions(+), 20 deletions(-)
Author: John Fox
Diff between Rcmdr versions 1.4-4 dated 2008-10-28 and 1.4-5 dated 2008-11-10
Title: R Commander
Description:
A platform-independent basic-statistics GUI (graphical user interface) for R, based on the tcltk package.
DESCRIPTION | 7 ++++---
R/commander.R | 12 ++++++++++--
inst/CHANGES | 6 ++++++
inst/po/id/LC_MESSAGES/R-Rcmdr.mo |binary
man/Rcmdr-package.Rd | 4 ++--
po/R-id.po |only
6 files changed, 22 insertions(+), 7 deletions(-)
Author: Matthias Burger
Diff between RUnit versions 0.4.19 dated 2008-06-20 and 0.4.20 dated 2008-11-10
Title: R Unit test framework
Description: R functions implementing a standard Unit Testing framework, with additional code inspection and report generation tools
DESCRIPTION | 6 +++---
R/checkFuncs.r | 16 ++++++++++++----
R/htmlProtocol.r | 21 +++++++++------------
R/inspector.r | 5 ++---
inst/doc/RUnit.dvi |binary
inst/doc/RUnit.pdf |binary
inst/doc/RUnit.ps | 14 +++++++-------
inst/doc/RUnit.tex | 2 +-
8 files changed, 34 insertions(+), 30 deletions(-)
Author: Michael D. Sumner
Title: Spatial analysis of animal track data
Description: Functions for accessing and manipulating spatial data for animal tracking.
Filter for speed and create time spent plots from animal track data.
Diff between trip versions 1.1-1 dated 2008-02-05 and 1.1-2 dated 2008-11-10
DESCRIPTION | 4 ++-- R/trip.R | 8 +++++--- R/tripFunctions.R | 20 +++++++++++++++----- 3 files changed, 22 insertions(+), 10 deletions(-)
Author: Andrew Balemi, James Curran, Brant Deppa, Mike Forster, Michael Maia, Chris Wild
Title: Stats 20x
Description: Stats 20x functions.
Diff between s20x versions 3.1-0 dated 2008-06-12 and 3.1-3 dated 2008-11-10
s20x-3.1-0/s20x/R/DEPRECATED.R |only s20x-3.1-0/s20x/R/ci.reg.R |only s20x-3.1-0/s20x/R/cooks.20x.R |only s20x-3.1-0/s20x/R/crosstabs.20x.R |only s20x-3.1-0/s20x/R/estimate.contrasts.I.R |only s20x-3.1-0/s20x/R/estimate.contrasts.II.R |only s20x-3.1-0/s20x/R/estimate.contrasts.R |only s20x-3.1-0/s20x/R/interaction.20x.R |only s20x-3.1-0/s20x/R/interaction.plots.R |only s20x-3.1-0/s20x/R/layout.20x.R |only s20x-3.1-0/s20x/R/multiple.comp.R |only s20x-3.1-0/s20x/R/numerical.summary.R |only s20x-3.1-0/s20x/R/oneway.plot.R |only s20x-3.1-0/s20x/R/resid.plot.R |only s20x-3.1-0/s20x/man/ci.reg.Rd |only s20x-3.1-0/s20x/man/cooks.20x.Rd |only s20x-3.1-0/s20x/man/crosstabs.20x.Rd |only s20x-3.1-0/s20x/man/estimate.contrasts.Rd |only s20x-3.1-0/s20x/man/interaction.20x.Rd |only s20x-3.1-0/s20x/man/interaction.plots.Rd |only s20x-3.1-0/s20x/man/layout.20x.Rd |only s20x-3.1-0/s20x/man/multiple.comp.Rd |only s20x-3.1-0/s20x/man/numerical.summary.Rd |only s20x-3.1-0/s20x/man/oneway.plot.Rd |only s20x-3.1-0/s20x/man/resid.plot.Rd |only s20x-3.1-3/s20x/DESCRIPTION | 6 - s20x-3.1-3/s20x/R/ciReg.R |only s20x-3.1-3/s20x/R/cooks20x.R |only s20x-3.1-3/s20x/R/crossFactors.R |only s20x-3.1-3/s20x/R/crosstabs.R |only s20x-3.1-3/s20x/R/eovcheck.R | 2 s20x-3.1-3/s20x/R/estimateContrasts.R |only s20x-3.1-3/s20x/R/estimateContrasts1.R |only s20x-3.1-3/s20x/R/estimateContrasts2.R |only s20x-3.1-3/s20x/R/interactionPlots.R |only s20x-3.1-3/s20x/R/layout20x.R |only s20x-3.1-3/s20x/R/levene.test.R | 2 s20x-3.1-3/s20x/R/multipleComp.R |only s20x-3.1-3/s20x/R/onewayPlot.R |only s20x-3.1-3/s20x/R/residPlot.R |only s20x-3.1-3/s20x/R/rowdistr.r | 2 s20x-3.1-3/s20x/R/summary1way.R | 152 +++++++++++++++--------------- s20x-3.1-3/s20x/R/summary2way.R | 12 +- s20x-3.1-3/s20x/R/summaryStats.R |only s20x-3.1-3/s20x/data/apples.df.txt |only s20x-3.1-3/s20x/data/books.df.txt |only s20x-3.1-3/s20x/data/butterfat.df.txt |only s20x-3.1-3/s20x/data/cloudseeding.df.txt |only s20x-3.1-3/s20x/data/fruitfly.df.txt |only s20x-3.1-3/s20x/data/sheep.df.txt |only s20x-3.1-3/s20x/data/skulls.df.txt |only s20x-3.1-3/s20x/demo/00Index | 63 +++++++----- s20x-3.1-3/s20x/demo/cs1.r | 7 - s20x-3.1-3/s20x/demo/cs11.r | 30 +++-- s20x-3.1-3/s20x/demo/cs11_mod1.r |only s20x-3.1-3/s20x/demo/cs12.r | 36 ++++--- s20x-3.1-3/s20x/demo/cs13.r | 29 +++-- s20x-3.1-3/s20x/demo/cs14.r | 44 +++++--- s20x-3.1-3/s20x/demo/cs1_mod1.r |only s20x-3.1-3/s20x/demo/cs2.r | 26 ++--- s20x-3.1-3/s20x/demo/cs21.r | 28 +++-- s20x-3.1-3/s20x/demo/cs22.r | 32 ++++-- s20x-3.1-3/s20x/demo/cs23.r | 48 ++++++--- s20x-3.1-3/s20x/demo/cs24.r | 34 ++++-- s20x-3.1-3/s20x/demo/cs25.r | 25 +++- s20x-3.1-3/s20x/demo/cs28.r | 37 +++++-- s20x-3.1-3/s20x/demo/cs29.r | 24 +++- s20x-3.1-3/s20x/demo/cs3.r | 18 +-- s20x-3.1-3/s20x/demo/cs30.r | 64 +++++++++--- s20x-3.1-3/s20x/demo/cs31.r | 43 +++++--- s20x-3.1-3/s20x/demo/cs32.r | 70 +++++++++++-- s20x-3.1-3/s20x/demo/cs33.r | 40 +++++-- s20x-3.1-3/s20x/demo/cs34.r | 37 +++++-- s20x-3.1-3/s20x/demo/cs35.r | 26 +++-- s20x-3.1-3/s20x/demo/cs4.r | 36 ++++--- s20x-3.1-3/s20x/demo/cs40.r |only s20x-3.1-3/s20x/demo/cs41.r |only s20x-3.1-3/s20x/demo/cs42.r |only s20x-3.1-3/s20x/demo/cs43.r |only s20x-3.1-3/s20x/demo/cs44.r |only s20x-3.1-3/s20x/demo/cs45.r |only s20x-3.1-3/s20x/demo/cs5.r | 19 +-- s20x-3.1-3/s20x/demo/cs6.r | 32 +++--- s20x-3.1-3/s20x/demo/cs7.r | 47 +++++---- s20x-3.1-3/s20x/demo/cs8.r | 48 ++++++--- s20x-3.1-3/s20x/demo/cs9.r | 61 ++++++------ s20x-3.1-3/s20x/man/apples.df.Rd |only s20x-3.1-3/s20x/man/books.df.Rd |only s20x-3.1-3/s20x/man/butterfat.df.Rd |only s20x-3.1-3/s20x/man/ciReg.Rd |only s20x-3.1-3/s20x/man/cloudseeding.df.Rd |only s20x-3.1-3/s20x/man/cooks20x.Rd |only s20x-3.1-3/s20x/man/crossFactors.Rd |only s20x-3.1-3/s20x/man/crosstabs.Rd |only s20x-3.1-3/s20x/man/estimateContrasts.Rd |only s20x-3.1-3/s20x/man/fruitfly.df.Rd |only s20x-3.1-3/s20x/man/interactionPlots.Rd |only s20x-3.1-3/s20x/man/layout20x.Rd |only s20x-3.1-3/s20x/man/levene.test.Rd | 2 s20x-3.1-3/s20x/man/multipleComp.Rd |only s20x-3.1-3/s20x/man/onewayPlot.Rd |only s20x-3.1-3/s20x/man/pairs20x.Rd | 72 ++++++-------- s20x-3.1-3/s20x/man/predict20x.Rd | 125 ++++++++++++------------ s20x-3.1-3/s20x/man/propslsd.new.Rd | 4 s20x-3.1-3/s20x/man/residPlot.Rd |only s20x-3.1-3/s20x/man/rowdistr.Rd | 6 - s20x-3.1-3/s20x/man/sheep.df.Rd |only s20x-3.1-3/s20x/man/skulls.df.Rd |only s20x-3.1-3/s20x/man/summary1way.Rd | 119 +++++++++++------------ s20x-3.1-3/s20x/man/summary2way.Rd | 108 ++++++++++----------- s20x-3.1-3/s20x/man/summaryStats.Rd |only s20x-3.1-3/s20x/man/trendscatter.Rd | 2 112 files changed, 966 insertions(+), 652 deletions(-)
Author: Michael Friendly and John Fox
Title: Generalized Canonical Discriminant Analysis
Description: Functions for computing and graphing canonical discriminant
analyses.
Diff between candisc versions 0.5-9 dated 2008-04-14 and 0.5-10 dated 2008-11-10
.project |only DESCRIPTION | 7 ++++--- R/candiscList.R | 4 ++-- R/heplot.candisc.R | 40 +++++++++++++++++++++++++++++----------- R/plot.candisc.R | 19 +++++++++++++------ inst |only man/Grass.Rd | 4 ++-- man/HSB.Rd | 41 +++++++++++++++++++++++------------------ man/candisc-package.Rd | 8 ++++---- man/candisc.Rd | 4 +++- man/candiscList.Rd | 7 ++++--- man/heplot.candisc.Rd | 20 ++++++++++++++++---- man/heplot.candiscList.Rd | 24 ++++++++++++------------ 13 files changed, 112 insertions(+), 66 deletions(-)
Author: James Curran
Diff between Bolstad versions 0.2-12 dated 2007-07-09 and 0.2-14 dated 2008-11-10
Title: Bolstad functions
Description: A set of R functions and data sets for the book Introduction to Bayesian Statistics, Bolstad, W.M. (2007), John Wiley & Sons ISBN 0-471-27020-2
DESCRIPTION | 10 +-
R/poisgamp.r | 10 +-
R/sscsample.r | 265 ++++++++++++++++++++++++++++++-------------------------
R/xdesign.r | 12 +-
man/nvaricp.Rd | 2
man/sscsample.Rd | 12 +-
6 files changed, 172 insertions(+), 139 deletions(-)
Author: Dongjun Chung
Diff between spls versions 1.0-0 dated 2008-11-08 and 1.0-1 dated 2008-11-09
Title: Sparse Partial Least Squares (SPLS) Regression
Description: This package provides functions for fitting a Sparse Partial Least Squares Regression
DESCRIPTION | 6 +++---
R/cv.spls.R | 4 ++--
R/spls.R | 22 +++++++++-------------
R/spls.dv.R | 2 +-
doc/spls-example.pdf |binary
man/cv.spls.Rd | 5 ++---
man/spls.Rd | 5 ++---
7 files changed, 19 insertions(+), 25 deletions(-)
Author: Ken Beath
Diff between randomLCA versions 0.5-3 dated 2008-07-28 and 0.6-1 dated 2008-11-09
Title: Random Effects Latent Class Analysis
Description: Fits random effects latent class models, as well as standard latent class models.
randomLCA-0.5-3/randomLCA/inst/doc/.build.timestamp |only
randomLCA-0.6-1/randomLCA/DESCRIPTION | 6 -
randomLCA-0.6-1/randomLCA/NAMESPACE | 5 -
randomLCA-0.6-1/randomLCA/R/bestlca.R | 6 -
randomLCA-0.6-1/randomLCA/R/fit.fixed.randomLCA.R | 14 ++-
randomLCA-0.6-1/randomLCA/R/outcome.probs.randomLCA.R |only
randomLCA-0.6-1/randomLCA/R/randomLCA.R | 4
randomLCA-0.6-1/randomLCA/inst/NEWS | 7 +
randomLCA-0.6-1/randomLCA/inst/doc/randomLCA-example.Rnw | 62 +++++++++++++--
randomLCA-0.6-1/randomLCA/inst/doc/randomLCA-example.pdf |binary
randomLCA-0.6-1/randomLCA/man/outcome.probs.Rd |only
11 files changed, 85 insertions(+), 19 deletions(-)
Author: Rajarshi Guha
Diff between fingerprint versions 3.0 dated 2008-10-19 and 3.1 dated 2008-11-09
Title: Functions to operate on binary fingerprint data
Description: This package contains functions to manipulate binary fingerprints
of arbitrary length. A fingerprint is represented by an object of S4 class 'fingerprint'
which is internally represented a vector of integers, such
that each element represents the position in the fingerprint that is set to 1.
The bitwise logical functions in R are overridden so that they can be used directly
with 'fingerprint' objects. A number of distance metrics are also
available (many contributed by Michael Fadock). Fingerprints
can be converted to Euclidean vectors (i.e., points on the unit hypersphere) and
can also be folded using OR. Arbitrary fingerprint formats can be handled via line
handlers. Currently handlers are provided for CDK, MOE and BCI fingerprint data.
DESCRIPTION | 4 ++--
NAMESPACE | 2 +-
2 files changed, 3 insertions(+), 3 deletions(-)
Author: Ken Cheung
Diff between dfcrm versions 0.1-1 dated 2008-08-20 and 0.1-2 dated 2008-11-08
Title: Dose-finding by the continual reassessment method
Description: This package provides function to run the CRM and TITE-CRM
in phase I trials and calibration tools for trial planning purposes.
DESCRIPTION | 6 +++---
R/dfcrm.R | 19 +++++++++++--------
man/crm.Rd | 8 +++++++-
man/crmsens.Rd | 2 +-
man/titecrm.Rd | 9 +++++----
5 files changed, 27 insertions(+), 17 deletions(-)
Author: Torsten Hothorn, Peter Buhlmann, Thomas Kneib, Matthias Schmid and
Benjamin Hofner
Title: Model-Based Boosting
Description: Functional gradient descent algorithms
(boosting) for optimizing general loss functions utilizing
componentwise least squares, either of parametric linear form or
smoothing splines, or regression trees as base learners for fitting
generalized linear, additive and interaction models to potentially
high-dimensional data.
Diff between mboost versions 1.0-2 dated 2008-11-06 and 1.0-3 dated 2008-11-07
DESCRIPTION | 6 +++--- inst/CHANGES | 5 +++++ inst/doc/SurvivalEnsembles.pdf |binary inst/doc/mboost_illustrations.pdf |binary 4 files changed, 8 insertions(+), 3 deletions(-)
Author: Felix Andrews
Diff between latticist versions 0.9-40 dated 2008-11-04 and 0.9-41 dated 2008-11-07
Title: A Lattice-based tool for exploratory visualisation
Description: Latticist is a graphical user interface for exploratory
visualisation. It is primarily an interface to the Lattice graphics
system, but also produces displays from the vcd package for categorical
data. Given a multivariate dataset (either a data frame or a table),
latticist attempts to produce useful displays based on the properties
of the data.
DESCRIPTION | 8 -
R/latticeStyleGUI.R | 39 +++++-
R/latticistCompose.R | 288 +++++++++++++++++++++++++++++------------------
R/latticist_gWidgets.R | 25 +---
R/latticist_playwith.R | 10 -
R/options.R | 14 +-
demo |only
inst/NEWS | 18 ++
man/latticist.Rd | 14 +-
man/latticist.options.Rd | 68 ++++++++++-
man/latticistCompose.Rd | 102 ++++++++++++++--
11 files changed, 424 insertions(+), 162 deletions(-)
Author: Tarn Duong
Diff between ks versions 1.5.8 dated 2008-11-06 and 1.5.9 dated 2008-11-07
Title: Kernel smoothing
Description: Kernel density estimators and kernel discriminant analysis for multivariate data
ks-1.5.8/ks/inst/doc/kde.aux |only
ks-1.5.8/ks/inst/doc/kde.log |only
ks-1.5.8/ks/inst/doc/kde.tex |only
ks-1.5.9/ks/DESCRIPTION | 6 +++---
ks-1.5.9/ks/R/mise.R | 4 ++--
ks-1.5.9/ks/README | 5 ++++-
ks-1.5.9/ks/inst/doc/kde.pdf |binary
ks-1.5.9/ks/man/compare.Rd | 2 +-
8 files changed, 10 insertions(+), 7 deletions(-)
Author: Christian W. Hoffmann
Title: cwh's useful functions
Permanent link
Author: Thomas Scheike with contributions from Torben Martinussen and Jeremy Silver
Title: timereg package
Description: Programs for Martinussen and Scheike (2006), `Dynamic Regression Models for Survival Data', Springer Verlag. Plus more recent developments. Additive survival model, semiparmetric proportional odds model, cumulative residuals, excess risk models and more.
Diff between timereg versions 1.1-0 dated 2008-08-08 and 1.1-1 dated 2008-11-07
DESCRIPTION | 10 ++++++---- NAMESPACE | 12 ++++++++++++ R/additive-lasso.r |only R/additive-pls.r |only R/comprisk.r | 19 ++++++++++++++----- R/mylars.r |only R/new.cox-aalen.r | 1 - R/predict.lars.r |only man/additive-lasso.Rd |only man/additive-pls.Rd |only man/internal-addreg.Rd | 1 + man/krylow.pls.Rd |only man/surv-lars.Rd |only src/Gprop-odds.c | 10 +++++----- src/aalen-des.c |only src/aalen-test.c | 35 +++++++++++++++++------------------ src/aalen.c | 4 ++-- src/additive-pls.c |only src/breslow.c | 6 +++--- src/comprisk.c | 27 +++++++++++++-------------- src/cox-aalen.c | 4 ++-- src/dynadd.c | 6 +++--- src/kim-kim.c |only src/matrix.c | 4 ++-- src/matrix.h | 10 ++++------ src/pe-sasieni.c | 6 +++--- src/pred.c | 4 ++-- src/prop-odds.c | 13 +++++++------ src/smooth.c | 4 ++-- src/two-stage-reg.c | 8 ++++---- src/two-stage.c | 8 ++++---- 31 files changed, 106 insertions(+), 86 deletions(-)
Author: Adrian Baddeley
Diff between spatstat versions 1.14-5 dated 2008-10-24 and 1.14-6 dated 2008-11-07
Title: Spatial Point Pattern analysis, model-fitting, simulation, tests
Description: A package for analysing spatial data,
mainly Spatial Point Patterns, including multitype/marked points
and spatial covariates, in any two-dimensional spatial region.
Contains functions for plotting spatial data,
exploratory data analysis, model-fitting, simulation,
spatial sampling, model diagnostics,
and formal inference. Data types include point patterns,
line segment patterns, spatial windows, and
pixel images. Point process models can be
fitted to point pattern data. Cluster type models are fitted
by the method of minimum contrast. Very general Gibbs point
process models can be fitted to point pattern data
using a function ppm similar to lm or glm. Models may
include dependence on covariates, interpoint interaction
and dependence on marks. Fitted models can be simulated automatically.
Also provides facilities for formal inference (such as chi-squared
tests) and model diagnostics (including simulation
envelopes, residuals, residual plots and Q-Q plots).
DESCRIPTION | 8 ++--
INDEX | 6 ++-
R/marks.R | 26 ++++++-------
R/nearestsegment.R |only
R/options.R | 5 +-
R/plot.owin.S | 13 ++++--
R/psp.R | 94 ++++++++++++++++++++++++++++++++++++++---------
R/randomseg.R | 15 ++++---
R/superimpose.R | 67 +++++++++++++++++++++++++++------
R/window.S | 9 ++--
demo/spatstat.R | 9 ++++
man/00spatstat.Rd | 20 +++++++---
man/as.data.frame.psp.Rd |only
man/as.psp.Rd | 33 +++++++++++++---
man/internal.Rd | 10 ++++-
man/nearestsegment.Rd |only
man/project2segment.Rd |only
man/spatstat.options.Rd | 12 ++++++
man/split.ppp.Rd | 1
man/superimpose.Rd | 11 ++++-
man/superimposePSP.Rd |only
man/unmark.Rd | 26 +++++++++----
22 files changed, 278 insertions(+), 87 deletions(-)
Author: Rob J Hyndman
Diff between forecasting versions 1.18 dated 2008-11-06 and 1.19 dated 2008-11-07
Bundle: forecasting
Contains: forecast fma Mcomp expsmooth
DESCRIPTION | 6 +++---
forecast/R/arima.R | 18 ++++++++++++------
2 files changed, 15 insertions(+), 9 deletions(-)
Author: Yu-Sung Su
Diff between R2jags versions 0.01-12 dated 2008-10-19 and 0.01-13 dated 2008-11-07
Title: A Package for Running jags from R
Description: Using this package to call jags from R.
CHANGELOG | 5 +++++
DESCRIPTION | 8 ++++----
R/recompile.R | 2 +-
3 files changed, 10 insertions(+), 5 deletions(-)
Author: A.I. McLeod and Ying Zhang
Title: Subset AR Model Fitting
Description: Complete functions are given for model identification, estimation and diagnostic checking for AR and subset AR models. Two types of subset AR models are supported. One family of subset AR models, denoted by ARp, is formed by taking subet of the original AR coefficients and in the other, denoted by ARz, subsets of the partial autocorrelations are used. The main advantage of the ARz model is its applicability to very large order models.
Diff between FitAR versions 1.73 dated 2008-10-01 and 1.74 dated 2008-11-07
FitAR-1.73/FitAR/index |only FitAR-1.74/FitAR/DESCRIPTION | 6 +++--- FitAR-1.74/FitAR/R/FitARp.R | 2 +- FitAR-1.74/FitAR/R/FitARz.R | 5 ++--- FitAR-1.74/FitAR/R/summary.FitAR.R | 4 +++- FitAR-1.74/FitAR/man/FitAR-package.Rd | 4 ++-- FitAR-1.74/FitAR/man/FitAR.Rd | 2 +- 7 files changed, 12 insertions(+), 11 deletions(-)
Author: John Maindonald
Title: Data Sets and Functions, supplementary to DAAG
Description: various data sets used in additonal exercises for
the book Maindonald, J.H. and Braun, W.J. (2nd edn 2007)
"Data Analysis and Graphics Using R", and for a
'Data Mining' course. Note especially the datasets
nassCDS (airbag and other influences on US vehicle
accident outcomes: 1997-2002), nswdemo and related datasets
(US Labor Training Evaluation Data), rockArt (multivariate
binary data on Pacific rock art), hotspots (ages and
distance from Kilauea of larval hotspots; c.f. also
hotspots2006), nihills (record times for Northern
Ireland mountain races), worldRecords (record times for
track and road races), progression (progression of
record times for track races), edcT and edcCO2 (temperature
and CO2 estimates from the EPICA Dome C ice core,
covering 0 to 800 kyr BP), grog (changes in Australian
and NZ liquor consumption pattern, 1998-2006),
and bomregions (historical Australian climate data).
Diff between DAAGxtras versions 0.6-9 dated 2007-10-09 and 0.7-0 dated 2008-11-07
DESCRIPTION | 20 +++++++++++++------- data/SOI.RData |only data/bomregions.RData |only data/edcCO2.RData |only data/edcT.RData |only data/nswpsid1.RData |only data/progression.RData |only man/SOI.Rd |only man/bomregions.Rd |only man/edcCO2.Rd |only man/edcT.Rd |only man/excessRisk.Rd | 13 +++++++------ man/nswpsid1.Rd |only man/plotSampDist.Rd | 3 --- man/progression.Rd |only man/recordTimes.Rd | 4 +--- man/simulateSampDist.Rd | 2 -- man/zzDAAGxdb.Rd | 14 -------------- 18 files changed, 21 insertions(+), 35 deletions(-)
Author: Kurt Hornik, with contributions from Walter Boehm
Title: Cluster ensembles
Description: CLUster Ensembles
Diff between clue versions 0.3-25 dated 2008-10-19 and 0.3-26 dated 2008-11-06
DESCRIPTION | 6 +++--- NAMESPACE | 2 ++ R/hierarchy.R | 9 +++++++++ inst/doc/clue.pdf |binary 4 files changed, 14 insertions(+), 3 deletions(-)
Author: Jim Lemon
Diff between prettyR versions 1.3-4 dated 2008-10-24 and 1.3-5 dated 2008-11-06
Title: Pretty descriptive stats.
Description: Functions for conventionally formatted descriptive stats, and
to format R output as HTML.
DESCRIPTION | 6 -
R/brkdn.R | 174 +++++++++++++++++++++++------------------------------
R/delim.table.R | 9 +-
man/delim.table.Rd | 11 +--
4 files changed, 89 insertions(+), 111 deletions(-)
Author: Jim Lemon
Diff between plotrix versions 2.4-8 dated 2008-10-20 and 2.5 dated 2008-11-06
Title: Various plotting functions
Description: Lots of plots, various labeling, axis and color scaling functions.
DESCRIPTION | 10 +-
INDEX | 1
R/barp.R | 17 +++-
R/clplot.R | 173 ++++++++++++++++++++++++++++++-------------------
R/soil.texture.uk.R |only
R/stackpoly.R | 24 +++++-
R/twoord.plot.R | 1
heart_count.R |only
heart_count.csv |only
man/barp.Rd | 9 --
man/clplot.Rd | 3
man/soil.texture.uk.Rd |only
man/stackpoly.Rd | 7 +
13 files changed, 158 insertions(+), 87 deletions(-)
Author: Torsten Hothorn, Peter Buhlmann, Thomas Kneib, Matthias Schmid and
Benjamin Hofner
Title: Model-Based Boosting
Description: Functional gradient descent algorithms
(boosting) for optimizing general loss functions utilizing
componentwise least squares, either of parametric linear form or
smoothing splines, or regression trees as base learners for fitting
generalized linear, additive and interaction models to potentially
high-dimensional data.
Diff between mboost versions 1.0-1 dated 2007-12-09 and 1.0-2 dated 2008-11-06
mboost-1.0-1/mboost/data/westbc.rda |only mboost-1.0-1/mboost/inst/doc/mboost_illustrations.tex |only mboost-1.0-1/mboost/man/westbc.Rd |only mboost-1.0-1/mboost/tests/Examples/mboost-Ex.Rout |only mboost-1.0-2/mboost/DESCRIPTION | 13 mboost-1.0-2/mboost/NAMESPACE | 16 mboost-1.0-2/mboost/R/blackboost.R | 44 - mboost-1.0-2/mboost/R/control.R | 8 mboost-1.0-2/mboost/R/crossvalidation.R | 51 + mboost-1.0-2/mboost/R/gamboost.R | 94 ++- mboost-1.0-2/mboost/R/glmboost.R | 1 mboost-1.0-2/mboost/R/helpers.R | 34 - mboost-1.0-2/mboost/R/methods.R | 54 + mboost-1.0-2/mboost/R/xsp.R | 411 +++++++-------- mboost-1.0-2/mboost/data/Westbc.rda |only mboost-1.0-2/mboost/data/birds.rda |only mboost-1.0-2/mboost/inst/CHANGES | 28 + mboost-1.0-2/mboost/inst/birds_Biometrics.R |only mboost-1.0-2/mboost/inst/doc/SurvivalEnsembles.pdf |binary mboost-1.0-2/mboost/inst/doc/mboost_illustrations.Rnw | 143 +++++ mboost-1.0-2/mboost/inst/doc/mboost_illustrations.pdf |binary mboost-1.0-2/mboost/inst/mboost_Bioinf.R | 9 mboost-1.0-2/mboost/man/IPCweights.Rd | 3 mboost-1.0-2/mboost/man/Westbc.Rd |only mboost-1.0-2/mboost/man/baselearners.Rd | 115 ++-- mboost-1.0-2/mboost/man/birds.Rd |only mboost-1.0-2/mboost/man/blackboost.Rd | 7 mboost-1.0-2/mboost/man/bodyfat.Rd | 3 mboost-1.0-2/mboost/man/control.Rd | 33 - mboost-1.0-2/mboost/man/cvrisk.Rd | 26 mboost-1.0-2/mboost/man/gamboost.Rd | 21 mboost-1.0-2/mboost/man/glmboost.Rd | 3 mboost-1.0-2/mboost/man/methods.Rd | 11 mboost-1.0-2/mboost/man/survFit.Rd |only mboost-1.0-2/mboost/man/wpbc.Rd | 3 mboost-1.0-2/mboost/tests/Examples/mboost-Ex.Rout.save | 344 ++++++++++-- mboost-1.0-2/mboost/tests/bugfixes.Rout.save | 27 mboost-1.0-2/mboost/tests/codetools-checks.Rout.save | 19 mboost-1.0-2/mboost/tests/mboost_illustrations.Rout.save | 21 mboost-1.0-2/mboost/tests/regtest-blackboost.R | 13 mboost-1.0-2/mboost/tests/regtest-blackboost.Rout.save | 82 ++ mboost-1.0-2/mboost/tests/regtest-gamboost.R | 37 + mboost-1.0-2/mboost/tests/regtest-gamboost.Rout.save | 107 +++ mboost-1.0-2/mboost/tests/regtest-glmboost.R | 26 mboost-1.0-2/mboost/tests/regtest-glmboost.Rout.save | 48 + mboost-1.0-2/mboost/tests/regtest-hatmatrix.Rout.save | 18 mboost-1.0-2/mboost/tests/setup.Rout.save | 18 mboost-1.0-2/mboost/to_do_list.txt | 8 48 files changed, 1368 insertions(+), 531 deletions(-)
Author: Jeff Hallman
Diff between tis versions 1.1 dated 2008-09-11 and 1.2 dated 2008-11-06
Title: Time Indexes and Time Indexed Series
Description: Functions and S3 classes for time indexes and time indexed series, which are compatible with FAME frequencies.
DESCRIPTION | 4 ++--
NEWS |only
R/as.list.keepClass.R | 3 +++
R/convert.R | 22 +++++++++++++++-------
R/ti.R | 24 ++++++++++++++----------
man/convert.Rd | 24 +++++++++++++++---------
6 files changed, 49 insertions(+), 28 deletions(-)
Author: Peter Ruckdeschel
Title: Utilities for start-up messages
Description: Utilities for start-up messages
Diff between startupmsg versions 0.5.1 dated 2008-09-15 and 0.5.2 dated 2008-11-06
DESCRIPTION | 8 ++++---- 1 file changed, 4 insertions(+), 4 deletions(-)
Author: Mark V. Bravington
Diff between mvbutils versions 1.1.1 dated 2005-05-10 and 2.2.0 dated 2008-11-06
Title: Workspace organization; transparent lazy-loading; better editing & backup; easy documentation; easy package preparation; misc utils
Description: Hierarchical workspace tree, per-object lazy-loading, code editing and backup, sourcing, easy documentation (formal and informal), easy package preparation, editing of "live" packages, macro functions, and miscellaneous utilities. Needed by debug package.
mvbutils-1.1.1/mvbutils/fixedHTMLlinks |only
mvbutils-1.1.1/mvbutils/man/00README.mvbutils.Rd |only
mvbutils-1.1.1/mvbutils/man/formalize.package.Rd |only
mvbutils-1.1.1/mvbutils/man/mlibrary.Rd |only
mvbutils-1.1.1/mvbutils/man/mvbutils-internals.Rd |only
mvbutils-2.2.0/mvbutils/DESCRIPTION | 18
mvbutils-2.2.0/mvbutils/INDEX | 80
mvbutils-2.2.0/mvbutils/NAMESPACE | 61
mvbutils-2.2.0/mvbutils/R/mvbutils.R | 4261 +++++++++++----
mvbutils-2.2.0/mvbutils/R/sysdata.rda |only
mvbutils-2.2.0/mvbutils/demo |only
mvbutils-2.2.0/mvbutils/inst/changes.txt | 27
mvbutils-2.2.0/mvbutils/inst/demostuff |only
mvbutils-2.2.0/mvbutils/man/00mvbutils-package.Rd |only
mvbutils-2.2.0/mvbutils/man/Hours.Rd |only
mvbutils-2.2.0/mvbutils/man/Save.Rd | 14
mvbutils-2.2.0/mvbutils/man/add.flatdoc.to.Rd |only
mvbutils-2.2.0/mvbutils/man/as.data.frame.I.Rd | 9
mvbutils-2.2.0/mvbutils/man/autoFF.Rd | 6
mvbutils-2.2.0/mvbutils/man/cd.Rd | 48
mvbutils-2.2.0/mvbutils/man/cdfind.Rd | 21
mvbutils-2.2.0/mvbutils/man/cdprompt.Rd | 8
mvbutils-2.2.0/mvbutils/man/do.in.envir.Rd | 10
mvbutils-2.2.0/mvbutils/man/doc2Rd.Rd | 141
mvbutils-2.2.0/mvbutils/man/dochelp.Rd | 10
mvbutils-2.2.0/mvbutils/man/dont.lock.me.Rd |only
mvbutils-2.2.0/mvbutils/man/dont.lockBindings.Rd |only
mvbutils-2.2.0/mvbutils/man/extract.named.Rd | 8
mvbutils-2.2.0/mvbutils/man/find.documented.Rd | 26
mvbutils-2.2.0/mvbutils/man/fix.order.Rd | 6
mvbutils-2.2.0/mvbutils/man/fixr.Rd | 43
mvbutils-2.2.0/mvbutils/man/flatdoc.Rd | 36
mvbutils-2.2.0/mvbutils/man/foodweb.Rd | 46
mvbutils-2.2.0/mvbutils/man/full.path.Rd |only
mvbutils-2.2.0/mvbutils/man/get.backup.Rd | 6
mvbutils-2.2.0/mvbutils/man/hack.Rd |only
mvbutils-2.2.0/mvbutils/man/help2flatdoc.Rd |only
mvbutils-2.2.0/mvbutils/man/load.refdb.Rd | 9
mvbutils-2.2.0/mvbutils/man/local.on.exit.Rd | 20
mvbutils-2.2.0/mvbutils/man/local.return.Rd | 8
mvbutils-2.2.0/mvbutils/man/localfuncs.Rd |only
mvbutils-2.2.0/mvbutils/man/lsize.Rd |only
mvbutils-2.2.0/mvbutils/man/maintain.packages.Rd |only
mvbutils-2.2.0/mvbutils/man/make.NAMESPACE.Rd | 22
mvbutils-2.2.0/mvbutils/man/make.usage.section.Rd |only
mvbutils-2.2.0/mvbutils/man/mlazy.Rd | 64
mvbutils-2.2.0/mvbutils/man/mlocal.Rd | 43
mvbutils-2.2.0/mvbutils/man/move.Rd | 9
mvbutils-2.2.0/mvbutils/man/multirep.Rd |only
mvbutils-2.2.0/mvbutils/man/mvb.sys.parent.Rd | 12
mvbutils-2.2.0/mvbutils/man/mvbutils-operators.Rd | 109
mvbutils-2.2.0/mvbutils/man/mvbutils-utils.Rd | 135
mvbutils-2.2.0/mvbutils/man/my.index.Rd | 12
mvbutils-2.2.0/mvbutils/man/pre.install.Rd |only
mvbutils-2.2.0/mvbutils/man/readLines.mvb.Rd | 6
mvbutils-2.2.0/mvbutils/man/rm.pkg.Rd |only
mvbutils-2.2.0/mvbutils/man/search.for.regexpr.Rd |only
mvbutils-2.2.0/mvbutils/man/search.task.trees.Rd |only
mvbutils-2.2.0/mvbutils/man/set.presave.hook.mvb.Rd |only
mvbutils-2.2.0/mvbutils/man/setup.mcache.Rd | 6
mvbutils-2.2.0/mvbutils/man/source.mvb.Rd | 50
mvbutils-2.2.0/mvbutils/man/strip.missing.Rd | 18
mvbutils-2.2.0/mvbutils/man/task.home.Rd | 6
mvbutils-2.2.0/mvbutils/man/write.sourceable.function.Rd | 9
64 files changed, 4031 insertions(+), 1392 deletions(-)
Author: Tarn Duong
Diff between ks versions 1.5.7 dated 2008-10-29 and 1.5.8 dated 2008-11-06
Title: Kernel smoothing
Description: Kernel density estimators and kernel discriminant analysis for multivariate data
DESCRIPTION | 8
NAMESPACE | 4
R/integrate-kde.R | 2
R/mise.R | 465 ++++++++++++++++++++++++++++++++++++++++-----------
R/prelim.R | 175 ++++++++++---------
inst/doc/kde.log | 4
inst/doc/kde.pdf |binary
man/Hamise.mixt.Rd | 90 ++++++---
man/compare.Rd | 6
man/contourLevels.Rd | 6
man/dkde.Rd | 1
man/ks-internal.Rd | 2
man/ks-package.Rd | 53 +++--
man/vec.Rd | 2
14 files changed, 570 insertions(+), 248 deletions(-)
Author: Rob J Hyndman
Diff between forecasting versions 1.17 dated 2008-10-10 and 1.18 dated 2008-11-06
Bundle: forecasting
Contains: forecast fma Mcomp expsmooth
DESCRIPTION | 8
forecast/R/ets.R | 34 ++-
forecast/man/ets.Rd | 2
forecast/src/etscalc.c | 476 ++++++++++++++++++++++++-------------------------
4 files changed, 267 insertions(+), 253 deletions(-)
Author: J. O. Ramsay
Diff between fda versions 2.0.2 dated 2008-10-07 and 2.0.3 dated 2008-11-06
Title: Functional Data Analysis
Description: These functions were developed to support
functional data analysis as described in Ramsay, J. O.
and Silverman, B. W. (2005) Functional Data Analysis.
New York: Springer. They were ported from earlier
versions in Matlab and S-PLUS. A manual that describes
the use of these functions is available in this
library. The library also contains a number of the
data sets used in the book along with R code for the
analyses that produced many of the figures in the book.
fda-2.0.2/fda/R/predict.lmWnsor.R |only
fda-2.0.2/fda/R/predict.lmeWnsor.R |only
fda-2.0.3/fda/DESCRIPTION | 4
fda-2.0.3/fda/NEWS | 5
fda-2.0.3/fda/R/Fperm.fd.R | 35 -
fda-2.0.3/fda/R/argcheck.R |only
fda-2.0.3/fda/R/as.array3.R | 26 -
fda-2.0.3/fda/R/as.function.fd.R |only
fda-2.0.3/fda/R/basisfd.R | 281 +++++++++---
fda-2.0.3/fda/R/bsplineS.R | 22 -
fda-2.0.3/fda/R/checkDims3.R | 36 -
fda-2.0.3/fda/R/create.bspline.basis.R | 432 +++++++++++++------
fda-2.0.3/fda/R/create.constant.basis.R | 22 -
fda-2.0.3/fda/R/create.fourier.basis.R | 209 +++++++--
fda-2.0.3/fda/R/density.fd.R | 7
fda-2.0.3/fda/R/dim.fd.R |only
fda-2.0.3/fda/R/eval.basis.R | 11
fda-2.0.3/fda/R/eval.fd.R | 53 +-
fda-2.0.3/fda/R/eval.monfd.R | 65 +--
fda-2.0.3/fda/R/fRegress.R | 245 +++++------
fda-2.0.3/fda/R/fRegress.stderr.R | 25 -
fda-2.0.3/fda/R/fd.R | 170 ++++---
fda-2.0.3/fda/R/fdPar.R | 82 +--
fda-2.0.3/fda/R/fdParcheck.R |only
fda-2.0.3/fda/R/fourier.R | 8
fda-2.0.3/fda/R/getbasismatrix.R | 36 +
fda-2.0.3/fda/R/intensity.fd.R | 4
fda-2.0.3/fda/R/lambda2gcv.R | 26 -
fda-2.0.3/fda/R/landmarkreg.R | 184 +++++---
fda-2.0.3/fda/R/monfn.R | 23 -
fda-2.0.3/fda/R/mongrad.R | 23 -
fda-2.0.3/fda/R/monhess.R | 61 +-
fda-2.0.3/fda/R/monomial.R | 10
fda-2.0.3/fda/R/pca.fd.R | 31 -
fda-2.0.3/fda/R/pda.fd.R | 8
fda-2.0.3/fda/R/polygpen.R | 62 +-
fda-2.0.3/fda/R/powerpen.R | 111 +++--
fda-2.0.3/fda/R/predict.lmWinsor.R |only
fda-2.0.3/fda/R/predict.lmeWinsor.R |only
fda-2.0.3/fda/R/quadset.R | 56 --
fda-2.0.3/fda/R/rangechk.R | 16
fda-2.0.3/fda/R/register.fd.R | 109 +----
fda-2.0.3/fda/R/smooth.basis.R | 61 +-
fda-2.0.3/fda/R/smooth.monotone.R | 550 +++++++++++++++++--------
fda-2.0.3/fda/R/smooth.morph.R | 124 ++---
fda-2.0.3/fda/R/smooth.pos.R | 525 ++++++++++++++----------
fda-2.0.3/fda/R/stepit.R | 7
fda-2.0.3/fda/R/subscript.R | 12
fda-2.0.3/fda/R/wtcheck.R |only
fda-2.0.3/fda/R/ycheck.R |only
fda-2.0.3/fda/demo/00Index | 11
fda-2.0.3/fda/demo/create.test.R |only
fda-2.0.3/fda/demo/examples.R |only
fda-2.0.3/fda/demo/growth.R | 6
fda-2.0.3/fda/demo/growthreg.R |only
fda-2.0.3/fda/demo/growthsetup.R |only
fda-2.0.3/fda/demo/growthsmooth.R |only
fda-2.0.3/fda/demo/lip.R | 563 +++++++++++++-------------
fda-2.0.3/fda/demo/weatherANOVA.R |only
fda-2.0.3/fda/demo/weatherPCA.R |only
fda-2.0.3/fda/demo/weatherlm.R |only
fda-2.0.3/fda/demo/weathersetup.R |only
fda-2.0.3/fda/demo/weathersmooth.R |only
fda-2.0.3/fda/demo/weatherstats.R |only
fda-2.0.3/fda/fda_2.0.2.R.zip |only
fda-2.0.3/fda/inst/scripts/CSTR/CSTR_demo.asv |only
fda-2.0.3/fda/inst/scripts/CSTR/CSTRfn.asv |only
fda-2.0.3/fda/inst/scripts/fda-ch19.R |only
fda-2.0.3/fda/man/Fperm.fd.Rd | 39 +
fda-2.0.3/fda/man/arithmetic.fd.Rd | 67 ++-
fda-2.0.3/fda/man/as.function.fd.Rd |only
fda-2.0.3/fda/man/basisfd.Rd | 195 ++++++---
fda-2.0.3/fda/man/create.basis.Rd |only
fda-2.0.3/fda/man/create.bspline.basis.Rd | 171 ++++---
fda-2.0.3/fda/man/create.fourier.basis.Rd | 116 +++--
fda-2.0.3/fda/man/create.monomial.basis.Rd | 24 -
fda-2.0.3/fda/man/dim.fd.Rd |only
fda-2.0.3/fda/man/eval.monfd.Rd | 12
fda-2.0.3/fda/man/fd.Rd | 67 +--
fda-2.0.3/fda/man/fdPar.Rd | 47 --
fda-2.0.3/fda/man/fda-internal.Rd | 10
fda-2.0.3/fda/man/lambda2gcv.Rd | 99 ++--
fda-2.0.3/fda/man/landmarkreg.Rd | 106 ++--
fda-2.0.3/fda/man/pca.fd.Rd | 5
fda-2.0.3/fda/man/polygpen.Rd | 5
fda-2.0.3/fda/man/smooth.basis.Rd | 53 +-
fda-2.0.3/fda/man/smooth.monotone.Rd | 216 +++++----
fda-2.0.3/fda/man/smooth.morph.Rd | 127 ++---
fda-2.0.3/fda/man/smooth.pos.Rd | 129 +++--
fda-2.0.3/fda/man/tperm.fd.Rd | 26 +
90 files changed, 3458 insertions(+), 2413 deletions(-)
Author: Peter Ruckdeschel, Matthias Kohl, Anja Hueller, Eleonara Feist
Title: Extensions of package distr for teaching Stochastics/Statistics
in secondary school
Description: Extensions of package distr and some additional
functionality
Diff between distrTeach versions 2.0.1 dated 2008-10-12 and 2.0.2 dated 2008-11-06
DESCRIPTION | 17 ++++++++++------- man/0distrTeach-package.Rd | 8 ++++---- 2 files changed, 14 insertions(+), 11 deletions(-)
Author: Florian Camphausen, Matthias Kohl, Peter Ruckdeschel, Thomas
Stabla
Title: Estimation and Testing classes based on package distr
Description: Evaluation (S4-)classes based on package distr for
evaluating procedures (estimators/tests) at data/simulation in
a unified way.
Diff between distrTEst versions 2.0.1 dated 2008-10-12 and 2.0.2 dated 2008-11-06
DESCRIPTION | 19 +++++++++++-------- man/0distrTEst-package.Rd | 6 +++--- 2 files changed, 14 insertions(+), 11 deletions(-)
Author: Matthias Kohl, Peter Ruckdeschel
Title: Object orientated implementation of probability models
Description: Object orientated implementation of probability models
based on packages 'distr' and 'distrEx'
Diff between distrMod versions 2.0.1 dated 2008-10-12 and 2.0.2 dated 2008-11-06
DESCRIPTION | 14 ++-- R/AllPlot.R | 152 ++++++++++++++++++++++++++++++++++++--------- R/SimpleL2ParamFamilies.R | 20 ++++- R/modifyModel.R | 38 ++++++++--- man/0distrMod-package.Rd | 6 - man/L2ParamFamily-class.Rd | 2 man/ParamFamily-class.Rd | 2 7 files changed, 179 insertions(+), 55 deletions(-)
Author: Florian Camphausen, Matthias Kohl, Peter Ruckdeschel, Thomas
Stabla
Title: Simulation classes based on package distr
Description: Simulation (S4-)classes based on package distr
Diff between distrSim versions 2.0.1 dated 2008-10-12 and 2.0.2 dated 2008-11-06
DESCRIPTION | 16 +++++++++------- man/0distrSim-package.Rd | 6 +++--- 2 files changed, 12 insertions(+), 10 deletions(-)
Author: Matthias Kohl, Peter Ruckdeschel
Title: Extensions of package distr
Description: Extensions of package distr and some additional
functionality
Diff between distrEx versions 2.0.1 dated 2008-10-12 and 2.0.2 dated 2008-11-06
DESCRIPTION | 13 +++++++------ NAMESPACE | 3 ++- R/ClippedMoments.R | 20 ++++++++++++++++++++ R/ContaminationSize.R | 14 ++++++++++++++ R/ConvexContamination.R | 20 ++++++++++++++++++++ R/Expectation.R | 16 ++++++++++++++++ R/Gumbel.R | 15 +++++++++++++++ R/HellingerDist.R | 14 ++++++++++++++ R/KolmogorovDist.R | 14 ++++++++++++++ R/TotalVarDist.R | 14 ++++++++++++++ man/0distrEx-package.Rd | 10 +++++----- man/ContaminationSize.Rd | 3 +++ man/ConvexContamination.Rd | 3 +++ man/E.Rd | 2 ++ man/Gumbel-class.Rd | 16 ++++++++++++---- man/HellingerDist.Rd | 3 +++ man/KolmogorovDist.Rd | 3 +++ man/TotalVarDist.Rd | 3 +++ man/m1df.Rd | 2 ++ man/m2df.Rd | 1 + 20 files changed, 173 insertions(+), 16 deletions(-)
Author: Florian Camphausen, Matthias Kohl, Peter Ruckdeschel, Thomas
Stabla
Title: Documentation for packages distr, distrEx, distrSim, distrTEst
Description: provides documentation in form of a common vignette to
packages distr, distrEx, distrMod, distrSim, distrTEst
Diff between distrDoc versions 2.0.1 dated 2008-10-12 and 2.0.2 dated 2008-11-06
DESCRIPTION | 17 inst/doc/distr.Rnw | 4 inst/doc/distr.pdf | 2922 +++++++++++++++++++++++------------------------ man/0distrDoc-package.Rd | 9 4 files changed, 1485 insertions(+), 1467 deletions(-)
Author: Florian Camphausen, Matthias Kohl, Peter Ruckdeschel, Thomas
Stabla
Title: Object orientated implementation of distributions
Description: Object orientated implementation of distributions
Diff between distr versions 2.0.1 dated 2008-10-12 and 2.0.2 dated 2008-11-06
distr-2.0.1/distr/inst/doc/README |only distr-2.0.2/distr/DESCRIPTION | 13 - distr-2.0.2/distr/R/0pre270.R | 4 distr-2.0.2/distr/R/AllClasses.R | 2 distr-2.0.2/distr/R/DiscreteDistribution.R | 4 distr-2.0.2/distr/R/ExtraConvolutionMethods.R | 2 distr-2.0.2/distr/R/LatticeDistribution.R | 42 ++-- distr-2.0.2/distr/R/setIsRelations.R | 33 ++- distr-2.0.2/distr/inst/doc/newDistributions.Rnw | 203 +++++++++++++------- distr-2.0.2/distr/inst/doc/newDistributions.pdf |binary distr-2.0.2/distr/inst/doc/tmp |only distr-2.0.2/distr/man/0distr-package.Rd | 8 distr-2.0.2/distr/man/DiscreteDistribution-class.Rd | 4 distr-2.0.2/distr/man/LatticeDistribution-class.Rd | 10 14 files changed, 208 insertions(+), 117 deletions(-)
Author: Torsten Hothorn, Kurt Hornik, Mark A. van de Wiel and Achim Zeileis
Title: Conditional Inference Procedures in a Permutation Test Framework
Description: Conditional inference procedures for the general independence
problem including two-sample, K-sample (non-parametric ANOVA), correlation,
censored, ordered and multivariate problems.
Diff between coin versions 0.6-9 dated 2008-05-05 and 1.0-0 dated 2008-11-06
CHANGES | 24 DESCRIPTION | 12 NAMESPACE | 9 R/Classes.R | 12 R/ClassicalTests.R | 10 R/IndependenceTest.R | 20 R/InitMethods.R | 19 R/Methods.R | 38 R/Print.R | 45 R/helpers.R | 10 R/zAccess.R | 31 data/jobsatisfaction.rda |binary inst/CITATION | 55 inst/JSS |only inst/doc/LegoCondInf.Rnw | 2 inst/doc/LegoCondInf.pdf |binary inst/doc/MAXtest.pdf |binary inst/doc/coin.bib | 73 inst/doc/coin.pdf |binary inst/doc/coin_implementation.Rnw | 1217 ++++++---- inst/doc/coin_implementation.pdf |binary inst/documentation/html/Classes_8c-source.html | 28 inst/documentation/html/Classes_8c.html | 40 inst/documentation/html/Classes_8c__incl.map | 8 inst/documentation/html/Classes_8c__incl.md5 | 2 inst/documentation/html/Classes_8c__incl.png |binary inst/documentation/html/Classes_8h-source.html | 28 inst/documentation/html/Classes_8h.html | 36 inst/documentation/html/Classes_8h__dep__incl.map | 8 inst/documentation/html/Classes_8h__dep__incl.md5 | 2 inst/documentation/html/Classes_8h__dep__incl.png 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man/PValue-class.Rd |only man/QuadTypeIndependenceTestStatistic-class.Rd |only man/ScalarIndependenceTestStatistic-class.Rd |only man/asat.Rd | 2 man/coin.Rd | 5 man/expectation-methods.Rd | 6 man/hohnloser.Rd | 2 man/initialize-methods.Rd | 7 man/jobsatisfaction.Rd | 2 man/mercuryfish.Rd | 2 man/show-methods.Rd | 3 man/sphase.Rd | 4 man/statistic-methods.Rd | 1 man/treepipit.Rd | 6 tests/Examples/coin-Ex.Rout.save | 25 tests/bugfixes.Rout.save | 10 tests/codetools-checks.Rout.save | 10 tests/comparisons.Rout.save | 10 tests/regtest_2sample.Rout.save | 10 tests/regtest_Ksample.Rout.save | 10 tests/regtest_MTP.Rout.save | 10 tests/regtest_contingency.R | 8 tests/regtest_contingency.Rout.save | 22 tests/regtest_correlation.Rout.save | 10 258 files changed, 5180 insertions(+), 5122 deletions(-)
Author: Matthias Kohl, Peter Ruckdeschel
Title: Implementation of random variables
Description: Implementation of random variables by means
of S4 classes and methods
Diff between RandVar versions 0.6.4 dated 2008-10-12 and 0.6.5 dated 2008-11-06
RandVar-0.6.4/RandVar/man/RandVar-package.Rd |only RandVar-0.6.5/RandVar/DESCRIPTION | 12 ++++++------ RandVar-0.6.5/RandVar/R/util.R | 17 +++++++++++------ RandVar-0.6.5/RandVar/inst/doc/RandVar.pdf |binary RandVar-0.6.5/RandVar/man/0RandVar-package.Rd |only 5 files changed, 17 insertions(+), 12 deletions(-)
More information about SweaveListingUtils at CRAN
Permanent link
Author: Achim Zeileis, Kurt Hornik
Title: CRAN Task Views
Description: Server-side and client-side tools for task views
to CRAN-style repositories
Diff between ctv versions 0.4-5 dated 2008-09-18 and 0.4-6 dated 2008-11-05
ctv-0.4-5/ctv/inst/doc/.build.timestamp |only ctv-0.4-6/ctv/DESCRIPTION | 6 ctv-0.4-6/ctv/NEWS | 10 ctv-0.4-6/ctv/R/ctv-client.R | 17 ctv-0.4-6/ctv/inst/ctv/ChemPhys.ctv | 51 + ctv-0.4-6/ctv/inst/ctv/Econometrics.ctv | 24 ctv-0.4-6/ctv/inst/ctv/ExperimentalDesign.ctv | 21 ctv-0.4-6/ctv/inst/ctv/Finance.ctv | 13 ctv-0.4-6/ctv/inst/ctv/MachineLearning.ctv | 10 ctv-0.4-6/ctv/inst/ctv/Psychometrics.ctv | 38 - ctv-0.4-6/ctv/inst/ctv/SocialSciences.ctv | 5 ctv-0.4-6/ctv/inst/ctv/TimeSeries.ctv | 718 +++++++++++++------------- ctv-0.4-6/ctv/inst/doc/ctv-howto.pdf |binary ctv-0.4-6/ctv/man/ctv-client.Rd | 9 14 files changed, 518 insertions(+), 404 deletions(-)
Author: Holger Froehlich
Diff between gene2pathway versions 1.0 dated 2008-07-11 and 1.0.2 dated 2008-11-05
Title: Prediction of KEGG pathway membership for individual genes based on InterPro domain signatures
Description: The package takes a list of genes and predicts to which KEGG pathway each gene maps to. This is done by looking at the InterPro domains of each gene. Each prediction is assigned a confidence score. The package also allows to predict connected component membership of genes within signaling pathways. Separate models for each organism supported by KEGG can be trained.
gene2pathway-1.0.2/gene2pathway/DESCRIPTION | 13 +--
gene2pathway-1.0.2/gene2pathway/NAMESPACE | 2
gene2pathway-1.0.2/gene2pathway/R/buildTrainingSet.R | 4 -
gene2pathway-1.0.2/gene2pathway/R/code_train.R | 19 +++--
gene2pathway-1.0.2/gene2pathway/R/gene2pathway.R | 31 ++++----
gene2pathway-1.0.2/gene2pathway/R/gene2pathway.signaltrans.R | 14 ++-
gene2pathway-1.0.2/gene2pathway/R/getInterProDomains.R | 4 -
gene2pathway-1.0.2/gene2pathway/R/getKEGGHierarchy.R | 6 +
gene2pathway-1.0.2/gene2pathway/R/retrain.R | 2
gene2pathway-1.0.2/gene2pathway/R/svmlearn.R | 15 ++--
gene2pathway-1.0.2/gene2pathway/R/svmpredict.R | 37 +++++-----
gene2pathway-1.0.2/gene2pathway/R/test.overrepresentation.R |only
gene2pathway-1.0.2/gene2pathway/data/datalist | 1
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24 files changed, 88 insertions(+), 62 deletions(-)
Author: Jason P. Sinnwell and Daniel J. Schaid
Title: Regression Methods for IBD Linkage With Covariates
Description: A method to test genetic linkage with covariates by regression methods with response IBD sharing for relative pairs. Account for correlations of IBD statistics and covariates for relative pairs within the same pedigree.
Diff between ibdreg versions 0.1.1 dated 2007-01-05 and 0.1.2 dated 2008-11-05
DESCRIPTION | 10 +-- R/create.ibd.dat.q | 11 ++- R/ibd.df.merlin.q | 9 ++- R/mergeIBD.q | 11 ++- R/printBanner.q | 124 ++++++++++++++++++++++---------------------- R/resources.q |only man/Ginv.Rd | 46 +++++++++++++++- man/align.ibd.var.Rd | 15 ++++- man/chibar3.w.Rd | 14 ++++ man/create.ibd.dat.Rd | 14 ++++ man/create.pairs.frame.Rd | 14 ++++ man/exact.ibd.var.Rd | 26 ++++++++- man/ibd.df.merlin.Rd | 14 ++++ man/ibd.moments.Rd | 15 ++++- man/ibdreg.Rd | 11 +++ man/linkage.all.Rd | 9 ++- man/linkage.tests.Rd | 9 ++- man/lsConstrain.fit.Rd | 9 ++- man/mergeIBD.Rd | 9 ++- man/minpRows.Rd | 9 ++- man/pairSum.Rd | 24 ++++++++ man/pchibar.Rd | 15 ++++- man/plot.ibdreg.Rd | 11 +++ man/plot.ibdreg.unexpect.Rd | 11 +++ man/plot.linkage.all.Rd | 20 ++++++- man/plot.linkage.tests.Rd | 20 ++++++- man/plotpval.Rd | 15 ++++- man/print.ibd.var.Rd | 20 ++++++- man/print.ibdreg.Rd | 13 +++- man/print.linkage.all.Rd | 21 ++++++- man/print.linkage.tests.Rd | 20 ++++++- man/printBanner.Rd | 36 ++++++++++++ man/resources.Rd |only man/sim.ibd.setup.Rd | 17 +++++- man/sim.ibd.var.Rd | 26 ++++++++- man/sim.mark.prop.Rd | 29 +++++++++- man/sr.class.Rd | 2 man/sr.strsplit.Rd | 2 38 files changed, 564 insertions(+), 117 deletions(-)
Author: Heloise Lavigne and Aurelien Proye and Jean-Pierre Gattuso. Portions of code and/or corrections were contributed by Jean-Marie Epitalon, Bernard Gentili, Jim Orr and Karline Soetaert
Title: Calculates parameters of the seawater carbonate system
Description: Calculates parameters of the seawater carbonate system
Diff between seacarb versions 2.0.2 dated 2008-10-29 and 2.0.3 dated 2008-11-04
seacarb-2.0.2/seacarb/R/Kf.r |only seacarb-2.0.3/seacarb/ChangeLog | 180 +++++++++--------- seacarb-2.0.3/seacarb/DESCRIPTION | 20 +- seacarb-2.0.3/seacarb/R/K1.R | 2 seacarb-2.0.3/seacarb/R/K1p.R | 26 +- seacarb-2.0.3/seacarb/R/K2.R | 2 seacarb-2.0.3/seacarb/R/K2p.R | 24 +- seacarb-2.0.3/seacarb/R/K3p.R | 24 +- seacarb-2.0.3/seacarb/R/Kb.R | 24 +- seacarb-2.0.3/seacarb/R/Kf.R |only seacarb-2.0.3/seacarb/R/Kh.R | 2 seacarb-2.0.3/seacarb/R/Khs.R | 23 +- seacarb-2.0.3/seacarb/R/Kn.R | 24 +- seacarb-2.0.3/seacarb/R/Ks.R | 24 +- seacarb-2.0.3/seacarb/R/Ksi.R | 26 ++ seacarb-2.0.3/seacarb/R/Kspa.R | 23 +- seacarb-2.0.3/seacarb/R/Kspc.R | 24 +- seacarb-2.0.3/seacarb/R/Kw.R | 22 +- seacarb-2.0.3/seacarb/R/buffer.R | 2 seacarb-2.0.3/seacarb/R/carb.R | 2 seacarb-2.0.3/seacarb/R/phinsi.R | 44 ++-- seacarb-2.0.3/seacarb/R/speciation.R | 2 seacarb-2.0.3/seacarb/README | 20 +- seacarb-2.0.3/seacarb/data/seacarb_test.txt | 40 ++-- seacarb-2.0.3/seacarb/man/K1.Rd | 90 ++++----- seacarb-2.0.3/seacarb/man/K1p.Rd | 74 +++---- seacarb-2.0.3/seacarb/man/K2.Rd | 92 ++++----- seacarb-2.0.3/seacarb/man/K2p.Rd | 74 +++---- seacarb-2.0.3/seacarb/man/K3p.Rd | 73 +++---- seacarb-2.0.3/seacarb/man/Kb.Rd | 72 +++---- seacarb-2.0.3/seacarb/man/Kf.Rd | 9 seacarb-2.0.3/seacarb/man/Kh.Rd | 62 +++--- seacarb-2.0.3/seacarb/man/Khs.Rd | 72 +++---- seacarb-2.0.3/seacarb/man/Kn.Rd | 70 +++---- seacarb-2.0.3/seacarb/man/Ks.Rd | 72 +++---- seacarb-2.0.3/seacarb/man/Ksi.Rd | 70 +++---- seacarb-2.0.3/seacarb/man/Kspa.Rd | 70 +++---- seacarb-2.0.3/seacarb/man/Kspc.Rd | 71 +++---- seacarb-2.0.3/seacarb/man/Kw.Rd | 64 +++--- seacarb-2.0.3/seacarb/man/bjerrum.Rd | 168 ++++++++--------- seacarb-2.0.3/seacarb/man/bor.Rd | 66 +++--- seacarb-2.0.3/seacarb/man/buffer.Rd | 240 ++++++++++++------------- seacarb-2.0.3/seacarb/man/carb.Rd | 268 ++++++++++++++-------------- seacarb-2.0.3/seacarb/man/kconv.Rd | 86 ++++---- seacarb-2.0.3/seacarb/man/pCa.Rd | 196 ++++++++++---------- seacarb-2.0.3/seacarb/man/pHconv.Rd | 82 ++++---- seacarb-2.0.3/seacarb/man/pTA.Rd | 202 ++++++++++----------- seacarb-2.0.3/seacarb/man/pgas.Rd | 192 ++++++++++---------- seacarb-2.0.3/seacarb/man/phinsi.Rd | 76 +++---- seacarb-2.0.3/seacarb/man/pmix.Rd | 194 ++++++++++---------- seacarb-2.0.3/seacarb/man/ppH.Rd | 202 ++++++++++----------- seacarb-2.0.3/seacarb/man/rho.Rd | 64 +++--- seacarb-2.0.3/seacarb/man/speciation.Rd | 122 ++++++------ 53 files changed, 1965 insertions(+), 1808 deletions(-)
Author: Hadley Wickham
Diff between reshape versions 0.8.1 dated 2008-09-28 and 0.8.2 dated 2008-11-04
Title: Flexibly reshape data.
Description: Reshape lets you flexibly restructure and aggregate data using just two functions: melt and cast.
DESCRIPTION | 6 -
NEWS | 10 ++
R/cast.r | 205 ++++++++++++++++++++++++----------------------
R/condense.r | 48 +++++-----
R/formula.r | 64 +++++++-------
R/margins.r | 124 +++++++++++++--------------
R/melt.r | 3
R/stamp.r | 8 -
man/cast-9g.rd | 4
man/melt-data-frame-da.rd | 3
man/reshape-4u.rd | 2
man/stamp-fw.rd | 9 --
12 files changed, 247 insertions(+), 239 deletions(-)
Author: Felix Andrews
Diff between playwith versions 0.9-32 dated 2008-10-22 and 0.9-40 dated 2008-11-04
Title: A GUI for interactive plots using GTK+
Description: A GTK+ graphical user interface for exploring and editing R plots.
playwith-0.9-32/playwith/R/latticeStyleGUI.R |only
playwith-0.9-32/playwith/R/latticist.R |only
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playwith-0.9-40/playwith/DESCRIPTION | 11 +--
playwith-0.9-40/playwith/NAMESPACE | 29 +--------
playwith-0.9-40/playwith/R/apiAnnotation.R | 4 -
playwith-0.9-40/playwith/R/apiMain.R | 4 +
playwith-0.9-40/playwith/R/panel.misc.R |only
playwith-0.9-40/playwith/R/playwith.R | 65 ++++++++++++++-------
playwith-0.9-40/playwith/R/uiClickActions.R | 3
playwith-0.9-40/playwith/R/uiGlobalActions.R | 5 +
playwith-0.9-40/playwith/R/uiOptionsActions.R | 5 +
playwith-0.9-40/playwith/R/uiPlotActions.R | 36 +++++++----
playwith-0.9-40/playwith/R/uiStyleActions.R | 1
playwith-0.9-40/playwith/inst/NEWS | 8 ++
playwith-0.9-40/playwith/man/playState.Rd | 7 --
playwith-0.9-40/playwith/man/playwith.Rd | 1
24 files changed, 105 insertions(+), 74 deletions(-)
Author: Karline Soetaert
Diff between marelac versions 1.1 dated 2008-10-16 and 1.2 dated 2008-11-04
Title: Datasets, constants, conversion factors, utilities for the marine and lacustrine sciences
Description: Datasets, chemical and physical constants and functions, routines for unit conversions, etc, for the marine and lacustrine sciences
DESCRIPTION | 4
inst/doc/Answers.pdf |binary
inst/doc/UsingR.pdf | 4074 ++++++++++++---------
inst/doc/UsingR.rnw | 8
inst/doc/marelac.pdf | 6487 ++++++++++++++++++++++-------------
inst/doc/vignettes.bib | 7
inst/lecture/R_reference.pdf |binary
inst/lecture/ScientificComputing.pdf |binary
man/marelac.Rd | 4
9 files changed, 6507 insertions(+), 4077 deletions(-)
Author: Tarn Duong
Diff between feature versions 1.1-13 dated 2008-04-24 and 1.1-14 dated 2008-11-04
Title: Feature significance for multivariate kernel density estimation
Description: Feature significance for multivariate kernel density estimation
feature-1.1-13/feature/inst/doc/Rplots.ps |only
feature-1.1-14/feature/DESCRIPTION | 12 +++---
feature-1.1-14/feature/R/SignifFeatureRegion.R | 16 +++++---
feature-1.1-14/feature/R/dfltBWrange.R | 47 ++++++++++++-------------
feature-1.1-14/feature/R/featureSignif.R | 8 ++--
feature-1.1-14/feature/inst/doc/feature.Rnw | 8 ++--
feature-1.1-14/feature/inst/doc/feature.log | 4 +-
feature-1.1-14/feature/inst/doc/feature.pdf |binary
feature-1.1-14/feature/inst/doc/feature.tex | 8 ++--
feature-1.1-14/feature/man/drvkde.Rd | 5 +-
feature-1.1-14/feature/man/earthquake.Rd | 4 +-
feature-1.1-14/feature/man/feature-package.Rd | 6 +--
feature-1.1-14/feature/man/featureSignif.Rd | 20 +++++-----
13 files changed, 73 insertions(+), 65 deletions(-)
Author: Holger Froehlich
Diff between GOSim versions 1.1.5.1 dated 2008-09-15 and 1.1.5.2 dated 2008-11-04
Title: Computation of functional similarities between GO terms and gene products; GO enrichement analysis
Description: This package implements several functions useful for
computing similarities between GO terms and gene products based on their GO annotation. Moreover it allows for computing a GO enrichment analysis
GOSim-1.1.5.1/GOSim/inst/doc/GOSim.bbl |only
GOSim-1.1.5.1/GOSim/inst/doc/GOSim.blg |only
GOSim-1.1.5.2/GOSim/DESCRIPTION | 6
GOSim-1.1.5.2/GOSim/R/geneSimilarity.R | 5
GOSim-1.1.5.2/GOSim/R/termSimilarity.R | 12
GOSim-1.1.5.2/GOSim/inst/doc/GOSim.pdf | 2034 ++++++++++++++++-----------------
6 files changed, 1056 insertions(+), 1001 deletions(-)
Author: Frank E Harrell Jr
Diff between Design versions 2.1-1 dated 2007-06-18 and 2.1-2 dated 2008-11-04
Title: Design Package
Description: Regression modeling, testing, estimation, validation,
graphics, prediction, and typesetting by storing enhanced model design
attributes in the fit. Design is a collection of about 180 functions
that assist and streamline modeling, especially for biostatistical and
epidemiologic applications. It also contains new functions for binary
and ordinal logistic regression models and the Buckley-James multiple
regression model for right-censored responses, and implements
penalized maximum likelihood estimation for logistic and ordinary
linear models. Design works with almost any regression model, but it
was especially written to work with logistic regression, Cox
regression, accelerated failure time models, ordinary linear models,
the Buckley-James model, and generalized least squares for
serially or spatially correlated observations.
DESCRIPTION | 6 +++---
man/Overview.Rd | 5 +++--
2 files changed, 6 insertions(+), 5 deletions(-)
Author: Adrian Raftery
Diff between BMA versions 3.03 dated 2006-07-19 and 3.05 dated 2008-11-04
Title: Bayesian Model Averaging
Description: Package for Bayesian model averaging for linear models, generalizable linear models and survival models (cox regression).
BMA-3.03/BMA/man/as.data.frame.mc3.Rd |only
BMA-3.05/BMA/DESCRIPTION | 6 +++---
BMA-3.05/BMA/R/bicreg.R | 2 +-
BMA-3.05/BMA/R/glib.R | 2 +-
BMA-3.05/BMA/man/MC3.REG.Rd | 2 ++
BMA-3.05/BMA/src/fwleaps.f | 11 ++++++-----
6 files changed, 13 insertions(+), 10 deletions(-)
Author: Hsin-ya Lee
Diff between stab versions 0.0.4 dated 2008-10-29 and 0.0.5 dated 2008-11-04
Title: data analysis of drug stability
Description: A menu-driven package for data analysis of drug stability based on ICH guideline(such as estimation of shelf-life from a 3-batch profile.)
DESCRIPTION | 6 +++---
R/MultipleAnalyze.r | 12 +++---------
R/SingleAnalyze.r | 8 +++++---
R/demostability.r | 2 +-
R/zzz.R | 2 +-
5 files changed, 13 insertions(+), 17 deletions(-)
Author: Frank Schaarschmidt, Daniel Gerhard
Title: Confidence intervals for two sample comparisons
Description: Calculation of the parametric, nonparametric confidence intervals
for the difference or ratio of location parameters and for the difference, ratio
and odds-ratio of binomial proportions for comparison of independent samples.
CI are not adjusted for multiplicity. A by statement allows calculation of CI
separately for the levels of further factors. Please note that, when a (generalized)
linear model can be reasonably assumed, there are smarter methods for CI calculation
available than are implemented in this package!
Diff between pairwiseCI versions 0.1-13 dated 2008-06-09 and 0.1-15 dated 2008-11-04
DESCRIPTION | 10 +++--- R/HD.diff.R | 66 ++++++++++++++++++++++++++++++++++++++++-- R/HD.ratio.R | 65 +++++++++++++++++++++++++++++++++++++++-- R/HL.ratio.R | 2 - R/Median.ratio.R | 3 - R/Prop.diff.R | 2 - R/Prop.or.R | 2 - R/Prop.ratio.R | 11 ++----- man/Oats.Rd | 1 man/pairwiseCI.Rd | 18 ++++++++--- man/pairwiseCI.package.Rd | 2 - man/pairwiseCImethodsCont.Rd | 4 +- man/pairwiseCImethodsCount.Rd | 10 ++++-- man/pairwiseCImethodsProp.Rd | 8 ++--- man/plotCI.pairwiseMEP.Rd | 2 - 15 files changed, 166 insertions(+), 40 deletions(-)
Author: Hsin Ya Lee
Diff between ivivc versions 0.1.3 dated 2008-10-30 and 0.1.4 dated 2008-11-04
Title: in vitro-in vivo correlation (IVIVC) modeling
Description: a menu-driven package for IVIVC model buidling and model validation
DESCRIPTION | 6 +++---
R/WagNel.R | 5 +----
R/ivivc.r | 4 ++--
R/plotting.lin.R | 4 +---
R/plotting.non.R | 7 +++----
R/zzz.R | 2 +-
6 files changed, 11 insertions(+), 17 deletions(-)
Author: Christian Ritz
Diff between drc versions 1.4-7 dated 2008-09-18 and 1.5-0 dated 2008-11-04
Title: Analysis of dose-response curves
Description: Analysis of one or multiple curves with focus on concentration-response, dose-response and time-response curves used, for example in biology, environmental sciences, medicine, pharmacology, toxicology.
drc-1.4-7/drc/R/ED.R |only
drc-1.4-7/drc/man/ED.Rd |only
drc-1.5-0/drc/DESCRIPTION | 6
drc-1.5-0/drc/NAMESPACE | 11
drc-1.5-0/drc/R/ED.drc.R |only
drc-1.5-0/drc/R/PR.R | 2
drc-1.5-0/drc/R/asymreg.R | 2
drc-1.5-0/drc/R/drm.R | 4
drc-1.5-0/drc/R/expdecay.R | 4
drc-1.5-0/drc/R/mrdrm.R |only
drc-1.5-0/drc/R/plot.drc.R | 513 ++++++++++++++++----------------------
drc-1.5-0/drc/R/predict.drc.R | 4
drc-1.5-0/drc/R/simFct.R |only
drc-1.5-0/drc/data/lepidium.rda |only
drc-1.5-0/drc/data/lettuce.rda |binary
drc-1.5-0/drc/data/nasturtium.rda |only
drc-1.5-0/drc/man/ED.drc.Rd |only
drc-1.5-0/drc/man/O.mykiss.Rd | 4
drc-1.5-0/drc/man/SI.Rd | 2
drc-1.5-0/drc/man/asymreg.Rd | 2
drc-1.5-0/drc/man/comped.Rd | 2
drc-1.5-0/drc/man/deguelin.Rd | 4
drc-1.5-0/drc/man/drm.Rd | 2
drc-1.5-0/drc/man/expdecay.Rd | 10
drc-1.5-0/drc/man/lepidium.Rd |only
drc-1.5-0/drc/man/lettuce.Rd | 4
drc-1.5-0/drc/man/mrdrm.Rd |only
drc-1.5-0/drc/man/multdrc.Rd | 2
drc-1.5-0/drc/man/nasturtium.Rd |only
drc-1.5-0/drc/man/plot.drc.Rd | 80 +++--
drc-1.5-0/drc/man/predict.drc.Rd | 18 -
drc-1.5-0/drc/man/print.drc.Rd | 2
32 files changed, 308 insertions(+), 370 deletions(-)
Author: Sebastian P. Luque
Diff between diveMove versions 0.9.3 dated 2008-10-24 and 0.9.4 dated 2008-11-04
Title: Dive analysis and calibration
Description: Functions to filter and summarize time-depth recorder (TDR)
data, and miscellaneous functions for handling location data.
ChangeLog | 18 +++++++++++++++
DESCRIPTION | 4 +--
R/AllGenerics.R | 14 ++++++------
R/AllMethod.R | 26 +++++++++++-----------
R/plotTD.R | 8 +++---
README | 9 +++++++
inst/doc/diveMove.Rnw | 18 ++++++++++++---
inst/doc/diveMove.pdf |binary
man/TDR-accessors.Rd | 16 ++++++++-----
man/TDR-class.Rd | 49 +++++++++++++++++++++---------------------
man/TDRcalibrate-accessors.Rd | 12 +++++-----
man/TDRcalibrate-class.Rd | 32 +++++++++++++--------------
man/austFilter.Rd | 3 --
man/bout-methods.Rd | 10 ++++----
man/bout-misc.Rd | 13 ++++++-----
man/bouts2MLE.Rd | 22 +++++++++++-------
man/bouts2NLS.Rd | 9 ++++++-
man/calibrateDepth.Rd | 26 +++++++++++-----------
man/calibrateSpeed.Rd | 11 ++++-----
man/detDive-internal.Rd | 15 ++++++------
man/detPhase-internal.Rd | 35 +++++++++++++++---------------
man/distSpeed.Rd | 8 ++----
man/diveMove-internal.Rd | 3 --
man/diveMove-package.Rd | 17 ++++++--------
man/diveStats.Rd | 11 ++++-----
man/dives.Rd | 22 +++++++++---------
man/extractDive-methods.Rd | 11 ++++++---
man/labDive-internal.Rd | 12 ++++++----
man/plotTDR-methods.Rd | 18 ++++++++-------
man/readTDR.Rd | 34 +++++++++++++++++++----------
man/timeBudget-methods.Rd | 12 ++++++++--
man/zoc.Rd | 13 +++++------
tests/class-tests.R | 12 +++++++---
33 files changed, 302 insertions(+), 221 deletions(-)
Author: MetrumRG
Diff between MIfuns versions 3.2.7 dated 2008-10-20 and 3.2.9 dated 2008-11-04
Title: Pharmacometric tools for data preparation, analysis, simulation, and reporting
Description: Pharmacometric tools for common data preparation tasks, stratified bootstrap resampling of data sets, NONMEM control stream creation/editing, NONMEM model execution, creation of standard and user-defined diagnostic plots, execution and summary of bootstrap and predictive check results, implementation of simulations from posterior parameter distributions, reporting of output tables and creation of a detailed analysis log. All functions are considered stable unless marked as beta.
MIfuns-3.2.7/MIfuns/R/Ops.miDate.R |only
MIfuns-3.2.7/MIfuns/R/Ops.miDateTime.R |only
MIfuns-3.2.7/MIfuns/R/Ops.miTime.R |only
MIfuns-3.2.7/MIfuns/R/as.character.miDateTime.R |only
MIfuns-3.2.7/MIfuns/R/as.character.miTime.R |only
MIfuns-3.2.7/MIfuns/R/as.data.frame.miDateTime.R |only
MIfuns-3.2.7/MIfuns/R/as.data.frame.miTime.R |only
MIfuns-3.2.7/MIfuns/R/as.miDate.R |only
MIfuns-3.2.7/MIfuns/R/as.miDate.default.R |only
MIfuns-3.2.7/MIfuns/R/as.miDate.miDate.R |only
MIfuns-3.2.7/MIfuns/R/as.miDate.miDateTime.R |only
MIfuns-3.2.7/MIfuns/R/as.miDate.numeric.R |only
MIfuns-3.2.7/MIfuns/R/as.miDateTime.R |only
MIfuns-3.2.7/MIfuns/R/as.miDateTime.default.R |only
MIfuns-3.2.7/MIfuns/R/as.miDateTime.miDate.R |only
MIfuns-3.2.7/MIfuns/R/as.miDateTime.miDateTime.R |only
MIfuns-3.2.7/MIfuns/R/as.miDateTime.numeric.R |only
MIfuns-3.2.7/MIfuns/R/as.miTime.R |only
MIfuns-3.2.7/MIfuns/R/as.miTime.default.R |only
MIfuns-3.2.7/MIfuns/R/as.miTime.miDateTime.R |only
MIfuns-3.2.7/MIfuns/R/as.miTime.miTime.R |only
MIfuns-3.2.7/MIfuns/R/as.miTime.numeric.R |only
MIfuns-3.2.7/MIfuns/R/bwplot.distribution.R |only
MIfuns-3.2.7/MIfuns/R/c.miDateTime.R |only
MIfuns-3.2.7/MIfuns/R/c.miTime.R |only
MIfuns-3.2.7/MIfuns/R/format.miDate.R |only
MIfuns-3.2.7/MIfuns/R/format.miDateTime.R |only
MIfuns-3.2.7/MIfuns/R/format.miTime.R |only
MIfuns-3.2.7/MIfuns/R/print.miDateTime.R |only
MIfuns-3.2.7/MIfuns/R/print.miTime.R |only
MIfuns-3.2.7/MIfuns/R/rep.miTime.R |only
MIfuns-3.2.7/MIfuns/R/seq.miDate.R |only
MIfuns-3.2.7/MIfuns/R/z[.miDateTime.R |only
MIfuns-3.2.7/MIfuns/R/z[.miTime.R |only
MIfuns-3.2.7/MIfuns/R/z[[.miDateTime.R |only
MIfuns-3.2.7/MIfuns/R/z[[.miTime.R |only
MIfuns-3.2.7/MIfuns/R/z[_-.miDateTime.R |only
MIfuns-3.2.7/MIfuns/R/z[_-.miTime.R |only
MIfuns-3.2.7/MIfuns/man/Ops.miDate.Rd |only
MIfuns-3.2.7/MIfuns/man/as.data.frame.miDateTime.Rd |only
MIfuns-3.2.7/MIfuns/man/as.data.frame.miTime.Rd |only
MIfuns-3.2.7/MIfuns/man/as.miDate.Rd |only
MIfuns-3.2.7/MIfuns/man/as.miDate.miDate.Rd |only
MIfuns-3.2.7/MIfuns/man/as.miDate.miDateTime.Rd |only
MIfuns-3.2.7/MIfuns/man/as.miDateTime.Rd |only
MIfuns-3.2.7/MIfuns/man/as.miTime.Rd |only
MIfuns-3.2.7/MIfuns/man/as.miTime.miDateTime.Rd |only
MIfuns-3.2.7/MIfuns/man/c.miTime.Rd |only
MIfuns-3.2.7/MIfuns/man/format.miDate.Rd |only
MIfuns-3.2.7/MIfuns/man/rep.miTime.Rd |only
MIfuns-3.2.7/MIfuns/man/seq.miDate.Rd |only
MIfuns-3.2.9/MIfuns/DESCRIPTION | 6 +-
MIfuns-3.2.9/MIfuns/R/covplot.R |only
MIfuns-3.2.9/MIfuns/R/doCov.R | 4 -
MIfuns-3.2.9/MIfuns/R/miTemporal.R |only
MIfuns-3.2.9/MIfuns/R/runmsge.R | 50 +++++++++-------
MIfuns-3.2.9/MIfuns/R/zzz.R | 3 -
MIfuns-3.2.9/MIfuns/man/MIfuns-package.Rd | 12 +---
MIfuns-3.2.9/MIfuns/man/accept.Rd | 60 --------------------
MIfuns-3.2.9/MIfuns/man/as.distribution.Rd | 8 +-
MIfuns-3.2.9/MIfuns/man/c.miTemporal.Rd |only
MIfuns-3.2.9/MIfuns/man/covplot.Rd | 37 +++++++-----
MIfuns-3.2.9/MIfuns/man/covplot.stats.Rd | 4 -
MIfuns-3.2.9/MIfuns/man/miTemporal.Rd |only
MIfuns-3.2.9/MIfuns/man/panel.covplot.Rd | 2
65 files changed, 66 insertions(+), 120 deletions(-)
Author: Frank E Harrell Jr
Diff between Hmisc versions 3.4-3 dated 2007-11-03 and 3.4-4 dated 2008-11-04
Title: Harrell Miscellaneous
Description: The Hmisc library contains many functions useful for data
analysis, high-level graphics, utility operations, functions for
computing sample size and power, importing datasets,
imputing missing values, advanced table making, variable clustering,
character string manipulation, conversion of S objects to LaTeX code,
and recoding variables. Please submit bug reports to
'http://biostat.mc.vanderbilt.edu/trac/Hmisc'.
DESCRIPTION | 6 +++---
R/dataRep.s | 6 ------
R/summary.formula.s | 2 +-
man/eip.Rd | 16 ++++++++--------
4 files changed, 12 insertions(+), 18 deletions(-)
Author: John Fox, Michael Friendly, and Georges Monette
Title: Visualizing Tests in Multivariate Linear Models
Description: Represents sums-of-squares-and-products matrices for linear hypotheses and for error using ellipses (in two dimensions) and ellipsoids (in three dimensions).
Diff between heplots versions 0.8-0 dated 2007-02-01 and 0.8-1 dated 2008-11-03
DESCRIPTION | 6 +++--- R/heplot.mlm.R | 23 ++++++++++++++++++----- inst/CHANGES | 7 ++++++- man/heplot-package.Rd | 4 ++-- man/heplot.Rd | 6 ++++-- 5 files changed, 33 insertions(+), 13 deletions(-)
Author: Friedrich Leisch
Title: Flexible Cluster Algorithms
Description: The main function kcca implements a general framework for
k-centroids cluster analysis supporting arbitrary
distance measures and centroid computation. Further
cluster methods include hard competitive learning, neural gas, and QT
clustering.
Diff between flexclust versions 0.99-0 dated 2008-05-09 and 0.99-1 dated 2008-11-03
DESCRIPTION | 16 ++++---- NAMESPACE | 3 + NEWS | 23 ++++++++++++ R/AAA-classes.R | 6 +-- R/cclust.R | 9 ++++ R/conversion.R | 18 ++++++++- R/info.R | 52 ++++++++++++++++++++++++++++ R/kcca.R | 94 +++++++++++++++++++--------------------------------- R/plot.R | 10 ++--- R/projAxes.R | 21 ++++------- R/qtclust.R | 34 +++++++++--------- R/tour.R | 2 - R/utils.R | 24 ++++++++++++- inst/NEWS | 23 ++++++++++++ man/Nclus.Rd | 5 +- man/cclust.Rd | 2 - man/clusterSim.Rd |only man/conversion.Rd | 8 ++-- man/info.Rd | 2 - man/kcca.Rd | 11 +----- man/plot-methods.Rd | 2 - man/projAxes.Rd | 31 ++++++++++++----- man/qtclust.Rd | 26 +++++++------- man/randomTour.Rd | 2 - src/cclust.c | 16 +++++--- tests/weights.R |only 26 files changed, 285 insertions(+), 155 deletions(-)
Author: Arnaud Estoup, Gilles Guillot, Filipe Santos
Title: Simulation and MCMC inference of structure from genetic data
Description: Detection of structure from multilocus genetic data.
Diff between Geneland versions 3.1.2 dated 2008-09-29 and 3.1.3 dated 2008-11-03
ChangeLog | 11 +++-------- DESCRIPTION | 6 +++--- R/PlotDrift.R | 2 +- R/PlotFreqA.R | 2 +- R/PlotTessellation.R | 2 +- R/PosteriorMode.R | 2 +- R/show.simdata.R | 10 +++++----- R/zzz.R | 2 +- inst/doc/Geneland-Doc.pdf |binary 9 files changed, 16 insertions(+), 21 deletions(-)
Author: Jeff Gill
Diff between BaM versions 0.9 dated 2008-10-21 and 0.91 dated 2008-11-03
Title: Functions and datasets for books by Jeff Gill.
Description: Books is "Bayesian Methods: A Social and Behavioral Sciences Approach, Second Edition published by CRC Press, 2007"
DESCRIPTION | 6 +++---
data/child.rda |only
man/child.Rd |only
3 files changed, 3 insertions(+), 3 deletions(-)
Author: Martyn Plummer
Title: Bayesian graphical models using MCMC
Description: Interface to the JAGS MCMC library
Diff between rjags versions 1.0.3-3 dated 2008-09-01 and 1.0.3-4 dated 2008-11-03
rjags-1.0.3-3/rjags/src/Makevars.new |only rjags-1.0.3-4/rjags/DESCRIPTION | 6 - rjags-1.0.3-4/rjags/R/jags.R | 142 +++++++++++++++++++++++++++++---- rjags-1.0.3-4/rjags/configure | 4 rjags-1.0.3-4/rjags/configure.ac | 4 rjags-1.0.3-4/rjags/man/dic.samples.Rd | 4 rjags-1.0.3-4/rjags/man/diffdic.Rd | 4 rjags-1.0.3-4/rjags/man/jags.model.Rd | 62 +++++++++++--- rjags-1.0.3-4/rjags/src/jags.cc | 51 ++++++++++- 9 files changed, 230 insertions(+), 47 deletions(-)
Author: Christopher Jackson
Title: Density strips and other methods for compactly illustrating distributions
Description: Graphical methods for compactly illustrating probability distributions, including density strips, density regions, sectioned density plots and varying width strips.
Diff between denstrip versions 1.1 dated 2008-08-22 and 1.2 dated 2008-11-03
ChangeLog | 27 ++++ DESCRIPTION | 6 - R/denstrip.R | 267 ++++++++++++++++++++++++++++++++++------------ inst/CITATION | 6 - inst/NEWS | 10 + man/bpstrip.Rd | 27 +++- man/cistrip.Rd | 11 + man/densregion.Rd | 5 man/densregion.normal.Rd | 2 man/densregion.survfit.Rd | 2 man/denstrip-package.Rd | 6 - man/denstrip.Rd | 42 +++++-- man/denstrip.legend.Rd | 23 +++ man/denstrip.normal.Rd | 7 + man/sectioned.density.Rd | 15 ++ man/vwstrip.Rd | 26 +++- man/vwstrip.normal.Rd | 7 + 17 files changed, 377 insertions(+), 112 deletions(-)
Author: James Carpenter
Diff between copas versions 0.5-1 dated 2008-05-14 and 0.6-1 dated 2008-11-03
Title: Statistical methods to model and adjust for bias in meta-analysis
Description: Copas selection model.
DESCRIPTION | 6 +++---
INDEX | 1 +
R/plot.copas.R | 10 ++++++++--
data |only
man/Crowther2003.Rd |only
man/copas.Rd | 2 +-
man/plot.copas.Rd | 14 +++++++++++++-
7 files changed, 26 insertions(+), 7 deletions(-)
Author: Christophe Dutang and Diethelm Wuertz (except some R port of the SFMT algorithm from M. Matsumoto, M. Saito and WELL generator from P. L'Ecuyer, Knuth-TAOCP RNG from D. Knuth and the Sobol sequence from the ACM transactions). See LICENCE file for details.
Title: toolbox for pseudo and quasi random number generation and RNG tests.
Description: The package provides (1) pseudo random generators - general linear congruential generators (Park Miller) and multiple recursive generators (Knuth TAOCP), generalized feedback shift register (SF-Mersenne Twister algorithm and WELL generator); (2) a quasi random generator - the Torus algorithm, the Sobol sequence, the Halton sequence (thus include Van der Corput sequence) and (3) some additional tests such as the gap test, the serial test, the poker test... For true random number generation, use the 'random' package and for Latin Hypercube Sampling (a hybrid qmc method), use the 'lhs' package both available on CRAN.
Diff between randtoolbox versions 1.04 dated 2008-09-03 and 1.05 dated 2008-11-03
randtoolbox-1.04/randtoolbox/R/randgen.R |only randtoolbox-1.04/randtoolbox/inst/doc/.build.timestamp |only randtoolbox-1.04/randtoolbox/man/randgen.Rd |only randtoolbox-1.05/randtoolbox/DESCRIPTION | 10 randtoolbox-1.05/randtoolbox/LICENCE | 27 randtoolbox-1.05/randtoolbox/NAMESPACE | 16 randtoolbox-1.05/randtoolbox/R/pseudoRNG.R |only randtoolbox-1.05/randtoolbox/R/qmc.R | 1 randtoolbox-1.05/randtoolbox/R/quasiRNG.R |only randtoolbox-1.05/randtoolbox/R/randtoolboxEnv.R |only randtoolbox-1.05/randtoolbox/R/testrng.R | 3 randtoolbox-1.05/randtoolbox/configure | 760 - randtoolbox-1.05/randtoolbox/configure.ac | 140 randtoolbox-1.05/randtoolbox/inst/DocCopying.pdf |only randtoolbox-1.05/randtoolbox/inst/NEWS | 19 randtoolbox-1.05/randtoolbox/inst/doc/randtoolbox.Rnw | 4 randtoolbox-1.05/randtoolbox/inst/doc/randtoolbox.pdf |10527 +++++++++++------ randtoolbox-1.05/randtoolbox/man/aux.Rd | 1 randtoolbox-1.05/randtoolbox/man/pseudoRNG.Rd |only randtoolbox-1.05/randtoolbox/man/quasiRNG.Rd |only randtoolbox-1.05/randtoolbox/src/LowDiscrepancy.f |only randtoolbox-1.05/randtoolbox/src/Makevars |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-11213-1.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-1279-1.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-132049-1.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-19937-1.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-216091-1.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-2281-1.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-4253-1.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-44497-1.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-607-1.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-607-10.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-607-11.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-607-12.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-607-13.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-607-14.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-607-15.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-607-16.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-607-17.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-607-18.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-607-19.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-607-2.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-607-20.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-607-21.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-607-22.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-607-23.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-607-24.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-607-25.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-607-26.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-607-27.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-607-28.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-607-29.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-607-3.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-607-30.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-607-31.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-607-32.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-607-4.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-607-5.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-607-6.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-607-7.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-607-8.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-607-9.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2-86243-1.h |only randtoolbox-1.05/randtoolbox/src/SFMT-sse2.h | 208 randtoolbox-1.05/randtoolbox/src/SFMT.c | 539 randtoolbox-1.05/randtoolbox/src/SFMT.h | 52 randtoolbox-1.05/randtoolbox/src/WELL1024a.h | 5 randtoolbox-1.05/randtoolbox/src/WELL1024b.c |only randtoolbox-1.05/randtoolbox/src/WELL1024b.h |only randtoolbox-1.05/randtoolbox/src/WELL19937a.c | 87 randtoolbox-1.05/randtoolbox/src/WELL19937a.h | 6 randtoolbox-1.05/randtoolbox/src/WELL19937aTemp.c |only randtoolbox-1.05/randtoolbox/src/WELL19937aTemp.h |only randtoolbox-1.05/randtoolbox/src/WELL19937b.c |only randtoolbox-1.05/randtoolbox/src/WELL19937b.h |only randtoolbox-1.05/randtoolbox/src/WELL19937bTemp.c |only randtoolbox-1.05/randtoolbox/src/WELL19937bTemp.h |only randtoolbox-1.05/randtoolbox/src/WELL21701a.c |only randtoolbox-1.05/randtoolbox/src/WELL21701a.h |only randtoolbox-1.05/randtoolbox/src/WELL21701aTemp.c |only randtoolbox-1.05/randtoolbox/src/WELL21701aTemp.h |only randtoolbox-1.05/randtoolbox/src/WELL23209a.c |only randtoolbox-1.05/randtoolbox/src/WELL23209a.h |only randtoolbox-1.05/randtoolbox/src/WELL23209aTemp.c |only randtoolbox-1.05/randtoolbox/src/WELL23209aTemp.h |only randtoolbox-1.05/randtoolbox/src/WELL23209b.c |only randtoolbox-1.05/randtoolbox/src/WELL23209b.h |only randtoolbox-1.05/randtoolbox/src/WELL23209bTemp.c |only randtoolbox-1.05/randtoolbox/src/WELL23209bTemp.h |only randtoolbox-1.05/randtoolbox/src/WELL44497a.c | 82 randtoolbox-1.05/randtoolbox/src/WELL44497a.h | 6 randtoolbox-1.05/randtoolbox/src/WELL44497aTemp.c |only randtoolbox-1.05/randtoolbox/src/WELL44497aTemp.h |only randtoolbox-1.05/randtoolbox/src/WELL512a.h | 4 randtoolbox-1.05/randtoolbox/src/WELL521a.c | 137 randtoolbox-1.05/randtoolbox/src/WELL521a.h | 8 randtoolbox-1.05/randtoolbox/src/WELL521b.c |only randtoolbox-1.05/randtoolbox/src/WELL521b.h |only randtoolbox-1.05/randtoolbox/src/WELL607a.c |only randtoolbox-1.05/randtoolbox/src/WELL607a.h |only randtoolbox-1.05/randtoolbox/src/WELL607b.c |only randtoolbox-1.05/randtoolbox/src/WELL607b.h |only randtoolbox-1.05/randtoolbox/src/WELL800a.c |only randtoolbox-1.05/randtoolbox/src/WELL800a.h |only randtoolbox-1.05/randtoolbox/src/WELL800aTemp.c |only randtoolbox-1.05/randtoolbox/src/WELL800aTemp.h |only randtoolbox-1.05/randtoolbox/src/WELL800b.c |only randtoolbox-1.05/randtoolbox/src/WELL800b.h |only randtoolbox-1.05/randtoolbox/src/WELL800bTemp.c |only randtoolbox-1.05/randtoolbox/src/WELL800bTemp.h |only randtoolbox-1.05/randtoolbox/src/config.h | 22 randtoolbox-1.05/randtoolbox/src/config.h.in | 18 randtoolbox-1.05/randtoolbox/src/config.h.win | 9 randtoolbox-1.05/randtoolbox/src/init.c | 4 randtoolbox-1.05/randtoolbox/src/knuthTAOCP2002.h | 4 randtoolbox-1.05/randtoolbox/src/locale.h | 1 randtoolbox-1.05/randtoolbox/src/randtoolbox.c | 391 randtoolbox-1.05/randtoolbox/src/randtoolbox.h | 44 118 files changed, 9150 insertions(+), 3985 deletions(-)
Author: Paul Gilbert
Diff between TSpadi versions 2008.8-1 dated 2008-08-06 and 2008.11-1 dated 2008-11-03
Title: TSdbi methods for PADI Time Series Server Interface
Description: Provides methods for generics in the TSdbi package to
connect through a protocol for application database interface (PADI)
to a time series database (e.g. Fame).
TSpadi-2008.11-1/TSpadi/DESCRIPTION | 17 +++++++++--------
TSpadi-2008.11-1/TSpadi/NAMESPACE | 5 +++--
TSpadi-2008.11-1/TSpadi/R/TSdbiMethods.R |only
TSpadi-2008.11-1/TSpadi/inst/doc/TSpadiFame.Stex | 2 +-
TSpadi-2008.11-1/TSpadi/inst/doc/TSpadiFame.pdf |binary
TSpadi-2008.11-1/TSpadi/man/TSdbiMethods.Rd |only
TSpadi-2008.8-1/TSpadi/R/padiFame.R |only
TSpadi-2008.8-1/TSpadi/man/padiFame.Rd |only
8 files changed, 13 insertions(+), 11 deletions(-)
Author: Paul Gilbert
Diff between TSdbi versions 2008.8-1 dated 2008-08-06 and 2008.11-1 dated 2008-11-03
Title: Time Series Database Interface
Description: TSdbi provides a common interface to time series databases. The
objective is to define a standard interface so users can retrieve time
series data from various sources with a simple, common, set of
commands, and so programs can be written to be portable with respect
to the data source. The SQL implementations also provide a database
table design, so users needing to set up a time series database
have a reasonably complete way to do this easily. The interface
provides for a variety of options with respect to the representation
of time series in R. There is also a (not yet well tested) mechanism to
handle multilingual data documentation.
DESCRIPTION | 19 +
NAMESPACE | 16 -
NEWS | 60 +++--
R/TSdbi.R | 486 ++++++++++++++++++++++++++----------------
inst/TSsql/CreateTables.TSsql | 30 +-
inst/TSsql/HistQuote.TSsql | 2
inst/TSsql/vintages.TSsql | 46 ++-
inst/doc/TSdbi.Stex | 231 +++++++++++++++++++
inst/doc/TSdbi.pdf |binary
man/TScheckdbi.Rd | 4
man/TSconnect.Rd | 13 -
man/TSdates.Rd | 6
man/TSdescription.Rd | 58 +++--
man/TSget.Rd | 43 ++-
man/TSput.Rd | 30 +-
man/standardSQL.Rd | 37 ++-
tests/S4checks.R | 4
17 files changed, 768 insertions(+), 317 deletions(-)
Author: Paul Gilbert
Diff between TSSQLite versions 2008.8-1 dated 2008-08-06 and 2008.11-1 dated 2008-11-03
Title: Time Series Database Interface extentions for SQLite
Description: TSSQLite provides a SQLite interface for TSdbi.
DESCRIPTION | 9
NAMESPACE | 3
R/TSdbiMethods.R | 62
Rplots.pdf |38991 +++++++++++++++++++++++++------------------------
inst/doc/TSSQLite.Stex | 341
inst/doc/TSSQLite.pdf |binary
man/TSdbiMethods.Rd | 40
test |binary
8 files changed, 20078 insertions(+), 19368 deletions(-)
Author: Paul Gilbert
Diff between TSMySQL versions 2008.8-1 dated 2008-08-06 and 2008.11-1 dated 2008-11-03
Title: Time Series Database Interface extensions for MySQL
Description: TSMySQL provides a MySQL interface for TSdbi.
DESCRIPTION | 11
NAMESPACE | 5
R/TSdbiMethods.R | 78
Rplots.pdf |39296 +++++++++++++++++++++++++-------------------------
inst/doc/TSMySQL.Stex | 416
inst/doc/TSMySQL.pdf |binary
man/TSdbiMethods.Rd | 42
7 files changed, 20367 insertions(+), 19481 deletions(-)
Author: Sameer Kumar Prayaga
Diff between RPostgreSQL versions 0.1-1 dated 2008-10-29 and 0.1-2 dated 2008-11-03
Title: R interface to the PostgreSQL database system
Description: Database interface and PostgreSQL driver for R.
This version complies with the database interface
definition as implemented in the package DBI.
DESCRIPTION | 4 ++--
configure.win | 10 +++++++++-
inst/ChangeLog | 20 ++++++++++++++++++--
tests/dataTypeTests.Rout.save | 2 +-
tests/datetimeTests.R | 3 +++
tests/datetimeTests.Rout.save | 9 ++++++---
tests/loadDriverAndConnect.R | 2 +-
tests/loadDriverAndConnect.Rout.save | 4 ++--
8 files changed, 42 insertions(+), 12 deletions(-)
Author: Markus Gesmann
Title: Mack-, Bootstrap and Munich-chain-ladder methods for insurance claims reserving
Description: The package contains the Mack-, Munich-, and Bootstrap chain-ladder methods which are used in insurance claims reserving.
Diff between ChainLadder versions 0.1.2-7 dated 2008-10-24 and 0.1.2-8 dated 2008-11-03
DESCRIPTION | 4 ++-- NEWS | 6 ++++++ man/MackChainLadder.Rd | 43 +++++++++++++++++++++++++++---------------- 3 files changed, 35 insertions(+), 18 deletions(-)
Author: Patrick Mair, Eric Wu
Title: R/EQS Interface
Description: This package contains the function run.eqs() which calls an EQS script file, executes the EQS estimation, and, finally, imports the results as R objects. These two steps can be performed separately: call.eqs() calls and executes EQS, whereas read.eqs() imports existing EQS outputs as objects into R.
Diff between REQS versions 0.7-0 dated 2008-10-20 and 0.7-2 dated 2008-11-02
DESCRIPTION | 6 +++--- R/call.eqs.R | 10 +++++----- R/read.eqs.R | 13 +++++++++++-- R/run.eqs.r | 4 ++-- man/call.eqs.rd | 4 ++-- man/run.eqs.rd | 4 ++-- 6 files changed, 25 insertions(+), 16 deletions(-)
Author: Martin Maechler and many others.
Title: Utilities from Seminar fuer Statistik ETH Zurich
Description: Useful utilities ['goodies'] from Seminar fuer Statistik ETH
Zurich, many ported from S-plus times.
Diff between sfsmisc versions 1.0-4 dated 2008-08-02 and 1.0-5 dated 2008-11-02
sfsmisc-1.0-4/sfsmisc/Duplicated-fun.R |only sfsmisc-1.0-4/sfsmisc/embedded-nul-BDR.mail |only sfsmisc-1.0-5/sfsmisc/ChangeLog | 30 +++++++++++++++++++++++++++ sfsmisc-1.0-5/sfsmisc/DESCRIPTION | 6 ++--- sfsmisc-1.0-5/sfsmisc/NAMESPACE | 3 +- sfsmisc-1.0-5/sfsmisc/R/Duplicated.R |only sfsmisc-1.0-5/sfsmisc/R/ellipse.R | 11 ++++++--- sfsmisc-1.0-5/sfsmisc/R/integratexy.R | 14 ++++++------ sfsmisc-1.0-5/sfsmisc/R/misc-goodies.R | 15 +++++++++---- sfsmisc-1.0-5/sfsmisc/R/prettylab.R | 4 +-- sfsmisc-1.0-5/sfsmisc/R/str_data.R | 3 +- sfsmisc-1.0-5/sfsmisc/inst/ChangeLog | 30 +++++++++++++++++++++++++++ sfsmisc-1.0-5/sfsmisc/man/Duplicated.Rd |only sfsmisc-1.0-5/sfsmisc/man/eaxis.Rd | 5 +++- sfsmisc-1.0-5/sfsmisc/man/ellipsePoints.Rd | 21 +++++++++++++++--- sfsmisc-1.0-5/sfsmisc/man/uniqueL.Rd | 7 ++++-- sfsmisc-1.0-5/sfsmisc/tests/posdef.Rout.save | 6 ++--- 17 files changed, 123 insertions(+), 32 deletions(-)
Author: Stefano Maria Iacus
Title: Simulation and Inference for Stochastic Differential Equations
Description: Companion package to the book `Simulation and Inference for
Stochastic Differential Equations With R Examples',
ISBN 978-0-387-75838-1, Springer, NY.
Diff between sde versions 2.0.1 dated 2008-07-28 and 2.0.3 dated 2008-11-02
DESCRIPTION | 8 ++++---- NAMESPACE | 2 ++ R/MOdist.R |only R/sdeDiv.R |only data/quotes.rda |only inst/doc/changes.txt | 4 ++++ man/MOdist.Rd |only man/quotes.Rd |only man/sdeDiv.Rd |only 9 files changed, 10 insertions(+), 4 deletions(-)
Author: Adrian Baddeley
Diff between scuba versions 1.2-1 dated 2008-06-23 and 1.2-2 dated 2008-11-02
Title: Scuba diving calculations and decompression models
Description: dive profiles, decompression models and gas calculations
for scuba diving
DESCRIPTION | 9 -
INDEX | 2
R/dive.R | 350 ++++++++++++++++++++++++++++++++++++++++++++++---------
R/haldane.R | 79 +++++++++---
data/pedro.rda |only
inst |only
man/00scuba.Rd | 78 ++++++++++--
man/haldane.Rd | 37 ++++-
man/internal.Rd | 4
man/ndl.Rd | 4
man/pedro.Rd |only
man/plot.dive.Rd | 21 ++-
man/tanklist.Rd | 6
man/whichtank.Rd |only
14 files changed, 487 insertions(+), 103 deletions(-)
Author: Timothy H. Keitt
Diff between rgdal versions 0.5-27 dated 2008-10-17 and 0.5-30 dated 2008-11-02
Title: Bindings for the Geospatial Data Abstraction Library
Description: Provides bindings to Frank Warmerdam's Geospatial Data Abstraction Library (GDAL) (>= 1.3.1) and access to projection/transformation operations from the PROJ.4 library. The GDAL and PROJ.4 libraries are external to the package, and, when installing the package from source, must be correctly installed first. Both GDAL raster and OGR vector map data can be imported into R, and GDAL raster data and OGR vector data exported. Use is made of classes defined in the sp package.
ChangeLog | 54 +
DESCRIPTION | 6
NAMESPACE | 1
R/gdal.R | 21
R/sp_gdal.R | 6
configure.win | 2
inst/ChangeLog | 54 +
inst/proj/FL |binary
inst/proj/IGNF |only
inst/proj/MD |binary
inst/proj/TN |binary
inst/proj/WI |binary
inst/proj/WO |binary
inst/proj/alaska |binary
inst/proj/conus |binary
inst/proj/epsg | 1034 +++++++++++++++++++++++++-------------
inst/proj/hawaii |binary
inst/proj/ntf_r93.gsb |only
inst/proj/null |binary
inst/proj/prvi |binary
inst/proj/stgeorge |binary
inst/proj/stlrnc |binary
inst/proj/stpaul |binary
man/GDALDataset-class.Rd | 3
man/GDALTransientDataset-class.Rd | 10
src/Makevars.win | 3
src/gdal-bindings.cpp | 37 -
27 files changed, 857 insertions(+), 374 deletions(-)
Author: Jeff Enos
Diff between portfolio versions 0.4-3 dated 2008-04-22 and 0.4-4 dated 2008-11-02
Title: Analysing equity portfolios
Description: Classes for analysing and implementing equity portfolios.
ChangeLog | 4 ++++
DESCRIPTION | 6 +++---
R/AllClasses.R | 4 ++--
R/portfolio.R | 8 ++++----
R/portfolioBasic.R | 4 ++--
R/tradelist.R | 10 +++++-----
data/assay.RData |binary
inst/doc/matching_portfolio.Rnw | 11 ++++++-----
inst/doc/matching_portfolio.pdf |binary
inst/doc/portfolio.pdf |binary
inst/doc/tradelist.pdf |binary
man/assay.Rd | 36 +++++++++++++++++++++++++-----------
tests/matchit.test.R | 8 ++++----
tests/next.treatment.test.R | 6 +++---
14 files changed, 58 insertions(+), 39 deletions(-)
Author: Tristen Hayfield
Diff between np versions 0.20-1 dated 2008-08-13 and 0.20-2 dated 2008-11-02
Title: Nonparametric kernel smoothing methods for mixed data types
Description: This package provides a variety of nonparametric (and semiparametric) kernel methods that seamlessly handle a mix of continuous, unordered, and ordered factor data types. We would like to gratefully acknowledge support from the Natural Sciences and Engineering Research Council of Canada (NSERC:www.nserc.ca), the Social Sciences and Humanities Research Council of Canada (SSHRC:www.sshrc.ca), and the Shared Hierarchical Academic Research Computing Network (SHARCNET:www.sharcnet.ca).
np-0.20-1/np/inst/doc/.build.timestamp |only
np-0.20-2/np/.tmp.sh |only
np-0.20-2/np/CHANGELOG | 7
np-0.20-2/np/DESCRIPTION | 6
np-0.20-2/np/R/np.kernel.R | 4
np-0.20-2/np/R/zzz.R | 2
np-0.20-2/np/inst/doc/np.pdf | 3651 ++++++++++++++++++++-------------
np-0.20-2/np/inst/doc/np_faq.pdf | 2259 ++++++++++----------
np-0.20-2/np/src/jksum.c | 2
np-0.20-2/np/src/np.c | 10
10 files changed, 3515 insertions(+), 2426 deletions(-)
Author: Deepayan Sarkar
Diff between latticeExtra versions 0.5-3 dated 2008-10-12 and 0.5-4 dated 2008-11-02
Title: Extra Graphical Utilities Based on Lattice
Description: Extra graphical utilities based on lattice
DESCRIPTION | 6 ++--
R/marginal.plot.R | 74 ++++++++++++++++++++++++++++++++++++++-------------
inst/NEWS | 6 ++++
man/as.layer.Rd | 31 +++++++++++++++++----
man/marginal.plot.Rd | 14 ++++++---
5 files changed, 100 insertions(+), 31 deletions(-)
Author: Tomas Aragon
Diff between epitools versions 0.5-0 dated 2008-07-28 and 0.5-2 dated 2008-11-02
Title: Epidemiology Tools
Description: EpiTools: R Package for Epidemiologic Data and Graphics
DESCRIPTION | 8 ++++----
R/rate2by2.test.R | 3 ++-
R/riskratio.small.R | 2 +-
man/colorbrewer.Rd | 2 +-
man/colors.plot.Rd | 2 +-
man/rate2by2.test.Rd | 9 +++++++--
6 files changed, 16 insertions(+), 10 deletions(-)
Author: David Zamar, Jinko Graham, Brad McNeney
Title: Exact Logistic Regression via MCMC
Description: elrm implements a Markov Chain Monte Carlo algorithm to approximate exact conditional inference for logistic regression models. Exact conditional inference is based on the distribution of the sufficient statistics for the parameters of interest given the sufficient statistics for the remaining nuisance parameters. Using model formula notation, users specify a logistic model and model terms of interest for exact inference.
Diff between elrm versions 1.1.2 dated 2007-10-15 and 1.1.3 dated 2008-11-02
elrm-1.1.2/elrm/inst/doc/v21i03.bbl |only elrm-1.1.2/elrm/inst/doc/v21i03.log |only elrm-1.1.2/elrm/inst/doc/v21i03.tex |only elrm-1.1.3/elrm/DESCRIPTION | 8 elrm-1.1.3/elrm/NAMESPACE | 1 elrm-1.1.3/elrm/R/getConfInterval.R | 18 elrm-1.1.3/elrm/R/plot.elrm.R | 8 elrm-1.1.3/elrm/inst/doc/v21i03.pdf | 4717 ++++++++++++++++++------------------ elrm-1.1.3/elrm/src/matrix.h | 15 9 files changed, 2419 insertions(+), 2348 deletions(-)
Author: Stefan Funke, Patrick Mair, and Alexander von Eye
Title: Analysis of configuration frequencies (CFA)
Description: Analysis of configuration frequencies for simple and repeated measures, more sample CFa, hierarchical CFA, bootstrap-CFA, functional CFA, Kieser-Victor CFA and various plots
Diff between cfa versions 0.8-3 dated 2008-09-16 and 0.8-4 dated 2008-11-02
DESCRIPTION | 8 ++++---- R/fCFA.R | 25 +++++++++++++++++++++---- R/kvCFA.R | 24 +++++++++++++++++++++--- R/print.fCFA.R | 16 +++------------- R/print.kvcfa.R | 19 +++++-------------- R/summary.fCFA.R | 18 +++--------------- R/summary.kvcfa.R | 16 ++-------------- man/fCFA.Rd | 18 +++++++----------- 8 files changed, 66 insertions(+), 78 deletions(-)
Author: Marco Scutari
Title: Bayesian network structure learning
Description: Bayesian network structure learning
via constraint-based (also known as 'conditional
independence') and score-based algorithms.
This package implements the Grow-Shrink (GS)
algorithm, the Incremental Association (IAMB)
algorithm, the Interleaved-IAMB (Inter-IAMB)
algorithm, the Fast-IAMB (Fast-IAMB) algorithm
and the Hill-Climbing (HC) greedy search
algorithm for both discrete and gaussian networks,
along with many score functions and conditional
independence tests.
Some utility functions (model comparison and
manipulation, random data generation, arc
orientation testing) are also included.
Diff between bnlearn versions 0.9 dated 2008-09-08 and 1.0 dated 2008-11-02
Changelog | 7 + DESCRIPTION | 6 - R/backend-indep.R | 78 +++++++--------- R/backend-score.R | 2 R/frontend.R | 36 ++++--- R/globals.R | 16 ++- R/graph-generation.R | 208 +++++++++++++++++++++++++++++++++++++------ R/grow-shrink.R | 7 - R/methods.R | 25 ++++- R/simulation.R | 86 ++++++++++++++--- R/utils-arcs.R | 2 R/utils-graph.R | 35 ++++++- R/utils-sanitization.R | 126 +++++++++++++++++++++++++- R/utils-tests.R | 38 +++---- man/00.bnlearn-package.Rd | 10 +- man/20.mb.Rd | 6 - man/22.modelstring.Rd | 51 +++++----- man/24.graphgen.Rd | 97 +++++++++++++++----- man/25.ordering.Rd | 4 man/33.arc.strength.Rd | 2 src/arcs2amat.c | 8 - src/configurations.c | 3 src/discrete.loglikelihood.c | 14 ++ src/is.dag.c | 8 + src/mutual.information.c | 51 ++++++++-- src/path.c | 46 ++++++--- src/pearson.x2.c | 50 ++++++++-- 27 files changed, 794 insertions(+), 228 deletions(-)
Author: Jeff Enos
Diff between backtest versions 0.2-2 dated 2008-04-21 and 0.3-0 dated 2008-11-02
Title: Exploring portfolio-based conjectures about financial instruments
Description: The backtest package provides facilities for exploring portfolio-based conjectures about financial instruments (stocks, bonds, swaps, options, et cetera).
ChangeLog | 11 +++++++++++
DESCRIPTION | 8 ++++----
NAMESPACE | 2 ++
R/AllGenerics.R | 5 ++++-
R/backtest.R | 34 ++++++++++++++++++++++++++++------
R/backtest.compute.R | 2 +-
R/backtest.function.R | 20 +++++++++++---------
R/bt.mean.R | 2 +-
R/bt.sharpe.R | 2 +-
R/bt.spread.R | 2 +-
R/bucketize.R | 2 +-
R/calc.turnover.R | 2 +-
R/categorize.R | 2 +-
R/overlaps.compute.R | 10 +++++-----
data/starmine.RData |binary
inst/doc/backtest.Rnw | 22 ++++++++++------------
inst/doc/backtest.pdf |binary
man/backtest-class.Rd | 18 ++++++++++++++++--
man/backtest-package.Rd | 5 ++---
man/backtest.Rd | 14 +++++++-------
man/starmine.Rd | 29 ++++++++++++++++++++---------
tests/backtest.function.test.R | 3 ++-
tests/backtest.summary.test.R | 2 +-
tests/backtest.totalCounts.test.R |only
tests/backtest.totalCounts.test.RData |only
tests/bt.mean.test.R | 2 +-
tests/bt.spread.test.R | 2 +-
tests/bucketize.test.R | 2 +-
tests/calc.turnover.test.R | 2 +-
tests/categorize.test.R | 2 +-
30 files changed, 135 insertions(+), 72 deletions(-)
Author: Arthur Allignol
Title: Empirical Transition Matrix
Description: Matrix of transition probabilities for any time-inhomogeneous multistate model with finite state space
Diff between etm versions 0.3-2 dated 2008-07-15 and 0.3-3 dated 2008-10-30
etm-0.3-2/etm/src/risk_set.cc |only etm-0.3-3/etm/ChangeLog |only etm-0.3-3/etm/DESCRIPTION | 6 etm-0.3-3/etm/NAMESPACE | 3 etm-0.3-3/etm/R/etm.R | 434 ++++++++++++++++++-------------------- etm-0.3-3/etm/R/plot.etm.R |only etm-0.3-3/etm/man/plot.etm.Rd |only etm-0.3-3/etm/man/xyplot.etm.Rd | 2 etm-0.3-3/etm/src/risk_set_etm.cc |only 9 files changed, 218 insertions(+), 227 deletions(-)
Author: Stephen Milborrow
derived from mda:mars by Trevor Hastie and Rob Tibshirani.
Title: Multivariate Adaptive Regression Spline Models
Description: Build regression models using the techniques in Friedman's
papers "Fast MARS" and "Multivariate Adaptive Regression Splines".
(The term "MARS" is copyrighted and thus not used in the name of the package.)
Diff between earth versions 2.0-5 dated 2008-07-15 and 2.0-6 dated 2008-10-30
DESCRIPTION | 4 NAMESPACE | 2 NEWS | 5 R/earth.R | 8 R/earth.glm.R | 11 R/earthlib.R | 2 R/evimp.R | 74 + R/model.matrix.earth.R | 49 R/plotmo.R | 3 R/print.earth.R | 20 man/earth.Rd | 9 man/evimp.Rd | 16 man/plot.evimp.Rd |only man/plotmo.Rd | 5 man/print.evimp.Rd |only src/earth.c | 5 src/tests/Rplots.ps |only src/tests/earth.times.bat | 2 src/tests/test.earth.big.Rout.save | 416 ++--- src/tests/test.earth.full.R | 4 src/tests/test.earth.full.Rout |only src/tests/test.earth.full.Rout.save | 2528 ++++++++++++++++++------------------ src/tests/test.earth.glm.R | 69 src/tests/test.earth.glm.Rout |only src/tests/test.earth.glm.Rout.save | 701 +++++++-- src/tests/test.earthc.mak | 2 src/tests/test.plotmo.Rout.save | 1273 +++++++++--------- src/tests/x |only src/tests/x.bat |only src/tests/xold |only tests/test.earth.Rout.save | 2 31 files changed, 2916 insertions(+), 2294 deletions(-)
Author: Henrik Bengtsson
Diff between R.utils versions 1.0.1 dated 2008-03-07 and 1.1.0 dated 2008-10-30
Title: Various programming utilities
Description: This package provides utility classes and methods useful when programming in R and developing R packages.
R.utils-1.0.1/R.utils/R/gunzip.R |only
R.utils-1.0.1/R.utils/inst/HISTORY |only
R.utils-1.0.1/R.utils/man/gunzip.Rd |only
R.utils-1.1.0/R.utils/DESCRIPTION | 6 +-
R.utils-1.1.0/R.utils/R/000.R | 22 ++------
R.utils-1.1.0/R.utils/R/999.NonDocumentedObjects.R | 16 ++++-
R.utils-1.1.0/R.utils/R/as.character.hexmode,patch.R |only
R.utils-1.1.0/R.utils/R/commandArgs.R | 52 +++++++++++++------
R.utils-1.1.0/R.utils/R/countLines.R |only
R.utils-1.1.0/R.utils/R/deviceUtils.R |only
R.utils-1.1.0/R.utils/R/gzip.R |only
R.utils-1.1.0/R.utils/R/inAnyInterval.R |only
R.utils-1.1.0/R.utils/R/insert.R | 8 ++
R.utils-1.1.0/R.utils/R/intToBin.R | 5 +
R.utils-1.1.0/R.utils/R/intToHex.R | 22 --------
R.utils-1.1.0/R.utils/R/intervalsToSeq.R |only
R.utils-1.1.0/R.utils/R/loadObject.R | 1
R.utils-1.1.0/R.utils/R/loadToEnv.R | 3 -
R.utils-1.1.0/R.utils/R/mapToIntervals.R |only
R.utils-1.1.0/R.utils/R/mergeIntervals.R |only
R.utils-1.1.0/R.utils/R/readBinFragments.R |only
R.utils-1.1.0/R.utils/R/readTable.R | 1
R.utils-1.1.0/R.utils/R/reassignInPackage.R | 2
R.utils-1.1.0/R.utils/R/seqToIntervals.R | 41 ++++++++++----
R.utils-1.1.0/R.utils/R/sourceDirectory.R | 26 ++++++++-
R.utils-1.1.0/R.utils/R/toAsciiRegExprPattern.R |only
R.utils-1.1.0/R.utils/R/toUrl.R | 4 +
R.utils-1.1.0/R.utils/R/whichVector.R |only
R.utils-1.1.0/R.utils/R/writeBinFragments.R |only
R.utils-1.1.0/R.utils/R/zzz.R | 5 +
R.utils-1.1.0/R.utils/incl/countLines.Rex |only
R.utils-1.1.0/R.utils/incl/deviceUtils.Rex |only
R.utils-1.1.0/R.utils/incl/filePath.Rex | 2
R.utils-1.1.0/R.utils/incl/readBinFragments.Rex |only
R.utils-1.1.0/R.utils/incl/seqToIntervals.Rex |only
R.utils-1.1.0/R.utils/incl/whichVector.Rex |only
R.utils-1.1.0/R.utils/inst/NEWS |only
R.utils-1.1.0/R.utils/man/Arguments.Rd | 2
R.utils-1.1.0/R.utils/man/Assert.Rd | 2
R.utils-1.1.0/R.utils/man/FileProgressBar.Rd | 2
R.utils-1.1.0/R.utils/man/GString.Rd | 2
R.utils-1.1.0/R.utils/man/Java.Rd | 2
R.utils-1.1.0/R.utils/man/LComments.Rd | 2
R.utils-1.1.0/R.utils/man/MultiVerbose.Rd | 2
R.utils-1.1.0/R.utils/man/Non-documented_objects.Rd | 16 ++++-
R.utils-1.1.0/R.utils/man/NullVerbose.Rd | 2
R.utils-1.1.0/R.utils/man/Options.Rd | 2
R.utils-1.1.0/R.utils/man/ProgressBar.Rd | 2
R.utils-1.1.0/R.utils/man/Settings.Rd | 2
R.utils-1.1.0/R.utils/man/SmartComments.Rd | 2
R.utils-1.1.0/R.utils/man/System.Rd | 2
R.utils-1.1.0/R.utils/man/TextStatusBar.Rd | 2
R.utils-1.1.0/R.utils/man/VComments.Rd | 2
R.utils-1.1.0/R.utils/man/Verbose.Rd | 2
R.utils-1.1.0/R.utils/man/as.character.binmode.Rd | 2
R.utils-1.1.0/R.utils/man/commandArgs.Rd | 6 +-
R.utils-1.1.0/R.utils/man/countLines.Rd |only
R.utils-1.1.0/R.utils/man/devDone.Rd |only
R.utils-1.1.0/R.utils/man/devGetLabel.Rd |only
R.utils-1.1.0/R.utils/man/devIsOpen.Rd |only
R.utils-1.1.0/R.utils/man/devList.Rd |only
R.utils-1.1.0/R.utils/man/devNew.Rd |only
R.utils-1.1.0/R.utils/man/devOff.Rd |only
R.utils-1.1.0/R.utils/man/devSet.Rd |only
R.utils-1.1.0/R.utils/man/devSetLabel.Rd |only
R.utils-1.1.0/R.utils/man/filePath.Rd | 2
R.utils-1.1.0/R.utils/man/gzip.Rd |only
R.utils-1.1.0/R.utils/man/inAnyInterval.numeric.Rd |only
R.utils-1.1.0/R.utils/man/intervalsToSeq.matrix.Rd |only
R.utils-1.1.0/R.utils/man/loadObject.Rd | 1
R.utils-1.1.0/R.utils/man/loadToEnv.Rd | 3 -
R.utils-1.1.0/R.utils/man/mapToIntervals.numeric.Rd |only
R.utils-1.1.0/R.utils/man/mergeIntervals.numeric.Rd |only
R.utils-1.1.0/R.utils/man/readBinFragments.Rd |only
R.utils-1.1.0/R.utils/man/readTable.Rd | 1
R.utils-1.1.0/R.utils/man/seqToIntervals.Rd | 18 +++++-
R.utils-1.1.0/R.utils/man/sourceDirectory.Rd | 11 ++--
R.utils-1.1.0/R.utils/man/toUrl.Rd | 4 +
R.utils-1.1.0/R.utils/man/whichVector.logical.Rd |only
R.utils-1.1.0/R.utils/man/writeBinFragments.Rd |only
80 files changed, 201 insertions(+), 111 deletions(-)
Author: Henrik Bengtsson
Diff between R.oo versions 1.4.5 dated 2008-07-05 and 1.4.6 dated 2008-10-30
Title: R object-oriented programming with or without references
Description: Methods and classes for object-oriented programming in R with or without references. Large effort has been made on making definition of methods as simple as possible with a minimum of maintainance for package developers. The package has been developed since 2001 and is now considered very stable. This is a cross-platform package implemented in pure R that defines standard S3 classes without any tricks.
DESCRIPTION | 6 +++---
R/030.ObjectClassFunctions.R | 2 +-
R/050.Object.R | 4 ++--
R/Package.R | 8 ++++++--
R/Rdoc.R | 41 ++++++++++++++++++++++++-----------------
R/ll.default.R | 8 ++++++--
R/zzz.R | 2 +-
inst/NEWS | 9 +++++++++
man/BasicObject.Rd | 4 ++--
man/Object.Rd | 2 +-
10 files changed, 55 insertions(+), 31 deletions(-)
Author: Henrik Bengtsson
Diff between R.matlab versions 1.2.3 dated 2008-07-21 and 1.2.4 dated 2008-10-30
Title: Read and write of MAT files together with R-to-Matlab connectivity
Description: This package provides methods to read and write MAT files. It also makes it possible to communicate (evaluate code, send and retrieve objects etc.) with Matlab v6 or higher running locally or on a remote host.
DESCRIPTION | 6
R/writeMat.R | 809 ++++++++++++++++++++++++++++++------------------------
incl/writeMat.Rex | 8
inst/NEWS | 11
man/writeMat.Rd | 11
5 files changed, 480 insertions(+), 365 deletions(-)
Author: Edzer J. Pebesma
Diff between sp versions 0.9-27 dated 2008-10-30 and 0.9-28 dated 2008-10-30
Title: classes and methods for spatial data
Description: A package that provides classes and methods for spatial
data. The classes document where the spatial location information
resides, for 2D or 3D data. Utility functions are provided, e.g. for
plotting data as maps, spatial selection, as well as methods for
retrieving coordinates, for subsetting, print, summary, etc.
DESCRIPTION | 4 ++--
NAMESPACE | 11 -----------
inst/doc/sp.pdf | 26 +++++++++++++-------------
3 files changed, 15 insertions(+), 26 deletions(-)
Author: Klaus Nordhausen, Hannu Oja, David E. Tyler
Title: Tools for Exploring Multivariate Data via ICS/ICA
Description: The package implements Tyler et al.'s and Oja et al.'s method of two different scatter
matrices to obtain an invariant coordinate system or independent
components, depending on the underlying assumptions.
Diff between ICS versions 1.1-3 dated 2008-09-15 and 1.2-0 dated 2008-10-30
DESCRIPTION | 8 ++++---- inst/CHANGES | 5 +++++ inst/CITATION |only inst/doc |only man/ICS-package.Rd | 4 ++-- 5 files changed, 11 insertions(+), 6 deletions(-)
Author: Florian Wickelmaier
Diff between eba versions 1.5-1 dated 2008-03-28 and 1.5-2 dated 2008-10-30
Title: Elimination-By-Aspects (EBA) Models
Description: Fitting and testing multi-attribute probabilistic choice
models, especially the Bradley-Terry-Luce (BTL) model (Bradley &
Terry, 1952; Luce, 1959), elimination-by-aspects (EBA) models
(Tversky, 1972), and preference tree (Pretree) models (Tversky &
Sattath, 1979).
ChangeLog | 14 +++++++++++++-
DESCRIPTION | 6 +++---
R/EBA_fast.R | 29 ++++++++++++++++++++++-------
R/eba.order.R | 10 +++++++---
R/linear2btl.R |only
R/zzMethods.R | 2 ++
man/eba.order.Rd | 1 +
man/linear2btl.Rd |only
man/pcX.Rd | 2 +-
man/thurstone.Rd | 2 +-
10 files changed, 50 insertions(+), 16 deletions(-)
Author: Edzer J. Pebesma
Diff between sp versions 0.9-26 dated 2008-07-05 and 0.9-27 dated 2008-10-30
Title: classes and methods for spatial data
Description: A package that provides classes and methods for spatial
data. The classes document where the spatial location information
resides, for 2D or 3D data. Utility functions are provided, e.g. for
plotting data as maps, spatial selection, as well as methods for
retrieving coordinates, for subsetting, print, summary, etc.
DESCRIPTION | 6
INDEX | 2
R/Class-SpatialLines.R | 10
R/Class-SpatialPolygons.R | 10
R/GridTopology-methods.R | 8
R/SpatialGrid-methods.R | 4
R/SpatialGridDataFrame-methods.R | 10
R/SpatialLinesDataFrame-methods.R | 2
R/projected.R | 6
R/rbind.R | 28
R/spplot.R | 25
R/spsample.R | 12
data/meuse.grid_ll.rda |only
inst/doc/sp.pdf | 3635 ++++++++++++++++++------------------
man/GridTopology-class.Rd | 2
man/Spatial-class.Rd | 2
man/SpatialGrid-class.Rd | 2
man/SpatialGrid.Rd | 4
man/SpatialGridDataFrame-class.Rd | 2
man/SpatialGridDataFrame.Rd | 4
man/SpatialPixels-class.Rd | 2
man/SpatialPixelsDataFrame-class.Rd | 3
man/SpatialPoints-class.Rd | 2
man/SpatialPointsDataFrame-class.Rd | 2
man/asciigrid.Rd | 2
man/bpy.colors.Rd | 2
man/gridlines.Rd | 2
man/is.projected.Rd | 2
man/meuse.grid.Rd | 2
man/meuse.grid_ll.Rd |only
man/overlay-methods.Rd | 2
man/panel.Rd | 4
man/spplot.Rd | 6
man/spsample.Rd | 7
rlabs |only
tests/fail1.R | 21
tests/fail1.Rout.save | 45
tests/grid.Rout.save | 7
38 files changed, 2006 insertions(+), 1879 deletions(-)
Author: Thomas Baier
Title: provides portable C-style interface to R (StatConnector)
Description: rscproxy library provides an interface to R used by third party applications, most notable, but not limited to, rcom/R Scilab (D)COM Server, ROOo and other systems.
Diff between rscproxy versions 1.0-11 dated 2008-10-17 and 1.0-12 dated 2008-10-30
DESCRIPTION | 6 +++--- R/convert.R | 2 +- R/rscproxy-internal.R | 2 +- inst/include/SC_proxy.h | 2 +- inst/include/SC_system.h | 2 +- inst/include/bdx.h | 2 +- inst/include/bdx_SEXP.h | 2 +- inst/include/bdx_com.h | 2 +- inst/include/bdx_util.h | 2 +- inst/include/com_util.h | 2 +- inst/include/rproxy.h | 2 +- src/Makevars | 2 +- src/Makevars.win | 2 +- src/bdx_SEXP.c | 8 +++++--- src/bdx_com.c | 11 +++++++---- src/bdx_util.c | 2 +- src/com_util.c | 2 +- src/rproxy.c | 2 +- src/rproxy_dev.c | 2 +- src/rproxy_impl.c | 2 +- src/rproxy_impl.h | 2 +- 21 files changed, 33 insertions(+), 28 deletions(-)
Author: Hsin Ya Lee
Diff between ivivc versions 0.1.2 dated 2008-10-16 and 0.1.3 dated 2008-10-30
Title: in vitro-in vivo correlation (IVIVC) modeling
Description: a menu-driven package for IVIVC model buidling and model validation
DESCRIPTION | 6 +++---
R/zzz.R | 2 +-
2 files changed, 4 insertions(+), 4 deletions(-)
Author: Edzer J. Pebesma
Diff between gstat versions 0.9-52 dated 2008-10-19 and 0.9-53 dated 2008-10-30
Title: geostatistical modelling, prediction and simulation
Description: variogram modelling; simple, ordinary and universal point
or block (co)kriging, sequential Gaussian or indicator (co)simulation;
variogram and variogram map plotting utility functions.
DESCRIPTION | 6
R/variogram.default.R | 16
inst/doc/gstat.pdf |29916 +++++++++++++++++++++++++-------------------------
src/data.c | 63
src/data.h | 1
src/gcdist.c |only
src/gcdist.h |only
src/vario.c | 6
src/vario.h | 1
src/vario_fn.c | 12
src/vario_fn.h | 1
src/vario_io.c | 24
src/vario_io.h | 4
src/version.h | 4
14 files changed, 15073 insertions(+), 14981 deletions(-)
Author: Michael Lawrence, John Verzani
Title: Toolkit implementation of gWidgets for RGtk2
Description: Port of gWidgets API to RGtk2
Diff between gWidgetsRGtk2 versions 0.0-45 dated 2008-10-14 and 0.0-46 dated 2008-10-30
ChangeLog | 14 ++++++++++++++ DESCRIPTION | 4 ++-- NEWS | 14 ++++++++++++++ R/aaaGenerics.R | 4 ++-- R/common.R | 4 ++++ R/gdroplist.R | 5 +++++ R/gexpandgroup.R | 10 +++++----- R/gframe.R | 9 +++++---- R/ggrid.R | 9 +++++++-- R/gtext.R | 2 +- 10 files changed, 59 insertions(+), 16 deletions(-)
Author: Stefano Iacus
Diff between cem versions 1.0.44 dated 2008-09-02 and 1.0.80 dated 2008-10-30
Title: CEM: Software for Coarsened Exact Matching
Description: This program implements the coarsened exact matching algorithm
(and many extensions) described in Stefano M. Iacus, Gary King,
and Giuseppe Porro, "Matching for Causal Inference Without
Balance Checking," http://gking.harvard.edu/files/abs/cem-abs.shtml
cem-1.0.44/cem/inst/doc/.build.timestamp |only
cem-1.0.80/cem/DESCRIPTION | 8
cem-1.0.80/cem/NAMESPACE | 4
cem-1.0.80/cem/R/att.R | 486 ++
cem-1.0.80/cem/R/cem.R | 59
cem-1.0.80/cem/R/k2k.R | 1
cem-1.0.80/cem/R/pair.R |only
cem-1.0.80/cem/R/zzz.R | 2
cem-1.0.80/cem/inst/doc/Rplots.pdf | 1864 ++++++++
cem-1.0.80/cem/inst/doc/cem.Rnw | 99
cem-1.0.80/cem/inst/doc/cem.pdf | 6502 ++++++++++++++++++++-----------
cem-1.0.80/cem/inst/doc/coarsen1.pdf | 556 ++
cem-1.0.80/cem/inst/doc/coarsen2.pdf | 238 -
cem-1.0.80/cem/inst/doc/copyRd | 1
cem-1.0.80/cem/inst/doc/copyRd.Rout | 8
cem-1.0.80/cem/inst/doc/index.shtml | 4
cem-1.0.80/cem/inst/doc/makeDocs | 14
cem-1.0.80/cem/inst/doc/teff.pdf |only
cem-1.0.80/cem/man/att.Rd | 74
cem-1.0.80/cem/man/cem.Rd | 2
cem-1.0.80/cem/man/pair.Rd |only
21 files changed, 7300 insertions(+), 2622 deletions(-)
Author: Tomoaki Nakatani
Diff between ccgarch versions 0.1.0 dated 2008-09-10 and 0.1.1 dated 2008-10-30
Title: Conditional Correlation GARCH models
Description: Functions for estimating and simulating the family of the CC-GARCH models.
DESCRIPTION | 6 +++---
R/dcc_estimation.R | 27 +++++++++++++--------------
R/eccc_estimation.R | 17 +++++++----------
man/loglik_dcc2.Rd | 2 +-
src/R_dcc.c | 25 -------------------------
src/R_dcc_sim.c | 34 ----------------------------------
src/R_eccc_sim.c | 40 ----------------------------------------
src/R_stcc_sim.c | 42 ------------------------------------------
src/R_uni_vola.c | 10 ----------
src/R_uni_vola_sim.c | 22 ----------------------
src/R_vector_garch.c | 11 -----------
11 files changed, 24 insertions(+), 212 deletions(-)
Author: Christine Porzelius, Harald Binder
Title: Parallelised Estimation of Prediction Error
Description: Package peperr is designed for prediction error estimation through resampling techniques, possibly accelerated by parallel execution on a compute cluster. Newly developed model fitting routines can be easily incorporated.
Diff between peperr versions 1.0-3 dated 2008-09-02 and 1.1 dated 2008-10-29
DESCRIPTION | 6 +-- R/aggregation.pmpec.R | 4 +- R/extract.R | 91 +++++++++++++++++++++++++++++------------------ R/extract.fun.R | 20 ++++++++-- R/peperr.R | 31 ++++++++++------ R/plot.peperr.R | 12 +++--- changeLog | 5 ++ changeLog.backup |only man/aggregation.pmpec.Rd | 2 - man/extract.fun.Rd | 16 +++++--- man/peperr.Rd | 83 ++++++++++++++++++++++++++---------------- man/resample.indices.Rd | 4 +- peperr_1.0-3.tar.gz |only 13 files changed, 173 insertions(+), 101 deletions(-)
Author: Karline Soetaert
Diff between limSolve versions 1.2 dated 2008-09-05 and 1.3 dated 2008-10-29
Title: Solving linear inverse models
Description: Functions that (1.) Find the minimum/maximum of a linear or quadratic function:
min or max (f(x)), where f(x) = ||Ax-b||^2 or f(x) = sum(ai*xi)
subject to equality constraints Ex=f and/or inequality constraints Gx>=h.
(2.) Sample an underdetermined- or overdetermined system Ex=f subject to Gx>=h, and if applicable Ax~=b.
(3.) Solve a linear system Ax=B for the unknown x. Includes banded and tridiagonal linear systems.
The package calls Fortran functions from LINPACK
DESCRIPTION | 4
R/inverse.R | 1600 -
inst/doc/limSolve.pdf |78042 +++++++++++++++++++++++++++-----------------------
inst/doc/xsample.pdf |binary
inst/doc/xsample.rnw | 4
man/xsample.Rd | 14
6 files changed, 43459 insertions(+), 36205 deletions(-)
Author: Hanna Jankowski, Ivy Wang, Hugh McCague, Jon A. Wellner
Title: Nonparametric MLE/LSE of convex hazard
Description: This package contains functions to compute the nonparametric
maximum likelihood estimator (MLE) and the nonparametric least squares
estimator (LSE) of a convex hazard function, assuming that the data is IID.
Diff between convexHaz versions 0.0 dated 2008-09-10 and 0.1 dated 2008-10-29
DESCRIPTION | 8 ++++---- R/convLSE.R | 12 ++++++------ R/convMLE.R | 10 +++++----- R/srMLE.R | 28 +++++++++++++++++----------- man/convexHaz-package.Rd | 6 +++--- man/convexLSE.Rd | 4 +--- man/convexMLE.Rd | 6 ++---- man/srMLE.Rd | 2 +- 8 files changed, 39 insertions(+), 37 deletions(-)
Author: Hsin-ya Lee
Diff between bear versions 2.0.1 dated 2008-10-14 and 2.0.2 dated 2008-10-29
Title: Average bioequivalence and bioavailability data analysis tool
Description: An average bioequivalence (ABE) and bioavailability data analysis tool including sample size estimation, noncompartmental analysis (NCA) and ANOVA (lm) for a standard RT/TR 2-treatment, 2-sequence, 2-period, and cross-over design
bear-2.0.1/bear/R/demoARS.BANOVA.r |only
bear-2.0.1/bear/R/demoARS.r |only
bear-2.0.1/bear/R/demoNCA.BANOVA.r |only
bear-2.0.1/bear/R/demoNCA.r |only
bear-2.0.1/bear/R/demoTTT.BANOVA.r |only
bear-2.0.1/bear/R/demoTTT.r |only
bear-2.0.1/bear/man/demoARS.BANOVA.rd |only
bear-2.0.1/bear/man/demoARS.rd |only
bear-2.0.1/bear/man/demoNCA.BANOVA.rd |only
bear-2.0.1/bear/man/demoNCA.rd |only
bear-2.0.1/bear/man/demoTTT.BANOVA.rd |only
bear-2.0.1/bear/man/demoTTT.rd |only
bear-2.0.2/bear/DESCRIPTION | 8
bear-2.0.2/bear/R/AIC_BANOVA.r |only
bear-2.0.2/bear/R/AICdemo.r |only
bear-2.0.2/bear/R/AICoutput.r |only
bear-2.0.2/bear/R/ARS.r | 13 -
bear-2.0.2/bear/R/ARSoutput.r | 2
bear-2.0.2/bear/R/BANOVAmenu.r | 2
bear-2.0.2/bear/R/NCA.BANOVA.r | 6
bear-2.0.2/bear/R/NCA.BANOVAanalyze.r | 51 +++-
bear-2.0.2/bear/R/NCA.BANOVAmenu.r | 25 --
bear-2.0.2/bear/R/NCA.r | 22 +-
bear-2.0.2/bear/R/NCAanalyze.r | 50 +++-
bear-2.0.2/bear/R/NCAdemo.BANOVA.r | 4
bear-2.0.2/bear/R/NCAdemo.r | 4
bear-2.0.2/bear/R/NCAmenu.r | 24 --
bear-2.0.2/bear/R/NCAoutput.r | 329 +++++++++++++++++++++++-------
bear-2.0.2/bear/R/NCAplot.r | 2
bear-2.0.2/bear/R/NCAsave.r | 14 -
bear-2.0.2/bear/R/NCAselect.r | 19 +
bear-2.0.2/bear/R/NCAselectsave.BANOVA.r | 5
bear-2.0.2/bear/R/NCAselectsave.r | 10
bear-2.0.2/bear/R/TTT.r | 8
bear-2.0.2/bear/R/TTTAIC.BANOVA.r |only
bear-2.0.2/bear/R/TTTAIC.r |only
bear-2.0.2/bear/R/TTTAICdemo.r |only
bear-2.0.2/bear/R/TTTAICoutput.r |only
bear-2.0.2/bear/R/TTTARS.BANOVA.r |only
bear-2.0.2/bear/R/TTTARS.r |only
bear-2.0.2/bear/R/TTTARSdemo.r |only
bear-2.0.2/bear/R/TTTARSoutput.r |only
bear-2.0.2/bear/R/TTToutput.r | 2
bear-2.0.2/bear/R/aic.r |only
bear-2.0.2/bear/R/demomenu.r |only
bear-2.0.2/bear/R/demomenu1.r |only
bear-2.0.2/bear/R/description_AIC.r |only
bear-2.0.2/bear/R/description_ARS.r | 7
bear-2.0.2/bear/R/description_TTTAIC.r |only
bear-2.0.2/bear/R/description_TTTARS.r |only
bear-2.0.2/bear/R/description_version.r | 2
bear-2.0.2/bear/R/zzz.R | 6
bear-2.0.2/bear/man/AIC_BANOVA.rd |only
bear-2.0.2/bear/man/AICdemo.rd |only
bear-2.0.2/bear/man/AICoutput.rd |only
bear-2.0.2/bear/man/ARS.BANOVA.rd | 15 -
bear-2.0.2/bear/man/ARS.rd | 15 -
bear-2.0.2/bear/man/ARSdemo.BANOVA.rd | 15 -
bear-2.0.2/bear/man/ARSdemo.rd | 15 -
bear-2.0.2/bear/man/TTTAIC.BANOVA.rd |only
bear-2.0.2/bear/man/TTTAIC.rd |only
bear-2.0.2/bear/man/TTTAICdemo.rd |only
bear-2.0.2/bear/man/TTTAICoutput.rd |only
bear-2.0.2/bear/man/TTTARS.BANOVA.rd |only
bear-2.0.2/bear/man/TTTARS.rd |only
bear-2.0.2/bear/man/TTTARSdemo.rd |only
bear-2.0.2/bear/man/TTTARSoutput.rd |only
bear-2.0.2/bear/man/aic.rd |only
bear-2.0.2/bear/man/demomenu.rd |only
bear-2.0.2/bear/man/demomenu1.rd |only
bear-2.0.2/bear/man/description_AIC.rd |only
bear-2.0.2/bear/man/description_ARS.rd | 15 -
bear-2.0.2/bear/man/description_TTTAIC.rd |only
bear-2.0.2/bear/man/description_TTTARS.rd |only
74 files changed, 456 insertions(+), 234 deletions(-)
Author: Hsin-ya Lee
Diff between stab versions 0.0.3 dated 2008-09-28 and 0.0.4 dated 2008-10-29
Title: data analysis of drug stability
Description: A menu-driven package for data analysis of drug stability based on ICH guideline(such as estimation of shelf-life from a 3-batch profile.)
DESCRIPTION | 6 +++---
R/MultipleBatchcsv.r |only
R/MultipleBatchmenu.r | 28 +++++++++++++---------------
R/SingleBatchcsv.r |only
R/SingleBatchmenu.r | 28 +++++++++++++---------------
R/demostability.r | 12 +++++++++---
R/statistical.r | 2 +-
R/zzz.R | 2 +-
man/MultipleBatchcsv.rd |only
man/SingleBatchcsv.rd |only
10 files changed, 40 insertions(+), 38 deletions(-)
Author: Heloise Lavigne and Aurelien Proye and Jean-Pierre Gattuso. Portions of code and/or corrections were contributed by Jean-Marie Epitalon, Bernard Gentili, Jim Orr and Karline Soetaert
Title: Calculates parameters of the seawater carbonate system
Description: Calculates parameters of the seawater carbonate system
Diff between seacarb versions 1.2.3 dated 2007-11-27 and 2.0.2 dated 2008-10-29
seacarb-1.2.3/seacarb/INDEX |only seacarb-1.2.3/seacarb/R/Kf.R |only seacarb-2.0.2/seacarb/ChangeLog | 22 seacarb-2.0.2/seacarb/DESCRIPTION | 18 seacarb-2.0.2/seacarb/R/K1.R | 111 - seacarb-2.0.2/seacarb/R/K2.R | 192 - seacarb-2.0.2/seacarb/R/K2p.R | 18 seacarb-2.0.2/seacarb/R/K3p.R | 21 seacarb-2.0.2/seacarb/R/Kb.R | 64 seacarb-2.0.2/seacarb/R/Kf.r |only seacarb-2.0.2/seacarb/R/Kh.R | 3 seacarb-2.0.2/seacarb/R/Ks.R | 104 seacarb-2.0.2/seacarb/R/Kw.R | 95 seacarb-2.0.2/seacarb/R/buffer.R |only seacarb-2.0.2/seacarb/R/carb.R | 3001 +++++----------------------- seacarb-2.0.2/seacarb/R/pCa.R |only seacarb-2.0.2/seacarb/R/pTA.R |only seacarb-2.0.2/seacarb/R/pgas.R |only seacarb-2.0.2/seacarb/R/phinsi.R | 6 seacarb-2.0.2/seacarb/R/pmix.R |only seacarb-2.0.2/seacarb/R/ppH.R |only seacarb-2.0.2/seacarb/R/speciation.R | 2 seacarb-2.0.2/seacarb/data/seacarb_test.txt | 42 seacarb-2.0.2/seacarb/man/K1.Rd | 17 seacarb-2.0.2/seacarb/man/K1p.Rd | 7 seacarb-2.0.2/seacarb/man/K2.Rd | 17 seacarb-2.0.2/seacarb/man/K2p.Rd | 5 seacarb-2.0.2/seacarb/man/K3p.Rd | 7 seacarb-2.0.2/seacarb/man/Kb.Rd | 16 seacarb-2.0.2/seacarb/man/Kf.Rd | 78 seacarb-2.0.2/seacarb/man/Kh.Rd | 1 seacarb-2.0.2/seacarb/man/Khs.Rd | 70 seacarb-2.0.2/seacarb/man/Ks.Rd | 10 seacarb-2.0.2/seacarb/man/Kw.Rd | 11 seacarb-2.0.2/seacarb/man/bjerrum.Rd | 168 - seacarb-2.0.2/seacarb/man/buffer.Rd |only seacarb-2.0.2/seacarb/man/carb.Rd | 98 seacarb-2.0.2/seacarb/man/kconv.Rd | 86 seacarb-2.0.2/seacarb/man/pCa.Rd |only seacarb-2.0.2/seacarb/man/pHconv.Rd | 82 seacarb-2.0.2/seacarb/man/pTA.Rd |only seacarb-2.0.2/seacarb/man/pgas.Rd |only seacarb-2.0.2/seacarb/man/phinsi.Rd | 8 seacarb-2.0.2/seacarb/man/pmix.Rd |only seacarb-2.0.2/seacarb/man/ppH.Rd |only seacarb-2.0.2/seacarb/man/seacarb_test.Rd | 41 seacarb-2.0.2/seacarb/man/speciation.Rd | 123 - 47 files changed, 1332 insertions(+), 3212 deletions(-)
Author: Tarn Duong
Diff between ks versions 1.5.6 dated 2008-07-05 and 1.5.7 dated 2008-10-29
Title: Kernel smoothing
Description: Kernel density estimators and kernel discriminant analysis for multivariate data
ks-1.5.6/ks/data/Sd2.RData |only
ks-1.5.6/ks/data/Sd4.RData |only
ks-1.5.6/ks/data/Sd6.RData |only
ks-1.5.7/ks/DESCRIPTION | 14 ++--
ks-1.5.7/ks/NAMESPACE | 6 +
ks-1.5.7/ks/R/integrate-kde.R |only
ks-1.5.7/ks/R/kde.R | 128 +++++-----------------------------------
ks-1.5.7/ks/R/prelim.R | 21 +++++-
ks-1.5.7/ks/R/selector.R | 16 +++--
ks-1.5.7/ks/README | 2
ks-1.5.7/ks/inst/doc/kde.log | 4 -
ks-1.5.7/ks/inst/doc/kde.pdf |binary
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ks-1.5.7/ks/man/dmvnorm.mixt.Rd | 3
ks-1.5.7/ks/man/dnorm.mixt.Rd | 3
ks-1.5.7/ks/man/ks-internal.Rd | 6 -
ks-1.5.7/ks/man/ks-package.Rd | 5 +
ks-1.5.7/ks/man/plot.kde.Rd | 2
18 files changed, 73 insertions(+), 137 deletions(-)
Author: Wolfgang Breymann, David Luethi
Title: A package on the generalized hyperbolic distribution and its special cases
Description: This package provides detailed functionality for working with the univariate and multivariate Generalized Hyperbolic distribution and its special cases (Hyperbolic (hyp), Normal Inverse Gaussian (NIG), Variance Gamma (VG), skewed Student-t and Gaussian distribution). Especially, it contains fitting procedures, an AIC-based model selection routine, and functions for the computation of density, quantile, probability, random variates, expected shortfall and some portfolio optimization and plotting routines as well as the likelihood ratio test. In addition, it contains the Generalized Inverse Gaussian distribution.
Diff between ghyp versions 1.3.0 dated 2008-07-08 and 1.4.0 dated 2008-10-29
ghyp-1.3.0/ghyp/R/AIC.mle.ghyp.r |only ghyp-1.3.0/ghyp/R/EGIG.r |only ghyp-1.3.0/ghyp/R/ESghyp.r |only ghyp-1.3.0/ghyp/R/ESgig.r |only ghyp-1.3.0/ghyp/R/abar2chipsi.r |only ghyp-1.3.0/ghyp/R/besselM3.r |only ghyp-1.3.0/ghyp/R/check.data.r |only ghyp-1.3.0/ghyp/R/check.gig.pars.r |only ghyp-1.3.0/ghyp/R/check.norm.pars.r |only ghyp-1.3.0/ghyp/R/check.opt.pars.r |only ghyp-1.3.0/ghyp/R/classes.r |only ghyp-1.3.0/ghyp/R/coef.ghyp.r |only ghyp-1.3.0/ghyp/R/dghyp.r |only ghyp-1.3.0/ghyp/R/dgig.r |only ghyp-1.3.0/ghyp/R/extract.ghyp.r |only ghyp-1.3.0/ghyp/R/fit.ghyp.r |only ghyp-1.3.0/ghyp/R/fit.ghypmv.r |only ghyp-1.3.0/ghyp/R/fit.ghypuv.r |only ghyp-1.3.0/ghyp/R/fit.mvWrapper.r |only ghyp-1.3.0/ghyp/R/fit.uvWrapper.r |only ghyp-1.3.0/ghyp/R/get.stepAIC.ghyp.r |only ghyp-1.3.0/ghyp/R/ghyp.data.r |only ghyp-1.3.0/ghyp/R/ghyp.fit.info.r |only ghyp-1.3.0/ghyp/R/ghyp.model.r |only ghyp-1.3.0/ghyp/R/ghyp.moment.r |only ghyp-1.3.0/ghyp/R/ghyp.name.r |only ghyp-1.3.0/ghyp/R/ghyp.omega.r |only ghyp-1.3.0/ghyp/R/ghyp.r |only ghyp-1.3.0/ghyp/R/ghypWrapper.r |only ghyp-1.3.0/ghyp/R/hist.ghyp.r |only ghyp-1.3.0/ghyp/R/integrate.moment.ghypuv.r |only ghyp-1.3.0/ghyp/R/integrate.moment.gig.r |only ghyp-1.3.0/ghyp/R/internal.dghyp.r |only ghyp-1.3.0/ghyp/R/internal.dghypmv.r |only ghyp-1.3.0/ghyp/R/is.gaussian.r |only ghyp-1.3.0/ghyp/R/is.student.t.r |only ghyp-1.3.0/ghyp/R/is.univariate.r |only ghyp-1.3.0/ghyp/R/lik.ratio.test.r |only ghyp-1.3.0/ghyp/R/lines.ghyp.r |only ghyp-1.3.0/ghyp/R/llh.surface.R |only ghyp-1.3.0/ghyp/R/logLik.mle.ghyp.r |only ghyp-1.3.0/ghyp/R/mean.ghyp.r |only ghyp-1.3.0/ghyp/R/mle.default.r |only ghyp-1.3.0/ghyp/R/p.default.r |only ghyp-1.3.0/ghyp/R/pairs.ghyp.r |only ghyp-1.3.0/ghyp/R/pghyp.r |only ghyp-1.3.0/ghyp/R/pgig.r |only ghyp-1.3.0/ghyp/R/plot.ghyp.r |only ghyp-1.3.0/ghyp/R/portfolio.optimize.r |only ghyp-1.3.0/ghyp/R/q.default.r |only ghyp-1.3.0/ghyp/R/qghyp.r |only ghyp-1.3.0/ghyp/R/qgig.r |only ghyp-1.3.0/ghyp/R/qqghyp.r |only ghyp-1.3.0/ghyp/R/rghyp.r |only ghyp-1.3.0/ghyp/R/rgig.r |only ghyp-1.3.0/ghyp/R/show.ghyp.r |only ghyp-1.3.0/ghyp/R/show.mle.ghyp.r |only ghyp-1.3.0/ghyp/R/stepAIC.ghyp.r |only ghyp-1.3.0/ghyp/R/summary.mle.ghyp.r |only ghyp-1.3.0/ghyp/R/t.transform.r |only ghyp-1.3.0/ghyp/R/test.ghyp.r |only ghyp-1.3.0/ghyp/R/transform.ghyp.r |only ghyp-1.3.0/ghyp/R/vcov.ghyp.r |only ghyp-1.3.0/ghyp/R/zzz.R |only ghyp-1.3.0/ghyp/inst/cleanup |only ghyp-1.3.0/ghyp/inst/doc/Generalized_Hyperbolic_Distribution.Snw |only ghyp-1.3.0/ghyp/man/coef-methods.Rd |only ghyp-1.3.0/ghyp/man/ghyp.moments.Rd |only ghyp-1.3.0/ghyp/man/mean-vcov-methods.Rd |only ghyp-1.3.0/ghyp/man/summary-methods.Rd |only ghyp-1.4.0/ghyp/ChangeLog | 302 ghyp-1.4.0/ghyp/DESCRIPTION | 8 ghyp-1.4.0/ghyp/Fixme |only ghyp-1.4.0/ghyp/NAMESPACE | 4 ghyp-1.4.0/ghyp/R/ghypClasses.R |only ghyp-1.4.0/ghyp/R/ghypConstructors.R |only ghyp-1.4.0/ghyp/R/ghypFitting.R |only ghyp-1.4.0/ghyp/R/ghypGIG.R |only ghyp-1.4.0/ghyp/R/ghypGenericMethods.R |only ghyp-1.4.0/ghyp/R/ghypInternals.R |only ghyp-1.4.0/ghyp/R/ghypMethods.R |only ghyp-1.4.0/ghyp/R/ghypWrappers.R |only ghyp-1.4.0/ghyp/data/indices.rda |only ghyp-1.4.0/ghyp/inst/doc/Generalized_Hyperbolic_Distribution.Rnw |only ghyp-1.4.0/ghyp/inst/doc/Generalized_Hyperbolic_Distribution.pdf |68056 +++------- ghyp-1.4.0/ghyp/inst/doc/ghypCommands.sty |only ghyp-1.4.0/ghyp/inst/doc/ludabib.bib | 773 ghyp-1.4.0/ghyp/man/coef-method.Rd |only ghyp-1.4.0/ghyp/man/fit.ghypmv.Rd | 143 ghyp-1.4.0/ghyp/man/fit.ghypuv.Rd | 97 ghyp-1.4.0/ghyp/man/ghyp-constructors.Rd | 146 ghyp-1.4.0/ghyp/man/ghyp-distribution.Rd | 119 ghyp-1.4.0/ghyp/man/ghyp-get.Rd | 90 ghyp-1.4.0/ghyp/man/ghyp-internal.Rd | 169 ghyp-1.4.0/ghyp/man/ghyp-mle.ghyp-classes.Rd | 117 ghyp-1.4.0/ghyp/man/ghyp-package.Rd | 158 ghyp-1.4.0/ghyp/man/ghyp-risk-performance.Rd | 84 ghyp-1.4.0/ghyp/man/ghyp.moment.Rd |only ghyp-1.4.0/ghyp/man/gig-distribution.Rd | 90 ghyp-1.4.0/ghyp/man/hist-methods.Rd | 25 ghyp-1.4.0/ghyp/man/indices.Rd |only ghyp-1.4.0/ghyp/man/lik.ratio.test.Rd | 86 ghyp-1.4.0/ghyp/man/logLik-AIC-methods.Rd | 46 ghyp-1.4.0/ghyp/man/mean-vcov-skew-kurt-methods.Rd |only ghyp-1.4.0/ghyp/man/pairs-methods.Rd | 33 ghyp-1.4.0/ghyp/man/plot-lines-methods.Rd | 30 ghyp-1.4.0/ghyp/man/portfolio.optimize.Rd | 179 ghyp-1.4.0/ghyp/man/qq-ghyp.Rd | 46 ghyp-1.4.0/ghyp/man/smi.stocks.Rd | 19 ghyp-1.4.0/ghyp/man/stepAIC.ghyp.Rd | 52 ghyp-1.4.0/ghyp/man/summary-method.Rd |only ghyp-1.4.0/ghyp/man/transform-extract-methods.Rd | 39 112 files changed, 27802 insertions(+), 43109 deletions(-)
Author: Matthias Wangler
Diff between changeLOS versions 2.0.8 dated 2008-03-26 and 2.0.9 dated 2008-10-29
Title: Change in LOS
Description: Change in length of hospital stay (LOS) is frequently used to assess the impact and the costs of hospital-acquired complications. In order to compute the attributable change in LOS, it is crucial to account for the timing of events: A complication can only have an effect on LOS, once it has occured. These temporal dynamics can be adequately handled by multistate models; however, there is few software for such models available. We introduce an R-package "changeLOS" for computing change in LOS based on methods described in Schulgen and Schumacher (1996). We will illustrate the program on data from a prospective cohort study on hospital-acquired infections. Main features of the R-package "changeLOS" are R-methods to: (1) describe the multi-state model. (2) compute the Aalen-Johansen estimator for the matrix of transition probabilities P(u-, u) for all observed transition times u.(3) compute the Aalen-Johansen estimator for the matrix of transition probabilities P(s,t); the estimator is a finite matrix product of matrices P(u-,u) for every observed event time in the interval(s,t]. (4) visualize the temporal dynamics of the data, illustrated by transition probabilities. (5) compute and visualize change in LOS. (6) compute bootstrap variances for change in LOS.
DESCRIPTION | 6 +++---
R/plot.progdismodel.R | 6 +++---
man/clos.Rd | 6 +++---
man/plot.clos.Rd | 27 ++++++++++++++++++---------
4 files changed, 27 insertions(+), 18 deletions(-)
Author: Sameer Kumar Prayaga
Diff between RPostgreSQL versions 0.1-0 dated 2008-10-13 and 0.1-1 dated 2008-10-29
Title: R interface to the PostgreSQL database system
Description: Database interface and PostgreSQL driver for R.
This version complies with the database interface
definition as implemented in the package DBI.
DESCRIPTION | 6 ++---
configure | 36 +++++------------------------------
configure.in | 10 ++++-----
configure.win |only
inst/ANNOUNCEMENT | 2 -
inst/ChangeLog |only
inst/NEWS | 5 ++++
inst/README | 7 +++++-
src/Makevars.win |only
tests/dataTypeTests.R |only
tests/dataTypeTests.Rout.save |only
tests/datetimeTests.R |only
tests/datetimeTests.Rout.save |only
tests/loadDriverAndConnect.R | 16 +++++++++------
tests/loadDriverAndConnect.Rout.save | 24 ++++++++++++++++-------
15 files changed, 53 insertions(+), 53 deletions(-)
Author: John Fox
Title: Polychoric and Polyserial Correlations
Description: Computes polychoric and polyserial correlations by quick "two-step" methods or ML,
optionally with standard errors; tetrachoric and biserial correlations are special cases.
Diff between polycor versions 0.7-5 dated 2007-12-24 and 0.7-6 dated 2008-10-28
DESCRIPTION | 6 - R/polychor.R | 172 +++++++++++++++++++++++++++++++-------------------------- R/polyserial.R | 156 ++++++++++++++++++++++++++++++--------------------- inst/CHANGES | 4 - 4 files changed, 191 insertions(+), 147 deletions(-)
Author: Torsten Hothorn, Kurt Hornik and Achim Zeileis
Title: A Laboratory for Recursive Partytioning
Description: A computational toolbox for recursive partitioning.
The core of the package is ctree(), an implementation of
conditional inference trees which embed tree-structured
regression models into a well defined theory of conditional
inference procedures. This non-parametric class of regression
trees is applicable to all kinds of regression problems, including
nominal, ordinal, numeric, censored as well as multivariate response
variables and arbitrary measurement scales of the covariates.
Based on conditional inference trees, cforest() provides an
implementation of Breiman's random forests. The function mob()
implements an algorithm for recursive partitioning based on
parametric models (e.g. linear models, GLMs or survival
regression) employing parameter instability tests for split
selection. Extensible functionality for visualizing tree-structured
regression models is available.
Diff between party versions 0.9-98 dated 2008-10-15 and 0.9-99 dated 2008-10-28
CHANGES | 8 DESCRIPTION | 6 inst/doc/MOB.pdf |binary inst/doc/party.Rnw | 2 inst/doc/party.pdf |binary inst/documentation/html/Classes_8c-source.html | 2 inst/documentation/html/Classes_8c.html | 2 inst/documentation/html/Classes_8h-source.html | 2 inst/documentation/html/Classes_8h.html | 2 inst/documentation/html/Convenience_8c-source.html | 2 inst/documentation/html/Convenience_8c.html | 4 inst/documentation/html/Convenience_8h-source.html | 2 inst/documentation/html/Convenience_8h.html | 2 inst/documentation/html/Distributions_8c-source.html | 2 inst/documentation/html/Distributions_8c.html | 2 inst/documentation/html/Distributions_8h-source.html | 2 inst/documentation/html/Distributions_8h.html | 2 inst/documentation/html/IndependenceTest_8c-source.html | 2 inst/documentation/html/IndependenceTest_8c.html | 2 inst/documentation/html/IndependenceTest_8h-source.html | 2 inst/documentation/html/IndependenceTest_8h.html | 2 inst/documentation/html/LinearStatistic_8c-source.html | 2 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inst/documentation/man/man3/SurrogateSplits.h.3 | 2 inst/documentation/man/man3/TestStatistic.c.3 | 2 inst/documentation/man/man3/TestStatistic.h.3 | 2 inst/documentation/man/man3/TreeGrow.c.3 | 2 inst/documentation/man/man3/TreeGrow.h.3 | 2 inst/documentation/man/man3/Utils.c.3 | 2 inst/documentation/man/man3/Utils.h.3 | 2 inst/documentation/man/man3/_home_hothorn_projects_svn_Rpkgs_trunk_party_src_.3 | 2 inst/documentation/man/man3/mvt.f.3 | 2 inst/documentation/man/man3/mvt.h.3 | 2 inst/documentation/man/man3/party.h.3 | 2 inst/documentation/man/man3/todo.3 | 2 src/Splits.c | 4 tests/Distributions.Rout.save | 10 tests/Examples/party-Ex.Rout.save | 177 ++++----- tests/IndependenceTest-regtest.Rout.save | 10 tests/LinearStatistic-regtest.Rout.save | 10 tests/Node-regtest.Rout.save | 10 tests/Predict-regtest.Rout.save | 10 tests/RandomForest-regtest.Rout.save | 180 ++++------ tests/Splits-regtest.Rout.save | 10 tests/TestStatistic-regtest.Rout.save | 10 tests/TreeGrow-regtest.Rout.save | 41 -- tests/Utils-regtest.Rout.save | 10 tests/bugfixes.R | 7 tests/bugfixes.Rout.save | 11 tests/codetools-checks.Rout.save | 10 tests/mob.Rout.save | 10 153 files changed, 368 insertions(+), 456 deletions(-)
Author: Derek Cyr
Diff between kzs versions 1.3 dated 2008-02-28 and 1.4 dated 2008-10-28
Title: Kolmogorov-Zurbenko Spatial Smoothing and Applications
Description: A spatial smoothing algorithm based on convolutions of finite rectangular kernels that provides sharp resolution in the presence of high levels of noise.
kzs-1.3/kzs/kzs.Rcheck |only
kzs-1.4/kzs/DESCRIPTION | 15 +++----
kzs-1.4/kzs/R/kzs.2d.R | 24 +++++-------
kzs-1.4/kzs/R/kzs.R | 19 ++++-----
kzs-1.4/kzs/R/kzs.md.R | 24 ++++++------
kzs-1.4/kzs/R/kzs.params.R | 14 +++----
kzs-1.4/kzs/man/kzs.2d.Rd | 62 +++++++++++--------------------
kzs-1.4/kzs/man/kzs.3d_data.Rd | 14 +++----
kzs-1.4/kzs/man/kzs.Rd | 82 +++++++++++++++++++----------------------
kzs-1.4/kzs/man/kzs.md.Rd | 77 +++++++++++++++++---------------------
kzs-1.4/kzs/man/kzs.params.Rd | 24 ++++++------
11 files changed, 160 insertions(+), 195 deletions(-)
Author: John Fox
Diff between Rcmdr versions 1.4-3 dated 2008-10-24 and 1.4-4 dated 2008-10-28
Title: R Commander
Description:
A platform-independent basic-statistics GUI (graphical user interface) for R, based on the tcltk package.
DESCRIPTION | 6 +++---
R/commander.R | 4 ++--
R/utilities.R | 41 +++++++++++++++++++++--------------------
inst/CHANGES | 4 ++++
man/Hist.Rd | 6 +++++-
man/Rcmdr-package.Rd | 4 ++--
6 files changed, 37 insertions(+), 28 deletions(-)
Author: Thomas Lumley
Title: analysis of complex survey samples
Description: Summary statistics, generalised linear models, Cox models, loglinear models, and general maximum pseudolikelihood estimation for multistage stratified, cluster-sampled, unequally weighted survey samples. Variances by Taylor series linearisation or replicate weights. Post-stratification, calibration, and raking. Two-phase designs. Graphics.
Diff between survey versions 3.9-1 dated 2008-09-11 and 3.10 dated 2008-10-28
survey-3.10/survey/DESCRIPTION | 8 - survey-3.10/survey/INDEX | 1 survey-3.10/survey/NAMESPACE | 40 +++++ survey-3.10/survey/R/DBI.R | 108 +++++++-------- survey-3.10/survey/R/chisqsum.R | 59 ++++---- survey-3.10/survey/R/dbiupdate.R |only survey-3.10/survey/R/loglin.R |only survey-3.10/survey/R/multistage.R | 28 ++-- survey-3.10/survey/R/odbc.R | 123 +++++++---------- survey-3.10/survey/R/regtest.R | 4 survey-3.10/survey/R/survey.R | 43 ++++-- survey-3.10/survey/R/surveyby.R | 9 - survey-3.10/survey/R/surveychisq.R | 160 ++++++++++++++++++++++- survey-3.10/survey/R/surveygraph.R | 35 ++++- survey-3.10/survey/R/surveyrep.R | 10 + survey-3.10/survey/R/svymi.R | 158 ++++++++++++++++++++++ survey-3.10/survey/R/svysmooth.R | 57 +++++++- survey-3.10/survey/inst/CITATION | 4 survey-3.10/survey/inst/NEWS | 36 +++++ survey-3.10/survey/inst/doc/domain.pdf |binary survey-3.10/survey/inst/doc/epi.pdf |binary survey-3.10/survey/inst/doc/phase1.pdf |binary survey-3.10/survey/inst/doc/survey.pdf |binary survey-3.10/survey/man/barplot.svystat.Rd |only survey-3.10/survey/man/dimnames.DBIsvydesign.Rd |only survey-3.10/survey/man/pchisqsum.Rd | 43 ++++-- survey-3.10/survey/man/svrepdesign.Rd | 23 ++- survey-3.10/survey/man/svychisq.Rd | 23 ++- survey-3.10/survey/man/svydesign.Rd | 4 survey-3.10/survey/man/svyglm.Rd | 6 survey-3.10/survey/man/svyhist.Rd | 6 survey-3.10/survey/man/svyloglin.Rd |only survey-3.10/survey/man/svyquantile.Rd | 3 survey-3.10/survey/man/svysmooth.Rd | 17 +- survey-3.10/survey/man/twophase.Rd | 1 survey-3.10/survey/man/update.survey.design.Rd | 14 ++ survey-3.10/survey/man/with.svyimputationList.Rd | 4 survey-3.10/survey/tests/DBIcheck.R | 15 ++ survey-3.10/survey/tests/DBIcheck.Rout.save | 22 ++- survey-3.9-1/survey/._NAMESPACE |only survey-3.9-1/survey/inst/doc/._survey.Rnw |only survey-3.9-1/survey/inst/doc/._survey.tex |only survey-3.9-1/survey/inst/doc/domain.aux |only survey-3.9-1/survey/inst/doc/domain.log |only survey-3.9-1/survey/inst/doc/domain.tex |only survey-3.9-1/survey/inst/doc/epi.aux |only survey-3.9-1/survey/inst/doc/epi.log |only survey-3.9-1/survey/inst/doc/epi.tex |only survey-3.9-1/survey/inst/doc/phase1.aux |only survey-3.9-1/survey/inst/doc/phase1.log |only survey-3.9-1/survey/inst/doc/phase1.tex |only survey-3.9-1/survey/inst/doc/survey.aux |only survey-3.9-1/survey/inst/doc/survey.log |only survey-3.9-1/survey/inst/doc/survey.tex |only 54 files changed, 821 insertions(+), 243 deletions(-)
Author: Klaus Schliep
Title: Phylogenetic analysis in R
Description: Phylogenetic analysis in R (Estimation of phylogenetic
trees and networks using Maximum Likelihood, Maximum Parsimony,
Distance methods & Hadamard conjugation)
Diff between phangorn versions 0.0-2 dated 2008-07-20 and 0.0-3 dated 2008-10-28
Changes | 88 DESCRIPTION | 6 NAMESPACE | 57 R/phylo.R | 6123 ++++++++++++++++++++++++++++----------------- Thanks | 6 data/Laurasiatherian.RData |binary data/dayhoff-dcmut.dat |only data/jtt-dcmut.dat |only data/lg.dat |only data/wag.dat |only data/yeast.RData |only man/allTrees.Rd |only man/designTree.Rd |only man/dist.hamming.Rd | 7 man/parsimony.Rd | 1 man/phyDat.Rd | 29 man/pml.Rd | 39 man/pmlCluster.Rd |only man/pmlMix.Rd |only man/pmlPart.Rd |only man/read.aa.Rd |only man/yeast.Rd |only src/phangorn.c | 75 src/phangorn.h | 1 24 files changed, 4067 insertions(+), 2365 deletions(-)
Author: Thomas Lumley
Title: Tools for multiple imputation of missing data
Description: Tools to perform analyses and combine results from multiple-imputation datasets.
Diff between mitools versions 1.0 dated 2004-08-01 and 2.0 dated 2008-10-28
mitools-1.0/mitools/inst/doc/smi.aux |only mitools-1.0/mitools/inst/doc/smi.log |only mitools-2.0/mitools/DESCRIPTION | 5 + mitools-2.0/mitools/NAMESPACE |only mitools-2.0/mitools/NEWS | 4 + mitools-2.0/mitools/R/MI.R | 81 ++++++++++++++++++++++++++---- mitools-2.0/mitools/R/update.R |only mitools-2.0/mitools/inst/doc/smi.pdf |binary mitools-2.0/mitools/inst/doc/smi.tex | 52 +++++++++---------- mitools-2.0/mitools/man/MIcombine.Rd | 9 ++- mitools-2.0/mitools/man/imputationList.Rd | 29 +++++++++- 11 files changed, 137 insertions(+), 43 deletions(-)
Author: Martin Elff
Title: Tools for Management of Survey Data, Graphics, Programming, Statistics, and Simulation
Description: One of the aims of this package is to make life easier for useRs
who deal with survey data sets. It provides an infrastructure for the management of
survey data including value labels, definable missing values, recoding of variables,
production of code books, and import of (subsets of) SPSS and Stata files.
Further, it provides functionality to produce tables and data frames of
arbitrary descriptive statistics and (almost) publication-ready tables
of regression model estimates. Also some convenience tools for
graphics, programming, and simulation are provided.
Diff between memisc versions 0.95-4 dated 2008-10-15 and 0.95-5 dated 2008-10-28
DESCRIPTION | 6 ++--- R/importer-methods.R | 46 +++++++++++++++++++++------------------- inst/doc/anes48.pdf |binary src/pspp-portableStream-for-R.c | 13 ++++++----- 4 files changed, 36 insertions(+), 29 deletions(-)
Author: Sřren Hřjsgaard
Diff between gRain versions 0.3.4 dated 2008-07-14 and 0.4.0 dated 2008-10-28
Title: Graphical Independence Networks
Description: A package for probability propagation in graphical independence networks, also known as probabilistic expert systems (which includes Bayesian networks as a special case).
gRain-0.3.4/gRain/R/Graphsh-EdgeConversion.R |only
gRain-0.3.4/gRain/R/Graphsh-GraphConversion.R |only
gRain-0.3.4/gRain/R/Graphsh-OpSimple.R |only
gRain-0.3.4/gRain/R/Graphsh-mcs-moral-rip.R |only
gRain-0.3.4/gRain/R/Graphsh-queryg.R |only
gRain-0.3.4/gRain/R/Graphsh-triangulate.R |only
gRain-0.3.4/gRain/R/Graphsh-update.R |only
gRain-0.3.4/gRain/R/Sets-Generel-SetOp.R |only
gRain-0.3.4/gRain/R/TabOpArray.R |only
gRain-0.3.4/gRain/R/allClasses-Graphsh.R |only
gRain-0.3.4/gRain/R/allClasses-ctab.R |only
gRain-0.3.4/gRain/R/allClasses-gmInstance.R |only
gRain-0.3.4/gRain/R/mcwh-SHD.R |only
gRain-0.3.4/gRain/R/xxx2yyy.R |only
gRain-0.3.4/gRain/inst/doc/gRain-intro.R |only
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gRain-0.3.4/gRain/man/gmInstance-class.Rd |only
gRain-0.3.4/gRain/man/graphsh-class.Rd |only
gRain-0.3.4/gRain/man/grash-operations.Rd |only
gRain-0.3.4/gRain/man/grash.Rd |only
gRain-0.3.4/gRain/man/queryg.Rd |only
gRain-0.3.4/gRain/src |only
gRain-0.4.0/gRain/ChangeLog | 6
gRain-0.4.0/gRain/DESCRIPTION | 4
gRain-0.4.0/gRain/INDEX | 10 -
gRain-0.4.0/gRain/NAMESPACE | 100 +++++-----
gRain-0.4.0/gRain/R/Evidence.R | 29 ++
gRain-0.4.0/gRain/R/SimulateArray.R | 4
gRain-0.4.0/gRain/R/asxxx.R | 51 ++---
gRain-0.4.0/gRain/R/cpt.R | 254 ++++++++++++++++----------
gRain-0.4.0/gRain/R/display.R | 155 ---------------
gRain-0.4.0/gRain/R/gmInstance.R | 178 ++++++++++--------
gRain-0.4.0/gRain/R/loadSaveHuginNet.R | 5
gRain-0.4.0/gRain/R/potentialList.R | 21 +-
gRain-0.4.0/gRain/R/propagate.R | 10 -
gRain-0.4.0/gRain/R/querygm.R | 8
gRain-0.4.0/gRain/R/simarray.R |only
gRain-0.4.0/gRain/R/utilities.R | 130 +++++++++++++
gRain-0.4.0/gRain/R/zzz.R | 16 +
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gRain-0.4.0/gRain/inst/doc/gRain-intro.Rnw | 16 -
gRain-0.4.0/gRain/inst/doc/gRain-intro.pdf |binary
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gRain-0.4.0/gRain/man/cpt.Rd | 10 -
gRain-0.4.0/gRain/man/gRain.Rd | 6
gRain-0.4.0/gRain/man/gmInstance.Rd | 55 +++--
gRain-0.4.0/gRain/man/internal-gRain.Rd | 25 --
gRain-0.4.0/gRain/man/querygm.Rd | 16 -
48 files changed, 625 insertions(+), 484 deletions(-)
Author: Diethelm Wuertz and Yohan Chalabi
Title: Rmetrics - Financial Time Series Objects
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between timeSeries versions 280.77 dated 2008-10-25 and 280.78 dated 2008-10-27
DESCRIPTION | 4 ++-- R/methods-returns.R | 2 +- inst/unitTests/runTests.R | 2 ++ 3 files changed, 5 insertions(+), 3 deletions(-)
Author: Diethelm Wuertz, Yohan Chalabi
Title: Rmetrics - Chronological and Calendarical Objects
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between timeDate versions 280.79 dated 2008-10-25 and 280.80 dated 2008-10-27
DESCRIPTION | 4 ++-- inst/unitTests/runTests.R | 2 ++ inst/unitTests/runit.Subsets.R | 5 +++++ tests/Rplots.pdf |only 4 files changed, 9 insertions(+), 2 deletions(-)
Author: Delphine Charif and Jean R. Lobry and Anamaria Necsulea and Leonor Palmeira and Simon Penel
Title: Biological Sequences Retrieval and Analysis
Description: Exploratory data analysis and data visualization
for biological sequence (DNA and protein) data. Include also
utilities for sequence data management under the ACNUC system.
Diff between seqinr versions 1.1-7 dated 2008-07-29 and 2.0-0 dated 2008-10-27
seqinr-1.1-7/seqinr/inst/doc/seqinr_1_1-7.pdf |only seqinr-2.0-0/seqinr/DESCRIPTION | 8 seqinr-2.0-0/seqinr/R/ClassSeq.R | 17 seqinr-2.0-0/seqinr/R/autosocket.R | 13 seqinr-2.0-0/seqinr/R/query.r | 17 seqinr-2.0-0/seqinr/inst/doc/seqinr_2_0-0.pdf |only seqinr-2.0-0/seqinr/inst/doc/src/appendix/FAQ.tex | 19 seqinr-2.0-0/seqinr/inst/doc/src/appendix/gencodes.tex | 13 seqinr-2.0-0/seqinr/inst/doc/src/appendix/releasenotes.rnw | 33 seqinr-2.0-0/seqinr/inst/doc/src/appendix/releasenotes.tex | 49 seqinr-2.0-0/seqinr/inst/doc/src/appendix/rundontrun.tex | 43 seqinr-2.0-0/seqinr/inst/doc/src/appendix/subsequences.rnw | 4 seqinr-2.0-0/seqinr/inst/doc/src/appendix/subsequences.tex | 680 +++++++---- seqinr-2.0-0/seqinr/inst/doc/src/book/book.rnw | 13 seqinr-2.0-0/seqinr/inst/doc/src/config/book.bib | 10 seqinr-2.0-0/seqinr/inst/doc/src/config/commonrnw.rnw | 2 seqinr-2.0-0/seqinr/inst/doc/src/figs/fig1RanjardL2000.pdf |only seqinr-2.0-0/seqinr/inst/doc/src/frontmatter/cover.tex | 14 seqinr-2.0-0/seqinr/inst/doc/src/mainmatter/acnucsocket.tex | 56 seqinr-2.0-0/seqinr/inst/doc/src/mainmatter/chr1.RData |binary seqinr-2.0-0/seqinr/inst/doc/src/mainmatter/dealseq.tex | 11 seqinr-2.0-0/seqinr/inst/doc/src/mainmatter/extractseqs.tex | 47 seqinr-2.0-0/seqinr/inst/doc/src/mainmatter/getseqacnuc.tex | 93 - seqinr-2.0-0/seqinr/inst/doc/src/mainmatter/getseqflat.tex | 23 seqinr-2.0-0/seqinr/inst/doc/src/mainmatter/introduction.tex | 37 seqinr-2.0-0/seqinr/inst/doc/src/mainmatter/multivariate.tex | 11 seqinr-2.0-0/seqinr/inst/doc/src/mainmatter/nonparastats.rnw | 2 seqinr-2.0-0/seqinr/inst/doc/src/mainmatter/nonparastats.tex | 28 seqinr-2.0-0/seqinr/inst/doc/src/mainmatter/querylang.tex | 46 seqinr-2.0-0/seqinr/inst/doc/src/mainmatter/risa.rnw |only seqinr-2.0-0/seqinr/inst/doc/src/mainmatter/risa.tex |only seqinr-2.0-0/seqinr/man/dist.alignment.Rd | 8 seqinr-2.0-0/seqinr/man/print.qaw.Rd |only seqinr-2.0-0/seqinr/man/query.Rd | 1 seqinr-2.0-0/seqinr/src/adler32.c | 2 seqinr-2.0-0/seqinr/src/compress.c | 2 seqinr-2.0-0/seqinr/src/crc32.c | 2 seqinr-2.0-0/seqinr/src/deflate.c | 2 seqinr-2.0-0/seqinr/src/deflate.h | 2 seqinr-2.0-0/seqinr/src/gzio.c | 2 seqinr-2.0-0/seqinr/src/trees.c | 2 seqinr-2.0-0/seqinr/src/uncompr.c | 2 seqinr-2.0-0/seqinr/src/zconf.h | 2 seqinr-2.0-0/seqinr/src/zutil.c | 2 seqinr-2.0-0/seqinr/src/zutil.h | 2 45 files changed, 842 insertions(+), 478 deletions(-)
Author: Diethelm Wuertz and many others. See the SOURCE file
Title: Function Utilities
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fUtilities versions 270.74 dated 2008-10-23 and 270.75 dated 2008-10-27
DESCRIPTION | 4 ++-- inst/unitTests/runTests.R | 2 ++ 2 files changed, 4 insertions(+), 2 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Trends and Unit Roots
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fUnitRoots versions 270.73 dated 2008-10-23 and 270.74 dated 2008-10-27
DESCRIPTION | 4 ++-- inst/unitTests/runTests.R | 2 ++ 2 files changed, 4 insertions(+), 2 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Technical Trading Analysis
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fTrading versions 270.73 dated 2008-10-23 and 270.74 dated 2008-10-27
DESCRIPTION | 4 ++-- inst/unitTests/runTests.R | 2 ++ 2 files changed, 4 insertions(+), 2 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Financial Time Series Objects
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fSeries versions 270.76 dated 2008-10-25 and 270.76.1 dated 2008-10-27
DESCRIPTION | 4 ++-- inst/unitTests/runTests.R | 2 ++ 2 files changed, 4 insertions(+), 2 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Regression Based Decision and Prediction
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fRegression versions 270.73 dated 2008-10-23 and 270.74 dated 2008-10-27
DESCRIPTION | 4 ++-- inst/unitTests/runTests.R | 2 ++ 2 files changed, 4 insertions(+), 2 deletions(-)
Author: Diethelm Wuertz
Title: Rmetrics - Portfolio Selection and Optimization
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fPortfolio versions 280.73 dated 2008-10-23 and 280.74 dated 2008-10-27
DESCRIPTION | 4 ++-- inst/unitTests/runTests.R | 2 ++ 2 files changed, 4 insertions(+), 2 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Basics of Option Valuation
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fOptions versions 270.73 dated 2008-10-23 and 270.74 dated 2008-10-27
DESCRIPTION | 4 ++-- inst/unitTests/runTests.R | 2 ++ 2 files changed, 4 insertions(+), 2 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Nonlinear and Chaotic Time Series Modelling
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fNonlinear versions 270.73 dated 2008-10-23 and 270.74 dated 2008-10-27
DESCRIPTION | 4 ++-- inst/unitTests/runTests.R | 2 ++ 2 files changed, 4 insertions(+), 2 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Multivariate Market Analysis
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fMultivar versions 270.73 dated 2008-10-23 and 270.74 dated 2008-10-27
DESCRIPTION | 4 ++-- inst/unitTests/runTests.R | 2 ++ 2 files changed, 4 insertions(+), 2 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Rmetrics - Economic and Financial Data Import
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fImport versions 270.73 dated 2008-10-23 and 270.74 dated 2008-10-27
DESCRIPTION | 4 ++-- inst/unitTests/runTests.R | 2 ++ 2 files changed, 4 insertions(+), 2 deletions(-)
Author: Diethelm Wuertz, Yohan Chalabi
Title: Rmetrics - Autoregressive Conditional Heteroskedastic Modelling
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fGarch versions 280.74 dated 2008-10-25 and 280.75 dated 2008-10-27
DESCRIPTION | 4 ++-- inst/unitTests/runTests.R | 2 ++ 2 files changed, 4 insertions(+), 2 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Rmetrics - Extreme Financial Market Data
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fExtremes versions 270.74 dated 2008-10-23 and 270.75 dated 2008-10-27
DESCRIPTION | 4 ++-- inst/unitTests/runTests.R | 2 ++ 2 files changed, 4 insertions(+), 2 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Exotic Option Valuation
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fExoticOptions versions 270.73 dated 2008-10-23 and 270.74 dated 2008-10-27
DESCRIPTION | 4 ++-- inst/unitTests/runTests.R | 2 ++ 2 files changed, 4 insertions(+), 2 deletions(-)
More information about fExoticOptions at CRAN
Permanent link
Author: Diethelm Wuertz and many others. See the SOURCE file
Title: Economic and Financial Data Sets
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fEcofin versions 270.74 dated 2008-10-23 and 270.75 dated 2008-10-27
DESCRIPTION | 4 ++-- inst/unitTests/runTests.R | 2 ++ 2 files changed, 4 insertions(+), 2 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Rmetrics - Dependence Structures with Copulas
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fCopulae versions 270.73 dated 2008-10-23 and 270.74 dated 2008-10-27
DESCRIPTION | 4 ++-- inst/unitTests/runTests.R | 2 ++ 2 files changed, 4 insertions(+), 2 deletions(-)
Author: Diethelm Wuertz, Yohan Chalabi
Title: Chronological and Calendarical Objects
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fCalendar versions 270.78 dated 2008-10-26 and 270.78.1 dated 2008-10-27
DESCRIPTION | 4 ++-- inst/unitTests/runTests.R | 2 ++ tests/Rplots.pdf |only 3 files changed, 4 insertions(+), 2 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Rmetrics - Markets and Basic Statistics
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fBasics versions 280.73 dated 2008-10-23 and 280.74 dated 2008-10-27
DESCRIPTION | 4 ++-- inst/unitTests/runTests.R | 2 ++ 2 files changed, 4 insertions(+), 2 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Rmetrics - Assets Selection and Modelling
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fAssets versions 280.73 dated 2008-10-23 and 280.74 dated 2008-10-27
DESCRIPTION | 4 ++-- inst/unitTests/runTests.R | 2 ++ 2 files changed, 4 insertions(+), 2 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: EBM and Asian Option Valuation
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fAsianOptions versions 270.73 dated 2008-10-23 and 270.74 dated 2008-10-27
DESCRIPTION | 4 ++-- inst/unitTests/runTests.R | 2 ++ 2 files changed, 4 insertions(+), 2 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: ARMA Time Series Modelling
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fArma versions 270.73 dated 2008-10-23 and 270.74 dated 2008-10-27
DESCRIPTION | 4 ++-- inst/unitTests/runTests.R | 2 ++ 2 files changed, 4 insertions(+), 2 deletions(-)
Author: Mark V. Bravington
Diff between debug versions 1.1.0 dated 2005-04-07 and 1.2.0 dated 2008-10-27
Title: MVB's debugger for R
Description: Debugger for R functions, with code display, graceful error recovery, line-numbered conditional breakpoints, access to exit code, flow control, and full keyboard input.
debug-1.1.0/debug/man/00README.debug.Rd |only
debug-1.1.0/debug/man/debug-internals.Rd |only
debug-1.2.0/debug/DESCRIPTION | 14 -
debug-1.2.0/debug/INDEX | 13
debug-1.2.0/debug/NAMESPACE | 12
debug-1.2.0/debug/R/debug.R | 424 ++++++++++++++++++++-----------
debug-1.2.0/debug/inst/changes.txt | 6
debug-1.2.0/debug/man/00debug-package.Rd |only
debug-1.2.0/debug/man/go-skip-qqq.Rd | 4
debug-1.2.0/debug/man/is.mtraced.Rd |only
debug-1.2.0/debug/man/mtrace.Rd | 19 -
11 files changed, 323 insertions(+), 169 deletions(-)
Author: Matthias Templ, Andreas Alfons
Title: Visualization and Imputation of Missing Values
Description: This package introduces new tools for the visualization of missing values in R, which can be used for exploring the data and the structure of the missing values. Depending on this structure, they may help to identify the mechanism generating the missings. A graphical user interface allows an easy handling of the implemented plot methods.
Diff between VIM versions 1.2.1 dated 2008-09-29 and 1.2.2 dated 2008-10-27
DESCRIPTION | 6 - R/barMiss.R | 168 +++++++++++++++++++++++++-------------------- R/bubbleMiss.R | 38 +++++----- R/colormapMiss.R | 30 ++++---- R/histMiss.R | 191 ++++++++++++++++++++++++++++------------------------ R/parcoordMiss.R | 19 ++++- R/plot.aggr.R | 3 R/spineMiss.R | 111 +++++++++++++++++------------- R/vmGUImenu.R | 83 +++++++++++++++++----- man/VIM-package.Rd | 6 - man/barMiss.Rd | 9 ++ man/bubbleMiss.Rd | 9 +- man/colormapMiss.Rd | 20 +++-- man/histMiss.Rd | 8 +- man/parcoordMiss.Rd | 12 ++- man/spineMiss.Rd | 8 +- man/vmGUImenu.Rd | 4 - 17 files changed, 442 insertions(+), 283 deletions(-)
Author: Ramon Diaz-Uriarte
Diff between ADaCGH versions 1.3-7 dated 2008-05-02 and 1.3-9 dated 2008-10-27
Title: Analysis of data from aCGH experiments
Description: Analysis and plotting of array CGH data. Allows usage of
Circular Binary Segementation, wavelet-based smoothing, ACE
method (CGH Explorer), HMM, BioHMM, GLAD, CGHseg, and Price's modification of Smith &
Waterman's algorith. Most computations are
parallelized. Figures are imagemaps with links to IDClight
(http://idclight.bioinfo.cnio.es).
Changes | 9 +++++++++
DESCRIPTION | 10 +++++-----
R/ADaCGH.R | 33 +++++++++++++++++++++------------
3 files changed, 35 insertions(+), 17 deletions(-)
Author: Rainer Opgen-Rhein and Korbinian Strimmer.
Title: Shrinkage t Statistic
Description: This package implements the "shrinkage t" statistic
described in Opgen-Rhein and Strimmer (2007). It also offers
a convenient interface to a number of other regularized t-type
statistics often used in high-dimensional case-control studies.
Diff between st versions 1.0.2 dated 2007-10-21 and 1.0.3 dated 2008-10-27
CHANGES | 6 ++++++ DESCRIPTION | 10 +++++----- R/efront.R | 18 +++++++++++------- R/modt.R | 13 ++++++++----- R/sam.R | 16 +++++++++------- R/samL1.R | 19 +++++++++++-------- R/shrinkt.R | 40 ++++++++++++++++++++++------------------ R/studentt.R | 38 +++++++++++++++++++++++--------------- man/regularizedt.Rd | 13 ++++++------- man/shrinkt.stat.Rd | 13 ++++++------- man/st.package.Rd |only 11 files changed, 107 insertions(+), 79 deletions(-)
Author: Roger Bivand
Diff between spdep versions 0.4-24 dated 2008-07-05 and 0.4-29 dated 2008-10-26
Title: Spatial dependence: weighting schemes, statistics and models
Description: A collection of functions to create spatial weights matrix
objects from polygon contiguities, from point patterns by distance and
tesselations, for summarising these objects, and for permitting their
use in spatial data analysis, including regional aggregation by minimum
spanning tree; a collection of tests for spatial autocorrelation,
including global Moran's I, APLE, Geary's C, Hubert/Mantel general cross
product statistic, Empirical Bayes estimates and Assunçăo/Reis Index,
Getis/Ord G and multicoloured join count statistics, local Moran's I and
Getis/Ord G, saddlepoint approximations and exact tests for global and
local Moran's I; and functions for estimating spatial simultaneous
autoregressive (SAR) lag and error models, weighted and unweighted SAR
and CAR spatial regression models, semi-parametric and Moran eigenvector
spatial filtering, GM SAR error models, and generalized spatial two stage
least squares models.
ChangeLog | 71 ++++++
DESCRIPTION | 32 +--
INDEX | 17 +
NAMESPACE | 14 +
R/aple.R |only
R/aple.mc.R |only
R/apleplot.R |only
R/edit.nb.R | 3
R/mstree.R |only
R/nb2mat.R | 2
R/nbcosts.R |only
R/plot.mst.R |only
R/plot.nb.R | 12 -
R/plot.skater.R |only
R/prunecost.R |only
R/prunemst.R |only
R/skater.R |only
R/weights-utils.R | 24 ++
data/wheat.txt |only
inst/ChangeLog | 71 ++++++
inst/doc/sids.Rnw | 482 +++++++++++++++++++++++++++++++---------------
inst/doc/sids.pdf |binary
inst/etc/shapes/bhicv.dbf |only
inst/etc/shapes/bhicv.shp |only
inst/etc/shapes/bhicv.shx |only
inst/etc/shapes/wheat.dbf |only
inst/etc/shapes/wheat.shp |only
inst/etc/shapes/wheat.shx |only
man/aggregate.nb.Rd |only
man/aple.Rd |only
man/aple.mc.Rd |only
man/aple.plot.Rd |only
man/bhicv.Rd |only
man/mstree.Rd |only
man/nbcosts.Rd |only
man/plot.mst.Rd |only
man/plot.nb.Rd | 5
man/plot.skater.Rd |only
man/prunecost.Rd |only
man/prunemst.Rd |only
man/skater.Rd |only
man/spautolm.Rd | 89 +++++---
man/ssw.Rd |only
man/wheat.Rd |only
src/skater.c |only
45 files changed, 607 insertions(+), 215 deletions(-)
Author: Stephen Milborrow
Title: Just-in-time compiler for the R language
Description:
Enable just-in-time (JIT) compilation.
The functions in this package are useful only under Ra and have no effect under R.
See www.milbo.users.sonic.net/ra/index.html.
This version of the jit package is for Ra 1.2.0 and higher.
Diff between jit versions 0.0-8 dated 2008-07-15 and 1.0-0 dated 2008-10-26
DESCRIPTION | 8 +++---- NEWS | 4 ++- man/jit.Rd | 50 +++++++++++++++++++++++------------------------ tests/test.jit.R | 3 +- tests/test.jit.Rout.save | 3 +- 5 files changed, 36 insertions(+), 32 deletions(-)
Author: Diethelm Wuertz, Yohan Chalabi
Title: Chronological and Calendarical Objects
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fCalendar versions 270.76 dated 2008-10-23 and 270.78 dated 2008-10-26
DESCRIPTION | 4 - R/zzz.R | 3 inst/unitTests/runTests.R | 34 +++++----- inst/unitTests/runit.Coercion.R | 114 ++++++++++++++++++------------------ inst/unitTests/runit.SpecialDates.R | 2 5 files changed, 79 insertions(+), 78 deletions(-)
Author: Jean Hauser and Korbinian Strimmer
Title: Entropy and Mutual Information Estimation
Description: This package implements various estimators of entropy, such
as the shrinkage estimator by Hausser and Strimmer, the maximum likelihood
and the Millow-Madow estimator, various Bayesian estimators, and the
Chao-Shen estimator. It also offers an R interface to the NSB estimator.
Furthermore, it provides functions for estimating mutual information.
Diff between entropy versions 1.1.0 dated 2008-09-29 and 1.1.1 dated 2008-10-26
CHANGES | 7 +++++++ DESCRIPTION | 6 +++--- R/entropy.shrink.R | 39 ++++++++++++++++++++++++++++----------- man/entropy.ChaoShen.Rd | 3 ++- man/entropy.Dirichlet.Rd | 3 ++- man/entropy.NSB.Rd | 2 +- man/entropy.empirical.Rd | 2 +- man/entropy.package.Rd | 2 +- man/entropy.plugin.Rd | 2 +- man/entropy.shrink.Rd | 7 ++++++- 10 files changed, 52 insertions(+), 21 deletions(-)
Author: David A. James
Title: SQLite interface for R
Description: Database Interface R driver for SQLite.
This package embeds the SQLite database engine in R and
provides an interface compliant with the DBI package.
The source for the SQLite engine (version 3.6.4) is included.
Diff between RSQLite versions 0.7-0 dated 2008-08-24 and 0.7-1 dated 2008-10-26
DESCRIPTION | 6 inst/HACKING |only inst/NEWS | 172 inst/ONEWS |only inst/README | 7 src/sqlite/sqlite3.c |25022 ++++++++++++++++++++++++++++-------------------- src/sqlite/sqlite3.h | 1744 ++- src/sqlite/sqlite3ext.h | 10 8 files changed, 15753 insertions(+), 11208 deletions(-)
Author: Jon T. Schnute
Diff between PBSmodelling versions 1.63 dated 2008-05-30 and 2.01 dated 2008-10-26
Title: PBS Modelling 2.0
Description: PBS Modelling provides software to facilitate the design,
testing, and operation of computer models. It focuses particularly on
tools that make it easy to construct and edit a customized graphical
user interface (GUI). Although it depends heavily on the R interface
to the Tcl/Tk package, a user does not need to know Tcl/Tk. The
package contains examples that illustrate models built with other R
packages, including PBSmapping, odesolve, PBSddesolve, and BRugs.
It also serves as a convenient prototype for building new R packages,
along with instructions and batch files to facilitate that process.
The R directory '.../library/PBSmodelling/doc' includes a complete user
guide PBSmodelling-UG.pdf. To use this package effectively,
please consult the guide.
PBSmodelling-1.63/PBSmodelling/inst/examples/yprWin.txt |only
PBSmodelling-2.01/PBSmodelling/DESCRIPTION | 23
PBSmodelling-2.01/PBSmodelling/NAMESPACE | 4
PBSmodelling-2.01/PBSmodelling/R/cSupport.r |only
PBSmodelling-2.01/PBSmodelling/R/guiFuns.r | 58
PBSmodelling-2.01/PBSmodelling/R/presentTalk.r |only
PBSmodelling-2.01/PBSmodelling/R/projectFuns.r |only
PBSmodelling-2.01/PBSmodelling/R/supportFuns.r | 1048 ++++++----
PBSmodelling-2.01/PBSmodelling/R/tagDefs.r |only
PBSmodelling-2.01/PBSmodelling/R/zzz.r | 6
PBSmodelling-2.01/PBSmodelling/inst/PBStools/RPaths.bat | 2
PBSmodelling-2.01/PBSmodelling/inst/doc/00ReadMe.txt | 14
PBSmodelling-2.01/PBSmodelling/inst/doc/ChangeLog.txt | 678 +++---
PBSmodelling-2.01/PBSmodelling/inst/doc/PBSmodelling-UG.pdf |binary
PBSmodelling-2.01/PBSmodelling/inst/doc/PBSmodellingIntro.Rnw |only
PBSmodelling-2.01/PBSmodelling/inst/doc/PBSmodellingIntro.pdf |only
PBSmodelling-2.01/PBSmodelling/inst/doc/index.html |only
PBSmodelling-2.01/PBSmodelling/inst/doc/loadCSetup.pdf |only
PBSmodelling-2.01/PBSmodelling/inst/examples/CCA.r | 6
PBSmodelling-2.01/PBSmodelling/inst/examples/ChatTalk.txt |only
PBSmodelling-2.01/PBSmodelling/inst/examples/FishRes.r | 48
PBSmodelling-2.01/PBSmodelling/inst/examples/FishResWin.txt | 2
PBSmodelling-2.01/PBSmodelling/inst/examples/SGM.r | 2
PBSmodelling-2.01/PBSmodelling/inst/examples/SwissTalk.txt |only
PBSmodelling-2.01/PBSmodelling/inst/examples/TestFuns.r | 37
PBSmodelling-2.01/PBSmodelling/inst/examples/TestFunsWin.txt | 8
PBSmodelling-2.01/PBSmodelling/inst/examples/YPR.r | 2
PBSmodelling-2.01/PBSmodelling/inst/examples/YPRWin.txt |only
PBSmodelling-2.01/PBSmodelling/inst/examples/fib.c |only
PBSmodelling-2.01/PBSmodelling/inst/examples/fib.r |only
PBSmodelling-2.01/PBSmodelling/inst/examples/fib2.c |only
PBSmodelling-2.01/PBSmodelling/inst/examples/fib2.r |only
PBSmodelling-2.01/PBSmodelling/inst/examples/runExamplesWin.txt | 35
PBSmodelling-2.01/PBSmodelling/inst/examples/sum.c |only
PBSmodelling-2.01/PBSmodelling/inst/examples/sum.r |only
PBSmodelling-2.01/PBSmodelling/inst/examples/vonBDoc.pdf |binary
PBSmodelling-2.01/PBSmodelling/inst/win |only
PBSmodelling-2.01/PBSmodelling/man/CCA.qbr.Rd | 26
PBSmodelling-2.01/PBSmodelling/man/GT0.Rd | 3
PBSmodelling-2.01/PBSmodelling/man/PBSmodelling.Rd | 4
PBSmodelling-2.01/PBSmodelling/man/calcMin.Rd | 2
PBSmodelling-2.01/PBSmodelling/man/chooseWinVal.Rd | 2
PBSmodelling-2.01/PBSmodelling/man/cleanProj.Rd |only
PBSmodelling-2.01/PBSmodelling/man/clearAll.Rd | 12
PBSmodelling-2.01/PBSmodelling/man/clearPBSext.Rd |only
PBSmodelling-2.01/PBSmodelling/man/clearWinVal.Rd | 2
PBSmodelling-2.01/PBSmodelling/man/closeWin.Rd | 2
PBSmodelling-2.01/PBSmodelling/man/compileC.Rd |only
PBSmodelling-2.01/PBSmodelling/man/compileDescription.Rd | 10
PBSmodelling-2.01/PBSmodelling/man/createVector.Rd | 3
PBSmodelling-2.01/PBSmodelling/man/createWin.Rd | 23
PBSmodelling-2.01/PBSmodelling/man/declareGUIoptions.Rd |only
PBSmodelling-2.01/PBSmodelling/man/exportHistory.Rd | 9
PBSmodelling-2.01/PBSmodelling/man/findPrefix.Rd |only
PBSmodelling-2.01/PBSmodelling/man/getChoice.Rd | 30
PBSmodelling-2.01/PBSmodelling/man/getGUIoptions.Rd |only
PBSmodelling-2.01/PBSmodelling/man/getPBSext.Rd | 14
PBSmodelling-2.01/PBSmodelling/man/getPBSoptions.Rd | 2
PBSmodelling-2.01/PBSmodelling/man/getYes.Rd |only
PBSmodelling-2.01/PBSmodelling/man/importHistory.Rd | 14
PBSmodelling-2.01/PBSmodelling/man/initHistory.Rd | 12
PBSmodelling-2.01/PBSmodelling/man/isWhat.Rd |only
PBSmodelling-2.01/PBSmodelling/man/loadC.Rd |only
PBSmodelling-2.01/PBSmodelling/man/openExamples.Rd |only
PBSmodelling-2.01/PBSmodelling/man/openFile.Rd | 11
PBSmodelling-2.01/PBSmodelling/man/openPackageFile.Rd |only
PBSmodelling-2.01/PBSmodelling/man/openProjFiles.Rd |only
PBSmodelling-2.01/PBSmodelling/man/parseWinFile.Rd | 19
PBSmodelling-2.01/PBSmodelling/man/pause.Rd | 6
PBSmodelling-2.01/PBSmodelling/man/pickCol.Rd | 2
PBSmodelling-2.01/PBSmodelling/man/plotACF.Rd | 2
PBSmodelling-2.01/PBSmodelling/man/plotBubbles.Rd | 14
PBSmodelling-2.01/PBSmodelling/man/plotCsum.Rd | 2
PBSmodelling-2.01/PBSmodelling/man/plotDens.Rd | 2
PBSmodelling-2.01/PBSmodelling/man/plotFriedEggs.Rd |only
PBSmodelling-2.01/PBSmodelling/man/plotTrace.Rd | 2
PBSmodelling-2.01/PBSmodelling/man/presentTalk.Rd |only
PBSmodelling-2.01/PBSmodelling/man/promptOpenFile.Rd | 11
PBSmodelling-2.01/PBSmodelling/man/promptSaveFile.Rd | 11
PBSmodelling-2.01/PBSmodelling/man/promptWriteOptions.Rd |only
PBSmodelling-2.01/PBSmodelling/man/readList.Rd | 2
PBSmodelling-2.01/PBSmodelling/man/readPBSoptions.Rd |only
PBSmodelling-2.01/PBSmodelling/man/runDemos.Rd | 8
PBSmodelling-2.01/PBSmodelling/man/runExamples.Rd | 6
PBSmodelling-2.01/PBSmodelling/man/setFileOption.Rd |only
PBSmodelling-2.01/PBSmodelling/man/setGUIoptions.Rd |only
PBSmodelling-2.01/PBSmodelling/man/setPBSext.Rd | 14
PBSmodelling-2.01/PBSmodelling/man/setPBSoptions.Rd | 19
PBSmodelling-2.01/PBSmodelling/man/setPathOption.Rd |only
PBSmodelling-2.01/PBSmodelling/man/setWinVal.Rd | 2
PBSmodelling-2.01/PBSmodelling/man/setwdGUI.Rd |only
PBSmodelling-2.01/PBSmodelling/man/showAlert.rd |only
PBSmodelling-2.01/PBSmodelling/man/showRes.Rd |only
PBSmodelling-2.01/PBSmodelling/man/showVignettes.Rd |only
PBSmodelling-2.01/PBSmodelling/man/sortHistory.Rd | 8
PBSmodelling-2.01/PBSmodelling/man/testPch.Rd | 6
PBSmodelling-2.01/PBSmodelling/man/testWidgets.Rd | 10
PBSmodelling-2.01/PBSmodelling/man/vbdata.Rd | 11
PBSmodelling-2.01/PBSmodelling/man/vbpars.Rd | 11
PBSmodelling-2.01/PBSmodelling/man/writeList.Rd | 4
PBSmodelling-2.01/PBSmodelling/man/writePBSoptions.Rd |only
101 files changed, 1422 insertions(+), 904 deletions(-)
Author: Diethelm Wuertz and Yohan Chalabi
Title: Rmetrics - Financial Time Series Objects
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between timeSeries versions 280.75 dated 2008-10-23 and 280.77 dated 2008-10-25
DESCRIPTION | 4 ++-- man/methods-bind.Rd | 40 ++++++++++++++++++++-------------------- man/methods-plot.Rd | 4 ++-- man/time.Rd | 2 +- 4 files changed, 25 insertions(+), 25 deletions(-)
Author: Diethelm Wuertz, Yohan Chalabi
Title: Rmetrics - Chronological and Calendarical Objects
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between timeDate versions 280.77 dated 2008-10-23 and 280.79 dated 2008-10-25
DESCRIPTION | 4 ++-- man/sample.Rd | 27 ++++++++++++--------------- 2 files changed, 14 insertions(+), 17 deletions(-)
Author: Robert B. Gramacy
Diff between tgp versions 2.1-4 dated 2008-10-19 and 2.1-5 dated 2008-10-25
Title: Bayesian treed Gaussian process models
Description: Bayesian nonstationary, semiparametric nonlinear regression
and design by treed Gaussian processes with jumps to the limiting
linear model (LLM). Special cases also implemented include Bayesian
linear models, CART, treed linear models, stationary separable and
isotropic Gaussian processes. Provides 1-d and 2-d plotting functions
(with projection and slice capabilities) and tree drawing, designed for
visualization of tgp-class output. Sensitivity analysis and
multi-resolution models are supported, and a limited set of experimental
design and adaptive sampling functions are also provided, including ALM,
ALC, and expected improvement.
ChangeLog | 11 +++++++++++
DESCRIPTION | 4 ++--
R/mrtgp.R | 3 +++
man/btgp.Rd | 1 +
man/dopt.gp.Rd | 1 +
man/plot.tgp.Rd | 2 +-
man/tgp.design.Rd | 1 +
src/all_draws.c | 8 ++------
src/base.h | 2 +-
src/corr.h | 2 +-
src/exp.cc | 7 ++++---
src/exp.h | 2 +-
src/exp_sep.cc | 12 ++++++++----
src/exp_sep.h | 2 +-
src/gp.cc | 4 ++--
src/gp.h | 2 +-
src/lik_post.c | 4 ++--
src/linalg.c | 4 +++-
src/matern.cc | 6 +++---
src/matern.h | 2 +-
src/matrix.c | 13 +++++++++++++
src/matrix.h | 1 +
src/model.cc | 8 ++++----
src/mr_exp_sep.cc | 20 ++++++--------------
src/mr_exp_sep.h | 2 +-
src/rand_pdf.c | 1 +
src/tree.cc | 42 ++++++++++++++++++++++++++++++++++++------
src/tree.h | 2 +-
28 files changed, 113 insertions(+), 56 deletions(-)
Author: Peter Solymos
Title: Multivariate Count Data Handling in Ecology and Biogeography
Description: Object classes to represent count data coded by sample, taxon and segment (i.e. sub populations, repeated measures) names. Supports easy processing of the count data along with relational data tables for samples and taxa. An object of class 'mefa' is a project specific compendium of the data and can be easily used in further analyses. Methods are provided for extraction, aggregation, conversion, plotting, summary and reporting of 'mefa' objects. Reports can be generated in plain text or LaTeX format.
Diff between mefa versions 2.0-0 dated 2008-09-30 and 2.0-1 dated 2008-10-25
DESCRIPTION | 8 ++++---- R/extract.mefa.R | 18 ++++++++++++++---- R/plot.mefa.R | 12 ++++++------ inst/ChangeLog | 8 ++++++++ man/plot.mefa.Rd | 6 +++--- 5 files changed, 35 insertions(+), 17 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Financial Time Series Objects
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fSeries versions 260.73 dated 2008-06-20 and 270.76 dated 2008-10-25
fSeries-260.73/fSeries/inst/doc |only fSeries-270.76/fSeries/DESCRIPTION | 32 +- fSeries-270.76/fSeries/R/colCum.R | 368 +++++++++++------------ fSeries-270.76/fSeries/R/returns.R | 62 +-- fSeries-270.76/fSeries/R/rowCum.R | 54 +-- fSeries-270.76/fSeries/R/zzz.R | 27 - fSeries-270.76/fSeries/inst/COPYING |only fSeries-270.76/fSeries/inst/COPYRIGHTS |only fSeries-270.76/fSeries/inst/NEWS |only fSeries-270.76/fSeries/inst/THANKS |only fSeries-270.76/fSeries/inst/unitTests/Makefile | 2 fSeries-270.76/fSeries/inst/unitTests/runTests.R | 34 +- fSeries-270.76/fSeries/man/colCum.Rd | 18 - fSeries-270.76/fSeries/man/returns.Rd | 7 fSeries-270.76/fSeries/man/rowCum.Rd | 4 15 files changed, 306 insertions(+), 302 deletions(-)
Author: Diethelm Wuertz, Yohan Chalabi
Title: Rmetrics - Autoregressive Conditional Heteroskedastic Modelling
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fGarch versions 280.73 dated 2008-10-23 and 280.74 dated 2008-10-25
DESCRIPTION | 4 ++-- man/methods-residuals.Rd | 2 +- 2 files changed, 3 insertions(+), 3 deletions(-)
Author: Rasmus E. Benestad
Diff between clim.pact versions 2.2-22 dated 2008-10-14 and 2.2-23 dated 2008-10-25
Title: Climate analysis and empirical-statistical downscaling (ESD) package for monthly and daily data.
Description: The package contains R functions for retrieving data, making climate analysis and downscaling of monthly mean and daily mean global climate scenarios. (Windows-users may need to obtain the 'ncdf' package from URL 'http://www.stats.ox.ac.uk/pub/RWin/' to get clim.pact to work). The package is also described in the book 'Empirical-Statistical Downscaling (http://www.worldscibooks.com/environsci/6908.html)
DESCRIPTION | 8 +--
R/DSpdf.exp.R | 116 +++++++++++++++++++++++++++++++++++-------------------
R/ds.R | 3 -
R/eof.R | 2
R/grd.box.ts.R | 12 +++--
R/newFig.R | 7 +--
R/plotEOF.R | 6 +-
R/plotField.R | 17 +++++++
R/plotStation.R | 14 +++---
man/grd.box.ts.Rd | 2
man/plotField.Rd | 2
11 files changed, 125 insertions(+), 64 deletions(-)
Author: Carsten F. Dormann and Bernd Gruber, with additional code from Jochen Fruend, also based on C-code developed by Nils Bluethgen and by Miguel Rodriguez-Girones.
Title: Visualises bipartite networks and calculates some ecological indices.
Description: See bipartite-package for more details.
Diff between bipartite versions 0.73 dated 2008-06-19 and 0.74 dated 2008-10-25
bipartite-0.73/bipartite/.hg/branch |only bipartite-0.73/bipartite/.hg/hgrc |only bipartite-0.73/bipartite/.hg/store/data/.hgignore.i |only bipartite-0.73/bipartite/.hgignore |only bipartite-0.74/bipartite/.hg/branch.cache | 4 bipartite-0.74/bipartite/.hg/dirstate |binary bipartite-0.74/bipartite/.hg/store/00changelog.i |binary bipartite-0.74/bipartite/.hg/store/00manifest.i |binary bipartite-0.74/bipartite/.hg/store/data/_d_e_s_c_r_i_p_t_i_o_n.i |binary bipartite-0.74/bipartite/.hg/store/data/_r/_h2fun._r.i |binary bipartite-0.74/bipartite/.hg/store/data/_r/bipartite-package._rd.i |only bipartite-0.74/bipartite/.hg/store/data/_r/dfun._r.i |binary bipartite-0.74/bipartite/.hg/store/data/_r/discrepancy.r.i |only bipartite-0.74/bipartite/.hg/store/data/_r/functspec.r.i |binary bipartite-0.74/bipartite/.hg/store/data/_r/nestedness.corso.r.i |only bipartite-0.74/bipartite/.hg/store/data/_r/networklevel._r.i |binary bipartite-0.74/bipartite/.hg/store/data/_r/plotweb._r.i |binary bipartite-0.74/bipartite/.hg/store/data/_r/plotweb2._r.i |only bipartite-0.74/bipartite/.hg/store/data/_r/visweb._r.i |binary bipartite-0.74/bipartite/.hg/store/data/_r/zzz._r.i |binary bipartite-0.74/bipartite/.hg/store/data/_wishlist.txt.i |binary bipartite-0.74/bipartite/.hg/store/data/man/_c.score._rd.i |binary bipartite-0.74/bipartite/.hg/store/data/man/_h2fun._rd.i |binary bipartite-0.74/bipartite/.hg/store/data/man/_v.ratio._rd.i |binary bipartite-0.74/bipartite/.hg/store/data/man/as.one.mode._rd.i |binary bipartite-0.74/bipartite/.hg/store/data/man/barrett1987._rd.i |binary bipartite-0.74/bipartite/.hg/store/data/man/bipartite-package._rd.i |binary bipartite-0.74/bipartite/.hg/store/data/man/compart._rd.i |binary bipartite-0.74/bipartite/.hg/store/data/man/degreedistr._rd.i |binary bipartite-0.74/bipartite/.hg/store/data/man/dfun._rd.i |binary bipartite-0.74/bipartite/.hg/store/data/man/discrepancy.rd.i |only bipartite-0.74/bipartite/.hg/store/data/man/elberling1999._rd.i |binary bipartite-0.74/bipartite/.hg/store/data/man/extinction._rd.i |binary bipartite-0.74/bipartite/.hg/store/data/man/functspec._rd.i |binary bipartite-0.74/bipartite/.hg/store/data/man/nestedness._rd.i |binary bipartite-0.74/bipartite/.hg/store/data/man/nestedness.corso._rd.i |only bipartite-0.74/bipartite/.hg/store/data/man/networklevel._rd.i |binary bipartite-0.74/bipartite/.hg/store/data/man/plotweb._rd.i |binary bipartite-0.74/bipartite/.hg/store/data/man/second.extinct._rd.i |binary bipartite-0.74/bipartite/.hg/store/data/man/slope.bipartite._rd.i |binary bipartite-0.74/bipartite/.hg/store/data/man/specieslevel._rd.i |binary bipartite-0.74/bipartite/.hg/store/data/man/swap.web._rd.i |binary bipartite-0.74/bipartite/.hg/store/data/man/togetherness._rd.i |binary bipartite-0.74/bipartite/.hg/store/data/src/bipartite.dll.d |only bipartite-0.74/bipartite/.hg/store/data/src/bipartite.dll.i |only bipartite-0.74/bipartite/.hg/store/data/src/bipartite__res.o.i |only bipartite-0.74/bipartite/.hg/store/data/src/bmn5.o.i |only bipartite-0.74/bipartite/.hg/store/undo |only bipartite-0.74/bipartite/.hg/undo.branch |only bipartite-0.74/bipartite/.hg/undo.dirstate |only bipartite-0.74/bipartite/DESCRIPTION | 6 bipartite-0.74/bipartite/GOE_workshop.r |only bipartite-0.74/bipartite/R/H2fun.R | 1 bipartite-0.74/bipartite/R/dfun.R | 8 bipartite-0.74/bipartite/R/discrepancy.r |only bipartite-0.74/bipartite/R/functspec.r | 9 - bipartite-0.74/bipartite/R/nestedness.corso.r |only bipartite-0.74/bipartite/R/networklevel.R | 29 ++- bipartite-0.74/bipartite/R/plotweb.R | 83 ++++++++-- bipartite-0.74/bipartite/R/plotweb2.R |only bipartite-0.74/bipartite/R/swap.web.R | 2 bipartite-0.74/bipartite/R/zzz.R | 2 bipartite-0.74/bipartite/Read-and-delete-me |only bipartite-0.74/bipartite/Wishlist.txt | 3 bipartite-0.74/bipartite/bipartite_C.score.r |only bipartite-0.74/bipartite/man/C.score.Rd | 11 - bipartite-0.74/bipartite/man/H2fun.Rd | 2 bipartite-0.74/bipartite/man/V.ratio.Rd | 17 -- bipartite-0.74/bipartite/man/as.one.mode.Rd | 2 bipartite-0.74/bipartite/man/barrett1987.Rd | 2 bipartite-0.74/bipartite/man/bipartite-package.Rd | 56 ++++-- bipartite-0.74/bipartite/man/compart.Rd | 2 bipartite-0.74/bipartite/man/degreedistr.Rd | 7 bipartite-0.74/bipartite/man/dfun.Rd | 4 bipartite-0.74/bipartite/man/discrepancy.rd |only bipartite-0.74/bipartite/man/elberling1999.Rd | 2 bipartite-0.74/bipartite/man/extinction.Rd | 4 bipartite-0.74/bipartite/man/functspec.Rd | 24 -- bipartite-0.74/bipartite/man/nestedness.Rd | 10 - bipartite-0.74/bipartite/man/nestedness.corso.Rd |only bipartite-0.74/bipartite/man/networklevel.Rd | 22 +- bipartite-0.74/bipartite/man/plotweb.Rd | 10 - bipartite-0.74/bipartite/man/plotweb2.rd |only bipartite-0.74/bipartite/man/second.extinct.Rd | 2 bipartite-0.74/bipartite/man/slope.bipartite.Rd | 5 bipartite-0.74/bipartite/man/specieslevel.Rd | 19 -- bipartite-0.74/bipartite/man/swap.web.Rd | 14 + bipartite-0.74/bipartite/man/togetherness.Rd | 2 88 files changed, 234 insertions(+), 130 deletions(-)
Author: David Meyer, Achim Zeileis, Kurt Hornik
Title: Visualizing Categorical Data
Description: Visualization techniques, data sets, summary and inference
procedures aimed particularly at categorical data. Special
emphasis is given to highly extensible grid graphics. The
package was inspired by the book "Visualizing Categorical Data"
by Michael Friendly.
Diff between vcd versions 1.1-1 dated 2008-08-27 and 1.2-0 dated 2008-10-24
vcd-1.1-1/vcd/R/palettes.R |only vcd-1.1-1/vcd/inst/doc/.build.timestamp |only vcd-1.1-1/vcd/inst/doc/hcl-colors.Rnw |only vcd-1.1-1/vcd/inst/doc/hcl-colors.pdf |only vcd-1.1-1/vcd/man/rainbow_hcl.Rd |only vcd-1.2-0/vcd/DESCRIPTION | 6 +++--- vcd-1.2-0/vcd/NAMESPACE | 10 +--------- vcd-1.2-0/vcd/NEWS |only vcd-1.2-0/vcd/R/legends.R | 4 +++- vcd-1.2-0/vcd/R/shadings.R | 7 +++++++ vcd-1.2-0/vcd/R/strucplot.R | 3 +++ vcd-1.2-0/vcd/inst/doc/bkde.png |only vcd-1.2-0/vcd/inst/doc/bkde2.png |only vcd-1.2-0/vcd/inst/doc/class.png |only vcd-1.2-0/vcd/inst/doc/residual-shadings.pdf | 26 +++++++++++++------------- vcd-1.2-0/vcd/inst/doc/strucplot.pdf |binary vcd-1.2-0/vcd/man/labeling_border.Rd | 5 ++++- vcd-1.2-0/vcd/man/shadings.Rd | 20 ++++++++++++++++---- 18 files changed, 50 insertions(+), 31 deletions(-)
Author: Ross Ihaka, Paul Murrell, Kurt Hornik, Achim Zeileis
Title: Color Space Manipulation
Description: Carries out mapping between assorted color spaces including
RGB, HSV, HLS, CIEXYZ, CIELUV, HCL (polar CIELUV),
CIELAB and polar CIELAB. Qualitative, sequential, and
diverging color palettes based on HCL colors are provided.
Diff between colorspace versions 0.95 dated 2006-11-16 and 0.97 dated 2008-10-24
DESCRIPTION | 17 +- NAMESPACE | 17 +- NEWS |only R/colorspace.R | 23 +++ R/palettes.R |only inst |only man/HLS.Rd |only man/color-class.Rd | 11 + man/mixcolor.Rd | 9 - man/rainbow_hcl.Rd |only src/colorspace.c | 334 +++++++++++++++++++++++++++++++++++++++++++++-------- 11 files changed, 341 insertions(+), 70 deletions(-)
Author: Adrian Baddeley
Diff between spatstat versions 1.14-4 dated 2008-10-16 and 1.14-5 dated 2008-10-24
Title: Spatial Point Pattern analysis, model-fitting, simulation, tests
Description: A package for analysing spatial data,
mainly Spatial Point Patterns, including multitype/marked points
and spatial covariates, in any two-dimensional spatial region.
Contains functions for plotting spatial data,
exploratory data analysis, model-fitting, simulation,
spatial sampling, model diagnostics,
and formal inference. Data types include point patterns,
line segment patterns, spatial windows, and
pixel images. Point process models can be
fitted to point pattern data. Cluster type models are fitted
by the method of minimum contrast. Very general Gibbs point
process models can be fitted to point pattern data
using a function ppm similar to lm or glm. Models may
include dependence on covariates, interpoint interaction
and dependence on marks. Fitted models can be simulated automatically.
Also provides facilities for formal inference (such as chi-squared
tests) and model diagnostics (including simulation
envelopes, residuals, residual plots and Q-Q plots).
.Rbuildindex.5131 |only
DESCRIPTION | 6 ++---
INDEX | 2 +
R/quadratcount.R | 20 +++++++++++++----
R/quadrattest.R | 14 +++++++-----
R/tess.R | 56 +++++++++++++++++++++++++++++++++++++++++++++++++-
R/util.S | 9 +++++---
R/wingeom.S | 15 ++++++++-----
man/00spatstat.Rd | 1
man/as.tess.Rd |only
man/internal.Rd | 2 -
man/intersect.owin.Rd | 13 ++++++++---
man/intersect.tess.Rd |only
man/quadrat.test.Rd | 6 ++---
man/quadratcount.Rd | 2 +
man/quadrats.Rd | 11 ++++++++-
man/tess.Rd | 2 +
17 files changed, 126 insertions(+), 33 deletions(-)
Author: Matthew Denwood
Diff between runjags versions 0.9.1-6 dated 2008-09-28 and 0.9.2-5 dated 2008-10-24
Title: Run Bayesian MCMC Models in the BUGS syntax from Within R
Description: A set of functions to allow any user specified model to be run in JAGS from within R, returning the MCMC chains as R objects. Includes functions to read external WinBUGS type textfiles, and allows several ways of automatically specifying model data from existing R objects or R functions. Also includes functions to automatically calculate model run length, autocorrealtion and Gelman Rubin statistic diagnostics for all models to simplify the process of achieving chain convergence. Designed for maximum compatibility with WinBUGS syntax, although minor modification to existing .bug files will be required. Requires Just Another Gibbs Sampler (JAGS) for most functions, see: http://www-fis.iarc.fr/~martyn/software/jags/
DESCRIPTION | 8 -
NAMESPACE | 1
R/autorun.jags.R | 191 ++++++++++++++++++++++++++++++++++++-----------
R/autorun.run.jagsfile.R | 11 ++
R/combine.mcmc.R | 103 +++++++++++++++----------
R/invisible.R | 72 +++++++++++------
R/read.winbugs.R | 23 ++++-
R/run.jags.R | 54 ++++++++++---
inst/CITATION | 2
inst/version_history.txt | 40 +++++++++
man/autorun.jags.Rd | 24 ++++-
man/autorun.jagsfile.Rd | 5 -
man/combine.mcmc.Rd | 6 -
man/findjags.Rd | 2
man/new_unique.Rd | 2
man/read.winbugs.Rd | 2
man/run.jags.Rd | 17 +++-
man/run.jagsfile.Rd | 2
18 files changed, 420 insertions(+), 145 deletions(-)
Author: Kenneth Knoblauch
Title: Functions for analyzing psychophysical data in R
Description: An assortment of functions that could be useful in analyzing data from pyschophysical experiments. It includes functions for calculating d' from several different experimental designs, links for m-alternative forced-choice (mafc) data to be used with the binomial family in glm (and possibly other contexts) and self-Start functions for estimating gamma values for CRT screen calibrations.
Diff between psyphy versions 0.0-8 dated 2008-07-15 and 0.0-9 dated 2008-10-24
DESCRIPTION | 6 +++--- R/glm.lambda.R | 6 ++++++ R/psyfun.2asym.R | 12 ++++++++++-- inst/NEWS | 7 +++++-- man/psyfun.2asym.Rd | 4 +++- 5 files changed, 27 insertions(+), 8 deletions(-)
Author: Jim Lemon
Diff between prettyR versions 1.3-3 dated 2008-09-05 and 1.3-4 dated 2008-10-24
Title: Pretty descriptive stats.
Description: Functions for conventionally formatted descriptive stats, and
to format R output as HTML.
DESCRIPTION | 6 +-
R/add.value.labels.R |only
R/brkdn.R | 20 ++++++--
R/calculate.xtab.R |only
R/delim.table.R | 9 ++-
R/freq.R | 55 +++++-----------------
R/print.freq.R |only
R/print.xtab.R |only
R/xtab.R | 120 ++++++++++++++----------------------------------
man/Mode.Rd | 4 +
man/add.value.labels.Rd |only
man/brkdn.Rd | 6 +-
man/delim.table.Rd | 4 -
man/freq.Rd | 4 -
man/xtab.Rd | 11 ++++
15 files changed, 92 insertions(+), 147 deletions(-)
Author: Sebastian P. Luque
Diff between diveMove versions 0.9.2 dated 2008-10-23 and 0.9.3 dated 2008-10-24
Title: Dive analysis and calibration
Description: Functions to filter and summarize time-depth recorder (TDR)
data, and miscellaneous functions for handling location data.
ChangeLog | 5 +++++
DESCRIPTION | 4 ++--
README | 4 ++++
inst/doc/Makefile |only
inst/doc/diveMove.Rnw |only
inst/doc/diveMove.pdf |binary
6 files changed, 11 insertions(+), 2 deletions(-)
Author: John Fox
Diff between Rcmdr versions 1.4-2 dated 2008-09-22 and 1.4-3 dated 2008-10-24
Title: R Commander
Description:
A platform-independent basic-statistics GUI (graphical user interface) for R, based on the tcltk package.
DESCRIPTION | 6
R/commander.R | 4
R/utilities.R | 137
inst/CHANGES | 8
inst/po/es/LC_MESSAGES/R-Rcmdr.mo |binary
man/Rcmdr-package.Rd | 4
po/R-es.po | 7135 +++++++++++++++++++-------------------
7 files changed, 3715 insertions(+), 3579 deletions(-)
Author: Markus Gesmann
Title: Mack-, Bootstrap and Munich-chain-ladder methods for insurance claims reserving
Description: The package contains the Mack-, Munich-, and Bootstrap chain-ladder methods which are used in insurance claims reserving.
Diff between ChainLadder versions 0.1.2-6 dated 2008-10-14 and 0.1.2-7 dated 2008-10-24
DESCRIPTION | 6 +- NEWS | 11 ++++ R/ChainLadder.R | 6 +- R/MackChainLadderFunctions.R | 30 +++++++++++- inst/doc/ChainLadderPackage.pdf |binary man/BootChainLadder.Rd | 9 ++- man/MackChainLadder.Rd | 92 ++++++++++++++++++++++++--------------- man/MunichChainLadder.Rd | 4 - man/plot.MackChainLadder.Rd | 6 +- man/summary.MackChainLadder.Rd | 10 ++-- man/summary.MunichChainLadder.Rd | 2 11 files changed, 117 insertions(+), 59 deletions(-)
Author: Diethelm Wuertz and many others. See the SOURCE file
Title: Function Utilities
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fUtilities versions 270.73 dated 2008-05-13 and 270.74 dated 2008-10-23
DESCRIPTION | 10 +++--- R/decor.R | 80 ++++++++++++++++++++++++++--------------------------- man/baseMethods.Rd | 4 +- 3 files changed, 47 insertions(+), 47 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Trends and Unit Roots
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fUnitRoots versions 260.72 dated 2007-10-08 and 270.73 dated 2008-10-23
fUnitRoots-260.72/fUnitRoots/inst/doc |only fUnitRoots-260.72/fUnitRoots/inst/unitTests/runitDickeyFullerPValues.R |only fUnitRoots-260.72/fUnitRoots/inst/unitTests/runitMacKinnonPValues.R |only fUnitRoots-260.72/fUnitRoots/inst/unitTests/runitUnitRootUrcaInterface.R |only fUnitRoots-260.72/fUnitRoots/inst/unitTests/runitUnitrootTests.R |only fUnitRoots-260.72/fUnitRoots/tests |only fUnitRoots-270.73/fUnitRoots/DESCRIPTION | 32 - fUnitRoots-270.73/fUnitRoots/R/UnitrootTests.R | 188 +++++----- fUnitRoots-270.73/fUnitRoots/R/zzz.R | 17 fUnitRoots-270.73/fUnitRoots/inst/unitTests/Makefile | 10 fUnitRoots-270.73/fUnitRoots/inst/unitTests/runTests.R | 34 - fUnitRoots-270.73/fUnitRoots/inst/unitTests/runit.DickeyFullerPValues.R |only fUnitRoots-270.73/fUnitRoots/inst/unitTests/runit.MacKinnonPValues.R |only fUnitRoots-270.73/fUnitRoots/inst/unitTests/runit.UnitRootUrcaInterface.R |only fUnitRoots-270.73/fUnitRoots/inst/unitTests/runit.UnitrootTests.R |only fUnitRoots-270.73/fUnitRoots/man/UnitrootUrcaInterface.Rd | 5 16 files changed, 142 insertions(+), 144 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Technical Trading Analysis
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fTrading versions 260.72 dated 2007-10-08 and 270.73 dated 2008-10-23
fTrading-260.72/fTrading/R/RollingAnalysis.R |only fTrading-260.72/fTrading/inst/doc |only fTrading-260.72/fTrading/inst/unitTests/runitBenchmarkAnalysis.R |only fTrading-260.72/fTrading/inst/unitTests/runitRollingAnalysis.R |only fTrading-260.72/fTrading/inst/unitTests/runitTechnicalAnalysis.R |only fTrading-270.73/fTrading/DESCRIPTION | 32 fTrading-270.73/fTrading/R/BenchmarkAnalysis.R | 79 - fTrading-270.73/fTrading/R/TechnicalAnalysis.R | 782 +++++----- fTrading-270.73/fTrading/R/rollFun.R |only fTrading-270.73/fTrading/R/zzz.R | 16 fTrading-270.73/fTrading/inst/unitTests/Makefile | 10 fTrading-270.73/fTrading/inst/unitTests/runTests.R | 34 fTrading-270.73/fTrading/inst/unitTests/runit.BenchmarkAnalysis.R |only fTrading-270.73/fTrading/inst/unitTests/runit.RollingAnalysis.R |only fTrading-270.73/fTrading/inst/unitTests/runit.TechnicalAnalysis.R |only 15 files changed, 480 insertions(+), 473 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Regression Based Decision and Prediction
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fRegression versions 260.72 dated 2007-10-08 and 270.73 dated 2008-10-23
fRegression-260.72/fRegression/R/PolymarsInterface.R |only fRegression-260.72/fRegression/R/PrintPlotSummaryMethods.R |only fRegression-260.72/fRegression/R/RegressionFit.R |only fRegression-260.72/fRegression/R/RegressionMethods.R |only fRegression-260.72/fRegression/R/RegressionSim.R |only fRegression-260.72/fRegression/R/RegressionTestsInterface.R |only fRegression-260.72/fRegression/R/TermPlots.R |only fRegression-260.72/fRegression/inst/doc |only fRegression-260.72/fRegression/inst/unitTests/runitRegressionModelling.R |only fRegression-260.72/fRegression/inst/unitTests/runitTermPlots.R |only fRegression-260.72/fRegression/man/RegressionInterface.Rd |only fRegression-270.73/fRegression/DESCRIPTION | 32 ++++----- fRegression-270.73/fRegression/R/coef-methods.R |only fRegression-270.73/fRegression/R/fREG-class.R |only fRegression-270.73/fRegression/R/fitted-methods.R |only fRegression-270.73/fRegression/R/fittedPlot.R |only fRegression-270.73/fRegression/R/formula-methods.R |only fRegression-270.73/fRegression/R/lmTest.R |only fRegression-270.73/fRegression/R/plot-methods.R |only fRegression-270.73/fRegression/R/polymars.R |only fRegression-270.73/fRegression/R/predict-methods.R |only fRegression-270.73/fRegression/R/regFit.R |only fRegression-270.73/fRegression/R/regSim.R |only fRegression-270.73/fRegression/R/residuals-methods.R |only fRegression-270.73/fRegression/R/show-methods.R |only fRegression-270.73/fRegression/R/summary-methods.R |only fRegression-270.73/fRegression/R/termPlot-methods.R |only fRegression-270.73/fRegression/R/terms-methods.R |only fRegression-270.73/fRegression/R/vcov-methods.R |only fRegression-270.73/fRegression/R/zzz.R | 17 ++--- fRegression-270.73/fRegression/inst/unitTests/Makefile | 10 +- fRegression-270.73/fRegression/inst/unitTests/runTests.R | 34 +++++----- fRegression-270.73/fRegression/inst/unitTests/runit.LPP2005.R |only fRegression-270.73/fRegression/inst/unitTests/runit.RegressionModelling.R |only fRegression-270.73/fRegression/inst/unitTests/runit.TermPlots.R |only fRegression-270.73/fRegression/inst/unitTests/runit.TimeSeries.R |only fRegression-270.73/fRegression/inst/unitTests/runit.polymars.R |only fRegression-270.73/fRegression/inst/unitTests/runit.regFit.R |only fRegression-270.73/fRegression/inst/unitTests/runit.terms.R |only fRegression-270.73/fRegression/man/coef-methods.Rd |only fRegression-270.73/fRegression/man/fREG-class.Rd |only fRegression-270.73/fRegression/man/fREG-package.Rd |only fRegression-270.73/fRegression/man/fitted-methods.Rd |only fRegression-270.73/fRegression/man/formula-methods.Rd |only fRegression-270.73/fRegression/man/plot-methods.Rd |only fRegression-270.73/fRegression/man/predict-methods.Rd |only fRegression-270.73/fRegression/man/regFit.Rd |only fRegression-270.73/fRegression/man/regSim.Rd |only fRegression-270.73/fRegression/man/residuals-methods.Rd |only fRegression-270.73/fRegression/man/show-methods.Rd |only fRegression-270.73/fRegression/man/summary-methods.Rd |only fRegression-270.73/fRegression/man/termPlot-methods.Rd |only fRegression-270.73/fRegression/man/terms-methods.Rd |only fRegression-270.73/fRegression/man/vcov-methods.Rd |only 54 files changed, 46 insertions(+), 47 deletions(-)
Author: Diethelm Wuertz
Title: Rmetrics - Portfolio Selection and Optimization
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fPortfolio versions 260.72 dated 2007-10-08 and 280.73 dated 2008-10-23
fPortfolio-260.72/fPortfolio/R/ConstrainedCVaRPortfolio.R |only fPortfolio-260.72/fPortfolio/R/ConstrainedMVPortfolio.R |only fPortfolio-260.72/fPortfolio/R/DrawdownStatistics.R |only fPortfolio-260.72/fPortfolio/R/Extractors.R |only fPortfolio-260.72/fPortfolio/R/PortfolioClass.R |only fPortfolio-260.72/fPortfolio/R/PortfolioClassExtractors.R |only fPortfolio-260.72/fPortfolio/R/PortfolioConstraints.R |only fPortfolio-260.72/fPortfolio/R/PortfolioData.R |only fPortfolio-260.72/fPortfolio/R/PortfolioDataExtractors.R |only fPortfolio-260.72/fPortfolio/R/PortfolioDataSets.R |only fPortfolio-260.72/fPortfolio/R/PortfolioPlots.R |only fPortfolio-260.72/fPortfolio/R/PortfolioSliderMenus.R |only fPortfolio-260.72/fPortfolio/R/PortfolioSolver.R |only fPortfolio-260.72/fPortfolio/R/PortfolioSpec.R |only fPortfolio-260.72/fPortfolio/R/PortfolioSpecExtractors.R |only fPortfolio-260.72/fPortfolio/R/PortfolioUtilities.R |only fPortfolio-260.72/fPortfolio/R/PrintPlotSummary.R |only fPortfolio-260.72/fPortfolio/R/RollingPortfolio.R |only fPortfolio-260.72/fPortfolio/R/ShortMVPortfolio.R |only fPortfolio-260.72/fPortfolio/R/VaRModelling.R |only fPortfolio-260.72/fPortfolio/R/donlp2.R |only fPortfolio-260.72/fPortfolio/inst/doc |only fPortfolio-260.72/fPortfolio/inst/unitTests/runitConstrainedCVaRPortfolio.R |only fPortfolio-260.72/fPortfolio/inst/unitTests/runitConstrainedMVPortfolio.R |only fPortfolio-260.72/fPortfolio/inst/unitTests/runitDrawdownStatistics.R |only fPortfolio-260.72/fPortfolio/inst/unitTests/runitPortfolioClass.R |only fPortfolio-260.72/fPortfolio/inst/unitTests/runitPortfolioConstraints.R |only fPortfolio-260.72/fPortfolio/inst/unitTests/runitPortfolioData.R |only fPortfolio-260.72/fPortfolio/inst/unitTests/runitPortfolioPlots.R |only fPortfolio-260.72/fPortfolio/inst/unitTests/runitPortfolioSolver.R |only fPortfolio-260.72/fPortfolio/inst/unitTests/runitPortfolioSpec.R |only fPortfolio-260.72/fPortfolio/inst/unitTests/runitRiskBudgets.R |only fPortfolio-260.72/fPortfolio/inst/unitTests/runitRollingPortfolio.R |only fPortfolio-260.72/fPortfolio/inst/unitTests/runitShortMVPortfolio.R |only fPortfolio-260.72/fPortfolio/inst/unitTests/runitVaRModelling.R |only fPortfolio-260.72/fPortfolio/man/DrawdownStatistics.Rd |only fPortfolio-260.72/fPortfolio/man/Extractors.Rd |only fPortfolio-260.72/fPortfolio/man/PortfolioClass.Rd |only fPortfolio-260.72/fPortfolio/man/PortfolioClassExtractors.Rd |only fPortfolio-260.72/fPortfolio/man/PortfolioConstraints.Rd |only fPortfolio-260.72/fPortfolio/man/PortfolioData.Rd |only fPortfolio-260.72/fPortfolio/man/PortfolioDataExtractors.Rd |only fPortfolio-260.72/fPortfolio/man/PortfolioDataSets.Rd |only fPortfolio-260.72/fPortfolio/man/PortfolioPlots.Rd |only fPortfolio-260.72/fPortfolio/man/PortfolioSlider.Rd |only fPortfolio-260.72/fPortfolio/man/PortfolioSolver.Rd |only fPortfolio-260.72/fPortfolio/man/PortfolioSpec.Rd |only fPortfolio-260.72/fPortfolio/man/PortfolioSpecExtractors.Rd |only fPortfolio-260.72/fPortfolio/man/RollingPortfolio.Rd |only fPortfolio-260.72/fPortfolio/man/VaRModelling.Rd |only fPortfolio-260.72/fPortfolio/man/donlp2.Rd |only fPortfolio-260.72/fPortfolio/man/donlp2.control.Rd |only fPortfolio-260.72/fPortfolio/man/fPortfolio.Rd |only fPortfolio-280.73/fPortfolio/DESCRIPTION | 33 +-- fPortfolio-280.73/fPortfolio/NAMESPACE |only fPortfolio-280.73/fPortfolio/R/00fPortfolio-package.R |only fPortfolio-280.73/fPortfolio/R/class-fPFOLIOCON.R |only fPortfolio-280.73/fPortfolio/R/class-fPFOLIODATA.R |only fPortfolio-280.73/fPortfolio/R/class-fPFOLIOSPEC.R |only fPortfolio-280.73/fPortfolio/R/class-fPORTFOLIO.R |only fPortfolio-280.73/fPortfolio/R/covEstimator.R |only fPortfolio-280.73/fPortfolio/R/efficientPortfolio.R |only fPortfolio-280.73/fPortfolio/R/feasiblePortfolio.R |only fPortfolio-280.73/fPortfolio/R/frontierPlot.R |only fPortfolio-280.73/fPortfolio/R/frontierPoints.R |only fPortfolio-280.73/fPortfolio/R/getData.R |only fPortfolio-280.73/fPortfolio/R/getDefault.R |only fPortfolio-280.73/fPortfolio/R/getPortfolio.R |only fPortfolio-280.73/fPortfolio/R/getSpec.R |only fPortfolio-280.73/fPortfolio/R/methods-plot.R |only fPortfolio-280.73/fPortfolio/R/methods-show.R |only fPortfolio-280.73/fPortfolio/R/methods-summary.R |only fPortfolio-280.73/fPortfolio/R/portfolioConstraints.R |only fPortfolio-280.73/fPortfolio/R/portfolioData.R |only fPortfolio-280.73/fPortfolio/R/portfolioFrontier.R |only fPortfolio-280.73/fPortfolio/R/portfolioRisk.R |only fPortfolio-280.73/fPortfolio/R/portfolioRolling.R |only fPortfolio-280.73/fPortfolio/R/portfolioSpec.R |only fPortfolio-280.73/fPortfolio/R/setSpec.R |only fPortfolio-280.73/fPortfolio/R/solveRglpk.R |only fPortfolio-280.73/fPortfolio/R/solveRquadprog.R |only fPortfolio-280.73/fPortfolio/R/solveRshortExact.R |only fPortfolio-280.73/fPortfolio/R/solveTwoAssets.R |only fPortfolio-280.73/fPortfolio/R/weightsLinePlot.R |only fPortfolio-280.73/fPortfolio/R/weightsPie.R |only fPortfolio-280.73/fPortfolio/R/weightsPlot.R |only fPortfolio-280.73/fPortfolio/R/weightsSlider.R |only fPortfolio-280.73/fPortfolio/R/zzz.R | 89 +++++----- fPortfolio-280.73/fPortfolio/data |only fPortfolio-280.73/fPortfolio/inst/unitTests/Makefile | 10 - fPortfolio-280.73/fPortfolio/inst/unitTests/runTests.R | 35 ++- fPortfolio-280.73/fPortfolio/inst/unitTests/runit.class-fPFOLIOCON.R |only fPortfolio-280.73/fPortfolio/inst/unitTests/runit.class-fPFOLIODATA.R |only fPortfolio-280.73/fPortfolio/inst/unitTests/runit.class-fPFOLIOSPEC.R |only fPortfolio-280.73/fPortfolio/inst/unitTests/runit.class-fPORTFOLIO.R |only fPortfolio-280.73/fPortfolio/inst/unitTests/runit.covEllipsesPlot.R |only fPortfolio-280.73/fPortfolio/inst/unitTests/runit.efficientPortfolio.R |only fPortfolio-280.73/fPortfolio/inst/unitTests/runit.feasiblePortfolio.R |only fPortfolio-280.73/fPortfolio/inst/unitTests/runit.frontierPlot.R |only fPortfolio-280.73/fPortfolio/inst/unitTests/runit.frontierPlotControl.R |only fPortfolio-280.73/fPortfolio/inst/unitTests/runit.frontierPoints.R |only fPortfolio-280.73/fPortfolio/inst/unitTests/runit.frontierSlider.R |only fPortfolio-280.73/fPortfolio/inst/unitTests/runit.getDefault.R |only fPortfolio-280.73/fPortfolio/inst/unitTests/runit.getPortfolio.R |only fPortfolio-280.73/fPortfolio/inst/unitTests/runit.getSpec.R |only fPortfolio-280.73/fPortfolio/inst/unitTests/runit.methods-plot.R |only fPortfolio-280.73/fPortfolio/inst/unitTests/runit.methods-show.R |only fPortfolio-280.73/fPortfolio/inst/unitTests/runit.methods-summary.R |only fPortfolio-280.73/fPortfolio/inst/unitTests/runit.minvariancePortfolio.R |only fPortfolio-280.73/fPortfolio/inst/unitTests/runit.portfolioConstraints.R |only fPortfolio-280.73/fPortfolio/inst/unitTests/runit.portfolioData.R |only fPortfolio-280.73/fPortfolio/inst/unitTests/runit.portfolioFrontier.R |only fPortfolio-280.73/fPortfolio/inst/unitTests/runit.portfolioRisk.R |only fPortfolio-280.73/fPortfolio/inst/unitTests/runit.portfolioSpec.R |only fPortfolio-280.73/fPortfolio/inst/unitTests/runit.rollingPortfolio.R |only fPortfolio-280.73/fPortfolio/inst/unitTests/runit.solveRglpk.R |only fPortfolio-280.73/fPortfolio/inst/unitTests/runit.solveRquadprog.R |only fPortfolio-280.73/fPortfolio/inst/unitTests/runit.solveRshortExact.R |only fPortfolio-280.73/fPortfolio/inst/unitTests/runit.tangencyPortfolio.R |only fPortfolio-280.73/fPortfolio/inst/unitTests/runit.weightsPie.R |only fPortfolio-280.73/fPortfolio/inst/unitTests/runit.weightsPlot.R |only fPortfolio-280.73/fPortfolio/inst/unitTests/runit.weightsSlider.R |only fPortfolio-280.73/fPortfolio/man/00fPortfolio-package.Rd |only fPortfolio-280.73/fPortfolio/man/class-fPFOLIOCON.Rd |only fPortfolio-280.73/fPortfolio/man/class-fPFOLIODATA.Rd |only fPortfolio-280.73/fPortfolio/man/class-fPFOLIOSPEC.Rd |only fPortfolio-280.73/fPortfolio/man/class-fPORTFOLIO.Rd |only fPortfolio-280.73/fPortfolio/man/covEstimator.Rd |only fPortfolio-280.73/fPortfolio/man/dataSets.Rd |only fPortfolio-280.73/fPortfolio/man/efficientPortfolio.Rd |only fPortfolio-280.73/fPortfolio/man/feasiblePortfolio.Rd |only fPortfolio-280.73/fPortfolio/man/frontierPlot.Rd |only fPortfolio-280.73/fPortfolio/man/frontierPlotControl.Rd |only fPortfolio-280.73/fPortfolio/man/frontierPoints.Rd |only fPortfolio-280.73/fPortfolio/man/getData.Rd |only fPortfolio-280.73/fPortfolio/man/getDefault.Rd |only fPortfolio-280.73/fPortfolio/man/getPortfolio.Rd |only fPortfolio-280.73/fPortfolio/man/getSpec.Rd |only fPortfolio-280.73/fPortfolio/man/methods-plot.Rd |only fPortfolio-280.73/fPortfolio/man/methods-show.Rd |only fPortfolio-280.73/fPortfolio/man/methods-summary.Rd |only fPortfolio-280.73/fPortfolio/man/portfolioConstraints.Rd |only fPortfolio-280.73/fPortfolio/man/portfolioData.Rd |only fPortfolio-280.73/fPortfolio/man/portfolioFrontier.Rd |only fPortfolio-280.73/fPortfolio/man/portfolioRisk.Rd |only fPortfolio-280.73/fPortfolio/man/portfolioRolling.Rd |only fPortfolio-280.73/fPortfolio/man/portfolioSpec.Rd |only fPortfolio-280.73/fPortfolio/man/setSpec.Rd |only fPortfolio-280.73/fPortfolio/man/solveRglpk.Rd |only fPortfolio-280.73/fPortfolio/man/solveRquadprog.Rd |only fPortfolio-280.73/fPortfolio/man/solveRshortExact.Rd |only fPortfolio-280.73/fPortfolio/man/weightsLinePlot.Rd |only fPortfolio-280.73/fPortfolio/man/weightsPie.Rd |only fPortfolio-280.73/fPortfolio/man/weightsPlot.Rd |only fPortfolio-280.73/fPortfolio/man/weightsSlider.Rd |only 155 files changed, 90 insertions(+), 77 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Basics of Option Valuation
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fOptions versions 260.72 dated 2007-10-08 and 270.73 dated 2008-10-23
fOptions-260.72/fOptions/inst/doc |only fOptions-260.72/fOptions/inst/unitTests/runitBasicAmericanOptions.R |only fOptions-260.72/fOptions/inst/unitTests/runitBinomialTreeOptions.R |only fOptions-260.72/fOptions/inst/unitTests/runitHestonNandiGarchFit.R |only fOptions-260.72/fOptions/inst/unitTests/runitHestonnandiGarchOption.R |only fOptions-260.72/fOptions/inst/unitTests/runitLowDiscrepancy.R |only fOptions-260.72/fOptions/inst/unitTests/runitMonteCarloOptions.R |only fOptions-260.72/fOptions/inst/unitTests/runitPlainVanillaOptions.R |only fOptions-270.73/fOptions/DESCRIPTION | 32 fOptions-270.73/fOptions/R/LowDiscrepancy.R | 251 +++---- fOptions-270.73/fOptions/R/PlainVanillaOptions.R | 355 ++++------ fOptions-270.73/fOptions/R/fOptionsEnv.R |only fOptions-270.73/fOptions/R/zzz.R | 34 fOptions-270.73/fOptions/inst/unitTests/Makefile | 10 fOptions-270.73/fOptions/inst/unitTests/runTests.R | 36 - fOptions-270.73/fOptions/inst/unitTests/runit.BasicAmericanOptions.R |only fOptions-270.73/fOptions/inst/unitTests/runit.BinomialTreeOptions.R |only fOptions-270.73/fOptions/inst/unitTests/runit.HestonNandiGarchFit.R |only fOptions-270.73/fOptions/inst/unitTests/runit.HestonnandiGarchOption.R |only fOptions-270.73/fOptions/inst/unitTests/runit.LowDiscrepancy.R |only fOptions-270.73/fOptions/inst/unitTests/runit.MonteCarloOptions.R |only fOptions-270.73/fOptions/inst/unitTests/runit.PlainVanillaOptions.R |only fOptions-270.73/fOptions/man/HestonNandiGarchFit.Rd | 2 fOptions-270.73/fOptions/man/PlainVanillaOptions.Rd | 3 24 files changed, 359 insertions(+), 364 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Nonlinear and Chaotic Time Series Modelling
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fNonlinear versions 260.72 dated 2007-10-08 and 270.73 dated 2008-10-23
fNonlinear-260.72/fNonlinear/inst/doc |only fNonlinear-260.72/fNonlinear/inst/unitTests/runitNonLinModelling.R |only fNonlinear-260.72/fNonlinear/inst/unitTests/runitNonLinPlots.R |only fNonlinear-260.72/fNonlinear/inst/unitTests/runitNonLinTests.R |only fNonlinear-270.73/fNonlinear/DESCRIPTION | 32 ++++----- fNonlinear-270.73/fNonlinear/R/zzz.R | 15 +--- fNonlinear-270.73/fNonlinear/inst/unitTests/Makefile | 10 +- fNonlinear-270.73/fNonlinear/inst/unitTests/runTests.R | 34 +++++----- fNonlinear-270.73/fNonlinear/inst/unitTests/runit.Gallery.R |only fNonlinear-270.73/fNonlinear/inst/unitTests/runit.NonLinModelling.R |only fNonlinear-270.73/fNonlinear/inst/unitTests/runit.NonLinPlots.R |only fNonlinear-270.73/fNonlinear/inst/unitTests/runit.NonLinTests.R |only 12 files changed, 45 insertions(+), 46 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Multivariate Market Analysis
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fMultivar versions 260.72 dated 2007-10-08 and 270.73 dated 2008-10-23
fMultivar-260.72/fMultivar/inst/doc |only fMultivar-260.72/fMultivar/inst/unitTests/runitBivariateBinning.R |only fMultivar-260.72/fMultivar/inst/unitTests/runitBivariateDistributions.R |only fMultivar-260.72/fMultivar/inst/unitTests/runitBivariateGridding.R |only fMultivar-260.72/fMultivar/inst/unitTests/runitMultivariateDistributions.R |only fMultivar-270.73/fMultivar/DESCRIPTION | 32 fMultivar-270.73/fMultivar/R/BivariateBinning.R | 20 fMultivar-270.73/fMultivar/R/MultivariateDistributions.R | 363 ++++------ fMultivar-270.73/fMultivar/R/zzz.R | 28 fMultivar-270.73/fMultivar/inst/unitTests/Makefile | 10 fMultivar-270.73/fMultivar/inst/unitTests/runTests.R | 34 fMultivar-270.73/fMultivar/inst/unitTests/runit.BivariateBinning.R |only fMultivar-270.73/fMultivar/inst/unitTests/runit.BivariateDistributions.R |only fMultivar-270.73/fMultivar/inst/unitTests/runit.BivariateGridding.R |only fMultivar-270.73/fMultivar/inst/unitTests/runit.MultivariateDistributions.R |only fMultivar-270.73/fMultivar/man/BivariateBinning.Rd | 3 fMultivar-270.73/fMultivar/man/MultivariateDistributions.Rd | 3 fMultivar-270.73/fMultivar/man/norm2d.Rd | 1 18 files changed, 252 insertions(+), 242 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Rmetrics - Economic and Financial Data Import
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fImport versions 260.72 dated 2007-10-08 and 270.73 dated 2008-10-23
fImport-260.72/fImport/NAMESPACE |only fImport-260.72/fImport/R/Economagic.R |only fImport-260.72/fImport/R/FedReserve.R |only fImport-260.72/fImport/R/ForecastsOrg.R |only fImport-260.72/fImport/R/WebDatatImport.R |only fImport-260.72/fImport/R/Yahoo.R |only fImport-260.72/fImport/inst/doc |only fImport-260.72/fImport/inst/unitTests/runitEconomagic.R |only fImport-260.72/fImport/inst/unitTests/runitFedReserve.R |only fImport-260.72/fImport/inst/unitTests/runitForecastsOrg.R |only fImport-260.72/fImport/inst/unitTests/runitWebDataImport.R |only fImport-260.72/fImport/inst/unitTests/runitYahoo.R |only fImport-260.72/fImport/man/Economagic.Rd |only fImport-260.72/fImport/man/FedReserve.Rd |only fImport-260.72/fImport/man/ForecastsOrg.Rd |only fImport-260.72/fImport/man/WebDataImport.Rd |only fImport-260.72/fImport/man/Yahoo.Rd |only fImport-270.73/fImport/DESCRIPTION | 32 +++---- fImport-270.73/fImport/R/class-fWEBDATA.R |only fImport-270.73/fImport/R/economagicImport.R |only fImport-270.73/fImport/R/fredImport.R |only fImport-270.73/fImport/R/methods-show.R |only fImport-270.73/fImport/R/oandaImport.R |only fImport-270.73/fImport/R/yahooBriefing.R |only fImport-270.73/fImport/R/yahooImport.R |only fImport-270.73/fImport/R/yahooKeystats.R |only fImport-270.73/fImport/R/zzz.R | 43 ++++------ fImport-270.73/fImport/inst/THANKS |only fImport-270.73/fImport/inst/unitTests/Makefile | 10 +- fImport-270.73/fImport/inst/unitTests/runTests.R | 34 ++++--- fImport-270.73/fImport/inst/unitTests/runit.class-fWEBDATA.R |only fImport-270.73/fImport/inst/unitTests/runit.economagicImport.R |only fImport-270.73/fImport/inst/unitTests/runit.fredImport.R |only fImport-270.73/fImport/inst/unitTests/runit.oandaImport.R |only fImport-270.73/fImport/inst/unitTests/runit.yahooBriefing.R |only fImport-270.73/fImport/inst/unitTests/runit.yahooImport.R |only fImport-270.73/fImport/inst/unitTests/runit.yahooKeystatst.R |only fImport-270.73/fImport/man/00fImport-package.Rd |only fImport-270.73/fImport/man/class-fWEBDATA.Rd |only fImport-270.73/fImport/man/economagicImport.Rd |only fImport-270.73/fImport/man/fredImport.Rd |only fImport-270.73/fImport/man/methods-show.Rd |only fImport-270.73/fImport/man/oandaImport.Rd |only fImport-270.73/fImport/man/yahooBriefing.Rd |only fImport-270.73/fImport/man/yahooImport.Rd |only fImport-270.73/fImport/man/yahooKeystats.Rd |only 46 files changed, 60 insertions(+), 59 deletions(-)
Author: Diethelm Wuertz, Yohan Chalabi
Title: Rmetrics - Autoregressive Conditional Heteroskedastic Modelling
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fGarch versions 260.72 dated 2007-10-08 and 280.73 dated 2008-10-23
fGarch-260.72/fGarch/R/GarchDistributions.R |only fGarch-260.72/fGarch/R/GarchForecasting.R |only fGarch-260.72/fGarch/R/GarchMethods.R |only fGarch-260.72/fGarch/R/GarchModelling.R |only fGarch-260.72/fGarch/R/GarchOxInterface.R |only fGarch-260.72/fGarch/R/GarchSimulation.R |only fGarch-260.72/fGarch/R/GarchSpec.R |only fGarch-260.72/fGarch/inst/doc |only fGarch-260.72/fGarch/inst/ox |only fGarch-260.72/fGarch/inst/unitTests/runitDistributions.R |only fGarch-260.72/fGarch/inst/unitTests/runitGarchForecasting.R |only fGarch-260.72/fGarch/inst/unitTests/runitGarchMethods.R |only fGarch-260.72/fGarch/inst/unitTests/runitGarchModelling.R |only fGarch-260.72/fGarch/inst/unitTests/runitGarchSimulation.R |only fGarch-260.72/fGarch/inst/unitTests/runitGarchSpec.R |only fGarch-260.72/fGarch/inst/unitTests/runitOxInterface.R |only fGarch-260.72/fGarch/man/GarchDistributions.Rd |only fGarch-260.72/fGarch/man/GarchExtractors.Rd |only fGarch-260.72/fGarch/man/GarchFitting.Rd |only fGarch-260.72/fGarch/man/GarchOxInterface.Rd |only fGarch-260.72/fGarch/man/GarchPredictor.Rd |only fGarch-260.72/fGarch/man/GarchReports.Rd |only fGarch-260.72/fGarch/man/GarchSimulation.Rd |only fGarch-260.72/fGarch/man/GarchSpecification.Rd |only fGarch-260.72/fGarch/src/GarchModellingA.f |only fGarch-260.72/fGarch/src/GarchModellingB.f |only fGarch-260.72/fGarch/src/GarchModellingC.f |only fGarch-280.73/fGarch/DESCRIPTION | 32 ++++----- fGarch-280.73/fGarch/NAMESPACE |only fGarch-280.73/fGarch/R/absMoments.R |only fGarch-280.73/fGarch/R/class-fGARCH.R |only fGarch-280.73/fGarch/R/class-fGARCHSPEC.R |only fGarch-280.73/fGarch/R/fGarch-package.R |only fGarch-280.73/fGarch/R/fGarchEnv.R |only fGarch-280.73/fGarch/R/garchFit.R |only fGarch-280.73/fGarch/R/garchFitControl.R |only fGarch-280.73/fGarch/R/garchGradient.R |only fGarch-280.73/fGarch/R/garchHessian.R |only fGarch-280.73/fGarch/R/garchSim.R |only fGarch-280.73/fGarch/R/garchSolver.R |only fGarch-280.73/fGarch/R/garchSpec.R |only fGarch-280.73/fGarch/R/garchStats.R |only fGarch-280.73/fGarch/R/methods-coef.R |only fGarch-280.73/fGarch/R/methods-fitted.R |only fGarch-280.73/fGarch/R/methods-formula.R |only fGarch-280.73/fGarch/R/methods-plot.R |only fGarch-280.73/fGarch/R/methods-predict.R |only fGarch-280.73/fGarch/R/methods-residuals.R |only fGarch-280.73/fGarch/R/methods-show.R |only fGarch-280.73/fGarch/R/methods-summary.R |only fGarch-280.73/fGarch/R/methods-volatility.R |only fGarch-280.73/fGarch/R/sged.R |only fGarch-280.73/fGarch/R/snorm.R |only fGarch-280.73/fGarch/R/sstd.R |only fGarch-280.73/fGarch/R/zzz.R | 27 ------- fGarch-280.73/fGarch/data |only fGarch-280.73/fGarch/inst/THANKS |only fGarch-280.73/fGarch/inst/unitTests/Makefile | 10 +- fGarch-280.73/fGarch/inst/unitTests/runTests.R | 34 +++++----- fGarch-280.73/fGarch/inst/unitTests/runit.formula-methods.R |only fGarch-280.73/fGarch/inst/unitTests/runit.garch-methods.R |only fGarch-280.73/fGarch/inst/unitTests/runit.garchFit.R |only fGarch-280.73/fGarch/inst/unitTests/runit.garchFit.algorithm.R |only fGarch-280.73/fGarch/inst/unitTests/runit.garchFit.aparch.R |only fGarch-280.73/fGarch/inst/unitTests/runit.garchFit.dist.R |only fGarch-280.73/fGarch/inst/unitTests/runit.garchFit.faked.R |only fGarch-280.73/fGarch/inst/unitTests/runit.garchFit.garch.R |only fGarch-280.73/fGarch/inst/unitTests/runit.garchFit.init.R |only fGarch-280.73/fGarch/inst/unitTests/runit.garchHessian.R |only fGarch-280.73/fGarch/inst/unitTests/runit.garchSim.R |only fGarch-280.73/fGarch/inst/unitTests/runit.garchSolver.R |only fGarch-280.73/fGarch/inst/unitTests/runit.garchSpec.R |only fGarch-280.73/fGarch/inst/unitTests/runit.plot-methods.R |only fGarch-280.73/fGarch/inst/unitTests/runit.predict-methods.R |only fGarch-280.73/fGarch/inst/unitTests/runit.sged.R |only fGarch-280.73/fGarch/inst/unitTests/runit.snorm.R |only fGarch-280.73/fGarch/inst/unitTests/runit.sstd.R |only fGarch-280.73/fGarch/man/00fGarch-package.Rd |only fGarch-280.73/fGarch/man/absMoments.Rd |only fGarch-280.73/fGarch/man/class-fGARCH.Rd |only fGarch-280.73/fGarch/man/class-fGARCHSPEC.Rd |only fGarch-280.73/fGarch/man/data.Rd |only fGarch-280.73/fGarch/man/garchFit.Rd |only fGarch-280.73/fGarch/man/garchFitControl.Rd |only fGarch-280.73/fGarch/man/garchSim.Rd |only fGarch-280.73/fGarch/man/garchSpec.Rd |only fGarch-280.73/fGarch/man/methods-coef.Rd |only fGarch-280.73/fGarch/man/methods-fitted.Rd |only fGarch-280.73/fGarch/man/methods-formula.Rd |only fGarch-280.73/fGarch/man/methods-plot.Rd |only fGarch-280.73/fGarch/man/methods-predict.Rd |only fGarch-280.73/fGarch/man/methods-residuals.Rd |only fGarch-280.73/fGarch/man/methods-show.Rd |only fGarch-280.73/fGarch/man/methods-summary.Rd |only fGarch-280.73/fGarch/man/methods-volatility.Rd |only fGarch-280.73/fGarch/man/sged.Rd |only fGarch-280.73/fGarch/man/snorm.Rd |only fGarch-280.73/fGarch/man/sstd.Rd |only fGarch-280.73/fGarch/src/Makevars | 3 fGarch-280.73/fGarch/src/dist.f |only fGarch-280.73/fGarch/src/llhGarch.f |only fGarch-280.73/fGarch/src/math.f |only 102 files changed, 44 insertions(+), 62 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Rmetrics - Extreme Financial Market Data
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fExtremes versions 260.73 dated 2008-06-20 and 270.74 dated 2008-10-23
fExtremes-260.73/fExtremes/R/GpdPrintPlotSummary.R |only fExtremes-260.73/fExtremes/inst/doc |only fExtremes-260.73/fExtremes/inst/unitTests/runitDataPreprocessing.R |only fExtremes-260.73/fExtremes/inst/unitTests/runitExtremeIndex.R |only fExtremes-260.73/fExtremes/inst/unitTests/runitExtremesData.R |only fExtremes-260.73/fExtremes/inst/unitTests/runitGevDistribution.R |only fExtremes-260.73/fExtremes/inst/unitTests/runitGevMdaEstimation.R |only fExtremes-260.73/fExtremes/inst/unitTests/runitGevModelling.R |only fExtremes-260.73/fExtremes/inst/unitTests/runitGevRisk.R |only fExtremes-260.73/fExtremes/inst/unitTests/runitGpdDistribution.R |only fExtremes-260.73/fExtremes/inst/unitTests/runitGpdModelling.R |only fExtremes-260.73/fExtremes/inst/unitTests/runitGpdRisk.R |only fExtremes-270.74/fExtremes/DESCRIPTION | 32 fExtremes-270.74/fExtremes/R/DataPreprocessing.R | 146 +- fExtremes-270.74/fExtremes/R/ExtremeIndex.R | 258 +--- fExtremes-270.74/fExtremes/R/ExtremesData.R | 273 ---- fExtremes-270.74/fExtremes/R/GevDistribution.R | 208 +-- fExtremes-270.74/fExtremes/R/GevFit.R | 635 ++-------- fExtremes-270.74/fExtremes/R/GevMdaEstimation.R | 293 ++-- fExtremes-270.74/fExtremes/R/GevPrintPlotSummary.R | 168 +- fExtremes-270.74/fExtremes/R/GpdDistribution.R | 86 - fExtremes-270.74/fExtremes/R/GpdFit.R | 490 ++----- fExtremes-270.74/fExtremes/R/GpdPlot.R |only fExtremes-270.74/fExtremes/R/GpdRisk.R | 379 +++-- fExtremes-270.74/fExtremes/R/GpdSow.R |only fExtremes-270.74/fExtremes/R/GpdSummary.R |only fExtremes-270.74/fExtremes/R/MeanExcessFit.R |only fExtremes-270.74/fExtremes/R/meanExcessPlot.R |only fExtremes-270.74/fExtremes/R/metrics.R |only fExtremes-270.74/fExtremes/R/zzz.R | 27 fExtremes-270.74/fExtremes/data |only fExtremes-270.74/fExtremes/inst/unitTests/Makefile | 10 fExtremes-270.74/fExtremes/inst/unitTests/runTests.R | 34 fExtremes-270.74/fExtremes/inst/unitTests/runit.DataPreprocessing.R |only fExtremes-270.74/fExtremes/inst/unitTests/runit.ExtremeIndex.R |only fExtremes-270.74/fExtremes/inst/unitTests/runit.ExtremesData.R |only fExtremes-270.74/fExtremes/inst/unitTests/runit.GevDistribution.R |only fExtremes-270.74/fExtremes/inst/unitTests/runit.GevMdaEstimation.R |only fExtremes-270.74/fExtremes/inst/unitTests/runit.GevModelling.R |only fExtremes-270.74/fExtremes/inst/unitTests/runit.GevRisk.R |only fExtremes-270.74/fExtremes/inst/unitTests/runit.GpdDistribution.R |only fExtremes-270.74/fExtremes/inst/unitTests/runit.GpdModelling.R |only fExtremes-270.74/fExtremes/inst/unitTests/runit.GpdRisk.R |only fExtremes-270.74/fExtremes/man/ExtremeIndex.Rd | 5 fExtremes-270.74/fExtremes/man/GevModelling.Rd | 3 fExtremes-270.74/fExtremes/man/GpdDistribution.Rd | 3 fExtremes-270.74/fExtremes/man/GpdModelling.Rd | 4 fExtremes-270.74/fExtremes/man/GpdRisk.Rd | 424 +++--- fExtremes-270.74/fExtremes/man/data.Rd |only 49 files changed, 1348 insertions(+), 2130 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Exotic Option Valuation
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fExoticOptions versions 260.72 dated 2007-10-08 and 270.73 dated 2008-10-23
fExoticOptions-260.72/fExoticOptions/inst/doc |only fExoticOptions-260.72/fExoticOptions/inst/unitTests/runitBarrierOptions.R |only fExoticOptions-260.72/fExoticOptions/inst/unitTests/runitBasicAsianOptions.R |only fExoticOptions-260.72/fExoticOptions/inst/unitTests/runitBinaryOptions.R |only fExoticOptions-260.72/fExoticOptions/inst/unitTests/runitCurrencyTranslatedOptions.R |only fExoticOptions-260.72/fExoticOptions/inst/unitTests/runitLookbackOptions.R |only fExoticOptions-260.72/fExoticOptions/inst/unitTests/runitMultipleAssetsOptions.R |only fExoticOptions-260.72/fExoticOptions/inst/unitTests/runitMultipleExercisesOptions.R |only fExoticOptions-270.73/fExoticOptions/DESCRIPTION | 32 fExoticOptions-270.73/fExoticOptions/R/BinaryOptions.R | 936 +++++----- fExoticOptions-270.73/fExoticOptions/R/MultipleAssetsOptions.R | 290 +-- fExoticOptions-270.73/fExoticOptions/R/zzz.R | 27 fExoticOptions-270.73/fExoticOptions/inst/unitTests/Makefile | 10 fExoticOptions-270.73/fExoticOptions/inst/unitTests/runTests.R | 36 fExoticOptions-270.73/fExoticOptions/inst/unitTests/runit.BarrierOptions.R |only fExoticOptions-270.73/fExoticOptions/inst/unitTests/runit.BasicAsianOptions.R |only fExoticOptions-270.73/fExoticOptions/inst/unitTests/runit.BinaryOptions.R |only fExoticOptions-270.73/fExoticOptions/inst/unitTests/runit.CurrencyTranslatedOptions.R |only fExoticOptions-270.73/fExoticOptions/inst/unitTests/runit.LookbackOptions.R |only fExoticOptions-270.73/fExoticOptions/inst/unitTests/runit.MultipleAssetsOptions.R |only fExoticOptions-270.73/fExoticOptions/inst/unitTests/runit.MultipleExercisesOptions.R |only 21 files changed, 667 insertions(+), 664 deletions(-)
More information about fExoticOptions at CRAN
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Author: Diethelm Wuertz and many others. See the SOURCE file
Title: Economic and Financial Data Sets
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fEcofin versions 270.73 dated 2008-05-13 and 270.74 dated 2008-10-23
fEcofin-270.73/fEcofin/inst/doc |only fEcofin-270.74/fEcofin/DESCRIPTION | 10 +++++----- fEcofin-270.74/fEcofin/R/zzz.R | 35 ++++++++++++++++++----------------- 3 files changed, 23 insertions(+), 22 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Rmetrics - Dependence Structures with Copulas
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fCopulae versions 260.72 dated 2007-10-08 and 270.73 dated 2008-10-23
fCopulae-260.72/fCopulae/inst/doc |only fCopulae-260.72/fCopulae/inst/unitTests/runitArchimedeanCopulae.R |only fCopulae-260.72/fCopulae/inst/unitTests/runitArchimedeanDependency.R |only fCopulae-260.72/fCopulae/inst/unitTests/runitArchimedeanGenerator.R |only fCopulae-260.72/fCopulae/inst/unitTests/runitArchimedeanModelling.R |only fCopulae-260.72/fCopulae/inst/unitTests/runitCopulaClass.R |only fCopulae-260.72/fCopulae/inst/unitTests/runitEllipticalCopulae.R |only fCopulae-260.72/fCopulae/inst/unitTests/runitEllipticalDependency.R |only fCopulae-260.72/fCopulae/inst/unitTests/runitEllipticalGenerator.R |only fCopulae-260.72/fCopulae/inst/unitTests/runitEllipticalModelling.R |only fCopulae-260.72/fCopulae/inst/unitTests/runitEmpiricalCopulae.R |only fCopulae-260.72/fCopulae/inst/unitTests/runitExtremeValueCopulae.R |only fCopulae-260.72/fCopulae/inst/unitTests/runitExtremeValueDependency.R |only fCopulae-260.72/fCopulae/inst/unitTests/runitExtremeValueModelling.R |only fCopulae-260.72/fCopulae/inst/unitTests/runitExtrmeValueGenerator.R |only fCopulae-260.72/fCopulae/inst/unitTests/runitMixedCopulae.R |only fCopulae-270.73/fCopulae/DESCRIPTION | 32 fCopulae-270.73/fCopulae/R/ArchimedeanCopulae.R | 6 fCopulae-270.73/fCopulae/R/ArchimedeanGenerator.R | 2018 +++++----- fCopulae-270.73/fCopulae/R/ArchimedeanSlider.R | 16 fCopulae-270.73/fCopulae/R/CopulaeClass.R | 122 fCopulae-270.73/fCopulae/R/EllipticalCopulae.R | 579 +- fCopulae-270.73/fCopulae/R/EllipticalGenerator.R | 979 ++-- fCopulae-270.73/fCopulae/R/ExtremeValueCopulae.R | 463 +- fCopulae-270.73/fCopulae/R/ExtremeValueDependency.R | 171 fCopulae-270.73/fCopulae/R/ExtremeValueGenerator.R | 341 - fCopulae-270.73/fCopulae/R/MixedCopulae.R | 411 +- fCopulae-270.73/fCopulae/R/biv-binning.R |only fCopulae-270.73/fCopulae/R/biv-density.R |only fCopulae-270.73/fCopulae/R/biv-gridding.R |only fCopulae-270.73/fCopulae/R/bv-dcauchy.R |only fCopulae-270.73/fCopulae/R/bv-delliptical.R |only fCopulae-270.73/fCopulae/R/bv-dnorm.R |only fCopulae-270.73/fCopulae/R/bv-dt.R |only fCopulae-270.73/fCopulae/R/fCopulaeEnv.R |only fCopulae-270.73/fCopulae/R/mv-distributions.R |only fCopulae-270.73/fCopulae/R/mv-dsnorm.R |only fCopulae-270.73/fCopulae/R/mv-dst.R |only fCopulae-270.73/fCopulae/R/zzz.R | 46 fCopulae-270.73/fCopulae/inst/unitTests/Makefile | 10 fCopulae-270.73/fCopulae/inst/unitTests/runTests.R | 34 fCopulae-270.73/fCopulae/inst/unitTests/runit.ArchimedeanCopulae.R |only fCopulae-270.73/fCopulae/inst/unitTests/runit.ArchimedeanDependency.R |only fCopulae-270.73/fCopulae/inst/unitTests/runit.ArchimedeanGenerator.R |only fCopulae-270.73/fCopulae/inst/unitTests/runit.ArchimedeanModelling.R |only fCopulae-270.73/fCopulae/inst/unitTests/runit.BivariateBinning.R |only fCopulae-270.73/fCopulae/inst/unitTests/runit.BivariateDistributions.R |only fCopulae-270.73/fCopulae/inst/unitTests/runit.BivariateGridding.R |only fCopulae-270.73/fCopulae/inst/unitTests/runit.CopulaClass.R |only fCopulae-270.73/fCopulae/inst/unitTests/runit.EllipticalCopulae.R |only fCopulae-270.73/fCopulae/inst/unitTests/runit.EllipticalDependency.R |only fCopulae-270.73/fCopulae/inst/unitTests/runit.EllipticalGenerator.R |only fCopulae-270.73/fCopulae/inst/unitTests/runit.EllipticalModelling.R |only fCopulae-270.73/fCopulae/inst/unitTests/runit.EmpiricalCopulae.R |only fCopulae-270.73/fCopulae/inst/unitTests/runit.ExtremeValueCopulae.R |only fCopulae-270.73/fCopulae/inst/unitTests/runit.ExtremeValueDependency.R |only fCopulae-270.73/fCopulae/inst/unitTests/runit.ExtremeValueModelling.R |only fCopulae-270.73/fCopulae/inst/unitTests/runit.ExtrmeValueGenerator.R |only fCopulae-270.73/fCopulae/inst/unitTests/runit.MixedCopulae.R |only fCopulae-270.73/fCopulae/inst/unitTests/runit.MultivariateDistributions.R |only fCopulae-270.73/fCopulae/man/ArchimedeanCopulae.Rd | 16 fCopulae-270.73/fCopulae/man/ArchimedeanDependency.Rd | 14 fCopulae-270.73/fCopulae/man/ArchimedeanGenerator.Rd | 4 fCopulae-270.73/fCopulae/man/ArchimedeanModelling.Rd | 14 fCopulae-270.73/fCopulae/man/CopulaeClass.Rd | 3 fCopulae-270.73/fCopulae/man/EllipticalCopulae.Rd | 2 fCopulae-270.73/fCopulae/man/EllipticalDependency.Rd | 2 fCopulae-270.73/fCopulae/man/EllipticalGenerator.Rd | 4 fCopulae-270.73/fCopulae/man/EllipticalModelling.Rd | 2 fCopulae-270.73/fCopulae/man/EmpiricalCopulae.Rd | 16 fCopulae-270.73/fCopulae/man/ExtremeValueCopulae.Rd | 4 fCopulae-270.73/fCopulae/man/ExtremeValueDependency.Rd | 4 fCopulae-270.73/fCopulae/man/ExtremeValueGenerator.Rd | 4 fCopulae-270.73/fCopulae/man/ExtremeValueModelling.Rd | 4 fCopulae-270.73/fCopulae/man/cauchy2d.Rd |only fCopulae-270.73/fCopulae/man/density2.Rd |only fCopulae-270.73/fCopulae/man/elliptical2d.Rd |only fCopulae-270.73/fCopulae/man/gridData.Rd |only fCopulae-270.73/fCopulae/man/mvdist.Rd |only fCopulae-270.73/fCopulae/man/norm2d.Rd |only fCopulae-270.73/fCopulae/man/squareBinning.Rd |only fCopulae-270.73/fCopulae/man/t2d.Rd |only 82 files changed, 2662 insertions(+), 2659 deletions(-)
Author: Diethelm Wuertz, Yohan Chalabi
Title: Chronological and Calendarical Objects
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fCalendar versions 270.75 dated 2008-06-03 and 270.76 dated 2008-10-23
fCalendar-270.75/fCalendar/inst/doc |only fCalendar-270.76/fCalendar/DESCRIPTION | 8 ++++---- fCalendar-270.76/fCalendar/R/zzz.R | 23 +++++++++++++---------- 3 files changed, 17 insertions(+), 14 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Bonds and Interest Rate Models
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fBonds versions 260.72 dated 2007-10-08 and 270.73 dated 2008-10-23
fBonds-260.72/fBonds/inst/doc |only fBonds-260.72/fBonds/inst/unitTests |only fBonds-270.73/fBonds/DESCRIPTION | 32 ++++++++++++++++---------------- fBonds-270.73/fBonds/R/zzz.R | 6 ++---- 4 files changed, 18 insertions(+), 20 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Rmetrics - Markets and Basic Statistics
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fBasics versions 260.72 dated 2007-10-08 and 280.73 dated 2008-10-23
fBasics-260.72/fBasics/R/DistributionFits.R |only fBasics-260.72/fBasics/R/HyperbolicDistribution.R |only fBasics-260.72/fBasics/R/JarqueBeraPValues.R |only fBasics-260.72/fBasics/R/ReturnSeriesBasics.R |only fBasics-260.72/fBasics/R/StableDistribution.R |only fBasics-260.72/fBasics/R/StylizedFacts.R |only fBasics-260.72/fBasics/R/TwoSampleTests.R |only fBasics-260.72/fBasics/inst/doc |only fBasics-260.72/fBasics/inst/unitTests/runitDistributionFits.R |only fBasics-260.72/fBasics/inst/unitTests/runitHyperbolicDistribution.R |only fBasics-260.72/fBasics/inst/unitTests/runitJarqueBeraPValues.R |only fBasics-260.72/fBasics/inst/unitTests/runitNormalityTests.R |only fBasics-260.72/fBasics/inst/unitTests/runitReturnSeriesBasics.R |only fBasics-260.72/fBasics/inst/unitTests/runitStableDistribution.R |only fBasics-260.72/fBasics/inst/unitTests/runitStylizedFacts.R |only fBasics-260.72/fBasics/inst/unitTests/runitTwoSampleTests.R |only fBasics-260.72/fBasics/man/HyperbolicDistribution.Rd |only fBasics-260.72/fBasics/man/ReturnSeriesBasics.Rd |only fBasics-260.72/fBasics/man/StylizedFacts.Rd |only fBasics-260.72/fBasics/man/TwoSampleTests.Rd |only fBasics-280.73/fBasics/DESCRIPTION | 33 fBasics-280.73/fBasics/NAMESPACE |only fBasics-280.73/fBasics/R/00fBasics-Package.R |only fBasics-280.73/fBasics/R/Heaviside.R |only fBasics-280.73/fBasics/R/HeavisideSlider.R |only fBasics-280.73/fBasics/R/NormalityTests.R | 340 ++++------ fBasics-280.73/fBasics/R/Sys.putenv.R |only fBasics-280.73/fBasics/R/acfPlot.R |only fBasics-280.73/fBasics/R/akimaInterp.R |only fBasics-280.73/fBasics/R/as.matrix.ts.R |only fBasics-280.73/fBasics/R/baseMethods.R |only fBasics-280.73/fBasics/R/basicStats.R |only fBasics-280.73/fBasics/R/boxPlot.R |only fBasics-280.73/fBasics/R/characterTable.R |only fBasics-280.73/fBasics/R/colIds.R |only fBasics-280.73/fBasics/R/colVec.R |only fBasics-280.73/fBasics/R/colorLocator.R |only fBasics-280.73/fBasics/R/colorPalette.R |only fBasics-280.73/fBasics/R/colorTable.R |only fBasics-280.73/fBasics/R/correlationTest.R |only fBasics-280.73/fBasics/R/decor.R |only fBasics-280.73/fBasics/R/distCheck.R |only fBasics-280.73/fBasics/R/fDISTFIT.R |only fBasics-280.73/fBasics/R/fHTEST.R |only fBasics-280.73/fBasics/R/getS4.R |only fBasics-280.73/fBasics/R/gh.R |only fBasics-280.73/fBasics/R/ghFit.R |only fBasics-280.73/fBasics/R/ghMode.R |only fBasics-280.73/fBasics/R/ghSlider.R |only fBasics-280.73/fBasics/R/ght.R |only fBasics-280.73/fBasics/R/ghtFit.R |only fBasics-280.73/fBasics/R/gridVector.R |only fBasics-280.73/fBasics/R/hilbert.R |only fBasics-280.73/fBasics/R/histPlot.R |only fBasics-280.73/fBasics/R/hyp.R |only fBasics-280.73/fBasics/R/hypFit.R |only fBasics-280.73/fBasics/R/hypMode.R |only fBasics-280.73/fBasics/R/hypSlider.R |only fBasics-280.73/fBasics/R/interactivePlot.R |only fBasics-280.73/fBasics/R/inv.R |only fBasics-280.73/fBasics/R/jbALM.R |only fBasics-280.73/fBasics/R/jbLM.R |only fBasics-280.73/fBasics/R/jbTable.R |only fBasics-280.73/fBasics/R/krigeInterp.R |only fBasics-280.73/fBasics/R/kron.R |only fBasics-280.73/fBasics/R/ks2Test.R |only fBasics-280.73/fBasics/R/lcg.R |only fBasics-280.73/fBasics/R/linearInterp.R |only fBasics-280.73/fBasics/R/listDescription.R |only fBasics-280.73/fBasics/R/listFunctions.R |only fBasics-280.73/fBasics/R/listIndex.R |only fBasics-280.73/fBasics/R/locationTest.R |only fBasics-280.73/fBasics/R/maxdd.R |only fBasics-280.73/fBasics/R/nFit.R |only fBasics-280.73/fBasics/R/nig.R |only fBasics-280.73/fBasics/R/nigFit.R |only fBasics-280.73/fBasics/R/nigShapeTriangle.R |only fBasics-280.73/fBasics/R/nigSlider.R |only fBasics-280.73/fBasics/R/norm.R |only fBasics-280.73/fBasics/R/normalTest.R |only fBasics-280.73/fBasics/R/pascal.R |only fBasics-280.73/fBasics/R/pdl.R |only fBasics-280.73/fBasics/R/plot.R |only fBasics-280.73/fBasics/R/positiveDefinite.R |only fBasics-280.73/fBasics/R/print.R |only fBasics-280.73/fBasics/R/qqPlot.R |only fBasics-280.73/fBasics/R/returnSeriesGUI.R |only fBasics-280.73/fBasics/R/rgb.R |only fBasics-280.73/fBasics/R/rk.R |only fBasics-280.73/fBasics/R/rowStats.R |only fBasics-280.73/fBasics/R/scaleTest.R |only fBasics-280.73/fBasics/R/scalinglawPlot.R |only fBasics-280.73/fBasics/R/seriesPlot.R |only fBasics-280.73/fBasics/R/sliderMenu.R |only fBasics-280.73/fBasics/R/stable.R |only fBasics-280.73/fBasics/R/stableFit.R |only fBasics-280.73/fBasics/R/stableSlider.R |only fBasics-280.73/fBasics/R/stylizedFactsGUI.R |only fBasics-280.73/fBasics/R/subPlot.R |only fBasics-280.73/fBasics/R/subStars.R |only fBasics-280.73/fBasics/R/symbolTable.R |only fBasics-280.73/fBasics/R/tFit.R |only fBasics-280.73/fBasics/R/tr.R |only fBasics-280.73/fBasics/R/triang.R |only fBasics-280.73/fBasics/R/tslag.R |only fBasics-280.73/fBasics/R/unitTest.R |only fBasics-280.73/fBasics/R/unitrootNA.R |only fBasics-280.73/fBasics/R/varianceTest.R |only fBasics-280.73/fBasics/R/vec.R |only fBasics-280.73/fBasics/R/zzz.R | 42 - fBasics-280.73/fBasics/inst/unitTests/HeavisideSlider.R |only fBasics-280.73/fBasics/inst/unitTests/Makefile | 10 fBasics-280.73/fBasics/inst/unitTests/runTests.R | 34 - fBasics-280.73/fBasics/inst/unitTests/runit.DistributionFits.R |only fBasics-280.73/fBasics/inst/unitTests/runit.Heaviside.R |only fBasics-280.73/fBasics/inst/unitTests/runit.HyperbolicDistribution.R |only fBasics-280.73/fBasics/inst/unitTests/runit.JarqueBeraPValues.R |only fBasics-280.73/fBasics/inst/unitTests/runit.NormalityTests.R |only fBasics-280.73/fBasics/inst/unitTests/runit.ReturnSeriesBasics.R |only fBasics-280.73/fBasics/inst/unitTests/runit.StableDistribution.R |only fBasics-280.73/fBasics/inst/unitTests/runit.StylizedFacts.R |only fBasics-280.73/fBasics/inst/unitTests/runit.Sys.putenv.R |only fBasics-280.73/fBasics/inst/unitTests/runit.TwoSampleTests.R |only fBasics-280.73/fBasics/inst/unitTests/runit.akimaInterp.R |only fBasics-280.73/fBasics/inst/unitTests/runit.as.matrix.ts.R |only fBasics-280.73/fBasics/inst/unitTests/runit.asPOSIXlt.R |only fBasics-280.73/fBasics/inst/unitTests/runit.baseMethods.R |only fBasics-280.73/fBasics/inst/unitTests/runit.characterTable.R |only fBasics-280.73/fBasics/inst/unitTests/runit.colStats.R |only fBasics-280.73/fBasics/inst/unitTests/runit.colorLocator.R |only fBasics-280.73/fBasics/inst/unitTests/runit.colorPalette.R |only fBasics-280.73/fBasics/inst/unitTests/runit.colorTable.R |only fBasics-280.73/fBasics/inst/unitTests/runit.decor.R |only fBasics-280.73/fBasics/inst/unitTests/runit.description.R |only fBasics-280.73/fBasics/inst/unitTests/runit.distCheck.R |only fBasics-280.73/fBasics/inst/unitTests/runit.fHTEST.R |only fBasics-280.73/fBasics/inst/unitTests/runit.getS4.R |only fBasics-280.73/fBasics/inst/unitTests/runit.gridVector.R |only fBasics-280.73/fBasics/inst/unitTests/runit.interactivePlot.R |only fBasics-280.73/fBasics/inst/unitTests/runit.julian.R |only fBasics-280.73/fBasics/inst/unitTests/runit.krigeInterp.R |only fBasics-280.73/fBasics/inst/unitTests/runit.kurtosis.R |only fBasics-280.73/fBasics/inst/unitTests/runit.lcg.R |only fBasics-280.73/fBasics/inst/unitTests/runit.linearInterp.R |only fBasics-280.73/fBasics/inst/unitTests/runit.listDescription.R |only fBasics-280.73/fBasics/inst/unitTests/runit.listFunctions.R |only fBasics-280.73/fBasics/inst/unitTests/runit.listIndex.R |only fBasics-280.73/fBasics/inst/unitTests/runit.matrixAddon.R |only fBasics-280.73/fBasics/inst/unitTests/runit.plot.R |only fBasics-280.73/fBasics/inst/unitTests/runit.print.R |only fBasics-280.73/fBasics/inst/unitTests/runit.rgb.R |only fBasics-280.73/fBasics/inst/unitTests/runit.rowStats.R |only fBasics-280.73/fBasics/inst/unitTests/runit.skewness.R |only fBasics-280.73/fBasics/inst/unitTests/runit.sliderMenu.R |only fBasics-280.73/fBasics/inst/unitTests/runit.subPlot.R |only fBasics-280.73/fBasics/inst/unitTests/runit.subStars.R |only fBasics-280.73/fBasics/inst/unitTests/runit.symbolTable.R |only fBasics-280.73/fBasics/inst/unitTests/runit.unitrootNA.R |only fBasics-280.73/fBasics/man/00fBasics-package.Rd |only fBasics-280.73/fBasics/man/00fUtilities-package.Rd |only fBasics-280.73/fBasics/man/DistributionFits.Rd | 58 - fBasics-280.73/fBasics/man/Heaviside.Rd |only fBasics-280.73/fBasics/man/StableDistribution.Rd | 1 fBasics-280.73/fBasics/man/acfPlot.Rd |only fBasics-280.73/fBasics/man/akimaInterp.Rd |only fBasics-280.73/fBasics/man/baseMethods.Rd |only fBasics-280.73/fBasics/man/basicStats.Rd |only fBasics-280.73/fBasics/man/boxPlot.Rd |only fBasics-280.73/fBasics/man/characterTable.Rd |only fBasics-280.73/fBasics/man/colIds.Rd |only fBasics-280.73/fBasics/man/colVec.Rd |only fBasics-280.73/fBasics/man/colorLocator.Rd |only fBasics-280.73/fBasics/man/colorPalette.Rd |only fBasics-280.73/fBasics/man/colorTable.Rd |only fBasics-280.73/fBasics/man/correlationTest.Rd |only fBasics-280.73/fBasics/man/decor.Rd |only fBasics-280.73/fBasics/man/distCheck.Rd |only fBasics-280.73/fBasics/man/fHTEST.Rd |only fBasics-280.73/fBasics/man/getS4.Rd |only fBasics-280.73/fBasics/man/gh.Rd |only fBasics-280.73/fBasics/man/ghFit.Rd |only fBasics-280.73/fBasics/man/ghMode.Rd |only fBasics-280.73/fBasics/man/ghSlider.Rd |only fBasics-280.73/fBasics/man/ght.Rd |only fBasics-280.73/fBasics/man/ghtFit.Rd |only fBasics-280.73/fBasics/man/gridVector.Rd |only fBasics-280.73/fBasics/man/hilbert.Rd |only fBasics-280.73/fBasics/man/histPlot.Rd |only fBasics-280.73/fBasics/man/hyp.Rd |only fBasics-280.73/fBasics/man/hypFit.Rd |only fBasics-280.73/fBasics/man/hypMode.Rd |only fBasics-280.73/fBasics/man/hypSlider.Rd |only fBasics-280.73/fBasics/man/interactivePlot.Rd |only fBasics-280.73/fBasics/man/inv.Rd |only fBasics-280.73/fBasics/man/krigeInterp.Rd |only fBasics-280.73/fBasics/man/kron.Rd |only fBasics-280.73/fBasics/man/ks2Test.Rd |only fBasics-280.73/fBasics/man/lcg.Rd |only fBasics-280.73/fBasics/man/linearInterp.Rd |only fBasics-280.73/fBasics/man/listDescription.Rd |only fBasics-280.73/fBasics/man/listFunctions.Rd |only fBasics-280.73/fBasics/man/listIndex.Rd |only fBasics-280.73/fBasics/man/locationTest.Rd |only fBasics-280.73/fBasics/man/maxdd.Rd |only fBasics-280.73/fBasics/man/nig.Rd |only fBasics-280.73/fBasics/man/nigShapeTriangle.Rd |only fBasics-280.73/fBasics/man/nigSlider.Rd |only fBasics-280.73/fBasics/man/norm.Rd |only fBasics-280.73/fBasics/man/pascal.Rd |only fBasics-280.73/fBasics/man/pdl.Rd |only fBasics-280.73/fBasics/man/positiveDefinite.Rd |only fBasics-280.73/fBasics/man/print.Rd |only fBasics-280.73/fBasics/man/qqPlot.Rd |only fBasics-280.73/fBasics/man/returnSeriesGUI.Rd |only fBasics-280.73/fBasics/man/rk.Rd |only fBasics-280.73/fBasics/man/rowStats.Rd |only fBasics-280.73/fBasics/man/scaleTest.Rd |only fBasics-280.73/fBasics/man/scalinglawPlot.Rd |only fBasics-280.73/fBasics/man/seriesPlot.Rd |only fBasics-280.73/fBasics/man/symbolTable.Rd |only fBasics-280.73/fBasics/man/tr.Rd |only fBasics-280.73/fBasics/man/triang.Rd |only fBasics-280.73/fBasics/man/tslag.Rd |only fBasics-280.73/fBasics/man/varianceTest.Rd |only fBasics-280.73/fBasics/man/vec.Rd |only 225 files changed, 237 insertions(+), 281 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Rmetrics - Assets Selection and Modelling
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fAssets versions 260.72 dated 2007-10-08 and 280.73 dated 2008-10-23
fAssets-260.72/fAssets/R/AssetsExampleData.R |only fAssets-260.72/fAssets/R/AssetsMeanCov.R |only fAssets-260.72/fAssets/R/AssetsModelling.R |only fAssets-260.72/fAssets/R/AssetsPlots.R |only fAssets-260.72/fAssets/R/AssetsSelection.R |only fAssets-260.72/fAssets/R/AssetsTests.R |only fAssets-260.72/fAssets/R/Correllogram.R |only fAssets-260.72/fAssets/R/LowerPartialMoments.R |only fAssets-260.72/fAssets/R/MeanCovBuiltin.R |only fAssets-260.72/fAssets/R/MinSpanningTree.R |only fAssets-260.72/fAssets/inst/doc |only fAssets-260.72/fAssets/inst/unitTests/runitAssetsMeanCov.R |only fAssets-260.72/fAssets/inst/unitTests/runitAssetsModelling.R |only fAssets-260.72/fAssets/inst/unitTests/runitAssetsPlots.R |only fAssets-260.72/fAssets/inst/unitTests/runitAssetsSelection.R |only fAssets-260.72/fAssets/inst/unitTests/runitAssetsTests.R |only fAssets-260.72/fAssets/inst/unitTests/runitLowerPartialMoments.R |only fAssets-260.72/fAssets/man/AssetsMeanCov.Rd |only fAssets-260.72/fAssets/man/AssetsModelling.Rd |only fAssets-260.72/fAssets/man/AssetsPlots.Rd |only fAssets-260.72/fAssets/man/AssetsSelection.Rd |only fAssets-260.72/fAssets/man/AssetsTests.Rd |only fAssets-260.72/fAssets/man/LowerPartialMoments.Rd |only fAssets-280.73/fAssets/DESCRIPTION | 32 +++--- fAssets-280.73/fAssets/NAMESPACE |only fAssets-280.73/fAssets/R/VaRModelling.R |only fAssets-280.73/fAssets/R/assetsArrange.R |only fAssets-280.73/fAssets/R/assetsFit.R |only fAssets-280.73/fAssets/R/assetsLPM.R |only fAssets-280.73/fAssets/R/assetsMeanCov.R |only fAssets-280.73/fAssets/R/assetsSelect.R |only fAssets-280.73/fAssets/R/assetsSim.R |only fAssets-280.73/fAssets/R/assetsStats.R |only fAssets-280.73/fAssets/R/assetsTest.R |only fAssets-280.73/fAssets/R/builtin-corpcor.R |only fAssets-280.73/fAssets/R/builtin-covRobust.R |only fAssets-280.73/fAssets/R/builtin-energy.R |only fAssets-280.73/fAssets/R/builtin-mst.R |only fAssets-280.73/fAssets/R/buitin-corrgram.R |only fAssets-280.73/fAssets/R/exampleCovData.R |only fAssets-280.73/fAssets/R/fixBinHistogram.R |only fAssets-280.73/fAssets/R/outlierDetection.R |only fAssets-280.73/fAssets/R/plot-boxplot.R |only fAssets-280.73/fAssets/R/plot-correlation.R |only fAssets-280.73/fAssets/R/plot-covEllipses.R |only fAssets-280.73/fAssets/R/plot-hist.R |only fAssets-280.73/fAssets/R/plot-histPairs.R |only fAssets-280.73/fAssets/R/plot-minSpanTree.R |only fAssets-280.73/fAssets/R/plot-pairs.R |only fAssets-280.73/fAssets/R/plot-qqplot.R |only fAssets-280.73/fAssets/R/plot-risk.R |only fAssets-280.73/fAssets/R/plot-series.R |only fAssets-280.73/fAssets/R/plot-similarity.R |only fAssets-280.73/fAssets/R/plot-stars.R |only fAssets-280.73/fAssets/R/zzz.R | 50 ++++------ fAssets-280.73/fAssets/inst/unitTests/Makefile | 10 +- fAssets-280.73/fAssets/inst/unitTests/runTests.R | 34 +++--- fAssets-280.73/fAssets/inst/unitTests/runit.AssetsFit.R |only fAssets-280.73/fAssets/inst/unitTests/runit.AssetsMeanCov.R |only fAssets-280.73/fAssets/inst/unitTests/runit.AssetsPlots.R |only fAssets-280.73/fAssets/inst/unitTests/runit.AssetsSelect.R |only fAssets-280.73/fAssets/inst/unitTests/runit.AssetsTests.R |only fAssets-280.73/fAssets/inst/unitTests/runit.LowerPartialMoments.R |only fAssets-280.73/fAssets/man/VaRModelling.Rd |only fAssets-280.73/fAssets/man/assetsFit.Rd |only fAssets-280.73/fAssets/man/assetsLPM.Rd |only fAssets-280.73/fAssets/man/assetsMeanCov.Rd |only fAssets-280.73/fAssets/man/assetsSelect.Rd |only fAssets-280.73/fAssets/man/assetsStats.Rd |only fAssets-280.73/fAssets/man/assetsTest.Rd |only fAssets-280.73/fAssets/man/boxPlot.Rd |only fAssets-280.73/fAssets/man/covEllipsesPlot.Rd |only fAssets-280.73/fAssets/man/pairsPlot.Rd |only fAssets-280.73/fAssets/man/seriesPlot.Rd |only fAssets-280.73/fAssets/man/similarityPlot.Rd |only fAssets-280.73/fAssets/man/starsPlot.Rd |only fAssets-280.73/fAssets/src/energy.c | 8 + 77 files changed, 64 insertions(+), 70 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: EBM and Asian Option Valuation
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fAsianOptions versions 260.72 dated 2007-10-08 and 270.73 dated 2008-10-23
fAsianOptions-260.72/fAsianOptions/inst/doc |only fAsianOptions-260.72/fAsianOptions/inst/unitTests/runitBesselFunctions.R |only fAsianOptions-260.72/fAsianOptions/inst/unitTests/runitEBMAsianOptions.R |only fAsianOptions-260.72/fAsianOptions/inst/unitTests/runitEBMDistribution.R |only fAsianOptions-260.72/fAsianOptions/inst/unitTests/runitGammaFunctions.R |only fAsianOptions-260.72/fAsianOptions/inst/unitTests/runitHypergeometricFunctions.R |only fAsianOptions-270.73/fAsianOptions/DESCRIPTION | 32 ++++---- fAsianOptions-270.73/fAsianOptions/R/zzz.R | 35 +++------ fAsianOptions-270.73/fAsianOptions/inst/unitTests/Makefile | 10 +- fAsianOptions-270.73/fAsianOptions/inst/unitTests/runTests.R | 36 +++++----- fAsianOptions-270.73/fAsianOptions/inst/unitTests/runit.BesselFunctions.R |only fAsianOptions-270.73/fAsianOptions/inst/unitTests/runit.EBMAsianOptions.R |only fAsianOptions-270.73/fAsianOptions/inst/unitTests/runit.EBMDistribution.R |only fAsianOptions-270.73/fAsianOptions/inst/unitTests/runit.GammaFunctions.R |only fAsianOptions-270.73/fAsianOptions/inst/unitTests/runit.HypergeometricFunctions.R |only 15 files changed, 54 insertions(+), 59 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: ARMA Time Series Modelling
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fArma versions 260.72 dated 2007-10-08 and 270.73 dated 2008-10-23
fArma-260.72/fArma/R/arfimaOx.R |only fArma-260.72/fArma/inst/doc |only fArma-260.72/fArma/inst/unitTests/runitArfimaOxInterface.R |only fArma-260.72/fArma/inst/unitTests/runitArmaModelling.R |only fArma-260.72/fArma/inst/unitTests/runitArmaStatistics.R |only fArma-260.72/fArma/inst/unitTests/runitLongRangeModelling.R |only fArma-260.72/fArma/inst/unitTests/runitLongRangeStatistics.R |only fArma-260.72/fArma/man/ArfimaOxInterface.Rd |only fArma-270.73/fArma/DESCRIPTION | 32 fArma-270.73/fArma/R/armaFit.R | 308 +-- fArma-270.73/fArma/R/armaPredict.R | 118 - fArma-270.73/fArma/R/armaReport.R | 250 +- fArma-270.73/fArma/R/armaSim.R | 115 - fArma-270.73/fArma/R/farimaStats.R | 126 - fArma-270.73/fArma/R/fbmSim.R | 214 +- fArma-270.73/fArma/R/fgnSim.R | 172 - fArma-270.73/fArma/R/fgnStats.R | 112 - fArma-270.73/fArma/R/hurst.R | 499 ++--- fArma-270.73/fArma/R/modelSeries.R | 27 fArma-270.73/fArma/R/wavelet.R | 538 +++--- fArma-270.73/fArma/R/whittle.R | 443 ++--- fArma-270.73/fArma/R/zzz.R | 16 fArma-270.73/fArma/inst/unitTests/Makefile | 10 fArma-270.73/fArma/inst/unitTests/runTests.R | 34 fArma-270.73/fArma/inst/unitTests/runit.ArmaModelling.R |only fArma-270.73/fArma/inst/unitTests/runit.ArmaStatistics.R |only fArma-270.73/fArma/inst/unitTests/runit.LongRangeModelling.R |only fArma-270.73/fArma/inst/unitTests/runit.LongRangeStatistics.R |only fArma-270.73/fArma/man/ArmaInterface.Rd | 880 ++++------ fArma-270.73/fArma/man/LrdModelling.Rd | 3 30 files changed, 1941 insertions(+), 1956 deletions(-)
Author: Gemechis Dilba, Mario Hasler, Daniel Gerhard, Frank Schaarschmidt
Title: Inferences for ratios of coefficients in the general linear model
Description: With this package, it is possible to perform (simultaneous) inferences for ratios of linear combinations of coefficients in the
general linear model. In particular, tests and confidence interval estimations for ratios of
treatment means in the normal one-way layout and confidence interval estimations like in (multiple) slope ratio
and parallel line assays can be carried out. Moreover, it is possible to calculate the sample sizes required in comparisons
with a control based on relative margins. For the simple two-sample problem, functions for a t-test for ratio-formatted
hypotheses and the corresponding Fieller confidence interval are provided assuming homogeneous or heterogeneous group variances.
Diff between mratios versions 1.3.8 dated 2008-06-10 and 1.3.9 dated 2008-10-23
DESCRIPTION | 8 ++++---- NAMESPACE | 1 + R/gsci.ratio.R |only man/gsci.ratio.Rd |only 4 files changed, 5 insertions(+), 4 deletions(-)
Author: Sebastian P. Luque
Diff between diveMove versions 0.9.1 dated 2008-06-13 and 0.9.2 dated 2008-10-23
Title: Dive analysis and calibration
Description: Functions to filter and summarize time-depth recorder (TDR)
data, and miscellaneous functions for handling location data.
diveMove-0.9.1/diveMove/inst/doc/Makefile |only
diveMove-0.9.1/diveMove/inst/doc/Rplots.pdf |only
diveMove-0.9.1/diveMove/inst/doc/diveMove.Rnw |only
diveMove-0.9.1/diveMove/inst/doc/diveMove.tex |only
diveMove-0.9.2/diveMove/ChangeLog | 15 +++++++++++++++
diveMove-0.9.2/diveMove/DESCRIPTION | 4 ++--
diveMove-0.9.2/diveMove/R/diveStats.R | 4 ++--
diveMove-0.9.2/diveMove/README | 9 ++++++++-
diveMove-0.9.2/diveMove/inst/doc/diveMove.pdf |binary
9 files changed, 27 insertions(+), 5 deletions(-)
Author: Original Matlab routines by C.J.F. ter Braak and A.P. Schaffers. R port by Gavin L. Simpson.
Function simpls based on simpls.fit (package pls) by Ron Wehrens and Bjorn-Helge Mevik.
Title: Co-correspondence analysis methods
Description: Fits predictive and symmetric co-correspondence analysis (CoCA) models to relate one data matrix
to another data matrix. More specifically, CoCA maximises the weighted covariance
between the weighted averaged species scores of one community and the weighted averaged species
scores of another community. CoCA attempts to find patterns that are common to both communitities.
Diff between cocorresp versions 0.1-6 dated 2007-12-14 and 0.1-7 dated 2008-10-23
cocorresp-0.1-6/cocorresp/R/pasteCall.R |only cocorresp-0.1-6/cocorresp/man/pasteCall.Rd |only cocorresp-0.1-7/cocorresp/DESCRIPTION | 6 +++--- cocorresp-0.1-7/cocorresp/inst/ChangeLog | 11 ++++++++++- cocorresp-0.1-7/cocorresp/man/permutest.coca.Rd | 2 +- 5 files changed, 14 insertions(+), 5 deletions(-)
Author: John Fox
Diff between car versions 1.2-8 dated 2008-04-20 and 1.2-9 dated 2008-10-23
Title: Companion to Applied Regression
Description:
This package accompanies J. Fox, An R and S-PLUS Companion to Applied Regression,
Sage, 2002.
The package contains mostly functions for applied regression, linear models, and
generalized linear models, with an emphasis on regression diagnostics, particularly
graphical diagnostic methods. There are also some utility functions.
With some exceptions, I have tried not to duplicate capabilities in the basic distribution of R,
nor in widely used packages. Where relevant, the functions in car are consistent with
na.action = na.omit or na.exclude.
.project |only
DESCRIPTION | 6 -
R/linear.hypothesis.R | 166 ++++++++++++++++++++++++-----------------------
R/scatterplot.R | 9 +-
inst/CHANGES | 14 +++
man/linear.hypothesis.Rd | 8 +-
man/scatterplot.Rd | 7 +
7 files changed, 114 insertions(+), 96 deletions(-)
Author: Clement Calenge, contributions from Mathieu Basille, Stephane Dray and Scott Fortmann-Roe
Title: Analysis of habitat selection by animals
Description: A collection of tools for the analysis of habitat selection by animals
Diff between adehabitat versions 1.7.3 dated 2008-10-07 and 1.8.0 dated 2008-10-23
CONTENTS | 18 DESCRIPTION | 9 INDEX | 5 R/engen2008.r |only R/findmaxasc.r |only R/getverticeshr.r | 20 R/getvolumeUD.r | 4 R/kernelUD.r | 1 R/kernelbb.r | 1 R/kernelkc.r |only R/simm.levy.r | 4 man/adehabitat-package.Rd | 4 man/compana.Rd | 32 + man/engen2008II.Rd |only man/findmaxasc.Rd |only man/kernelkc.Rd |only man/wi.Rd | 9 src/tests.c | 1166 +++++++++++++++++++++++++++++++++++++++++++++- 18 files changed, 1253 insertions(+), 20 deletions(-)
Author: Jasjeet Singh Sekhon
Diff between Matching versions 4.6-2 dated 2008-06-26 and 4.7-3 dated 2008-10-23
Title: Multivariate and Propensity Score Matching with Balance Optimization
Description: Provides functions for multivariate and propensity score matching
and for finding optimal balance based on a genetic search algorithm.
A variety of univariate and multivariate metrics to
determine if balance has been obtained are also provided.
Matching-4.6-2/Matching/man/balanceMV.Rd |only
Matching-4.6-2/Matching/man/summary.balanceMV.Rd |only
Matching-4.7-3/Matching/DESCRIPTION | 6
Matching-4.7-3/Matching/INDEX | 2
Matching-4.7-3/Matching/NAMESPACE | 3
Matching-4.7-3/Matching/R/Matching.R | 414 -------------------
Matching-4.7-3/Matching/demo/DehejiaWahba.R | 2
Matching-4.7-3/Matching/man/GenMatch.Rd | 16
Matching-4.7-3/Matching/man/GerberGreenImai.Rd | 17
Matching-4.7-3/Matching/man/Match.Rd | 16
Matching-4.7-3/Matching/man/MatchBalance.Rd | 43 -
Matching-4.7-3/Matching/man/Matchby.Rd | 16
Matching-4.7-3/Matching/man/balanceUV.Rd | 11
Matching-4.7-3/Matching/man/ks.boot.Rd | 14
Matching-4.7-3/Matching/man/lalonde.Rd | 6
Matching-4.7-3/Matching/man/qqstats.Rd | 16
Matching-4.7-3/Matching/man/summary.Match.Rd | 4
Matching-4.7-3/Matching/man/summary.Matchby.Rd | 4
Matching-4.7-3/Matching/man/summary.balanceUV.Rd | 4
Matching-4.7-3/Matching/man/summary.ks.boot.Rd | 4
Matching-4.7-3/Matching/tests/AbadieImbens.Rout.save | 4
Matching-4.7-3/Matching/tests/DehejiaWahba.Rout.save | 4
Matching-4.7-3/Matching/tests/GenMatch.R | 2
Matching-4.7-3/Matching/tests/GenMatch.Rout.save | 10
Matching-4.7-3/Matching/tests/Matchby.Rout.save | 4
25 files changed, 102 insertions(+), 520 deletions(-)
Author: Frank Schaarschmidt, Daniel Gerhard, Martin Sill
Title: Multiple comparisons using normal approximation
Description: Multiple contrast tests and simultaneous confidence
intervals based on normal approximation. With implementations for
binomial proportions in a 2xk setting (risk difference and odds ratio),
poly-3-adjusted tumour rates, and multiple comparisons of biodiversity indices.
Approximative power calculation for multiple contrast tests of binomial
proportions.
Diff between MCPAN versions 1.1-6 dated 2008-06-10 and 1.1-7 dated 2008-10-23
DESCRIPTION | 6 - R/Shannon.R | 21 +++-- R/Simpson.R | 21 ++--- R/binomORci.R | 88 ++++++++++----------- R/binomRDci.R | 26 +++--- R/binomRDtest.R | 64 +++++++-------- R/binomRRci.R | 80 +++++++++---------- R/mosaicShannonSimpson.R | 44 +++++----- R/plotCI.R | 190 +++++++++++++++++++++++------------------------ R/poly3ci.R | 8 + R/poly3test.R | 8 + R/print.binomORci.R | 6 - R/summary.binomORci.R | 6 - R/summary.binomRDci.R | 6 - R/summary.binomRDtest.R | 6 - R/summary.binomRRci.R | 6 - man/MCPAN-package.Rd | 37 ++++++--- man/Shannonci.Rd | 8 + man/Simpsonci.Rd | 4 man/binomRDci.Rd | 105 ++++++++++++++++++++++++- man/poly3ci.Rd | 53 ++++++++++++- man/poly3test.Rd | 3 22 files changed, 487 insertions(+), 309 deletions(-)
Author: Achim Zeileis, Christian Kleiber
Title: Applied Econometrics with R
Description: Functions, data sets, examples, demos, and vignettes for the book
Christian Kleiber and Achim Zeileis (2008),
Applied Econometrics with R, Springer-Verlag, New York.
ISBN 978-0-387-77316-2. (See the vignette for a package overview.)
Diff between AER versions 1.0-0 dated 2008-08-26 and 1.0-1 dated 2008-10-22
DESCRIPTION | 6 ++--- inst/doc/AER.Rnw | 36 +++++++++++++++++++---------------- inst/doc/AER.pdf |binary inst/doc/Sweave-journals.pdf | 10 ++++----- man/NMES1988.Rd | 2 - tests/Ch-Basics.Rout.save | 8 +++++++ tests/Ch-Intro.Rout.save | 8 +++++++ tests/Ch-LinearRegression.Rout.save | 8 +++++++ tests/Ch-Microeconometrics.Rout.save | 8 +++++++ tests/Ch-Programming.Rout.save | 8 +++++++ tests/Ch-TimeSeries.Rout.save | 8 +++++++ tests/Ch-Validation.Rout.save | 8 +++++++ 12 files changed, 85 insertions(+), 25 deletions(-)
Author: Jochen Knaus
Title: Easier cluster computing (based on snow).
Description: Toplevel wrapper around snow for easier development of
parallel R programs.
All functions work in sequential mode, too, if no cluster is present
or wished.
Package is also designed as connector to the cluster management tool
sfCluster, but can also used without it.
Diff between snowfall versions 1.53 dated 2008-08-22 and 1.60 dated 2008-10-22
DESCRIPTION | 13 + NAMESPACE | 2 R/init.R | 299 ++++++++++++++++++++++++++++++++----------- inst/doc/snowfall.Snw | 124 +++++++++++++++-- inst/doc/snowfall.Snw.backup |only inst/doc/snowfall.aux |only inst/doc/snowfall.dvi |only inst/doc/snowfall.log |only inst/doc/snowfall.pdf |binary inst/doc/snowfall.tex | 124 +++++++++++++++-- inst/doc/snowfall.toc |only man/snowfall-b-init.Rd | 76 +++++++++- 12 files changed, 510 insertions(+), 128 deletions(-)
Author: Felix Andrews
Diff between playwith versions 0.9-31 dated 2008-10-21 and 0.9-32 dated 2008-10-22
Title: A GUI for interactive plots using GTK+
Description: A GTK+ graphical user interface for exploring and editing R plots.
Also includes latticist, a Lattice-based tool for exploratory visualisation.
DESCRIPTION | 8 ++++----
NAMESPACE | 6 +++---
R/latticist.R | 25 +++++++++++++++++--------
R/uiIdentifyActions.R | 9 ++++++---
inst/NEWS | 9 ++++++++-
5 files changed, 38 insertions(+), 19 deletions(-)
Author: Reinhard Furrer, Douglas Nychka and Stephen Sain
Title: Tools for spatial data
Description: Fields is for curve, surface and function
fitting with an emphasis on splines, spatial data and spatial statistics. The
major methods include cubic, robust, and thin plate splines,
multivariate Kriging and Kriging for large data sets. One main feature is any
covariance function implemented in R can be used for spatial prediction.
There are also useful functions for plotting and working with
spatial data as images. This package also contains an implementation of a
sparse matrix methods for large data sets and currently requires the
sparse matrix (spam) package for testing (but not for the standard spatial
functions.) Use help(fields) to get started and for an overview.
Diff between fields versions 4.3 dated 2008-07-08 and 5.01 dated 2008-10-22
fields-4.3/fields/R/image.smooth.setup.R |only fields-4.3/fields/tests/mKrig.Rout.save |only fields-5.01/fields/DESCRIPTION | 6 fields-5.01/fields/INDEX | 13 - fields-5.01/fields/R/Krig.Amatrix.R | 6 fields-5.01/fields/R/Krig.R | 7 fields-5.01/fields/R/Krig.check.xY.R | 6 fields-5.01/fields/R/Krig.coef.R | 64 ++++--- fields-5.01/fields/R/Krig.engine.default.R | 129 +++++++++----- fields-5.01/fields/R/Krig.engine.fixed.R | 11 - fields-5.01/fields/R/Krig.flplike.R | 4 fields-5.01/fields/R/Krig.make.W.R | 2 fields-5.01/fields/R/Krig.make.u.R |only fields-5.01/fields/R/Krig.replicates.R | 6 fields-5.01/fields/R/Krig.transform.xY.R | 3 fields-5.01/fields/R/Krig.ynew.R | 23 +- fields-5.01/fields/R/cubic.cov.R |only fields-5.01/fields/R/diag.multiply.R | 10 - fields-5.01/fields/R/exp.simple.cov.R | 4 fields-5.01/fields/R/fast.1way.R | 25 ++ fields-5.01/fields/R/fastTps.R |only fields-5.01/fields/R/fitted.Krig.R | 2 fields-5.01/fields/R/gcv.Krig.R | 15 - fields-5.01/fields/R/image.plot.R | 55 +++--- fields-5.01/fields/R/image.smooth.R | 92 +++++++--- fields-5.01/fields/R/mKrig.family.R | 4 fields-5.01/fields/R/poly.image.R | 4 fields-5.01/fields/R/predict.Krig.R | 5 fields-5.01/fields/R/predict.se.Krig.R | 68 ++++--- fields-5.01/fields/R/predict.se.KrigA.R |only fields-5.01/fields/R/predict.sreg.R | 2 fields-5.01/fields/R/quilt.plot.R | 7 fields-5.01/fields/R/rad.cov.R | 18 +- fields-5.01/fields/R/residuals.Krig.R | 3 fields-5.01/fields/R/setup.image.smooth.R |only fields-5.01/fields/R/sreg.family.R | 60 +++--- fields-5.01/fields/R/stationary.taper.cov.R | 110 +++++------- fields-5.01/fields/R/surface.mKrig.R |only fields-5.01/fields/R/test.for.zero.R | 2 fields-5.01/fields/R/wendland.family.R | 103 +++++------ fields-5.01/fields/data/COmonthlyMet.rda |only fields-5.01/fields/man/CO.Rd |only fields-5.01/fields/man/Krig.Amatrix.Rd | 10 + fields-5.01/fields/man/Krig.engine.default.Rd | 8 fields-5.01/fields/man/RMprecip.Rd | 11 + fields-5.01/fields/man/Tps.Rd | 33 +++ fields-5.01/fields/man/Wendland.Rd | 9 - fields-5.01/fields/man/exp.cov.Rd | 28 +-- fields-5.01/fields/man/fields-internal.Rd | 5 fields-5.01/fields/man/gcv.Krig.Rd | 4 fields-5.01/fields/man/image.plot.Rd | 106 ++++++++---- fields-5.01/fields/man/image.smooth.Rd | 157 ++++++++++-------- fields-5.01/fields/man/mKrig.Rd | 154 +++++++++++------ fields-5.01/fields/man/poly.image.Rd | 9 - fields-5.01/fields/man/predict.se.Krig.Rd | 18 -- fields-5.01/fields/man/quilt.plot.Rd | 8 fields-5.01/fields/man/sreg.Rd | 84 ++++----- fields-5.01/fields/man/surface.Krig.Rd | 9 - fields-5.01/fields/man/tim.colors.Rd | 35 +++- fields-5.01/fields/src/multrb.f | 24 +- fields-5.01/fields/tests/Krig.Z.test.R | 4 fields-5.01/fields/tests/Krig.Z.test.Rout.save | 63 +++++-- fields-5.01/fields/tests/Krig.se.W.R | 1 fields-5.01/fields/tests/Krig.se.W.Rout.save | 24 +- fields-5.01/fields/tests/Krig.se.grid.test.R | 1 fields-5.01/fields/tests/Krig.se.grid.test.Rout.save | 20 -- fields-5.01/fields/tests/Krig.se.test.R | 2 fields-5.01/fields/tests/Krig.se.test.Rout.save | 35 ++-- fields-5.01/fields/tests/Krig.test.R | 30 +++ fields-5.01/fields/tests/Krig.test.Rout.save | 101 ++++++++++- fields-5.01/fields/tests/Krig.test.W.R | 1 fields-5.01/fields/tests/Krig.test.W.Rout.save | 38 ++-- fields-5.01/fields/tests/Wend.test.R | 16 + fields-5.01/fields/tests/Wend.test.Rout.save | 28 +-- fields-5.01/fields/tests/derivative.test.R | 8 fields-5.01/fields/tests/derivative.test.Rout.save | 22 +- fields-5.01/fields/tests/diag.multiply.test.R | 2 fields-5.01/fields/tests/diag.multiply.test.Rout.save | 19 -- fields-5.01/fields/tests/evlpoly.test.R | 1 fields-5.01/fields/tests/evlpoly.test.Rout.save | 19 -- fields-5.01/fields/tests/mKrig.test.R | 12 - fields-5.01/fields/tests/mKrig.test.Rout.save | 31 ++- fields-5.01/fields/tests/misc.test.R |only fields-5.01/fields/tests/misc.test.Rout.save |only fields-5.01/fields/tests/spam.test.R | 11 - fields-5.01/fields/tests/spam.test.Rout.save | 34 ++- fields-5.01/fields/tests/sreg.test.R | 11 - fields-5.01/fields/tests/sreg.test.Rout.save | 49 +---- 88 files changed, 1310 insertions(+), 854 deletions(-)
Author: Oscar Rueda
Diff between RJaCGH versions 1.5.6 dated 2008-10-10 and 1.5.7 dated 2008-10-22
Title: Reversible Jump MCMC for the analysis of CGH arrays.
Description: Bayesian analysis of CGH microarrays fitting Hidden Markov Chain models.
The selection of the number of states is made via their posterior probability
computed by Reversible Jump Markov Chain Monte Carlo Methods. Also
returns probabilistic common regions for gains/losses.
Changes | 7 +++---
DESCRIPTION | 8 +++---
R/RJaCGH.R | 42 ++++++++++++------------------------
inst/doc/Implementing_pREC_in_C.pdf |binary
man/RJaCGH.Rd | 5 +---
man/relabelStates.Rd | 13 +++++------
6 files changed, 30 insertions(+), 45 deletions(-)
Author: Felix Andrews
Diff between playwith versions 0.9-21 dated 2008-09-29 and 0.9-31 dated 2008-10-21
Title: A GUI for interactive plots using GTK+
Description: A GTK+ graphical user interface for exploring and editing R plots.
Also includes latticist, a Lattice-based tool for exploratory visualisation.
playwith-0.9-21/playwith/R/API.R |only
playwith-0.9-21/playwith/R/clickOrDrag.R |only
playwith-0.9-21/playwith/R/xyData.R |only
playwith-0.9-31/playwith/DESCRIPTION | 12
playwith-0.9-31/playwith/NAMESPACE | 132 +
playwith-0.9-31/playwith/R/apiAnnotation.R |only
playwith-0.9-31/playwith/R/apiData.R |only
playwith-0.9-31/playwith/R/apiIdentify.R |only
playwith-0.9-31/playwith/R/apiMain.R |only
playwith-0.9-31/playwith/R/gridwork.R | 3
playwith-0.9-31/playwith/R/latticeStyleGUI.R | 272 ++-
playwith-0.9-31/playwith/R/latticist.R | 1639 +++-------------------
playwith-0.9-31/playwith/R/latticistCompose.R |only
playwith-0.9-31/playwith/R/latticistParse.R |only
playwith-0.9-31/playwith/R/parameterControlTool.R | 18
playwith-0.9-31/playwith/R/playwith.R | 99 -
playwith-0.9-31/playwith/R/plotCoords.R |only
playwith-0.9-31/playwith/R/plotSettingsGui.R | 220 ++
playwith-0.9-31/playwith/R/settings.R | 1
playwith-0.9-31/playwith/R/uiAnnotationActions.R | 111 -
playwith-0.9-31/playwith/R/uiClickActions.R | 166 +-
playwith-0.9-31/playwith/R/uiGlobalActions.R | 9
playwith-0.9-31/playwith/R/uiIdentifyActions.R | 282 ---
playwith-0.9-31/playwith/R/uiManager.R | 5
playwith-0.9-31/playwith/R/uiOptionsActions.R | 32
playwith-0.9-31/playwith/R/uiPlotActions.R | 99 +
playwith-0.9-31/playwith/R/uiStyleActions.R | 141 +
playwith-0.9-31/playwith/R/utilities.R | 79 +
playwith-0.9-31/playwith/demo/00Index | 1
playwith-0.9-31/playwith/demo/clusterApp.R |only
playwith-0.9-31/playwith/demo/pointsTool.R | 6
playwith-0.9-31/playwith/inst/NEWS | 28
playwith-0.9-31/playwith/inst/etc/ui.menus.xml | 13
playwith-0.9-31/playwith/inst/etc/ui.toolbars.xml | 1
playwith-0.9-31/playwith/man/latticeStyleGUI.Rd | 4
playwith-0.9-31/playwith/man/latticist.Rd | 78 -
playwith-0.9-31/playwith/man/latticistCompose.Rd |only
playwith-0.9-31/playwith/man/panel.usertext.Rd | 18
playwith-0.9-31/playwith/man/playGetIDs.Rd | 12
playwith-0.9-31/playwith/man/playPointInput.Rd | 86 -
playwith-0.9-31/playwith/man/playSelectData.Rd | 70
playwith-0.9-31/playwith/man/playwith.API.Rd | 45
playwith-0.9-31/playwith/man/playwith.Rd | 26
playwith-0.9-31/playwith/man/plotCoords.Rd | 58
44 files changed, 1534 insertions(+), 2232 deletions(-)
Author: Simon Jackman, with contributions from
Alex Tahk, Achim Zeileis, Christina Maimone and Jim Fearon
Title: Political Science Computational Laboratory, Stanford University
Description: Bayesian analysis of item-response theory (IRT) models, roll call analysis;
computing highest density regions; maximum likelihood estimation of
zero-inflated and hurdle models for count data; goodness-of-fit measures for
GLMs; data sets used in writing and teaching at the Political Science
Computational Laboratory; seats-votes curves.
Diff between pscl versions 1.01 dated 2008-10-12 and 1.02 dated 2008-10-21
DESCRIPTION | 6 +- HISTORY | 3 + R/ideal.r | 22 ++++++--- R/plot.ideal.r | 9 ++- data/politicalInformation.rda |only inst/doc/auto/countreg.el | 17 ++++--- inst/doc/countreg.pdf |binary man/RockTheVote.Rd | 5 +- man/ideal.Rd | 96 ++++++++++++++++++++++++++++++++++-------- man/politicalInformation.Rd |only src/IDEAL.c | 64 ++++++++++++++++++++++------ src/check.c | 8 +-- src/ideal.h | 24 +++++++++- src/renormalize.c |only src/rigamma.c |only src/updateb.c | 45 ++++++++++++------- src/updatex.c | 19 ++++++-- src/updatey.c | 30 ++++++++++--- 18 files changed, 262 insertions(+), 86 deletions(-)
Author: Jonathan M. Lees
Title: Topographic and Geologic Mapping
Description: Set of routines for making Map Projections (forward and inverse), Topographic Maps, Perspective plots, Geological Maps, geological map symbols, geological databases, interactive plotting and selection of focus regions.
Diff between GEOmap versions 1.2-0 dated 2008-08-20 and 1.3-0 dated 2008-10-21
DESCRIPTION | 6 - R/GEOTOPO.R | 4 R/SELGEOmap.R | 239 +++++++++++++++++++++++----------------------- demo/GMAP.R | 2 inst/doc/.build.timestamp |only inst/doc/GEOmap.pdf |binary man/GEOmap-package.Rd | 12 +- 7 files changed, 137 insertions(+), 126 deletions(-)
Author: Jeff Gill
Diff between BaM versions 0.8 dated 2008-10-06 and 0.9 dated 2008-10-21
Title: Functions and datasets for books by Jeff Gill.
Description: Books is "Bayesian Methods: A Social and Behavioral Sciences Approach, Second Edition published by CRC Press, 2007"
DESCRIPTION | 6 +++---
data/pbc.vote.rda |only
man/pbc.vote.Rd | 32 ++++++--------------------------
3 files changed, 9 insertions(+), 29 deletions(-)
Author: Jeffrey Horner
Title: Templating Framework for Report Generation
Description: brew implements a templating framework for mixing text and R code for report generation.
brew template syntax is similar to PHP, Ruby's erb module, Java Server Pages, and Python's psp module.
Diff between brew versions 1.0-2 dated 2007-10-22 and 1.0-3 dated 2008-10-20
DESCRIPTION | 3 ++- R/brew.R | 14 ++++++++------ brew_1.0-2.tar.gz |only inst/Sweave-test-1-006.eps |only inst/Sweave-test-1-006.pdf |only inst/Sweave-test-1-007.eps |only inst/Sweave-test-1-007.pdf |only inst/Sweave-test-1.aux |only inst/Sweave-test-1.dvi |only inst/Sweave-test-1.log |only inst/Sweave-test-1.orig.dvi |only inst/Sweave-test-1.tex |only inst/brew-test-1-1.eps |only inst/brew-test-1-1.pdf |only inst/brew-test-1-2.eps |only inst/brew-test-1.aux |only inst/brew-test-1.dvi |only inst/brew-test-1.log |only inst/brew-test-1.tex |only inst/brew-test-2-table.brew |only inst/brew-test-2.aux |only inst/brew-test-2.dvi |only inst/brew-test-2.html |only inst/brew-test-2.log |only inst/brew-test-2.tex |only inst/broken.brew |only 26 files changed, 10 insertions(+), 7 deletions(-)
Author: MetrumRG
Diff between MIfuns versions 3.2.5 dated 2008-09-11 and 3.2.7 dated 2008-10-20
Title: Pharmacometric tools for data preparation, analysis, simulation, and reporting
Description: Pharmacometric tools for common data preparation tasks, stratified bootstrap resampling of data sets, NONMEM control stream creation/editing, NONMEM model execution, creation of standard and user-defined diagnostic plots, execution and summary of bootstrap and predictive check results, implementation of simulations from posterior parameter distributions, reporting of output tables and creation of a detailed analysis log. All functions are considered stable unless marked as beta.
MIfuns-3.2.5/MIfuns/R/startDevice.R |only
MIfuns-3.2.5/MIfuns/R/stopDevice.R |only
MIfuns-3.2.7/MIfuns/DESCRIPTION | 8
MIfuns-3.2.7/MIfuns/R/PLOTR.R | 92 +++-
MIfuns-3.2.7/MIfuns/R/accept.R | 1
MIfuns-3.2.7/MIfuns/R/auc-ss.R | 2
MIfuns-3.2.7/MIfuns/R/diagnostics.R | 262 ++++++-----
MIfuns-3.2.7/MIfuns/R/doCov.R | 329 +++++++--------
MIfuns-3.2.7/MIfuns/R/rlog.R | 44 +-
MIfuns-3.2.7/MIfuns/R/runmsge.R | 305 +++----------
MIfuns-3.2.7/MIfuns/R/zzz.R | 2
MIfuns-3.2.7/MIfuns/man/CWRES.Rd | 5
MIfuns-3.2.7/MIfuns/man/ComputePredictiveCheck.Rd | 6
MIfuns-3.2.7/MIfuns/man/CreateParametersForSimulation.Rd | 3
MIfuns-3.2.7/MIfuns/man/MIfuns-package.Rd | 4
MIfuns-3.2.7/MIfuns/man/NONR.Rd | 250 ++++++-----
MIfuns-3.2.7/MIfuns/man/PlotPredictiveCheck.Rd | 5
MIfuns-3.2.7/MIfuns/man/TABR.Rd | 3
MIfuns-3.2.7/MIfuns/man/accept.Rd | 7
MIfuns-3.2.7/MIfuns/man/bin.Rd | 3
MIfuns-3.2.7/MIfuns/man/covplot.Rd | 4
MIfuns-3.2.7/MIfuns/man/ctl.Rd | 2
MIfuns-3.2.7/MIfuns/man/metaSub.character.Rd | 3
MIfuns-3.2.7/MIfuns/man/resample.data.frame.Rd | 3
24 files changed, 673 insertions(+), 670 deletions(-)
Author: Terry M Therneau and Beth Atkinson
Diff between rpart versions 3.1-41 dated 2008-04-23 and 3.1-42 dated 2008-10-20
Title: Recursive Partitioning
Description: Recursive partitioning and regression trees
ChangeLog | 2 +
DESCRIPTION | 6 +--
R/labels.rpart.s | 54 +++++++++++++++---------------
R/model.frame.rpart.s | 4 +-
R/na.rpart.s | 4 +-
R/path.rpart.s | 4 +-
R/plot.rpart.s | 8 ++--
R/plotcp.s | 16 ++++----
R/post.rpart.s | 2 -
R/pred.rpart.s | 8 ++--
R/predict.rpart.s | 8 ++--
R/print.rpart.s | 8 ++--
R/printcp.s | 8 ++--
R/prune.rpart.s | 4 +-
R/residuals.rpart.s | 6 +--
R/rpart.anova.s | 2 -
R/rpart.class.s | 38 ++++++++++-----------
R/rpart.exp.s | 40 +++++++++++-----------
R/rpart.matrix.s | 4 +-
R/rpart.poisson.s | 34 +++++++++---------
R/rpart.s | 86 ++++++++++++++++++++++++------------------------
R/rpartcallback.s | 46 ++++++++++++-------------
R/rpartco.s | 14 +++----
R/rsq.rpart.s | 8 ++--
R/snip.rpart.mouse.s | 2 -
R/snip.rpart.s | 24 ++++++-------
R/summary.rpart.s | 46 ++++++++++++-------------
R/text.rpart.s | 26 +++++++-------
R/xpred.rpart.s | 12 +++---
man/labels.rpart.Rd | 2 -
man/rpart.object.Rd | 6 +--
tests/testall.Rout.save | 2 -
32 files changed, 268 insertions(+), 266 deletions(-)
Author: Jim Lemon
Diff between plotrix versions 2.4-7 dated 2008-09-05 and 2.4-8 dated 2008-10-20
Title: Various plotting functions
Description: Lots of plots, various labeling, axis and color scaling functions.
CITATION |only
DESCRIPTION | 6 +-
INDEX | 1
R/barp.R | 2
R/centipede.plot.R | 5 --
R/cluster.overplot.R | 12 ++--
R/color.scale.R | 118 ++++++++++++++++++++++++------------------------
R/color2D.matplot.R | 22 +++++---
R/count.overplot.R | 34 ++++++++-----
R/dispersion.R | 4 +
R/dotplot.mtb.R |only
R/gap.plot.R | 2
R/std.error.R |only
man/barp.Rd | 5 +-
man/cluster.overplot.Rd | 11 +++-
man/color.scale.Rd | 4 +
man/color2D.matplot.Rd | 21 ++++----
man/count.overplot.Rd | 4 +
man/dispersion.Rd | 18 ++++++-
man/dotplot.mtb.Rd |only
man/qt.plot.Rd | 3 -
21 files changed, 158 insertions(+), 114 deletions(-)
Author: Duncan Temple Lang (duncan@wald.ucdavis.edu)
Title: Tools for parsing and generating XML within R and S-Plus.
Description: Parsing facilities for arbitrary XML files, DTDs and HTML, offering both
event and tree based parsers which are customizable with R functions.
Diff between XML versions 1.98-0 dated 2008-10-15 and 1.98-1 dated 2008-10-20
Changes | 11 DESCRIPTION | 4 INSTALL | 2 NAMESPACE | 1 R/XMLClasses.R | 30 configure | 5148 ++++++++++++++++++----------------------- man/XMLNode-class.Rd | 2 man/xmlNamespaceDefinitions.Rd | 3 src/DocParse.c | 13 src/EventParse.c | 5 src/RSDTD.c | 8 src/XMLEventParse.c | 4 src/XMLHashTree.c | 6 src/catalog.c | 2 src/schema.c | 3 src/xpath.c | 4 16 files changed, 2388 insertions(+), 2858 deletions(-)
Author: L. Andries van der Ark
Diff between mokken versions 1.1 dated 2008-10-15 and 1.2 dated 2008-10-19
Title: Mokken Scale Analysis in R
Description: mokken contains functions for performing mokken
scale analysis on test and questionnaire data. It includes an automated
item selection algorithm, and various checks of model assumptions.
mokken-1.1/mokken/src |only
mokken-1.2/mokken/DESCRIPTION | 8 ++++----
mokken-1.2/mokken/R/check.data.R | 7 ++++---
mokken-1.2/mokken/man/mokken-package.Rd | 4 ++--
4 files changed, 10 insertions(+), 9 deletions(-)
Author: Kurt Hornik, with contributions from Walter Boehm
Title: Cluster ensembles
Description: CLUster Ensembles
Diff between clue versions 0.3-24 dated 2008-09-28 and 0.3-25 dated 2008-10-19
DESCRIPTION | 6 +++--- R/dissimilarity.R | 4 ++-- inst/doc/clue.pdf |binary 3 files changed, 5 insertions(+), 5 deletions(-)
Author: Max Kuhn. Contributions from Jed Wing, Steve Weston and Andre Williams
Title: Classification and Regression Training
Description: Misc functions for training and plotting classification and regression models
Diff between caret versions 3.37 dated 2008-09-05 and 3.45 dated 2008-10-19
DESCRIPTION | 8 NAMESPACE | 41 R/createGrid.R | 6 R/createModel.R | 54 R/misc.R | 56 R/normalize.AffyBatch.normalize2Reference.R | 50 R/normalize2Reference.R | 130 - R/preProcess.R | 37 R/predictionFunction.R | 22 R/predictors.R |only R/print.train.R | 5 R/probFunction.R | 11 R/rpartVarImp.R | 107 - R/selection.R | 10 R/train.default.R | 2 inst/CHANGES | 66 inst/doc/caretMisc.pdf | 1972 +++++++++++++--------------- inst/doc/caretTrain.Rnw | 6 inst/doc/caretTrain.pdf |binary inst/doc/caretVarImp.pdf |binary man/predictors.Rd |only man/train.Rd | 32 22 files changed, 1449 insertions(+), 1166 deletions(-)
Author: Robert B. Gramacy
Diff between tgp versions 2.1-3 dated 2008-10-09 and 2.1-4 dated 2008-10-19
Title: Bayesian treed Gaussian process models
Description: Bayesian nonstationary, semiparametric nonlinear regression
and design by treed Gaussian processes with jumps to the limiting
linear model (LLM). Special cases also implemented include Bayesian
linear models, CART, treed linear models, stationary separable and
isotropic Gaussian processes. Provides 1-d and 2-d plotting functions
(with projection and slice capabilities) and tree drawing, designed for
visualization of tgp-class output. Sensitivity analysis and
multi-resolution models are supported, and a limited set of experimental
design and adaptive sampling functions are also provided, including ALM,
ALC, and expected improvement.
ChangeLog | 10 +++
DESCRIPTION | 4 -
R/default.itemps.R | 9 ++-
R/mrtgp.R | 11 +++
R/predict.tgp.R | 20 +++++-
R/tgp.R | 22 ++++---
R/tgp.choose.R | 2
R/tgp.postprocess.R | 5 +
inst/doc/Makefile | 17 ++++-
inst/doc/cat.iRnw | 2
man/btgp.Rd | 29 ++++++---
man/predict.tgp.Rd | 30 ++++++----
src/all_draws.c | 4 -
src/linalg.c | 2
src/matrix.c | 154 +++++++++++++++++++++++++++++++++++++++++++++++++---
src/matrix.h | 11 +++
src/params.cc | 2
src/predict.c | 26 ++++++--
src/predict.h | 2
src/tgp.cc | 11 ++-
src/tgp.h | 2
21 files changed, 300 insertions(+), 75 deletions(-)
Author: Edzer J. Pebesma
Diff between gstat versions 0.9-51 dated 2008-10-08 and 0.9-52 dated 2008-10-19
Title: geostatistical modelling, prediction and simulation
Description: variogram modelling; simple, ordinary and universal point
or block (co)kriging, sequential Gaussian or indicator (co)simulation;
variogram and variogram map plotting utility functions.
DESCRIPTION | 6
INDEX | 3
R/fit.variogram.reml.R | 2
R/gstat.R | 2
R/predict.gstat.R | 2
R/variogram.default.R | 2
data/wind.rda |only
inst/ChangeLog | 65
inst/doc/gstat.pdf |29626 ++++++++++++++++++++++++-------------------------
man/gstat.Rd | 22
man/pcb.Rd | 2
man/tull.Rd | 3
man/vgm.Rd | 2
man/wind.Rd |only
14 files changed, 14957 insertions(+), 14780 deletions(-)
Author: Rajarshi Guha
Diff between fingerprint versions 2.9 dated 2008-10-12 and 3.0 dated 2008-10-19
Title: Functions to operate on binary fingerprint data
Description: This package contains functions to manipulate binary fingerprints
of arbitrary length. A fingerprint is represented by an object of S4 class 'fingerprint'
which is internally represented a vector of integers, such
that each element represents the position in the fingerprint that is set to 1.
The bitwise logical functions in R are overridden so that they can be used directly
with 'fingerprint' objects. A number of distance metrics are also
available (many contributed by Michael Fadock). Fingerprints
can be converted to Euclidean vectors (i.e., points on the unit hypersphere) and
can also be folded using OR. Arbitrary fingerprint formats can be handled via line
handlers. Currently handlers are provided for CDK, MOE and BCI fingerprint data.
DESCRIPTION | 6 +++---
R/bitspec.R |only
man/bitspec.Rd |only
3 files changed, 3 insertions(+), 3 deletions(-)
Author: Paul Gilbert
Diff between dse versions 2007.11-1 dated 2007-12-02 and 2008.10-1 dated 2008-10-19
Bundle: dse
Contains: dse1 dse2
DESCRIPTION | 4 -
NEWS | 12 ++++-
dse1/Rplots.pdf |only
dse1/Rplots1.pdf |only
dse1/inst/doc/dse-guide.pdf |binary
dse1/inst/doc/dse1.Stex | 6 --
dse1/inst/doc/dse1.pdf |binary
dse1/man/TSdata.Rd | 9 +--
dse1/tests/dse1tst01.R | 3 -
dse2/Rplots.pdf |only
dse2/inst/doc/dse2.Stex | 100 +++++---------------------------------------
dse2/inst/doc/dse2.pdf |binary
12 files changed, 30 insertions(+), 104 deletions(-)
Author: John M Chambers
Title: Functions and Exampels for "Software for Data Analysis"
Description: Functions, examples and other software related to the book
"Software for Data Analysis: Programming with R". See
package?SoDA for an overview.
Diff between SoDA versions 1.0-2 dated 2008-08-18 and 1.0-3 dated 2008-10-19
DESCRIPTION | 4 - NAMESPACE | 2 R/strictOp.R | 123 +++++++++++++++++++++++++++--------------- inst/Examples/IQclosure.R | 1 inst/Examples/IQreplace.R | 4 - inst/Examples/dummyQuantile.R | 6 +- inst/Examples/readURL.R |only inst/Examples/trellisPars.R | 1 man/binaryRep.Rd | 19 ++++++ 9 files changed, 109 insertions(+), 51 deletions(-)
Author: Simon Urbanek
Diff between Rserve versions 0.5-1 dated 2008-07-28 and 0.5-2 dated 2008-10-19
Title: Binary R server
Description: Rserve acts as a socket server (TCP/IP or local sockets)
which allows binary requests to be sent to R. Every
connection has a separate workspace and working
directory. Client-side implementations are available
for popular languages such as C/C++ and Java, allowing
any application to use facilities of R without the need of
linking to R code. Rserve supports remote connection,
user authentication and file transfer. A simple R client
is included in this package as well.
DESCRIPTION | 2
NEWS | 21 +++++
clients/cxx/Rconnection.cc | 121 +++++++++++++++++++++++------
clients/cxx/Rconnection.h | 13 ++-
clients/cxx/Rsrv.h | 29 +++---
clients/cxx/rcmd.cc | 71 ++++++++++++++---
clients/java-new/REXP.java | 14 ++-
clients/java-new/REXPDouble.java | 24 +++++
clients/java-new/REXPGenericVector.java | 3
clients/java-new/REXPInteger.java | 11 ++
clients/java-new/REXPLanguage.java | 1
clients/java-new/REXPList.java | 4
clients/java-new/REXPNull.java | 4
clients/java-new/REXPReference.java | 22 ++++-
clients/java-new/REXPVector.java | 18 +++-
src/Rserv.c | 106 ++++++++++++++++---------
src/Rsrv.h | 29 +++---
src/client/cxx/Rconnection.cc | 121 +++++++++++++++++++++++------
src/client/cxx/Rconnection.h | 13 ++-
src/client/cxx/Rsrv.h | 29 +++---
src/client/cxx/rcmd.cc | 71 ++++++++++++++---
src/client/java-new/REXP.java | 14 ++-
src/client/java-new/REXPDouble.java | 24 +++++
src/client/java-new/REXPGenericVector.java | 3
src/client/java-new/REXPInteger.java | 11 ++
src/client/java-new/REXPLanguage.java | 1
src/client/java-new/REXPList.java | 4
src/client/java-new/REXPNull.java | 4
src/client/java-new/REXPReference.java | 22 ++++-
src/client/java-new/REXPVector.java | 18 +++-
30 files changed, 650 insertions(+), 178 deletions(-)
Author: Yu-Sung Su
Diff between R2jags versions 0.01-11 dated 2008-10-09 and 0.01-12 dated 2008-10-19
Title: R2jags: A Package for Running jags from R
Description: Using this package to call jags from R.
CHANGELOG | 6 ++++++
DESCRIPTION | 4 ++--
NAMESPACE | 7 +++----
R/recompile.R |only
R/update.R | 1 +
man/autojags.Rd | 8 ++++----
man/jags.Rd | 6 ++++++
man/recompile.Rd |only
8 files changed, 22 insertions(+), 10 deletions(-)
Author: Douglas Bates
Diff between Matrix versions 0.999375-15 dated 2008-09-28 and 0.999375-16 dated 2008-10-19
Title: Sparse and Dense Matrix Classes and Methods
Description: Classes and methods for dense and sparse matrices and
operations on them using Lapack and SuiteSparse.
Matrix-0.999375-15/Matrix/configure |only
Matrix-0.999375-15/Matrix/inst/po |only
Matrix-0.999375-15/Matrix/src/CSparse_install.sh |only
Matrix-0.999375-15/Matrix/src/DEPS.mkf |only
Matrix-0.999375-15/Matrix/src/DEPS.mkf_make.sh |only
Matrix-0.999375-15/Matrix/src/Makefile |only
Matrix-0.999375-15/Matrix/src/Makefile.win |only
Matrix-0.999375-15/Matrix/src/SOURCES_C.mkf |only
Matrix-0.999375-15/Matrix/src/UFsparse_download.sh |only
Matrix-0.999375-15/Matrix/src/Win.mk |only
Matrix-0.999375-16/Matrix/ChangeLog | 42
Matrix-0.999375-16/Matrix/DESCRIPTION | 12
Matrix-0.999375-16/Matrix/R/sparseMatrix.R | 83 -
Matrix-0.999375-16/Matrix/TODO | 10
Matrix-0.999375-16/Matrix/cleanup |only
Matrix-0.999375-16/Matrix/inst/doc/Comparisons.pdf |binary
Matrix-0.999375-16/Matrix/inst/doc/Design-issues.pdf | 318 ++---
Matrix-0.999375-16/Matrix/inst/doc/Intro2Matrix.pdf | 589 +++++-----
Matrix-0.999375-16/Matrix/inst/doc/Introduction.pdf |binary
Matrix-0.999375-16/Matrix/inst/doc/UFsparse/SPQR.txt |only
Matrix-0.999375-16/Matrix/inst/doc/UFsparse/UFconfig.txt | 1
Matrix-0.999375-16/Matrix/inst/doc/sparseModels.pdf |binary
Matrix-0.999375-16/Matrix/inst/include/Matrix_stubs.c | 2
Matrix-0.999375-16/Matrix/inst/include/cholmod.h | 2
Matrix-0.999375-16/Matrix/src/AMD/Makefile | 2
Matrix-0.999375-16/Matrix/src/AMD/Source/Makefile | 23
Matrix-0.999375-16/Matrix/src/CHOLMOD/Check/cholmod_check.c | 113 +
Matrix-0.999375-16/Matrix/src/CHOLMOD/Check/cholmod_write.c | 6
Matrix-0.999375-16/Matrix/src/CHOLMOD/Cholesky/cholmod_analyze.c | 66 -
Matrix-0.999375-16/Matrix/src/CHOLMOD/Cholesky/cholmod_postorder.c | 4
Matrix-0.999375-16/Matrix/src/CHOLMOD/Cholesky/cholmod_solve.c | 14
Matrix-0.999375-16/Matrix/src/CHOLMOD/Core/cholmod_common.c | 15
Matrix-0.999375-16/Matrix/src/CHOLMOD/Core/cholmod_complex.c | 3
Matrix-0.999375-16/Matrix/src/CHOLMOD/Core/cholmod_error.c | 4
Matrix-0.999375-16/Matrix/src/CHOLMOD/Core/cholmod_memory.c | 10
Matrix-0.999375-16/Matrix/src/CHOLMOD/Include/cholmod_blas.h | 122 +-
Matrix-0.999375-16/Matrix/src/CHOLMOD/Include/cholmod_check.h | 43
Matrix-0.999375-16/Matrix/src/CHOLMOD/Include/cholmod_cholesky.h | 19
Matrix-0.999375-16/Matrix/src/CHOLMOD/Include/cholmod_core.h | 52
Matrix-0.999375-16/Matrix/src/CHOLMOD/Include/cholmod_internal.h | 43
Matrix-0.999375-16/Matrix/src/CHOLMOD/Include/cholmod_supernodal.h | 25
Matrix-0.999375-16/Matrix/src/CHOLMOD/Lib/Makefile | 309 ++++-
Matrix-0.999375-16/Matrix/src/CHOLMOD/Makefile | 4
Matrix-0.999375-16/Matrix/src/CHOLMOD/Supernodal/cholmod_super_solve.c | 21
Matrix-0.999375-16/Matrix/src/CHOLMOD/Supernodal/cholmod_super_symbolic.c | 194 ++-
Matrix-0.999375-16/Matrix/src/CHOLMOD/Supernodal/t_cholmod_super_numeric.c | 6
Matrix-0.999375-16/Matrix/src/CHOLMOD/Supernodal/t_cholmod_super_solve.c | 15
Matrix-0.999375-16/Matrix/src/COLAMD/Makefile | 2
Matrix-0.999375-16/Matrix/src/COLAMD/Source/Makefile | 11
Matrix-0.999375-16/Matrix/src/Csparse.c | 29
Matrix-0.999375-16/Matrix/src/Csparse.h | 2
Matrix-0.999375-16/Matrix/src/Makevars |only
Matrix-0.999375-16/Matrix/src/Makevars.win |only
Matrix-0.999375-16/Matrix/src/Mutils.h | 6
Matrix-0.999375-16/Matrix/src/SPQR |only
Matrix-0.999375-16/Matrix/src/UFconfig/UFconfig.h | 9
Matrix-0.999375-16/Matrix/src/chm_common.c | 60 -
Matrix-0.999375-16/Matrix/src/chm_common.h | 7
Matrix-0.999375-16/Matrix/src/dgCMatrix.c | 58
Matrix-0.999375-16/Matrix/src/dgCMatrix.h | 1
Matrix-0.999375-16/Matrix/src/dummy.cpp |only
Matrix-0.999375-16/Matrix/src/init.c | 2
Matrix-0.999375-16/Matrix/src/scripts |only
Matrix-0.999375-16/Matrix/src/sparseQR.h | 1
Matrix-0.999375-16/Matrix/tests/validObj.R | 27
65 files changed, 1508 insertions(+), 879 deletions(-)
Author: Simon Urbanek
Diff between JavaGD versions 0.5-1 dated 2008-04-04 and 0.5-2 dated 2008-10-19
Title: Java Graphics Device
Description: Graphics device routing all graphics commands to a Java
program. The actual functionality of the JavaGD depends
on the Java-side implementation. Simple AWT and Swing
implementations are included.
DESCRIPTION | 2 +-
NEWS | 3 +++
inst/java/javaGD.jar |binary
src/jGDtalk.c | 15 ++++++++++-----
src/javaGD.h | 8 +++++++-
5 files changed, 21 insertions(+), 7 deletions(-)
Author: Simon Urbanek
Diff between GDD versions 0.1-12 dated 2008-04-04 and 0.1-13 dated 2008-10-19
Title: GD device for creating bitmap graphics as jpeg, png or gif files using gd library
Description: Platform and X11 independent device for creating bitmaps (png, gif and jpeg).
DESCRIPTION | 2 +-
NEWS | 3 +++
src/GDD.h | 8 +++++++-
src/GDDtalk.c | 3 +--
4 files changed, 12 insertions(+), 4 deletions(-)
Author: Simon Urbanek
Diff between Cairo versions 1.4-3 dated 2008-07-28 and 1.4-4 dated 2008-10-19
Title: R graphics device using cairo graphics library for creating high-quality bitmap (PNG, JPEG, TIFF), vector (PDF, SVG, PostScript) and display (X11 and Win32) output.
Description: This package provides a Cairo graphics device that can be use to create high-quality vector (PDF, PostScript and SVG) and bitmap output (PNG,JPEG,TIFF), and high-quality rendering in displays (X11 and Win32). Since it uses the same back-end for all output, copying across formats is WYSIWYG. Files are created without the dependence on X11 or other external programs. This device supports alpha channel (semi-transparent drawing) and resulting images can contain transparent and semi-transparent regions. It is ideal for use in server environemnts (file output) and as a replacement for other devices that don't have Cairo's capabilities such as alpha support or anti-aliasing. Backends are modular such that any subset of backends is supported.
DESCRIPTION | 2 +-
NEWS | 3 +++
src/backend.h | 7 +++++++
src/cairogd.h | 9 ++-------
src/cairotalk.c | 14 ++++++++++----
src/w32-backend.c | 3 ---
src/xlib-backend.c | 2 --
7 files changed, 23 insertions(+), 17 deletions(-)
Author: Achim Zeileis
Title: Dynamic Linear Regression
Description: Dynamic linear models and time series regression.
Diff between dynlm versions 0.2-0 dated 2008-01-26 and 0.2-1 dated 2008-10-19
DESCRIPTION | 6 +++--- NEWS | 5 +++++ man/dynlm.Rd | 13 ++++++++++++- 3 files changed, 20 insertions(+), 4 deletions(-)
Author: Roger Bivand
Title: Interface between GRASS 6 geographical information system and R
Description: Interpreted interface between GRASS 6 geographical
information system and R, based on starting R from within the GRASS
environment.
Diff between spgrass6 versions 0.5-13 dated 2008-09-28 and 0.5-15 dated 2008-10-17
ChangeLog | 16 ++++++++++++++++ DESCRIPTION | 6 +++--- R/bin_link.R | 32 ++++++++++++-------------------- inst/ChangeLog | 16 ++++++++++++++++ man/readRAST6.Rd | 3 ++- man/readVECT6.Rd | 4 +--- 6 files changed, 50 insertions(+), 27 deletions(-)
Author: Thomas Baier
Title: provides portable C-style interface to R (StatConnector)
Description: rscproxy library provides an interface to R used by third party applications, most notable, but not limited to, rcom/R Scilab (D)COM Server, ROOo and other systems.
Diff between rscproxy versions 1.0-9 dated 2008-10-14 and 1.0-11 dated 2008-10-17
DESCRIPTION | 6 +++--- src/rproxy_impl.h | 4 +++- 2 files changed, 6 insertions(+), 4 deletions(-)
Author: Timothy H. Keitt
Diff between rgdal versions 0.5-26 dated 2008-09-28 and 0.5-27 dated 2008-10-17
Title: Bindings for the Geospatial Data Abstraction Library
Description: Provides bindings to Frank Warmerdam's Geospatial Data Abstraction Library (GDAL) (>= 1.3.1) and access to projection/transformation operations from the PROJ.4 library. The GDAL and PROJ.4 libraries are external to the package, and, when installing the package from source, must be correctly installed first. Both GDAL raster and OGR vector map data can be imported into R, and GDAL raster data and OGR vector data exported. Use is made of classes defined in the sp package.
ChangeLog | 13 +++++
DESCRIPTION | 6 +-
inst/ChangeLog | 13 +++++
inst/gdal/GDALLogoBW.svg |only
inst/gdal/GDALLogoColor.svg |only
inst/gdal/GDALLogoGS.svg |only
man/readOGR.Rd | 6 +-
man/writeOGR.Rd | 2
src/OGR_write.cpp | 102 ++++++++++++++++++--------------------------
src/RGDAL.def | 2
src/ogrsource.cpp | 12 +++--
11 files changed, 86 insertions(+), 70 deletions(-)
Author: Ben Bolker
Title: Ecological models and data (book support)
Description: Auxiliary functions and data sets for _Ecological Models and Data_, a book presenting maximum likelihood estimation and related topics for ecologists (in preparation for Princeton University Press)
Diff between emdbook versions 1.1.1 dated 2007-12-12 and 1.1.1.1 dated 2008-10-17
DESCRIPTION | 6 +- NEWS | 93 ++++++++++++++++++++++++--------------------- R/emdbook.R | 102 ++++++++++++++++++++++++++++++++++++-------------- inst/BUGS/firfec0.bug |only inst/BUGS/firfec1.bug |only inst/BUGS/firfec2.bug |only inst/misc |only man/curve3d.Rd | 34 +++++++++++++++- man/traceplot.mcmc.Rd |only 9 files changed, 158 insertions(+), 77 deletions(-)
Author: Duncan Temple Lang
Title: HTTP request interface
Description: The package allows one to compose HTTP requests to fetch URIs, post forms,
etc. and process the results returned by the Web server.
This provides a great deal of control over the HTTP connection and the form
of the request while providing a higher-level interface than is available just
using R socket connections. Additionally, the underlying implementation is robust
and extensive, supporting SSL/HTTPS, cookies, redirects, authentication, etc.
Diff between RCurl versions 0.9-4 dated 2008-07-28 and 0.91-0 dated 2008-10-17
RCurl-0.9-4/RCurl/inst/doc/philosophy.html |only RCurl-0.91-0/RCurl/Changes.html | 53 ++++++++++++- RCurl-0.91-0/RCurl/DESCRIPTION | 7 - RCurl-0.91-0/RCurl/FAQ.html | 89 +++++++++++++++++++++- RCurl-0.91-0/RCurl/NAMESPACE | 1 RCurl-0.91-0/RCurl/R/binary.S | 11 ++ RCurl-0.91-0/RCurl/R/form.S | 26 +++++- RCurl-0.91-0/RCurl/R/header.R | 81 +++++++++++++------- RCurl-0.91-0/RCurl/R/httpError.R |only RCurl-0.91-0/RCurl/R/httpErrors.R |only RCurl-0.91-0/RCurl/R/options.S | 11 ++ RCurl-0.91-0/RCurl/Todo.html | 8 + RCurl-0.91-0/RCurl/inst/HTTPErrors |only RCurl-0.91-0/RCurl/inst/examples/omg.netrc |only RCurl-0.91-0/RCurl/inst/examples/postFormPasswd.R |only RCurl-0.91-0/RCurl/man/getBinaryURL.Rd |only RCurl-0.91-0/RCurl/src/Makevars | 6 - RCurl-0.91-0/RCurl/src/curl.c | 17 +++- 18 files changed, 268 insertions(+), 42 deletions(-)
Author: Fortran original by Leo Breiman and Adele Cutler, R port by Andy Liaw and Matthew Wiener.
Title: Breiman and Cutler's random forests for classification and regression
Description: Classification and regression based on a forest of trees using random inputs.
Diff between randomForest versions 4.5-27 dated 2008-09-12 and 4.5-28 dated 2008-10-17
DESCRIPTION | 6 +-- inst/NEWS | 5 +++ man/randomForest.Rd | 4 ++ src/classTree.c | 83 ++++++++++++++++++++++++++-------------------------- src/regTree.c | 77 ++++++++++++++++++++++++------------------------ src/rf.h | 2 - src/rfutils.c | 4 +- 7 files changed, 96 insertions(+), 85 deletions(-)
Author: P. Roebuck
Title: MATLAB emulation package
Description: Emulate MATLAB code using R
Diff between matlab versions 0.8-1 dated 2006-10-04 and 0.8-2 dated 2008-10-17
matlab-0.8-1/matlab/COPYING |only matlab-0.8-1/matlab/inst |only matlab-0.8-2/matlab/DESCRIPTION | 13 +++++++------ matlab-0.8-2/matlab/LICENSE |only matlab-0.8-2/matlab/NEWS |only matlab-0.8-2/matlab/man/colorbar.Rd | 6 +----- matlab-0.8-2/matlab/man/matlab-package.Rd | 4 ++-- 7 files changed, 10 insertions(+), 13 deletions(-)
Author: G. Grothendieck
Title: Utilities for strings and function arguments.
Description: gsubfn is like gsub but can take a replacement function
or proto object rather than a replacement string. Matches and
back references are input to the function and replaced by the
function output. In the case of a proto object the object is
used for sharing information from one match to the next.
gsubfn can be used to split strings based on content rather than
delimiters and for quasi-perl-style string interpolation. The
package also has facilities for translating formulas to functions
and allowing such formulas in function calls instead of functions.
This can reduce code size and improve clarity when using apply,
lapply, optim, integrate, xyplot and any other function that
expects another function as an input argument. gsubfn also
provides for quasi-perl string interpolation in arguments
of any existing R function.
Diff between gsubfn versions 0.3-3 dated 2006-10-28 and 0.3-7 dated 2008-10-17
gsubfn-0.3-3/gsubfn/NOTES |only gsubfn-0.3-3/gsubfn/demo/gsubfn-proto.R |only gsubfn-0.3-3/gsubfn/inst/doc/aa.pdf |only gsubfn-0.3-3/gsubfn/inst/doc/gsubfn-gsubfn-fn-lattice-repeat.pdf |only gsubfn-0.3-3/gsubfn/inst/doc/gsubfn-gsubfn-fn-pi-repeat.pdf |only gsubfn-0.3-3/gsubfn/inst/doc/gsubfn-gsubfn-fn-quantreg-repeat.pdf |only gsubfn-0.3-7/gsubfn/DESCRIPTION | 8 gsubfn-0.3-7/gsubfn/R/fn.R | 23 gsubfn-0.3-7/gsubfn/R/gsubfn.R | 63 +- gsubfn-0.3-7/gsubfn/demo/00Index | 1 gsubfn-0.3-7/gsubfn/demo/gsubfn-chron.R | 2 gsubfn-0.3-7/gsubfn/demo/gsubfn-gries.R | 2 gsubfn-0.3-7/gsubfn/demo/gsubfn-si.R | 4 gsubfn-0.3-7/gsubfn/inst/NEWS | 42 + gsubfn-0.3-7/gsubfn/inst/WISHLIST | 12 gsubfn-0.3-7/gsubfn/inst/doc/.build.timestamp |only gsubfn-0.3-7/gsubfn/inst/doc/Rplots.pdf |only gsubfn-0.3-7/gsubfn/inst/doc/a.a | 235 +++------- gsubfn-0.3-7/gsubfn/inst/doc/gsubfn-16.10.2008-14.02.36.23.bck.pdf |only gsubfn-0.3-7/gsubfn/inst/doc/gsubfn.R |only gsubfn-0.3-7/gsubfn/inst/doc/gsubfn.Rnw | 57 +- gsubfn-0.3-7/gsubfn/inst/doc/gsubfn.pdf |binary gsubfn-0.3-7/gsubfn/man/as.function.formula.Rd | 12 gsubfn-0.3-7/gsubfn/man/fn.Rd | 2 gsubfn-0.3-7/gsubfn/man/gsubfn-package.Rd | 5 gsubfn-0.3-7/gsubfn/man/gsubfn.Rd | 56 +- gsubfn-0.3-7/gsubfn/man/match.funfn.Rd | 5 gsubfn-0.3-7/gsubfn/man/strapply.Rd | 11 28 files changed, 291 insertions(+), 249 deletions(-)
Author: Heather Turner and David Firth
Title: Generalized Nonlinear Models
Description: Functions to specify and fit generalized nonlinear models, including models with multiplicative interaction terms such as the UNIDIFF model from sociology and the AMMI model from crop science, and many others. Over-parameterized representations of models are used throughout; functions are provided for inference on estimable parameter combinations, as well as standard methods for diagnostics etc.
Diff between gnm versions 0.9-5 dated 2008-06-02 and 0.9-6 dated 2008-10-17
DESCRIPTION | 9 ++---- NAMESPACE | 7 ++-- R/getContrasts.R | 4 +- R/gnm.R | 18 ++++++------ R/pickCoef.R | 2 - inst/NEWS | 9 ++++++ inst/doc/fig-LCall.pdf |only inst/doc/fig-LCover45.pdf |only inst/doc/fig-LCqvplot.pdf |only inst/doc/fig-deaths1921-1940.pdf |only inst/doc/fig-profilePlot.pdf |only inst/doc/gnm.bib |only inst/doc/gnmOverview.Rnw |only inst/doc/gnmOverview.pdf | 57 +++++++++++++++++---------------------- man/gnm-package.Rd | 2 - 15 files changed, 55 insertions(+), 53 deletions(-)
Author: Adrian Baddeley
Diff between spatstat versions 1.14-3 dated 2008-09-28 and 1.14-4 dated 2008-10-16
Title: Spatial Point Pattern analysis, model-fitting, simulation, tests
Description: A package for analysing spatial data,
mainly Spatial Point Patterns, including multitype/marked points
and spatial covariates, in any two-dimensional spatial region.
Contains functions for plotting spatial data,
exploratory data analysis, model-fitting, simulation,
spatial sampling, model diagnostics,
and formal inference. Data types include point patterns,
line segment patterns, spatial windows, and
pixel images. Point process models can be
fitted to point pattern data. Cluster type models are fitted
by the method of minimum contrast. Very general Gibbs point
process models can be fitted to point pattern data
using a function ppm similar to lm or glm. Models may
include dependence on covariates, interpoint interaction
and dependence on marks. Fitted models can be simulated automatically.
Also provides facilities for formal inference (such as chi-squared
tests) and model diagnostics (including simulation
envelopes, residuals, residual plots and Q-Q plots).
DESCRIPTION | 8 +-
INDEX | 8 +-
R/adaptive.density.R |only
R/as.im.R | 191 ++++++++++++++++++++++++++----------------------
R/cut.ppp.R | 12 +--
R/images.R | 70 ++++++++++++++++-
R/kppm.R | 23 ++++-
R/marks.R | 2
R/mincontrast.R | 2
R/options.R | 5 -
R/plot.im.R | 11 ++
R/psp.R | 40 +++++++---
R/quadratcount.R | 80 ++++++++++----------
R/quadrattest.R | 119 +++++++++++++++++------------
R/randomseg.R | 8 +-
R/superimpose.R | 9 +-
R/tess.R | 83 +++++++++++++++++---
R/util.S | 47 ++++++++---
R/window.S | 8 +-
R/wingeom.S | 59 ++++++++++++++
demo/spatstat.R | 11 ++
man/adaptive.density.Rd |only
man/as.im.Rd | 33 ++++++++
man/as.owin.Rd | 6 +
man/by.im.Rd |only
man/by.ppp.Rd | 4 -
man/density.ppp.Rd | 3
man/incircle.Rd |only
man/internal.Rd | 14 ++-
man/mean.im.Rd | 36 ++++++---
man/plot.tess.Rd | 10 ++
man/progressreport.Rd | 18 +++-
man/psp.Rd | 4 -
man/quadrat.test.Rd | 21 ++++-
man/quadratcount.Rd | 33 ++++++--
man/spatstat.options.Rd | 5 +
man/split.im.Rd |only
37 files changed, 694 insertions(+), 289 deletions(-)
Author: Hsin Ya Lee
Diff between ivivc versions 0.1.1 dated 2008-04-10 and 0.1.2 dated 2008-10-16
Title: in vitro-in vivo correlation (IVIVC) modeling
Description: a menu-driven package for IVIVC model buidling and model validation
DESCRIPTION | 6 +--
R/InVVRefcsv.r |only
R/InVVRefdata.R | 47 ++++++++++++++----------
R/InVVTestcsv.r |only
R/InVVTestdata.R | 54 +++++++++++++++-------------
R/PK.r | 3 +
R/WagNel.R | 100 +++++++++++++++++++++++++++--------------------------
R/fbolus1.R | 24 ++++++------
R/ffirst.lag.R | 22 +++++------
R/fzero.nolag.R | 22 +++++------
R/ivivc.r | 18 +++++----
R/plotting.cp.r | 12 ++----
R/plotting.lin.R | 14 +++----
R/plotting.non.R | 12 +++---
R/plotting.vitro.r | 9 +---
R/run.R | 4 ++
man/InVVRefcsv.rd |only
man/InVVTestcsv.rd |only
18 files changed, 183 insertions(+), 164 deletions(-)
Author: Hector Corrada Bravo, with contributions from Stefan Theussl
Title: R interface to CPLEX
Description: R interface to CPLEX solvers for linear, quadratic, and (linear and quadratic) mixed integer programs. A working installation of CPLEX is required for usage of the Rcplex package. See the file "INSTALL" for details on how to install the Rcplex package in Linux/Unix-like systems and Windows systems. Support for sparse matrices is provided by an included S3-style class "simple_triplet_matrix" and by objects from the Matrix package class hierarchy.
Diff between Rcplex versions 0.1-4 dated 2008-09-16 and 0.2-1 dated 2008-10-16
DESCRIPTION | 10 R/Rcplex.R | 398 +++++++++++++++++++++++-------------- man/Rcplex.Rd | 157 ++++++++------ src/Rcplex.c | 552 +++++++++++++++++++++------------------------------- src/Rcplex.h |only src/Rcplex_params.c |only src/Rcplex_utils.c |only 7 files changed, 583 insertions(+), 534 deletions(-)
More information about SpatialExtremes at CRAN
Permanent link
Author: L. Andries van der Ark
Diff between mokken versions 1.0 dated 2008-08-31 and 1.1 dated 2008-10-15
Title: Mokken Scale Analysis in R
Description: mokken contains functions for performing mokken
scale analysis on test and questionnaire data. It includes an automated
item selection algorithm, and various checks of model assumptions.
DESCRIPTION | 6 +++---
NAMESPACE | 7 ++++---
R/plot.pmatrix.class.R | 2 ++
R/zzz.R |only
man/mokken-package.Rd | 14 +++++++++++---
src |only
6 files changed, 20 insertions(+), 9 deletions(-)
Author: Sřren Hřjsgaard
Diff between doBy versions 3.5 dated 2008-10-14 and 3.6 dated 2008-10-15
Title: Groupwise computations of summary statistics and other utilities
Description: Facilities for groupwise computations of summary statistics and other facilities for working with grouped data (similar to what can be achieved by proc means or proc summary of the SAS system).
ChangeLog | 7 ++
DESCRIPTION | 4 -
R/splitBy.R | 15 +++-
inst/doc/doBy.pdf | 188 +++++++++++++++++++++++++++---------------------------
4 files changed, 116 insertions(+), 98 deletions(-)
Author: Torsten Hothorn, Kurt Hornik and Achim Zeileis
Title: A Laboratory for Recursive Partytioning
Description: A computational toolbox for recursive partitioning.
The core of the package is ctree(), an implementation of
conditional inference trees which embed tree-structured
regression models into a well defined theory of conditional
inference procedures. This non-parametric class of regression
trees is applicable to all kinds of regression problems, including
nominal, ordinal, numeric, censored as well as multivariate response
variables and arbitrary measurement scales of the covariates.
Based on conditional inference trees, cforest() provides an
implementation of Breiman's random forests. The function mob()
implements an algorithm for recursive partitioning based on
parametric models (e.g. linear models, GLMs or survival
regression) employing parameter instability tests for split
selection. Extensible functionality for visualizing tree-structured
regression models is available.
Diff between party versions 0.9-97 dated 2008-06-27 and 0.9-98 dated 2008-10-15
CHANGES | 11 + DESCRIPTION | 6 R/RandomForest.R | 95 +++++++++- R/Variables.R | 3 inst/doc/MOB.pdf |binary inst/doc/party.pdf |binary inst/documentation/html/Classes_8c-source.html | 2 inst/documentation/html/Classes_8c.html | 12 - inst/documentation/html/Classes_8h-source.html | 2 inst/documentation/html/Classes_8h.html | 12 - inst/documentation/html/Convenience_8c-source.html | 86 ++++----- inst/documentation/html/Convenience_8c.html | 10 - inst/documentation/html/Convenience_8h-source.html | 2 inst/documentation/html/Convenience_8h.html | 2 inst/documentation/html/Distributions_8c-source.html | 2 inst/documentation/html/Distributions_8c.html | 2 inst/documentation/html/Distributions_8h-source.html | 2 inst/documentation/html/Distributions_8h.html | 2 inst/documentation/html/IndependenceTest_8c-source.html | 2 inst/documentation/html/IndependenceTest_8c.html | 2 inst/documentation/html/IndependenceTest_8h-source.html | 2 inst/documentation/html/IndependenceTest_8h.html | 2 inst/documentation/html/LinearStatistic_8c-source.html | 2 inst/documentation/html/LinearStatistic_8c.html | 2 inst/documentation/html/LinearStatistic_8h-source.html | 2 inst/documentation/html/LinearStatistic_8h.html | 2 inst/documentation/html/Node_8c-source.html | 2 inst/documentation/html/Node_8c.html | 2 inst/documentation/html/Node_8h-source.html | 2 inst/documentation/html/Node_8h.html | 2 inst/documentation/html/Predict_8c-source.html | 2 inst/documentation/html/Predict_8c.html | 2 inst/documentation/html/Predict_8h-source.html | 2 inst/documentation/html/Predict_8h.html | 2 inst/documentation/html/RandomForest_8c-source.html | 2 inst/documentation/html/RandomForest_8c.html | 2 inst/documentation/html/S3Classes_8c-source.html | 2 inst/documentation/html/S3Classes_8c.html | 2 inst/documentation/html/S3Classes_8h-source.html | 2 inst/documentation/html/S3Classes_8h.html | 2 inst/documentation/html/Splits_8c-source.html | 4 inst/documentation/html/Splits_8c.html | 2 inst/documentation/html/Splits_8h-source.html | 2 inst/documentation/html/Splits_8h.html | 2 inst/documentation/html/SurrogateSplits_8c-source.html | 2 inst/documentation/html/SurrogateSplits_8c.html | 2 inst/documentation/html/SurrogateSplits_8h-source.html | 2 inst/documentation/html/SurrogateSplits_8h.html | 2 inst/documentation/html/TestStatistic_8c-source.html | 2 inst/documentation/html/TestStatistic_8c.html | 2 inst/documentation/html/TestStatistic_8h-source.html | 2 inst/documentation/html/TestStatistic_8h.html | 2 inst/documentation/html/TreeGrow_8c-source.html | 2 inst/documentation/html/TreeGrow_8c.html | 2 inst/documentation/html/TreeGrow_8h-source.html | 2 inst/documentation/html/TreeGrow_8h.html | 2 inst/documentation/html/Utils_8c-source.html | 2 inst/documentation/html/Utils_8c.html | 2 inst/documentation/html/Utils_8h-source.html | 2 inst/documentation/html/Utils_8h.html | 2 inst/documentation/html/dir_6c30642956b040afcd6ed9c9ec492c91.html | 2 inst/documentation/html/dirs.html | 2 inst/documentation/html/files.html | 2 inst/documentation/html/globals.html | 2 inst/documentation/html/globals_0x62.html | 2 inst/documentation/html/globals_0x63.html | 2 inst/documentation/html/globals_0x67.html | 2 inst/documentation/html/globals_0x68.html | 2 inst/documentation/html/globals_0x69.html | 2 inst/documentation/html/globals_0x6c.html | 2 inst/documentation/html/globals_0x6d.html | 2 inst/documentation/html/globals_0x6e.html | 2 inst/documentation/html/globals_0x70.html | 2 inst/documentation/html/globals_0x71.html | 2 inst/documentation/html/globals_0x72.html | 2 inst/documentation/html/globals_0x73.html | 2 inst/documentation/html/globals_0x74.html | 2 inst/documentation/html/globals_0x75.html | 2 inst/documentation/html/globals_defs.html | 2 inst/documentation/html/globals_func.html | 2 inst/documentation/html/globals_func_0x67.html | 2 inst/documentation/html/globals_func_0x68.html | 2 inst/documentation/html/globals_func_0x69.html | 2 inst/documentation/html/globals_func_0x6c.html | 2 inst/documentation/html/globals_func_0x6d.html | 2 inst/documentation/html/globals_func_0x6e.html | 2 inst/documentation/html/globals_func_0x70.html | 2 inst/documentation/html/globals_func_0x72.html | 2 inst/documentation/html/globals_func_0x73.html | 2 inst/documentation/html/globals_func_0x75.html | 2 inst/documentation/html/globals_vars.html | 2 inst/documentation/html/graph_legend.html | 2 inst/documentation/html/main.html | 2 inst/documentation/html/mvt_8f-source.html | 2 inst/documentation/html/mvt_8f.html | 2 inst/documentation/html/mvt_8h-source.html | 2 inst/documentation/html/mvt_8h.html | 2 inst/documentation/html/pages.html | 2 inst/documentation/html/party_8h-source.html | 2 inst/documentation/html/party_8h.html | 2 inst/documentation/html/todo.html | 2 inst/documentation/latex/Convenience_8c.tex | 4 inst/documentation/latex/dir_6c30642956b040afcd6ed9c9ec492c91_dep.pdf | 14 - inst/documentation/latex/doxygen.sty | 4 inst/documentation/latex/refman.tex | 2 inst/documentation/man/man3/Classes.c.3 | 2 inst/documentation/man/man3/Classes.h.3 | 2 inst/documentation/man/man3/Convenience.c.3 | 6 inst/documentation/man/man3/Convenience.h.3 | 2 inst/documentation/man/man3/Distributions.c.3 | 2 inst/documentation/man/man3/Distributions.h.3 | 2 inst/documentation/man/man3/IndependenceTest.c.3 | 2 inst/documentation/man/man3/IndependenceTest.h.3 | 2 inst/documentation/man/man3/LinearStatistic.c.3 | 2 inst/documentation/man/man3/LinearStatistic.h.3 | 2 inst/documentation/man/man3/Node.c.3 | 2 inst/documentation/man/man3/Node.h.3 | 2 inst/documentation/man/man3/Predict.c.3 | 2 inst/documentation/man/man3/Predict.h.3 | 2 inst/documentation/man/man3/RandomForest.c.3 | 2 inst/documentation/man/man3/S3Classes.c.3 | 2 inst/documentation/man/man3/S3Classes.h.3 | 2 inst/documentation/man/man3/Splits.c.3 | 2 inst/documentation/man/man3/Splits.h.3 | 2 inst/documentation/man/man3/SurrogateSplits.c.3 | 2 inst/documentation/man/man3/SurrogateSplits.h.3 | 2 inst/documentation/man/man3/TestStatistic.c.3 | 2 inst/documentation/man/man3/TestStatistic.h.3 | 2 inst/documentation/man/man3/TreeGrow.c.3 | 2 inst/documentation/man/man3/TreeGrow.h.3 | 2 inst/documentation/man/man3/Utils.c.3 | 2 inst/documentation/man/man3/Utils.h.3 | 2 inst/documentation/man/man3/_home_hothorn_projects_svn_Rpkgs_trunk_party_src_.3 | 2 inst/documentation/man/man3/mvt.f.3 | 2 inst/documentation/man/man3/mvt.h.3 | 2 inst/documentation/man/man3/party.h.3 | 2 inst/documentation/man/man3/todo.3 | 2 src/Convenience.c | 10 - src/Splits.c | 4 tests/bugfixes.R | 11 + tests/bugfixes.Rout.save | 21 +- 141 files changed, 340 insertions(+), 217 deletions(-)
Author: Torsten Hothorn, Frank Bretz and Peter Westfall with
contributions by Richard M. Heiberger
Title: Simultaneous Inference in General Parametric Models
Description: Simultaneous tests and confidence intervals
for general linear hypotheses in parametric models, including
linear, generalized linear, linear mixed effects, and survival models.
Diff between multcomp versions 1.0-2 dated 2008-07-05 and 1.0-3 dated 2008-10-15
multcomp-1.0-2/multcomp/inst/doc/Rplots.ps |only multcomp-1.0-3/multcomp/CHANGES | 9 multcomp-1.0-3/multcomp/DESCRIPTION | 6 multcomp-1.0-3/multcomp/R/expressions.R | 9 multcomp-1.0-3/multcomp/R/parm.R | 6 multcomp-1.0-3/multcomp/inst/CHANGES | 9 multcomp-1.0-3/multcomp/inst/doc/generalsiminf.pdf | 1019 ++++++++--------- multcomp-1.0-3/multcomp/inst/doc/multcomp-examples.pdf |binary multcomp-1.0-3/multcomp/man/cholesterol.Rd | 1 multcomp-1.0-3/multcomp/tests/bugfix.R | 4 multcomp-1.0-3/multcomp/tests/bugfix.Rout.save | 12 11 files changed, 558 insertions(+), 517 deletions(-)
Author: Martin Elff
Title: Tools for Management of Survey Data, Graphics, Programming, Statistics, and Simulation
Description: One of the aims of this package is to make life easier for useRs
who deal with survey data sets. It provides an infrastructure for the management of
survey data including value labels, definable missing values, recoding of variables,
production of code books, and import of (subsets of) SPSS and Stata files.
Further, it provides functionality to produce tables and data frames of
arbitrary descriptive statistics and (almost) publication-ready tables
of regression model estimates. Also some convenience tools for
graphics, programming, and simulation are provided.
Diff between memisc versions 0.95-3 dated 2008-10-14 and 0.95-4 dated 2008-10-15
DESCRIPTION | 6 inst/doc/anes48.pdf |binary src/pspp-portableStream-for-R.c | 242 +++++++++++----------------------------- 3 files changed, 70 insertions(+), 178 deletions(-)
Author: Duncan Temple Lang (duncan@wald.ucdavis.edu)
Title: Tools for parsing and generating XML within R and S-Plus.
Description: Parsing facilities for arbitrary XML files, DTDs and HTML, offering both
event and tree based parsers which are customizable with R functions.
Diff between XML versions 1.96-0 dated 2008-07-28 and 1.98-0 dated 2008-10-15
XML-1.96-0/XML/R/accessors.R |only XML-1.96-0/XML/inst/Docs/MathML.pdf |only XML-1.96-0/XML/inst/Docs/Outline.pdf |only XML-1.96-0/XML/inst/Docs/Tour.pdf |only XML-1.96-0/XML/inst/Docs/WritingXML.html |only XML-1.96-0/XML/inst/Docs/description.pdf |only XML-1.96-0/XML/inst/Docs/gettingStarted.html |only XML-1.96-0/XML/inst/Docs/gettingStarted.pdf |only XML-1.96-0/XML/inst/Docs/manual.pdf |only XML-1.96-0/XML/inst/Docs/shortIntro.html |only XML-1.96-0/XML/inst/Docs/shortIntro.pdf |only XML-1.96-0/XML/inst/exampleData/entity.xml- |only XML-1.96-0/XML/inst/examples/moby.R |only XML-1.96-0/XML/inst/examples/wikipediaSchema.R |only XML-1.98-0/XML/Changes | 51 XML-1.98-0/XML/DESCRIPTION | 4 XML-1.98-0/XML/INSTALL | 2 XML-1.98-0/XML/NAMESPACE | 86 XML-1.98-0/XML/R/AAA.R |only XML-1.98-0/XML/R/DTDClasses.R | 7 XML-1.98-0/XML/R/XMLClasses.R | 215 XML-1.98-0/XML/R/createNode.R | 43 XML-1.98-0/XML/R/flatTree.R | 5 XML-1.98-0/XML/R/hashTree.R | 249 - XML-1.98-0/XML/R/htmlParse.R | 3 XML-1.98-0/XML/R/nodeAccessors.R |only XML-1.98-0/XML/R/summary.R | 27 XML-1.98-0/XML/R/tree.R | 34 XML-1.98-0/XML/R/xmlEventParse.R | 31 XML-1.98-0/XML/R/xmlInternalSource.R | 5 XML-1.98-0/XML/R/xmlNodes.R | 259 - XML-1.98-0/XML/R/xmlOutputDOM.R | 2 XML-1.98-0/XML/R/xmlTree.R | 45 XML-1.98-0/XML/R/xmlTreeParse.R | 9 XML-1.98-0/XML/configure | 5112 +++++++++++---------- XML-1.98-0/XML/configure.in | 2 XML-1.98-0/XML/inst/exampleData/allNodeTypes.xml |only XML-1.98-0/XML/inst/exampleData/mtcars.xml | 30 XML-1.98-0/XML/inst/exampleData/simple.xml |only XML-1.98-0/XML/inst/exampleData/xpathTest.xml |only XML-1.98-0/XML/inst/examples/hashTree.R |only XML-1.98-0/XML/inst/examples/modified_itunes_sax.R |only XML-1.98-0/XML/man/SAXMethods.Rd | 4 XML-1.98-0/XML/man/XMLNode-class.Rd | 12 XML-1.98-0/XML/man/addChildren.Rd | 14 XML-1.98-0/XML/man/addNode.Rd | 5 XML-1.98-0/XML/man/addSibling.Rd | 18 XML-1.98-0/XML/man/asXMLNode.Rd | 1 XML-1.98-0/XML/man/coerce.Rd |only XML-1.98-0/XML/man/docName.Rd | 1 XML-1.98-0/XML/man/getNodeSet.Rd | 7 XML-1.98-0/XML/man/getRelativeURL.Rd |only XML-1.98-0/XML/man/libxmlVersion.Rd | 2 XML-1.98-0/XML/man/newXMLNamespace.Rd |only XML-1.98-0/XML/man/parseURI.Rd | 1 XML-1.98-0/XML/man/saveXML.Rd | 4 XML-1.98-0/XML/man/schema-class.Rd | 13 XML-1.98-0/XML/man/toHTML.Rd | 2 XML-1.98-0/XML/man/xmlAttrs.Rd | 7 XML-1.98-0/XML/man/xmlChildren.Rd | 2 XML-1.98-0/XML/man/xmlEventParse.Rd | 18 XML-1.98-0/XML/man/xmlFlatListTree.Rd | 22 XML-1.98-0/XML/man/xmlGetAttr.Rd | 10 XML-1.98-0/XML/man/xmlNamespace.Rd | 7 XML-1.98-0/XML/man/xmlNamespaceDefinitions.Rd | 10 XML-1.98-0/XML/man/xmlNode.Rd | 29 XML-1.98-0/XML/man/xmlParserContextFunction.Rd |only XML-1.98-0/XML/man/xmlRoot.Rd | 15 XML-1.98-0/XML/man/xmlToList.Rd |only XML-1.98-0/XML/man/xmlTreeParse.Rd | 13 XML-1.98-0/XML/src/DocParse.c | 33 XML-1.98-0/XML/src/DocParse.h | 2 XML-1.98-0/XML/src/EventParse.c | 96 XML-1.98-0/XML/src/EventParse.h | 9 XML-1.98-0/XML/src/RUtils.c | 2 XML-1.98-0/XML/src/Utils.h | 2 XML-1.98-0/XML/src/XMLEventParse.c | 100 XML-1.98-0/XML/src/XMLHashTree.c |only XML-1.98-0/XML/src/XMLTree.c | 24 XML-1.98-0/XML/src/schema.c | 2 XML-1.98-0/XML/src/xpath.c | 11 81 files changed, 4110 insertions(+), 2609 deletions(-)
Author: Alexis Dinno
Diff between paran versions 1.4.0 dated 2008-09-28 and 1.4.1 dated 2008-10-15
Title: Horn's Test of Principal Components/Factors
Description: paran is an implementation of Horn's technique for numerically and graphically evaluating the components or factors retained in a principle components analysis (PCA) or common factor analysis (FA). Horn's method contrasts eigenvalues produced through a PCA or FA on a number of random data sets of uncorrelated variables with the same number of variables and observations as the experimental or observational data set to produce eigenvalues for components or factors that are adjusted for the sample error-induced inflation. Components with adjusted eigenvalues greater than one are retained. paran may also be used to conduct parallel analysis following Glorfeld's (1995) suggestions to reduce the likelihood of over-retention.
paran-1.4.0/paran/inst |only
paran-1.4.1/paran/DESCRIPTION | 7 ++--
paran-1.4.1/paran/R/paran.R | 10 +++---
paran-1.4.1/paran/man/paran.Rd | 63 ++++++++++++++++++++++-------------------
4 files changed, 44 insertions(+), 36 deletions(-)
Author:
Heike Trautmann
Diff between mco versions 1.0.2 dated 2008-08-20 and 1.0.4 dated 2008-10-15
Title: Multi criteria optimization algorithms and related functions
Description: Functions for multi criteria optimization using genetic algorithms and related test problems
DESCRIPTION | 10 +++++-----
NAMESPACE | 6 ++++++
R/functions.R |only
R/mco.R | 22 ++++++++++++++++++++++
R/qs.R | 20 ++++++++++++--------
man/generationalDistance.Rd | 3 +--
man/paretoFront.Rd | 11 +++++++++--
src/hv.c | 7 ++++---
8 files changed, 59 insertions(+), 20 deletions(-)
Author: Pedro Brasil
Diff between DiagnosisMed versions 0.1.1 dated 2008-09-28 and 0.1.2 dated 2008-10-15
Title: Diagnostic test accuracy evaluation for medical professionals.
Description: DiagnosisMed is a package to analyze data from diagnostic test accuracy evaluating health conditions. It is being built to be used by health professionals. This package is - or soon will be - able to estimate sample size for common situations in diagnostic test accuracy, estimate sensitivity and specificity from categorical and continuous test results including some evaluations of indeterminate results, or compare different analysis strategies into measures commonly used by health professionals.
DESCRIPTION | 10 +++++-----
R/interact.ROC.r | 2 +-
man/interact.ROC.Rd | 16 +++++++++-------
3 files changed, 15 insertions(+), 13 deletions(-)
Author: Martin Elff
Title: Tools for Management of Survey Data, Graphics, Programming, Statistics, and Simulation
Description: One of the aims of this package is to make life easier for useRs
who deal with survey data sets. It provides an infrastructure for the management of
survey data including value labels, definable missing values, recoding of variables,
production of code books, and import of (subsets of) SPSS and Stata files.
Further, it provides functionality to produce tables and data frames of
arbitrary descriptive statistics and (almost) publication-ready tables
of regression model estimates. Also some convenience tools for
graphics, programming, and simulation are provided.
Diff between memisc versions 0.95-1 dated 2008-10-01 and 0.95-3 dated 2008-10-14
DESCRIPTION | 6 +++--- R/import-internal-spss-portable.R | 3 ++- inst/doc/anes48.pdf |binary 3 files changed, 5 insertions(+), 4 deletions(-)
Author: K. Burkett
Diff between hapassoc versions 1.2-1 dated 2008-07-29 and 1.2-2 dated 2008-10-14
Title: Inference of trait associations with SNP haplotypes and other attributes using the EM Algorithm
Description: The following R functions are used for inference of trait associations with haplotypes and other covariates in generalized linear models. The functions are developed primarily for data collected in cohort or cross-sectional studies. They can accommodate uncertain haplotype phase and handle missing genotypes at some SNPs.
DESCRIPTION | 4
R/hapassoc.R | 41 +-
inst/ChangeLog | 9
inst/doc/hapassoc.pdf | 873 ++++++++++++++++++++++++--------------------------
src/tapply_sum.c |only
5 files changed, 470 insertions(+), 457 deletions(-)
Author: Karline Soetaert
Diff between ecolMod versions 1.1 dated 2008-06-12 and 1.2 dated 2008-10-14
Title: "A practical guide to ecological modelling - using R as a simulation platform"
Description: Figures, data sets and examples from the book "A practical guide to ecological modelling - using R as a simulation platform" by Karline Soetaert and Peter MJ Herman (2008). Springer.
All figures from chapter x can be generated by "demo(chapx)", where x = 1 to 11.
The R-scripts of the model examples discussed in the book are in subdirectory "examples", ordered per chapter.
Solutions to model projects are in the same subdirectories.
DESCRIPTION | 6 ++--
demo/chap6.r | 73 ++++++++++++++++++++++++++++++++++++++-------------------
demo/chap7.r | 2 -
man/ecolMod.Rd |only
4 files changed, 53 insertions(+), 28 deletions(-)
Author: Karline Soetaert
Diff between diagram versions 1.2 dated 2008-08-06 and 1.3 dated 2008-10-14
Title: Functions for visualising simple graphs (networks), plotting flow diagrams
Description: Visualises simple graphs (networks) based on a transition matrix, utilities to plot flow diagrams,
visualising webs,...
Support for the book "A practical guide to ecological modelling -
using R as a simulation platform"
by Karline Soetaert and Peter M.J. Herman (2008). Springer.
Includes demo(flowchart), demo(plotmat), demo(plotweb)
diagram-1.2/diagram/inst/doc/diagram.tex |only
diagram-1.3/diagram/DESCRIPTION | 6
diagram-1.3/diagram/R/diagram.r | 17
diagram-1.3/diagram/inst/doc/Rplots.pdf |only
diagram-1.3/diagram/inst/doc/diagram.Rnw | 2
diagram-1.3/diagram/inst/doc/diagram.pdf | 3480 +++++++++++++++----------------
diagram-1.3/diagram/man/diagram.Rd | 4
diagram-1.3/diagram/man/plotmat.Rd | 4
diagram-1.3/diagram/man/plotweb.Rd | 3
9 files changed, 1707 insertions(+), 1809 deletions(-)
Author: Marek Walesiak
Diff between clusterSim versions 0.36-1 dated 2008-05-03 and 0.36-3 dated 2008-10-14
Title: Searching for optimal clustering procedure for a data set
Description: GDM Distance,
Sokal-Michener Distance,
Bray-Curtis Distance,
Calinski-Harabasz Index,
G2 Index,
G3 Index,
Silhouette Index,
Krzanowski-Lai Index,
Hartigan Index,
Gap Index,
DB Index,
Data Normalization,
HINoV method,
Replication analysis for cluster validation,
Clustering with several algorithms, distances, normalizations and icq indices,
Symbolic interval distances,
Plot functions,
Random cluster generation
DESCRIPTION | 12 ++++++------
R/HINoV.Mod.r | 8 ++++++--
R/cluster.Sim.r | 18 +++++++++++++++++-
R/index.GAP.r | 8 ++++++--
R/replication.Mod.r | 7 ++++++-
man/HINoV.Mod.rd | 4 ++--
man/HINoV.Symbolic.rd | 6 +++---
man/cluster.Description.rd | 4 ++--
man/cluster.Gen.rd | 6 +++---
man/cluster.Sim.rd | 6 ++++--
man/data.Normalization.rd | 4 ++--
man/dist.BC.rd | 4 ++--
man/dist.GDM.rd | 4 ++--
man/dist.SM.rd | 4 ++--
man/dist.Symbolic.rd | 4 ++--
man/index.DB.rd | 4 ++--
man/index.G1.rd | 4 ++--
man/index.G2.rd | 4 ++--
man/index.G3.rd | 4 ++--
man/index.GAP.rd | 6 +++---
man/index.H.rd | 4 ++--
man/index.KL.rd | 4 ++--
man/index.S.rd | 4 ++--
man/initial.Centers.rd | 4 ++--
man/plotCategorial.rd | 4 ++--
man/plotCategorial3d.rd | 4 ++--
man/plotInterval.rd | 4 ++--
man/replication.Mod.rd | 6 +++---
28 files changed, 93 insertions(+), 62 deletions(-)
Author: Rasmus E. Benestad
Diff between clim.pact versions 2.2-15 dated 2008-08-01 and 2.2-22 dated 2008-10-14
Title: Climate analysis and empirical-statistical downscaling (ESD) package for monthly and daily data.
Description: The package contains R functions for retrieving data, making climate analysis and downscaling of monthly mean and daily mean global climate scenarios. (Windows-users may need to obtain the 'ncdf' package from URL 'http://www.stats.ox.ac.uk/pub/RWin/' to get clim.pact to work). The package is also described in the book 'Empirical-Statistical Downscaling (http://www.worldscibooks.com/environsci/6908.html)
DESCRIPTION | 6 +++---
R/DSpdf.exp.R | 7 +++++--
R/R2cdf.R | 6 +++---
R/corField.R | 2 +-
R/ds.R | 25 ++++++++++++++++++++-----
R/eof.R | 2 +-
R/extras.R | 4 ++--
R/map.R | 2 +-
R/newFig.R | 25 +++++++++++++++++--------
R/objDS.R | 12 ++++++------
R/plotDS.R | 6 +++---
R/plotEOF.R | 10 ++++++----
man/adjust.eof.Rd | 8 ++++----
man/mergeEOF.Rd | 2 +-
man/r2cdf.Rd | 3 ++-
15 files changed, 75 insertions(+), 45 deletions(-)
Author: Matt Nunes
Diff between adlift versions 0.9-4 dated 2008-10-14 and 0.9-5 dated 2008-10-14
Title: An adaptive lifting scheme algorithm
Description: Adaptive Wavelet transforms for signal denoising
DESCRIPTION | 6 +++---
R/basisfns.R | 27 ++++++++++++++++++++++-----
2 files changed, 25 insertions(+), 8 deletions(-)
Author: Thomas Baier
Title: provides portable C-style interface to R (StatConnector)
Description: rscproxy library provides an interface to R used by third party applications, most notable, but not limited to, rcom/R Scilab (D)COM Server, ROOo and other systems.
Diff between rscproxy versions 1.0-6 dated 2008-08-14 and 1.0-9 dated 2008-10-14
rscproxy-1.0-6/rscproxy/src/rproxy.h |only rscproxy-1.0-9/rscproxy/DESCRIPTION | 8 ++++---- rscproxy-1.0-9/rscproxy/inst/include/rproxy.h |only rscproxy-1.0-9/rscproxy/src/bdx_SEXP.c | 22 +++++++++++++--------- rscproxy-1.0-9/rscproxy/src/bdx_com.c | 5 ++++- rscproxy-1.0-9/rscproxy/src/com_util.c | 2 ++ rscproxy-1.0-9/rscproxy/src/rproxy_impl.c | 11 ++++++++--- rscproxy-1.0-9/rscproxy/src/rproxy_impl.h | 9 +++++++++ 8 files changed, 40 insertions(+), 17 deletions(-)
Author: Peter Frommolt
Title: Standardized high-throughput evaluation of compound screens
Description: Calculation of IC50 values, automatic drawing of dose-response curves and validation of compound screens on 96- and 384-well plates.
Diff between ic50 versions 1.2 dated 2008-08-08 and 1.3 dated 2008-10-14
DESCRIPTION | 6 +++--- R/evaluation.R | 8 ++++---- R/graphics.R | 6 +++--- R/hts.R | 4 ++-- R/ic50.R | 2 +- R/misc.R | 2 +- inst/design/mpi384_measure.txt | 28 ++++++++++++++-------------- inst/doc |only man/design.Rd | 6 +++++- man/hts.Rd | 17 ++++++++++------- man/ic50.Rd | 29 ++++++++++++++++------------- man/nsclc.Rd | 2 +- 12 files changed, 60 insertions(+), 50 deletions(-)
Author: Paulo J. Ribeiro Jr
Diff between geoR versions 1.6-21 dated 2008-04-27 and 1.6-22 dated 2008-10-14
Title: Analysis of geostatistical data
Description: Geostatistical analysis including traditional, likelihood-based and Bayesian methods.
geoR-1.6-21/geoR/data/soil.txt |only
geoR-1.6-21/geoR/man/soil.Rd |only
geoR-1.6-22/geoR/DESCRIPTION | 6
geoR-1.6-22/geoR/INDEX | 7
geoR-1.6-22/geoR/R/auxiliar.R | 21 +-
geoR-1.6-22/geoR/R/bivar.R | 33 ++--
geoR-1.6-22/geoR/R/corcov.R | 11 -
geoR-1.6-22/geoR/R/geobayes.R | 17 +-
geoR-1.6-22/geoR/R/geodata.R | 63 +++++---
geoR-1.6-22/geoR/R/kriging.R | 10 -
geoR-1.6-22/geoR/R/ksline.R | 3
geoR-1.6-22/geoR/R/likGRF.R | 105 +++++++-------
geoR-1.6-22/geoR/R/likOLD.R | 128 +++++++++--------
geoR-1.6-22/geoR/R/profiles.R | 273 ++++++++++++++++++++------------------
geoR-1.6-22/geoR/R/simul.R | 199 ++++++++++++++++-----------
geoR-1.6-22/geoR/R/variofit.R | 9 -
geoR-1.6-22/geoR/R/variogram.R | 6
geoR-1.6-22/geoR/R/xvalid.R | 46 +++---
geoR-1.6-22/geoR/data/soil250.R |only
geoR-1.6-22/geoR/data/soja98.R |only
geoR-1.6-22/geoR/data/wrc.R |only
geoR-1.6-22/geoR/inst/doc/CHANGES | 36 +++++
geoR-1.6-22/geoR/man/image.grf.Rd | 11 -
geoR-1.6-22/geoR/man/likfit.Rd | 20 +-
geoR-1.6-22/geoR/man/polygrid.Rd | 2
geoR-1.6-22/geoR/man/soil250.Rd |only
geoR-1.6-22/geoR/man/soja98.Rd |only
geoR-1.6-22/geoR/man/wrc.Rd |only
geoR-1.6-22/geoR/man/xvalid.Rd | 49 +++---
29 files changed, 599 insertions(+), 456 deletions(-)
Author: Michael Lawrence, John Verzani
Title: Toolkit implementation of gWidgets for RGtk2
Description: Port of gWidgets API to RGtk2
Diff between gWidgetsRGtk2 versions 0.0-44 dated 2008-10-13 and 0.0-45 dated 2008-10-14
ChangeLog | 4 ++++ DESCRIPTION | 4 ++-- R/gtext.R | 13 +++++++++---- 3 files changed, 15 insertions(+), 6 deletions(-)
Author: Sřren Hřjsgaard
Diff between doBy versions 3.4 dated 2008-10-07 and 3.5 dated 2008-10-14
Title: Groupwise computations of summary statistics and other utilities
Description: Facilities for groupwise computations of summary statistics and other facilities for working with grouped data (similar to what can be achieved by proc means or proc summary of the SAS system).
ChangeLog | 7
DESCRIPTION | 4
data/dietox.R | 2
inst/doc/doBy.pdf | 410 ++++++++++++++++++++++++++----------------------------
man/dietox.Rd | 33 ++--
5 files changed, 235 insertions(+), 221 deletions(-)
Author: Hsin-ya Lee
Diff between bear versions 1.1.5 dated 2008-10-02 and 2.0.1 dated 2008-10-14
Title: Average bioequivalence and bioavailability data analysis tool
Description: An average bioequivalence (ABE) and bioavailability data analysis tool including sample size estimation, noncompartmental analysis (NCA) and ANOVA (lm) for a standard RT/TR 2-treatment, 2-sequence, 2-period, and balanced, cross-over design
bear-1.1.5/bear/R/GLManalyze.r |only
bear-1.1.5/bear/R/GLMcsv.r |only
bear-1.1.5/bear/R/GLMdata.r |only
bear-1.1.5/bear/R/GLMmenu.r |only
bear-1.1.5/bear/R/GLMoutput.r |only
bear-1.1.5/bear/R/NCAGLManalyze.r |only
bear-1.1.5/bear/R/NCAGLMcsv.r |only
bear-1.1.5/bear/R/NCAGLMdata.r |only
bear-1.1.5/bear/R/NCAGLMmenu.r |only
bear-1.1.5/bear/R/demoGLM.r |only
bear-1.1.5/bear/R/demoNCAGLM.r |only
bear-1.1.5/bear/man/GLManalyze.rd |only
bear-1.1.5/bear/man/GLMcsv.rd |only
bear-1.1.5/bear/man/GLMdata.rd |only
bear-1.1.5/bear/man/GLMmenu.rd |only
bear-1.1.5/bear/man/GLMoutput.rd |only
bear-1.1.5/bear/man/NCAGLManalyze.rd |only
bear-1.1.5/bear/man/NCAGLMcsv.rd |only
bear-1.1.5/bear/man/NCAGLMdata.rd |only
bear-1.1.5/bear/man/NCAGLMmenu.rd |only
bear-1.1.5/bear/man/demoGLM.rd |only
bear-1.1.5/bear/man/demoNCAGLM.rd |only
bear-2.0.1/bear/DESCRIPTION | 6
bear-2.0.1/bear/R/ARS.BANOVA.r |only
bear-2.0.1/bear/R/ARS.r |only
bear-2.0.1/bear/R/ARSdemo.BANOVA.r |only
bear-2.0.1/bear/R/ARSdemo.r |only
bear-2.0.1/bear/R/ARSoutput.r |only
bear-2.0.1/bear/R/BANOVA.r |only
bear-2.0.1/bear/R/BANOVAanalyze.r |only
bear-2.0.1/bear/R/BANOVAcsv.r |only
bear-2.0.1/bear/R/BANOVAdata.r |only
bear-2.0.1/bear/R/BANOVAmenu.r |only
bear-2.0.1/bear/R/BANOVAoutput.r |only
bear-2.0.1/bear/R/NCA.BANOVA.r |only
bear-2.0.1/bear/R/NCA.BANOVAanalyze.r |only
bear-2.0.1/bear/R/NCA.BANOVAcsv.r |only
bear-2.0.1/bear/R/NCA.BANOVAdata.r |only
bear-2.0.1/bear/R/NCA.BANOVAmenu.r |only
bear-2.0.1/bear/R/NCA.r |only
bear-2.0.1/bear/R/NCAanalyze.r | 608 ++--------------------------
bear-2.0.1/bear/R/NCAcsv.r | 40 -
bear-2.0.1/bear/R/NCAdata.r | 112 +----
bear-2.0.1/bear/R/NCAdemo.BANOVA.r |only
bear-2.0.1/bear/R/NCAdemo.r |only
bear-2.0.1/bear/R/NCAmenu.r | 30 +
bear-2.0.1/bear/R/NCAoutput.r | 212 +++++----
bear-2.0.1/bear/R/NCAplot.r | 16
bear-2.0.1/bear/R/NCAsave.r |only
bear-2.0.1/bear/R/NCAselect.BANOVA.r |only
bear-2.0.1/bear/R/NCAselect.r |only
bear-2.0.1/bear/R/NCAselectdemo.BANOVA.r |only
bear-2.0.1/bear/R/NCAselectdemo.r |only
bear-2.0.1/bear/R/NCAselectsave.BANOVA.r |only
bear-2.0.1/bear/R/NCAselectsave.r |only
bear-2.0.1/bear/R/TTT.BANOVA.r |only
bear-2.0.1/bear/R/TTT.r |only
bear-2.0.1/bear/R/TTTdemo.BANOVA.r |only
bear-2.0.1/bear/R/TTTdemo.r |only
bear-2.0.1/bear/R/TTToutput.r |only
bear-2.0.1/bear/R/bye.r | 4
bear-2.0.1/bear/R/demoARS.BANOVA.r |only
bear-2.0.1/bear/R/demoARS.r |only
bear-2.0.1/bear/R/demoBANOVA.r |only
bear-2.0.1/bear/R/demoNCA.BANOVA.r |only
bear-2.0.1/bear/R/demoNCA.r | 569 --------------------------
bear-2.0.1/bear/R/demoTTT.BANOVA.r |only
bear-2.0.1/bear/R/demoTTT.r |only
bear-2.0.1/bear/R/demosize.r | 25 -
bear-2.0.1/bear/R/description_ARS.r |only
bear-2.0.1/bear/R/description_BANOVA.r |only
bear-2.0.1/bear/R/description_NCA.r |only
bear-2.0.1/bear/R/description_NCAcsv.r |only
bear-2.0.1/bear/R/description_NCAinput.r |only
bear-2.0.1/bear/R/description_TTT.r |only
bear-2.0.1/bear/R/description_drug.r |only
bear-2.0.1/bear/R/description_drugcode.r |only
bear-2.0.1/bear/R/description_import.r |only
bear-2.0.1/bear/R/description_load.r |only
bear-2.0.1/bear/R/description_size.r |only
bear-2.0.1/bear/R/description_version.r |only
bear-2.0.1/bear/R/entertitle.demo.r |only
bear-2.0.1/bear/R/entertitle.r |only
bear-2.0.1/bear/R/go.r | 14
bear-2.0.1/bear/R/logdata.r | 25 -
bear-2.0.1/bear/R/sizemenu.r | 9
bear-2.0.1/bear/R/zzz.R | 31 -
bear-2.0.1/bear/data |only
bear-2.0.1/bear/man/ARS.BANOVA.rd |only
bear-2.0.1/bear/man/ARS.rd |only
bear-2.0.1/bear/man/ARSdemo.BANOVA.rd |only
bear-2.0.1/bear/man/ARSdemo.rd |only
bear-2.0.1/bear/man/ARSoutput.rd |only
bear-2.0.1/bear/man/BANOVA.rd |only
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bear-2.0.1/bear/man/BANOVAdata.rd |only
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bear-2.0.1/bear/man/BANOVAoutput.rd |only
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bear-2.0.1/bear/man/NCA.BANOVAanalyze.rd |only
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bear-2.0.1/bear/man/NCA.BANOVAmenu.rd |only
bear-2.0.1/bear/man/NCA.rd |only
bear-2.0.1/bear/man/NCAanalyze.rd | 2
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bear-2.0.1/bear/man/NCAselectsave.BANOVA.rd |only
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bear-2.0.1/bear/man/demoARS.BANOVA.rd |only
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bear-2.0.1/bear/man/demoBANOVA.rd |only
bear-2.0.1/bear/man/demoNCA.BANOVA.rd |only
bear-2.0.1/bear/man/demoTTT.BANOVA.rd |only
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bear-2.0.1/bear/man/description_ARS.rd |only
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bear-2.0.1/bear/man/description_NCA.rd |only
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bear-2.0.1/bear/man/description_TTT.rd |only
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bear-2.0.1/bear/man/description_size.rd |only
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bear-2.0.1/bear/man/entertitle.demo.rd |only
bear-2.0.1/bear/man/entertitle.rd |only
142 files changed, 322 insertions(+), 1396 deletions(-)
Author: Matt Nunes
Diff between adlift versions 0.9-2 dated 2007-10-17 and 0.9-4 dated 2008-10-14
Title: An adaptive lifting scheme algorithm
Description: Adaptive Wavelet transforms for signal denoising
adlift-0.9-2/adlift/README |only
adlift-0.9-4/adlift/DESCRIPTION | 8 ++++----
adlift-0.9-4/adlift/R/basisfns.R | 10 +++++++---
3 files changed, 11 insertions(+), 7 deletions(-)
Author: Tony Plate
Diff between RSVGTipsDevice versions 0.7-5 dated 2008-09-11 and 1.0-0 dated 2008-10-14
More information about RSVGTipsDevice at CRAN
Title: An R SVG graphics device with dynamic tips and hyperlinks
Description: A graphics device for R that uses the w3.org xml standard
for Scalable Vector Graphics. This version supports
tooltips with 1 to 3 lines, hyperlinks, and line styles.
RSVGTipsDevice-0.7-5/RSVGTipsDevice/DevNotes.txt |only
RSVGTipsDevice-0.7-5/RSVGTipsDevice/NOTES.txt |only
RSVGTipsDevice-0.7-5/RSVGTipsDevice/oldsrc |only
RSVGTipsDevice-1.0-0/RSVGTipsDevice/DESCRIPTION | 6 +++---
RSVGTipsDevice-1.0-0/RSVGTipsDevice/NEWS | 3 +++
RSVGTipsDevice-1.0-0/RSVGTipsDevice/man/RSVGTipsDevice.Rd | 7 +++++--
RSVGTipsDevice-1.0-0/RSVGTipsDevice/man/devSVGTips.Rd | 6 ++++--
RSVGTipsDevice-1.0-0/RSVGTipsDevice/src/devSVG.c | 13 +++++++++++--
8 files changed, 26 insertions(+), 9 deletions(-)
Permanent link
Author: Markus Gesmann
Title: Mack-, Bootstrap and Munich-chain-ladder methods for insurance claims reserving
Description: The package contains the Mack-, Munich-, and Bootstrap chain-ladder methods which are used in insurance claims reserving.
Diff between ChainLadder versions 0.1.2-5 dated 2008-10-13 and 0.1.2-6 dated 2008-10-14
DESCRIPTION | 6 +++--- NEWS | 6 ++++++ man/BootChainLadder.Rd | 23 +++++++++++++---------- man/ChainLadder-package.Rd | 10 +++++----- man/MCLpaid.Rd | 2 +- man/MackChainLadder.Rd | 24 +++++++++++++++--------- man/Mortgage.Rd | 2 +- man/MunichChainLadder.Rd | 16 ++++++++-------- man/plot.BootChainLadder.Rd | 4 ++-- man/plot.MackChainLadder.Rd | 4 ++-- man/plot.MunichChainLadder.Rd | 2 +- man/residuals.MackChainLadder.Rd | 4 ++-- man/summary.MackChainLadder.Rd | 4 ++-- man/summary.MunichChainLadder.Rd | 4 +--- 14 files changed, 62 insertions(+), 49 deletions(-)
Author: Roland Fried
Diff between robfilter versions 2.2 dated 2008-09-28 and 2.3 dated 2008-10-13
Title: Robust Time Series Filters
Description: A set of functions to filter time series based on concepts from robust statistics.
DESCRIPTION | 6 +++---
R/dw.filter.R | 13 +++++++++----
2 files changed, 12 insertions(+), 7 deletions(-)
Author: Rasmus E. Benestad
Diff between iid.test versions 1.3 dated 2007-11-21 and 1.5 dated 2008-10-13
Title: iid-test
Description: Testing whether data is independent and identically distributed
DESCRIPTION | 6 +++---
R/iid-test.R | 4 ++--
2 files changed, 5 insertions(+), 5 deletions(-)
Author: John Verzani
Title: Toolkit implementation of gWidgets for tcltk package
Description: Port of gWidgets API to the tcltk package. Requires TK 8.5 or greater for the tile (ttk)widgets http://www.tcl.tk/software/tcltk/8.5.tml. This is default on Windows. Under linux, it must be installed. Under Mac OS X (10.5) it must be upgraded. See www.tcl.tk to download source. Under the Mac it compiles and installs cleanly.
Diff between gWidgetstcltk versions 0.0-19 dated 2008-09-02 and 0.0-20 dated 2008-10-13
DESCRIPTION | 6 - NAMESPACE | 163 ++++++++++++++++++++------------------ NEWS | 4 R/aaaGenerics.R | 102 +++++++++++++++++++++++ R/aaaHandlers.R | 31 ++++--- R/gbutton.R | 3 R/gcheckbox.R | 5 - R/gcheckboxgroup.R | 41 +++++++++ R/gedit.R | 6 - R/gexpandgroup.R | 20 ++++ R/gframe.R | 25 +++++ R/gradio.R | 11 ++ R/gtable.R | 52 ++++++++---- R/gtext.R | 8 - R/tcltkFuns.R | 1 man/gWidgetstcltk-package.Rd | 2 man/gWidgetstcltk-undocumented.Rd | 65 ++++++++++++++- 17 files changed, 413 insertions(+), 132 deletions(-)
Author: Michael Lawrence, John Verzani
Title: Toolkit implementation of gWidgets for RGtk2
Description: Port of gWidgets API to RGtk2
Diff between gWidgetsRGtk2 versions 0.0-43 dated 2008-09-19 and 0.0-44 dated 2008-10-13
ChangeLog | 14 +++++++++ DESCRIPTION | 6 +-- NAMESPACE | 6 +++ NEWS | 6 +++ R/aaaGenerics.R | 50 +++++++++++++++++++++++++++++++- R/gcheckbox.R | 10 ++++-- R/gcheckboxgroup.R | 59 +++++++++++++++++++++++++++++--------- R/gdroplist.R | 16 ++++++++-- R/ggrid.R | 10 ++++++ R/glabel.R | 3 + R/gmenu.R | 16 +++++----- R/gradio.R | 6 +++ R/gtext.R | 9 ++++- R/gtoolbar.R | 7 +--- man/gWidgetsRGtk2-package.Rd | 4 ++ man/gWidgetsRGtk2-undocumented.Rd | 31 +++++++++++++++++++ 16 files changed, 215 insertions(+), 38 deletions(-)
Author: John Verzani. Based on the iwidgets code of Simon Urbanek and suggestions by Simon Urbanek, Philippe Grosjean and Michael Lawrence
Title: gWidgets API for building toolkit-independent, interactive GUIs
Description: gWidgets provides a toolkit-independent API for building interactive GUIs. Atleast one of the gWidgetsXXX packages, such as gWidgetstcltk, needs to be installed. Some icons are on loan from the scigraphica project http://scigraphica.sourceforge.net.
Diff between gWidgets versions 0.0-28 dated 2008-06-11 and 0.0-30 dated 2008-10-13
gWidgets-0.0-28/gWidgets/inst/doc/addingToolkit.aux |only gWidgets-0.0-28/gWidgets/inst/doc/addingToolkit.log |only gWidgets-0.0-28/gWidgets/inst/doc/gWidgets.aux |only gWidgets-0.0-28/gWidgets/inst/doc/gWidgets.log |only gWidgets-0.0-28/gWidgets/inst/doc/gWidgets.out |only gWidgets-0.0-30/gWidgets/ChangeLog | 10 gWidgets-0.0-30/gWidgets/DESCRIPTION | 4 gWidgets-0.0-30/gWidgets/NAMESPACE | 10 gWidgets-0.0-30/gWidgets/R/aaaGenerics.R | 74 gWidgets-0.0-30/gWidgets/TODO.txt | 5 gWidgets-0.0-30/gWidgets/inst/doc/.build.timestamp |only gWidgets-0.0-30/gWidgets/inst/doc/addingToolkit.pdf |binary gWidgets-0.0-30/gWidgets/inst/doc/gWidgets.Rnw | 1563 ++--- gWidgets-0.0-30/gWidgets/inst/doc/gWidgets.pdf | 5517 ++++++++---------- gWidgets-0.0-30/gWidgets/man/gWidgets-dialogs.Rd | 7 gWidgets-0.0-30/gWidgets/man/gWidgets-handlers.Rd | 16 gWidgets-0.0-30/gWidgets/man/gWidgets-methods.Rd | 2 gWidgets-0.0-30/gWidgets/man/gWidgets-undocumented.Rd | 11 gWidgets-0.0-30/gWidgets/man/gbutton.Rd |only gWidgets-0.0-30/gWidgets/man/gcheckbox.Rd | 7 gWidgets-0.0-30/gWidgets/man/gedit.Rd | 58 gWidgets-0.0-30/gWidgets/man/gformlayout.Rd |only gWidgets-0.0-30/gWidgets/man/ggroup.Rd | 60 gWidgets-0.0-30/gWidgets/man/ghtml.Rd | 2 gWidgets-0.0-30/gWidgets/man/gimage.Rd |only gWidgets-0.0-30/gWidgets/man/glabel.Rd | 53 gWidgets-0.0-30/gWidgets/man/gnotebook.Rd | 24 gWidgets-0.0-30/gWidgets/man/gradio.Rd | 2 gWidgets-0.0-30/gWidgets/man/gtable.Rd | 97 gWidgets-0.0-30/gWidgets/man/gtext.Rd |only gWidgets-0.0-30/gWidgets/man/gtree.Rd | 8 31 files changed, 3890 insertions(+), 3640 deletions(-)
Author: Sřren Hřjsgaard
Diff between gRbase versions 0.5.0 dated 2008-09-10 and 0.6.0 dated 2008-10-13
Title: A package for graphical modelling in R
Description: This package defines S3-classes gmData (graphical meta data), gModel (graphical model). Several other graphical modelling packages rely on these fundamental constructs. gRbase illustrates how hierarchical log-linear models (hllm) may be implemented.
gRbase-0.5.0/gRbase/R/Graphsh-triangulate.R |only
gRbase-0.5.0/gRbase/data/breastcancer.txt |only
gRbase-0.5.0/gRbase/man/breastcancer.Rd |only
gRbase-0.5.0/gRbase/man/cad1.Rd |only
gRbase-0.5.0/gRbase/man/carcass.Rd |only
gRbase-0.5.0/gRbase/man/dietox.Rd |only
gRbase-0.5.0/gRbase/man/grash-operations.Rd |only
gRbase-0.5.0/gRbase/man/mathmark.Rd |only
gRbase-0.5.0/gRbase/man/rats.Rd |only
gRbase-0.5.0/gRbase/man/reinis.Rd |only
gRbase-0.5.0/gRbase/man/triang.Rd |only
gRbase-0.6.0/gRbase/ChangeLog | 6 ++++++
gRbase-0.6.0/gRbase/DESCRIPTION | 4 ++--
gRbase-0.6.0/gRbase/INDEX | 6 +++---
gRbase-0.6.0/gRbase/R/Graphsh-mcs-moral-rip.R | 6 +++---
gRbase-0.6.0/gRbase/R/Graphsh-triangulateXXX.R |only
gRbase-0.6.0/gRbase/R/TabOpArray.R |only
gRbase-0.6.0/gRbase/R/table-operations.R | 2 +-
gRbase-0.6.0/gRbase/inst/doc/gRbase.pdf |binary
gRbase-0.6.0/gRbase/man/DATA-cad1.Rd |only
gRbase-0.6.0/gRbase/man/DATA-carcass.Rd |only
gRbase-0.6.0/gRbase/man/DATA-dietox.Rd |only
gRbase-0.6.0/gRbase/man/DATA-mathmark.Rd |only
gRbase-0.6.0/gRbase/man/DATA-rats.Rd |only
gRbase-0.6.0/gRbase/man/DATA-reinis.Rd |only
gRbase-0.6.0/gRbase/man/gRbase-internal.Rd | 16 +++++++++++++++-
gRbase-0.6.0/gRbase/man/graph-operations.Rd |only
gRbase-0.6.0/gRbase/man/ptable.Rd |only
gRbase-0.6.0/gRbase/man/triangulate.Rd |only
gRbase-0.6.0/gRbase/src/triangmcwh.c |only
30 files changed, 30 insertions(+), 10 deletions(-)
Author: Katharine M. Mullen, Sergey Laptenok, David Nicolaides, Ivo H. M. van Stokkum
Title: a problem solving environment for fitting separable nonlinear models in physics and chemistry applications
Description: TIMP is a problem solving environment for fitting separable nonlinear models to measurements arising in physics and chemistry experiments, and has been extensively applied to time-resolved spectroscopy and FLIM-FRET data.
Diff between TIMP versions 1.7 dated 2008-08-22 and 1.8 dated 2008-10-13
TIMP-1.7/TIMP/tests/4_6_uw0 |only TIMP-1.7/TIMP/tests/6966_10_11.ivom |only TIMP-1.7/TIMP/tests/C015_016.ivom |only TIMP-1.7/TIMP/tests/C017_018.ivom |only TIMP-1.7/TIMP/tests/FLIM_multidataset.R |only TIMP-1.7/TIMP/tests/_paramEst.txt |only TIMP-1.7/TIMP/tests/_selectedtraces.ps |only TIMP-1.7/TIMP/tests/_summary.ps |only TIMP-1.7/TIMP/tests/c-001 |only TIMP-1.7/TIMP/tests/c-002 |only TIMP-1.7/TIMP/tests/c-003 |only TIMP-1.7/TIMP/tests/c-004 |only TIMP-1.7/TIMP/tests/c-005 |only TIMP-1.7/TIMP/tests/memory_prof_pvarpro.R |only TIMP-1.7/TIMP/tests/nnls_example.R |only TIMP-1.7/TIMP/tests/num_conv_FLIM_script.R |only TIMP-1.7/TIMP/tests/psi_1.txt |only TIMP-1.7/TIMP/tests/psi_2.txt |only TIMP-1.7/TIMP/tests/target_with_data_correction.Rt |only TIMP-1.7/TIMP/tests/xtetoh_256_060822-bg_int_shift |only TIMP-1.7/TIMP/tests/xtoh_256.txt |only TIMP-1.8/TIMP/DESCRIPTION | 8 TIMP-1.8/TIMP/NAMESPACE | 2 TIMP-1.8/TIMP/R/calcD.R |only TIMP-1.8/TIMP/R/calcEhiergaus.R | 5 TIMP-1.8/TIMP/R/compModel.R | 18 TIMP-1.8/TIMP/R/compModelMass.R | 1 TIMP-1.8/TIMP/R/diffAdd.R | 2 TIMP-1.8/TIMP/R/diffRel.R | 2 TIMP-1.8/TIMP/R/getKinConcen.R | 7 TIMP-1.8/TIMP/R/getPrelBetweenDatasets.R | 9 TIMP-1.8/TIMP/R/getResults.R | 77 +++ TIMP-1.8/TIMP/R/getXList.R | 15 TIMP-1.8/TIMP/R/init.dat.R | 11 TIMP-1.8/TIMP/R/plotFLIM.R | 35 + TIMP-1.8/TIMP/R/set_getClpindepX_kin.R | 6 TIMP-1.8/TIMP/R/set_initModelClass_kin.R | 8 TIMP-1.8/TIMP/R/set_plotter_kin.R | 9 TIMP-1.8/TIMP/R/weightNL.R | 13 TIMP-1.8/TIMP/Rplots.pdf | 6 TIMP-1.8/TIMP/data |only TIMP-1.8/TIMP/man/FLIMplots.Rd | 137 ++++++ TIMP-1.8/TIMP/man/dat-class.Rd | 2 TIMP-1.8/TIMP/man/denS4.Rd |only TIMP-1.8/TIMP/man/divergeZimage.Rd | 13 TIMP-1.8/TIMP/man/donorAcceptorTagged.Rd |only TIMP-1.8/TIMP/man/donorTagged.Rd |only TIMP-1.8/TIMP/man/examineFit.Rd | 6 TIMP-1.8/TIMP/man/fitModel.Rd | 70 ++- TIMP-1.8/TIMP/man/getResid.Rd | 4 TIMP-1.8/TIMP/man/getResults.Rd | 166 +++++++- TIMP-1.8/TIMP/man/initModel.Rd | 95 ++++ TIMP-1.8/TIMP/man/internals.Rd | 1 TIMP-1.8/TIMP/man/kin-class.Rd | 417 +++++++++++++-------- TIMP-1.8/TIMP/man/mass-class.Rd | 2 TIMP-1.8/TIMP/man/mea_IRF.Rd |only TIMP-1.8/TIMP/man/preProcess.Rd | 157 +++++++ TIMP-1.8/TIMP/man/residPart.Rd | 4 TIMP-1.8/TIMP/man/target.Rd |only 59 files changed, 1064 insertions(+), 244 deletions(-)
Author: Markus Gesmann
Title: Mack-, Bootstrap and Munich-chain-ladder methods for insurance claims reserving
Description: The package contains the Mack-, Munich-, and Bootstrap chain-ladder methods which are used in insurance claims reserving exercise.
Diff between ChainLadder versions 0.1.1-5 dated 2008-05-19 and 0.1.2-5 dated 2008-10-13
ChainLadder-0.1.1-5/ChainLadder/inst/Experimental/BootstrapReserve.R |only ChainLadder-0.1.2-5/ChainLadder/ChangeLog | 88 + ChainLadder-0.1.2-5/ChainLadder/DESCRIPTION | 12 ChainLadder-0.1.2-5/ChainLadder/NAMESPACE | 12 ChainLadder-0.1.2-5/ChainLadder/NEWS |only ChainLadder-0.1.2-5/ChainLadder/R/BootstrapReserve.R |only ChainLadder-0.1.2-5/ChainLadder/R/ChainLadder.R |only ChainLadder-0.1.2-5/ChainLadder/R/MackChainLadderFunctions.R | 547 +++++----- ChainLadder-0.1.2-5/ChainLadder/R/MunichChainLadderFunctions.R | 383 ++++--- ChainLadder-0.1.2-5/ChainLadder/R/zzz.R |only ChainLadder-0.1.2-5/ChainLadder/THANKS |only ChainLadder-0.1.2-5/ChainLadder/data/ABC.RData |only ChainLadder-0.1.2-5/ChainLadder/data/qincurred.RData |only ChainLadder-0.1.2-5/ChainLadder/data/qpaid.RData |only ChainLadder-0.1.2-5/ChainLadder/inst/Excel/ChainLadder_in_Excel.xls |binary ChainLadder-0.1.2-5/ChainLadder/inst/Images |only ChainLadder-0.1.2-5/ChainLadder/inst/doc |only ChainLadder-0.1.2-5/ChainLadder/man/ABC.Rd |only ChainLadder-0.1.2-5/ChainLadder/man/BootChainLadder.Rd |only ChainLadder-0.1.2-5/ChainLadder/man/ChainLadder-package.Rd | 47 ChainLadder-0.1.2-5/ChainLadder/man/GenIns.Rd | 10 ChainLadder-0.1.2-5/ChainLadder/man/MCLpaid.Rd | 11 ChainLadder-0.1.2-5/ChainLadder/man/MackChainLadder.Rd | 198 ++- ChainLadder-0.1.2-5/ChainLadder/man/Mortgage.Rd | 10 ChainLadder-0.1.2-5/ChainLadder/man/MunichChainLadder.Rd | 115 +- ChainLadder-0.1.2-5/ChainLadder/man/RAA.Rd | 21 ChainLadder-0.1.2-5/ChainLadder/man/plot.BootChainLadder.Rd |only ChainLadder-0.1.2-5/ChainLadder/man/plot.MackChainLadder.Rd |only ChainLadder-0.1.2-5/ChainLadder/man/plot.MunichChainLadder.Rd |only ChainLadder-0.1.2-5/ChainLadder/man/predict.TriangleModel.Rd | 2 ChainLadder-0.1.2-5/ChainLadder/man/qpaid.rd |only ChainLadder-0.1.2-5/ChainLadder/man/residuals.MackChainLadder.Rd | 2 ChainLadder-0.1.2-5/ChainLadder/man/summary.BootChainLadder.Rd |only ChainLadder-0.1.2-5/ChainLadder/man/summary.MackChainLadder.Rd |only ChainLadder-0.1.2-5/ChainLadder/man/summary.MunichChainLadder.Rd |only 35 files changed, 887 insertions(+), 571 deletions(-)
Author: Roger Koenker
Diff between quantreg versions 4.22 dated 2008-10-05 and 4.23 dated 2008-10-12
Title: Quantile Regression
Description: Quantile regression and related methods.
DESCRIPTION | 4
R/crq.R | 12 -
R/quantreg.R | 73 +++++++--
demo/00Index | 2
demo/predemo.R |only
inst/ChangeLog | 20 ++
inst/doc/Rplots.pdf | 4
inst/doc/rq.pdf | 384 ++++++++++++++++++++++++++--------------------------
man/crq.Rd | 5
man/predict.rq.Rd | 47 ++++--
src/cholesky.c | 1
11 files changed, 317 insertions(+), 235 deletions(-)
Author: Luca Scrucca
Diff between qcc versions 1.2 dated 2007-01-05 and 1.3 dated 2008-10-12
Title: Quality Control Charts
Description: Shewhart quality control charts for continuous, attribute and
count data. Cusum and EWMA charts. Operating characteristic
curves. Process capability analysis. Pareto chart and
cause-and-effect chart.
CHANGES | 17 ++++
DESCRIPTION | 8 -
INDEX | 4
R/qcc.R | 160 ++++++++++++++++++++++++--------------
R/spc.g.R | 6 -
man/oc.curves.Rd | 3
man/process.capability.Rd | 1
man/process.capability.sixpack.Rd | 1
man/qcc.Rd | 9 +-
man/stats.R.Rd | 5 -
man/stats.S.Rd | 5 -
man/stats.c.Rd | 3
man/stats.g.Rd | 3
man/stats.np.Rd | 3
man/stats.p.Rd | 3
man/stats.u.Rd | 3
man/stats.xbar.Rd | 35 +++++++-
man/stats.xbar.one.Rd | 2
18 files changed, 183 insertions(+), 88 deletions(-)
Author: Simon Jackman, with contributions from
Alex Tahk, Achim Zeileis, Christina Maimone and Jim Fearon
Title: Political Science Computational Laboratory, Stanford University
Description: Bayesian analysis of item-response theory (IRT) models, roll call analysis;
computing highest density regions; maximum likelihood estimation of
zero-inflated and hurdle models for count data; goodness-of-fit measures for
GLMs; data sets used in writing and teaching at the Political Science
Computational Laboratory; seats-votes curves.
Diff between pscl versions 1.00 dated 2008-07-18 and 1.01 dated 2008-10-12
DESCRIPTION | 6 +++--- HISTORY | 3 +++ R/ideal.r | 10 +++++++--- R/predict.ideal.r | 2 +- data/EfronMorris.rda |only data/RockTheVote.rda |only inst/doc/auto/countreg.el | 17 ++++++----------- inst/doc/countreg.pdf |binary man/EfronMorris.Rd |only man/RockTheVote.Rd |only man/hurdle.control.Rd | 16 ++++++++++++---- man/plot.predict.ideal.Rd | 4 ++-- 12 files changed, 34 insertions(+), 24 deletions(-)
Author: Deepayan Sarkar
Diff between latticeExtra versions 0.5-2 dated 2008-09-05 and 0.5-3 dated 2008-10-12
Title: Extra Graphical Utilities Based on Lattice
Description: Extra graphical utilities based on lattice
DESCRIPTION | 6 -
NAMESPACE | 4 -
R/c.trellis.R | 11 ++-
R/layer.R | 181 ++++++++++++++++++++++++++++++++++++++++++++++++--
R/marginal.plot.R | 116 +++++++++++++++++++-------------
R/tileplot.R | 57 ++++++++++-----
inst/NEWS | 14 +++
man/as.layer.Rd |only
man/c.trellis.Rd | 17 ++--
man/dendrogramGrob.Rd | 2
man/layer.Rd | 11 +--
man/marginal.plot.Rd | 35 ++++++---
man/panel.voronoi.Rd | 10 ++
man/tileplot.Rd | 2
14 files changed, 360 insertions(+), 106 deletions(-)
Author: Anthony Lehmann (anthony.lehmann@unige.ch), Fabien Fivaz (fabien.fivaz@unine.ch), John Leathwick and Jake Overton, with contributions from many specialists from around the world
Title: Generalized Regression Analysis and Spatial Prediction for R
Description: GRASP is a general method for making spatial predictions of response variables (RV) using point surveys of the RV and spatial coverages of Predictor variables (PV). Originally, GRASP was developed to analyse, model and predict vegetation distribution over New Zealand. It has been used in all sorts of applications since then. (A. Lehmann, J.R. Leathwick & J.McC. Overton, 2002. GRASP. Ecological Modelling, 157: 189-207)
Diff between grasp versions 2.5-5 dated 2008-09-18 and 2.5-7 dated 2008-10-12
DESCRIPTION | 10 +++++----- R/grasp.exp.datamap.R | 2 +- R/grasp.exp.distry.R | 2 +- R/grasp.exp.histo.R | 2 +- R/grasp.exp.xpredplot.R | 2 +- R/grasp.int.contplot.R | 2 +- R/grasp.int.plot.R | 2 +- R/grasp.int.response.R | 2 +- R/grasp.mod.validate.R | 2 +- R/grasp.pred.plot.R | 2 +- R/grasp.step.crossplot.R | 2 +- 11 files changed, 15 insertions(+), 15 deletions(-)
Author: Rajarshi Guha
Diff between fingerprint versions 2.8.1 dated 2008-07-28 and 2.9 dated 2008-10-12
Title: Functions to operate on binary fingerprint data
Description: This package contains functions to manipulate binary fingerprints
of arbitrary length. A fingerprint is represented by an object of S4 class 'fingerprint'
which is internally represented a vector of integers, such
that each element represents the position in the fingerprint that is set to 1.
The bitwise logical functions in R are overridden so that they can be used directly
with 'fingerprint' objects. A number of distance metrics are also
available (many contributed by Michael Fadock). Fingerprints
can be converted to Euclidean vectors (i.e., points on the unit hypersphere) and
can also be folded using OR. Arbitrary fingerprint formats can be handled via line
handlers. Currently handlers are provided for CDK, MOE and BCI fingerprint data.
DESCRIPTION | 6 +++---
INDEX | 26 +++++++++++++++++++-------
NAMESPACE | 1 +
R/misc.R | 37 ++++++++++++++++++++++++++++++++-----
src |only
5 files changed, 55 insertions(+), 15 deletions(-)
Author: Peter Ruckdeschel, Matthias Kohl, Anja Hueller, Eleonara Feist
Title: Extensions of package distr for teaching Stochastics/Statistics in secondary school
Description: Extensions of package distr and some additional functionality
Diff between distrTeach versions 2.0 dated 2008-09-12 and 2.0.1 dated 2008-10-12
DESCRIPTION | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-)
Author: Florian Camphausen, Matthias Kohl, Peter Ruckdeschel, Thomas Stabla
Title: Simulation classes based on package distr
Description: Simulation (S4-)classes based on package distr
Diff between distrSim versions 2.0 dated 2008-09-12 and 2.0.1 dated 2008-10-12
DESCRIPTION | 6 +-- R/Data-Class.R | 87 +++++++++++++++++++++++++++++++++++----------------- R/plot-methods.R | 61 ++++++++++++++++++++++++++++-------- man/Dataclass.Rd | 4 ++ man/plot-methods.Rd | 20 +++++------ 5 files changed, 124 insertions(+), 54 deletions(-)
Author: Florian Camphausen, Matthias Kohl, Peter Ruckdeschel, Thomas Stabla
Title: Estimation and Testing classes based on package distr
Description: Evaluation (S4-)classes based on package distr for evaluating
procedures (estimators/tests) at data/simulation in a unified way.
Diff between distrTEst versions 2.0 dated 2008-09-12 and 2.0.1 dated 2008-10-12
DESCRIPTION | 6 +++--- R/plot-methods.R | 8 ++++---- man/plot-methods.Rd | 8 ++++---- 3 files changed, 11 insertions(+), 11 deletions(-)
Author: Matthias Kohl, Peter Ruckdeschel
Title: Object orientated implementation of probability models
Description: Object orientated implementation of probability models based on packages 'distr' and 'distrEx'
Diff between distrMod versions 2.0 dated 2008-09-14 and 2.0.1 dated 2008-10-12
DESCRIPTION | 6 +++--- R/AllPlot.R | 39 +++++++++++++++++++++++++++++---------- 2 files changed, 32 insertions(+), 13 deletions(-)
Author: Matthias Kohl, Peter Ruckdeschel
Title: Extensions of package distr
Description: Extensions of package distr and some additional functionality
Diff between distrEx versions 2.0 dated 2008-09-12 and 2.0.1 dated 2008-10-12
DESCRIPTION | 6 +++--- R/AllPlot.R | 8 ++++---- man/plot-methods.Rd |only 3 files changed, 7 insertions(+), 7 deletions(-)
Author: Florian Camphausen, Matthias Kohl, Peter Ruckdeschel, Thomas Stabla
Title: Documentation for packages distr, distrEx, distrSim, distrTEst
Description: provides documentation in form of a common vignette to packages distr, distrEx, distrMod, distrSim, distrTEst
Diff between distrDoc versions 2.0 dated 2008-09-15 and 2.0.1 dated 2008-10-12
DESCRIPTION | 6 inst/doc/distr.Rnw | 35 inst/doc/distr.pdf |13475 +++++++++++++++++++++++++++++++---------------------- 3 files changed, 8153 insertions(+), 5363 deletions(-)
Author: Florian Camphausen, Matthias Kohl, Peter Ruckdeschel, Thomas Stabla
Title: Object orientated implementation of distributions
Description: Object orientated implementation of distributions
Diff between distr versions 2.0 dated 2008-09-12 and 2.0.1 dated 2008-10-12
DESCRIPTION | 6 +- R/ExtraConvolutionMethods.R | 49 +++++++++++++++++++ R/internalUtils.R | 20 +++++++ R/plot-methods.R | 12 ++-- R/plot-methods_LebDec.R | 17 +++--- R/print-show-methods.R | 112 ++++++++++++++++++-------------------------- inst/doc |only man/0distr-package.Rd | 9 ++- man/Binom-class.Rd | 50 ++++++++++++------- man/BinomParameter-class.Rd | 32 +++++++----- man/internals.Rd | 7 ++ man/operators-methods.Rd | 11 +++- man/plot-methods.Rd | 32 ++++++------ man/print-methods.Rd | 1 man/showobj-methods.Rd | 10 ++- 15 files changed, 233 insertions(+), 135 deletions(-)
Author: Jan de Leeuw, Patrick Mair
Title: Simple and Canonical Correspondence Analysis.
Description: This package performs simple correspondence analysis (CA) on a two-way frequency table (with missings) by means of SVD. Different scaling methods (standard, centroid, Benzecri, Goodman) as well as various plots including confidence ellipsoids are provided.
Diff between anacor versions 0.9-2 dated 2008-04-04 and 0.9-4 dated 2008-10-12
anacor-0.9-2/anacor/inst/doc/anacor.aux |only anacor-0.9-2/anacor/inst/doc/anacor.log |only anacor-0.9-2/anacor/inst/doc/anacor.out |only anacor-0.9-2/anacor/inst/doc/anacor.tex |only anacor-0.9-4/anacor/DESCRIPTION | 7 ++++--- anacor-0.9-4/anacor/R/plot.anacor.R | 7 ++++--- anacor-0.9-4/anacor/inst/doc/anacor.pdf |binary anacor-0.9-4/anacor/man/anacor-package.Rd | 4 ++-- 8 files changed, 10 insertions(+), 8 deletions(-)
Author: Matthias Kohl, Peter Ruckdeschel
Title: Robust Asymptotic Statistics
Description: Base S4-classes and functions for robust asymptotic statistics.
Diff between RobAStBase versions 0.1.0 dated 2008-09-15 and 0.1.1 dated 2008-10-12
DESCRIPTION | 6 +-- R/AllGeneric.R | 2 - R/AllPlot.R | 42 ++++++++++++++++++++----- R/comparePlot.R | 46 ++++++++++++++++++++++++---- R/infoPlot.R | 91 ++++++++++++++++++++++++++++++++++++++++++-------------- man/infoPlot.Rd | 3 + 6 files changed, 148 insertions(+), 42 deletions(-)
Author: Matthias Kohl
Title: Implementation of random variables
Description: Implementation of random variables by means
of S4 classes and methods
Diff between RandVar versions 0.6.3 dated 2008-09-14 and 0.6.4 dated 2008-10-12
DESCRIPTION | 6 +++--- R/util.R | 2 +- inst/doc/RandVar.pdf |binary 3 files changed, 4 insertions(+), 4 deletions(-)
Author: Peter Carl, Brian G. Peterson
Title: Econometric tools for performance and risk analysis.
Description: Library of econometric functions for performance and risk analysis. This library aims to aid practitioners and researchers in utilizing the latest research in analysis of non-normal return streams. In general, this library is most tested on return (rather than price) data on a monthly scale, but most functions will work with daily or irregular return data as well.
Diff between PerformanceAnalytics versions 0.9.7 dated 2008-09-30 and 0.9.7.1 dated 2008-10-12
ChangeLog | 2611 +++++----- DESCRIPTION | 10 R/DownsideDeviation.R | 9 R/UpsidePotentialRatio.R | 27 R/chart.TimeSeries.R | 35 generatechangelog.sh | 2 inst/doc/PA-charts.pdf |binary inst/doc/PerformanceAnalyticsChartsPresentation-Meielisalp-2007.pdf |binary inst/doc/PerformanceAnalyticsPresentation-UseR-2007.pdf |binary man/CoMoments.Rd | 2 man/DownsideDeviation.Rd | 8 man/PerformanceAnalytics-package.Rd | 105 man/UpsidePotentialRatio.Rd | 9 man/centeredmoments.Rd | 4 man/clean.boudt.Rd | 7 15 files changed, 1557 insertions(+), 1272 deletions(-)
More information about PerformanceAnalytics at CRAN
Permanent link
Author: Patrick T. Brandt
Diff between MSBVAR versions 0.3.1 dated 2007-10-24 and 0.3.2 dated 2008-10-12
Title: Markov-Switching Bayesian Vector Autoregression Models
Description: Provides methods for estimating frequentist and
Bayesian Vector Autoregression (VAR) models. Functions for reduced
form and structural VAR models are also available. Includes
methods for the generating posterior inferences for VAR
forecasts, impulse responses (using likelihood-based error bands),
and forecast error decompositions. Also includes utility functions
for plotting forecasts and impulse responses, and generating draws
from Wishart and singular multivariate normal densities. Future
versions will include some models with Markov switching.
DESCRIPTION | 10 +--
INDEX | 2
R/forecast.R | 19 ++----
R/mc.irf.R | 134 +++++----------------------------------------
R/sanity.R | 30 ++++++----
R/szbsvar.R | 14 +++-
R/zzz.R | 8 +-
README | 37 +++++++++---
man/A02mcmc.Rd | 4 -
man/SZ.prior.evaluation.Rd | 6 +-
man/cf.forecasts.Rd | 4 -
man/decay.spec.Rd | 2
man/dfev.Rd | 3 -
man/forc.ecdf.Rd | 9 +--
man/gibbs.A0.Rd | 3 -
man/hc.forecast.Rd | 2
man/mae.Rd | 2
man/mcmc.szbsvar.Rd | 2
man/normalize.svar.Rd | 3 -
man/null.space.Rd | 7 +-
man/plot.forc.ecdf.Rd | 4 -
man/plot.forecast.Rd | 8 +-
man/plot.gibbs.A0.Rd | 2
man/plot.mc.irf.Rd | 11 ++-
man/print.dfev.Rd | 5 -
man/print.posterior.fit.Rd | 4 -
man/reduced.form.var.Rd | 2
man/restmtx.Rd | 3 -
man/rmse.Rd | 4 -
man/rmultnorm.Rd | 2
man/rwishart.Rd | 5 -
man/summary.Rd | 3 -
man/szbsvar.Rd | 2
man/uc.forecast.Rd | 2
src/irf_var.cpp | 2
35 files changed, 140 insertions(+), 220 deletions(-)
Author: Yves Aragon, Thibault Laurent, Lauriane Robidou, Anne Ruiz-Gazen, Christine Thomas-Agnan
Title: Interactive exploratory spatial data analysis
Description: GeoXp is a tool for researchers in spatial statistics, spatial econometrics, geography, ecology etc allowing to link dynamically statistical plots with elementary maps. This coupling consists in the fact that the selection of a zone on the map results in the automatic highlighting of the corresponding points on the statistical graph or reversely the selection of a portion of the graph results in the automatic highlighting of the corresponding points on the map. GeoXp includes tools from different areas of spatial statistics including geostatistics as well as spatial econometrics and point processes. Besides elementary plots like boxplots, histograms or simple scatterplos, GeoXp also couples with maps Moran scatterplots, variogram cloud, Lorentz Curves,...In order to make the most of the multidimensionality of the data, GeoXp includes some dimension reduction techniques such as PCA.
Diff between GeoXp versions 1.2 dated 2008-01-24 and 1.3 dated 2008-10-12
GeoXp-1.2/GeoXp/R/findneighbors.R |only GeoXp-1.2/GeoXp/R/makedistancew.R |only GeoXp-1.2/GeoXp/R/map2list.R |only GeoXp-1.2/GeoXp/data/afcon.rda |only GeoXp-1.2/GeoXp/data/auck.polys.rda |only GeoXp-1.2/GeoXp/data/auckland.rda |only GeoXp-1.2/GeoXp/data/baltimore.rda |only GeoXp-1.2/GeoXp/data/boston.rda |only GeoXp-1.2/GeoXp/data/eire.polys.rda |only GeoXp-1.2/GeoXp/data/eire.rda |only GeoXp-1.2/GeoXp/data/meuse.all.rda |only GeoXp-1.2/GeoXp/data/meuse.riv.rda |only GeoXp-1.2/GeoXp/data/oldcol.polys.rda |only GeoXp-1.2/GeoXp/data/oldcol.rda |only GeoXp-1.2/GeoXp/man/afcon.Rd |only GeoXp-1.2/GeoXp/man/auck.polys.Rd |only GeoXp-1.2/GeoXp/man/auckland.Rd |only GeoXp-1.2/GeoXp/man/baltimore.Rd |only GeoXp-1.2/GeoXp/man/boston.Rd |only GeoXp-1.2/GeoXp/man/eire.Rd |only GeoXp-1.2/GeoXp/man/eire.polys.Rd |only GeoXp-1.2/GeoXp/man/findneighbors.Rd |only GeoXp-1.2/GeoXp/man/makedistancew.Rd |only GeoXp-1.2/GeoXp/man/map2list.Rd |only GeoXp-1.2/GeoXp/man/meuse.all.Rd |only GeoXp-1.2/GeoXp/man/meuse.riv.Rd |only GeoXp-1.2/GeoXp/man/oldcol.Rd |only GeoXp-1.2/GeoXp/man/oldcol.polys.Rd |only GeoXp-1.3/GeoXp/DESCRIPTION | 12 GeoXp-1.3/GeoXp/R/angleplotmap.R | 367 +----- GeoXp-1.3/GeoXp/R/barmap.R | 450 ++----- GeoXp-1.3/GeoXp/R/barnbmap.r |only GeoXp-1.3/GeoXp/R/boxplotmap.R | 633 ++--------- GeoXp-1.3/GeoXp/R/carte.R | 501 +++----- GeoXp-1.3/GeoXp/R/choix.bubble.r |only GeoXp-1.3/GeoXp/R/choix.couleur.r |only GeoXp-1.3/GeoXp/R/choixvarfunc.r |only GeoXp-1.3/GeoXp/R/clustermap.R | 593 +++------- GeoXp-1.3/GeoXp/R/dbledensitymap.R | 1120 +++++++------------ GeoXp-1.3/GeoXp/R/dblehistomap.R | 774 +++---------- GeoXp-1.3/GeoXp/R/densitymap.R | 878 ++++----------- GeoXp-1.3/GeoXp/R/driftmap.R | 630 +++++++---- GeoXp-1.3/GeoXp/R/genpca.R | 73 - GeoXp-1.3/GeoXp/R/gini.R | 55 GeoXp-1.3/GeoXp/R/ginimap.R | 695 +++--------- GeoXp-1.3/GeoXp/R/graphique.R | 1923 +++++++++++++++------------------- GeoXp-1.3/GeoXp/R/histnbmap.r |only GeoXp-1.3/GeoXp/R/histobarmap.R | 596 ++++------ GeoXp-1.3/GeoXp/R/histomap.R | 732 +++--------- GeoXp-1.3/GeoXp/R/makeneighborsw.R | 101 + GeoXp-1.3/GeoXp/R/moranplotmap.R | 842 +++++--------- GeoXp-1.3/GeoXp/R/neighbourmap.R | 502 +++----- GeoXp-1.3/GeoXp/R/nonormmoran.R | 54 GeoXp-1.3/GeoXp/R/normw.R | 22 GeoXp-1.3/GeoXp/R/pcamap.R | 769 +++---------- GeoXp-1.3/GeoXp/R/plot3dmap.r |only GeoXp-1.3/GeoXp/R/polyboxplotmap.R | 698 ++++-------- GeoXp-1.3/GeoXp/R/polylist2list.R | 24 GeoXp-1.3/GeoXp/R/rotation.R | 11 GeoXp-1.3/GeoXp/R/scattermap.R | 754 +++---------- GeoXp-1.3/GeoXp/R/selectgraph.R | 186 +-- GeoXp-1.3/GeoXp/R/selectmap.R | 82 - GeoXp-1.3/GeoXp/R/selectstat.R | 447 +++---- GeoXp-1.3/GeoXp/R/slider1.R | 41 GeoXp-1.3/GeoXp/R/slider2.R | 35 GeoXp-1.3/GeoXp/R/spdf2list.R | 43 GeoXp-1.3/GeoXp/R/variocloudmap.R | 586 +++------- GeoXp-1.3/GeoXp/inst/doc |only GeoXp-1.3/GeoXp/man/GeoXp-package.Rd | 11 GeoXp-1.3/GeoXp/man/angleplotmap.Rd | 40 GeoXp-1.3/GeoXp/man/barmap.Rd | 50 GeoXp-1.3/GeoXp/man/barnbmap.rd |only GeoXp-1.3/GeoXp/man/boxplotmap.Rd | 47 GeoXp-1.3/GeoXp/man/carte.Rd | 28 GeoXp-1.3/GeoXp/man/choix.bubble.rd |only GeoXp-1.3/GeoXp/man/choix.couleur.rd |only GeoXp-1.3/GeoXp/man/choixvarfunc.rd |only GeoXp-1.3/GeoXp/man/clustermap.Rd | 44 GeoXp-1.3/GeoXp/man/dbledensitymap.Rd | 52 GeoXp-1.3/GeoXp/man/dblehistomap.Rd | 48 GeoXp-1.3/GeoXp/man/densitymap.Rd | 45 GeoXp-1.3/GeoXp/man/driftmap.Rd | 74 - GeoXp-1.3/GeoXp/man/genpca.Rd | 4 GeoXp-1.3/GeoXp/man/ginimap.Rd | 31 GeoXp-1.3/GeoXp/man/graphique.Rd | 25 GeoXp-1.3/GeoXp/man/histnbmap.rd |only GeoXp-1.3/GeoXp/man/histobarmap.Rd | 48 GeoXp-1.3/GeoXp/man/histomap.Rd | 49 GeoXp-1.3/GeoXp/man/immob.Rd | 2 GeoXp-1.3/GeoXp/man/makeneighborsw.Rd | 39 GeoXp-1.3/GeoXp/man/moranplotmap.Rd | 53 GeoXp-1.3/GeoXp/man/neighbourmap.Rd | 49 GeoXp-1.3/GeoXp/man/nonormmoran.Rd | 19 GeoXp-1.3/GeoXp/man/normw.Rd | 10 GeoXp-1.3/GeoXp/man/pcamap.Rd | 51 GeoXp-1.3/GeoXp/man/plot3dmap.rd |only GeoXp-1.3/GeoXp/man/polyboxplotmap.Rd | 44 GeoXp-1.3/GeoXp/man/polylist2list.Rd | 6 GeoXp-1.3/GeoXp/man/scattermap.Rd | 53 GeoXp-1.3/GeoXp/man/spdf2list.Rd | 2 GeoXp-1.3/GeoXp/man/variocloudmap.Rd | 29 101 files changed, 6042 insertions(+), 10140 deletions(-)
Author: Matthieu Lesnoff
Diff between aod versions 1.1-28 dated 2008-10-10 and 1.1-29 dated 2008-10-10
Title: Analysis of Overdispersed Data
Description: This package provides a set of functions to analyse overdispersed counts or proportions. Most of the methods are already available elsewhere but are scattered in different packages. The proposed functions should be considered as complements to more sophisticated methods such as generalized estimating equations (GEE) or generalized linear mixed effect models (GLMM).
DESCRIPTION | 4 ++--
R/predict.R | 2 +-
inst/doc/CHANGES | 2 +-
3 files changed, 4 insertions(+), 4 deletions(-)
Author: Oscar Rueda
Diff between RJaCGH versions 1.5.5 dated 2008-09-11 and 1.5.6 dated 2008-10-10
Title: Reversible Jump MCMC for the analysis of CGH arrays.
Description: Bayesian analysis of CGH microarrays fitting Hidden Markov Chain models.
The selection of the number of states is made via their posterior probability
computed by Reversible Jump Markov Chain Monte Carlo Methods. Also
returns probabilistic common regions for gains/losses.
Changes | 6 +-
DESCRIPTION | 8 +--
R/RJaCGH.R | 84 ++++++++++++++++++------------------
inst/doc/Implementing_pREC_in_C.pdf |binary
man/RJaCGH.Rd | 5 +-
man/relabelStates.Rd | 13 +++--
6 files changed, 61 insertions(+), 55 deletions(-)
Author: Juha Karvanen
Title: Independent component analysis using score functions from the Pearson system
Description: The Pearson-ICA algorithm is a mutual information-based method for blind separation of statistically independent source signals.
It has been shown that the minimization of mutual information leads to iterative use of score functions, i.e. derivatives of log densities.
The Pearson system allows adaptive modeling of score functions. The flexibility of the Pearson system makes it possible to model a wide range
of source distributions including asymmetric distributions. The algorithm is designed especially for problems with asymmetric sources
but it works for symmetric sources as well.
Diff between PearsonICA versions 1.2-2 dated 2006-06-29 and 1.2-3 dated 2008-10-10
DESCRIPTION | 6 +++--- R/PearsonICA.R | 8 ++++---- inst/CITATION | 6 +++--- 3 files changed, 10 insertions(+), 10 deletions(-)
Author: Rob J Hyndman
Diff between forecasting versions 1.16 dated 2008-09-29 and 1.17 dated 2008-10-10
Bundle: forecasting
Contains: forecast fma Mcomp expsmooth
DESCRIPTION | 6 +++---
forecast/NAMESPACE | 3 +++
forecast/R/arima.R | 6 +++---
forecast/R/newarima2.R | 7 ++++---
forecast/R/tsdiag.R |only
5 files changed, 13 insertions(+), 9 deletions(-)
Author: Matthieu Lesnoff
Diff between aod versions 1.1-27 dated 2008-08-26 and 1.1-28 dated 2008-10-10
Title: Analysis of Overdispersed Data
Description: This package provides a set of functions to analyse overdispersed counts or proportions. Most of the methods are already available elsewhere but are scattered in different packages. The proposed functions should be considered as complements to more sophisticated methods such as generalized estimating equations (GEE) or generalized linear mixed effect models (GLMM).
DESCRIPTION | 6 +++---
R/predict.R | 2 +-
inst/doc/CHANGES | 10 ++++++++++
man/predict.Rd | 9 +++------
4 files changed, 17 insertions(+), 10 deletions(-)
Author: Charles Kooperberg
Diff between LogicReg versions 1.4.7 dated 2007-10-07 and 1.4.8 dated 2008-10-10
Title: Logic Regression
Description: Routines for Logic Regression
DESCRIPTION | 4 ++--
R/LogicReg.R | 6 ++----
src/slogic.f | 2 +-
3 files changed, 5 insertions(+), 7 deletions(-)
Author: Emmanuel Paradis, Ben Bolker, Julien Claude, Hoa Sien Cuong,
Richard Desper, Benoit Durand, Julien Dutheil, Olivier Gascuel,
Gangolf Jobb, Christoph Heibl, Vincent Lefort, Jim Lemon,
Yvonnick Noel, Johan Nylander, Rainer Opgen-Rhein, Korbinian Strimmer,
Damien de Vienne
Title: Analyses of Phylogenetics and Evolution
Description: ape provides functions for reading, writing, plotting,
and manipulating phylogenetic trees, analyses of comparative data
in a phylogenetic framework, analyses of diversification and
macroevolution, computing distances from allelic and nucleotide
data, reading nucleotide sequences, and several tools such as
Mantel's test, computation of minimum spanning tree, the population
parameter theta based on various approaches, nucleotide diversity,
generalized skyline plots, estimation of absolute evolutionary rates
and clock-like trees using mean path lengths, non-parametric rate
smoothing and penalized likelihood, classifying genes in trees using
the Klastorin-Misawa-Tajima approach. Phylogeny estimation can be done
with the NJ, BIONJ, ME, and ML methods.
Diff between ape versions 2.2-1 dated 2008-07-11 and 2.2-2 dated 2008-10-09
ape-2.2-1/ape/Changes |only ape-2.2-2/ape/ChangeLog |only ape-2.2-2/ape/DESCRIPTION | 8 +- ape-2.2-2/ape/R/DNA.R | 86 ++++++++++++++++-------- ape-2.2-2/ape/R/dist.gene.R | 69 ++++++++++--------- ape-2.2-2/ape/R/dist.topo.R | 3 ape-2.2-2/ape/R/mlphylo.R | 6 - ape-2.2-2/ape/R/phymltest.R | 123 ++++++++++++++--------------------- ape-2.2-2/ape/R/read.nexus.R | 18 ++--- ape-2.2-2/ape/data/bird.families.R | 99 ---------------------------- ape-2.2-2/ape/data/bird.families.tre |only ape-2.2-2/ape/data/bird.orders.R | 21 ----- ape-2.2-2/ape/data/bird.orders.tre |only ape-2.2-2/ape/data/chiroptera.rda |binary ape-2.2-2/ape/inst/doc/MoranI.pdf |binary ape-2.2-2/ape/man/DNAbin.Rd | 30 ++++++-- ape-2.2-2/ape/man/dist.gene.Rd | 33 ++++----- ape-2.2-2/ape/man/mcmc.popsize.Rd | 2 ape-2.2-2/ape/man/phymltest.Rd | 56 +++++++-------- ape-2.2-2/ape/man/rtree.Rd | 4 - ape-2.2-2/ape/man/sh.test.Rd | 7 - ape-2.2-2/ape/man/theta.s.Rd | 5 - 22 files changed, 246 insertions(+), 324 deletions(-)
Author: Robert B. Gramacy
Diff between tgp versions 2.1-2 dated 2008-04-18 and 2.1-3 dated 2008-10-09
Title: Bayesian treed Gaussian process models
Description: Bayesian nonstationary, semiparametric nonlinear regression
and design by treed Gaussian processes with jumps to the limiting
linear model (LLM). Special cases also implemented include Bayesian
linear models, CART, treed linear models, stationary separable and
isotropic Gaussian processes. Provides 1-d and 2-d plotting functions
(with projection and slice capabilities) and tree drawing, designed for
visualization of tgp-class output. Sensitivity analysis and
multi-resolution models are supported, and a limited set of experimental
design and adaptive sampling functions are also provided, including ALM,
ALC, and expected improvement.
tgp-2.1-2/tgp/src/._all_draws.c |only
tgp-2.1-2/tgp/src/._all_draws.h |only
tgp-2.1-2/tgp/src/._base.cc |only
tgp-2.1-2/tgp/src/._base.h |only
tgp-2.1-2/tgp/src/._bessel_k.c |only
tgp-2.1-2/tgp/src/._bessel_k.h |only
tgp-2.1-2/tgp/src/._corr.cc |only
tgp-2.1-2/tgp/src/._corr.h |only
tgp-2.1-2/tgp/src/._dopt.c |only
tgp-2.1-2/tgp/src/._dopt.h |only
tgp-2.1-2/tgp/src/._exp.cc |only
tgp-2.1-2/tgp/src/._exp.h |only
tgp-2.1-2/tgp/src/._exp_sep.cc |only
tgp-2.1-2/tgp/src/._exp_sep.h |only
tgp-2.1-2/tgp/src/._gen_covar.c |only
tgp-2.1-2/tgp/src/._gen_covar.h |only
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tgp-2.1-2/tgp/src/._lik_post.c |only
tgp-2.1-2/tgp/src/._lik_post.h |only
tgp-2.1-2/tgp/src/._linalg.c |only
tgp-2.1-2/tgp/src/._linalg.h |only
tgp-2.1-2/tgp/src/._list.cc |only
tgp-2.1-2/tgp/src/._list.h |only
tgp-2.1-2/tgp/src/._matern.cc |only
tgp-2.1-2/tgp/src/._matern.h |only
tgp-2.1-2/tgp/src/._matrix.c |only
tgp-2.1-2/tgp/src/._matrix.h |only
tgp-2.1-2/tgp/src/._model.cc |only
tgp-2.1-2/tgp/src/._model.h |only
tgp-2.1-2/tgp/src/._mr_exp_sep.cc |only
tgp-2.1-2/tgp/src/._mr_exp_sep.h |only
tgp-2.1-2/tgp/src/._mstructs.cc |only
tgp-2.1-2/tgp/src/._mstructs.h |only
tgp-2.1-2/tgp/src/._params.cc |only
tgp-2.1-2/tgp/src/._params.h |only
tgp-2.1-2/tgp/src/._predict.c |only
tgp-2.1-2/tgp/src/._predict.h |only
tgp-2.1-2/tgp/src/._predict_linear.c |only
tgp-2.1-2/tgp/src/._predict_linear.h |only
tgp-2.1-2/tgp/src/._rand_draws.c |only
tgp-2.1-2/tgp/src/._rand_draws.h |only
tgp-2.1-2/tgp/src/._rand_pdf.c |only
tgp-2.1-2/tgp/src/._rand_pdf.h |only
tgp-2.1-2/tgp/src/._randomkit.c |only
tgp-2.1-2/tgp/src/._randomkit.h |only
tgp-2.1-2/tgp/src/._rhelp.c |only
tgp-2.1-2/tgp/src/._rhelp.h |only
tgp-2.1-2/tgp/src/._temper.cc |only
tgp-2.1-2/tgp/src/._temper.h |only
tgp-2.1-2/tgp/src/._tgp.cc |only
tgp-2.1-2/tgp/src/._tgp.h |only
tgp-2.1-2/tgp/src/._tree.cc |only
tgp-2.1-2/tgp/src/._tree.h |only
tgp-2.1-3/tgp/._ChangeLog |only
tgp-2.1-3/tgp/._DESCRIPTION |binary
tgp-2.1-3/tgp/._LICENSE |binary
tgp-2.1-3/tgp/._R |binary
tgp-2.1-3/tgp/._README |binary
tgp-2.1-3/tgp/._data |binary
tgp-2.1-3/tgp/._demo |binary
tgp-2.1-3/tgp/._inst |binary
tgp-2.1-3/tgp/._man |binary
tgp-2.1-3/tgp/._src |binary
tgp-2.1-3/tgp/ChangeLog | 13 +++++++++++
tgp-2.1-3/tgp/DESCRIPTION | 4 +--
tgp-2.1-3/tgp/R/btgp.R | 14 ++++++------
tgp-2.1-3/tgp/R/tgp.default.params.R | 14 +++++++-----
tgp-2.1-3/tgp/data/._exp2d.rda |binary
tgp-2.1-3/tgp/demo/cat.R | 12 +++++------
tgp-2.1-3/tgp/demo/fried.R | 6 ++---
tgp-2.1-3/tgp/demo/it.R | 8 ++-----
tgp-2.1-3/tgp/demo/moto.R | 6 ++---
tgp-2.1-3/tgp/demo/pred.R | 2 -
tgp-2.1-3/tgp/inst/._doc |binary
tgp-2.1-3/tgp/inst/doc/.log |only
tgp-2.1-3/tgp/inst/doc/cat.iRnw | 13 +++++------
tgp-2.1-3/tgp/inst/doc/fried.iRnw | 15 +++++++++----
tgp-2.1-3/tgp/inst/doc/it.iRnw | 8 ++-----
tgp-2.1-3/tgp/inst/doc/moto.iRnw | 11 +++-------
tgp-2.1-3/tgp/inst/doc/pred.iRnw | 2 -
tgp-2.1-3/tgp/inst/doc/tgp.pdf |binary
tgp-2.1-3/tgp/inst/doc/tgp2.pdf |binary
tgp-2.1-3/tgp/man/btgp.Rd | 38 ++++++++++++++++-------------------
tgp-2.1-3/tgp/man/default.itemps.Rd | 6 ++---
tgp-2.1-3/tgp/man/exp2d.Rd | 8 ++++---
tgp-2.1-3/tgp/man/exp2d.Z.Rd | 8 ++++---
tgp-2.1-3/tgp/man/exp2d.rand.Rd | 12 ++++++++---
tgp-2.1-3/tgp/man/predict.tgp.Rd | 2 -
tgp-2.1-3/tgp/man/sens.Rd | 14 +++++-------
tgp-2.1-3/tgp/man/tgp-package.Rd | 8 ++++---
tgp-2.1-3/tgp/man/tgp.design.Rd | 8 ++++---
tgp-2.1-3/tgp/src/tgp.cc | 2 -
tgp-2.1-3/tgp/src/tree.cc | 16 +++++++++++---
96 files changed, 141 insertions(+), 109 deletions(-)
Author: Liviu Andronic
Title: Graphically export objects to LaTeX or HTML
Description: This package provides facilities to graphically export
Rcmdr output to LaTeX or HTML code. Essentially, at the moment,
the plug-in is a graphical front-end to xtable(). It is intended
to (1) facilitate exporting Rcmdr output to formats other than
ASCII text and (2) provide R novices with an easy to use, easy to
access reference on exporting R objects to formats suited for
printed output.
Diff between RcmdrPlugin.Export versions 0.2-0 dated 2008-04-09 and 0.2-1 dated 2008-10-09
DESCRIPTION | 8 - R/xtable.Export.R | 194 +++++++++++++++++++++----------------- inst/CHANGES | 9 + man/RcmdrPlugin.Export-package.Rd | 115 ++++++++++++---------- man/xtableExport.Rd | 89 +++++++++-------- 5 files changed, 236 insertions(+), 179 deletions(-)
More information about RcmdrPlugin.Export at CRAN
Permanent link
Author: Trent McDonald
Title: Analysis of Mark-Recapture data
Description: Analysis of mark-recapture data using covariates. Models implemented: CJS open population; Huggin's closed population.
Diff between mra versions 2.1 dated 2008-09-19 and 2.2 dated 2008-10-09
DESCRIPTION | 8 +- R/F.huggins.estim.R | 104 +++++++++++++++++++++-------------- R/print.hug.R | 72 ++++++++++++++++++------ man/F.huggins.estim.Rd | 132 +++++++++++++++++++++++++++++++++++++++++--- man/dipper.data.Rd | 7 ++ man/mra-package.Rd | 55 ++++++++++++++++-- man/print.hug.Rd | 16 +++++ src/Mrawin.f90 | 145 +++++++++++++++++++++++++++++++------------------ 8 files changed, 410 insertions(+), 129 deletions(-)
Author: Hadley Wickham
Diff between plyr versions 0.1 dated 2008-09-30 and 0.1.1 dated 2008-10-08
Title: Tools for splitting, applying and combining data
Description: plyr is a set of tools that solves a common set of problems: you need to break a big problem down into manageable pieces, operate on each pieces and then put all the pieces back together.
plyr-0.1.1/plyr/ANNOUNCE | 8 ++-
plyr-0.1.1/plyr/DESCRIPTION | 8 +--
plyr-0.1.1/plyr/NEWS |only
plyr-0.1.1/plyr/R/helper-col-wise.r | 12 ++---
plyr-0.1.1/plyr/R/ninteraction.r | 22 ++++-----
plyr-0.1.1/plyr/R/ply-array.r | 43 +++++++++---------
plyr-0.1.1/plyr/R/ply-data-frame.r | 46 +++++++++----------
plyr-0.1.1/plyr/R/ply-list.r | 49 ++++++++++-----------
plyr-0.1.1/plyr/R/ply-mapply.r | 60 +++++++++++++-------------
plyr-0.1.1/plyr/R/ply-null.r | 45 +++++++++----------
plyr-0.1.1/plyr/R/ply-replicate.r | 24 +++++-----
plyr-0.1.1/plyr/R/progress.r | 24 +++++-----
plyr-0.1.1/plyr/R/quote.r | 4 -
plyr-0.1.1/plyr/R/rbind.r | 4 -
plyr-0.1.1/plyr/R/split.r | 20 ++++----
plyr-0.1.1/plyr/man/a-ply-2j.rd | 16 +++---
plyr-0.1.1/plyr/man/aaply-ym.rd | 16 +++---
plyr-0.1.1/plyr/man/adply-du.rd | 14 +++---
plyr-0.1.1/plyr/man/alply-wh.rd | 16 +++---
plyr-0.1.1/plyr/man/as-quoted-3f.rd | 4 -
plyr-0.1.1/plyr/man/b.rd |only
plyr-0.1.1/plyr/man/colwise-5m.rd | 4 -
plyr-0.1.1/plyr/man/create-progress-bar-4d.rd | 8 +--
plyr-0.1.1/plyr/man/d-ply-4j.rd | 16 +++---
plyr-0.1.1/plyr/man/daply-7r.rd | 16 +++---
plyr-0.1.1/plyr/man/ddply-5k.rd | 18 +++----
plyr-0.1.1/plyr/man/dlply-7t.rd | 14 +++---
plyr-0.1.1/plyr/man/l-ply-3u.rd | 14 +++---
plyr-0.1.1/plyr/man/laply-10.rd | 14 +++---
plyr-0.1.1/plyr/man/ldply-f5.rd | 16 +++---
plyr-0.1.1/plyr/man/llply-12.rd | 14 +++---
plyr-0.1.1/plyr/man/m-ply-5z.rd | 12 ++---
plyr-0.1.1/plyr/man/maply-h2.rd | 12 ++---
plyr-0.1.1/plyr/man/mdply-cn.rd | 12 ++---
plyr-0.1.1/plyr/man/mlply-h5.rd | 12 ++---
plyr-0.1.1/plyr/man/ninteraction-vw.rd | 4 -
plyr-0.1.1/plyr/man/progress-none-u0.rd | 2
plyr-0.1.1/plyr/man/progress-text-29.rd | 4 -
plyr-0.1.1/plyr/man/progress-tk-qf.rd | 10 ++--
plyr-0.1.1/plyr/man/progress-win-b6.rd | 4 -
plyr-0.1.1/plyr/man/r-ply-qd.rd | 10 ++--
plyr-0.1.1/plyr/man/raply-uc.rd | 8 +--
plyr-0.1.1/plyr/man/rdply-1o.rd | 8 +--
plyr-0.1.1/plyr/man/rlply-s7.rd | 8 +--
plyr-0.1.1/plyr/man/splitter-a-cs.rd | 6 +-
plyr-0.1.1/plyr/man/splitter-d-cs.rd | 4 -
plyr-0.1.1/plyr/plyr-doc.txt | 4 -
plyr-0.1/plyr/man/dotb.rd |only
48 files changed, 348 insertions(+), 341 deletions(-)
Author: Stefan Fritsch
Diff between neuralnet versions 1.1 dated 2008-05-07 and 1.2 dated 2008-10-08
Title: Training of neural networks
Description: Training of neural networks using the Resilient Backpropagation with (Riedmiller, 1994) or without Weightbacktracking (Riedmiller, 1993) or the modified globally convergent version by Anastasiadis et. al. (2005). The package allows flexible settings through custom-choice of error- and activation-function. Furthermore the calculation of generalized weights (Intrator O & Intrator N, 1993) is implemented.
DESCRIPTION | 8
NAMESPACE | 2
R/compute.r | 8
R/confidence.interval.r |only
R/gwplot.r | 9
R/neuralnet.r | 1515 ++++++++++++++++++++-------------------------
R/plot.nn.r | 5
R/prediction.r |only
man/compute.Rd | 6
man/confidence.interval.Rd |only
man/gwplot.Rd | 2
man/neuralnet-package.Rd | 32
man/neuralnet.Rd | 47 -
man/prediction.Rd |only
14 files changed, 740 insertions(+), 894 deletions(-)
Author: Edzer J. Pebesma
Diff between gstat versions 0.9-50 dated 2008-10-07 and 0.9-51 dated 2008-10-08
Title: geostatistical modelling, prediction and simulation
Description: variogram modelling; simple, ordinary and universal point
or block (co)kriging, sequential Gaussian or indicator (co)simulation;
variogram and variogram map plotting utility functions.
DESCRIPTION | 6
R/fit.variogram.reml.R | 2
R/gstat.R | 5
R/predict.gstat.R | 4
R/variogram.default.R | 3
inst/doc/gstat.pdf |29611 ++++++++++++++++++++++++-------------------------
man/gstat.Rd | 4
man/vgm.Rd | 13
src/glvars.c | 2
src/s.c | 8
src/version.h | 4
tests/vdist.R |only
12 files changed, 14718 insertions(+), 14944 deletions(-)
Author: R. Gentleman, Elizabeth Whalen, W. Huber, S. Falcon
Title: graph: A package to handle graph data structures
Description: A package that implements some simple graph handling
capabilities.
Diff between graph versions 1.18.0 dated 2008-05-05 and 1.19.6 dated 2008-10-08
DESCRIPTION | 4 R/AllClasses.R | 7 R/mat2graph.R | 11 R/methods-graph.R | 107 +- data/MAPKsig.rda |binary data/apopGraph.rda |binary data/biocRepos.rda |binary data/defunctGraph.rda |only data/graphExamples.rda |binary data/integrinMediatedCellAdhesion.rda |binary data/pancrCaIni.rda |binary inst/doc/GraphClass.pdf | 1628 +++++++++++++++----------------- inst/doc/clusterGraph.pdf |binary inst/doc/graph.pdf | 1709 ++++++++++++++++------------------ inst/doc/graphAttributes.pdf |binary inst/unitTests/graphNEL_test.R | 30 man/graph-class.Rd | 6 src/graph.c | 1 18 files changed, 1766 insertions(+), 1737 deletions(-)
Author: Vince Carey
Diff between RBGL versions 1.16.0 dated 2008-05-05 and 1.17.2 dated 2008-10-08
Title: An interface to the BOOST graph library
Description: A fairly extensive and comprehensive interface to the graph
algorithms contained in the BOOST library.
DESCRIPTION | 8
NAMESPACE | 23
R/interfaces.R | 78
data/FileDep.rda |binary
inst/doc/RBGL.Rnw | 2
inst/doc/RBGL.pdf | 3603 +++++++++++++++------------------
inst/dot/lkedge.Rnw | 2
man/boyerMyrvoldPlanarityTest.Rd |only
man/chrobakPayneStraightLineDrawing.Rd |only
man/edmondsMaxCardinalityMatching.Rd |only
man/isKuratowskiSubgraph.Rd |only
man/isStraightLineDrawing.Rd |only
man/kolmogorovMaxFlow.Rd |only
man/lengauerTarjanDominatorTree.Rd |only
man/makeBiconnectedPlanar.Rd |only
man/makeConnected.Rd |only
man/makeMaximalPlanar.Rd |only
man/maximumCycleRatio.Rd |only
man/minimumCycleRatio.Rd |only
man/planarCanonicalOrdering.Rd |only
man/planarFaceTraversal.Rd |only
man/sloanStartEndVertices.Rd |only
src/boostIncl.tar.gz |binary
23 files changed, 1802 insertions(+), 1914 deletions(-)
Author: Chris Fraley and Adrian Raftery
Title: Model-Based Clustering / Normal Mixture Modeling
Description: Model-based clustering and normal mixture modeling
including Bayesian regularization
Diff between mclust versions 3.1-8 dated 2008-09-29 and 3.1-9 dated 2008-10-08
DESCRIPTION | 4 ++-- R/mclust.R | 4 ++-- 2 files changed, 4 insertions(+), 4 deletions(-)
Author: Mark Stevenson
Diff between epiR versions 0.9-10 dated 2008-08-21 and 0.9-11 dated 2008-10-08
Title: Functions for analysing epidemiological data
Description: A package for analysing epidemiological data. Contains functions
for directly and indirectly adjusting measures of disease frequency,
quantifying measures of association on the basis of single or multiple
strata of count data presented in a contingency table, and computing
confidence intervals around incidence risk and incidence rate estimates.
Miscellaneous functions for use in meta-analysis, diagnostic test
interpretation, and sample size calculations.
DESCRIPTION | 6
R/epi.tests.R | 143 ++-
doc/epiR.pdf | 1973 ++++++++++++++++++++++++++-----------------------------
man/epi.tests.Rd | 4
4 files changed, 1055 insertions(+), 1071 deletions(-)
Author: Chris Fraley, Adrian E. Raftery, J. McLean Sloughter,
Tilmann Gneiting, University of Washington
With contributions from Bobby Yuen and Michael Polokowski
Title: Probabilistic Forecasting using Ensembles and Bayesian Model Averaging
Description: Bayesian Model Averaging to create probabilistic
forecasts from ensemble forecasts and weather observations.
Diff between ensembleBMA versions 3.0-4.1 dated 2008-08-21 and 3.0-5 dated 2008-10-08
CHANGELOG |only DESCRIPTION | 4 ++-- R/brierScore.ensembleBMAgamma0.R | 14 ++++++++------ R/brierScore.ensembleBMAnormal.R | 14 ++++++++------ man/brierScore.Rd | 1 - man/ensembleData.Rd | 15 ++++++++------- man/julTOymdh.Rd | 4 ++-- 7 files changed, 28 insertions(+), 24 deletions(-)
Author: Jon T. Schnute
Diff between PBSmapping versions 2.57 dated 2008-07-28 and 2.59 dated 2008-10-08
Title: PBS Mapping 2.59
Description: This software has evolved from fisheries research
conducted at the Pacific Biological Station (PBS) in Nanaimo,
British Columbia, Canada. It extends the R language to include
two-dimensional plotting features similar to those commonly
available in a Geographic Information System (GIS). Embedded
C code speeds algorithms from computational geometry, such as
finding polygons that contain specified point events or
converting between longitude-latitude and Universal Transverse
Mercator (UTM) coordinates. It includes data for a global
shoreline and other data sets in the public domain. The R directory
'.../library/PBSmapping/doc' includes a complete user's guide
PBSmapping-UG.pdf. To use this package effectively, please
consult the guide.
DESCRIPTION | 14
R/PBSmapping.r | 23 -
R/zzz.r | 11
inst/doc/ChangeLog.txt | 804 +++++++++++++++++++------------------------
inst/doc/PBSmappingIntro.Rnw | 5
inst/doc/PBSmappingIntro.pdf |binary
inst/doc/index.html |only
man/PBSmapping.Rd | 17
man/PolySet.Rd | 6
man/bcBathymetry.Rd | 8
man/importEvents.Rd | 12
man/importGSHHS.Rd | 14
man/joinPolys.Rd | 4
man/nepacLL.Rd | 22 -
man/nepacLLhigh.Rd | 22 -
man/pythagoras.Rd | 2
man/surveyData.Rd | 8
man/towData.Rd | 8
man/towTracks.Rd | 8
man/worldLL.Rd | 21 -
man/worldLLhigh.Rd | 21 -
21 files changed, 474 insertions(+), 556 deletions(-)
Author:
Andrew Gelman
Diff between mi versions 0.02-01 dated 2008-10-07 and 0.02-02 dated 2008-10-07
Title: Missing Data Imputation and Model Checking
Description: Missing-data imputation and model checking
mi-0.02-01/mi/R/factor2num.R |only
mi-0.02-02/mi/CHANGELOG | 7 ++++++-
mi-0.02-02/mi/DESCRIPTION | 8 ++++----
mi-0.02-02/mi/NAMESPACE | 4 ++++
mi-0.02-02/mi/R/AllClass.R | 16 ++++++++++------
mi-0.02-02/mi/R/AllGeneric.R | 28 ----------------------------
mi-0.02-02/mi/R/AllInternal.R |only
mi-0.02-02/mi/R/display.R |only
mi-0.02-02/mi/R/glm.mi.R | 21 ---------------------
mi-0.02-02/mi/R/lm.mi.R | 24 ++++--------------------
mi-0.02-02/mi/R/load.first.R |only
mi-0.02-02/mi/R/mi.info.R | 32 --------------------------------
mi-0.02-02/mi/R/print.R | 22 ++++++++++++++++++++++
mi-0.02-02/mi/man/glm.mi.Rd | 25 ++++++++++++++++++++++---
mi-0.02-02/mi/man/lm.mi.Rd | 20 +++++++++++++++++++-
15 files changed, 91 insertions(+), 116 deletions(-)
Author: Virasakdi Chongsuvivatwong
Diff between epicalc versions 2.7.2.1 dated 2008-09-07 and 2.7.2.3 dated 2008-10-07
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.
DESCRIPTION | 6
R/epicalc.R | 578 +++++++++++++++++++++++++++++++++++++-
man/print.n.for.cluster.2means.rd |only
man/print.n.for.cluster.2p.rd |only
man/print.n.for.equi.2p.rd |only
man/print.n.for.noninferior.2p.rd |only
man/recode.rd | 23 +
man/sampsize.rd | 48 +++
8 files changed, 648 insertions(+), 7 deletions(-)
Author: Michael Lawrence
Title: Cairo-based cross-platform antialiased graphics device driver.
Description: Cairo/GTK graphics device driver with output to screen,
file (png, svg, pdf, and ps) or memory (GdkDrawable). The screen device
may be embedded into RGtk2 interfaces. Supports all interactive features
of other graphics devices, including getGraphicsEvent().
Diff between cairoDevice versions 2.9-1 dated 2008-10-07 and 2.9-2 dated 2008-10-07
DESCRIPTION | 8 ++++---- src/cairoDevice.h | 3 ++- 2 files changed, 6 insertions(+), 5 deletions(-)
Author: Vinzenz Erhardt
Title: Zero Inflated Generalized Poisson (ZIGP) regression models
Description: Adapt and analyze and compare GP, ZIP and ZIGP regression models
Diff between ZIGP versions 2.5 dated 2008-09-29 and 2.6 dated 2008-10-07
DESCRIPTION | 6 +- R/fit.zigp.r | 26 +++++------ R/fit.zigp1.r | 6 +- R/gradient.r | 42 +++++++++--------- R/gradient1.r | 10 ++-- R/loglikelihood.zigp.full.r | 14 +++--- R/loglikelihood.zigp.r | 28 ++++++------ R/loglikelihood.zigp.vuong.r | 28 ++++++------ R/mle.zigp.full.like.r | 24 +++++----- R/mle.zigp.r | 64 ++++++++++++++-------------- R/wald.test.r | 98 +++++++++++++++++++++---------------------- man/FM.rd | 3 + man/ZIGP-package.rd | 4 - man/fit.zigp.rd | 14 +++--- man/gradient.rd | 14 +++--- man/loglikelihood.zigp.rd | 14 +++--- man/optimized.run.rd | 31 ------------- man/wald.test.rd | 18 +++++++ 18 files changed, 219 insertions(+), 225 deletions(-)
Author: Jake Bowers
Diff between RItools versions 0.1-2 dated 2008-09-28 and 0.1-3 dated 2008-10-07
Title: Randomization inference tools
Description: Tools for randomization inference.
DESCRIPTION | 6 -
R/print.xbal.R | 191 +++++++++++++++++++++++++++++++----------------------
R/utils.R | 9 ++
R/xBalanceEngine.R | 2
4 files changed, 125 insertions(+), 83 deletions(-)
Author: Don Barkauskas
Title: Programs for Analyzing Fourier Transform-Ion Cyclotron Resonance Mass Spectrometry Data
Description: This package was developed partially with funding from the NIH Training Program in Biomolecular Technology (2-T32-GM08799).
Diff between FTICRMS versions 0.5 dated 2008-05-26 and 0.6 dated 2008-10-07
FTICRMS-0.5/FTICRMS/R/display.test.R |only FTICRMS-0.5/FTICRMS/man/display.test.Rd |only FTICRMS-0.6/FTICRMS/DESCRIPTION | 6 ++-- FTICRMS-0.6/FTICRMS/R/FTICRMS-internal.R | 37 ++++++++++++++++++++++---- FTICRMS-0.6/FTICRMS/R/baseline.R | 9 ++---- FTICRMS-0.6/FTICRMS/R/display.tests.R |only FTICRMS-0.6/FTICRMS/R/extract.pars.R | 2 - FTICRMS-0.6/FTICRMS/R/make.par.file.R | 14 +++++---- FTICRMS-0.6/FTICRMS/R/run.all.R | 4 +- FTICRMS-0.6/FTICRMS/R/run.analysis.R | 29 +++++++++++++------- FTICRMS-0.6/FTICRMS/R/run.baselines.R | 8 ++--- FTICRMS-0.6/FTICRMS/R/run.cluster.matrix.R | 13 ++++----- FTICRMS-0.6/FTICRMS/R/run.lrg.peaks.R | 5 ++- FTICRMS-0.6/FTICRMS/R/run.strong.peaks.R | 2 - FTICRMS-0.6/FTICRMS/man/FTICRMS-package.Rd | 4 +- FTICRMS-0.6/FTICRMS/man/baseline.Rd | 22 +++++++-------- FTICRMS-0.6/FTICRMS/man/display.tests.Rd |only FTICRMS-0.6/FTICRMS/man/extract.pars.Rd | 23 +++++++++------- FTICRMS-0.6/FTICRMS/man/make.par.file.Rd | 22 +++++++++------ FTICRMS-0.6/FTICRMS/man/run.all.Rd | 10 +++---- FTICRMS-0.6/FTICRMS/man/run.analysis.Rd | 18 +++++++----- FTICRMS-0.6/FTICRMS/man/run.baselines.Rd | 12 ++++---- FTICRMS-0.6/FTICRMS/man/run.cluster.matrix.Rd | 11 +++++++ FTICRMS-0.6/FTICRMS/man/run.lrg.peaks.Rd | 18 ++++++------ 24 files changed, 165 insertions(+), 104 deletions(-)
Author: Rob J Hyndman
Diff between hdrcde versions 2.07 dated 2007-06-11 and 2.08 dated 2008-10-07
Title: Highest density regions and conditional density estimation
Description: Computation of highest density regions in one and two dimensions,
kernel estimation of univariate density functions conditional on one covariate,
and multimodal regression.
DESCRIPTION | 10 ++---
R/hdr.boxplot.2d.R | 99 +++++++++++++++++++-------------------------------
man/hdr.boxplot.2d.Rd | 14 ++++---
3 files changed, 52 insertions(+), 71 deletions(-)
Author: Göran Broström
Title: Generalized linear models with clustering
Description: A Maximum Likelihood and bootstrap approach to mixed models
Diff between glmmML versions 0.81-2 dated 2008-06-01 and 0.81-3 dated 2008-10-07
DESCRIPTION | 6 +++--- R/print.glmmML.R | 5 +++-- man/glmmML.Rd | 14 +++++++------- man/glmmML.fit.Rd | 7 ++----- src/glmmboot.c | 9 +++++---- 5 files changed, 20 insertions(+), 21 deletions(-)
Author: J. O. Ramsay
Diff between fda versions 2.0.0 dated 2008-10-02 and 2.0.2 dated 2008-10-07
Title: Functional Data Analysis
Description: These functions were developed to support
functional data analysis as described in Ramsay, J. O.
and Silverman, B. W. (2005) Functional Data Analysis.
New York: Springer. They were ported from earlier
versions in Matlab and S-PLUS. A manual that describes
the use of these functions is available in this
library. The library also contains a number of the
data sets used in the book along with R code for the
analyses that produced many of the figures in the book.
fda-2.0.0/fda/R/as.function.fd.R |only
fda-2.0.0/fda/R/dim.fd.R |only
fda-2.0.0/fda/inst/scripts/CSTR/CSTR_demo.asv |only
fda-2.0.0/fda/inst/scripts/CSTR/CSTRfn.asv |only
fda-2.0.0/fda/inst/scripts/fda-ch19.R |only
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fda-2.0.0/fda/man/dim.fd.Rd |only
fda-2.0.2/fda/DESCRIPTION | 6 +-
fda-2.0.2/fda/NEWS | 6 +-
fda-2.0.2/fda/R/Fperm.fd.R | 37 +++++++++----
fda-2.0.2/fda/R/eval.bifd.R | 4 -
fda-2.0.2/fda/R/evaldiag.bifd.R | 4 -
fda-2.0.2/fda/R/fRegress.R | 4 -
fda-2.0.2/fda/R/geigen.R | 2
fda-2.0.2/fda/R/mongrad.R | 20 +++----
fda-2.0.2/fda/R/pca.fd.R | 2
fda-2.0.2/fda/R/smooth.fd.R | 2
fda-2.0.2/fda/R/stddev.fd.R | 4 -
fda-2.0.2/fda/R/stepchk.R | 4 -
fda-2.0.2/fda/R/tperm.fd.R | 32 ++++++++---
fda-2.0.2/fda/data/CanadianWeather.rda |binary
fda-2.0.2/fda/demo/canadian-weather.R | 31 ++++++-----
fda-2.0.2/fda/demo/gait.R | 6 +-
fda-2.0.2/fda/demo/growth.R | 1
fda-2.0.2/fda/man/CanadianWeather.Rd | 73 +++++++++++++++++---------
fda-2.0.2/fda/man/Fperm.fd.Rd | 15 +++--
fda-2.0.2/fda/man/svd2.Rd | 10 +--
fda-2.0.2/fda/man/tperm.fd.Rd | 13 +++-
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Author: Michael Lawrence
Title: Cairo-based cross-platform antialiased graphics device driver.
Description: Cairo/GTK graphics device driver with output to screen,
file (png, svg, pdf, and ps) or memory (GdkDrawable). The screen device
may be embedded into RGtk2 interfaces. Supports all interactive features
of other graphics devices, including getGraphicsEvent().
Diff between cairoDevice versions 2.8 dated 2008-04-30 and 2.9-1 dated 2008-10-07
DESCRIPTION | 7 +-- R/cairoDevice.R | 4 - R/zzz.R | 10 +--- src/Makevars | 4 - src/cairoDevice.c | 126 +++++++++++++++++++++++++++++------------------------- src/cairoDevice.h | 6 ++ src/gtk.c | 61 ++++++++++++++++++-------- 7 files changed, 127 insertions(+), 91 deletions(-)
Author: Clement Calenge, contributions from Mathieu Basille, Stephane Dray and Scott Fortmann-Roe
Title: Analysis of habitat selection by animals
Description: A collection of tools for the analysis of habitat selection by animals
Diff between adehabitat versions 1.7.2 dated 2008-07-29 and 1.7.3 dated 2008-10-07
DESCRIPTION | 7 +++---- INDEX | 2 +- man/Chi.Rd | 2 +- man/Extract.ltraj.Rd | 2 +- man/NNCH.Rd | 2 +- man/NNCH.area.Rd | 2 +- man/NNCH.select.Rd | 2 +- man/adehabitat-package.Rd | 8 ++++---- man/albatross.Rd | 2 +- man/altr.Rd | 2 +- man/angles.Rd | 2 +- man/area2asc.Rd | 2 +- man/area2dxf.Rd | 2 +- man/as.kasc.Rd | 2 +- man/as.ltraj.Rd | 2 +- man/as.sahrlocs.Rd | 2 +- man/as.traj.Rd | 2 +- man/asc2im.Rd | 2 +- man/ascgen.Rd | 2 +- man/bear.Rd | 2 +- man/buffer.Rd | 2 +- man/burst.Rd | 2 +- man/c.ltraj.Rd | 2 +- man/chamois.Rd | 2 +- man/clusthr.Rd | 2 +- man/colasc.Rd | 2 +- man/compana.Rd | 2 +- man/convnum.Rd | 2 +- man/count.points.id.Rd | 2 +- man/cutltraj.Rd | 2 +- man/distfacmap.Rd | 2 +- man/domain.Rd | 2 +- man/dunnfa.Rd | 2 +- man/eisera.Rd | 2 +- man/enfa.Rd | 16 ++++++++-------- man/explore.kasc.Rd | 2 +- man/fpt.Rd | 2 +- man/gdltraj.Rd | 2 +- man/getXYcoords.Rd | 2 +- man/getascattr.Rd | 2 +- man/getcontour.Rd | 2 +- man/gnesfa.Rd | 2 +- man/hbrown.Rd | 2 +- man/hist.ltraj.Rd | 2 +- man/hr.rast.Rd | 2 +- man/image.asc.Rd | 2 +- man/image.sahrlocs.Rd | 2 +- man/import.asc.Rd | 2 +- man/indmove.Rd | 4 ++-- man/is.regular.Rd | 2 +- man/is.sd.Rd | 2 +- man/join.asc.Rd | 2 +- man/kasc2df.Rd | 2 +- man/kasc2spixdf.Rd | 2 +- man/kernelUD.Rd | 2 +- man/kernelbb.Rd | 2 +- man/kerneloverlap.Rd | 2 +- man/kselect.Rd | 2 +- man/kver.Rd | 2 +- man/labcon.Rd | 2 +- man/lowres.Rd | 2 +- man/madifa.Rd | 2 +- man/mahasuhab.Rd | 2 +- man/managNAkasc.Rd | 2 +- man/mcp.Rd | 2 +- man/mcp.rast.Rd | 2 +- man/mindistkeep.Rd | 2 +- man/modpartltraj.Rd | 2 +- man/morphology.Rd | 2 +- man/niche.test.Rd | 4 ++-- man/offsetdate.Rd | 2 +- man/perarea.Rd | 2 +- man/plot.area.Rd | 2 +- man/plot.ltraj.Rd | 2 +- man/plot.sahrlocs.Rd | 2 +- man/plotltr.Rd | 2 +- man/qqchi.Rd | 2 +- man/rand.kselect.Rd | 2 +- man/randtest.enfa.Rd | 2 +- man/redisltraj.Rd | 2 +- man/sahrlocs2kselect.Rd | 2 +- man/sahrlocs2niche.Rd | 2 +- man/scatterniche.Rd | 2 +- man/schoener.Rd | 2 +- man/set.limits.Rd | 2 +- man/setNA.Rd | 2 +- man/setmask.Rd | 2 +- man/sett0.Rd | 2 +- man/showNAltraj.Rd | 2 +- man/simm.brown.Rd | 4 ++-- man/simm.crw.Rd | 4 ++-- man/simm.levy.Rd | 2 +- man/simm.mba.Rd | 4 ++-- man/simm.mou.Rd | 4 ++-- man/sliwinltr.Rd | 2 +- man/speed.Rd | 2 +- man/storemapattr.Rd | 2 +- man/subsample.Rd | 2 +- man/subsetmap.Rd | 2 +- man/trajdyn.Rd | 2 +- man/typeII2typeI.Rd | 2 +- man/which.ltraj.Rd | 2 +- man/wi.Rd | 2 +- 103 files changed, 121 insertions(+), 122 deletions(-)
Author: Edzer J. Pebesma
Diff between gstat versions 0.9-49 dated 2008-09-15 and 0.9-50 dated 2008-10-07
Title: geostatistical modelling, prediction and simulation
Description: variogram modelling; simple, ordinary and universal point
or block (co)kriging, sequential Gaussian or indicator (co)simulation;
variogram and variogram map plotting utility functions.
gstat-0.9-49/gstat/data/Chlorid92.csv |only
gstat-0.9-50/gstat/DESCRIPTION | 6
gstat-0.9-50/gstat/R/predict.gstat.R | 2
gstat-0.9-50/gstat/demo/uisim.R | 7
gstat-0.9-50/gstat/inst/doc/gstat.pdf |29431 +++++++++++++++---------------
gstat-0.9-50/gstat/man/krige.cv.Rd | 4
gstat-0.9-50/gstat/man/pcb.Rd | 2
gstat-0.9-50/gstat/src/mapio.c | 44
gstat-0.9-50/gstat/src/nsearch.c | 24
gstat-0.9-50/gstat/tests/unproj.Rout.save | 118
10 files changed, 15112 insertions(+), 14526 deletions(-)
Author: Sřren Hřjsgaard
Diff between doBy versions 3.3 dated 2008-10-01 and 3.4 dated 2008-10-07
Title: Groupwise computations of summary statistics and other utilities
Description: Facilities for groupwise computations of summary statistics and other facilities for working with grouped data (similar to what can be achieved by proc means or proc summary of the SAS system).
ChangeLog | 9 +
DESCRIPTION | 4
R/summaryBy.R | 7
inst/doc/doBy.pdf | 412 +++++++++++++++++++++++++++---------------------------
4 files changed, 224 insertions(+), 208 deletions(-)
Author: Karsten Tabelow
Diff between adimpro versions 0.7 dated 2008-10-02 and 0.7.1 dated 2008-10-07
Title: Adaptive Smoothing of Digital Images
Description: This package implements tools for manipulationg digital images and the Propagation Separation approach
by Polzehl and Spokoiny (2006) for smoothing digital images.
DESCRIPTION | 8 +++----
NAMESPACE | 3 --
R/misc.r | 53 +++++++++++++++++++++++++++++--------------------
README | 7 ++++++
demo |only
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man/segment.Rd | 2 -
src/segment.f | 3 --
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Author: Corneliu Henegar
Diff between FunNet versions 1.00-3 dated 2008-08-06 and 1.00-4 dated 2008-10-06
Title: Integrative Functional Analysis of Transcriptional Networks
Description: FunNet is an integrative tool for analyzing gene co-expression networks built from
microarray expression data. The analytic model implemented in this library
involves two abstraction layers: transcriptional and functional (biological roles).
A functional profiling technique using Gene Ontology & KEGG annotations is
applied to extract a list of relevant biological themes from
microarray expression profiling data. Afterwards multiple-instance
representations are built to relate significant themes to their
transcriptional instances (i.e. the two layers of the model). An adapted
non-linear dynamical system model is used to quantify the proximity of relevant
genomic themes based on the similarity of the expression profiles of their gene instances.
Eventually an unsupervised multiple-instance clustering procedure, relying on
the two abstraction layers, is used to identify the structure of the co-expression
network composed from modules of functionally related transcripts. Functional
and transcriptional maps of the co-expression network are provided separately
together with detailed information on the network centrality of related transcripts
and genomic themes.
FunNet-1.00-3/FunNet/man/ChargerKegg.Rd |only
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Author: Ben Goodrich
Title: Factor Analysis in R
Description: This package estimates factor analysis models using a genetic algorithm, which permits a general mechanism for restricted optimization with arbitrary restrictions that are chosen at run time with the help of a GUI. Importantly, inequality restrictions can be imposed on functions of multiple parameters, which provides a new avenues for testing and generating theories with factor analysis models. This package also includes an entirely new estimator of the common factor analysis model called semi-exploratory factor analysis, which is a general alternative to exploratory and confirmatory factor analysis. Finally, this package integrates a lot of other packages that estimate sample covariance matrices and thus provides a lot of alternatives to the traditional sample covariance calculation. Note that you need to have the Gtk run time library installed on your system to use this package; see the URL below for detailed installation instructions. Most users would only need to understand the first twenty-four pages of the PDF manual.
Diff between FAiR versions 0.4-0 dated 2008-07-11 and 0.4-2 dated 2008-10-06
DESCRIPTION | 8 LICENSE | 12 NEWS | 8 R/Classes.R | 4 inst/doc/FAiR.pdf | 886 ++++++++++++++++++++++++++---------------------------- man/S3methods.Rd | 4 man/loadings.Rd | 2 7 files changed, 464 insertions(+), 460 deletions(-)
Author: Jeff Gill
Diff between BaM versions 0.5 dated 2008-07-09 and 0.8 dated 2008-10-06
Title: Functions and datasets for books by Jeff Gill.
Description: Books is "Bayesian Methods: A Social and Behavioral Sciences Approach, Second Edition published by CRC Press, 2007"
BaM-0.5/BaM/man/pbc.Rd |only
BaM-0.8/BaM/DESCRIPTION | 6 +++---
BaM-0.8/BaM/man/pbc.vote.Rd |only
3 files changed, 3 insertions(+), 3 deletions(-)
Author: Hadley Wickham
Diff between ggplot2 versions 0.6 dated 2008-04-03 and 0.7 dated 2008-10-05
Title: An implementation of the Grammar of Graphics
Description: An implementation of the grammar of graphics in R. It combines the advantages of both base and lattice graphics: conditioning and shared axes are handled automatically, and you can still build up a plot step by step from multiple data sources. It also implements a sophisticated multidimensional conditioning system and a consistent interface to map data to aesthetic attributes. See the ggplot2 website for more information, documentation and examples.
ggplot2-0.6/ggplot2/R/facet-grid-panels.r |only
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ggplot2-0.7/ggplot2/R/aaa-.r | 43 +---
ggplot2-0.7/ggplot2/R/aaa-examples.r | 24 +-
ggplot2-0.7/ggplot2/R/aaa-html.r | 16 +
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ggplot2-0.7/ggplot2/R/coordinates-.r | 17 +
ggplot2-0.7/ggplot2/R/coordinates-cartesian-.r | 95 ++++++---
ggplot2-0.7/ggplot2/R/coordinates-cartesian-equal.r | 46 ++--
ggplot2-0.7/ggplot2/R/coordinates-cartesian-flipped.r | 14 +
ggplot2-0.7/ggplot2/R/coordinates-map.r | 62 +++---
ggplot2-0.7/ggplot2/R/coordinates-polar.r | 126 +++++++-----
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ggplot2-0.7/ggplot2/R/geom-rug.r | 1
ggplot2-0.7/ggplot2/R/geom-segment.r | 25 +-
ggplot2-0.7/ggplot2/R/geom-smooth.r | 8
ggplot2-0.7/ggplot2/R/geom-text.r | 2
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ggplot2-0.7/ggplot2/R/guides-strip.r | 39 ++-
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ggplot2-0.7/ggplot2/R/plot.r | 39 +--
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ggplot2-0.7/ggplot2/R/quick-plot.r | 80 +++++--
ggplot2-0.7/ggplot2/R/save.r | 24 +-
ggplot2-0.7/ggplot2/R/scale-.r | 89 +++++---
ggplot2-0.7/ggplot2/R/scale-continuous-.r | 120 ++++++-----
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ggplot2-0.7/ggplot2/R/stat-sum.r | 21 +-
ggplot2-0.7/ggplot2/R/stat-summary.r | 8
ggplot2-0.7/ggplot2/R/stat-unique.r | 2
ggplot2-0.7/ggplot2/R/summary.r | 21 +-
ggplot2-0.7/ggplot2/R/templates.r | 8
ggplot2-0.7/ggplot2/R/theme-defaults.r |only
ggplot2-0.7/ggplot2/R/theme-elements.r |only
ggplot2-0.7/ggplot2/R/theme.r |only
ggplot2-0.7/ggplot2/R/trans-.r | 32 ++-
ggplot2-0.7/ggplot2/R/trans-scales.r | 125 ++++++++++--
ggplot2-0.7/ggplot2/R/utilities-colour.r | 2
ggplot2-0.7/ggplot2/R/utilities-geoms.r | 78 -------
ggplot2-0.7/ggplot2/R/utilities-grid.r | 8
ggplot2-0.7/ggplot2/R/utilities-layer.r | 12 -
ggplot2-0.7/ggplot2/R/utilities.r | 30 ++
ggplot2-0.7/ggplot2/R/xxx-codegen.r | 111 +++-------
ggplot2-0.7/ggplot2/R/xxx-digest.r | 11 -
ggplot2-0.7/ggplot2/R/xxx.r | 181 +++++++----------
ggplot2-0.7/ggplot2/data/mpg.rda |only
ggplot2-0.7/ggplot2/data/msleep.rda |only
ggplot2-0.7/ggplot2/load.r | 36 ++-
ggplot2-0.7/ggplot2/man/absoluteGrob-5d.rd |only
ggplot2-0.7/ggplot2/man/accessors-print-nc.rd | 4
ggplot2-0.7/ggplot2/man/aes-to-scale-ty.rd |only
ggplot2-0.7/ggplot2/man/assign-viewports-r1.rd |only
ggplot2-0.7/ggplot2/man/bin-xb.rd | 2
ggplot2-0.7/ggplot2/man/calc-aesthetics-5l.rd | 3
ggplot2-0.7/ggplot2/man/ceiling-date-i2.rd |only
ggplot2-0.7/ggplot2/man/collide-5k.rd |only
ggplot2-0.7/ggplot2/man/coord_cartesian.rd | 16 -
ggplot2-0.7/ggplot2/man/coord_equal.rd | 20 -
ggplot2-0.7/ggplot2/man/coord_flip.rd | 26 +-
ggplot2-0.7/ggplot2/man/coord_map.rd | 50 ++--
ggplot2-0.7/ggplot2/man/coord_polar.rd | 83 +++-----
ggplot2-0.7/ggplot2/man/coord_trans.rd | 52 ++---
ggplot2-0.7/ggplot2/man/discrete-range-fu.rd |only
ggplot2-0.7/ggplot2/man/f5.rd |only
ggplot2-0.7/ggplot2/man/facet_grid.rd | 43 ++--
ggplot2-0.7/ggplot2/man/floor-date-i9.rd |only
ggplot2-0.7/ggplot2/man/fullseq-date-ol.rd |only
ggplot2-0.7/ggplot2/man/geditGrob-5b.rd |only
ggplot2-0.7/ggplot2/man/geom_abline.rd | 61 +++--
ggplot2-0.7/ggplot2/man/geom_area.rd | 8
ggplot2-0.7/ggplot2/man/geom_bar.rd | 88 ++++----
ggplot2-0.7/ggplot2/man/geom_blank.rd | 6
ggplot2-0.7/ggplot2/man/geom_boxplot.rd | 86 ++++----
ggplot2-0.7/ggplot2/man/geom_contour.rd | 6
ggplot2-0.7/ggplot2/man/geom_crossbar.rd | 12 -
ggplot2-0.7/ggplot2/man/geom_density.rd | 8
ggplot2-0.7/ggplot2/man/geom_density2d.rd |only
ggplot2-0.7/ggplot2/man/geom_errorbar.rd | 73 +++----
ggplot2-0.7/ggplot2/man/geom_histogram.rd | 110 +++++-----
ggplot2-0.7/ggplot2/man/geom_hline.rd | 14 -
ggplot2-0.7/ggplot2/man/geom_jitter.rd | 31 +--
ggplot2-0.7/ggplot2/man/geom_line.rd | 59 ++---
ggplot2-0.7/ggplot2/man/geom_linerange.rd | 42 ++--
ggplot2-0.7/ggplot2/man/geom_path.rd | 102 ++++-----
ggplot2-0.7/ggplot2/man/geom_point.rd | 49 ++--
ggplot2-0.7/ggplot2/man/geom_pointrange.rd | 10
ggplot2-0.7/ggplot2/man/geom_polygon.rd | 78 +++----
ggplot2-0.7/ggplot2/man/geom_quantile.rd | 4
ggplot2-0.7/ggplot2/man/geom_rect.rd |only
ggplot2-0.7/ggplot2/man/geom_ribbon.rd | 52 ++---
ggplot2-0.7/ggplot2/man/geom_rug.rd | 10
ggplot2-0.7/ggplot2/man/geom_segment.rd | 30 +-
ggplot2-0.7/ggplot2/man/geom_smooth.rd | 28 ++
ggplot2-0.7/ggplot2/man/geom_step.rd | 22 +-
ggplot2-0.7/ggplot2/man/geom_text.rd | 38 +--
ggplot2-0.7/ggplot2/man/geom_tile.rd | 116 +++++------
ggplot2-0.7/ggplot2/man/geom_vline.rd | 27 +-
ggplot2-0.7/ggplot2/man/get-rev-ag.rd | 4
ggplot2-0.7/ggplot2/man/ggmissing-2x.rd | 3
ggplot2-0.7/ggplot2/man/ggplot-build-jd.rd |only
ggplot2-0.7/ggplot2/man/ggplot-default-v2.rd | 3
ggplot2-0.7/ggplot2/man/ggplot-oz.rd | 2
ggplot2-0.7/ggplot2/man/ggplotGrob-1l.rd |only
ggplot2-0.7/ggplot2/man/ggsave-ao.rd | 11 -
ggplot2-0.7/ggplot2/man/ggstrip-6v.rd | 5
ggplot2-0.7/ggplot2/man/guide-axis-vo.rd |only
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ggplot2-0.7/ggplot2/man/guide-legends-3p.rd |only
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ggplot2-0.7/ggplot2/man/ignore.rd | 33 ---
ggplot2-0.7/ggplot2/man/inside-aj.rd |only
ggplot2-0.7/ggplot2/man/is-constant-6i.rd |only
ggplot2-0.7/ggplot2/man/labels-default-fs.rd | 6
ggplot2-0.7/ggplot2/man/mpg.rd |only
ggplot2-0.7/ggplot2/man/msleep.rd |only
ggplot2-0.7/ggplot2/man/nullGrob-6r.rd |only
ggplot2-0.7/ggplot2/man/opts-6v.rd |only
ggplot2-0.7/ggplot2/man/panelGrob-da.rd |only
ggplot2-0.7/ggplot2/man/parse-unit-spec-ps.rd |only
ggplot2-0.7/ggplot2/man/plot-theme-9b.rd |only
ggplot2-0.7/ggplot2/man/pos-dodge-6a.rd |only
ggplot2-0.7/ggplot2/man/pos-fill-96.rd |only
ggplot2-0.7/ggplot2/man/pos-stack-ev.rd |only
ggplot2-0.7/ggplot2/man/position_dodge.rd | 32 +--
ggplot2-0.7/ggplot2/man/position_fill.rd | 22 +-
ggplot2-0.7/ggplot2/man/position_identity.rd | 6
ggplot2-0.7/ggplot2/man/position_jitter.rd | 29 +-
ggplot2-0.7/ggplot2/man/position_stack.rd | 16 -
ggplot2-0.7/ggplot2/man/print-ggplot-0n.rd | 2
ggplot2-0.7/ggplot2/man/print-theme-55.rd |only
ggplot2-0.7/ggplot2/man/qplot-ay.rd | 30 ++
ggplot2-0.7/ggplot2/man/rect-to-poly-24.rd |only
ggplot2-0.7/ggplot2/man/rename-aes-ay.rd |only
ggplot2-0.7/ggplot2/man/resolution-3n.rd | 3
ggplot2-0.7/ggplot2/man/save-examples-zh.rd | 2
ggplot2-0.7/ggplot2/man/scale_brewer.rd | 70 +++---
ggplot2-0.7/ggplot2/man/scale_continuous.rd | 86 ++++----
ggplot2-0.7/ggplot2/man/scale_date.rd | 89 ++++----
ggplot2-0.7/ggplot2/man/scale_discrete.rd | 42 ++--
ggplot2-0.7/ggplot2/man/scale_gradient.rd | 84 ++++----
ggplot2-0.7/ggplot2/man/scale_gradient2.rd | 86 ++++----
ggplot2-0.7/ggplot2/man/scale_gradientn.rd |only
ggplot2-0.7/ggplot2/man/scale_grey.rd | 22 +-
ggplot2-0.7/ggplot2/man/scale_hue.rd | 68 +++---
ggplot2-0.7/ggplot2/man/scale_identity.rd | 29 +-
ggplot2-0.7/ggplot2/man/scale_linetype.rd | 30 +-
ggplot2-0.7/ggplot2/man/scale_manual.rd | 23 +-
ggplot2-0.7/ggplot2/man/scale_shape.rd | 41 ++-
ggplot2-0.7/ggplot2/man/scale_size.rd | 47 ++--
ggplot2-0.7/ggplot2/man/setup-viewports-58.rd | 13 -
ggplot2-0.7/ggplot2/man/stairstep-as.rd |only
ggplot2-0.7/ggplot2/man/stat_bin.rd | 31 +--
ggplot2-0.7/ggplot2/man/stat_boxplot.rd | 4
ggplot2-0.7/ggplot2/man/stat_contour.rd | 58 ++---
ggplot2-0.7/ggplot2/man/stat_density.rd | 118 +++++------
ggplot2-0.7/ggplot2/man/stat_density2d.rd |only
ggplot2-0.7/ggplot2/man/stat_function.rd | 6
ggplot2-0.7/ggplot2/man/stat_identity.rd | 4
ggplot2-0.7/ggplot2/man/stat_qq.rd | 20 +
ggplot2-0.7/ggplot2/man/stat_quantile.rd | 46 ++--
ggplot2-0.7/ggplot2/man/stat_smooth.rd | 95 ++++-----
ggplot2-0.7/ggplot2/man/stat_spoke.rd | 14 -
ggplot2-0.7/ggplot2/man/stat_sum.rd | 38 +--
ggplot2-0.7/ggplot2/man/stat_summary.rd | 106 +++++-----
ggplot2-0.7/ggplot2/man/stat_unique.rd | 6
ggplot2-0.7/ggplot2/man/surround-viewports-03.rd |only
ggplot2-0.7/ggplot2/man/theme-blank-f4.rd |only
ggplot2-0.7/ggplot2/man/theme-bw-pq.rd |only
ggplot2-0.7/ggplot2/man/theme-gray-gw.rd |only
ggplot2-0.7/ggplot2/man/theme-line-49.rd |only
ggplot2-0.7/ggplot2/man/theme-rect-f3.rd |only
ggplot2-0.7/ggplot2/man/theme-render-36.rd |only
ggplot2-0.7/ggplot2/man/theme-segment-t0.rd |only
ggplot2-0.7/ggplot2/man/theme-text-9a.rd |only
ggplot2-0.7/ggplot2/man/theme-update-wy.rd |only
ggplot2-0.7/ggplot2/man/transform-position-w3.rd |only
ggplot2-0.7/ggplot2/man/update-geom-defaults-1v.rd |only
ggplot2-0.7/ggplot2/templates/facet_.html | 6
ggplot2-0.7/ggplot2/templates/index.html | 20 +
ggplot2-0.7/ggplot2/texput.log |only
297 files changed, 3399 insertions(+), 2972 deletions(-)
Author: David B. Dahl
Diff between xtable versions 1.5-3 dated 2008-08-24 and 1.5-4 dated 2008-10-05
Title: Export tables to LaTeX or HTML
Description: Coerce data to LaTeX and HTML tables
DESCRIPTION | 6 +++---
R/print.xtable.R | 15 ++++++++++-----
inst/doc/xtableGallery.pdf |binary
man/print.xtable.Rd | 3 ++-
man/xtable.Rd | 1 +
5 files changed, 16 insertions(+), 9 deletions(-)
Author: Roger Koenker
Diff between quantreg versions 4.20 dated 2008-08-14 and 4.22 dated 2008-10-05
Title: Quantile Regression
Description: Quantile regression and related methods.
quantreg-4.20/quantreg/src/._crq.f |only
quantreg-4.22/quantreg/DESCRIPTION | 6
quantreg-4.22/quantreg/R/anova.R | 51 ++++++-
quantreg-4.22/quantreg/R/boot.R | 43 ++++++
quantreg-4.22/quantreg/R/combos.R | 21 ++-
quantreg-4.22/quantreg/R/crq.R | 2
quantreg-4.22/quantreg/R/quantreg.R | 1
quantreg-4.22/quantreg/demo/00Index | 1
quantreg-4.22/quantreg/demo/KMvCRQ.R |only
quantreg-4.22/quantreg/inst/ChangeLog | 24 +++
quantreg-4.22/quantreg/inst/doc/.build.timestamp |only
quantreg-4.22/quantreg/inst/doc/Rplots.pdf |only
quantreg-4.22/quantreg/inst/doc/rq.pdf |binary
quantreg-4.22/quantreg/man/anova.rq.Rd | 40 ++++--
quantreg-4.22/quantreg/man/boot.rq.Rd | 22 ++-
quantreg-4.22/quantreg/src/boot.f | 38 ++++-
quantreg-4.22/quantreg/src/ratfor/boot.r | 26 +++-
quantreg-4.22/quantreg/src/rq0.f | 149 ++++++-----------------
18 files changed, 273 insertions(+), 151 deletions(-)
Author: Sundar Dorai-Raj
Diff between binom versions 1.0-3 dated 2008-01-03 and 1.0-4 dated 2008-10-05
Title: Binomial Confidence Intervals For Several Parameterizations
Description: Constructs confidence intervals on the probability of success in a binomial experiment via several parameterizations
DESCRIPTION | 4 ++--
R/binom.bayes.R | 13 +++++++------
man/binom.confint.Rd | 18 ++++++++++++------
3 files changed, 21 insertions(+), 14 deletions(-)
Author: Achim Zeileis, Friedrich Leisch, Bruce Hansen,
Kurt Hornik, Christian Kleiber
Title: Testing, Monitoring and Dating Structural Changes
Description: Testing, monitoring and dating structural changes in (linear)
regression models. strucchange features tests/methods from
the generalized fluctuation test framework as well as from
the F test (Chow test) framework. This includes methods to
fit, plot and test fluctuation processes (e.g., CUSUM, MOSUM,
recursive/moving estimates) and F statistics, respectively.
It is possible to monitor incoming data online using
fluctuation processes.
Finally, the breakpoints in regression models with structural
changes can be estimated together with confidence intervals.
Emphasis is always given to methods for visualizing the data.
Diff between strucchange versions 1.3-3 dated 2008-04-23 and 1.3-4 dated 2008-10-04
DESCRIPTION | 6 ++--- NEWS | 7 +++++ inst/CITATION | 4 +-- inst/doc/strucchange-intro.Rnw | 23 ++++++++++++++++++- inst/doc/strucchange-intro.pdf | 48 ++++++++++++++++++++--------------------- 5 files changed, 58 insertions(+), 30 deletions(-)
Author: Friedrich Leisch and Bettina Gruen
Title: Flexible Mixture Modeling
Description: FlexMix implements a general framework for finite
mixtures of regression models using the EM algorithm.
FlexMix provides the E-step and all data handling, while the M-step can be
supplied by the user to easily define new models. Existing drivers
implement mixtures of standard linear models, generalized linear
models and model-based clustering.
Diff between flexmix versions 2.1-0 dated 2008-05-09 and 2.2-0 dated 2008-10-03
flexmix-2.1-0/flexmix/inst/doc/vignette.cls |only flexmix-2.2-0/flexmix/DESCRIPTION | 8 flexmix-2.2-0/flexmix/NAMESPACE | 6 flexmix-2.2-0/flexmix/NEWS | 17 flexmix-2.2-0/flexmix/R/FLXMCmvpois.R | 4 flexmix-2.2-0/flexmix/R/classes.R | 4 flexmix-2.2-0/flexmix/R/concomitant.R | 27 flexmix-2.2-0/flexmix/R/examples.R | 51 flexmix-2.2-0/flexmix/R/flexmix.R | 26 flexmix-2.2-0/flexmix/R/models.R | 4 flexmix-2.2-0/flexmix/R/plot-flexmix.R | 5 flexmix-2.2-0/flexmix/R/plot-refit.R | 3 flexmix-2.2-0/flexmix/R/refit.R | 124 flexmix-2.2-0/flexmix/R/relabel.R |only flexmix-2.2-0/flexmix/R/robust.R |only flexmix-2.2-0/flexmix/R/stepFlexmix.R | 3 flexmix-2.2-0/flexmix/R/utils.R | 3 flexmix-2.2-0/flexmix/R/ziglm.R | 4 flexmix-2.2-0/flexmix/inst/CITATION | 24 flexmix-2.2-0/flexmix/inst/NEWS | 17 flexmix-2.2-0/flexmix/inst/doc/flexmix-intro.Rnw | 69 flexmix-2.2-0/flexmix/inst/doc/flexmix-intro.pdf | 3872 +++++++--------- flexmix-2.2-0/flexmix/inst/doc/flexmix.png |only flexmix-2.2-0/flexmix/inst/doc/jss.cls |only flexmix-2.2-0/flexmix/inst/doc/mixture-regressions.Rnw |only flexmix-2.2-0/flexmix/inst/doc/mixture-regressions.pdf |only flexmix-2.2-0/flexmix/inst/doc/mixture.bib |only flexmix-2.2-0/flexmix/inst/doc/myConcomitant.R |only flexmix-2.2-0/flexmix/inst/doc/regression-examples.Rnw | 150 flexmix-2.2-0/flexmix/inst/doc/regression-examples.pdf | 3894 ++++++++--------- flexmix-2.2-0/flexmix/inst/doc/ziglm.R |only flexmix-2.2-0/flexmix/man/ExLinear.Rd |only flexmix-2.2-0/flexmix/man/FLXMRrobglm.Rd |only flexmix-2.2-0/flexmix/man/flexmix-internal.Rd | 5 flexmix-2.2-0/flexmix/man/relabel.Rd |only 35 files changed, 3964 insertions(+), 4356 deletions(-)
Author: Gregoire Pau
Title: HTML Writer - Outputs R objects in HTML format
Description: Easy-to-use and versatile functions to output R objects in HTML format
Diff between hwriter versions 0.92 dated 2008-07-07 and 0.93 dated 2008-10-02
hwriter-0.92/hwriter/inst/doc/.nfs000000008f964cb400000104 |only hwriter-0.93/hwriter/DESCRIPTION | 4 hwriter-0.93/hwriter/R/example.R | 258 +++++++------ hwriter-0.93/hwriter/R/hwriter.R | 22 - hwriter-0.93/hwriter/R/page.R | 9 hwriter-0.93/hwriter/build.sh | 11 hwriter-0.93/hwriter/inst/doc/hwriter.pdf |binary hwriter-0.93/hwriter/man/hwriteImage.Rd | 10 hwriter-0.93/hwriter/man/openPage.Rd | 8 9 files changed, 179 insertions(+), 143 deletions(-)
Author: Harold C. Doran
Title: Miscellaneous Psychometrics
Description: Computes statistical analyses useful for applied psychometricians
Diff between MiscPsycho versions 1.2 dated 2008-03-03 and 1.3 dated 2008-10-02
DESCRIPTION | 7 ++++--- R/SL.R |only R/SLderivs.R |only R/stringMatch.R |only R/stringProbs.R |only Read-and-delete-me | 6 ++---- inst/doc/Levenshtein.pdf |only inst/doc/stock_lord.pdf |only man/SL.Rd |only man/SLderivs.Rd |only man/stringMatch.Rd |only man/stringProbs.Rd |only 12 files changed, 6 insertions(+), 7 deletions(-)
Author: Hsin-ya Lee
Diff between bear versions 1.1.4 dated 2008-09-11 and 1.1.5 dated 2008-10-02
Title: Average bioequivalence and bioavailability data analysis tool
Description: An average bioequivalence (ABE) and bioavailability data analysis tool including sample size estimation, noncompartmental analysis (NCA) and ANOVA (lm) for a standard RT/TR 2-treatment, 2-sequence, 2-period, and balanced, cross-over design
DESCRIPTION | 6 +--
R/GLManalyze.r | 74 ++++++++++++++++++++++----------------
R/GLMoutput.r | 83 +++++++++++++++++++++++++------------------
R/NCAGLManalyze.r | 83 +++++++++++++++++++++++--------------------
R/NCAanalyze.r | 4 +-
R/NCAoutput.r | 29 ++++++++++++++-
R/NCAplot.r | 24 +++++++++++-
R/bye.r | 2 -
R/demoGLM.r | 88 +++++++++++++++++++++++++--------------------
R/demoNCA.r | 8 ++++
R/demoNCAGLM.r | 104 ++++++++++++++++++++++++++++++++++--------------------
R/demosize.r | 6 +--
R/go.r | 4 +-
R/logdata.r | 4 +-
R/zzz.R | 2 -
15 files changed, 330 insertions(+), 191 deletions(-)
Author: Mathieu Pigeon, Michel Jacques, Vincent Goulet
Title: Modeling without data using expert opinion
Description: Expert opinion (or judgment) is a body of techniques to
estimate the distribution of a random variable when data is scarce
or unavailable. Opinions on the quantiles of the distribution are
sought from experts in the field and aggregated into a final
estimate. The package supports aggregation by means of the Cooke,
Mendel-Sheridan and predefined weights models.
Diff between expert versions 0.1-2 dated 2008-08-11 and 1.0-0 dated 2008-10-02
expert-0.1-2/expert/po/.svn |only expert-1.0-0/expert/DESCRIPTION | 40 ++++++++--------- expert-1.0-0/expert/R/cdf.R | 21 ++------ expert-1.0-0/expert/R/cooke.R | 39 +++++++++------- expert-1.0-0/expert/R/expert.R | 15 ++++-- expert-1.0-0/expert/R/hist.expert.R | 2 expert-1.0-0/expert/R/mean.expert.R | 2 expert-1.0-0/expert/R/ogive.R | 8 +-- expert-1.0-0/expert/R/print.expert.R | 2 expert-1.0-0/expert/R/quantile.expert.R | 23 +++++---- expert-1.0-0/expert/R/summary.expert.R | 10 +++- expert-1.0-0/expert/R/weights.R | 2 expert-1.0-0/expert/inst/NEWS | 21 ++++++++ expert-1.0-0/expert/inst/po/fr/LC_MESSAGES/R-expert.mo |binary expert-1.0-0/expert/man/cdf.Rd | 23 ++++++--- expert-1.0-0/expert/man/expert.Rd | 20 +++++--- expert-1.0-0/expert/man/hist.expert.Rd | 2 expert-1.0-0/expert/man/mean.expert.Rd | 2 expert-1.0-0/expert/man/ogive.Rd | 14 ++--- expert-1.0-0/expert/man/quantile.expert.Rd | 2 expert-1.0-0/expert/po/R-expert.pot | 4 - expert-1.0-0/expert/po/R-fr.po | 8 +-- 22 files changed, 154 insertions(+), 106 deletions(-)
Author: Karsten Tabelow
Diff between adimpro versions 0.6.3.1 dated 2008-06-03 and 0.7 dated 2008-10-02
Title: Adaptive Smoothing of Digital Images
Description: This package implements tools for manipulationg digital images and the Propagation Separation approach
by Polzehl and Spokoiny (2006) for smoothing digital images.
adimpro-0.6.3.1/adimpro/demo |only
adimpro-0.7/adimpro/DESCRIPTION | 6
adimpro-0.7/adimpro/NAMESPACE | 7
adimpro-0.7/adimpro/R/aniso.r | 72 ++---
adimpro-0.7/adimpro/R/awsimage.r | 165 +++++++-----
adimpro-0.7/adimpro/R/color.R | 279 +++++++++++++++++++++
adimpro-0.7/adimpro/R/demosaic.r |only
adimpro-0.7/adimpro/R/edges.R | 77 +++++
adimpro-0.7/adimpro/R/io.R | 39 ++-
adimpro-0.7/adimpro/R/misc.r | 55 ++++
adimpro-0.7/adimpro/R/segment.r |only
adimpro-0.7/adimpro/README | 32 ++
adimpro-0.7/adimpro/man/adimpro.Rd | 5
adimpro-0.7/adimpro/man/adimpro.options.Rd |only
adimpro-0.7/adimpro/man/adjust.image.Rd | 13 -
adimpro-0.7/adimpro/man/awsimage.Rd | 15 -
adimpro-0.7/adimpro/man/awsraw.Rd |only
adimpro-0.7/adimpro/man/clip.image.Rd | 3
adimpro-0.7/adimpro/man/colorspace.Rd | 8
adimpro-0.7/adimpro/man/combine.Rd |only
adimpro-0.7/adimpro/man/develop.raw.Rd | 8
adimpro-0.7/adimpro/man/edges.Rd | 22 -
adimpro-0.7/adimpro/man/extract.image.Rd | 4
adimpro-0.7/adimpro/man/imganiso2D.Rd | 10
adimpro-0.7/adimpro/man/plot.adimpro.Rd | 10
adimpro-0.7/adimpro/man/rotate.image.Rd | 11
adimpro-0.7/adimpro/man/segment.Rd |only
adimpro-0.7/adimpro/man/show.image.Rd | 10
adimpro-0.7/adimpro/man/shrink.image.Rd | 25 -
adimpro-0.7/adimpro/man/summary.adimpro.Rd | 4
adimpro-0.7/adimpro/man/write.image.Rd | 6
adimpro-0.7/adimpro/man/write.raw.Rd | 3
adimpro-0.7/adimpro/src/Rentries.c |only
adimpro-0.7/adimpro/src/aniso.f | 38 +-
adimpro-0.7/adimpro/src/awsimage.f | 82 +++---
adimpro-0.7/adimpro/src/awspimage.f | 311 +++++++++++-------------
adimpro-0.7/adimpro/src/demosaic.f | 375 +++++++++++++++++++++++++++++
adimpro-0.7/adimpro/src/misc.f |only
adimpro-0.7/adimpro/src/segment.f |only
adimpro-0.7/adimpro/src/shrink.f |only
adimpro-0.7/adimpro/src/smsensor.f |only
41 files changed, 1259 insertions(+), 436 deletions(-)
Author: J. O. Ramsay
Diff between fda versions 1.2.4 dated 2008-07-05 and 2.0.0 dated 2008-10-02
Title: Functional Data Analysis
Description: These functions were developed to support
functional data analysis as described in Ramsay, J. O.
and Silverman, B. W. (2005) Functional Data Analysis.
New York: Springer. They were ported from earlier
versions in Matlab and S-PLUS. A manual that describes
the use of these functions is available in this
library. The library also contains a number of the
data sets used in the book along with R code for the
analyses that produced many of the figures in the book.
fda-1.2.4/fda/R/data2fd.R |only
fda-1.2.4/fda/data/monthLetters.rda |only
fda-1.2.4/fda/man/data2fd.Rd |only
fda-2.0.0/fda/DESCRIPTION | 17
fda-2.0.0/fda/NEWS | 74
fda-2.0.0/fda/R/Data2fd.R |only
fda-2.0.0/fda/R/Fperm.fd.R |only
fda-2.0.0/fda/R/Fstat.fd.R |only
fda-2.0.0/fda/R/TaylorSpline.R |only
fda-2.0.0/fda/R/argvalsy.swap.R |only
fda-2.0.0/fda/R/as.array3.R |only
fda-2.0.0/fda/R/as.fd.R |only
fda-2.0.0/fda/R/as.function.fd.R |only
fda-2.0.0/fda/R/bsplinepen.R | 5
fda-2.0.0/fda/R/checkDims3.R |only
fda-2.0.0/fda/R/coef.R |only
fda-2.0.0/fda/R/create.bspline.basis.R | 75
fda-2.0.0/fda/R/create.monomial.basis.R | 55
fda-2.0.0/fda/R/data2fd.old.R |only
fda-2.0.0/fda/R/dim.fd.R |only
fda-2.0.0/fda/R/eval.basis.R | 4
fda-2.0.0/fda/R/fd.R | 4
fda-2.0.0/fda/R/fdlabels.R |only
fda-2.0.0/fda/R/knots.fd.R |only
fda-2.0.0/fda/R/lambda2gcv.R | 12
fda-2.0.0/fda/R/lines.fd.R | 28
fda-2.0.0/fda/R/lmeWinsor.R |only
fda-2.0.0/fda/R/monomial.R | 5
fda-2.0.0/fda/R/pca.fd.R | 6
fda-2.0.0/fda/R/plot.basisfd.R | 78
fda-2.0.0/fda/R/plot.fd.R | 178 -
fda-2.0.0/fda/R/plot.lmWinsor.R |only
fda-2.0.0/fda/R/plotfit.fd.R | 87
fda-2.0.0/fda/R/predict.lmeWnsor.R |only
fda-2.0.0/fda/R/smooth.basis.R | 60
fda-2.0.0/fda/R/smooth.basisPar.R | 7
fda-2.0.0/fda/R/tperm.fd.R |only
fda-2.0.0/fda/data/growth.rda |binary
fda-2.0.0/fda/demo/canadian-weather.R | 3136 +++++++++++++--------------
fda-2.0.0/fda/demo/gait.R | 694 ++---
fda-2.0.0/fda/demo/goodsindex.R | 326 +-
fda-2.0.0/fda/demo/growth.R | 865 +++----
fda-2.0.0/fda/demo/handwrit.R | 1483 ++++++------
fda-2.0.0/fda/inst/Matlab/fdaM/@basis/plot.m | 2
fda-2.0.0/fda/man/Data2fd.Rd |only
fda-2.0.0/fda/man/Fperm.fd.Rd |only
fda-2.0.0/fda/man/Fstat.fd.Rd |only
fda-2.0.0/fda/man/TaylorSpline.Rd |only
fda-2.0.0/fda/man/argvalsy.swap.Rd |only
fda-2.0.0/fda/man/arithmetic.basisfd.Rd | 6
fda-2.0.0/fda/man/arithmetic.fd.Rd | 33
fda-2.0.0/fda/man/as.array3.Rd |only
fda-2.0.0/fda/man/as.fd.Rd |only
fda-2.0.0/fda/man/as.function.fd.Rd |only
fda-2.0.0/fda/man/bsplinepen.Rd | 11
fda-2.0.0/fda/man/checkDims3.Rd |only
fda-2.0.0/fda/man/coef.Rd |only
fda-2.0.0/fda/man/create.bspline.basis.Rd | 36
fda-2.0.0/fda/man/create.fourier.basis.Rd | 219 -
fda-2.0.0/fda/man/create.monomial.basis.Rd | 12
fda-2.0.0/fda/man/data2fd.old.Rd |only
fda-2.0.0/fda/man/dateAccessories.Rd | 12
fda-2.0.0/fda/man/dim.fd.Rd |only
fda-2.0.0/fda/man/fd.Rd | 25
fda-2.0.0/fda/man/fdPar.Rd | 38
fda-2.0.0/fda/man/fda-package.Rd |only
fda-2.0.0/fda/man/fdlabels.Rd |only
fda-2.0.0/fda/man/gait.Rd | 2
fda-2.0.0/fda/man/knots.fd.Rd |only
fda-2.0.0/fda/man/lambda2gcv.Rd | 51
fda-2.0.0/fda/man/lines.fd.Rd | 43
fda-2.0.0/fda/man/lmWinsor.Rd | 4
fda-2.0.0/fda/man/lmeWinsor.Rd |only
fda-2.0.0/fda/man/plot.basisfd.Rd | 9
fda-2.0.0/fda/man/plot.fd.Rd | 18
fda-2.0.0/fda/man/plot.lmWinsor.Rd |only
fda-2.0.0/fda/man/plotfit.fd.Rd | 43
fda-2.0.0/fda/man/predict.lmeWinsor.Rd |only
fda-2.0.0/fda/man/smooth.basis.Rd | 33
fda-2.0.0/fda/man/smooth.basisPar.Rd | 60
fda-2.0.0/fda/man/smooth.fdPar.Rd | 14
fda-2.0.0/fda/man/smooth.monotone.Rd | 7
fda-2.0.0/fda/man/summary.basisfd.Rd | 7
fda-2.0.0/fda/man/tperm.fd.Rd |only
84 files changed, 4099 insertions(+), 3785 deletions(-)
Author: John Verzani
Diff between UsingR versions 0.1-8 dated 2007-10-27 and 0.1-10 dated 2008-10-02
Title: Data sets for the text "Using R for Introductory Statistics"
Description: A collection of datasets to accompany the
textbook "Using R for Introductory Statistics."
DESCRIPTION | 7 +++----
R/simple.lm.R | 2 +-
man/chips.Rd | 2 --
man/dowdata.Rd | 5 ++++-
man/midsize.Rd | 1 -
man/sp500.excess.Rd | 2 --
man/twins.Rd | 3 ---
man/yahoo.get.hist.quote.Rd | 2 --
8 files changed, 8 insertions(+), 16 deletions(-)
Author: Vasyl Pihur
Diff between RankAggreg versions 0.1-1 dated 2008-02-11 and 0.2-1 dated 2008-10-02
Title: Weighted rank aggregation
Description: This package performs aggregation of ordered lists based on the ranks using three different algorithms: Cross-Entropy Monte Carlo algorithm, Genetic algorithm, and a brute force algorithm (for small problems)
DESCRIPTION | 9 +-
NAMESPACE | 4 -
R/BruteAggreg.R | 33 ++++++---
R/RankAggreg.R | 179 ++++++++++++++++++++++++++++-------------------------
R/kendall.R | 13 +--
R/mcmcProc.R | 19 +++--
R/plot.R |only
R/plotUpdate.R |only
R/print.R |only
R/spearman.R | 12 +--
data |only
inst |only
man/BruteAggreg.Rd | 21 ++++--
man/RankAggreg.Rd | 75 ++++++++++++++--------
man/geneLists.Rd |only
man/plot.raggr.Rd |only
16 files changed, 211 insertions(+), 154 deletions(-)
Author: Kenneth Knoblauch and Laurence T. Maloney,
based in part on C code written by Laurence T. Maloney
and J. N. Yang
Title: Maximum Likelihood Difference Scaling
Description: Difference scaling is a method for scaling perceived
supra-threshold differences. The package contains functions that
allow the user to design and run a difference scaling experiment,
to fit the resulting data by maximum likelihood and test the
internal validity of the estimated scale.
Diff between MLDS versions 0.1-2 dated 2008-08-27 and 0.1-4 dated 2008-10-02
DESCRIPTION | 6 +++--- NAMESPACE | 2 +- R/df2mlds.df.R |only inst/NEWS | 7 ++++++- man/df2mlds.df.Rd |only 5 files changed, 10 insertions(+), 5 deletions(-)
Author: Martin Elff
Title: Tools for Management of Survey Data, Graphics, Programming, Statistics, and Simulation
Description: One of the aims of this package is to make life easier for useRs
who deal with survey data sets. It provides an infrastructure for the management of
survey data including value labels, definable missing values, recoding of variables,
production of code books, and import of (subsets of) SPSS and Stata files.
Further, it provides functionality to produce tables and data frames of
arbitrary descriptive statistics and (almost) publication-ready tables
of regression model estimates. Also some convenience tools for
graphics, programming, and simulation are provided.
Diff between memisc versions 0.11-11 dated 2008-08-06 and 0.95-1 dated 2008-10-01
memisc-0.11-11/memisc/INDEX |only memisc-0.11-11/memisc/R/Transform.R |only memisc-0.11-11/memisc/R/aggregateDB.R |only memisc-0.11-11/memisc/man/Transform.Rd |only memisc-0.11-11/memisc/man/aggregateDB.Rd |only memisc-0.11-11/memisc/man/wtable.Rd |only memisc-0.95-1/memisc/DESCRIPTION | 29 memisc-0.95-1/memisc/NAMESPACE | 248 ++++ memisc-0.95-1/memisc/R/AllClasses.R |only memisc-0.95-1/memisc/R/AllGenerics.R |only memisc-0.95-1/memisc/R/AllInternalGenerics.R |only memisc-0.95-1/memisc/R/By.R | 12 memisc-0.95-1/memisc/R/Foreach.R |only memisc-0.95-1/memisc/R/Sapply.R | 133 -- memisc-0.95-1/memisc/R/Substitute.R |only memisc-0.95-1/memisc/R/Table.R |only memisc-0.95-1/memisc/R/Termplot.R | 292 ++++- memisc-0.95-1/memisc/R/aggregateFormula.R | 469 ++++---- memisc-0.95-1/memisc/R/annotation.R |only memisc-0.95-1/memisc/R/applyTemplate.R | 5 memisc-0.95-1/memisc/R/attch.R |only memisc-0.95-1/memisc/R/bucket.R |only memisc-0.95-1/memisc/R/cases.R |only memisc-0.95-1/memisc/R/codebook-methods.R |only memisc-0.95-1/memisc/R/collect.R |only memisc-0.95-1/memisc/R/compress-storage-modes.R |only memisc-0.95-1/memisc/R/contrasts.R |only memisc-0.95-1/memisc/R/dataset-methods.R |only memisc-0.95-1/memisc/R/expand.R |only memisc-0.95-1/memisc/R/fapply.R |only memisc-0.95-1/memisc/R/groupwise.R |only memisc-0.95-1/memisc/R/import-internal-common.R |only memisc-0.95-1/memisc/R/import-internal-spss-portable.R |only memisc-0.95-1/memisc/R/import-internal-spss-syntax.R |only memisc-0.95-1/memisc/R/import-internal-spss-sysfile.R |only memisc-0.95-1/memisc/R/import-internal-stata.R |only memisc-0.95-1/memisc/R/importer-methods.R |only memisc-0.95-1/memisc/R/item-methods.R |only memisc-0.95-1/memisc/R/mcf.R | 282 ----- memisc-0.95-1/memisc/R/measurement.R |only memisc-0.95-1/memisc/R/mkHelpDir.R |only memisc-0.95-1/memisc/R/mtable.R | 901 ++++++++++------- memisc-0.95-1/memisc/R/panel-errbars.R |only memisc-0.95-1/memisc/R/percent.R |only memisc-0.95-1/memisc/R/predictionFrame.R | 74 - memisc-0.95-1/memisc/R/query.R |only memisc-0.95-1/memisc/R/quote.R |only memisc-0.95-1/memisc/R/recode.R |only memisc-0.95-1/memisc/R/rename.R |only memisc-0.95-1/memisc/R/retain.R |only memisc-0.95-1/memisc/R/sample_methods.R |only memisc-0.95-1/memisc/R/simplifyTypes.R |only memisc-0.95-1/memisc/R/simulate.R | 191 ++- memisc-0.95-1/memisc/R/sort.R |only memisc-0.95-1/memisc/R/spss-portable-methods.R |only memisc-0.95-1/memisc/R/spss-syntax-methods.R |only memisc-0.95-1/memisc/R/spss-sysfile-methods.R |only memisc-0.95-1/memisc/R/stata-methods.R |only memisc-0.95-1/memisc/R/tkStuff.R |only memisc-0.95-1/memisc/R/to-things.R |only memisc-0.95-1/memisc/R/tolatex-ftable.R |only memisc-0.95-1/memisc/R/tolatex-matrix.R |only memisc-0.95-1/memisc/R/unzip.R |only memisc-0.95-1/memisc/R/value-filters.R |only memisc-0.95-1/memisc/R/value-labels.R |only memisc-0.95-1/memisc/R/varpredict.R | 4 memisc-0.95-1/memisc/R/zzz.R |only memisc-0.95-1/memisc/demo |only memisc-0.95-1/memisc/inst |only memisc-0.95-1/memisc/man/00memisc.Rd |only memisc-0.95-1/memisc/man/By.Rd | 3 memisc-0.95-1/memisc/man/Descriptives.Rd |only memisc-0.95-1/memisc/man/Foreach.Rd |only memisc-0.95-1/memisc/man/Sapply.Rd | 6 memisc-0.95-1/memisc/man/Substitute.Rd |only memisc-0.95-1/memisc/man/Table.Rd |only memisc-0.95-1/memisc/man/Termplot.Rd | 93 + memisc-0.95-1/memisc/man/aggregateFormula.Rd | 81 + memisc-0.95-1/memisc/man/annotations.Rd |only memisc-0.95-1/memisc/man/applyTemplate.Rd | 2 memisc-0.95-1/memisc/man/as-array.Rd |only memisc-0.95-1/memisc/man/as.symbols.Rd |only memisc-0.95-1/memisc/man/buckets.Rd |only memisc-0.95-1/memisc/man/cases.Rd | 107 +- memisc-0.95-1/memisc/man/codebook.Rd |only memisc-0.95-1/memisc/man/collect.Rd |only memisc-0.95-1/memisc/man/contrasts.Rd |only memisc-0.95-1/memisc/man/dataSets.Rd |only memisc-0.95-1/memisc/man/dimrename.Rd | 21 memisc-0.95-1/memisc/man/errbars.Rd |only memisc-0.95-1/memisc/man/getSummary.Rd | 21 memisc-0.95-1/memisc/man/importers.Rd |only memisc-0.95-1/memisc/man/include.Rd |only memisc-0.95-1/memisc/man/items.Rd |only memisc-0.95-1/memisc/man/labels.Rd |only memisc-0.95-1/memisc/man/measurement.Rd |only memisc-0.95-1/memisc/man/mkHelpDir.Rd |only memisc-0.95-1/memisc/man/mtable.Rd | 161 +-- memisc-0.95-1/memisc/man/nin.Rd |only memisc-0.95-1/memisc/man/percent.Rd | 72 + memisc-0.95-1/memisc/man/predictionFrame.Rd | 18 memisc-0.95-1/memisc/man/query.Rd |only memisc-0.95-1/memisc/man/recode.Rd | 230 ++-- memisc-0.95-1/memisc/man/relabel.Rd | 55 - memisc-0.95-1/memisc/man/rename.Rd | 29 memisc-0.95-1/memisc/man/reorder.array.Rd | 9 memisc-0.95-1/memisc/man/retain.Rd |only memisc-0.95-1/memisc/man/sample-methods.Rd |only memisc-0.95-1/memisc/man/simulation.Rd | 126 +- memisc-0.95-1/memisc/man/sort-methods.Rd |only memisc-0.95-1/memisc/man/styles.Rd | 10 memisc-0.95-1/memisc/man/toDataFrame.Rd | 17 memisc-0.95-1/memisc/man/toLatexExtra.Rd |only memisc-0.95-1/memisc/man/trimws.Rd | 2 memisc-0.95-1/memisc/man/unzip.Rd |only memisc-0.95-1/memisc/man/utility-classes.Rd |only memisc-0.95-1/memisc/man/value-filters.Rd |only memisc-0.95-1/memisc/src/Makevars |only memisc-0.95-1/memisc/src/Makevars.in |only memisc-0.95-1/memisc/src/dta-for-R.c |only memisc-0.95-1/memisc/src/dumbswap.c |only memisc-0.95-1/memisc/src/dumbswap.h |only memisc-0.95-1/memisc/src/memisc.h |only memisc-0.95-1/memisc/src/ord_union.c |only memisc-0.95-1/memisc/src/parsehelpers.c |only memisc-0.95-1/memisc/src/pspp-portableStream-for-R.c |only memisc-0.95-1/memisc/src/pspp-system-for-R.c |only memisc-0.95-1/memisc/src/readfixed.c |only memisc-0.95-1/memisc/src/rofile.c |only memisc-0.95-1/memisc/src/rofile.h |only memisc-0.95-1/memisc/src/update_data_frame.c |only 131 files changed, 2298 insertions(+), 1405 deletions(-)
Author: Torsten Hothorn, Friedrich Leisch, Achim Zeileis
Title: Tools and Classes for Statistical Models
Description: A collection of tools to deal with statistical models.
The functionality is experimental and the user interface is likely to
change in the future. The documentation is rather terse, but packages `coin'
and `party' have some working examples. However, if you find the
implemented ideas interesting we would be very interested in a discussion
of this proposal. Contributions are more than welcome!
Diff between modeltools versions 0.2-15 dated 2008-05-09 and 0.2-16 dated 2008-10-01
CHANGES | 4 ++++ DESCRIPTION | 6 +++--- NAMESPACE | 4 ++-- R/Generics.R | 5 ++++- inst/CHANGES | 4 ++++ man/Generics.Rd | 5 +++++ 6 files changed, 22 insertions(+), 6 deletions(-)
Author: Sřren Hřjsgaard
Diff between doBy versions 3.2 dated 2008-09-18 and 3.3 dated 2008-10-01
Title: Groupwise computations of summary statistics and other utilities
Description: Facilities for groupwise computations of summary statistics and other facilities for working with grouped data (similar to what can be achieved by proc means or proc summary of the SAS system).
ChangeLog | 8 -
DESCRIPTION | 4
R/summaryBy.R | 9 -
inst/doc/doBy.pdf | 420 ++++++++++++++++++++++++++----------------------------
4 files changed, 218 insertions(+), 223 deletions(-)
Author: Andrew Gelman
Diff between arm versions 1.1-15 dated 2008-08-20 and 1.1-16 dated 2008-10-01
Title: Data Analysis Using Regression and Multilevel/Hierarchical Models
Description: R functions for processing lm, glm, mer and polr outputs.
CHANGELOG | 6 ++++++
DESCRIPTION | 6 +++---
R/coefplot.R | 42 +++++++++++++++++++++++-------------------
man/coefplot.Rd | 5 +++--
4 files changed, 35 insertions(+), 24 deletions(-)
Author: A.I. McLeod and Ying Zhang
Title: Subset AR Model Fitting
Description: Complete functions are given for model identification, estimation and diagnostic checking for AR and subset AR models. Two types of subset AR models are supported. One family of subset AR models, denoted by ARp, is formed by taking subet of the original AR coefficients and in the other, denoted by ARz, subsets of the partial autocorrelations are used. The main advantage of the ARz model is its applicability to very large order models.
Diff between FitAR versions 1.72 dated 2008-08-24 and 1.73 dated 2008-10-01
DESCRIPTION | 6 +++--- inst |only man/FitAR-package.Rd | 4 ++-- 3 files changed, 5 insertions(+), 5 deletions(-)
Author: Peter Carl, Brian G. Peterson
Title: Econometric tools for performance and risk analysis.
Description: Library of econometric functions for performance and risk analysis. This library aims to aid practitioners and researchers in utilizing the latest research in analysis of non-normal return streams. In general, this library is most tested on return (rather than price) data on a monthly scale, but most functions will work with daily or irregular return data as well.
Diff between PerformanceAnalytics versions 0.9.6 dated 2007-12-30 and 0.9.7 dated 2008-09-30
PerformanceAnalytics-0.9.6/PerformanceAnalytics/R/BetaCoKurtosis.R |only PerformanceAnalytics-0.9.6/PerformanceAnalytics/R/BetaCoSkewness.R |only PerformanceAnalytics-0.9.6/PerformanceAnalytics/R/BetaCoVariance.R |only PerformanceAnalytics-0.9.6/PerformanceAnalytics/R/CoKurtosis.R |only PerformanceAnalytics-0.9.6/PerformanceAnalytics/R/CoSkewness.R |only PerformanceAnalytics-0.9.6/PerformanceAnalytics/R/charts.RegressionDiagnostics.R |only PerformanceAnalytics-0.9.6/PerformanceAnalytics/R/moment.fourth.R |only PerformanceAnalytics-0.9.6/PerformanceAnalytics/R/moment.third.R |only PerformanceAnalytics-0.9.6/PerformanceAnalytics/man/BetaCoKurtosis.Rd |only PerformanceAnalytics-0.9.6/PerformanceAnalytics/man/BetaCoSkewness.Rd |only PerformanceAnalytics-0.9.6/PerformanceAnalytics/man/BetaCoVariance.Rd |only PerformanceAnalytics-0.9.6/PerformanceAnalytics/man/CoKurtosis.Rd |only PerformanceAnalytics-0.9.6/PerformanceAnalytics/man/CoSkewness.Rd |only PerformanceAnalytics-0.9.6/PerformanceAnalytics/man/chart.RegressionDiagnostics.Rd |only PerformanceAnalytics-0.9.6/PerformanceAnalytics/man/moment.fourth.Rd |only PerformanceAnalytics-0.9.6/PerformanceAnalytics/man/moment.third.Rd |only PerformanceAnalytics-0.9.7/PerformanceAnalytics/ChangeLog | 1443 +++++++++- PerformanceAnalytics-0.9.7/PerformanceAnalytics/DESCRIPTION | 11 PerformanceAnalytics-0.9.7/PerformanceAnalytics/NAMESPACE |only PerformanceAnalytics-0.9.7/PerformanceAnalytics/PA-log |only PerformanceAnalytics-0.9.7/PerformanceAnalytics/R/ActivePremium.R | 7 PerformanceAnalytics-0.9.7/PerformanceAnalytics/R/CAPM.alpha.R | 7 PerformanceAnalytics-0.9.7/PerformanceAnalytics/R/CAPM.beta.R | 131 PerformanceAnalytics-0.9.7/PerformanceAnalytics/R/CAPM.utils.R | 7 PerformanceAnalytics-0.9.7/PerformanceAnalytics/R/CalmarRatio.R | 7 PerformanceAnalytics-0.9.7/PerformanceAnalytics/R/CoMoments.R |only PerformanceAnalytics-0.9.7/PerformanceAnalytics/R/DownsideDeviation.R | 7 PerformanceAnalytics-0.9.7/PerformanceAnalytics/R/Drawdowns.R | 7 PerformanceAnalytics-0.9.7/PerformanceAnalytics/R/InformationRatio.R | 7 PerformanceAnalytics-0.9.7/PerformanceAnalytics/R/KellyRatio.R | 7 PerformanceAnalytics-0.9.7/PerformanceAnalytics/R/MultivariateMoments.R |only PerformanceAnalytics-0.9.7/PerformanceAnalytics/R/Omega.R | 18 PerformanceAnalytics-0.9.7/PerformanceAnalytics/R/Return.Geltner.R | 7 PerformanceAnalytics-0.9.7/PerformanceAnalytics/R/Return.annualized.R | 7 PerformanceAnalytics-0.9.7/PerformanceAnalytics/R/Return.calculate.R | 7 PerformanceAnalytics-0.9.7/PerformanceAnalytics/R/Return.clean.R |only PerformanceAnalytics-0.9.7/PerformanceAnalytics/R/Return.cumulative.R | 7 PerformanceAnalytics-0.9.7/PerformanceAnalytics/R/Return.excess.R | 7 PerformanceAnalytics-0.9.7/PerformanceAnalytics/R/Return.read.R | 11 PerformanceAnalytics-0.9.7/PerformanceAnalytics/R/SemiDeviation.R | 7 PerformanceAnalytics-0.9.7/PerformanceAnalytics/R/SharpeRatio.R | 7 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More information about PerformanceAnalytics at CRAN
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Author: Jari Oksanen, Roeland Kindt, Pierre Legendre, Bob O'Hara, Gavin L. Simpson,
Peter Solymos, M. Henry H. Stevens, Helene Wagner
Title: Community Ecology Package
Description: Ordination methods, diversity analysis and other
functions for community and vegetation ecologists.
Diff between vegan versions 1.13-2 dated 2008-08-20 and 1.15-0 dated 2008-09-30
DESCRIPTION | 10 R/add1.cca.R |only R/ade2vegancca.R |only R/allPerms.R | 13 R/anova.cca.R | 6 R/anova.ccabymargin.R | 37 R/anova.ccanull.R |only R/capscale.R | 2 R/commsimulator.R | 49 - R/drop1.cca.R |only R/numPerms.R | 97 +- R/oecosimu.R | 33 R/ordiParseFormula.R | 7 R/ordilabel.R |only R/ordiplot.R | 11 R/ordipointlabel.R |only R/orditkplot.R | 203 ++++ R/permCheck.R | 4 R/permControl.R | 6 R/permatfull.R |only R/permatswap.R |only R/permuplot.R | 5 R/permuted.index2.R | 41 - R/permutest.cca.R | 4 R/persp.tsallisaccum.R |only R/plot.cca.R | 5 R/plot.orditkplot.R | 8 R/plot.permat.R |only R/print.cca.R | 7 R/print.oecosimu.R | 21 R/print.permControl.R | 2 R/print.permat.R |only R/print.permutest.cca.R | 6 R/print.summary.permat.R |only R/scores.cca.R | 18 R/scores.rda.R | 6 R/specaccum.R | 1 R/summary.cca.R | 5 R/summary.permat.R |only R/treedive.R |only R/treeheight.R |only R/tsallis.R |only R/tsallisaccum.R |only R/wcmdscale.R |only inst/ChangeLog | 1625 +++++++-------------------------------- inst/NEWS | 76 + inst/doc/FAQ-vegan.pdf |binary inst/doc/FAQ-vegan.texi | 15 inst/doc/Makefile | 4 inst/doc/decision-vegan.Rnw | 2 inst/doc/decision-vegan.pdf | 1754 +++++++++++++++++++++---------------------- inst/doc/decision-vegan.tex | 31 inst/doc/diversity-vegan.Rnw | 2 inst/doc/diversity-vegan.pdf |binary inst/doc/diversity-vegan.tex | 67 - inst/doc/intro-vegan.Rnw | 8 inst/doc/intro-vegan.pdf |binary inst/doc/intro-vegan.tex | 87 +- man/add1.cca.Rd |only man/anova.cca.Rd | 41 - man/decostand.Rd | 3 man/deviance.cca.Rd | 9 man/nestedtemp.Rd |only man/oecosimu.Rd | 179 +--- man/ordilabel.Rd |only man/ordipointlabel.Rd |only man/orditkplot.Rd | 28 man/permCheck.Rd | 6 man/permatfull.Rd |only man/permuted.index2.Rd | 12 man/plot.cca.Rd | 20 man/treedive.Rd |only man/tsallis.Rd |only man/vegan-internal.Rd | 42 - man/wcmdscale.Rd |only src/nestedness.c |only 76 files changed, 1963 insertions(+), 2655 deletions(-)
Author: Peter Solymos
Title: Multivariate Count Data Handling in Ecology and Biogeography
Description: Object classes for long (database style, object class 'stcs') and wide (crosstabulated, object class 'mefa') representations of count data coded by sample, taxon and segment (i.e. sub populations, repeated measures) names. Supports easy processing of the count data along with relational data tables for samples and taxa. An object of class 'mefa' is a project specific compendium of the data and can be easily used in further analyses. Methods are provided for extraction, aggregation, conversion, plotting, summary and reporting of 'mefa' objects. Reports can be generated in plain text or LaTeX format.
Diff between mefa versions 1.1-4 dated 2008-09-22 and 2.0-0 dated 2008-09-30
mefa-1.1-4/mefa/R/accumulate.R |only mefa-1.1-4/mefa/R/add.attrib.R |only mefa-1.1-4/mefa/R/amf.R |only mefa-1.1-4/mefa/R/as.xcount.R |only mefa-1.1-4/mefa/R/binmat.R |only mefa-1.1-4/mefa/R/check.attrib.R |only mefa-1.1-4/mefa/R/drtsscount.R |only mefa-1.1-4/mefa/R/exclmf.R |only mefa-1.1-4/mefa/R/fill.count.R |only mefa-1.1-4/mefa/R/ivgen.R |only mefa-1.1-4/mefa/R/mapmf.R |only mefa-1.1-4/mefa/R/marmat.R |only mefa-1.1-4/mefa/R/msscount.R |only mefa-1.1-4/mefa/R/mxcount.R |only mefa-1.1-4/mefa/R/qdef.R |only mefa-1.1-4/mefa/R/sscount.R |only mefa-1.1-4/mefa/R/strify.R |only mefa-1.1-4/mefa/R/ttsscount.R |only mefa-1.1-4/mefa/R/xcount.R |only mefa-1.1-4/mefa/R/xorder.R |only mefa-1.1-4/mefa/data/dol.count.rda |only mefa-1.1-4/mefa/data/dol.sample.rda |only mefa-1.1-4/mefa/data/landsnail.rda |only mefa-1.1-4/mefa/data/vhabitat.rda |only mefa-1.1-4/mefa/data/vsample.rda |only mefa-1.1-4/mefa/data/vtable.rda |only mefa-1.1-4/mefa/demo |only mefa-1.1-4/mefa/inst/doc |only mefa-1.1-4/mefa/man/accumulate.Rd |only mefa-1.1-4/mefa/man/add.attrib.Rd |only mefa-1.1-4/mefa/man/amf.Rd |only mefa-1.1-4/mefa/man/as.xcount.Rd |only mefa-1.1-4/mefa/man/binmat.Rd |only mefa-1.1-4/mefa/man/check.attrib.Rd |only mefa-1.1-4/mefa/man/dol.count.Rd |only mefa-1.1-4/mefa/man/dol.sample.Rd |only mefa-1.1-4/mefa/man/drtsscount.Rd |only mefa-1.1-4/mefa/man/exclmf.Rd |only mefa-1.1-4/mefa/man/fill.count.Rd |only mefa-1.1-4/mefa/man/ivgen.Rd |only mefa-1.1-4/mefa/man/landsnail.Rd |only mefa-1.1-4/mefa/man/mapmf.Rd |only mefa-1.1-4/mefa/man/marmat.Rd |only mefa-1.1-4/mefa/man/mefa-package.Rd |only mefa-1.1-4/mefa/man/msscount.Rd |only mefa-1.1-4/mefa/man/mxcount.Rd |only mefa-1.1-4/mefa/man/qdef.Rd |only mefa-1.1-4/mefa/man/sscount.Rd |only mefa-1.1-4/mefa/man/strify.Rd |only mefa-1.1-4/mefa/man/ttsscount.Rd |only mefa-1.1-4/mefa/man/vhabitat.Rd |only mefa-1.1-4/mefa/man/vsample.Rd |only mefa-1.1-4/mefa/man/vtable.Rd |only mefa-1.1-4/mefa/man/xcount.Rd |only mefa-1.1-4/mefa/man/xorder.Rd |only mefa-2.0-0/mefa/DESCRIPTION | 10 mefa-2.0-0/mefa/R/aggregate.mefa.R |only mefa-2.0-0/mefa/R/as.mefa.R |only mefa-2.0-0/mefa/R/as.stcs.R |only mefa-2.0-0/mefa/R/boxplot.mefa.R |only mefa-2.0-0/mefa/R/dim.mefa.R |only mefa-2.0-0/mefa/R/dimnames.mefa.R |only mefa-2.0-0/mefa/R/extract.mefa.R |only mefa-2.0-0/mefa/R/fill.na.R |only mefa-2.0-0/mefa/R/image.mefa.R |only mefa-2.0-0/mefa/R/inflate.R | 41 +-- mefa-2.0-0/mefa/R/is.mefa.R |only mefa-2.0-0/mefa/R/is.stcs.R |only mefa-2.0-0/mefa/R/mefa.R | 251 ++++--------------- mefa-2.0-0/mefa/R/mefaCheck.R |only mefa-2.0-0/mefa/R/mefaCrosstab.R |only mefa-2.0-0/mefa/R/mefaTables.R |only mefa-2.0-0/mefa/R/mefalogo.R |only mefa-2.0-0/mefa/R/mefaweb.R | 10 mefa-2.0-0/mefa/R/melt.R |only mefa-2.0-0/mefa/R/melt.mefa.R |only mefa-2.0-0/mefa/R/plot.mefa.R |only mefa-2.0-0/mefa/R/print.mefa.R |only mefa-2.0-0/mefa/R/print.summary.mefa.R |only mefa-2.0-0/mefa/R/qvector.R |only mefa-2.0-0/mefa/R/report.R |only mefa-2.0-0/mefa/R/report.mefa.R | 416 +++++++++++++++++++++------------ mefa-2.0-0/mefa/R/stcs.R |only mefa-2.0-0/mefa/R/summary.mefa.R |only mefa-2.0-0/mefa/data/DOLINAcounts.rda |only mefa-2.0-0/mefa/data/DOLINAsamples.rda |only mefa-2.0-0/mefa/data/DOLINAtaxa.rda |only mefa-2.0-0/mefa/inst/CITATION | 10 mefa-2.0-0/mefa/inst/COPYING | 5 mefa-2.0-0/mefa/inst/ChangeLog | 42 +++ mefa-2.0-0/mefa/inst/SampleReport | 23 + mefa-2.0-0/mefa/man/aggregate.mefa.Rd |only mefa-2.0-0/mefa/man/dolina.Rd |only mefa-2.0-0/mefa/man/fill.na.Rd |only mefa-2.0-0/mefa/man/inflate.Rd | 74 ++--- mefa-2.0-0/mefa/man/mefa.Rd | 321 +++++++++++-------------- mefa-2.0-0/mefa/man/mefaCheck.Rd |only mefa-2.0-0/mefa/man/mefaCrosstab.Rd |only mefa-2.0-0/mefa/man/mefaTables.Rd |only mefa-2.0-0/mefa/man/mefadocs.Rd | 17 - mefa-2.0-0/mefa/man/mefalogo.Rd |only mefa-2.0-0/mefa/man/mefaweb.Rd | 14 - mefa-2.0-0/mefa/man/melt.mefa.Rd |only mefa-2.0-0/mefa/man/plot.mefa.Rd |only mefa-2.0-0/mefa/man/qvector.Rd |only mefa-2.0-0/mefa/man/report.mefa.Rd |only mefa-2.0-0/mefa/man/stcs.Rd |only 107 files changed, 612 insertions(+), 622 deletions(-)
Author: Kurt Hornik, with contributions from Christian Buchta,
Torsten Hothorn, Alexandros Karatzoglou, David Meyer, and
Achim Zeileis
Title: R/Weka interface
Description: An R interface to Weka (Version 3.5.8).
Weka is a collection of machine learning algorithms for data mining
tasks written in Java, containing tools for data pre-processing,
classification, regression, clustering, association rules, and
visualization. Both the R interface and Weka itself are contained
in the RWeka package. For more information on Weka see
http://www.cs.waikato.ac.nz/~ml/weka/.
Diff between RWeka versions 0.3-13 dated 2008-08-07 and 0.3-14 dated 2008-09-30
CHANGELOG | 4 ++-- DESCRIPTION | 6 +++--- R/classifiers.R | 4 ++++ R/evaluate.R | 7 +++---- R/readers.R | 2 +- inst/po/en@quot/LC_MESSAGES/R-RWeka.mo |binary po/R-RWeka.pot | 14 +++++++------- po/R-en@quot.po | 28 ++++++++++++---------------- 8 files changed, 32 insertions(+), 33 deletions(-)
Author: Michael Lawrence
Diff between RGtk2 versions 2.12.6 dated 2008-08-14 and 2.12.7 dated 2008-09-30
Title: R bindings for Gtk 2.8.0 and above
Description: Facilities in the R language for programming
graphical interfaces using Gtk, the Gimp Tool Kit.
DESCRIPTION | 8
R/RGtkDataFrame.R | 15
R/zzz.R | 7
configure | 1254 ++++++++++++++++++++++++++++++++----------------------
configure.in | 35 -
src/Makevars | 4
src/Makevars.in | 4
src/Rgtk.c | 47 +-
src/cairo-enums.h |only
9 files changed, 812 insertions(+), 562 deletions(-)
Author: Michael Hahsler, Christian Buchta and Kurt Hornik
Title: Infrastructure for seriation
Description: Infrastructure for seriation with an implementation of several
seriation/sequencing techniques to reorder matrices, dissimilarity
matrices, and dendrograms. Also contains some visualizations techniques
based on seriation.
Diff between seriation versions 0.1-5 dated 2008-08-22 and 0.1-6 dated 2008-09-29
DESCRIPTION | 6 +++--- NAMESPACE | 7 ++++++- R/dissplot.R | 2 +- inst/doc/seriation.pdf |binary 4 files changed, 10 insertions(+), 5 deletions(-)
Author: Jelle Goeman
Diff between penalized versions 0.9-21 dated 2008-04-27 and 0.9-22 dated 2008-09-29
Title: L1 (lasso) and L2 (ridge) penalized estimation in GLMs and in the Cox model
Description: A package for fitting possibly high dimensional penalized regression models. The penalty structure can be any combination of an L1 penalty (lasso), an L2 penalty (ridge) and a positivity constraint on the regression coefficients. The supported regression models are linear, logistic and poisson regression and the Cox Proportional Hazards model. Cross-validation routines allow optimization of the tuning parameters.
DESCRIPTION | 6
R/checkinput.R | 32
R/cvl.R | 4
changelog.txt | 25
inst/doc/Rplots.ps |35168 +++++++++++++++----------------
inst/doc/penalized-breslowplot.eps |13794 ++++++------
inst/doc/penalized-breslowplot.pdf |28670 ++++++++++++-------------
inst/doc/penalized-positivestepsplot.pdf | 4
inst/doc/penalized-profpathplot.eps | 3315 +-
inst/doc/penalized-profpathplot.pdf | 3320 +-
inst/doc/penalized-profplot1.eps | 230
inst/doc/penalized-profplot1.pdf | 236
inst/doc/penalized-profplot2.eps | 216
inst/doc/penalized-profplot2.pdf | 216
inst/doc/penalized-stepsplot.pdf | 4
inst/doc/penalized.Rnw | 4
inst/doc/penalized.log | 8
inst/doc/penalized.pdf |binary
inst/doc/penalized.tex | 14
man/cvl.Rd | 12
man/penalized.Rd | 6
man/penfit.Rd | 4
22 files changed, 42857 insertions(+), 42431 deletions(-)
Author: Chris Fraley and Adrian Raftery
Title: Model-Based Clustering / Normal Mixture Modeling
Description: Model-based clustering and normal mixture modeling
including Bayesian regularization
Diff between mclust versions 3.1-7 dated 2008-09-19 and 3.1-8 dated 2008-09-29
DESCRIPTION | 6 +++--- R/mclust.R | 25 ++++++++++++++----------- 2 files changed, 17 insertions(+), 14 deletions(-)
Author: Simon Urbanek
Diff between audio versions 0.1-2 dated 2008-09-29 and 0.1-3 dated 2008-09-29
Title: Audio Interface for R
Description: Interfaces to audio devices (mainly sample-based) from R to allow recording and playback of audio. Built-in devices include Windows MM, Mac OS X AudioUnits and PortAudio (the last one is very experimental).
DESCRIPTION | 2 +-
NEWS | 3 +++
src/driver.c | 8 ++++++++
3 files changed, 12 insertions(+), 1 deletion(-)
Author: Matthias Templ, Andreas Alfons
Title: Visualization and Imputation of Missing Values
Description: This package introduces new tools for the visualization of missing values in R, which can be used for exploring the data and the structure of the missing values. Depending on this structure, they may help to identify the mechanism generating the missings. A graphical user interface allows an easy handling of the implemented plot methods.
Diff between VIM versions 1.2 dated 2008-09-22 and 1.2.1 dated 2008-09-29
DESCRIPTION | 6 +++--- R/colormapMiss.R | 37 +++++++++++++++++++++++++++++-------- man/VIM-package.Rd | 2 +- man/colormapMiss.Rd | 9 ++++++++- 4 files changed, 41 insertions(+), 13 deletions(-)
Author: Arnaud Estoup, Gilles Guillot, Filipe Santos
Title: Simulation and MCMC inference of structure from genetic data
Description: Detection of structure from multilocus genetic data.
Diff between Geneland versions 3.1.0 dated 2008-09-28 and 3.1.2 dated 2008-09-29
ChangeLog | 19 - DESCRIPTION | 6 R/zzz.R | 9 inst/doc/Geneland-Doc.pdf |binary src/main.f | 439 ++++++++++++++++++++++------------------------ 5 files changed, 229 insertions(+), 244 deletions(-)
Author: Tom Price
Diff between waveclock versions 1.0-2 dated 2008-08-22 and 1.0-3 dated 2008-09-29
Title: Time-frequency analysis of cycling cell luminescence data
Description: waveclock is an R function designed to assess the period and
amplitude of cycling cell luminescence data. The function reconstructs
the modal frequencies from a continuous wavelet decomposition of the
luminescence data using the 'crazy climbers' algorithm described in
"Practical Time-Frequency Analysis: Gabor and Wavelet Transforms with
an Implementation in S", by Rene Carmona, Wen L. Hwang and Bruno
Torresani, Academic Press, 1998.
CHANGES | 7 +++++--
DESCRIPTION | 12 ++++++------
2 files changed, 11 insertions(+), 8 deletions(-)
Author: Tom Price
Diff between titan versions 1.0-14 dated 2008-05-25 and 1.0-15 dated 2008-09-29
Title: Titration analysis for mass spectrometry data
Description: GUI to analyze mass spectrometric data on the relative
abundance of two substances from a titration series.
Changes | 13 ++++++++-----
DESCRIPTION | 12 ++++++------
man/titan.Rd | 2 +-
3 files changed, 15 insertions(+), 12 deletions(-)
Author: Robert M. Pruzek
Diff between granova versions 1.0 dated 2007-08-14 and 1.2 dated 2008-09-29
Title: Graphical Analysis of Variance
Description: This small collection of functions provides distinctive graphics for display of anova
results. The two principal functions are granova.1w (a graphic for one way anova) and
granova.2w (a corresponding graphic for two way anova). These functions were written to display
data for any number of groups, regardless of their sizes (however, very large data sets or numbers of
groups are likely to be problematic). For these two functions a specialized approach is used
to construct data-based contrast vectors with respect to which anova data are displayed.
The result is that the graphics use straight lines, and flat surfaces, to help ensure clear
interpretations while being faithful to the standard effect tests in anova; the graphic
results are complementary to standard summary tables for these two basic kinds of analysis of variance.
Two additional functions are granova.ds (for comparing two dependent samples of data), and granova.contr
(which provides graphic displays for a priori contrasts). All functions provide relevant
numerical results to supplement the graphic displays of anova data.
The graphics based on these functions are aimed at students and non-statistician analysts; but they can
be generally helpful for identifying outliers, clusters, trends or the role of non-linear
transformations of data. In the case of granova.1w and granova.ds especially, several arguments have been
provided to facilitate construction of graphics that accommodate diverse features of data, and their
corresponding display requirements.
DESCRIPTION | 10 ++++---
NAMESPACE | 1
R/granova.1w.R | 18 ++++++++++--
R/granova.2w.R | 46 ++++++++++++++++++++++----------
R/granova.contr.R | 33 +++++++++++++++++------
R/granova.ds.R | 69 ++++++++++++++++++++++++-------------------------
man/granova-package.Rd |only
man/granova.1w.Rd | 40 ++++++++++++++++++++++------
man/granova.2w.Rd | 45 +++++++++++++++++++++++++------
man/granova.contr.Rd | 18 +++++++++---
man/granova.ds.Rd | 26 +++++++++++++-----
11 files changed, 215 insertions(+), 91 deletions(-)
Author: Tom Price
Diff between cgh versions 1.0-5 dated 2008-08-18 and 1.0-6 dated 2008-09-29
Title: Microarray CGH analysis using the Smith-Waterman algorithm
Description: Functions to analyze microarray comparative genome hybridization data using the Smith-Waterman algorithm
CHANGES | 3 +++
DESCRIPTION | 12 ++++++------
2 files changed, 9 insertions(+), 6 deletions(-)
Author: Peter Frommolt
Title: Inferences for bi- and trifactorial trial designs
Description: This package makes global and multiple inferences for given bi- and trifactorial clinical trial designs using bootstrap methods and a classical approach.
Diff between bifactorial versions 1.4 dated 2007-12-08 and 1.4.1 dated 2008-09-29
DESCRIPTION | 6 - NAMESPACE | 2 R/avemax_boot.R | 8 - R/libLoad.R | 4 R/margint_boot.R | 40 +++---- data/sidbp.rda |binary man/bifactorial.Rd | 2 src/Rcpp.cpp | 285 +++++++++++++++++++++++++---------------------------- src/Rcpp.h | 3 src/krit.cpp | 20 +-- 10 files changed, 182 insertions(+), 188 deletions(-)
Author: Felix Andrews
Diff between playwith versions 0.9-11 dated 2008-08-06 and 0.9-21 dated 2008-09-29
Title: A GUI for interactive plots using GTK+
Description: A GTK+ graphical user interface for exploring and editing R plots.
Also includes latticist, a Lattice-based tool for exploratory visualisation.
playwith-0.9-11/playwith/R/playTools.R |only
playwith-0.9-11/playwith/R/playTools_annotate.R |only
playwith-0.9-11/playwith/R/playTools_arrow.R |only
playwith-0.9-11/playwith/R/playTools_brush.R |only
playwith-0.9-11/playwith/R/playTools_clear.R |only
playwith-0.9-11/playwith/R/playTools_clickhandler.R |only
playwith-0.9-11/playwith/R/playTools_coords.R |only
playwith-0.9-11/playwith/R/playTools_copy.R |only
playwith-0.9-11/playwith/R/playTools_edit.annotations.R |only
playwith-0.9-11/playwith/R/playTools_edit.call.R |only
playwith-0.9-11/playwith/R/playTools_expand.R |only
playwith-0.9-11/playwith/R/playTools_help.R |only
playwith-0.9-11/playwith/R/playTools_identify.R |only
playwith-0.9-11/playwith/R/playTools_inspector.R |only
playwith-0.9-11/playwith/R/playTools_keep.R |only
playwith-0.9-11/playwith/R/playTools_options.R |only
playwith-0.9-11/playwith/R/playTools_print.R |only
playwith-0.9-11/playwith/R/playTools_save.R |only
playwith-0.9-11/playwith/R/playTools_settings.R |only
playwith-0.9-11/playwith/R/playTools_stayontop.R |only
playwith-0.9-11/playwith/R/playTools_theme.R |only
playwith-0.9-11/playwith/R/playTools_time.mode.R |only
playwith-0.9-11/playwith/R/playTools_undo.annotation.R |only
playwith-0.9-11/playwith/R/playTools_zero.R |only
playwith-0.9-11/playwith/R/playTools_zoom.R |only
playwith-0.9-11/playwith/R/playTools_zoom3d.R |only
playwith-0.9-11/playwith/man/playDev.Rd |only
playwith-0.9-11/playwith/man/playPrompt.Rd |only
playwith-0.9-11/playwith/man/playReplot.Rd |only
playwith-0.9-11/playwith/man/playTools.Rd |only
playwith-0.9-11/playwith/man/quickTool.Rd |only
playwith-0.9-11/playwith/man/whichSpace.Rd |only
playwith-0.9-21/playwith/DESCRIPTION | 17
playwith-0.9-21/playwith/NAMESPACE | 81
playwith-0.9-21/playwith/R/API.R | 974 +++--------
playwith-0.9-21/playwith/R/clickOrDrag.R |only
playwith-0.9-21/playwith/R/gridwork.R | 104 -
playwith-0.9-21/playwith/R/latticeStyleGUI.R |only
playwith-0.9-21/playwith/R/latticist.R | 1338 +++++++++++-----
playwith-0.9-21/playwith/R/parameterControlTool.R |only
playwith-0.9-21/playwith/R/playTools_data.R | 15
playwith-0.9-21/playwith/R/playwith.R | 737 ++++----
playwith-0.9-21/playwith/R/plotSettingsGui.R | 1000 ++++++-----
playwith-0.9-21/playwith/R/settings.R | 109 -
playwith-0.9-21/playwith/R/uiAnnotationActions.R |only
playwith-0.9-21/playwith/R/uiClickActions.R |only
playwith-0.9-21/playwith/R/uiGlobalActions.R |only
playwith-0.9-21/playwith/R/uiGrobActions.R |only
playwith-0.9-21/playwith/R/uiIdentifyActions.R |only
playwith-0.9-21/playwith/R/uiManager.R |only
playwith-0.9-21/playwith/R/uiOptionsActions.R |only
playwith-0.9-21/playwith/R/uiPlotActions.R |only
playwith-0.9-21/playwith/R/uiStyleActions.R |only
playwith-0.9-21/playwith/R/utilities.R | 38
playwith-0.9-21/playwith/R/xyData.R |only
playwith-0.9-21/playwith/demo |only
playwith-0.9-21/playwith/inst/NEWS | 22
playwith-0.9-21/playwith/inst/etc |only
playwith-0.9-21/playwith/man/callArg.Rd | 15
playwith-0.9-21/playwith/man/convertFromDevicePixels.Rd |only
playwith-0.9-21/playwith/man/custom.theme.black.Rd |only
playwith-0.9-21/playwith/man/latticeStyleDemo.Rd |only
playwith-0.9-21/playwith/man/latticeStyleGUI.Rd |only
playwith-0.9-21/playwith/man/latticist.Rd | 41
playwith-0.9-21/playwith/man/panel.usertext.Rd |only
playwith-0.9-21/playwith/man/parameterControlTool.Rd | 6
playwith-0.9-21/playwith/man/playDo.Rd | 30
playwith-0.9-21/playwith/man/playGetIDs.Rd | 42
playwith-0.9-21/playwith/man/playPointInput.Rd | 33
playwith-0.9-21/playwith/man/playSelectData.Rd | 24
playwith-0.9-21/playwith/man/playState.Rd | 212 +-
playwith-0.9-21/playwith/man/playwith.API.Rd | 453 ++---
playwith-0.9-21/playwith/man/playwith.Rd | 341 ++--
playwith-0.9-21/playwith/man/playwith.options.Rd | 33
playwith-0.9-21/playwith/man/plotCoords.Rd |only
playwith-0.9-21/playwith/man/rawXLim.Rd | 26
playwith-0.9-21/playwith/man/xyCoords.Rd | 39
77 files changed, 2965 insertions(+), 2765 deletions(-)
Author: Rob J Hyndman
Diff between forecasting versions 1.15 dated 2008-09-16 and 1.16 dated 2008-09-29
Bundle: forecasting
Contains: forecast fma Mcomp expsmooth
DESCRIPTION | 6 +++---
forecast/R/newarima2.R | 30 ++++++++++++++++++------------
2 files changed, 21 insertions(+), 15 deletions(-)
Author: Jean Hauser and Korbinian Strimmer
Title: Entropy and Mutual Information Estimation
Description: This package implements various estimators of entropy, such
as the shrinkage estimator by Hausser and Strimmer, the maximum likelihood
and the Millow-Madow estimator, various Bayesian estimators, and the
Chao-Shen estimator. It also offers an R interface to the NSB estimator.
Furthermore, it provides functions for estimating mutual information.
Diff between entropy versions 1.0.0 dated 2008-09-03 and 1.1.0 dated 2008-09-29
CHANGES | 5 +++++ DESCRIPTION | 15 ++++++++------- R/entropy.Dirichlet.R | 11 +++++++++-- R/entropy.empirical.R | 10 ++++++++-- R/entropy.plugin.R | 5 ++--- R/entropy.shrink.R | 10 ++++++++-- R/mi.plugin.R |only man/entropy.Dirichlet.Rd | 20 +++++++++++++++++--- man/entropy.empirical.Rd | 20 +++++++++++++++++--- man/entropy.shrink.Rd | 18 ++++++++++++++---- man/mi.plugin.Rd |only 11 files changed, 88 insertions(+), 26 deletions(-)
Author: Vinzenz Erhardt
Title: Zero Inflated Generalized Poisson (ZIGP) regression models
Description: Adapt and analyze and compare GP, ZIP and ZIGP regression models
Diff between ZIGP versions 2.4 dated 2008-07-28 and 2.5 dated 2008-09-29
DESCRIPTION | 6 +++--- R/FM.r | 2 +- R/fit.zigp.r | 16 ++++++++-------- R/gradient.r | 12 ++++++------ R/gradient1.r | 8 ++++---- R/loglikelihood.zigp.full.r | 14 +++++++------- R/loglikelihood.zigp.r | 18 +++++++++--------- R/loglikelihood.zigp.vuong.r | 18 +++++++++--------- R/optimized.run.r | 4 ++-- man/FM.rd | 3 ++- man/ZIGP-package.rd | 4 ++-- 11 files changed, 53 insertions(+), 52 deletions(-)
Author: Hsin-ya Lee
Diff between stab versions 0.0.2 dated 2008-05-20 and 0.0.3 dated 2008-09-28
Title: data analysis of drug stability
Description: A menu-driven package for data analysis of drug stability based on ICH guideline(such as estimation of shelf-life from a 3-batch profile.)
DESCRIPTION | 8 -
R/MultipleAnalyze.r | 238 ++++++++++++++++++++++++++++------------------------
R/SingleAnalyze.r | 12 +-
R/go.r | 5 +
R/zzz.R | 2
5 files changed, 149 insertions(+), 116 deletions(-)
Author: Roger Bivand
Title: Interface between GRASS 6 geographical information system and R
Description: Interpreted interface between GRASS 6 geographical
information system and R, based on starting R from within the GRASS
environment.
Diff between spgrass6 versions 0.5-11 dated 2008-08-08 and 0.5-13 dated 2008-09-28
ChangeLog | 8 +++++ DESCRIPTION | 8 ++--- R/bin_link.R | 83 +++++++++++++++++++++++++++++++++++++++++++------------ inst/ChangeLog | 8 +++++ man/readRAST6.Rd | 18 +++++++++-- 5 files changed, 99 insertions(+), 26 deletions(-)
Author: Adrian Baddeley
Diff between spatstat versions 1.14-2 dated 2008-09-08 and 1.14-3 dated 2008-09-28
Title: Spatial Point Pattern analysis, model-fitting, simulation, tests
Description: A package for analysing spatial data,
mainly Spatial Point Patterns, including multitype/marked points
and spatial covariates, in any two-dimensional spatial region.
Contains functions for plotting spatial data,
exploratory data analysis, model-fitting, simulation,
spatial sampling, model diagnostics,
and formal inference. Data types include point patterns,
line segment patterns, spatial windows, and
pixel images. Point process models can be
fitted to point pattern data. Cluster type models are fitted
by the method of minimum contrast. Very general Gibbs point
process models can be fitted to point pattern data
using a function ppm similar to lm or glm. Models may
include dependence on covariates, interpoint interaction
and dependence on marks. Fitted models can be simulated automatically.
Also provides facilities for formal inference (such as chi-squared
tests) and model diagnostics (including simulation
envelopes, residuals, residual plots and Q-Q plots).
DESCRIPTION | 6 +++---
INDEX | 2 ++
R/affine.S | 33 ++++++++++++++++++++++++++++++---
R/cut.ppp.R | 23 +++++++++++++++++++----
R/images.R | 18 ++++++++++++++++--
R/listof.R | 16 ++++++++++++++++
R/psp.R | 18 ++++++++++++++++--
R/quadratcount.R | 15 ++++++++++++---
R/quadratresample.R |only
R/tess.R | 9 +++++----
R/window.S | 9 ++++++++-
man/00spatstat.Rd | 17 +++++++++++++++--
man/as.owin.Rd | 6 ++++++
man/internal.Rd | 4 ++++
man/quadrat.test.Rd | 2 ++
man/quadratcount.Rd | 4 +++-
man/quadratresample.Rd |only
man/quadrats.Rd |only
man/shift.im.Rd | 19 ++++++++++++++++++-
man/shift.owin.Rd | 21 +++++++++++++++++++--
man/shift.ppp.Rd | 19 ++++++++++++++++++-
man/shift.psp.Rd | 19 ++++++++++++++++++-
man/tess.Rd | 5 +++--
23 files changed, 233 insertions(+), 32 deletions(-)
Author: Adrian Bowman and Adelchi Azzalini.
Ported to R by B. D. Ripley
Diff between sm versions 2.2-2 dated 2007-10-09 and 2.2-3 dated 2008-09-28
Title: Smoothing methods for nonparametric regression and density estimation
Description: This is software linked to the book
`Applied Smoothing Techniques for Data Analysis:
The Kernel Approach with S-Plus Illustrations' Oxford University Press.
ChangeLog | 4
DESCRIPTION | 8 -
R/density.r | 9 +-
R/discontinuity.r | 2
R/glm.r | 23 ++---
R/hselect.r | 10 +-
R/regression.r | 207 ++++++++++++++++++++++++++++++++----------------
R/rpanel.r | 71 +++++++---------
R/utilities.r | 7 -
R/variogram.r | 1
R/zzz.R | 4
inst/CITATION | 2
inst/history.txt | 1
inst/scripts/mildew.q | 6 -
inst/scripts/smackgam.q | 10 +-
inst/scripts/trwlgam1.q | 2
man/sm.density.Rd | 1
man/sm.options.Rd | 5 +
man/sm.regression.Rd | 4
19 files changed, 230 insertions(+), 147 deletions(-)
Author: Jerome Sueur
Diff between seewave versions 1.4.9 dated 2008-09-19 and 1.5.0 dated 2008-09-28
Title: Time wave analysis and graphical representation
Description: seewave provides functions for analysing, manipulating, displaying, editing and synthesizing time waves (particularly sound). This package processes time analysis (oscillograms and envelopes), spectral content, resonance quality factor, entropy, cross correlation and autocorrelation, zero-crossing, dominant frequency, analytic signal, frequency coherence, 2D and 3D spectrograms and many other analyses.
DESCRIPTION | 4 ++--
man/seewave.package.Rd | 2 +-
man/wav2flac.Rd | 4 +++-
3 files changed, 6 insertions(+), 4 deletions(-)
Author: R. Tibshirani, G. Chu, T. Hastie, Balasubramanian Narasimhan
Title: SAM: Significance Analysis of Microarrays
Description: Significance Analysis of Microarrays
Diff between samr versions 1.25 dated 2007-06-07 and 1.26 dated 2008-09-28
samr-1.25/samr/man/samr.Rcheck |only samr-1.26/samr/DESCRIPTION | 4 ++-- samr-1.26/samr/R/samr.morefuns.R | 16 ++++++++++------ 3 files changed, 12 insertions(+), 8 deletions(-)
Author: Matthew Denwood
Diff between runjags versions 0.9.0-4 dated 2008-09-01 and 0.9.1-6 dated 2008-09-28
Title: Run Bayesian MCMC Models in the BUGS syntax from Within R
Description: A set of functions to allow any user specified model to be run in JAGS from within R, returning the MCMC output as R objects. Includes functions to read external WinBUGS type textfiles, and allows several ways of automatically specifying model data from existing R objects or R functions. Also includes functions to automatically calculate model run length, autocorrealtion and Gelman Rubin statistic diagnostics for all models to simplify the process of checking chain convergence. Designed for maximum compatibility with WinBUGS syntax, although minor modification to existing .bug files will be required. Requires Just Another Gibbs Sampler (JAGS) for most functions, see: http://www-fis.iarc.fr/~martyn/software/jags/
DESCRIPTION | 11 +-
NAMESPACE |only
R/autorun.jags.R | 113 +++++++++++++++++++------
R/autorun.run.jagsfile.R | 142 +++++++++++++------------------
R/combine.mcmc.R | 5 -
R/invisible.R |only
R/new_unique.R | 5 -
R/read.winbugs.R | 211 ++++++++---------------------------------------
R/run.jags.R | 81 ++++++++++++------
R/testjags.R | 6 -
R/timestring.R | 2
inst/CITATION | 2
inst/version_history.txt | 61 ++++++++++++-
man/autorun.jags.Rd | 7 -
man/read.winbugs.Rd | 2
man/run.jags.Rd | 7 +
16 files changed, 322 insertions(+), 333 deletions(-)
Author: Karline Soetaert
Diff between rootSolve versions 1.1 dated 2008-06-02 and 1.2 dated 2008-09-28
Title: Nonlinear root finding, equilibrium and steady-state analysis of ordinary differential equations
Description: Routines to find the root of nonlinear functions, and to perform steady-state and equilibrium analysis of ordinary differential equations (ODE).
Includes routines that: (1) generate gradient and Jacobian matrices (full and banded),
(2) find roots of non-linear equations by the Newton-Raphson method,
(3) estimate steady-state conditions of a system of (differential) equations in full, banded or sparse form, using the Newton-Raphson method, or by dynamically running,
(4) solve the steady-state conditions for uni-and multicomponent 1-D and 2-D reactive transport models (boundary value problems of ODE) using the method of lines approach.
Includes fortran code.
DESCRIPTION | 10 +++----
NAMESPACE | 2 -
R/Roots.r | 64 +++++++++++++++++++++++++++++++++++++++++++--------
R/runsteady.r | 13 +++++++---
R/stode.r | 12 +++++----
R/stodes.r | 10 ++++---
inst/doc |only
man/gradient.Rd | 36 +++++++++++++++++++---------
man/hessian.Rd |only
man/jacobian.full.Rd | 2 -
man/multiroot.Rd | 43 ++++++++++++++++++++++++----------
man/rootSolve.Rd |only
man/runsteady.Rd | 23 +++++++++++-------
man/steady.1D.Rd | 36 +++++++++++++++++++---------
man/steady.Rd | 15 +++++++----
man/steady.band.Rd | 39 ++++++++++++++++++++++++++++++-
man/stode.Rd | 29 +++++++++++++++--------
man/stodes.Rd | 3 +-
src/call_runsteady.c | 17 +++++++++----
src/sparse.f | 19 +++++++++++++--
src/steady.f | 17 ++++++++++++-
21 files changed, 291 insertions(+), 99 deletions(-)
Author: Roland Fried
Diff between robfilter versions 2.1 dated 2008-08-20 and 2.2 dated 2008-09-28
Title: Robust Time Series Filters
Description: A set of functions to filter time series based on concepts from robust statistics.
DESCRIPTION | 6 +++---
R/madore.filter.R | 2 +-
2 files changed, 4 insertions(+), 4 deletions(-)
Author: Alex Couture-Beil
Diff between rjson versions 0.1.2 dated 2008-08-08 and 0.1.3 dated 2008-09-28
Title: JSON for R
Description: Converts R object into JSON objects and vice-versa
DESCRIPTION | 6 +++---
R/json.R | 14 +++++++++++++-
2 files changed, 16 insertions(+), 4 deletions(-)
Author: Timothy H. Keitt
Diff between rgdal versions 0.5-25 dated 2008-06-09 and 0.5-26 dated 2008-09-28
Title: Bindings for the Geospatial Data Abstraction Library
Description: Provides bindings to Frank Warmerdam's Geospatial Data Abstraction Library (GDAL) (>= 1.3.1) and access to projection/transformation operations from the PROJ.4 library. The GDAL and PROJ.4 libraries are external to the package, and, when installing the package from source, must be correctly installed first. Both GDAL raster and OGR vector map data can be imported into R, and GDAL raster data and OGR vector data exported. Use is made of classes defined in the sp package.
rgdal-0.5-25/rgdal/inst/gdal/GDALLogoBW.svg |only
rgdal-0.5-25/rgdal/inst/gdal/GDALLogoColor.svg |only
rgdal-0.5-25/rgdal/inst/gdal/GDALLogoGS.svg |only
rgdal-0.5-26/rgdal/ChangeLog | 12 ++++++++++++
rgdal-0.5-26/rgdal/DESCRIPTION | 6 +++---
rgdal-0.5-26/rgdal/R/sp_gdal.R | 11 +++++++----
rgdal-0.5-26/rgdal/inst/ChangeLog | 12 ++++++++++++
7 files changed, 34 insertions(+), 7 deletions(-)
Author: Hadley Wickham
Diff between reshape versions 0.8.0 dated 2007-07-07 and 0.8.1 dated 2008-09-28
Title: Flexibly reshape data.
Description: Reshape lets you flexibly restructure and aggregate data using just two functions: melt and cast.
reshape-0.8.0/reshape/CHANGES |only
reshape-0.8.0/reshape/R/iapply.r |only
reshape-0.8.0/reshape/man/compact-79.rd |only
reshape-0.8.0/reshape/man/compactify-fm.rd |only
reshape-0.8.0/reshape/man/decompactify-f0.rd |only
reshape-0.8.0/reshape/man/defaults-jw.rd |only
reshape-0.8.0/reshape/man/dims-7t.rd |only
reshape-0.8.0/reshape/man/iapply-5y.rd |only
reshape-0.8.0/reshape/man/rbind-fill-di.rd |only
reshape-0.8.0/reshape/man/reduce-cf.rd |only
reshape-0.8.0/reshape/man/reorder-factor-2y.rd |only
reshape-0.8.0/reshape/man/vdim-4r.rd |only
reshape-0.8.0/reshape/test |only
reshape-0.8.1/reshape/CHANGELOG |only
reshape-0.8.1/reshape/DESCRIPTION | 11
reshape-0.8.1/reshape/NEWS |only
reshape-0.8.1/reshape/R/cast.r | 31 +
reshape-0.8.1/reshape/R/dimnames.r | 89 +++--
reshape-0.8.1/reshape/R/factors.r | 33 --
reshape-0.8.1/reshape/R/formula.r | 10
reshape-0.8.1/reshape/R/melt.r | 195 +++++++-----
reshape-0.8.1/reshape/R/pretty.r | 54 +--
reshape-0.8.1/reshape/R/recast.r | 11
reshape-0.8.1/reshape/R/rescale.r | 36 +-
reshape-0.8.1/reshape/R/stamp.r | 29 -
reshape-0.8.1/reshape/R/utils.r | 222 +++++++-------
reshape-0.8.1/reshape/inst |only
reshape-0.8.1/reshape/load.r |only
reshape-0.8.1/reshape/man/as-data-frame-cast-df-v7.rd | 6
reshape-0.8.1/reshape/man/as-data-frame-cast-matrix-59.rd | 7
reshape-0.8.1/reshape/man/as-matrix-cast-df-bu.rd | 7
reshape-0.8.1/reshape/man/as-matrix-cast-matrix-2y.rd | 6
reshape-0.8.1/reshape/man/cast-9g.rd | 9
reshape-0.8.1/reshape/man/cast-matrix-hj.rd | 2
reshape-0.8.1/reshape/man/combine-factor-9x.rd | 4
reshape-0.8.1/reshape/man/condense-df-34.rd | 2
reshape-0.8.1/reshape/man/expand-grid-df-fl.rd | 4
reshape-0.8.1/reshape/man/guess-value-2f.rd |only
reshape-0.8.1/reshape/man/melt-array-e0.rd | 2
reshape-0.8.1/reshape/man/melt-cast-df-c7.rd | 6
reshape-0.8.1/reshape/man/melt-cast-matrix-vq.rd | 4
reshape-0.8.1/reshape/man/melt-check-j7.rd | 14
reshape-0.8.1/reshape/man/melt-data-frame-da.rd | 10
reshape-0.8.1/reshape/man/melt-default-gi.rd | 2
reshape-0.8.1/reshape/man/merge-all-hc.rd | 4
reshape-0.8.1/reshape/man/merge-recurse-2d.rd | 4
reshape-0.8.1/reshape/man/namerows-6u.rd |only
reshape-0.8.1/reshape/man/nested-by-92.rd | 4
reshape-0.8.1/reshape/man/nulldefault-ck.rd | 6
reshape-0.8.1/reshape/man/prettyprint-hy.rd | 7
reshape-0.8.1/reshape/man/rdimnames-11.rd | 4
reshape-0.8.1/reshape/man/rename-au.rd | 11
reshape-0.8.1/reshape/man/rescaler-data-frame-4u.rd | 2
reshape-0.8.1/reshape/man/rescaler-matrix-xv.rd | 2
reshape-0.8.1/reshape/man/round-any-u2.rd | 2
reshape-0.8.1/reshape/man/sort-df-aw.rd | 2
reshape-0.8.1/reshape/man/sparse-by.rd | 38 --
reshape-0.8.1/reshape/man/str-cast-matrix-ez.rd | 6
reshape-0.8.1/reshape/man/strip-dups-7t.rd | 2
reshape-0.8.1/reshape/man/uniquedefault-01.rd | 2
reshape-0.8.1/reshape/man/untable-1x.rd | 5
reshape-0.8.1/reshape/man/updatelist-50.rd | 2
62 files changed, 488 insertions(+), 421 deletions(-)
Author: Jonathan Weeks
Diff between plink versions 0.0-6 dated 2008-09-10 and 0.1-0 dated 2008-09-28
Title: IRT Separate Calibration Linking Methods
Description: This package uses item response theory methods to compute linking constants and conduct
chain linking of tests for multiple groups under a nonequivalent groups common item design.
It allows for mean/mean, mean/sigma, Haebara, and Stocking-Lord calibrations of dichotomous
(1PL, 2PL, and 3PL) and/or polytomous (graded response, partial credit/generalized partial
credit, nominal, and multiple-choice model) common items.
CITATION | 4 ++--
DESCRIPTION | 6 +++---
NAMESPACE | 4 +++-
NEWS | 11 +++++++++++
R/read.bilog.R |only
R/sep.pars.R | 2 +-
man/read.bilog.Rd |only
man/sep.pars-methods.Rd | 13 +++++++++----
8 files changed, 29 insertions(+), 11 deletions(-)
Author: Alexis Dinno
Diff between paran versions 1.3.6 dated 2008-05-02 and 1.4.0 dated 2008-09-28
Title: Horn's Test of Principal Components/Factors
Description: paran is an implementation of Horn's technique for numerically and graphically evaluating the components or factors retained in a principle components analysis (PCA) or common factor analysis (FA). Horn's method contrasts eigenvalues produced through a PCA or FA on a number of random data sets of uncorrelated variables with the same number of variables and observations as the experimental or observational data set to produce eigenvalues for components or factors that are adjusted for the sample error-induced inflation. Components with adjusted eigenvalues greater than one are retained. paran may also be used to conduct parallel analysis following Glorfeld's (1995) suggestions to reduce the likelihood of over-retention.
DESCRIPTION | 6 +++---
R/paran.R | 54 ++++++++++++++++++++++++++++++++++++++----------------
inst |only
man/paran.Rd | 23 +++++++++++++++--------
4 files changed, 56 insertions(+), 27 deletions(-)
Author: Douglas Bates
Diff between lme4 versions 0.999375-26 dated 2008-08-26 and 0.999375-27 dated 2008-09-28
Title: Linear mixed-effects models using S4 classes
Description: Fit linear and generalized linear mixed-effects models.
ChangeLog | 43
DESCRIPTION | 6
NAMESPACE | 1
R/AllClass.R | 31
R/carryOver.R | 304 +++-
R/lmer.R | 534 ++++++--
inst/doc/Doxyfile | 2
inst/doc/Implementation.pdf |binary
inst/doc/PLSvGLS.pdf |binary
inst/doc/Theory.Rnw | 2873 +++++++++++++++++---------------------------
inst/doc/Theory.pdf |binary
man/lmer.Rd | 2
man/mer-class.Rd | 2
man/ranef.Rd | 2
src/init.c | 2
src/lmer.c | 879 ++++++-------
src/lmer.h | 2
tests/lmer-1.Rout.save | 47
tests/nlmer.R | 12
tests/nlmer.Rout.save | 108 -
20 files changed, 2352 insertions(+), 2498 deletions(-)
Author: Brian Close
Diff between kza versions 0.91 dated 2005-06-07 and 1.00 dated 2008-09-28
Title: Kolmogorov-Zurbenko Adaptive Filters
Description: Time Series Analysis including break detection, spectral analysis, and wavelets; KZ Fourier Transforms.
kza-0.91/kza/src/date.h |only
kza-0.91/kza/src/date_int.c |only
kza-0.91/kza/src/kza_res.rc |only
kza-0.91/kza/src/texput.log |only
kza-1.00/kza/DESCRIPTION | 16 ++-
kza-1.00/kza/NAMESPACE |only
kza-1.00/kza/R/kza.R | 61 ++++++--------
kza-1.00/kza/R/kzfta.R |only
kza-1.00/kza/R/zzz.R | 2
kza-1.00/kza/TODO | 8 -
kza-1.00/kza/man/kz.Rd | 96 +++++++++++-----------
kza-1.00/kza/man/kza.Rd | 191 +++++++++++++++++++++-----------------------
kza-1.00/kza/man/kzft.Rd |only
kza-1.00/kza/man/kzp.Rd |only
kza-1.00/kza/man/kzsv.Rd | 60 ++++++-------
kza-1.00/kza/man/kztp.Rd |only
kza-1.00/kza/man/smooth.Rd |only
kza-1.00/kza/src/Rkza.c |only
kza-1.00/kza/src/kz.c | 3
kza-1.00/kza/src/kz.h | 33 ++++---
kza-1.00/kza/src/kza.c | 1
kza-1.00/kza/src/kzft.c |only
kza-1.00/kza/src/kzft.h |only
kza-1.00/kza/src/kzp.c |only
kza-1.00/kza/src/kztp.c |only
25 files changed, 240 insertions(+), 231 deletions(-)
Author: Alexandros Karatzoglou, Alex Smola, Kurt Hornik
Title: Kernel-based Machine Learning Lab
Description: Kernel-based machine learning methods for classification, regression,
clustering, novelty detection, quantile regression and dimensionality reduction.
Among other methods kernlab includes Support Vector Machines,
Spectral Clustering, Kernel PCA and a QP solver.
Diff between kernlab versions 0.9-7 dated 2008-08-07 and 0.9-8 dated 2008-09-28
DESCRIPTION | 8 ++++---- R/aobjects.R | 2 +- R/gausspr.R | 2 +- R/kkmeans.R | 2 +- R/kmmd.R | 12 +++++++----- R/kqr.R | 2 +- R/ksvm.R | 4 ++-- R/lssvm.R | 2 +- R/rvm.R | 2 +- R/sigest.R | 2 +- data/reuters.rda |binary man/kmmd.Rd | 2 +- 12 files changed, 21 insertions(+), 19 deletions(-)
Author: Frederick Novomestky
Diff between goalprog versions 1.0-1 dated 2008-02-07 and 1.0-2 dated 2008-09-28
Title: Weighted and lexicographical goal programming and optimization
Description: A collection of functions to solve weighted and lexicographical
goal programming problems as specified by Lee (1972) and Ignizio (1976).
DESCRIPTION | 8 ++++----
NAMESPACE | 5 +++++
R/check.ev.cp.R |only
R/ev.llgpcp.R |only
R/get.variable.class.R |only
R/llgp.R | 2 +-
R/llgpcp.R |only
R/llgpcptab.R |only
R/llgptab.R | 4 ++--
R/print.llgpcptab.R |only
man/check.ev.cp.Rd |only
man/get.variable.class.Rd |only
man/llgp.Rd | 3 +--
man/llgpcp.Rd |only
man/llgpcptab.Rd |only
man/print.llgpcptab.Rd |only
16 files changed, 13 insertions(+), 9 deletions(-)
Author: Juan R. González, Elizabeth H. Slate
Diff between gcmrec versions 0.9-2 dated 2005-11-18 and 1.0-2 dated 2008-09-28
Title: General class of models for recurrent event data
Description: Parameters estimation of the general semiparametric model for recurrent event data proposed by Peńa and Hollander.
gcmrec-0.9-2/gcmrec/INDEX |only
gcmrec-0.9-2/gcmrec/src/likepenal.f |only
gcmrec-1.0-2/gcmrec/DESCRIPTION | 11
gcmrec-1.0-2/gcmrec/R/gcmrec.R | 4
gcmrec-1.0-2/gcmrec/gcmrec |only
gcmrec-1.0-2/gcmrec/man/gcmrec.Rd | 2
gcmrec-1.0-2/gcmrec/man/plotgcmrec.Rd | 2
gcmrec-1.0-2/gcmrec/man/printgcmrec.Rd | 2
gcmrec-1.0-2/gcmrec/man/summarygcmrec.Rd | 2
gcmrec-1.0-2/gcmrec/src/gcmrec.f | 3030 +++++++++++++++----------------
10 files changed, 1525 insertions(+), 1528 deletions(-)
Author: Göran Broström
Title: Event History Analysis
Description: A package for survival and event history analysis
Diff between eha versions 1.2-2 dated 2008-08-26 and 1.2-3 dated 2008-09-28
DESCRIPTION | 6 +++--- R/wfunk.R | 14 ++++++++------ 2 files changed, 11 insertions(+), 9 deletions(-)
Author: Toni Giorgino
Diff between dtw versions 1.9-1 dated 2008-06-20 and 1.12-3 dated 2008-09-28
Title: Dynamic Time Warping algorithms
Description: Comprehensive implementation of Dynamic Time Warping
algorithms in R. DTW finds the optimal (least cumulative distance)
mapping between two time series. All common DTW variants are
covered, including local and global constraints, arbitrary timeseries
lenghts, distance definitions, MVM, etc. Package computes cumulative
distance, warping functions, plots, normalizations, etc.
DESCRIPTION | 4 -
R/backtrack.R | 6 +
R/dtw.R | 109 ++++++++++++++++++++++-------------
R/globalCostMatrix.R | 26 +++++---
R/plot.dtw.R | 56 +++++++++++++-----
R/stepPattern.R | 97 ++++++++++++++++++++-----------
R/warp.R | 22 +++----
R/warpArea.R | 2
R/window.R | 20 +++---
inst/ChangeLog | 3
inst/TODO | 2
man/dtw-package.Rd | 4 -
man/dtw.Rd | 133 +++++++++++++++++++++++++++----------------
man/dtwDist.Rd | 4 -
man/dtwPlot.Rd | 14 ++--
man/dtwPlotThreeWay.Rd | 40 ++++++++----
man/dtwPlotTwoWay.Rd | 49 ++++++++++-----
man/dtwWindowingFunctions.Rd | 24 +++----
man/mvm.Rd | 12 +--
man/stepPattern.Rd | 19 +++---
man/warp.Rd | 30 ++++-----
src/Makevars | 5 -
src/computeCM.c | 12 ++-
tests/dtw_test.R | 2
tests/dtw_test.Rout.save | 2
25 files changed, 433 insertions(+), 264 deletions(-)
Author: Przemyslaw Biecek (R code), Teresa Ledwina (support, descriptions)
Title: Data driven smooth test
Description: Support for data driven testing
Diff between ddst versions 1.0 dated 2008-08-08 and 1.01 dated 2008-09-28
ddst-1.0/ddst/data |only ddst-1.0/ddst/man/datasets.Rd |only ddst-1.01/ddst/DESCRIPTION | 12 ddst-1.01/ddst/NAMESPACE | 2 ddst-1.01/ddst/R/ddst.exp.test.R | 816 +++++++++++++++++++++ ddst-1.01/ddst/R/ddst.extr.test.R | 882 +++++++++++++++++++++++ ddst-1.01/ddst/R/ddst.norm.test.R | 1321 ++++++++++++++++++++++++++++++++++- ddst-1.01/ddst/R/ddst.uniform.test.R | 1 8 files changed, 3017 insertions(+), 17 deletions(-)
Author: Kurt Hornik, with contributions from Walter Boehm
Title: Cluster ensembles
Description: CLUster Ensembles
Diff between clue versions 0.3-23 dated 2008-04-23 and 0.3-24 dated 2008-09-28
DESCRIPTION | 10 - R/addtree.R | 2 R/consensus.R | 186 +++------------------------------- R/medoid.R | 2 R/ultrametric.R | 6 - inst/CITATION | 4 inst/doc/clue.pdf |binary inst/po/en@quot/LC_MESSAGES/R-clue.mo |binary man/consensus.Rd | 8 - man/dissimilarity.Rd | 17 ++- po/R-clue.pot | 18 ++- po/R-en@quot.po | 26 +++- 12 files changed, 81 insertions(+), 198 deletions(-)
Author: James E. Helmreich
Diff between PSAgraphics versions 1.1 dated 2008-08-31 and 1.2 dated 2008-09-28
Title: Propensity Score Analysis Graphics
Description: A collection of functions that primarily produce graphics to aid in a
Propensity Score Analysis (PSA). Functions include: cat.psa and box.psa to test
balance within strata of categorical and quantitative covariates,
circ.psa for a representation of the estimated effect size by stratum,
loess.psa that provides a graphic and loess based effect size estimate,
and various balance functions that provide measures of the balance achieved
via a PSA in a categorical covariate.
DESCRIPTION | 8 ++++----
R/circ.psa.R | 6 ++++--
R/loess.psa.R | 2 +-
man/circ.psa.Rd | 8 ++++----
man/loess.psa.Rd | 4 ++--
5 files changed, 15 insertions(+), 13 deletions(-)
Author: Douglas Bates
Diff between Matrix versions 0.999375-14 dated 2008-09-09 and 0.999375-15 dated 2008-09-28
Title: Sparse and Dense Matrix Classes and Methods
Description: Classes and methods for dense and sparse matrices and
operations on them using Lapack, CSparse and CHOLMOD
ChangeLog | 74 +
DESCRIPTION | 8
Done | 12
R/Auxiliaries.R | 2
R/Matrix.R | 2
R/Ops.R | 122 ++
R/Tsparse.R | 35
R/dMatrix.R | 23
R/diagMatrix.R | 26
R/dpoMatrix.R | 5
R/dppMatrix.R | 5
R/lsparseMatrix.R | 19
R/pMatrix.R | 1
TODO | 16
inst/Doxyfile | 6
inst/doc/Comparisons.pdf |binary
inst/doc/Design-issues.pdf | 984 ++++++++++++------------
inst/doc/Intro2Matrix.pdf | 1800 +++++++++++++++++++++++---------------------
inst/doc/Introduction.pdf |binary
inst/doc/sparseModels.pdf |binary
inst/test-tools.R | 44 -
man/ddiMatrix-class.Rd | 7
man/diagonalMatrix-class.Rd | 66 +
man/dpoMatrix-class.Rd | 4
man/ldiMatrix-class.Rd | 3
man/nearPD.Rd | 8
man/pMatrix-class.Rd | 1
src/Mutils.h | 4
src/chm_common.c | 11
src/cs.h | 8
src/cs_utils.c | 8
src/dgCMatrix.c | 4
src/dsCMatrix.c | 4
src/dsyMatrix.c | 2
tests/Simple.R | 8
tests/dpo-test.R | 31
tests/factorizing.R | 11
tests/indexing.R | 26
tests/indexing.Rout.save | 124 ++-
tests/validObj.R | 10
40 files changed, 2034 insertions(+), 1490 deletions(-)
Author: Arnaud Estoup, Gilles Guillot, Filipe Santos
Title: Simulation and MCMC inference of structure from genetic data
Description: Detection of structure from multilocus genetic data.
Diff between Geneland versions 3.0.2 dated 2008-08-18 and 3.1.0 dated 2008-09-28
Geneland-3.0.2/Geneland/R/PlanarProj.R |only Geneland-3.0.2/Geneland/man/PlanarProj.Rd |only Geneland-3.1.0/Geneland/ChangeLog | 36 - Geneland-3.1.0/Geneland/DESCRIPTION | 11 Geneland-3.1.0/Geneland/R/Geneland.GUI.R | 317 ++++++++++++- Geneland-3.1.0/Geneland/R/MCMC.R | 18 Geneland-3.1.0/Geneland/R/PlotTessellation.R | 4 Geneland-3.1.0/Geneland/R/PostProcessChain.R | 18 Geneland-3.1.0/Geneland/R/zzz.R | 13 Geneland-3.1.0/Geneland/inst/doc/Geneland-Doc.pdf |binary Geneland-3.1.0/Geneland/man/MCMC.Rd | 17 Geneland-3.1.0/Geneland/man/Plotnpop.Rd | 1 Geneland-3.1.0/Geneland/man/PostProcessChain.Rd | 21 Geneland-3.1.0/Geneland/man/gl2gp.Rd | 2 Geneland-3.1.0/Geneland/src/main.f | 511 ++++++++++++++-------- 15 files changed, 705 insertions(+), 264 deletions(-)
Author: Spencer Graves
Title: Companion to Tsay (2005) Analysis of Financial
Time Series
Description: R companion to Tsay (2005)
Analysis of Financial Time Series, 2nd ed. (Wiley).
Includes data sets, functions and script files
required to work some of the examples. Version 0.3-x
includes R objects for all data files used in the text
and script files to recreate most of the analyses in
chapters 1-3 and 9 plus parts of chapters 4 and 11.
Diff between FinTS versions 0.3-3 dated 2008-05-25 and 0.3-6 dated 2008-09-28
DESCRIPTION | 28 ++++++++++++++-------------- NAMESPACE |only R/runscript.R | 36 ++++++++++++++++++------------------ inst/scripts/ch09.R | 27 +++++++++++++++++++-------- man/FinTS-package.Rd |only 5 files changed, 51 insertions(+), 40 deletions(-)
Author: Pedro Brasil
Diff between DiagnosisMed versions 0.1.0 dated 2008-09-15 and 0.1.1 dated 2008-09-28
Title: Diagnostic test accuracy evaluation for medical professionals
Description: DiagnosisMed is a package to analyze data from diagnostic test accuracy evaluating health conditions. It is being built to be used by health professionals. This package is - or soon will be - able to estimate sample size for common situations in diagnostic test accuracy, estimate sensitivity and specificity from categorical and continuous test results including some evaluations of indeterminate results, or compare different analysis strategies into measures commonly used by health professionals.
DiagnosisMed-0.1.0/DiagnosisMed/man/print.diag.Rd |only
DiagnosisMed-0.1.1/DiagnosisMed/DESCRIPTION | 8 -
DiagnosisMed-0.1.1/DiagnosisMed/R/ROC.r | 33 ++++---
DiagnosisMed-0.1.1/DiagnosisMed/man/ROC.Rd | 94 ++++++++++----------
DiagnosisMed-0.1.1/DiagnosisMed/man/diagnosis.Rd | 41 ++++----
DiagnosisMed-0.1.1/DiagnosisMed/man/interact.ROC.Rd | 16 ++-
DiagnosisMed-0.1.1/DiagnosisMed/man/plot.diag.Rd | 24 +++--
7 files changed, 123 insertions(+), 93 deletions(-)
Author: Thomas Petzoldt
Title: Simulation of ecological (and other) dynamic systems
Description: Object oriented framework to simulate ecological (and other) dynamic systems
Diff between simecol versions 0.5-7 dated 2008-07-05 and 0.6 dated 2008-09-22
simecol-0.5-7/simecol/inst/doc/introduction.Rnw |only simecol-0.5-7/simecol/inst/doc/introduction.pdf |only simecol-0.5-7/simecol/work/compiledModel |only simecol-0.6/simecol/DESCRIPTION | 6 simecol-0.6/simecol/NAMESPACE | 7 simecol-0.6/simecol/R/aaa_classes.R | 14 simecol-0.6/simecol/R/accessors.R | 16 simecol-0.6/simecol/R/constructors.R | 17 simecol-0.6/simecol/R/iteration.R | 69 +- simecol-0.6/simecol/R/sim.R | 11 simecol-0.6/simecol/R/ssqOdeModel.R | 4 simecol-0.6/simecol/data/CA.rda |binary simecol-0.6/simecol/data/chemostat.rda |binary simecol-0.6/simecol/data/conway.rda |binary simecol-0.6/simecol/data/diffusion.rda |binary simecol-0.6/simecol/data/lv.rda |binary simecol-0.6/simecol/data/lv3.rda |binary simecol-0.6/simecol/data/upca.rda |binary simecol-0.6/simecol/demo/00Index | 1 simecol-0.6/simecol/demo/jss.R | 494 +++++++-------- simecol-0.6/simecol/demo/rwalk3d.R |only simecol-0.6/simecol/inst/NEWS | 11 simecol-0.6/simecol/inst/ToDo.txt | 15 simecol-0.6/simecol/inst/doc/index.html | 4 simecol-0.6/simecol/inst/doc/simecol-introduction.Rnw |only simecol-0.6/simecol/inst/doc/simecol-introduction.pdf |only simecol-0.6/simecol/inst/examples/dynload |only simecol-0.6/simecol/inst/examples/stoch_ca_simple.R | 27 simecol-0.6/simecol/man/as.simObj.Rd | 10 simecol-0.6/simecol/man/diffusion.Rd | 35 - simecol-0.6/simecol/man/fixParms.Rd | 2 simecol-0.6/simecol/man/initialize-methods.Rd | 12 simecol-0.6/simecol/man/iteration.Rd | 10 simecol-0.6/simecol/man/odeModel.Rd | 24 simecol-0.6/simecol/man/parms.Rd | 11 simecol-0.6/simecol/man/sEdit.Rd | 2 simecol-0.6/simecol/man/sim.Rd | 14 simecol-0.6/simecol/man/simecol-package.Rd | 85 +- simecol-0.6/simecol/work/obsolete/indbasedModel-class.Rd |only 39 files changed, 567 insertions(+), 334 deletions(-)
Author: John Fox
Diff between sem versions 0.9-12 dated 2008-04-06 and 0.9-13 dated 2008-09-22
Title: Structural Equation Models
Description: This package contains functions for fitting general linear structural
equation models (with observed and unobserved variables) by the method of
maximum likelihood using the RAM approach, and for fitting structural equations
in observed-variable models by two-stage least squares.
DESCRIPTION | 6 +++---
NAMESPACE | 3 ++-
R/sem.R | 19 ++++++++++++++++---
R/summary.sem.R | 3 ++-
inst/CHANGES | 6 ++++++
man/sem.Rd | 6 ++++++
6 files changed, 35 insertions(+), 8 deletions(-)
Author: Simon Urbanek
Diff between rJava versions 0.5-1 dated 2007-11-05 and 0.6-0 dated 2008-09-22
Title: Low-level R to Java interface
Description: Low-level interface to Java VM very much like .C/.Call and friends. Allows creation of objects, calling methods and accessing fields.
DESCRIPTION | 2
NEWS | 13 ++
R/jinit.R | 4
R/serialize.R |only
inst/java/boot/RJavaClassLoader$RJavaObjectInputStream.class |only
inst/java/boot/RJavaClassLoader$UnixFile.class |binary
inst/java/boot/RJavaClassLoader.class |binary
jri/RFactor.java | 8 +
man/jcall.Rd | 2
man/jcast.Rd | 4
man/jcheck.Rd | 17 ++-
man/jmemprof.Rd | 8 -
man/jnull.Rd | 6 -
man/jserialize.Rd |only
man/loader.Rd | 6 -
src/Makevars.in | 2
src/Rglue.c | 51 +++++++++++
src/arrayc.c | 2
src/init.c | 7 +
src/java/RJavaClassLoader$RJavaObjectInputStream.class |only
src/java/RJavaClassLoader$UnixFile.class |binary
src/java/RJavaClassLoader.class |binary
src/java/RJavaClassLoader.java | 18 +++
src/rJava.h | 9 +
src/tools.c | 2
25 files changed, 127 insertions(+), 34 deletions(-)
Author: Robert B. Gramacy
Diff between monomvn versions 1.4 dated 2008-07-20 and 1.4-1 dated 2008-09-22
Title: Estimation for multivariate normal data with monotone missingness
Description: Estimation of multivariate normal data of arbitrary dimension
where the pattern of missing data is monotone. Through the use of
parsimonious/shrinkage regressions (plsr, pcr, lasso, ridge, etc.),
where standard regressions fail, the package can handle an
(almost) arbitrary amount of missing data. The current version
supports maximum likelihood inference and beta implementation
of a Bayesian version employing a Bayesian lasso. A fully
functional standalone (beta) interface to the Bayesian lasso
(from Park & Casella) and ridge regression with model selection
via Reversible Jump is also provided
monomvn-1.4-1/monomvn/.Rbuildindex.20799 |only
monomvn-1.4-1/monomvn/ChangeLog | 18 +++++++++++++
monomvn-1.4-1/monomvn/DESCRIPTION | 6 ++--
monomvn-1.4-1/monomvn/R/kl.norm.R | 7 +++--
monomvn-1.4-1/monomvn/R/monomvn.R | 35 +++++++++++++++++---------
monomvn-1.4-1/monomvn/R/posdef.approx.R | 6 ++--
monomvn-1.4-1/monomvn/R/regress.R | 24 +++++++++++++----
monomvn-1.4-1/monomvn/R/regress.fact.R |only
monomvn-1.4-1/monomvn/man/metrics.Rd | 2 -
monomvn-1.4-1/monomvn/man/monomvn-internal.Rd | 1
monomvn-1.4-1/monomvn/man/monomvn.Rd | 31 +++++++++++------------
monomvn-1.4-1/monomvn/man/regress.Rd | 11 +++++---
monomvn-1.4-1/monomvn/src/matrix.c | 3 +-
monomvn-1.4/monomvn/.Rbuildindex.78724 |only
14 files changed, 98 insertions(+), 46 deletions(-)
Author: Arne Henningsen
Diff between micEcon versions 0.5-4 dated 2008-09-16 and 0.5-6 dated 2008-09-22
Title: Microeconomics
Description: Tools for microeconomic analysis and microeconomic modelling
DESCRIPTION | 6
INDEX | 2
R/front41Est.R |only
R/front41WriteInput.R | 37 ++++
front41.000 |only
front41.dta |only
front41.ins |only
front41.out |only
man/front41Est.Rd |only
man/front41ReadOutput.Rd | 2
man/front41WriteInput.Rd | 23 ++
tests/frontier41.R | 8 -
tests/frontier41.Rout.save | 350 ++++++++++++++++++++++++++++++++++++++++++++-
13 files changed, 413 insertions(+), 15 deletions(-)
Author: Peter Solymos
Title: Multivariate count data handling in ecology and biogeography
Description: R package for multivariate count data handling in ecology and biogeography. The name 'mefa' stands for the term 'metafaunistics' indicating that data handling is the most critical and sometimes most time consuming part of data analysis. The package contains object classes and functions to manipulate basic biotic (sample/species/count or crosstabulated) count data and relational attribute tables for samples and species. Functions can handle segments (eg. life stages, gender) within the count data and samples with zero count. Reports are generated in plain text or LaTeX format.
Diff between mefa versions 1.1-2 dated 2008-06-13 and 1.1-4 dated 2008-09-22
DESCRIPTION | 12 ++++++------ R/inflate.R | 4 ++-- inst/CITATION | 10 +++++----- inst/ChangeLog | 39 +++++++++++++++++++++++++-------------- inst/SampleReport | 2 +- inst/doc/mefa-vignette.Rnw | 2 +- inst/doc/mefa-vignette.pdf |binary man/mefa-package.Rd | 14 +++----------- 8 files changed, 43 insertions(+), 40 deletions(-)
Author: Dan Rabosky
Title: Likelihood Analysis of Speciation/Extinction Rates from Phylogenies
Description: laser implements maximum likelihood methods based on the birth-death
process to test whether diversification rates have changed over time and whether rates vary among lineages.
Diff between laser versions 2.1 dated 2008-05-25 and 2.2 dated 2008-09-22
laser-2.1/laser/R/Irvbd.R |only laser-2.1/laser/R/rvbd.R |only laser-2.1/laser/man/rvbd.Rd |only laser-2.2/laser/DESCRIPTION | 6 +++--- laser-2.2/laser/R/birthdeathSim.R |only laser-2.2/laser/R/fitdAICrc.R | 2 +- laser-2.2/laser/R/fitdAICrc.batch.R |only laser-2.2/laser/man/DensityDependent.Rd | 2 +- laser-2.2/laser/man/bd.Rd | 2 +- laser-2.2/laser/man/birthdeathSim.Rd |only laser-2.2/laser/man/calcLHbd.Rd | 2 +- laser-2.2/laser/man/fitdAICrc.Rd | 9 +++++---- laser-2.2/laser/man/fitdAICrc.batch.Rd |only laser-2.2/laser/man/laser-internals.Rd | 1 - laser-2.2/laser/man/laser-package.Rd | 4 ++-- laser-2.2/laser/man/pureBirth.Rd | 2 +- laser-2.2/laser/man/yuleWindow.Rd | 2 +- 17 files changed, 16 insertions(+), 16 deletions(-)
Author: Matthias Templ, Andreas Alfons
Title: Visualization and Imputation of Missing Values
Description: This package introduces new tools for the visualization of missing values in \R, which can be used for exploring the data and the structure of the missing values. Depending on this structure, they may help to identify the mechanism generating the missings. A graphical user interface allows an easy handling of the implemented plot methods.
Diff between VIM versions 1.1 dated 2008-02-11 and 1.2 dated 2008-09-22
VIM-1.1/VIM/R/Northarrow.R |only VIM-1.1/VIM/R/bubbleFIN.R |only VIM-1.1/VIM/R/circles.R |only VIM-1.1/VIM/R/histmiss.R |only VIM-1.1/VIM/R/iimagmiss.R |only VIM-1.1/VIM/R/parcoordmiss.R |only VIM-1.1/VIM/R/roundpretty.R |only VIM-1.1/VIM/R/roundpretty.sub.R |only VIM-1.1/VIM/R/unit.R |only VIM-1.1/VIM/man/Northarrow.Rd |only VIM-1.1/VIM/man/bubbleFIN.Rd |only VIM-1.1/VIM/man/circles.Rd |only VIM-1.1/VIM/man/histmiss.Rd |only VIM-1.1/VIM/man/iimagmiss.Rd |only VIM-1.1/VIM/man/parcoordmiss.Rd |only VIM-1.1/VIM/man/roundpretty.Rd |only VIM-1.1/VIM/man/roundpretty.sub.Rd |only VIM-1.1/VIM/man/unit.Rd |only VIM-1.2/VIM/DESCRIPTION | 15 VIM-1.2/VIM/R/aggr.R | 5 VIM-1.2/VIM/R/barMiss.R |only VIM-1.2/VIM/R/bgmap.R |only VIM-1.2/VIM/R/bubbleMiss.R |only VIM-1.2/VIM/R/colormapMiss.R |only VIM-1.2/VIM/R/histMiss.R |only VIM-1.2/VIM/R/iimagMiss.R |only VIM-1.2/VIM/R/initialise.R | 1 VIM-1.2/VIM/R/mapMiss.R |only VIM-1.2/VIM/R/marginplot.R | 109 +- VIM-1.2/VIM/R/parcoordMiss.R |only VIM-1.2/VIM/R/pbox.R | 145 ++ VIM-1.2/VIM/R/plot.aggr.R | 74 + VIM-1.2/VIM/R/prepare.R | 62 - VIM-1.2/VIM/R/print.aggr.R | 12 VIM-1.2/VIM/R/scattJitt.R |only VIM-1.2/VIM/R/scattMiss.R |only VIM-1.2/VIM/R/scattmatrixMiss.R |only VIM-1.2/VIM/R/spineMiss.R | 63 + VIM-1.2/VIM/R/utilities.R |only VIM-1.2/VIM/R/vmGUImenu.R | 1949 +++++++++++++------------------------ VIM-1.2/VIM/R/zzz.R | 17 VIM-1.2/VIM/man/VIM-package.Rd | 57 - VIM-1.2/VIM/man/aggr.Rd | 37 VIM-1.2/VIM/man/alphablend.Rd |only VIM-1.2/VIM/man/barMiss.Rd |only VIM-1.2/VIM/man/bgmap.Rd |only VIM-1.2/VIM/man/bubbleMiss.Rd |only VIM-1.2/VIM/man/chorizonDL.Rd | 30 VIM-1.2/VIM/man/colormapMiss.Rd |only VIM-1.2/VIM/man/histMiss.Rd |only VIM-1.2/VIM/man/iimagMiss.Rd |only VIM-1.2/VIM/man/mapMiss.Rd |only VIM-1.2/VIM/man/marginplot.Rd | 60 - VIM-1.2/VIM/man/parcoordMiss.Rd |only VIM-1.2/VIM/man/pbox.Rd | 53 - VIM-1.2/VIM/man/plot.aggr.Rd | 57 - VIM-1.2/VIM/man/prepare.Rd | 68 - VIM-1.2/VIM/man/print.aggr.Rd | 20 VIM-1.2/VIM/man/scattJitt.Rd |only VIM-1.2/VIM/man/scattMiss.Rd |only VIM-1.2/VIM/man/scattmatrixMiss.Rd |only VIM-1.2/VIM/man/sleep.Rd | 16 VIM-1.2/VIM/man/spineMiss.Rd | 74 + VIM-1.2/VIM/man/summary.aggr.Rd | 20 VIM-1.2/VIM/man/tao.Rd | 15 VIM-1.2/VIM/man/utilities.Rd |only VIM-1.2/VIM/man/vmGUImenu.Rd | 35 67 files changed, 1442 insertions(+), 1552 deletions(-)
Author: John Fox
Diff between Rcmdr versions 1.4-1 dated 2008-09-15 and 1.4-2 dated 2008-09-22
Title: R Commander
Description:
A platform-independent basic-statistics GUI (graphical user interface) for R, based on the tcltk package.
Rcmdr-1.4-1/Rcmdr/.project |only
Rcmdr-1.4-2/Rcmdr/DESCRIPTION | 6
Rcmdr-1.4-2/Rcmdr/R/cluster.R | 6
Rcmdr-1.4-2/Rcmdr/R/commander.R | 10 -
Rcmdr-1.4-2/Rcmdr/R/data-menu.R | 117 ++++++-----
Rcmdr-1.4-2/Rcmdr/R/distributions-menu.R | 117 ++++++++++-
Rcmdr-1.4-2/Rcmdr/R/distributions-plotDistributions-menu.R | 52 ++++-
Rcmdr-1.4-2/Rcmdr/R/distributions-sample.R | 128 +++++++++----
Rcmdr-1.4-2/Rcmdr/R/utilities.R | 19 +
Rcmdr-1.4-2/Rcmdr/inst/CHANGES | 8
Rcmdr-1.4-2/Rcmdr/inst/doc/Commander-ru.pdf |only
Rcmdr-1.4-2/Rcmdr/inst/po/ru/LC_MESSAGES/R-Rcmdr.mo |binary
Rcmdr-1.4-2/Rcmdr/man/Rcmdr-package.Rd | 4
Rcmdr-1.4-2/Rcmdr/po/R-Rcmdr.pot | 16 +
Rcmdr-1.4-2/Rcmdr/po/R-ru.po | 4
15 files changed, 356 insertions(+), 131 deletions(-)
Author: S. M. Barbosa
Title: Time series autoregressive-based decomposition
Description: Package ArDec implements autoregressive-based decomposition of a time series based on the constructive approach in West (1997). Particular cases include the extraction of trend and seasonal components. Uncertainty on the resulting components can be derived from sampling of the autoregressive model which is written as a linear regression model and handled on a Bayesian framework.
Diff between ArDec versions 1.1-4 dated 2008-04-04 and 1.2-0 dated 2008-09-22
ChangeLog |only DESCRIPTION | 10 ++-- R/ardec.R | 115 ++++++++++++++++++++++-------------------------- R/ardec.components.R | 28 +++++++---- R/ardec.lm.R | 34 ++++++-------- R/ardec.lm.bayes.R | 46 ++++++++----------- R/ardec.sampling.R | 26 ++++------ data/tempEng.rda |binary man/ardec.Rd | 13 ++++- man/ardec.components.Rd | 18 ++++--- man/ardec.lm.Rd | 22 ++++----- 11 files changed, 155 insertions(+), 157 deletions(-)
Author: Christian Hennig
Diff between prabclus versions 2.1-1 dated 2007-11-17 and 2.1-2 dated 2008-09-21
Title: Functions for clustering of presence-absence and abundance data
Description: Distance-based parametric bootstrap tests for clustering,
mainly intended for presence-absence data and abundance data
(clustering of species
distribution ranges). Jaccard, Kulczynski, quantitative Kulczynski
and geco distance measures,
clustering of presence-absence and abundance data, and nearest neighbor
based noise detection (R port of Byers
and Raftery's (1998) "NNclean"). Main functions are prabtest, abundtest (for
testing), prabclust (for clustering), prabinit (for preparing the data)
and NNclean (for noise detection). The help-pages for prabtest, abundtest and
prabclust contain simple standard executions. Note that the use of the
package mclust (called by function prabclust) is protected by a special
license, see http://www.stat.washington.edu/mclust/license.txt, particularly
point 6.
DESCRIPTION | 6 +++---
R/abundfunctions.R | 16 ++++++++--------
R/prabclust.R | 9 ++++++---
man/abundtest.Rd | 9 ++++++---
man/prabclust.Rd | 20 ++++++++++++++++++--
5 files changed, 41 insertions(+), 19 deletions(-)
Author: Ulrike Groemping
Title: Inequality constrained inference in linear normal situations
Description: This package implements parameter estimation in normal (linear) models under linear equality and inequality constraints and implements normal likelihood ratio tests involving inequality-constrained hypotheses. For inequality-constrained linear models, averaging over R-squared for different orderings of regressors is also included.
Diff between ic.infer versions 1.0-5 dated 2008-08-17 and 1.0-6 dated 2008-09-21
DESCRIPTION | 6 +++--- R/boot.orlm.R | 6 ------ R/orlm.default.R | 1 + inst/doc/News.pdf |binary 4 files changed, 4 insertions(+), 9 deletions(-)
Author: Jun Yan
Diff between copula versions 0.7-5 dated 2008-08-31 and 0.7-6 dated 2008-09-21
Title: Multivariate dependence with copulas
Description: Classes (S4) of commonly used copulas including elliptical (normal and t), Archimedean (Clayton, Gumbel, Frank, and Ali-Mikhail-Haq), extreme value (Husler-Reiss and Galambos), and other families (Plackett and Farlie-Gumbel-Morgenstern). Methods for density, distribution, random number generation, bivariate dependence measures, perspective and contour plots. Functions for fitting copula models. Independence tests among random variables and random vectors. Serial independence tests for univariate and multivariate continuous time series. Goodness-of-fit tests for copulas based on multipliers and on the parametric bootstrap.
ChangeLog | 12 ++++++++++++
DESCRIPTION | 6 +++---
NAMESPACE | 5 +++++
R/Classes.R | 10 ++++++++++
R/claytonCopula.R | 7 +++----
R/ellipCopula.R | 14 ++++++--------
R/frankCopula.R | 24 ++++++++++++------------
R/gofCopula.R | 2 +-
R/graphics.R | 3 +++
R/gumbelCopula.R | 7 +++----
R/indepCopula.R |only
R/plackettCopula.R | 9 ++++-----
man/Copula.Rd | 5 +++++
man/contour-methods.Rd | 4 +++-
man/gofCopula.Rd | 11 ++++++++---
man/indepCopula-class.Rd |only
man/indepCopula.Rd |only
man/persp-methods.Rd | 4 +++-
18 files changed, 81 insertions(+), 42 deletions(-)
Author: Jean Thioulouse
Diff between ade4TkGUI versions 0.2-2 dated 2007-10-02 and 0.2-3 dated 2008-09-21
Title: ade4 Tcl/Tk Graphical User Interface
Description: a Tcl/Tk GUI for some basic functions in the ade4 package
DESCRIPTION | 8 +++----
R/choose.R | 42 ++++++++++++++++++-------------------
R/dialog.s.value.R | 3 +-
R/ordiClust.R | 59 +++++++++++++++++++++++++++++++++++++----------------
4 files changed, 69 insertions(+), 43 deletions(-)
Author: Guy Nason
Diff between wavethresh versions 2.2-9 dated 2006-08-07 and 2.2-10 dated 2008-09-19
Title: Software to perform wavelet statistics and transforms.
Description: Software to perform 1-d and 2-d wavelet statistics and transforms
ChangeLog | 18 ++++++++++++++++++
DESCRIPTION | 10 +++++-----
R/pack8bit.R | 4 ++--
R/release.R | 6 +++---
R/wavethresh.R | 3 +--
TODO-MM | 8 --------
man/compress.imwd.Rd | 8 +++++++-
man/draw.wd.Rd | 6 +++---
man/imwd.Rd | 13 ++++++-------
man/imwd.object.Rd | 7 ++++---
man/pack8bit.Rd | 6 +++---
man/print.imwd.Rd | 3 +--
man/summary.imwd.Rd | 3 +--
man/summary.wd.Rd | 7 +++----
src/0_call-tree.h |only
tests/pack.R |only
16 files changed, 57 insertions(+), 45 deletions(-)
Author: Alberto Viglione
Title: Non-supervised Regional Frequency Analysis
Description: A collection of statistical tools for objective (non-supervised) applications
of the Regional Frequency Analysis methods in hydrology.
The package refers to the index-value method and, more precisely, helps the
hydrologist to: (1) regionalize the index-value; (2) form homogeneous regions
with similar growth curves; (3) fit distribution functions to the
empirical regional growth curves.
Diff between nsRFA versions 0.6-0 dated 2008-09-01 and 0.6-2 dated 2008-09-19
DESCRIPTION | 6 - R/BayesianMCMC.R | 61 ++++++++++++++++-- R/GOFlaio2004.R | 26 +++---- R/GOFmontecarlo.R | 18 ++--- R/MLlaio2004.R | 28 ++++---- R/MSClaio2008.R | 14 ++-- inst/doc/Fig1ElamirSeheult.Rnw | 13 +++ inst/doc/Fig1ElamirSeheult.pdf |binary inst/doc/MSClaio2008.pdf |binary inst/doc/nsRFA_ex01.pdf |binary inst/doc/nsRFA_ex02.Rnw |only inst/doc/nsRFA_ex02.pdf |only man/BayesianMCMC.Rd | 137 +++++++++++++++++++++++++++++++++++++---- man/GOFlaio2004.Rd | 29 ++++---- man/MLlaio2004.Rd | 39 +++++------ man/SERIESPLOTS.Rd | 6 + man/nsRFA-internal.Rd | 34 +++++----- man/nsRFA-package.Rd | 23 ++++-- man/traceWminim.Rd | 11 ++- 19 files changed, 317 insertions(+), 128 deletions(-)
Author: Raoul Grasman and Robert B. Gramacy
Diff between geometry versions 0.1-3 dated 2008-07-14 and 0.1-4 dated 2008-09-19
Title: Mesh generation and surface tesselation
Description: This package makes the qhull library (www.qhull.org) available in R,
in a similar manner as in Octave and MATLAB. Qhull computes convex hulls,
Delaunay triangulations, halfspace intersections about a point, Voronoi diagrams,
furthest-site Delaunay triangulations, and furthest-site Voronoi diagrams.
It runs in 2-d, 3-d, 4-d, and higher dimensions. It implements the Quickhull
algorithm for computing the convex hull. Qhull does not support constrained
Delaunay triangulations, or mesh generation of non-convex objects, but the
package does include some R functions that allow for this. Currently the package
only gives access to Delaunay triangulation and convex hull computation.
geometry-0.1-3/geometry/src/._convhulln.c |only
geometry-0.1-3/geometry/src/._delaunayn.c |only
geometry-0.1-3/geometry/src/._global.c |only
geometry-0.1-4/geometry/DESCRIPTION | 6
geometry-0.1-4/geometry/configure.ac | 2
geometry-0.1-4/geometry/src/convhulln.c | 271 +++++++++++++++---------------
6 files changed, 144 insertions(+), 135 deletions(-)
Author: Stig Mortensen
Diff between PSM versions 0.8-2 dated 2008-09-16 and 0.8-3 dated 2008-09-19
Title: Non-Linear Mixed-Effects modelling using Stochastic Differential Equations.
Description: This package provides functions for estimation of linear and non-linear mixed-effects models using stochastic differential equations. Moreover it provides functions for finding smoothed estimates of model states and for simulation. The package allows for any multivariate non-linear time-variant model to be specified, and it also handels multidimentional input, co-variates, missing observations and specification of dosage regimen.
DESCRIPTION | 6 +++---
R/PSM.plot.R | 37 +++++++++++++++++++++++++++----------
inst/doc/PSM.Rnw | 4 ++--
inst/doc/PSM.pdf |binary
man/PSM-package.Rd | 2 +-
man/PSM.estimate.Rd | 2 +-
man/PSM.plot.Rd | 32 +++++++++++++++++++++++++++-----
man/PSM.simulate.Rd | 2 +-
man/PSM.smooth.Rd | 2 +-
9 files changed, 63 insertions(+), 24 deletions(-)
Author: Jerome Sueur
Diff between seewave versions 1.4.8 dated 2008-04-14 and 1.4.9 dated 2008-09-19
Title: Time wave analysis and graphical representation
Description: seewave provides functions for analysing, manipulating, displaying, editing and synthesizing time waves (particularly sound). This package processes time analysis (oscillograms and envelopes), spectral content, resonance quality factor, entropy, cross correlation and autocorrelation, zero-crossing, dominant frequency, analytic signal, frequency coherence, 2D and 3D spectrograms and many other analyses.
DESCRIPTION | 9 -
R/seewave.r | 377 ++++++++++++++++++++++++++++++++-----------------
inst/CITATION | 2
man/diffspec.Rd | 4
man/drawenv.Rd |only
man/ffilter.Rd | 11 +
man/hilbert.Rd | 2
man/revw.Rd | 21 ++
man/seewave.package.Rd | 10 -
man/setenv.rd | 2
man/wav2flac.Rd |only
11 files changed, 288 insertions(+), 150 deletions(-)
Author: Trent McDonald
Title: Analysis of Mark-Recapture data
Description: Analysis of mark-recapture (capture-recapture) data using individual, time, and individual-time varying covariates. Version 1.X contains functions to estimate live-capture Cormack-Jolly-Seber open population models.
Diff between mra versions 1.3 dated 2008-06-27 and 2.1 dated 2008-09-19
mra-1.3/mra/src/mrawin.f95 |only mra-2.1/mra/DESCRIPTION | 6 mra-2.1/mra/R/F.3d.model.matrix.r |only mra-2.1/mra/R/F.cjs.estim.R | 319 ++++++++++++++++++----------------- mra-2.1/mra/R/F.cr.model.matrix.R | 131 +------------- mra-2.1/mra/R/F.huggins.estim.R |only mra-2.1/mra/R/ivar.R |only mra-2.1/mra/R/print.cjs.R | 18 + mra-2.1/mra/R/print.hug.R |only mra-2.1/mra/R/tvar.r |only mra-2.1/mra/man/F.3d.model.matrix.Rd |only mra-2.1/mra/man/F.cjs.covars.Rd | 14 - mra-2.1/mra/man/F.cjs.estim.Rd | 150 +++++++++++++--- mra-2.1/mra/man/F.cjs.gof.Rd | 6 mra-2.1/mra/man/F.cr.model.matrix.Rd | 20 +- mra-2.1/mra/man/F.huggins.estim.Rd |only mra-2.1/mra/man/F.sat.lik.Rd | 6 mra-2.1/mra/man/ivar.Rd |only mra-2.1/mra/man/lines.cjs.Rd | 3 mra-2.1/mra/man/mra-package.Rd |only mra-2.1/mra/man/plot.cjs.Rd | 3 mra-2.1/mra/man/predict.cjs.Rd | 2 mra-2.1/mra/man/print.cjs.Rd | 2 mra-2.1/mra/man/print.hug.Rd |only mra-2.1/mra/man/print.nhat.Rd | 2 mra-2.1/mra/man/residuals.cjs.Rd | 2 mra-2.1/mra/man/tvar.Rd |only mra-2.1/mra/src/Mrawin.f90 |only 28 files changed, 368 insertions(+), 316 deletions(-)
Author: Chris Fraley and Adrian Raftery
Title: Model-Based Clustering / Normal Mixture Modeling
Description: Model-based clustering and normal mixture modeling
including Bayesian regularization
Diff between mclust versions 3.1-6 dated 2008-08-21 and 3.1-7 dated 2008-09-19
CITATION | 65 ++++++++---------------------------------------------------- DESCRIPTION | 4 +-- R/mclust.R | 2 - R/zzz.R | 2 - 4 files changed, 13 insertions(+), 60 deletions(-)
Author: Michael Lawrence, John Verzani
Title: Toolkit implementation of gWidgets for RGtk2
Description: Port of gWidgets API to RGtk2
Diff between gWidgetsRGtk2 versions 0.0-42 dated 2008-09-12 and 0.0-43 dated 2008-09-19
ChangeLog | 13 +++++++++++++ DESCRIPTION | 4 ++-- R/gexpandgroup.R | 32 +++++++++++++++++++++++++++++++- R/ggrid.R | 32 ++++++++++++++++++++------------ R/glayout.R | 11 ++++++----- R/gtkStuff.R | 23 ++++++++++++++--------- man/gWidgetsRGtk2-undocumented.Rd | 1 + 7 files changed, 87 insertions(+), 29 deletions(-)
Author: Ott Toomet
Diff between maxLik versions 0.5-6 dated 2008-09-17 and 0.5-8 dated 2008-09-18
Title: Maximum Likelihood Estimation
Description: Tools for Maximum Likelihood Estimation
DESCRIPTION | 6 +++---
R/AIC.R | 4 ----
man/maxLik-internal.Rd | 1 -
3 files changed, 3 insertions(+), 8 deletions(-)
Author: Deepayan Sarkar
Diff between lattice versions 0.17-14 dated 2008-09-05 and 0.17-15 dated 2008-09-18
Title: Lattice Graphics
Description: Implementation of Trellis Graphics. See ?Lattice for a
brief introduction
DESCRIPTION | 6 +++---
R/axis.R | 4 ++--
R/interaction.R | 5 +++--
3 files changed, 8 insertions(+), 7 deletions(-)
Author: Anthony Lehmann (anthony.lehmann@unige.ch), Fabien Fivaz (fabien.fivaz@unine.ch), John Leathwick and Jake Overton, with contributions from many specialists from around the world
Title: Generalized Regression Analysis and Spatial Prediction for R
Description: GRASP is a general method for making spatial predictions of response variables (RV) using point surveys of the RV and spatial coverages of Predictor variables (PV). Originally, GRASP was developed to analyse, model and predict vegetation distribution over New Zealand. It has been used in all sorts of applications since then. (A. Lehmann, J.R. Leathwick & J.McC. Overton, 2002. GRASP. Ecological Modelling, 157: 189-207)
Diff between grasp versions 2.5-4 dated 2007-07-07 and 2.5-5 dated 2008-09-18
DESCRIPTION | 12 ++++++------ R/grasp.exp.distry.R | 4 ++-- R/grasp.int.plot.R | 2 +- 3 files changed, 9 insertions(+), 9 deletions(-)
Author: Christian Ritz
Diff between drc versions 1.4-2 dated 2008-05-06 and 1.4-7 dated 2008-09-18
Title: Analysis of dose-response curves
Description: Analysis of one or multiple curves with focus on concentration-response, dose-response and time-response curves used, for example in biology, environmental sciences, medicine, pharmacology, toxicology.
drc-1.4-2/drc/R/drmBinomial.R |only
drc-1.4-2/drc/R/expDecay.R |only
drc-1.4-2/drc/man/expDecay.Rd |only
drc-1.4-7/drc/DESCRIPTION | 8 +-
drc-1.4-7/drc/NAMESPACE | 2
drc-1.4-7/drc/R/asymreg.R | 2
drc-1.4-7/drc/R/drm.R | 40 ++++++------
drc-1.4-7/drc/R/drmEMbinomial.r |only
drc-1.4-7/drc/R/drmEMls.R | 18 ++++-
drc-1.4-7/drc/R/drmOpt.R | 17 +++--
drc-1.4-7/drc/R/expdecay.R |only
drc-1.4-7/drc/R/isobole.R | 107 +++++++++++++++++++++++++--------
drc-1.4-7/drc/R/mdrcBinomial.R | 3
drc-1.4-7/drc/R/mixdrc.R | 13 +++-
drc-1.4-7/drc/R/mixture.R | 2
drc-1.4-7/drc/R/plot.drc.R | 35 ++++++++--
drc-1.4-7/drc/data/O.mykiss.rda |only
drc-1.4-7/drc/data/vinclozolin.rda |only
drc-1.4-7/drc/man/LL.2.Rd | 3
drc-1.4-7/drc/man/LL.3.Rd | 4 -
drc-1.4-7/drc/man/LL.4.Rd | 3
drc-1.4-7/drc/man/LL.5.Rd | 3
drc-1.4-7/drc/man/O.mykiss.Rd |only
drc-1.4-7/drc/man/asymreg.Rd | 3
drc-1.4-7/drc/man/comped.Rd | 18 ++++-
drc-1.4-7/drc/man/drm.Rd | 2
drc-1.4-7/drc/man/expdecay.Rd |only
drc-1.4-7/drc/man/isobole.Rd | 11 ---
drc-1.4-7/drc/man/llogistic.Rd | 8 ++
drc-1.4-7/drc/man/mecter.Rd | 4 -
drc-1.4-7/drc/man/mixture.Rd | 14 ++--
drc-1.4-7/drc/man/plot.drc.Rd | 4 -
drc-1.4-7/drc/man/print.summary.drc.Rd | 10 +--
drc-1.4-7/drc/man/vinclozolin.Rd |only
34 files changed, 231 insertions(+), 103 deletions(-)
Author: Sřren Hřjsgaard
Diff between doBy versions 3.1 dated 2008-06-13 and 3.2 dated 2008-09-18
Title: Groupwise computations of summary statistics and other utilities
Description: Facilities for groupwise computations of summary statistics and other facilities for working with grouped data (similar to what can be achieved by proc means or proc summary of the SAS system).
ChangeLog | 6
DESCRIPTION | 4
R/summaryBy.R | 434 ++++++++++++++++++++++------------------------
inst/doc/.build.timestamp |only
inst/doc/doBy.pdf | 421 +++++++++++++++++++++++---------------------
5 files changed, 437 insertions(+), 428 deletions(-)
Author: Achim Zeileis, Kurt Hornik
Title: CRAN Task Views
Description: Server-side and client-side tools for task views
to CRAN-style repositories
Diff between ctv versions 0.4-4 dated 2008-09-03 and 0.4-5 dated 2008-09-18
ctv-0.4-4/ctv/inst/ctv/TimeSeries.ct |only ctv-0.4-4/ctv/inst/doc/ctv-howto.tex |only ctv-0.4-5/ctv/DESCRIPTION | 6 ++-- ctv-0.4-5/ctv/NEWS | 6 ++++ ctv-0.4-5/ctv/R/ctv-server.R | 25 +++++++++++++++---- ctv-0.4-5/ctv/inst/ctv/ChemPhys.ctv |only ctv-0.4-5/ctv/inst/ctv/Finance.ctv | 12 +++++++-- ctv-0.4-5/ctv/inst/ctv/Genetics.ctv | 4 +-- ctv-0.4-5/ctv/inst/ctv/Graphics.ctv | 8 +++--- ctv-0.4-5/ctv/inst/ctv/NaturalLanguageProcessing.ctv | 24 ++++++++++++++++-- ctv-0.4-5/ctv/inst/ctv/Spatial.ctv | 5 +++ ctv-0.4-5/ctv/inst/ctv/TimeSeries.ctv |only ctv-0.4-5/ctv/inst/ctv/gR.ctv | 14 ++++++---- ctv-0.4-5/ctv/inst/doc/.build.timestamp |only ctv-0.4-5/ctv/inst/doc/ctv-howto.Rnw | 11 ++++---- ctv-0.4-5/ctv/inst/doc/ctv-howto.pdf |binary 16 files changed, 87 insertions(+), 28 deletions(-)
Author: Ott Toomet
Diff between maxLik versions 0.5-2 dated 2008-02-27 and 0.5-6 dated 2008-09-17
Title: Maximum Likelihood Estimation
Description: Tools for Maximum Likelihood Estimation
DESCRIPTION | 9 +--
INDEX | 1
R/AIC.R | 4 +
R/compareDerivatives.R | 82 ++++++++++++++++++++++----------
R/fnSubset.R |only
R/maxNM.R | 1
R/maxNR.R | 60 +++++++++++++++--------
R/summary.maxLik.R | 47 +++++++++---------
R/summary.maxim.R | 6 +-
man/compareDerivatives.Rd | 117 ++++++++++++++++++++++++++++++++++------------
man/fnSubset.Rd |only
man/maxLik-internal.Rd | 1
man/maxNR.Rd | 5 +
man/summary.maxLik.Rd | 17 +++++-
tests/examples.Rout.save | 40 +++++++--------
15 files changed, 262 insertions(+), 128 deletions(-)
Author: Ron Wehrens
Title: Supervised and unsupervised self-organising maps
Description: Supervised and unsupervised self-organising maps
Diff between kohonen versions 2.0.3 dated 2008-04-15 and 2.0.4 dated 2008-09-17
CHANGES | 9 +++ DESCRIPTION | 6 +- R/bdk.R | 25 +++++++--- R/check.whatmap.R | 1 R/predict.kohonen.R | 117 +++++++++++++++++++++++++++++-------------------- R/supersom.R | 70 ++++++++++++++++++++--------- R/tricolor.R |only R/xyf.R | 27 +++++++---- man/bdk.Rd | 5 -- man/predict.kohonen.Rd | 70 +++++++++++++++++++++++++++-- man/som.Rd | 5 -- man/supersom.Rd | 7 ++ man/tricolor.Rd |only man/xyf.Rd | 5 -- 14 files changed, 244 insertions(+), 103 deletions(-)
Author: Martin Schlather
Diff between RandomFields versions 1.3.34 dated 2008-08-24 and 1.3.35 dated 2008-09-17
Title: Simulation and Analysis of Random Fields
Description: Simulation of Gaussian and extreme value random fields;
conditional simulation; kriging
DESCRIPTION | 4 ++--
R/MLE.R | 12 ++++++++++++
man/CondSimu.Rd | 6 +++---
man/GaussRF.Rd | 5 +++--
man/RFparameters.Rd | 8 ++++----
man/useraction.Rd | 2 +-
tests/intrinsic.embedding.R | 6 ++++--
7 files changed, 29 insertions(+), 14 deletions(-)
Author: Dirk Eddelbuettel
Diff between RDieHarder versions 0.0.7 dated 2008-08-11 and 0.1.0 dated 2008-09-17
Title: R interface to the dieharder RNG test suite
Description: The RDieHarder packages provides an R interface to the
dieharder suite of random number generators and tests that was
developed by Robert G. Brown, extending earlier work by George
Marsaglia and others.
RDieHarder-0.0.7/RDieHarder/src/add_my_types.c |only
RDieHarder-0.0.7/RDieHarder/src/db_gnu_r_rngs.c |only
RDieHarder-0.0.7/RDieHarder/src/empty_random.c |only
RDieHarder-0.0.7/RDieHarder/src/test.c |only
RDieHarder-0.1.0/RDieHarder/DESCRIPTION | 10
RDieHarder-0.1.0/RDieHarder/NAMESPACE | 3
RDieHarder-0.1.0/RDieHarder/R/dieharder.R | 273
RDieHarder-0.1.0/RDieHarder/cleanup | 1
RDieHarder-0.1.0/RDieHarder/configure | 20
RDieHarder-0.1.0/RDieHarder/configure.in | 4
RDieHarder-0.1.0/RDieHarder/inst/doc/.build.timestamp |only
RDieHarder-0.1.0/RDieHarder/inst/doc/RDieHarder.pdf | 4647 ++++++----
RDieHarder-0.1.0/RDieHarder/man/dieharder.Rd | 125
RDieHarder-0.1.0/RDieHarder/src/add_ui_rngs.c |only
RDieHarder-0.1.0/RDieHarder/src/deprecated |only
RDieHarder-0.1.0/RDieHarder/src/dieharder.c | 357
RDieHarder-0.1.0/RDieHarder/src/dieharder.h | 139
RDieHarder-0.1.0/RDieHarder/src/dieharder_exit.c |only
RDieHarder-0.1.0/RDieHarder/src/help.c | 79
RDieHarder-0.1.0/RDieHarder/src/histogram.c | 5
RDieHarder-0.1.0/RDieHarder/src/list_rand.c |only
RDieHarder-0.1.0/RDieHarder/src/list_rngs.c | 75
RDieHarder-0.1.0/RDieHarder/src/list_tests.c |only
RDieHarder-0.1.0/RDieHarder/src/output.c |only
RDieHarder-0.1.0/RDieHarder/src/output.h |only
RDieHarder-0.1.0/RDieHarder/src/output_rnds.c | 5
RDieHarder-0.1.0/RDieHarder/src/parsecl.c | 38
RDieHarder-0.1.0/RDieHarder/src/rdieharder.c.unused |only
RDieHarder-0.1.0/RDieHarder/src/report.c.unused |only
RDieHarder-0.1.0/RDieHarder/src/rng_empty_random.c |only
RDieHarder-0.1.0/RDieHarder/src/run_diehard_2dsphere.c | 27
RDieHarder-0.1.0/RDieHarder/src/run_diehard_3dsphere.c | 26
RDieHarder-0.1.0/RDieHarder/src/run_diehard_birthdays.c | 39
RDieHarder-0.1.0/RDieHarder/src/run_diehard_bitstream.c | 26
RDieHarder-0.1.0/RDieHarder/src/run_diehard_count_1s_byte.c | 26
RDieHarder-0.1.0/RDieHarder/src/run_diehard_count_1s_stream.c | 26
RDieHarder-0.1.0/RDieHarder/src/run_diehard_craps.c | 28
RDieHarder-0.1.0/RDieHarder/src/run_diehard_dna.c | 26
RDieHarder-0.1.0/RDieHarder/src/run_diehard_operm5.c | 27
RDieHarder-0.1.0/RDieHarder/src/run_diehard_opso.c | 26
RDieHarder-0.1.0/RDieHarder/src/run_diehard_oqso.c | 26
RDieHarder-0.1.0/RDieHarder/src/run_diehard_parking_lot.c | 26
RDieHarder-0.1.0/RDieHarder/src/run_diehard_rank_32x32.c | 29
RDieHarder-0.1.0/RDieHarder/src/run_diehard_rank_6x8.c | 28
RDieHarder-0.1.0/RDieHarder/src/run_diehard_runs.c | 29
RDieHarder-0.1.0/RDieHarder/src/run_diehard_squeeze.c | 26
RDieHarder-0.1.0/RDieHarder/src/run_diehard_sums.c | 31
RDieHarder-0.1.0/RDieHarder/src/run_marsaglia_tsang_gcd.c | 30
RDieHarder-0.1.0/RDieHarder/src/run_rgb_bitdist.c | 37
RDieHarder-0.1.0/RDieHarder/src/run_rgb_lagged_sums.c |only
RDieHarder-0.1.0/RDieHarder/src/run_rgb_minimum_distance.c |only
RDieHarder-0.1.0/RDieHarder/src/run_rgb_operm.c |only
RDieHarder-0.1.0/RDieHarder/src/run_rgb_permutations.c |only
RDieHarder-0.1.0/RDieHarder/src/run_rgb_timing.c | 17
RDieHarder-0.1.0/RDieHarder/src/run_sts_monobit.c | 26
RDieHarder-0.1.0/RDieHarder/src/run_sts_runs.c | 26
RDieHarder-0.1.0/RDieHarder/src/run_sts_serial.c |only
RDieHarder-0.1.0/RDieHarder/src/run_user_template.c | 35
RDieHarder-0.1.0/RDieHarder/src/startup.c | 277
RDieHarder-0.1.0/RDieHarder/src/table.c.unused |only
RDieHarder-0.1.0/RDieHarder/src/user_template.c | 28
RDieHarder-0.1.0/RDieHarder/src/user_template.h | 16
RDieHarder-0.1.0/RDieHarder/src/work.c | 86
RDieHarder-0.1.0/RDieHarder/tests/RDieHarder.Rout.save | 8
RDieHarder-0.1.0/RDieHarder/tests/basicRuns.R |only
RDieHarder-0.1.0/RDieHarder/tests/basicRuns.Rout.save |only
66 files changed, 3915 insertions(+), 2924 deletions(-)
Author: Andy Bunn
Title: Dendrochronology Program Library in R
Description: This package contains functions for performing some standard tree-ring analyses.
Diff between dplR versions 1.1.2 dated 2008-06-02 and 1.1.3 dated 2008-09-17
DESCRIPTION | 6 +++--- NAMESPACE | 2 +- R/detrend.series.R | 4 ++-- R/gini.coef.R |only R/rwl.stats.R | 23 ++++++++--------------- R/sens1.R |only R/sens2.R |only inst/CITATION | 2 +- man/chron.Rd | 2 +- man/gini.coef.Rd |only man/rwl.stats.Rd | 20 +++++++++++--------- man/sens1.Rd |only man/sens2.Rd |only man/tbrm.Rd | 15 ++++++++++++--- 14 files changed, 39 insertions(+), 35 deletions(-)
Author: Heike Hofmann,
Diff between scagnostics versions 0.1.0 dated 2007-07-07 and 0.1.1 dated 2008-09-16
Title: Compute scagnostics.
Description: Calculates graph theoretic scagnostics. Scagnostics describe various measures of interest for pairs of variables, based on their appearance on a scatterplot. They are useful tool for discovering interesting or unusual scatterplots from a scatterplot matrix, without having to look at every individual plot.
CHANGELOG |only
DESCRIPTION | 7
R/ggobi.r | 44 -
R/scagnostics.r | 71 +-
load.r | 4
man/ggobi-scagdf-7l.rd | 9
man/scagnostics-sw.rd | 13
src/Binner.cpp | 136 ++--
src/Binner.h | 6
src/GraphMeasures.cpp | 1496 ++++++++++++++++++++++++-------------------------
src/GraphMeasures.h | 252 ++++----
src/Scagnostics.cpp | 148 ++--
src/Scagnostics.h | 100 +--
src/StringTokenizer.h | 16
src/scag.cpp | 28
15 files changed, 1185 insertions(+), 1145 deletions(-)
Author: Arne Henningsen
Diff between sampleSelection versions 0.6-1 dated 2008-07-18 and 0.6-2 dated 2008-09-16
More information about sampleSelection at CRAN
Title: Sample Selection Models
Description: Estimation of Sample Selection Models
sampleSelection-0.6-1/sampleSelection/inst/doc/selection.rnw.backup |only
sampleSelection-0.6-2/sampleSelection/DESCRIPTION | 6
sampleSelection-0.6-2/sampleSelection/R/print.summary.probit.R | 2
sampleSelection-0.6-2/sampleSelection/R/selection.R | 4
sampleSelection-0.6-2/sampleSelection/R/summary.selection.R | 11
sampleSelection-0.6-2/sampleSelection/inst/doc/selection.pdf | 982 +++---
sampleSelection-0.6-2/sampleSelection/tests/heckit.R | 8
sampleSelection-0.6-2/sampleSelection/tests/heckit.Rout.save | 1437 ++++------
sampleSelection-0.6-2/sampleSelection/tests/probit.Rout.save | 50
sampleSelection-0.6-2/sampleSelection/tests/selection.R | 17
sampleSelection-0.6-2/sampleSelection/tests/selection.Rout.save | 121
11 files changed, 1278 insertions(+), 1360 deletions(-)
Permanent link
Author: R. Woodrow Setzer
Diff between odesolve versions 0.5-19 dated 2008-02-04 and 0.5-20 dated 2008-09-16
Title: Solvers for Ordinary Differential Equations
Description: This package provides an interface for the ODE solver lsoda.
ODEs are expressed as R functions or as compiled code. This is
deprecated! Use deSolve instead.
odesolve-0.5-19/odesolve/inst/dynload/c/mymod.o |only
odesolve-0.5-19/odesolve/inst/dynload/c/mymod.so |only
odesolve-0.5-20/odesolve/DESCRIPTION | 9 +++++----
3 files changed, 5 insertions(+), 4 deletions(-)
Author: Arne Henningsen
Diff between micEcon versions 0.5-2 dated 2008-06-17 and 0.5-4 dated 2008-09-16
Title: Microeconomics
Description: Tools for microeconomic analysis and microeconomic modelling
DESCRIPTION | 9 +++----
INDEX | 3 ++
R/print.summary.front41Output.R | 2 -
R/print.summary.translogEst.R |only
R/print.translogEst.R |only
R/residuals.translogEst.R |only
R/summary.translogEst.R |only
man/residuals.translogEst.Rd |only
man/summary.translogEst.Rd |only
man/translogEst.Rd | 9 +++++--
tests/frontier41.Rout.save | 28 ++++++++++++---------
tests/translog.R | 6 ++++
tests/translog.Rout.save | 51 +++++++++++++++++++++++++++++++++++++++-
13 files changed, 87 insertions(+), 21 deletions(-)
Author: Stefan Funke
Diff between cfa versions 0.8-2 dated 2007-12-24 and 0.8-3 dated 2008-09-16
Title: Analysis of configuration frequencies (CFA)
Description: Analysis of configuration frequencies for simple and repeated measures, more sample CFa, hierarchical CFA, bootstrap-CFA, functional CFA, Kieser-Victor CFA and various plots
DESCRIPTION | 6 ++--
NAMESPACE | 2 +
R/cfa.r | 8 ++---
R/fCFA.R | 78 +++++++++++++++++++++----------------------------------
R/kvCFA.R | 3 --
R/print.fCFA.R | 8 +++--
R/summary.fCFA.R | 7 +++-
man/fCFA.Rd | 9 +++---
8 files changed, 56 insertions(+), 65 deletions(-)
Author: Hector Corrada Bravo
Title: R interface to CPLEX
Description: R interface to CPLEX solvers for linear, quadratic, and (linear and quadratic) mixed integer programs. A working installation of CPLEX is required for usage of the Rcplex package. See the file "INSTALL" for details on how to install the Rcplex package in Linux/Unix-like systems and Windows systems. Support for sparse matrices is provided by an included S3-style class "simple_triplet_matrix" and by objects from the Matrix package class hierarchy.
Diff between Rcplex versions 0.1-3 dated 2008-06-23 and 0.1-4 dated 2008-09-16
DESCRIPTION | 14 +++----------- R/Rcplex.R | 30 +++++++++++++++++++++++++++--- inst/NEWS |only man/Rcplex.Rd | 4 ++++ 4 files changed, 34 insertions(+), 14 deletions(-)
Author: Lester Yuan, Tom Stockton, Doug Bronson, Pasha Minallah, and Mark Fitzgerald
Title: Provides a GUI to several statistical methods useful for causal assessment.
Description: Using JGR, provides a GUI to several statistical methods -
scatterplot, boxplot, linear regression, generalized linear regression, quantile,
regression, conditional probability calculations,
and regression trees.
Diff between CADStat versions 2.1-12 dated 2008-09-10 and 2.1-13 dated 2008-09-16
DESCRIPTION | 6 +- NEWS | 3 + R/zzz.R | 126 ++++++++++++++++++++++++++++++++++++++++++++---------------- 3 files changed, 99 insertions(+), 36 deletions(-)
Author: Rob J Hyndman
Diff between forecasting versions 1.14 dated 2008-08-02 and 1.15 dated 2008-09-16
Bundle: forecasting
Contains: forecast fma Mcomp expsmooth
DESCRIPTION | 6 +++---
forecast/R/arima.R | 3 ++-
2 files changed, 5 insertions(+), 4 deletions(-)
Author: Arne Henningsen
Diff between systemfit versions 1.0-4 dated 2008-09-12 and 1.0-6 dated 2008-09-16
Title: Estimating Systems of Simultaneous Equations
Description: This package contains functions for fitting simultaneous
systems of linear and nonlinear equations using Ordinary Least
Squares (OLS), Weighted Least Squares (WLS), Seemingly Unrelated
Regressions (SUR), Two-Stage Least Squares (2SLS), Weighted
Two-Stage Least Squares (W2SLS), and Three-Stage Least Squares (3SLS).
DESCRIPTION | 6
inst/doc/systemfit.Rnw | 75 +++---
inst/doc/systemfit.pdf | 592 ++++++++++++++++++++++++-------------------------
3 files changed, 335 insertions(+), 338 deletions(-)
Author: Patrick E. Meyer, Frederic Lafitte, Gianluca Bontempi
Title: Mutual Information Network Inference
Description: This package implements various algorithms for inferring mutual information networks from data.
All the algorithms compute the mutual information matrix in order to infer a network.
Several mutual information estimators are implemented.
Diff between minet versions 1.1.5 dated 2008-06-13 and 1.1.6 dated 2008-09-16
minet-1.1.5/minet/inst/doc/minet.bib |only minet-1.1.5/minet/inst/doc/minet.tex |only minet-1.1.6/minet/CHANGES | 5 minet-1.1.6/minet/DESCRIPTION | 4 minet-1.1.6/minet/R/disc.R | 6 minet-1.1.6/minet/demo/demo.R | 2 minet-1.1.6/minet/inst/doc/minet.Rnw | 85 - minet-1.1.6/minet/inst/doc/minet.pdf | 2305 ++++++++++++++++------------------- minet-1.1.6/minet/man/disc.Rd | 7 minet-1.1.6/minet/man/mr.net.Rd | 27 10 files changed, 1157 insertions(+), 1284 deletions(-)
Author: William H. Asquith
Title: L-moments, Trimmed L-moments, L-comoments, and Many Distributions
Description: The package implements the statistical theory of L-moments including
L-moment estimation, probability-weighted moment estimation, parameter estimation
for numerous familiar and not-so-familiar distributions, and L-moment estimation
for the same distributions from the parameters. L-moments are derived from the
expectations of order statistics and are linear with respect to the probability-
weighted moments. L-moments are directly analogous to the well-known product
moments; however, L-moments have many advantages including unbiasedness,
robustness, and consistency with respect to the product moments. This package
is oriented around the FORTRAN algorithms of J.R.M. Hosking, and the
nomenclature for many of the functions parallels that of the Hosking library.
However, numerous extensions are made to aid in expand of the breadth and ease
of L-moment application. Much theoretical extension of L-moment theory has
occurred in recent years. E.A.H. Elamir and A.H. Seheult have developed the
trimmed L-moments, which are implemented in this package. Further, recent
developments by Robert Serfling and Peng Xiao have extended L-moments into
multivariate space; the so-called sample L-comoments are implemented here. The
supported distributions with moment type shown as L (L-moments) or TL (trimmed
L-moments) and additional support for right-tail censoring ([RC]) include:
Cauchy(TL), Exponential(L), Gamma(L), Generalized Extreme Value(L),
Generalized Lambda(L & TL), Generalized Logistic (L), Generalized Normal(L),
Generalized Pareto(L[RC] & TL), Gumbel(L), Normal(L), Kappa(L),
Pearson Type III(L), Reverse Gumbel(L[RC]), Wakeby(L), and Weibull(L).
Diff between lmomco versions 0.95 dated 2008-08-24 and 0.96 dated 2008-09-16
ChangeLog | 15 +++++++++++++ DESCRIPTION | 6 ++--- INDEX | 15 +++++++++++++ R/TLmom.R | 7 ++++-- R/TLmoms.R | 6 +++-- R/are.par.valid.R | 3 ++ R/are.parray.valid.R |only R/cdfgam.R | 2 - R/cdfray.R |only R/dist.list.R | 2 - R/genci.R | 11 +++++---- R/is.ray.R |only R/lcomoms2.R |only R/lmom.test.ray.R |only R/lmom2par.R | 3 ++ R/lmomTLgld.R | 1 R/lmomTLgpa.R | 1 R/lmomcau.R | 1 R/lmomexp.R | 2 + R/lmomgam.R | 1 R/lmomgev.R | 1 R/lmomgld.R | 1 R/lmomglo.R | 1 R/lmomgno.R | 1 R/lmomgpa.R | 2 + R/lmomgpaRC.R | 3 ++ R/lmomgum.R | 4 ++- R/lmomkap.R | 2 + R/lmomnor.R | 1 R/lmompe3.R | 1 R/lmomray.R |only R/lmomrevgum.R | 3 ++ R/lmomwak.R | 2 + R/lmomwei.R | 2 + R/lmrdia.R | 5 +++- R/par2cdf.R | 3 ++ R/par2lmom.R | 3 ++ R/par2pdf.R | 3 ++ R/par2qua.R | 3 ++ R/pargpa.R | 22 +++++++++++++------ R/pargpaRC.R | 53 +++++++++++++++++++++++++++++++----------------- R/parray.R |only R/pdfray.R |only R/plotlmrdia.R | 17 ++++++++++++--- R/prettydist.R | 1 R/quaray.R |only R/vec2par.R | 4 +++ man/are.par.valid.Rd | 2 - man/are.parray.valid.Rd |only man/cdfray.Rd |only man/dist.list.Rd | 2 - man/genci.Rd | 3 +- man/is.ray.Rd |only man/is.revgum.Rd | 2 - man/lcomoms2.Rd |only man/lmom.test.ray.Rd |only man/lmom2par.Rd | 2 - man/lmomray.Rd |only man/lmrdia.Rd | 5 ++++ man/par2lmom.Rd | 2 - man/pargpa.Rd | 17 ++++++++++++--- man/pargpaRC.Rd | 19 ++++++++++++----- man/parray.Rd |only man/pdfray.Rd |only man/plotlmrdia.Rd | 11 +++++++-- man/quaray.Rd |only man/vec2par.Rd | 2 - 67 files changed, 219 insertions(+), 62 deletions(-)
Author: Mikis Stasinopoulos
Diff between gamlss versions 1.9-2 dated 2008-07-05 and 1.9-4 dated 2008-09-16
Title: Generalized Additive Models for Location Scale and Shape.
Description: The main GAMLSS library and datasets.
gamlss-1.9-2/gamlss/tests |only
gamlss-1.9-4/gamlss/DESCRIPTION | 6 +++---
gamlss-1.9-4/gamlss/NAMESPACE | 2 +-
gamlss-1.9-4/gamlss/R/gamlss.R | 2 +-
gamlss-1.9-4/gamlss/R/pb.R |only
gamlss-1.9-4/gamlss/R/predict-gamlss.R | 5 +++--
gamlss-1.9-4/gamlss/R/ra.R | 2 +-
gamlss-1.9-4/gamlss/R/ridge.R |only
gamlss-1.9-4/gamlss/inst/doc/NEWS.txt | 8 +++++++-
gamlss-1.9-4/gamlss/man/gamlss.ps.Rd | 11 +++++++----
gamlss-1.9-4/gamlss/man/ps.Rd | 31 +++++++++++++++++++++----------
gamlss-1.9-4/gamlss/man/ridge.Rd |only
12 files changed, 44 insertions(+), 23 deletions(-)
Author: Francois Husson, Sebastien Le
Title: Sensory data analysis with R
Description: an R package for analysing sensory data
Diff between SensoMineR versions 1.07 dated 2007-02-28 and 1.08 dated 2008-09-16
SensoMineR-1.07/SensoMineR/R/optimaldesign.r |only SensoMineR-1.08/SensoMineR/DESCRIPTION | 14 ++--- SensoMineR-1.08/SensoMineR/R/averagetable.R | 4 - SensoMineR-1.08/SensoMineR/R/barrow.R | 4 - SensoMineR-1.08/SensoMineR/R/boxprod.R | 2 SensoMineR-1.08/SensoMineR/R/carto.R | 26 ++++----- SensoMineR-1.08/SensoMineR/R/coltable.R | 14 ++--- SensoMineR-1.08/SensoMineR/R/construct.axes.R | 3 - SensoMineR-1.08/SensoMineR/R/cpa.R | 18 +++--- SensoMineR-1.08/SensoMineR/R/decat.R | 61 +++++++++++++++++----- SensoMineR-1.08/SensoMineR/R/graphinter.R | 2 SensoMineR-1.08/SensoMineR/R/histprod.R | 2 SensoMineR-1.08/SensoMineR/R/indscal.R | 6 +- SensoMineR-1.08/SensoMineR/R/interact.R | 2 SensoMineR-1.08/SensoMineR/R/nappeplot.R | 2 SensoMineR-1.08/SensoMineR/R/optimaldesign.R |only SensoMineR-1.08/SensoMineR/R/paneliperf.R | 5 + SensoMineR-1.08/SensoMineR/R/panellipse.R | 11 +-- SensoMineR-1.08/SensoMineR/R/panelmatch.R | 6 +- SensoMineR-1.08/SensoMineR/R/panelperf.R | 18 ------ SensoMineR-1.08/SensoMineR/R/plotellipse.R | 2 SensoMineR-1.08/SensoMineR/R/plotpanelist.R | 2 SensoMineR-1.08/SensoMineR/R/pmfa.R | 13 ---- SensoMineR-1.08/SensoMineR/R/scalebypanelist.R | 3 - SensoMineR-1.08/SensoMineR/R/triangle.pair.test.R | 2 SensoMineR-1.08/SensoMineR/data/chocolates.rda |binary SensoMineR-1.08/SensoMineR/data/cocktail.rda |binary SensoMineR-1.08/SensoMineR/man/decat.Rd | 3 - SensoMineR-1.08/SensoMineR/man/panellipse.Rd | 14 ++--- SensoMineR-1.08/SensoMineR/man/pmfa.Rd | 4 - SensoMineR-1.08/SensoMineR/man/simulation.Rd | 4 - 31 files changed, 128 insertions(+), 119 deletions(-)
Author: Stig Mortensen
Diff between PSM versions 0.8-1 dated 2008-06-19 and 0.8-2 dated 2008-09-16
Title: Non-Linear Mixed-Effects modelling using Stochastic Differential Equations.
Description: This package provides functions for estimation of linear and non-linear mixed-effects models using stochastic differential equations. Moreover it provides functions for finding smoothed estimates of model states and for simulation. The package allows for any multivariate non-linear time-variant model to be specified, and it also handels multidimentional input, co-variates, missing observations and specification of dosage regimen.
DESCRIPTION | 6 +--
R/ModelCheck.R | 42 +++++++++++++++++++++-
R/PSM.plot.R |only
R/PSM.simulate.R | 2 -
R/PSM.template.R | 27 ++++++--------
examples/Case_Bioreactor.R | 20 ++++++++--
examples/NL-deconv.R | 32 +++++++++++++---
examples/example-dose-sim.R | 22 +++++++----
examples/example-isr.R | 19 ++++++---
examples/example-supersimple.R | 78 +++++++++++++++++++++++++++++++++++++----
inst/doc/PSM.Rnw | 67 ++++++++++++++++++++++-------------
inst/doc/PSM.pdf |binary
man/PSM-package.Rd | 8 +++-
man/PSM.estimate.Rd | 53 ++++++++++++++++++++++++---
man/PSM.plot.Rd |only
man/PSM.smooth.Rd | 2 -
16 files changed, 296 insertions(+), 82 deletions(-)
Author: Francois Husson, Julie Josse, Sebastien Le, Jeremy Mazet
Title: Factor Analysis and Data Mining with R
Description: an R package for exploratory data analysis
Diff between FactoMineR versions 1.09 dated 2008-07-12 and 1.10 dated 2008-09-16
DESCRIPTION | 6 +++--- R/PCA.R | 7 ++++--- R/graph.var.R | 2 +- R/plot.DMFA.R | 4 ++-- R/plot.GPA.R | 1 - R/plot.HMFA.R | 12 ++++++------ R/plot.MCA.R | 4 ++-- R/plot.MFA.R | 8 ++++---- R/plot.PCA.R | 4 ++-- R/prefpls.r | 4 ++-- 10 files changed, 26 insertions(+), 26 deletions(-)
Author: Vincent Goulet, Sébastien Auclair, Christophe Dutang, Xavier Milhaud, Tommy Ouellet, Louis-Philippe Pouliot, Mathieu Pigeon
Title: Actuarial functions
Description: Additional actuarial science functionality, mostly in the
fields of loss distributions, risk theory (including ruin theory),
simulation of compound hierarchical models and credibility theory,
for the moment.
Diff between actuar versions 0.9-7 dated 2008-03-26 and 1.0-0 dated 2008-09-15
actuar-0.9-7/actuar/inst/doc/actuar.dvi |only actuar-0.9-7/actuar/inst/doc/lossdist.dvi |only actuar-0.9-7/actuar/inst/doc/simulation.dvi |only actuar-0.9-7/actuar/man/bstraub.Rd |only actuar-1.0-0/actuar/DESCRIPTION | 16 actuar-1.0-0/actuar/NAMESPACE | 4 actuar-1.0-0/actuar/R/aggregateDist.R | 2 actuar-1.0-0/actuar/R/bstraub.R | 150 actuar-1.0-0/actuar/R/cm.R | 53 actuar-1.0-0/actuar/R/coverage.R | 153 actuar-1.0-0/actuar/R/elev.R | 4 actuar-1.0-0/actuar/R/exact.R | 2 actuar-1.0-0/actuar/R/grouped.data.R | 9 actuar-1.0-0/actuar/R/hache.R | 190 actuar-1.0-0/actuar/R/hache.barycenter.R |only actuar-1.0-0/actuar/R/hache.origin.R |only actuar-1.0-0/actuar/R/hierarc.R | 30 actuar-1.0-0/actuar/R/panjer.R | 2 actuar-1.0-0/actuar/R/quantile.aggregateDist.R | 25 actuar-1.0-0/actuar/R/quantile.grouped.data.R |only actuar-1.0-0/actuar/R/simS.R | 2 actuar-1.0-0/actuar/R/simul.R | 14 actuar-1.0-0/actuar/R/simul.summaries.R | 2 actuar-1.0-0/actuar/demo/credibility.R | 20 actuar-1.0-0/actuar/demo/lossdist.R | 6 actuar-1.0-0/actuar/inst/NEWS | 50 actuar-1.0-0/actuar/inst/doc/.build.timestamp |only actuar-1.0-0/actuar/inst/doc/Rplots.pdf |only actuar-1.0-0/actuar/inst/doc/actuar.Rnw | 48 actuar-1.0-0/actuar/inst/doc/actuar.bib | 393 actuar-1.0-0/actuar/inst/doc/actuar.pdf |binary actuar-1.0-0/actuar/inst/doc/coverage.pdf |binary actuar-1.0-0/actuar/inst/doc/credibility.Rnw | 156 actuar-1.0-0/actuar/inst/doc/credibility.pdf |binary actuar-1.0-0/actuar/inst/doc/lossdist.Rnw | 200 actuar-1.0-0/actuar/inst/doc/lossdist.pdf | 2529 - actuar-1.0-0/actuar/inst/doc/risk.Rnw | 74 actuar-1.0-0/actuar/inst/doc/risk.pdf |42622 ++++++++--------- actuar-1.0-0/actuar/inst/doc/simulation.Rnw | 16 actuar-1.0-0/actuar/inst/doc/simulation.pdf |binary actuar-1.0-0/actuar/inst/po/fr/LC_MESSAGES/R-actuar.mo |binary actuar-1.0-0/actuar/inst/po/fr/LC_MESSAGES/actuar.mo |binary actuar-1.0-0/actuar/man/adjCoef.Rd | 6 actuar-1.0-0/actuar/man/aggregateDist.Rd | 4 actuar-1.0-0/actuar/man/cm.Rd | 86 actuar-1.0-0/actuar/man/coverage.Rd | 20 actuar-1.0-0/actuar/man/dental.Rd | 2 actuar-1.0-0/actuar/man/elev.Rd | 2 actuar-1.0-0/actuar/man/gdental.Rd | 2 actuar-1.0-0/actuar/man/grouped.data.Rd | 10 actuar-1.0-0/actuar/man/hachemeister.Rd | 4 actuar-1.0-0/actuar/man/hist.grouped.data.Rd | 2 actuar-1.0-0/actuar/man/ogive.Rd | 19 actuar-1.0-0/actuar/man/quantile.grouped.data.Rd |only actuar-1.0-0/actuar/man/simul.Rd | 2 actuar-1.0-0/actuar/po/R-actuar.pot | 10 actuar-1.0-0/actuar/po/R-fr.po | 18 actuar-1.0-0/actuar/po/actuar.pot | 20 actuar-1.0-0/actuar/po/fr.po | 33 actuar-1.0-0/actuar/src/random.c | 38 60 files changed, 23764 insertions(+), 23286 deletions(-)
Author: Holger Froehlich
Diff between GOSim versions 1.1.5.0 dated 2008-08-26 and 1.1.5.1 dated 2008-09-15
Title: Computation of functional similarities between GO terms and gene products; GO enrichement analysis
Description: This package implements several functions useful for
computing similarities between GO terms and gene products based on their GO annotation. Moreover it allows for computing a GO enrichment analysis
GOSim-1.1.5.0/GOSim/inst/doc/GOSim.aux |only
GOSim-1.1.5.0/GOSim/inst/doc/GOSim.log |only
GOSim-1.1.5.0/GOSim/inst/doc/GOSim.out |only
GOSim-1.1.5.0/GOSim/inst/doc/GOSim.tex |only
GOSim-1.1.5.1/GOSim/DESCRIPTION | 6
GOSim-1.1.5.1/GOSim/NAMESPACE | 2
GOSim-1.1.5.1/GOSim/inst/doc/.build.timestamp |only
GOSim-1.1.5.1/GOSim/inst/doc/GOSim.pdf | 1053 +++++++++++++-------------
8 files changed, 532 insertions(+), 529 deletions(-)
Author: John Fox
Diff between Rcmdr versions 1.4-0 dated 2008-08-08 and 1.4-1 dated 2008-09-15
Title: R Commander
Description:
A platform-independent basic-statistics GUI (graphical user interface) for R, based on the tcltk package.
DESCRIPTION | 6
R/commander.R | 2
inst/CHANGES | 5
inst/doc/Getting-Started-with-the-Rcmdr-ja.pdf |only
inst/po/ca/LC_MESSAGES/R-Rcmdr.mo |binary
inst/po/fr/LC_MESSAGES/R-Rcmdr.mo |binary
inst/po/ja/LC_MESSAGES/R-Rcmdr.mo |binary
inst/po/ro/LC_MESSAGES/R-Rcmdr.mo |binary
inst/po/ru/LC_MESSAGES/R-Rcmdr.mo |binary
inst/po/sl/LC_MESSAGES/R-Rcmdr.mo |binary
man/Plugins.Rd | 4
man/Rcmdr-package.Rd | 4
po/R-ca.po | 133 ++++
po/R-fr.po | 139 ++++
po/R-ja.po | 490 ++++++++++-----
po/R-ro.po | 154 ++++
po/R-ru.po | 6
po/R-sl.po | 798 ++++++++++++++-----------
po/R-sl_utf-8.po |only
19 files changed, 1225 insertions(+), 516 deletions(-)
Author: Klaus Nordhausen, Hannu Oja, David E. Tyler
Title: Tools for Exploring Multivariate Data via ICS/ICA
Description: The package implements Tyler et al.'s and Oja et al.'s method of two different scatter
matrices to obtain an invariant coordinate system or independent
components, depending on the underlying assumptions.
Diff between ICS versions 1.1-2 dated 2008-04-03 and 1.1-3 dated 2008-09-15
DESCRIPTION | 6 +++--- R/mean3.R | 4 +++- inst/CHANGES | 4 ++++ man/ICS-package.Rd | 4 ++-- 4 files changed, 12 insertions(+), 6 deletions(-)
Author: Florian Camphausen, Matthias Kohl, Peter Ruckdeschel, Thomas Stabla
Title: Documentation for packages distr, distrEx, distrSim, distrTEst
Description: provides documentation in form of a common vignette to packages distr, distrEx, distrMod, distrSim, distrTEst
Diff between distrDoc versions 1.9 dated 2007-07-30 and 2.0 dated 2008-09-15
distrDoc-1.9/distrDoc/R/99.R |only distrDoc-1.9/distrDoc/inst/doc/distr-ComparisonFFTandRtoDPQ.eps |only distrDoc-1.9/distrDoc/inst/doc/distr-ComparisonFFTandRtoDPQ.pdf |only distrDoc-1.9/distrDoc/inst/doc/distr-ConvolutionNormalDistr.eps |only distrDoc-1.9/distrDoc/inst/doc/distr-ConvolutionNormalDistr.pdf |only distrDoc-1.9/distrDoc/inst/doc/distr-NormApprox.eps |only distrDoc-1.9/distrDoc/inst/doc/distr-NormApprox.pdf |only distrDoc-1.9/distrDoc/inst/doc/distr-SimulateandEstimate.eps |only distrDoc-1.9/distrDoc/inst/doc/distr-SimulateandEstimate.pdf |only distrDoc-1.9/distrDoc/inst/doc/distr-StationaryRegressorDistr.eps |only distrDoc-1.9/distrDoc/inst/doc/distr-StationaryRegressorDistr.pdf |only distrDoc-1.9/distrDoc/inst/doc/distr-cauchy1.eps |only distrDoc-1.9/distrDoc/inst/doc/distr-cauchy1.pdf |only distrDoc-1.9/distrDoc/inst/doc/distr-cauchy2.eps |only distrDoc-1.9/distrDoc/inst/doc/distr-cauchy2.pdf |only distrDoc-1.9/distrDoc/inst/doc/distr-destructive.eps |only distrDoc-1.9/distrDoc/inst/doc/distr-destructive.pdf |only distrDoc-1.9/distrDoc/inst/doc/distr-elist.eps |only distrDoc-1.9/distrDoc/inst/doc/distr-elist.pdf |only distrDoc-1.9/distrDoc/inst/doc/distr-exam1.eps |only distrDoc-1.9/distrDoc/inst/doc/distr-exam1.pdf |only distrDoc-1.9/distrDoc/inst/doc/distr-huberize.eps |only distrDoc-1.9/distrDoc/inst/doc/distr-huberize.pdf |only distrDoc-1.9/distrDoc/inst/doc/distr-min.eps |only distrDoc-1.9/distrDoc/inst/doc/distr-min.pdf |only distrDoc-1.9/distrDoc/inst/doc/distr-minandmax.eps |only distrDoc-1.9/distrDoc/inst/doc/distr-minandmax.pdf |only distrDoc-1.9/distrDoc/inst/doc/distr-nFoldConvolution.eps |only distrDoc-1.9/distrDoc/inst/doc/distr-nFoldConvolution.pdf |only distrDoc-1.9/distrDoc/inst/doc/distr-plotex1.eps |only distrDoc-1.9/distrDoc/inst/doc/distr-plotex1.pdf |only distrDoc-1.9/distrDoc/inst/doc/distr-plotex10.eps |only distrDoc-1.9/distrDoc/inst/doc/distr-plotex10.pdf |only distrDoc-1.9/distrDoc/inst/doc/distr-plotex2.eps |only distrDoc-1.9/distrDoc/inst/doc/distr-plotex2.pdf |only distrDoc-1.9/distrDoc/inst/doc/distr-plotex3.eps |only distrDoc-1.9/distrDoc/inst/doc/distr-plotex3.pdf |only distrDoc-1.9/distrDoc/inst/doc/distr-plotex4.eps |only distrDoc-1.9/distrDoc/inst/doc/distr-plotex4.pdf |only distrDoc-1.9/distrDoc/inst/doc/distr-plotex5.eps |only distrDoc-1.9/distrDoc/inst/doc/distr-plotex5.pdf |only distrDoc-1.9/distrDoc/inst/doc/distr-plotex6.eps |only distrDoc-1.9/distrDoc/inst/doc/distr-plotex6.pdf |only distrDoc-1.9/distrDoc/inst/doc/distr-plotex7.eps |only distrDoc-1.9/distrDoc/inst/doc/distr-plotex7.pdf |only distrDoc-1.9/distrDoc/inst/doc/distr-plotex8.eps |only distrDoc-1.9/distrDoc/inst/doc/distr-plotex8.pdf |only distrDoc-1.9/distrDoc/inst/doc/distr-plotex9.eps |only distrDoc-1.9/distrDoc/inst/doc/distr-plotex9.pdf |only distrDoc-1.9/distrDoc/inst/doc/distr-truncate.eps |only distrDoc-1.9/distrDoc/inst/doc/distr-truncate.pdf |only distrDoc-1.9/distrDoc/inst/doc/distr.aux |only distrDoc-1.9/distrDoc/inst/doc/distr.brf |only distrDoc-1.9/distrDoc/inst/doc/distr.log |only distrDoc-1.9/distrDoc/inst/doc/distr.out |only distrDoc-1.9/distrDoc/inst/doc/distr.tex |only distrDoc-1.9/distrDoc/inst/doc/distr.toc |only distrDoc-2.0/distrDoc/DESCRIPTION | 17 distrDoc-2.0/distrDoc/R/distrDoc.R |only distrDoc-2.0/distrDoc/inst/NEWS | 8 distrDoc-2.0/distrDoc/inst/doc/BiasType.eps |only distrDoc-2.0/distrDoc/inst/doc/BiasType.pdf |only distrDoc-2.0/distrDoc/inst/doc/Confint.eps |only distrDoc-2.0/distrDoc/inst/doc/Confint.pdf |only distrDoc-2.0/distrDoc/inst/doc/Estimate.eps |only distrDoc-2.0/distrDoc/inst/doc/Estimate.pdf |only distrDoc-2.0/distrDoc/inst/doc/NormType.eps |only distrDoc-2.0/distrDoc/inst/doc/NormType.pdf |only distrDoc-2.0/distrDoc/inst/doc/ParamFamParameter.eps |only distrDoc-2.0/distrDoc/inst/doc/ParamFamParameter.pdf |only distrDoc-2.0/distrDoc/inst/doc/ProbFamily.eps |only distrDoc-2.0/distrDoc/inst/doc/ProbFamily.pdf |only distrDoc-2.0/distrDoc/inst/doc/RiskType.eps |only distrDoc-2.0/distrDoc/inst/doc/RiskType.pdf |only distrDoc-2.0/distrDoc/inst/doc/Rplots.ps |436888 ++++------ distrDoc-2.0/distrDoc/inst/doc/Symmetry.eps |only distrDoc-2.0/distrDoc/inst/doc/Symmetry.pdf |only distrDoc-2.0/distrDoc/inst/doc/distr.Rnw | 1414 distrDoc-2.0/distrDoc/inst/doc/distr.pdf |351225 ++++---- distrDoc-2.0/distrDoc/man/0distrDoc-package.Rd | 18 80 files changed, 409513 insertions(+), 380057 deletions(-)
Author: Peter Ruckdeschel
Title: Utilities for start-up messages
Description: Utilities for start-up messages
Diff between startupmsg versions 0.5 dated 2007-07-30 and 0.5.1 dated 2008-09-15
startupmsg-0.5.1/startupmsg/DESCRIPTION | 9 ++++----- startupmsg-0.5.1/startupmsg/R/00.r |only startupmsg-0.5.1/startupmsg/man/StartupUtilities.Rd | 2 +- startupmsg-0.5.1/startupmsg/man/myStartupUtilities.Rd | 2 +- startupmsg-0.5/startupmsg/R/00.R |only 5 files changed, 6 insertions(+), 7 deletions(-)
Author: Fernando Fernandez-Palacin
Diff between orloca versions 1.0 dated 2008-06-16 and 2.0 dated 2008-09-15
Title: The package deals with Operations Research LOCational Analysis models
Description: This version of the package deals with the min-sum or center location problems.
The min-sum location problem search for a point such that the weighted sum of the distances to the demand points are minimized.
DESCRIPTION | 10 +++++-----
NAMESPACE | 9 +++++----
R/as.R |only
R/czsum.R |only
R/czsummin.R |only
R/rloca.p.R | 43 +++++++++++++++++++++++++++++++++++++++++--
R/split.R |only
R/zsummin.R | 22 +++++++++++-----------
demo/orloca.R | 2 +-
man/as.Rd |only
man/czsum.Rd |only
man/czsummin.Rd |only
man/loca.p.Rd | 10 +++++-----
man/orloca-package.Rd | 8 ++++----
man/plot.loca.p.Rd | 8 ++++----
man/plot.zsum.Rd | 9 ++++-----
man/rloca.p.Rd | 42 ++++++++++++++++++++++++++++++++++--------
man/zsum.Rd | 9 ++++-----
man/zsummin.Rd | 12 ++++++------
19 files changed, 124 insertions(+), 60 deletions(-)
Author: Dan Kelley
Diff between oce versions 0.1.72 dated 2008-06-09 and 0.1.73 dated 2008-09-15
Title: Analysis of Oceanographic data
Description: Supports the analysis of Oceanographic data,
including CTD measurements, sea-level timeseries, coastline
files, etc. Also includes functions for calculating
seawater properties such as density, and derived properties
such as buoyancy frequency.
oce-0.1.72/oce/inst/doc/oce-ctdfig.eps |only
oce-0.1.72/oce/inst/doc/oce-ctdfig.pdf |only
oce-0.1.72/oce/inst/doc/oce-ctdrawfig.eps |only
oce-0.1.72/oce/inst/doc/oce-ctdrawfig.pdf |only
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oce-0.1.72/oce/inst/doc/oce.tex |only
oce-0.1.72/oce/svn-commit.2.tmp |only
oce-0.1.72/oce/svn-commit.3.tmp |only
oce-0.1.72/oce/svn-commit.4.tmp |only
oce-0.1.73/oce/DESCRIPTION | 6
oce-0.1.73/oce/NEWS | 14
oce-0.1.73/oce/R/plot.TS.R | 2
oce-0.1.73/oce/R/plot.coastline.R | 10
oce-0.1.73/oce/R/plot.ctd.R | 74
oce-0.1.73/oce/R/plot.profile.R | 60
oce-0.1.73/oce/R/plot.section.R | 9
oce-0.1.73/oce/R/plot.topo.R | 114
oce-0.1.73/oce/R/read.oce.R | 2
oce-0.1.73/oce/R/sw.rho.R | 2
oce-0.1.73/oce/R/tidem.R | 2
oce-0.1.73/oce/data/section.rda |binary
oce-0.1.73/oce/data/topo.maritimes.rda |binary
oce-0.1.73/oce/inst/doc/Rplots.ps | 1204
oce-0.1.73/oce/inst/doc/oce-coastlinefig.pdf | 4
oce-0.1.73/oce/inst/doc/oce-sectionfig.pdf | 4
oce-0.1.73/oce/inst/doc/oce-tidefig.pdf | 4
oce-0.1.73/oce/inst/doc/oce.R |only
oce-0.1.73/oce/inst/doc/oce.Rnw | 94
oce-0.1.73/oce/inst/doc/oce.pdf |107220 +++++++++++++++++++-------
oce-0.1.73/oce/man/plot.TS.Rd | 2
oce-0.1.73/oce/man/plot.ctd.Rd | 4
oce-0.1.73/oce/man/plot.profile.Rd | 6
oce-0.1.73/oce/man/plot.topo.Rd | 19
oce-0.1.73/oce/man/section.Rd | 2
oce-0.1.73/oce/man/topo.maritimes.Rd | 24
40 files changed, 79511 insertions(+), 29371 deletions(-)
Author: Dimitris Rizopoulos
Diff between ltm versions 0.8-5 dated 2008-06-09 and 0.8-6 dated 2008-09-15
Title: Latent Trait Models under IRT
Description: Analysis of multivariate dichotomous and polytomous data using latent trait models under the Item Response Theory approach. It includes the Rasch, the Two-Parameter Logistic, the Birnbaum's Three-Parameter, and the Graded Response Models.
DESCRIPTION | 10 +++++-----
R/onAttach.R | 2 +-
R/print.itemFit.R | 2 +-
R/rasch.R | 15 ++++-----------
R/tpm.R | 14 ++++----------
data/Abortion.rda |binary
data/Environment.rda |binary
data/LSAT.rda |binary
data/Mobility.rda |binary
data/Science.rda |binary
data/WIRS.rda |binary
inst/NEWS | 7 +++++++
man/GoF.rasch.Rd | 2 +-
man/anova.Rd | 2 +-
man/biserial.cor.Rd | 2 +-
man/coef.Rd | 2 +-
man/cronbach.alpha.Rd | 2 +-
man/descript.Rd | 2 +-
man/factor.scores.Rd | 2 +-
man/fitted.Rd | 2 +-
man/grm.Rd | 2 +-
man/information.Rd | 2 +-
man/item.fit.Rd | 2 +-
man/ltm-package.Rd | 6 +++---
man/ltm.Rd | 2 +-
man/margins.Rd | 2 +-
man/mult.choice.Rd | 2 +-
man/person.fit.Rd | 2 +-
man/plot.Rd | 2 +-
man/plot.descript.Rd | 2 +-
man/plot.fscores.Rd | 2 +-
man/rasch.Rd | 2 +-
man/rcor.test.Rd | 2 +-
man/residuals.Rd | 2 +-
man/rmvlogis.Rd | 2 +-
man/summary.Rd | 2 +-
man/testEquatingData.Rd | 2 +-
man/tpm.Rd | 2 +-
man/unidimTest.Rd | 2 +-
man/vcov.Rd | 2 +-
40 files changed, 52 insertions(+), 58 deletions(-)
Author: Edzer J. Pebesma
Diff between gstat versions 0.9-48 dated 2008-08-20 and 0.9-49 dated 2008-09-15
Title: geostatistical modelling, prediction and simulation
Description: variogram modelling; simple, ordinary and universal point
or block (co)kriging, sequential Gaussian or indicator (co)simulation;
variogram and variogram map plotting utility functions.
DESCRIPTION | 6
R/predict.gstat.R | 9
inst/doc/gstat.pdf |29241 +++++++++++++++++++++++-------------------------
man/variogramLine.Rd | 2
src/direct.c | 18
src/direct.h | 2
src/s.c | 9
src/sem.c | 6
tests/blockkr.R | 23
tests/blockkr.Rout.save | 52
tests/unproj.R | 25
11 files changed, 14560 insertions(+), 14833 deletions(-)
Author: Dimitris Rizopoulos
Diff between grouped versions 0.3-0 dated 2006-09-11 and 0.4-0 dated 2008-09-15
Title: Regression Analysis of Grouped and Coarse Data
Description: Regression models for grouped and coarse data, under the Coarsened At Random assumption.
DESCRIPTION | 10 +++++-----
man/Sdata.Rd | 2 +-
man/Seeds.Rd | 2 +-
man/anova.grouped.Rd | 2 +-
man/equispaced.Rd | 2 +-
man/grouped.Rd | 10 +++++-----
man/plot.grouped.Rd | 2 +-
man/residuals.grouped.Rd | 2 +-
man/rounding.Rd | 2 +-
man/summary.grouped.Rd | 2 +-
man/summary.resid.grouped.Rd | 2 +-
11 files changed, 19 insertions(+), 19 deletions(-)
Author: Dimitris Rizopoulos
Diff between bootStepAIC versions 1.0-1 dated 2007-07-23 and 1.1-0 dated 2008-09-15
Title: Bootstrap stepAIC
Description: Model selection by bootstrapping the stepAIC() procedure.
DESCRIPTION | 10 +++++-----
R/boot.stepAIC.R | 35 +++++++++++++++++++++++------------
man/boot.stepAIC.Rd | 2 +-
3 files changed, 29 insertions(+), 18 deletions(-)
Author: Matthias Kohl
Diff between RobLox versions 0.5.0 dated 2007-08-25 and 0.6.0 dated 2008-09-15
Title: Optimally robust influence curves for location and scale
Description: functions for the determination of optimally
robust influence curves in case of normal
location with unknown scale
DESCRIPTION | 12
NAMESPACE | 4
R/colRoblox.R |only
R/rlOptIC.R | 31 +
R/rlsOptIC_AL.R | 107 +++++-
R/rlsOptIC_An1.R | 18 -
R/rlsOptIC_An2.R | 14
R/rlsOptIC_AnMad.R | 10
R/rlsOptIC_BM.R | 36 +-
R/rlsOptIC_Ha3.R | 26 -
R/rlsOptIC_Ha4.R | 14
R/rlsOptIC_HaMad.R | 14
R/rlsOptIC_Hu1.R | 16
R/rlsOptIC_Hu2.R | 24 -
R/rlsOptIC_Hu2a.R | 12
R/rlsOptIC_Hu3.R | 22 -
R/rlsOptIC_HuMad.R | 16
R/rlsOptIC_M.R | 53 +--
R/rlsOptIC_MM2.R | 22 -
R/rlsOptIC_Tu1.R | 18 -
R/rlsOptIC_Tu2.R | 18 -
R/rlsOptIC_TuMad.R | 14
R/roblox.R | 859 +++++++++++++++++++++++++++++++++++++++-----------
R/rowRoblox.R |only
R/rsOptIC.R | 61 ++-
R/sysdata.rda |only
inst |only
man/rlOptIC.Rd | 4
man/rlsOptIC.AL.Rd | 32 +
man/rlsOptIC.An1.Rd | 2
man/rlsOptIC.An2.Rd | 2
man/rlsOptIC.AnMad.Rd | 2
man/rlsOptIC.BM.Rd | 2
man/rlsOptIC.Ha3.Rd | 2
man/rlsOptIC.Ha4.Rd | 2
man/rlsOptIC.HaMad.Rd | 2
man/rlsOptIC.Hu1.Rd | 2
man/rlsOptIC.Hu2.Rd | 2
man/rlsOptIC.Hu2a.Rd | 2
man/rlsOptIC.Hu3.Rd | 2
man/rlsOptIC.HuMad.Rd | 2
man/rlsOptIC.M.Rd | 2
man/rlsOptIC.MM2.Rd | 2
man/rlsOptIC.Tu1.Rd | 2
man/rlsOptIC.Tu2.Rd | 2
man/rlsOptIC.TuMad.Rd | 2
man/roblox.Rd | 125 +++----
man/rowRoblox.Rd |only
man/rsOptIC.Rd | 4
49 files changed, 1140 insertions(+), 480 deletions(-)
Author: Matthias Kohl, Peter Ruckdeschel
Title: Optimally robust estimation
Description: Optimally robust estimation using S4 classes and methods
Diff between ROptEst versions 0.5.0 dated 2007-08-25 and 0.6.0 dated 2008-09-15
ROptEst-0.5.0/ROptEst/R/AllPlot.R |only ROptEst-0.5.0/ROptEst/R/AllShow.R |only ROptEst-0.5.0/ROptEst/R/ContIC.R |only ROptEst-0.5.0/ROptEst/R/DistrSymmList.R |only ROptEst-0.5.0/ROptEst/R/Expectation.R |only ROptEst-0.5.0/ROptEst/R/FixRobModel.R |only ROptEst-0.5.0/ROptEst/R/FunSymmList.R |only ROptEst-0.5.0/ROptEst/R/IC.R |only ROptEst-0.5.0/ROptEst/R/InfRobModel.R |only ROptEst-0.5.0/ROptEst/R/InfluenceCurve.R |only ROptEst-0.5.0/ROptEst/R/L2ParamFamily.R |only ROptEst-0.5.0/ROptEst/R/Neighborhood.R |only ROptEst-0.5.0/ROptEst/R/ParamFamParameter.R |only ROptEst-0.5.0/ROptEst/R/ParamFamily.R |only ROptEst-0.5.0/ROptEst/R/PosDefSymmMatrix.R |only ROptEst-0.5.0/ROptEst/R/ProbFamily.R |only ROptEst-0.5.0/ROptEst/R/RiskType.R |only ROptEst-0.5.0/ROptEst/R/RobModel.R |only ROptEst-0.5.0/ROptEst/R/SimpleL2ParamFamilies.R |only ROptEst-0.5.0/ROptEst/R/Symmetry.R |only ROptEst-0.5.0/ROptEst/R/TotalVarIC.R |only ROptEst-0.5.0/ROptEst/R/UncondNeighborhood.R |only ROptEst-0.5.0/ROptEst/R/infoPlot.R |only ROptEst-0.5.0/ROptEst/R/ksEstimator.R |only ROptEst-0.5.0/ROptEst/R/locMEstimator.R |only ROptEst-0.5.0/ROptEst/R/oneStepEstimator.R |only ROptEst-0.5.0/ROptEst/inst/tests |only ROptEst-0.5.0/ROptEst/man/BinomFamily.Rd |only ROptEst-0.5.0/ROptEst/man/ContIC-class.Rd |only ROptEst-0.5.0/ROptEst/man/ContIC.Rd |only ROptEst-0.5.0/ROptEst/man/ContNeighborhood-class.Rd |only ROptEst-0.5.0/ROptEst/man/ContNeighborhood.Rd |only ROptEst-0.5.0/ROptEst/man/DistrSymmList-class.Rd |only ROptEst-0.5.0/ROptEst/man/DistrSymmList.Rd |only ROptEst-0.5.0/ROptEst/man/DistributionSymmetry-class.Rd |only ROptEst-0.5.0/ROptEst/man/EllipticalSymmetry-class.Rd |only ROptEst-0.5.0/ROptEst/man/EllipticalSymmetry.Rd |only ROptEst-0.5.0/ROptEst/man/EvenSymmetric-class.Rd |only ROptEst-0.5.0/ROptEst/man/EvenSymmetric.Rd |only ROptEst-0.5.0/ROptEst/man/ExpScaleFamily.Rd |only ROptEst-0.5.0/ROptEst/man/FixRobModel-class.Rd |only ROptEst-0.5.0/ROptEst/man/FixRobModel.Rd |only ROptEst-0.5.0/ROptEst/man/FunSymmList-class.Rd |only ROptEst-0.5.0/ROptEst/man/FunSymmList.Rd |only ROptEst-0.5.0/ROptEst/man/FunctionSymmetry-class.Rd |only ROptEst-0.5.0/ROptEst/man/GammaFamily.Rd |only ROptEst-0.5.0/ROptEst/man/GumbelLocationFamily.Rd |only ROptEst-0.5.0/ROptEst/man/IC-class.Rd |only ROptEst-0.5.0/ROptEst/man/IC.Rd |only ROptEst-0.5.0/ROptEst/man/InfRobModel-class.Rd |only ROptEst-0.5.0/ROptEst/man/InfRobModel.Rd |only ROptEst-0.5.0/ROptEst/man/InfluenceCurve-class.Rd |only ROptEst-0.5.0/ROptEst/man/InfluenceCurve.Rd |only ROptEst-0.5.0/ROptEst/man/L2ParamFamily-class.Rd |only ROptEst-0.5.0/ROptEst/man/L2ParamFamily.Rd |only ROptEst-0.5.0/ROptEst/man/LnormScaleFamily.Rd |only ROptEst-0.5.0/ROptEst/man/Neighborhood-class.Rd |only ROptEst-0.5.0/ROptEst/man/NoSymmetry-class.Rd |only ROptEst-0.5.0/ROptEst/man/NoSymmetry.Rd |only ROptEst-0.5.0/ROptEst/man/NonSymmetric-class.Rd |only ROptEst-0.5.0/ROptEst/man/NonSymmetric.Rd |only ROptEst-0.5.0/ROptEst/man/NormLocationFamily.Rd |only ROptEst-0.5.0/ROptEst/man/NormLocationScaleFamily.Rd |only ROptEst-0.5.0/ROptEst/man/NormScaleFamily.Rd |only ROptEst-0.5.0/ROptEst/man/OddSymmetric-class.Rd |only ROptEst-0.5.0/ROptEst/man/OddSymmetric.Rd |only ROptEst-0.5.0/ROptEst/man/OptionalNumeric-class.Rd |only ROptEst-0.5.0/ROptEst/man/ParamFamParameter-class.Rd |only ROptEst-0.5.0/ROptEst/man/ParamFamParameter.Rd |only ROptEst-0.5.0/ROptEst/man/ParamFamily-class.Rd |only ROptEst-0.5.0/ROptEst/man/ParamFamily.Rd |only ROptEst-0.5.0/ROptEst/man/PoisFamily.Rd |only ROptEst-0.5.0/ROptEst/man/PosDefSymmMatrix-class.Rd |only ROptEst-0.5.0/ROptEst/man/PosDefSymmMatrix.Rd |only ROptEst-0.5.0/ROptEst/man/ProbFamily-class.Rd |only ROptEst-0.5.0/ROptEst/man/RiskType-class.Rd |only ROptEst-0.5.0/ROptEst/man/RobModel-class.Rd |only ROptEst-0.5.0/ROptEst/man/SphericalSymmetry-class.Rd |only ROptEst-0.5.0/ROptEst/man/SphericalSymmetry.Rd |only ROptEst-0.5.0/ROptEst/man/Symmetry-class.Rd |only ROptEst-0.5.0/ROptEst/man/TotalVarIC-class.Rd |only ROptEst-0.5.0/ROptEst/man/TotalVarIC.Rd |only ROptEst-0.5.0/ROptEst/man/TotalVarNeighborhood-class.Rd |only ROptEst-0.5.0/ROptEst/man/TotalVarNeighborhood.Rd |only ROptEst-0.5.0/ROptEst/man/UncondNeighborhood-class.Rd |only ROptEst-0.5.0/ROptEst/man/asBias-class.Rd |only ROptEst-0.5.0/ROptEst/man/asBias.Rd |only ROptEst-0.5.0/ROptEst/man/asCov-class.Rd |only ROptEst-0.5.0/ROptEst/man/asCov.Rd |only ROptEst-0.5.0/ROptEst/man/asGRisk-class.Rd |only ROptEst-0.5.0/ROptEst/man/asHampel-class.Rd |only ROptEst-0.5.0/ROptEst/man/asHampel.Rd |only ROptEst-0.5.0/ROptEst/man/asMSE-class.Rd |only ROptEst-0.5.0/ROptEst/man/asMSE.Rd |only ROptEst-0.5.0/ROptEst/man/asRisk-class.Rd |only ROptEst-0.5.0/ROptEst/man/asUnOvShoot-class.Rd |only ROptEst-0.5.0/ROptEst/man/asUnOvShoot.Rd |only ROptEst-0.5.0/ROptEst/man/checkIC.Rd |only ROptEst-0.5.0/ROptEst/man/checkL2deriv.Rd |only ROptEst-0.5.0/ROptEst/man/evalIC.Rd |only ROptEst-0.5.0/ROptEst/man/fiBias-class.Rd |only ROptEst-0.5.0/ROptEst/man/fiBias.Rd |only ROptEst-0.5.0/ROptEst/man/fiCov-class.Rd |only ROptEst-0.5.0/ROptEst/man/fiCov.Rd |only ROptEst-0.5.0/ROptEst/man/fiHampel-class.Rd |only ROptEst-0.5.0/ROptEst/man/fiHampel.Rd |only ROptEst-0.5.0/ROptEst/man/fiMSE-class.Rd |only ROptEst-0.5.0/ROptEst/man/fiMSE.Rd |only ROptEst-0.5.0/ROptEst/man/fiRisk-class.Rd |only ROptEst-0.5.0/ROptEst/man/fiUnOvShoot-class.Rd |only ROptEst-0.5.0/ROptEst/man/fiUnOvShoot.Rd |only ROptEst-0.5.0/ROptEst/man/generateIC.Rd |only ROptEst-0.5.0/ROptEst/man/infoPlot.Rd |only ROptEst-0.5.0/ROptEst/man/ksEstimator.Rd |only ROptEst-0.5.0/ROptEst/man/locMEstimator.Rd |only ROptEst-0.5.0/ROptEst/man/oneStepEstimator.Rd |only ROptEst-0.5.0/ROptEst/man/trAsCov-class.Rd |only ROptEst-0.5.0/ROptEst/man/trAsCov.Rd |only ROptEst-0.5.0/ROptEst/man/trFiCov-class.Rd |only ROptEst-0.5.0/ROptEst/man/trFiCov.Rd |only ROptEst-0.5.0/ROptEst/tests |only ROptEst-0.6.0/ROptEst/DESCRIPTION | 13 ROptEst-0.6.0/ROptEst/NAMESPACE | 140 -- ROptEst-0.6.0/ROptEst/R/AllClass.R | 401 ------ ROptEst-0.6.0/ROptEst/R/AllGeneric.R | 210 --- ROptEst-0.6.0/ROptEst/R/L1L2normL2deriv.R |only ROptEst-0.6.0/ROptEst/R/LowerCaseMultivariate.R |only ROptEst-0.6.0/ROptEst/R/getAsRisk.R | 269 ++-- ROptEst-0.6.0/ROptEst/R/getComp.R |only ROptEst-0.6.0/ROptEst/R/getFiRisk.R | 6 ROptEst-0.6.0/ROptEst/R/getFixRobIC_fiUnOvShoot.R | 9 ROptEst-0.6.0/ROptEst/R/getIneffDiff.R | 42 ROptEst-0.6.0/ROptEst/R/getInfCent.R | 83 - ROptEst-0.6.0/ROptEst/R/getInfClip.R | 56 ROptEst-0.6.0/ROptEst/R/getInfGamma.R | 60 ROptEst-0.6.0/ROptEst/R/getInfRobIC_asBias.R | 318 ++++ ROptEst-0.6.0/ROptEst/R/getInfRobIC_asCov.R | 46 ROptEst-0.6.0/ROptEst/R/getInfRobIC_asGRisk.R | 276 +++- ROptEst-0.6.0/ROptEst/R/getInfRobIC_asHampel.R | 237 ++- ROptEst-0.6.0/ROptEst/R/getInfRobIC_asUnOvShoot.R | 53 ROptEst-0.6.0/ROptEst/R/getInfStand.R | 68 - ROptEst-0.6.0/ROptEst/R/getInfV.R |only ROptEst-0.6.0/ROptEst/R/getModifyIC.R |only ROptEst-0.6.0/ROptEst/R/getRiskIC.R | 655 ---------- ROptEst-0.6.0/ROptEst/R/leastFavorableRadius.R | 83 - ROptEst-0.6.0/ROptEst/R/lowerCaseRadius.R | 149 ++ ROptEst-0.6.0/ROptEst/R/optIC.R | 90 - ROptEst-0.6.0/ROptEst/R/optRisk.R | 10 ROptEst-0.6.0/ROptEst/R/radiusMinimaxIC.R | 104 + ROptEst-0.6.0/ROptEst/R/roptest.R |only ROptEst-0.6.0/ROptEst/R/updateNorm.R |only ROptEst-0.6.0/ROptEst/inst/scripts/BinomialModel.R | 160 ++ ROptEst-0.6.0/ROptEst/inst/scripts/ExponentialScaleModel.R | 87 + ROptEst-0.6.0/ROptEst/inst/scripts/GammaModel.R | 35 ROptEst-0.6.0/ROptEst/inst/scripts/GumbelLocationModel.R | 77 - ROptEst-0.6.0/ROptEst/inst/scripts/LognormalAndNormalModel.R | 22 ROptEst-0.6.0/ROptEst/inst/scripts/NormalLocationScaleModel.R | 92 + ROptEst-0.6.0/ROptEst/inst/scripts/NormalScaleModel.R | 24 ROptEst-0.6.0/ROptEst/inst/scripts/PoissonModel.R | 190 ++ ROptEst-0.6.0/ROptEst/inst/scripts/UnderOverShootRisk.R | 44 ROptEst-0.6.0/ROptEst/man/getAsRisk.Rd | 124 + ROptEst-0.6.0/ROptEst/man/getBiasIC.Rd |only ROptEst-0.6.0/ROptEst/man/getFiRisk.Rd | 12 ROptEst-0.6.0/ROptEst/man/getFixClip.Rd | 6 ROptEst-0.6.0/ROptEst/man/getFixRobIC.Rd | 15 ROptEst-0.6.0/ROptEst/man/getIneffDiff.Rd | 18 ROptEst-0.6.0/ROptEst/man/getInfCent.Rd | 57 ROptEst-0.6.0/ROptEst/man/getInfClip.Rd | 32 ROptEst-0.6.0/ROptEst/man/getInfGamma.Rd | 67 - ROptEst-0.6.0/ROptEst/man/getInfRobIC.Rd | 54 ROptEst-0.6.0/ROptEst/man/getInfStand.Rd | 65 ROptEst-0.6.0/ROptEst/man/getInfV.Rd |only ROptEst-0.6.0/ROptEst/man/getL1normL2deriv.Rd |only ROptEst-0.6.0/ROptEst/man/getL2normL2deriv.Rd |only ROptEst-0.6.0/ROptEst/man/getModifyIC.Rd |only ROptEst-0.6.0/ROptEst/man/getRiskIC.Rd | 108 - ROptEst-0.6.0/ROptEst/man/leastFavorableRadius.Rd | 17 ROptEst-0.6.0/ROptEst/man/lowerCaseRadius.Rd | 48 ROptEst-0.6.0/ROptEst/man/minmaxBias.Rd |only ROptEst-0.6.0/ROptEst/man/optIC.Rd | 27 ROptEst-0.6.0/ROptEst/man/optRisk.Rd | 12 ROptEst-0.6.0/ROptEst/man/radiusMinimaxIC.Rd | 30 ROptEst-0.6.0/ROptEst/man/roptest.Rd |only ROptEst-0.6.0/ROptEst/man/updateNorm-methods.Rd |only 184 files changed, 2562 insertions(+), 2239 deletions(-)
Author: Dimitris Rizopoulos
Diff between JM versions 0.2-0 dated 2008-06-19 and 0.2-1 dated 2008-09-15
Title: Joint Modelling of Longitudinal and Survival Data
Description: Shared parameter models for the joint modelling of longitudinal and time-to-event data.
DESCRIPTION | 10 +++++-----
R/onAttach.R | 2 +-
data/aids.id.rda |binary
data/aids.rda |binary
data/pbc2.id.rda |binary
data/pbc2.rda |binary
inst/NEWS | 7 +++++++
man/JM.Rd | 6 +++---
man/anova.Rd | 2 +-
man/coef.Rd | 2 +-
man/fitted.Rd | 2 +-
man/jointModel.Rd | 2 +-
man/jointModelObject.Rd | 2 +-
man/plot.Rd | 2 +-
man/ranef.Rd | 2 +-
man/residuals.Rd | 2 +-
man/summary.weibull.frailty.Rd | 2 +-
man/weibull.frailty.Rd | 2 +-
18 files changed, 26 insertions(+), 19 deletions(-)
Author: Pedro Brasil
Diff between DiagnosisMed versions 0.0.2 dated 2008-08-20 and 0.1.0 dated 2008-09-15
Title: Diagnostic test accuracy evaluation for medical professionals
Description: DiagnosisMed is a package to analyze data from diagnostic test accuracy evaluating health conditions. It is being built to be used by health professionals. This package is - or soon will be - able to estimate sample size for common situations in diagnostic test accuracy, estimate sensitivity and specificity form categorical and continuous test results including some evaluations of indeterminate results, or compare different analysis strategies into measures commonly used by health professionals.
DiagnosisMed-0.0.2/DiagnosisMed/data/rocdata.txt |only
DiagnosisMed-0.1.0/DiagnosisMed/DESCRIPTION | 6 -
DiagnosisMed-0.1.0/DiagnosisMed/R/ROC.r |only
DiagnosisMed-0.1.0/DiagnosisMed/R/diagnosis.r | 8 -
DiagnosisMed-0.1.0/DiagnosisMed/R/plot.diag.r | 1
DiagnosisMed-0.1.0/DiagnosisMed/data/rocdata.rda |only
DiagnosisMed-0.1.0/DiagnosisMed/data/tutorial.rda |only
DiagnosisMed-0.1.0/DiagnosisMed/man/ROC.Rd |only
DiagnosisMed-0.1.0/DiagnosisMed/man/diagnosis.Rd | 93 +++++++++++++-------
DiagnosisMed-0.1.0/DiagnosisMed/man/interact.ROC.Rd | 6 -
DiagnosisMed-0.1.0/DiagnosisMed/man/plot.diag.Rd | 15 ++-
DiagnosisMed-0.1.0/DiagnosisMed/man/tutorial.rd |only
12 files changed, 84 insertions(+), 45 deletions(-)
Author: Adelchi Azzalini
Diff between sn versions 0.4-5 dated 2008-07-29 and 0.4-6 dated 2008-09-14
Title: The skew-normal and skew-t distributions
Description: Functions for manipulating skew-normal and skew-t probability
distributions, and for fitting them to data, in the scalar and in the
multivariate case.
DESCRIPTION | 6 +++---
R/sn.R | 31 ++++++++++++++++---------------
inst/CITATION | 2 +-
man/sn.2logL.profile.Rd | 5 ++++-
man/st.2logL.profile.Rd | 12 ++++++------
5 files changed, 30 insertions(+), 26 deletions(-)
Author: Jeff Hallman
Diff between fame versions 2.0 dated 2008-09-10 and 2.3 dated 2008-09-14
Title: Interface for FAME time series database
Description: Read and write FAME databases.
fame-2.0/fame/README |only
fame-2.3/fame/DESCRIPTION | 4 ++--
fame-2.3/fame/R/fame.R | 20 ++++++++++++++------
fame-2.3/fame/R/windows/zzz.R | 40 ++++++++++++++++++++++++++--------------
fame-2.3/fame/configure | 18 +++++++++---------
fame-2.3/fame/configure.ac | 2 +-
fame-2.3/fame/inst |only
fame-2.3/fame/src/Makevars.win | 12 +++++-------
fame-2.3/fame/src/chli.c |only
fame-2.3/fame/src/fame.c | 34 ++++++++++++++++++++++++++++++++++
fame-2.3/fame/src/fame.h |only
11 files changed, 91 insertions(+), 39 deletions(-)
Author: Yihui Xie
Title: Demonstrate Animations in Statistics
Description: This package consists of various functions for animations in
statistics, covering many areas such as probability theory, mathematical
statistics, multivariate statistics, nonparametric statistics, sampling
survey, linear models, time series, computational statistics, data mining
and machine learning. These functions might be of help in teaching
statistics and data analysis.
Diff between animation versions 1.0-1 dated 2008-06-20 and 1.0-2 dated 2008-09-14
DESCRIPTION | 6 +++--- R/Rosling.bubbles.R |only R/lln.ani.R | 4 ++-- R/saveSWF.r | 2 +- inst/NEWS | 23 +++++++++++++++++++++++ inst/doc/index.html | 4 ++-- man/Rosling.bubbles.Rd |only man/animation-package.Rd | 4 ++-- 8 files changed, 33 insertions(+), 10 deletions(-)
Author: R by Martin Schlather
Diff between SoPhy versions 1.0.33 dated 2008-08-22 and 1.0.34 dated 2008-09-14
Title: Soil Physics Tools
Description: SWMS_2D interface
DESCRIPTION | 4 ++--
R/3dplot.R | 2 +-
R/Sophy.R | 16 ++++++++--------
R/extremal.coeff.R | 2 +-
man/xswms2d.Rd | 1 -
5 files changed, 12 insertions(+), 13 deletions(-)
Author: Matthias Kohl
Title: Implementation of random variables
Description: Implementation of random variables by means
of S4 classes and methods
Diff between RandVar versions 0.6.2 dated 2007-10-02 and 0.6.3 dated 2008-09-14
RandVar-0.6.2/RandVar/inst/doc/RandVar.aux |only RandVar-0.6.2/RandVar/inst/doc/RandVar.brf |only RandVar-0.6.2/RandVar/inst/doc/RandVar.log |only RandVar-0.6.2/RandVar/inst/doc/RandVar.out |only RandVar-0.6.2/RandVar/inst/doc/RandVar.tex |only RandVar-0.6.2/RandVar/inst/doc/RandVar.toc |only RandVar-0.6.3/RandVar/DESCRIPTION | 9 ++++----- RandVar-0.6.3/RandVar/R/EuclRandVarList.R | 2 +- RandVar-0.6.3/RandVar/R/EuclRandVariable.R | 7 +++---- RandVar-0.6.3/RandVar/R/util.R |only RandVar-0.6.3/RandVar/inst/doc/RandVar.Rnw | 4 ++-- RandVar-0.6.3/RandVar/inst/doc/RandVar.pdf |binary RandVar-0.6.3/RandVar/man/EuclRandMatrix.Rd | 2 +- RandVar-0.6.3/RandVar/man/EuclRandVarList.Rd | 2 +- RandVar-0.6.3/RandVar/man/EuclRandVariable.Rd | 2 +- RandVar-0.6.3/RandVar/man/RandVariable.Rd | 2 +- RandVar-0.6.3/RandVar/man/RealRandVariable.Rd | 2 +- RandVar-0.6.3/RandVar/man/util.Rd |only 18 files changed, 15 insertions(+), 17 deletions(-)
Author: Fortran original by Leo Breiman and Adele Cutler, R port by Andy Liaw and Matthew Wiener.
Title: Breiman and Cutler's random forests for classification and regression
Description: Classification and regression based on a forest of trees using random inputs.
Diff between randomForest versions 4.5-25 dated 2008-04-22 and 4.5-27 dated 2008-09-12
DESCRIPTION | 6 - R/predict.randomForest.R | 64 +++++++------ R/randomForest.formula.R | 14 +- inst/NEWS | 15 ++- man/randomForest.Rd | 30 +++--- src/regrf.c | 226 +++++++++++++++++++++++------------------------ src/rf.c | 180 ++++++++++++++++++------------------- 7 files changed, 279 insertions(+), 256 deletions(-)
Author: Aaron A. King
Diff between ouch versions 2.4-1 dated 2008-07-29 and 2.4-2 dated 2008-09-12
Title: Ornstein-Uhlenbeck models for phylogenetic comparative hypotheses
Description: Fit and compare Ornstein-Uhlenbeck models for evolution along a phylogenetic tree.
ouch-2.4-1/ouch/inst/SVN-REVISION |only
ouch-2.4-2/ouch/DESCRIPTION | 6 ++--
ouch-2.4-2/ouch/R/brown.R | 22 ++++++---------
ouch-2.4-2/ouch/R/glssoln.R | 2 -
ouch-2.4-2/ouch/R/hansen.R | 20 ++++++-------
ouch-2.4-2/ouch/inst/ChangeLog | 44 ++++++++++++++++++++++++++++--
ouch-2.4-2/ouch/inst/NEWS |only
ouch-2.4-2/ouch/tests/exacttree.R | 5 ++-
ouch-2.4-2/ouch/tests/exacttree.Rout.save | 34 +++++++++++++++++++----
9 files changed, 97 insertions(+), 36 deletions(-)
Author: Michael Lawrence, John Verzani
Title: Toolkit implementation of gWidgets for RGtk2
Description: Port of gWidgets API to RGtk2
Diff between gWidgetsRGtk2 versions 0.0-41 dated 2008-09-02 and 0.0-42 dated 2008-09-12
ChangeLog | 16 +++++++++++ DESCRIPTION | 4 +- NAMESPACE | 2 - R/aaaGenerics.R | 23 +++++++++------- R/gdialogs.R | 53 ++++++++++++++++++++++++-------------- R/gedit.R | 2 - R/ggrid.R | 3 +- R/gtext.R | 2 - R/gwindow.R | 1 man/gWidgetsRGtk2-undocumented.Rd | 3 ++ 10 files changed, 73 insertions(+), 36 deletions(-)
Author: Arne Henningsen
Diff between systemfit versions 1.0-2 dated 2007-12-30 and 1.0-4 dated 2008-09-12
Title: Estimating Systems of Simultaneous Equations
Description: This package contains functions for fitting simultaneous
systems of linear and nonlinear equations using Ordinary Least
Squares (OLS), Weighted Least Squares (WLS), Seemingly Unrelated
Regressions (SUR), Two-Stage Least Squares (2SLS), Weighted
Two-Stage Least Squares (W2SLS), and Three-Stage Least Squares (3SLS).
DESCRIPTION | 8 ++++----
INDEX | 6 +++---
R/ftest.R | 15 +++++++++++----
R/nlsystemfit.r | 4 ++--
R/smallMethods.R | 6 +++++-
inst/doc |only
man/coef.systemfit.Rd | 4 ++--
man/confint.systemfit.Rd | 2 +-
man/linear.hypothesis.systemfit.Rd | 2 +-
man/lrtest.systemfit.Rd | 4 ++--
man/nlsystemfit.Rd | 12 ++++++------
man/predict.systemfit.Rd | 2 +-
man/summary.systemfit.Rd | 4 ++--
man/systemfit.Rd | 33 ++++++++++++++++++---------------
man/systemfit.control.Rd | 2 +-
man/vcov.systemfit.Rd | 4 ++--
16 files changed, 61 insertions(+), 47 deletions(-)
Author: Florian Camphausen, Matthias Kohl, Peter Ruckdeschel, Thomas Stabla
Title: Estimation and Testing classes based on package distr
Description: Evaluation (S4-)classes based on package distr for evaluating
procedures (estimators/tests) at data/simulation in a unified way.
Diff between distrTEst versions 1.9 dated 2007-07-30 and 2.0 dated 2008-09-12
distrTEst-1.9/distrTEst/R/01.R |only distrTEst-1.9/distrTEst/R/utility.R |only distrTEst-2.0/distrTEst/DESCRIPTION | 15 +++++++-------- distrTEst-2.0/distrTEst/R/AllClasses.R | 16 ++++++++++++++++ distrTEst-2.0/distrTEst/R/Utility.r |only distrTEst-2.0/distrTEst/R/distrTEstOptions.R | 6 ++++++ distrTEst-2.0/distrTEst/man/0distrTEst-package.Rd | 16 +++++++--------- distrTEst-2.0/distrTEst/man/Evaluation-class.Rd | 2 +- distrTEst-2.0/distrTEst/man/EvaluationList-class.Rd | 8 ++++---- distrTEst-2.0/distrTEst/man/call.ev-methods.Rd | 2 +- distrTEst-2.0/distrTEst/man/distrTEst-internals.Rd | 4 ++-- distrTEst-2.0/distrTEst/man/distrTEstOptions.Rd | 4 ++-- distrTEst-2.0/distrTEst/man/numericorNULL-class.Rd | 2 +- 13 files changed, 47 insertions(+), 28 deletions(-)
Author: Florian Camphausen, Matthias Kohl, Peter Ruckdeschel, Thomas Stabla
Title: Simulation classes based on package distr
Description: Simulation (S4-)classes based on package distr
Diff between distrSim versions 1.9 dated 2007-07-30 and 2.0 dated 2008-09-12
DESCRIPTION | 15 +++++++-------- NAMESPACE | 6 ++++-- R/01.R | 15 +++++++++++++-- R/AllClasses.R | 34 +++++++++++++++++++++++++++++++++- R/AllGenerics.R | 21 +++++++++++++++++++++ R/Data-Class.R | 38 +++++++++++++++++++++++++------------- R/SeqDataFrames-Class.R |only R/Simulation-Class.R | 2 +- R/print-show-methods.R | 17 +++++++++++++++++ R/rbind-methods.R |only R/subsetting-methods.R |only inst/MASKING |only inst/NEWS | 9 +++++++++ man/0distrSim-package.Rd | 21 ++++++++++----------- man/Contsimulation-class.Rd | 2 +- man/Data-methods.Rd | 2 +- man/Dataclass-class.Rd | 11 ++++++----- man/Dataclass.Rd |only man/SeqDataFrame-class.Rd |only man/Simulation-class.Rd | 2 +- man/cload.Rd | 4 ++-- man/distrSimMASK.Rd |only man/distrSimOptions.Rd | 2 +- man/obsDim-methods.Rd | 3 ++- man/print-methods.Rd | 4 +++- man/runs-methods.Rd | 2 ++ man/samplesize-methods.Rd | 2 ++ man/simulate-methods.Rd | 2 +- man/subsetting-methods.Rd |only man/vectororNULL-class.Rd | 15 ++++++++++----- man/versionmanagement.Rd | 2 +- 31 files changed, 173 insertions(+), 58 deletions(-)
Author: Matthias Kohl, Peter Ruckdeschel
Title: Extensions of package distr
Description: Extensions of package distr and some additional functionality
Diff between distrEx versions 1.9 dated 2007-07-30 and 2.0 dated 2008-09-12
distrEx-1.9/distrEx/R/LLN.R |only distrEx-1.9/distrEx/R/illustCLT.R |only distrEx-1.9/distrEx/R/illustLLN.R |only distrEx-1.9/distrEx/demo/illustCLT.R |only distrEx-1.9/distrEx/demo/illustCLT_tcl.R |only distrEx-1.9/distrEx/demo/illustLLN.R |only distrEx-1.9/distrEx/inst/tests/tests.R |only distrEx-1.9/distrEx/man/IllustCLT.Rd |only distrEx-1.9/distrEx/man/IllustLLN.Rd |only distrEx-1.9/distrEx/man/plotCLT.Rd |only distrEx-2.0/distrEx/DESCRIPTION | 11 - distrEx-2.0/distrEx/NAMESPACE | 8 - distrEx-2.0/distrEx/R/AllClass.R | 6 distrEx-2.0/distrEx/R/AllGeneric.R | 7 - distrEx-2.0/distrEx/R/AllInitialize.R | 29 ++-- distrEx-2.0/distrEx/R/ContaminationSize.R | 76 +++++------ distrEx-2.0/distrEx/R/ConvexContamination.R | 19 ++ distrEx-2.0/distrEx/R/CvMDist.R |only distrEx-2.0/distrEx/R/Expectation.R | 72 +++++----- distrEx-2.0/distrEx/R/Expectation_LebDec.R |only distrEx-2.0/distrEx/R/Functionals.R | 13 + distrEx-2.0/distrEx/R/HellingerDist.R | 105 +++++++++++++-- distrEx-2.0/distrEx/R/Internalfunctions.R |only distrEx-2.0/distrEx/R/KolmogorovDist.R | 91 ++++++++++++- distrEx-2.0/distrEx/R/Kurtosis.R | 8 + distrEx-2.0/distrEx/R/Skewness.R | 8 + distrEx-2.0/distrEx/R/TotalVarDist.R | 84 +++++++++++- distrEx-2.0/distrEx/R/distrExOptions.R | 5 distrEx-2.0/distrEx/R/sysdata.rda |binary distrEx-2.0/distrEx/demo/00Index | 6 distrEx-2.0/distrEx/inst/NEWS | 12 + distrEx-2.0/distrEx/inst/tests/Tests.r |only distrEx-2.0/distrEx/man/0distrEx-package.Rd | 21 +-- distrEx-2.0/distrEx/man/ContaminationSize.Rd | 9 + distrEx-2.0/distrEx/man/ConvexContamination.Rd | 5 distrEx-2.0/distrEx/man/CvMDist.Rd |only distrEx-2.0/distrEx/man/E.Rd | 40 +++++- distrEx-2.0/distrEx/man/GLIntegrate.Rd | 82 ++++++------ distrEx-2.0/distrEx/man/GumbelParameter-class.Rd | 2 distrEx-2.0/distrEx/man/HellingerDist.Rd | 105 +++++++++++++-- distrEx-2.0/distrEx/man/KolmogorovDist.Rd | 40 ++++-- distrEx-2.0/distrEx/man/TotalVarDist.Rd | 103 +++++++++++++-- distrEx-2.0/distrEx/man/Var.Rd | 151 +++++++++++++---------- distrEx-2.0/distrEx/man/distrExIntegrate.Rd | 134 ++++++++++---------- distrEx-2.0/distrEx/man/distrExMASK.Rd | 2 distrEx-2.0/distrEx/man/distrExOptions.Rd | 13 + distrEx-2.0/distrEx/man/make01.Rd | 2 47 files changed, 898 insertions(+), 371 deletions(-)
Author: Florian Camphausen, Matthias Kohl, Peter Ruckdeschel, Thomas Stabla
Title: Object orientated implementation of distributions
Description: Object orientated implementation of distributions
Diff between distr versions 1.9 dated 2007-07-30 and 2.0 dated 2008-09-12
distr-1.9/distr/R/01.R |only distr-1.9/distr/R/99.R |only distr-1.9/distr/R/ContinuousDistribution.R |only distr-1.9/distr/R/convpow.R |only distr-1.9/distr/R/infoshow.R |only distr-1.9/distr/R/spaces.R |only distr-1.9/distr/demo/huberize.R |only distr-1.9/distr/demo/minandmax.R |only distr-1.9/distr/demo/truncate.R |only distr-1.9/distr/man/AbscontDistribution-class.Rd |only distr-2.0/distr/DESCRIPTION | 13 distr-2.0/distr/NAMESPACE | 25 - distr-2.0/distr/R/0distrOptions.R |only distr-2.0/distr/R/0pre270.R |only distr-2.0/distr/R/AllClasses.R | 148 ++++++ distr-2.0/distr/R/AllGenerics.R | 86 +++- distr-2.0/distr/R/AllInitialize.R | 63 ++ distr-2.0/distr/R/ArcsineDistribution.R |only distr-2.0/distr/R/BetaDistribution.R | 6 distr-2.0/distr/R/ContDistribution.R |only distr-2.0/distr/R/Convpow.r |only distr-2.0/distr/R/DiscreteDistribution.R | 162 +++---- distr-2.0/distr/R/ExtraConvolutionMethods.R | 18 distr-2.0/distr/R/Huberize.R |only distr-2.0/distr/R/Infoshow.r |only distr-2.0/distr/R/LatticeDistribution.R | 3 distr-2.0/distr/R/LognormalDistribution.R | 2 distr-2.0/distr/R/MinMaximum.R |only distr-2.0/distr/R/SimplifyD.R |only distr-2.0/distr/R/Spaces.r |only distr-2.0/distr/R/Truncate.R |only distr-2.0/distr/R/UnivarLebDecDistribution.R |only distr-2.0/distr/R/UnivarMixingDistribution.R |only distr-2.0/distr/R/UtilitiesDistributions.R | 78 ++- distr-2.0/distr/R/bAcDcLcDistribution.R |only distr-2.0/distr/R/bAffLinUnivarLebDecDistribution.R |only distr-2.0/distr/R/decomposePM.R |only distr-2.0/distr/R/flat.R |only distr-2.0/distr/R/getLabel.R |only distr-2.0/distr/R/getLow.R | 2 distr-2.0/distr/R/internalUtils.R | 297 ++++++++++++- distr-2.0/distr/R/internalUtils_LCD.R |only distr-2.0/distr/R/plot-methods.R | 102 +++- distr-2.0/distr/R/plot-methods_LebDec.R |only distr-2.0/distr/R/print-show-methods.R | 164 +++++++ distr-2.0/distr/demo/00Index | 34 - distr-2.0/distr/demo/ComparisonFFTandRtoDPQ.R | 98 ++-- distr-2.0/distr/demo/Expectation.R | 78 +-- distr-2.0/distr/demo/NormApprox.R | 128 +++--- distr-2.0/distr/demo/destructive.R | 34 - distr-2.0/distr/demo/range.R |only distr-2.0/distr/inst/ARITHMETICS | 67 ++- distr-2.0/distr/inst/NEWS | 52 ++ distr-2.0/distr/man/0distr-package.Rd | 50 +- distr-2.0/distr/man/Arcsine-class.Rd |only distr-2.0/distr/man/Beta-class.Rd | 5 distr-2.0/distr/man/BetaParameter-class.Rd | 4 distr-2.0/distr/man/Binom-class.Rd | 2 distr-2.0/distr/man/BinomParameter-class.Rd | 4 distr-2.0/distr/man/Cauchy-class.Rd | 2 distr-2.0/distr/man/CauchyParameter-class.Rd | 4 distr-2.0/distr/man/Chisq-class.Rd | 2 distr-2.0/distr/man/ChisqParameter-class.Rd | 4 distr-2.0/distr/man/ContDistribution-class.Rd |only distr-2.0/distr/man/ContDistribution.Rd |only distr-2.0/distr/man/ConvPow.Rd | 30 + distr-2.0/distr/man/DExp-class.Rd | 2 distr-2.0/distr/man/Dirac-class.Rd | 10 distr-2.0/distr/man/DiracParameter-class.Rd | 4 distr-2.0/distr/man/DiscreteDistribution-class.Rd | 54 +- distr-2.0/distr/man/DiscreteDistribution.Rd |only distr-2.0/distr/man/Distribution-class.Rd | 6 distr-2.0/distr/man/EuclideanSpace-class.Rd | 2 distr-2.0/distr/man/Exp-class.Rd | 2 distr-2.0/distr/man/ExpOrGammaOrChisq-class.Rd | 2 distr-2.0/distr/man/ExpParameter-class.Rd | 2 distr-2.0/distr/man/FParameter-class.Rd | 2 distr-2.0/distr/man/Fd-class.Rd | 2 distr-2.0/distr/man/GammaParameter-class.Rd | 2 distr-2.0/distr/man/Gammad-class.Rd | 2 distr-2.0/distr/man/Geom-class.Rd | 2 distr-2.0/distr/man/GeomParameter-class.Rd | 2 distr-2.0/distr/man/Huberize-methods.Rd |only distr-2.0/distr/man/Hyper-class.Rd | 2 distr-2.0/distr/man/HyperParameter-class.Rd | 2 distr-2.0/distr/man/Integer-class.Rd |only distr-2.0/distr/man/Lattice-class.Rd | 2 distr-2.0/distr/man/LatticeDistribution-class.Rd | 105 ---- distr-2.0/distr/man/LatticeDistribution.Rd |only distr-2.0/distr/man/Length-methods.Rd | 52 +- distr-2.0/distr/man/Lnorm-class.Rd | 2 distr-2.0/distr/man/LnormParameter-class.Rd | 2 distr-2.0/distr/man/Logis-class.Rd | 2 distr-2.0/distr/man/LogisParameter-class.Rd | 2 distr-2.0/distr/man/Math-methods.Rd | 123 +++-- distr-2.0/distr/man/MinMaximum-methods.Rd |only distr-2.0/distr/man/Naturals-class.Rd | 2 distr-2.0/distr/man/Nbinom-class.Rd | 2 distr-2.0/distr/man/NbinomParameter-class.Rd | 2 distr-2.0/distr/man/Norm-class.Rd | 2 distr-2.0/distr/man/NormParameter-class.Rd | 2 distr-2.0/distr/man/OptionalParameter-class.Rd | 2 distr-2.0/distr/man/Parameter-class.Rd | 2 distr-2.0/distr/man/Pois-class.Rd | 2 distr-2.0/distr/man/PoisParameter-class.Rd | 2 distr-2.0/distr/man/Reals-class.Rd | 2 distr-2.0/distr/man/RtoDPQ.LC.Rd |only distr-2.0/distr/man/RtoDPQ.Rd | 2 distr-2.0/distr/man/RtoDPQ.d.Rd | 2 distr-2.0/distr/man/TParameter-class.Rd | 4 distr-2.0/distr/man/Td-class.Rd | 2 distr-2.0/distr/man/Truncate-methods.Rd |only distr-2.0/distr/man/UniNormParameter-class.Rd | 4 distr-2.0/distr/man/Unif-class.Rd | 2 distr-2.0/distr/man/UnifParameter-class.Rd | 4 distr-2.0/distr/man/UnivarDistrList-class.Rd | 2 distr-2.0/distr/man/UnivarLebDecDistribution-class.Rd |only distr-2.0/distr/man/UnivarLebDecDistribution.Rd |only distr-2.0/distr/man/UnivarMixingDistribution-class.Rd |only distr-2.0/distr/man/UnivarMixingDistribution.Rd |only distr-2.0/distr/man/UnivariateDistribution-class.Rd | 2 distr-2.0/distr/man/Weibull-class.Rd | 2 distr-2.0/distr/man/WeibullParameter-class.Rd | 4 distr-2.0/distr/man/decomposePM-methods.Rd |only distr-2.0/distr/man/distrARITH.Rd | 2 distr-2.0/distr/man/distrMASK.Rd | 2 distr-2.0/distr/man/distroptions.Rd | 16 distr-2.0/distr/man/flat.LCD.Rd |only distr-2.0/distr/man/flat.mix.Rd |only distr-2.0/distr/man/gap-methods.Rd | 7 distr-2.0/distr/man/getLabel.Rd |only distr-2.0/distr/man/getLow.Rd | 4 distr-2.0/distr/man/internals.Rd | 166 +++++++ distr-2.0/distr/man/liesIn-methods.Rd | 46 +- distr-2.0/distr/man/m-methods.Rd | 50 +- distr-2.0/distr/man/mean-methods.Rd | 56 +- distr-2.0/distr/man/meanlog-methods.Rd | 50 +- distr-2.0/distr/man/name-methods.Rd | 50 +- distr-2.0/distr/man/operators-methods.Rd | 99 ++++ distr-2.0/distr/man/p-methods.Rd | 2 distr-2.0/distr/man/p.l-methods.Rd | 2 distr-2.0/distr/man/param-methods.Rd | 30 - distr-2.0/distr/man/pivot-methods.Rd | 52 +- distr-2.0/distr/man/plot-methods.Rd | 382 +++++++++--------- distr-2.0/distr/man/print-methods.Rd | 38 - distr-2.0/distr/man/rSpace-class.Rd | 2 distr-2.0/distr/man/rate-methods.Rd | 72 +-- distr-2.0/distr/man/sdlog-methods.Rd | 54 +- distr-2.0/distr/man/shape-methods.Rd | 96 ++-- distr-2.0/distr/man/shape2-methods.Rd | 50 +- distr-2.0/distr/man/showobj-methods.Rd |only distr-2.0/distr/man/simplifyD-methods.Rd |only distr-2.0/distr/man/support-methods.Rd | 38 - distr-2.0/distr/man/versionmanagement.Rd | 2 distr-2.0/distr/man/width-methods.Rd | 52 +- 155 files changed, 2341 insertions(+), 1286 deletions(-)
Author: Reinhard Furrer
Title: SPArse Matrix
Description: Set of function for sparse matrix algebra.
Differences with SparseM/Matrix are:
(1) we only support (essentially) one sparse matrix format,
(2) based on transparent and simple structure(s),
(3) tailored for MCMC calculations within GMRF.
(4) S3 and S4 like-"compatible" ... and it is fast.
Diff between spam versions 0.15-1 dated 2008-09-06 and 0.15-2 dated 2008-09-12
DESCRIPTION | 6 +- R/definitions.R | 59 +++++++++++++++++++++++ R/dist.R | 38 +++++++-------- inst/NEWS | 12 ++++ man/allequal.Rd | 13 ++++- man/chol.Rd | 6 +- man/nearestdist.Rd | 14 +++-- man/todo.Rd | 2 src/dist.f | 18 ++++--- tests/dist.R | 134 ++++++++++++++++++++++++++++++++--------------------- 10 files changed, 212 insertions(+), 90 deletions(-)
Author: Alexis Diamond
Diff between Synth versions 0.1-5 dated 2007-12-19 and 0.1-6 dated 2008-09-11
Title: Synthetic Control Group Method for Comparative Case Studies
Description: Implements the synthetic control group method for comparative case studies
developed in Abadie and Gardeazabal (2003) and Abadie, Diamond, Hainmueller (2007).
DESCRIPTION | 8 ++++----
R/fn.V.R | 4 ++--
R/synth.R | 8 ++++----
man/synth.Rd | 2 +-
4 files changed, 11 insertions(+), 11 deletions(-)
Author: Oscar Rueda
Diff between RJaCGH versions 1.5.4 dated 2008-07-07 and 1.5.5 dated 2008-09-11
Title: Reversible Jump MCMC for the analysis of CGH arrays.
Description: Bayesian analysis of CGH microarrays fitting Hidden Markov Chain models.
The selection of the number of states is made via their posterior probability
computed by Reversible Jump Markov Chain Monte Carlo Methods. Also
returns probabilistic common regions for gains/losses.
Changes | 4 ++
DESCRIPTION | 8 ++---
R/RJaCGH.R | 51 ++++++++++++++++++------------------
inst/doc/Implementing_pREC_in_C.pdf |binary
inst/doc/RJaCGH.pdf |binary
man/RJaCGH.Rd | 9 ++----
man/chainsSelect.Rd | 2 -
man/collapseChain.Rd | 9 ++----
man/gelman.rubin.plot.Rd | 2 -
man/genome.plot.Rd | 2 -
man/model.averaging.Rd | 2 -
man/pREC_A.Rd | 2 -
man/pREC_S.Rd | 2 -
man/plot.RJaCGH.Rd | 9 +++---
man/plot.pREC_S.Rd | 4 +-
man/print.pREC_A.Rd | 2 -
man/print.pREC_S.Rd | 2 -
man/print.summary.RJaCGH.Rd | 2 -
man/relabelStates.Rd | 13 ++++-----
man/smoothMeans.Rd | 2 -
man/states.Rd | 4 +-
man/summary.RJaCGH.Rd | 2 -
man/trace.plot.Rd | 2 -
src/nnhl.c | 18 ++++++------
24 files changed, 77 insertions(+), 76 deletions(-)
Author: Jeff Hallman
Diff between tis versions 1.0 dated 2008-09-10 and 1.1 dated 2008-09-11
Title: Time Indexes and Time Indexed Series
Description: Functions and S3 classes for time indexes and time indexed series, which are compatible with FAME frequencies.
DESCRIPTION | 4 -
NAMESPACE | 2
R/ti.R | 48 ++++++++++++++++++++--
README | 129 ++++++++++++++++++++++++++++++++++++++++++++----------------
man/tif.Rd | 9 +++-
5 files changed, 151 insertions(+), 41 deletions(-)
Author: Thomas Lumley
Title: analysis of complex survey samples
Description: Summary statistics, generalised linear models, and general maximum pseudolikelihood estimation for multistage stratified, cluster-sampled, unequally weighted survey samples. Variances by Taylor series linearisation or replicate weights. Post-stratification, calibration, and raking. Two-phase designs. Graphics.
Diff between survey versions 3.9 dated 2008-09-09 and 3.9-1 dated 2008-09-11
._NAMESPACE |binary DESCRIPTION | 6 ++-- NAMESPACE | 35 +++++++++++++++++++++++++++ R/DBI.R | 60 +++++++++++++++++++++++++++++++++++++++-------- R/odbc.R |only R/regtest.R | 4 ++- R/survey.R | 19 ++++++++++---- R/surveyby.R | 8 ++++-- R/surveygraph.R | 10 ++++--- R/surveyrep.R | 5 ++- R/svycdf.R | 12 ++++++--- inst/CITATION | 4 +-- inst/NEWS | 9 +++++++ inst/doc/._survey.Rnw |binary inst/doc/._survey.tex |binary inst/doc/domain.log | 4 +-- inst/doc/domain.pdf |binary inst/doc/domain.tex | 12 ++++----- inst/doc/epi.log | 4 +-- inst/doc/epi.pdf |binary inst/doc/epi.tex | 10 +++---- inst/doc/phase1.log | 4 +-- inst/doc/phase1.pdf |binary inst/doc/survey.log | 4 +-- inst/doc/survey.pdf |binary man/open.DBIsvydesign.Rd | 10 ++++++- man/svycdf.Rd | 2 - man/svydesign.Rd | 33 ++++++++++++++----------- tests/caleg.Rout.save | 6 ++-- tests/check.Rout.save | 12 ++++----- tests/nwts.Rout.save | 20 +++++++-------- 31 files changed, 204 insertions(+), 89 deletions(-)
Author: Justin Lokhorst, Bill Venables and Berwin Turlach;
port to R, tests etc: Martin Maechler
Diff between lasso2 versions 1.2-8 dated 2008-09-08 and 1.2-9 dated 2008-09-11
Title: L1 constrained estimation aka `lasso'
Description: Routines and documentation for solving regression problems
while imposing an L1 constraint on the estimates, based on
the algorithm of Osborne et al. (1998)
lasso2-1.2-8/lasso2/inst/doc/Makefile |only
lasso2-1.2-9/lasso2/ChangeLog | 6 ++++++
lasso2-1.2-9/lasso2/DESCRIPTION | 6 +++---
lasso2-1.2-9/lasso2/inst/doc/Manual-vignette.Rnw | 6 ++++++
lasso2-1.2-9/lasso2/inst/doc/Manual-vignette.pdf |binary
lasso2-1.2-9/lasso2/inst/doc/Manual-vignette.tex | 6 ++++++
6 files changed, 21 insertions(+), 3 deletions(-)
Author: Hsin-ya Lee
Diff between bear versions 1.1.3 dated 2008-08-06 and 1.1.4 dated 2008-09-11
Title: Average bioequivalence and bioavailability data analysis tool
Description: An average bioequivalence (ABE) and bioavailability data analysis tool including sample size estimation, noncompartmental analysis (NCA) and ANOVA (lm) for a standard RT/TR 2-treatment, 2-sequence, 2-period, and balanced, cross-over design
DESCRIPTION | 6 +++---
R/go.r | 4 ++++
R/zzz.R | 2 +-
3 files changed, 8 insertions(+), 4 deletions(-)
Author: Tony Plate
Diff between RSVGTipsDevice versions 0.7-4.2 dated 2008-04-23 and 0.7-5 dated 2008-09-11
More information about RSVGTipsDevice at CRAN
Title: An R SVG graphics device with dynamic tips and hyperlinks
Description: A graphics device for R that uses the w3.org xml standard
for Scalable Vector Graphics. This version supports
tooltips with 1 to 3 lines, hyperlinks, and line styles.
DESCRIPTION | 24 -
DevNotes.txt | 46 +++
NEWS | 8
R/SVG.R | 274 ++++++++++----------
R/zzz.R | 8
README | 18 -
man/RSVGTipsDevice.Rd | 564 +++++++++++++++++++++----------------------
man/RSVGTipsDevice.design.Rd | 196 +++++++-------
man/SVG.viewing.Rd | 54 ++--
man/devSVGTips.Rd | 230 ++++++++---------
man/encodeSVGSpecialChars.Rd | 72 ++---
oldsrc |only
src/devSVG.c | 191 +++++++++++++-
13 files changed, 953 insertions(+), 732 deletions(-)
Permanent link
Author: Jiahui Wang,
Ruben Zamar
Diff between robust versions 0.3-3 dated 2008-07-07 and 0.3-4 dated 2008-09-10
Title: Insightful Robust Library
Description: A package of robust methods.
robust-0.3-3/robust/build |only
robust-0.3-3/robust/datasets/mallows.dat.q |only
robust-0.3-3/robust/robust.xcodeproj/konis.mode1 |only
robust-0.3-3/robust/robust.xcodeproj/konis.mode1v3 |only
robust-0.3-3/robust/robust.xcodeproj/konis.pbxuser |only
robust-0.3-3/robust/tests |only
robust-0.3-4/robust/DESCRIPTION | 4 -
robust-0.3-4/robust/R/Rcompatibility.q | 8 +-
robust-0.3-4/robust/R/lmRob.fit.compute.q | 9 +-
robust-0.3-4/robust/R/predict.lmRob.q | 2
robust-0.3-4/robust/robust.xcodeproj/project.pbxproj | 71 +------------------
11 files changed, 22 insertions(+), 72 deletions(-)
Author: Jonathan Weeks
Diff between plink versions 0.0-5 dated 2008-09-08 and 0.0-6 dated 2008-09-10
Title: IRT Separate Calibration Linking Methods
Description: This package uses item response theory methods to compute linking constants and conduct
chain linking of tests for multiple groups under a nonequivalent groups common item design.
It allows for mean/mean, mean/sigma, Haebara, and Stocking-Lord calibrations of dichotomous
(1PL, 2PL, and 3PL) and/or polytomous (graded response, partial credit/generalized partial
credit, nominal, and multiple-choice model) common items.
CITATION | 4 +--
DESCRIPTION | 8 +++---
NAMESPACE | 3 +-
NEWS | 8 ++++++
R/plink.R | 6 +++--
R/weight.R | 61 +++++++++++++++++++++++++++++++++++----------------
man/as.weight.Rd | 55 +++++++++++++++++++++++++++++----------------
man/plink-methods.Rd | 2 -
8 files changed, 99 insertions(+), 48 deletions(-)
Author: William Revelle
Diff between psych versions 1.0-51 dated 2008-07-12 and 1.0-58 dated 2008-09-10
Title: Procedures for Personality, Psychometric, and Psychological Research
Description: A number of routines for personality, psychometrics and experimental
psychology. Functions are primarily for scale construction using factor analysis, cluster analysis and
reliability analysis, although others provide basic descriptive
statistics. For more information, see the personality-project.org/r.
DESCRIPTION | 8
NAMESPACE | 9
R/ICLUST.R | 25
R/ICLUST.cluster.R | 2
R/ICLUST.sort.R | 12
R/VSS.R | 6
R/VSS.plot.R | 4
R/cluster.cor.R | 7
R/cluster.loadings.R | 10
R/congeneric.sim.R | 3
R/fa.parallel.R | 112
R/factor.congruence.R | 4
R/factor.pa.R | 11
R/glb.R |only
R/guttman.R |only
R/headtail.R | 7
R/mat.regress.R | 5
R/multi.hist.R | 6
R/omega.R | 16
R/omega.graph.R | 12
R/partial.r.R |only
R/plot.psych.R |only
R/principal.R | 3
R/print.psych.R |only
R/score.alpha.r | 4
R/score.items.R | 2
R/smc.R | 4
R/summary.psych.R |only
R/tenberge.R |only
data/glb.Rda |only
data/neo.Rda |only
inst/NEWS | 9
inst/doc/index.html | 6
inst/doc/psych-manual.pdf |57847 ++++++++++++++++++++++------------------------
man/00.psych-package.Rd | 8
man/ICLUST.Rd | 234
man/comorbidity.Rd | 3
man/congeneric.sim.Rd | 6
man/fa.parallel.Rd | 5
man/factor.congruence.Rd | 7
man/factor.pa.Rd | 8
man/guttman.Rd |only
man/headtail.Rd | 8
man/multi.hist.Rd | 2
man/omega.Rd | 51
man/partial.r.Rd |only
man/plot.psych.Rd |only
man/print.psych.Rd |only
48 files changed, 28961 insertions(+), 29505 deletions(-)
Author: A.I. McLeod
Title: R Workspace Manager
Description: APL-like functions for managing R workspaces.
Diff between rwm versions 1.25 dated 2008-09-05 and 1.27 dated 2008-09-10
DESCRIPTION | 6 +++--- R/InitializeRWM.R | 4 ++-- R/TestRWMSetup.R | 2 +- R/clearws.R | 6 +++--- R/loadws.R | 47 ++++++++++++++++++++++++++++++++++++++++++----- R/savews.R | 6 +++--- man/clearws.Rd | 6 ++++-- man/continuews.Rd | 2 +- man/loadws.Rd | 9 ++++++++- man/rwm-package.Rd | 7 +++++-- 10 files changed, 72 insertions(+), 23 deletions(-)
Author: Sřren Hřjsgaard
Diff between gRbase versions 0.4.2 dated 2008-07-12 and 0.5.0 dated 2008-09-10
Title: A package for graphical modelling in R
Description: This package defines S3-classes gmData (graphical meta data), gModel (graphical model). Several other graphical modelling packages rely on these fundamental constructs. gRbase illustrates how hierarchical log-linear models (hllm) may be implemented.
ChangeLog | 12 ++++++++++++
DESCRIPTION | 7 ++++---
INDEX | 6 ++++++
R/GraphSH2.R |only
R/Graphsh-mcs-moral-rip.R |only
R/Graphsh-querygSH2.R |only
R/Graphsh-triangulate.R |only
R/formulae.R | 2 +-
R/setopsR.R | 28 +++++++++++++++++++++++++++-
R/table-operations.R |only
inst/doc/gRbase.pdf |binary
man/gRbase-utilities.Rd | 3 +++
man/grash-operations.Rd |only
man/newUG.Rd |only
man/querygraph.Rd |only
man/table-operations.Rd |only
man/triang.Rd |only
17 files changed, 53 insertions(+), 5 deletions(-)
Author: Jeff Hallman
Diff between fame versions 1.13 dated 2008-05-13 and 2.0 dated 2008-09-10
Title: Interface for FAME time series database
Description: Read and write FAME databases.
fame-1.13/fame/R/BUGFIXES.R |only
fame-1.13/fame/R/Filter.R |only
fame-1.13/fame/R/Lag.R |only
fame-1.13/fame/R/RowSums.R |only
fame-1.13/fame/R/addLast.R |only
fame-1.13/fame/R/askForPassword.R |only
fame-1.13/fame/R/assignList.R |only
fame-1.13/fame/R/availablePort.R |only
fame-1.13/fame/R/badClassStop.R |only
fame-1.13/fame/R/between.R |only
fame-1.13/fame/R/clientServer.R |only
fame-1.13/fame/R/commandLineString.R |only
fame-1.13/fame/R/constantGrowthSeries.R |only
fame-1.13/fame/R/convenientTi.R |only
fame-1.13/fame/R/convert.R |only
fame-1.13/fame/R/csv.R |only
fame-1.13/fame/R/description.R |only
fame-1.13/fame/R/edit.R |only
fame-1.13/fame/R/growth.rate.R |only
fame-1.13/fame/R/hexidecimal.R |only
fame-1.13/fame/R/holidays.R |only
fame-1.13/fame/R/hostName.R |only
fame-1.13/fame/R/interpNA.R |only
fame-1.13/fame/R/is.scalar.R |only
fame-1.13/fame/R/lags.R |only
fame-1.13/fame/R/naWindow.R |only
fame-1.13/fame/R/rowsAndColumns.R |only
fame-1.13/fame/R/solve.tridiag.R |only
fame-1.13/fame/R/stringFunctions.R |only
fame-1.13/fame/R/stripClass.R |only
fame-1.13/fame/R/ti.R |only
fame-1.13/fame/R/time.R |only
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fame-1.13/fame/R/unix/fameLast.R |only
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fame-1.13/fame/R/unix/startRemoteServer.R |only
fame-1.13/fame/R/unix/zzz.R.in |only
fame-1.13/fame/R/windows/alarmc.R |only
fame-1.13/fame/R/windows/fame.R |only
fame-1.13/fame/R/windows/fameLast.R |only
fame-1.13/fame/R/windows/ssh.R |only
fame-1.13/fame/R/windows/startRemoteServer.R |only
fame-1.13/fame/inst |only
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fame-1.13/fame/man/intradayFrequencies.Rd |only
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fame-1.13/fame/man/linearSplineIntegration.Rd |only
fame-1.13/fame/man/lines.tis.Rd |only
fame-1.13/fame/man/mergeSeries.Rd |only
fame-1.13/fame/man/naWindow.Rd |only
fame-1.13/fame/man/pad.string.Rd |only
fame-1.13/fame/man/print.tis.Rd |only
fame-1.13/fame/man/sendSocketObject.Rd |only
fame-1.13/fame/man/setDefaultFrequencies.Rd |only
fame-1.13/fame/man/solve.tridiag.Rd |only
fame-1.13/fame/man/ssDate.Rd |only
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fame-1.13/fame/man/stripBlanks.Rd |only
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fame-1.13/fame/man/t.tis.Rd |only
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fame-1.13/fame/man/tiDaily.Rd |only
fame-1.13/fame/man/tif.Rd |only
fame-1.13/fame/man/tif2freq.Rd |only
fame-1.13/fame/man/tis.Rd |only
fame-1.13/fame/man/tisFromCsv.Rd |only
fame-1.13/fame/man/today.Rd |only
fame-1.13/fame/man/unix |only
fame-1.13/fame/man/window.tis.Rd |only
fame-1.13/fame/man/windows |only
fame-1.13/fame/man/ymd.Rd |only
fame-1.13/fame/src/alarmc.c |only
fame-1.13/fame/src/dgtsv.c |only
fame-1.13/fame/src/lintegrate.c |only
fame-2.0/fame/DESCRIPTION | 8 -
fame-2.0/fame/NAMESPACE | 182 +-------------------------
fame-2.0/fame/R/fame.R |only
fame-2.0/fame/R/fameObjectAttributes.R |only
fame-2.0/fame/R/fameSupport.R | 23 +++
fame-2.0/fame/R/osUtilities.R | 36 -----
fame-2.0/fame/R/unix/zzz.R | 29 +---
fame-2.0/fame/R/windows/zzz.R | 38 ++++-
fame-2.0/fame/README | 99 ++------------
fame-2.0/fame/configure | 179 +++++++++++++++----------
fame-2.0/fame/configure.ac | 91 +++++++------
fame-2.0/fame/man/customization.Rd |only
fame-2.0/fame/man/getfame.Rd | 20 --
fame-2.0/fame/man/getfameAttribute.Rd |only
fame-2.0/fame/man/is.scalar.Rd | 15 --
fame-2.0/fame/man/lowLevelFame.Rd |only
fame-2.0/fame/man/osUtilities.Rd | 24 ---
fame-2.0/fame/man/tifToFameName.Rd | 2
fame-2.0/fame/src/Makevars.win | 10 +
fame-2.0/fame/src/fame.c | 7 -
137 files changed, 282 insertions(+), 481 deletions(-)
Author: Sarah Goslee and Dean Urban
Title: Dissimilarity-based functions for ecological analysis
Description: Dissimilarity-based analysis functions including ordination and Mantel test functions, intended for use with spatial and community data.
Diff between ecodist versions 1.1.5 dated 2008-09-09 and 1.2.1 dated 2008-09-10
DESCRIPTION | 6 +++--- src/Makevars |only 2 files changed, 3 insertions(+), 3 deletions(-)
Author: Martyn Plummer, Nicky Best, Kate Cowles, Karen Vines
Title: Output analysis and diagnostics for MCMC
Description: Output analysis and diagnostics for Markov Chain Monte
Carlo simulations.
Diff between coda versions 0.13-2 dated 2008-05-16 and 0.13-3 dated 2008-09-10
DESCRIPTION | 6 +++--- R/gelman.R | 15 +++++++++++++-- man/gelman.diag.Rd | 4 +++- 3 files changed, 19 insertions(+), 6 deletions(-)
Author: Lester Yuan, Tom Stockton, Doug Bronson, Pasha Minallah, and Mark Fitzgerald
Title: Provides a GUI to several statistical methods useful for causal assessment.
Description: Using JGR, provides a GUI to several statistical methods -
scatterplot, boxplot, linear regression, generalized linear regression, quantile,
regression, conditional probability calculations,
and regression trees.
Diff between CADStat versions 2.1-09 dated 2008-07-30 and 2.1-12 dated 2008-09-10
CADStat-2.1-09/CADStat/inst/doc/.svn |only CADStat-2.1-12/CADStat/DESCRIPTION | 6 ++-- CADStat-2.1-12/CADStat/NEWS | 3 ++ CADStat-2.1-12/CADStat/R/boxplot.JGR.R | 46 +++++++++++++++++---------------- CADStat-2.1-12/CADStat/R/zzz.R | 10 +++---- 5 files changed, 35 insertions(+), 30 deletions(-)
Author: Thomas Lumley
Title: analysis of complex survey samples
Description: Summary statistics, generalised linear models, and general maximum pseudolikelihood estimation for multistage stratified, cluster-sampled, unequally weighted survey samples. Variances by Taylor series linearisation or replicate weights. Post-stratification, calibration, and raking. Two-phase designs. Graphics.
Diff between survey versions 3.8-1 dated 2008-08-22 and 3.9 dated 2008-09-09
._NAMESPACE |binary DESCRIPTION | 6 ++--- INDEX | 1 NAMESPACE | 41 ++++++++++++++++++++++++++++++++++++- R/DBI.R |only R/multistage.R | 6 ++--- R/olr.R | 8 +++++-- R/survey.R | 3 +- R/surveyby.R | 4 ++- R/surveygraph.R | 51 +++++++++++++++++++++++++++++++++++++++++++++-- R/svykappa.R | 3 +- R/svysmooth.R | 3 +- inst/CITATION | 2 - inst/NEWS | 7 ++++++ inst/api.db |only inst/doc/._survey.Rnw |binary inst/doc/._survey.tex |binary inst/doc/domain.log | 4 +-- inst/doc/domain.pdf |binary inst/doc/domain.tex | 14 ++++++------ inst/doc/epi.log | 4 +-- inst/doc/epi.pdf |binary inst/doc/epi.tex | 10 ++++----- inst/doc/phase1.log | 4 +-- inst/doc/phase1.pdf |binary inst/doc/survey.log | 4 +-- inst/doc/survey.pdf |binary man/open.DBIsvydesign.Rd |only man/svyby.Rd | 4 ++- man/svycoplot.Rd |only man/svydesign.Rd | 45 ++++++++++++++++++++++++++++++----------- man/svyplot.Rd | 4 ++- tests/DBIcheck.R |only tests/DBIcheck.Rout.save |only 34 files changed, 178 insertions(+), 50 deletions(-)
Author: Katharine M. Mullen and Ivo H. M. van Stokkum
Title: The Lawson-Hanson algorithm for non-negative least squares (NNLS)
Description: An R interface to the Lawson-Hanson implementation of an algorithm for non-negative least squares (NNLS). Also allows the combination of non-negative and non-positive constraints.
Diff between nnls versions 1.1 dated 2007-12-03 and 1.2 dated 2008-09-09
DESCRIPTION | 9 ++++----- R/nnls.R | 34 +++++++++++++++++++++++++++------- man/nnls-package.Rd | 11 ++++++----- man/nnls.Rd | 27 +++++++++++++++++++-------- man/nnnpls.Rd | 18 +++++++++++++----- src/lawson_hanson_nnls.f | 2 +- src/nnnpls.f | 2 +- 7 files changed, 71 insertions(+), 32 deletions(-)
Author: Derek Young
Tatiana Benaglia
Didier Chauveau
Ryan Elmore
Tom Hettmansperger
David Hunter
Hoben Thomas
Fengjuan Xuan
Title: Tools for analyzing finite mixture models
Description: A collection of R functions for analyzing finite mixture models.
Diff between mixtools versions 0.3.1 dated 2008-08-31 and 0.3.2 dated 2008-09-09
mixtools-0.3.1/mixtools/R/npEMindrep.R |only mixtools-0.3.1/mixtools/man/npEMindrep.Rd |only mixtools-0.3.1/mixtools/src/kernelsmoothrepeated.c.old |only mixtools-0.3.2/mixtools/DESCRIPTION | 6 +++--- mixtools-0.3.2/mixtools/R/plotMCMC.R | 3 +-- 5 files changed, 4 insertions(+), 5 deletions(-)
Author: Sarah Goslee and Dean Urban
Title: Dissimilarity-based functions for ecological analysis
Description: Dissimilarity-based analysis functions including ordination and Mantel test functions, intended for use with spatial and community data.
Diff between ecodist versions 1.1.3 dated 2007-10-07 and 1.1.5 dated 2008-09-09
ecodist-1.1.3/ecodist/CITATION |only ecodist-1.1.5/ecodist/DESCRIPTION | 6 - ecodist-1.1.5/ecodist/R/MRM.R |only ecodist-1.1.5/ecodist/R/corgen.R | 75 +++++++++++---- ecodist-1.1.5/ecodist/R/distance.R | 19 +++ ecodist-1.1.5/ecodist/R/lower.R | 8 + ecodist-1.1.5/ecodist/R/mantel.R | 2 ecodist-1.1.5/ecodist/R/nmds.R | 2 ecodist-1.1.5/ecodist/inst |only ecodist-1.1.5/ecodist/man/MRM.Rd |only ecodist-1.1.5/ecodist/man/corgen.Rd | 17 ++- ecodist-1.1.5/ecodist/man/ecodist-package.Rd | 10 +- ecodist-1.1.5/ecodist/man/full.Rd | 1 ecodist-1.1.5/ecodist/man/lower.Rd | 1 ecodist-1.1.5/ecodist/src/ecodist.c | 132 +++++++++++++++++++++++++++ 15 files changed, 236 insertions(+), 37 deletions(-)
Author: Katharine M. Mullen
Title: The Stark-Parker algorithm for bounded-variable least squares
Description: An R interface to the Stark-Parker implementation of an algorithm for bounded-variable least squares
Diff between bvls versions 1.1 dated 2008-08-06 and 1.2 dated 2008-09-09
DESCRIPTION | 6 +++--- man/bvls-package.Rd | 5 +++-- man/bvls.Rd | 6 +++--- 3 files changed, 9 insertions(+), 8 deletions(-)
Author: S original
Diff between boot versions 1.2-33 dated 2008-05-05 and 1.2-34 dated 2008-09-09
Title: Bootstrap R (S-Plus) Functions (Canty)
Description: functions and datasets for bootstrapping from the
book "Bootstrap Methods and Their Applications" by A. C. Davison and
D. V. Hinkley (1997, CUP).
ChangeLog | 7 ++++
DESCRIPTION | 6 +--
R/bootfuns.q | 94 +++++++++++++++++++++++++++++++++--------------------------
man/boot.Rd | 8 ++++-
4 files changed, 70 insertions(+), 45 deletions(-)
Author: Robin Nunkesser
Diff between RFreak versions 0.2-3 dated 2008-08-21 and 0.2-4 dated 2008-09-09
Title: R/FrEAK interface
Description: An R interface to a modified version of the Free Evolutionary Algorithm Kit FrEAK. FrEAK is a toolkit written in Java to design and analyze evolutionary algorithms. Both the R interface and an extended version of FrEAK are contained in the RFreak package. For more information on FrEAK see http://sourceforge.net/projects/freak427/.
RFreak-0.2-3/RFreak/inst/java/rfreak-0.2-2.jar |only
RFreak-0.2-4/RFreak/DESCRIPTION | 6 +-
RFreak-0.2-4/RFreak/R/functions.r | 22 ----------
RFreak-0.2-4/RFreak/inst/java/README | 2
RFreak-0.2-4/RFreak/inst/java/build.xml | 2
RFreak-0.2-4/RFreak/inst/java/rfreak-0.2-4.jar |only
RFreak-0.2-4/RFreak/inst/java/run.cmd | 2
RFreak-0.2-4/RFreak/inst/java/run.sh | 2
RFreak-0.2-4/RFreak/inst/java/src/freak/core/control/RunControl.java | 13 ++++-
RFreak-0.2-4/RFreak/inst/java/src/freak/core/modulesupport/ClassCollector.java | 2
RFreak-0.2-4/RFreak/inst/java/src/freak/core/util/GraphViz.java | 2
RFreak-0.2-4/RFreak/inst/java/src/freak/gui/scheduleeditor/ScheduleEditor.java | 2
RFreak-0.2-4/RFreak/inst/java/src/freak/gui/scheduleeditor/ScheduleEditorPanel.java | 2
RFreak-0.2-4/RFreak/inst/java/src/freak/rinterface/control/LogRegInterface.java | 8 ++-
RFreak-0.2-4/RFreak/inst/java/src/freak/rinterface/control/RFreak.java | 2
15 files changed, 28 insertions(+), 39 deletions(-)
Author: Douglas Bates
Diff between Matrix versions 0.999375-13 dated 2008-08-31 and 0.999375-14 dated 2008-09-09
Title: A Matrix package for R
Description: Classes and methods for dense and sparse matrices and
operations on them using Lapack, CSparse and CHOLMOD
ChangeLog | 21
DESCRIPTION | 6
R/Auxiliaries.R | 23 -
R/Csparse.R | 2
R/Matrix.R | 27 -
R/Ops.R | 17
R/dMatrix.R | 2
R/lMatrix.R | 2
TODO | 2
inst/doc/Comparisons.pdf |binary
inst/doc/Design-issues.pdf | 760 +++++++++++++++++------------------
inst/doc/Intro2Matrix.pdf | 960 +++++++++++++++++++++------------------------
inst/doc/Introduction.pdf |binary
inst/doc/sparseModels.pdf |binary
man/Matrix-class.Rd | 6
man/drop0.Rd | 15
tests/Simple.R | 5
tests/indexing.Rout.save | 23 -
tests/validObj.R | 4
19 files changed, 922 insertions(+), 953 deletions(-)
Author: Katharine M. Mullen
Title: multivariate curve resolution alternating least squares (MCR-ALS)
Description: Alternating least squares is often used to resolve components contributing to data with a bilinear structure; the basic technique may be extended to alternating constrained least squares. Commonly applied constraints include unimodality, non-negativity, and normalization of components. Several data matrices may be decomposed simultaneously by assuming that one of the two matrices in the bilinear decomposition is shared between datasets.
Diff between ALS versions 0.0.1 dated 2008-08-06 and 0.0.2 dated 2008-09-09
DESCRIPTION | 6 +++--- NAMESPACE |only man/als.Rd | 6 +----- man/multiex1.Rd | 2 +- 4 files changed, 5 insertions(+), 9 deletions(-)
Author: Adrian Baddeley
Diff between spatstat versions 1.14-1 dated 2008-07-29 and 1.14-2 dated 2008-09-08
Title: Spatial Point Pattern analysis, model-fitting, simulation, tests
Description: A package for analysing spatial data,
mainly Spatial Point Patterns, including multitype/marked points
and spatial covariates, in any two-dimensional spatial region.
Contains functions for plotting spatial data,
exploratory data analysis, model-fitting, simulation,
spatial sampling, model diagnostics,
and formal inference. Data types include point patterns,
line segment patterns, spatial windows, and
pixel images. Point process models can be
fitted to point pattern data. Cluster type models are fitted
by the method of minimum contrast. Very general Gibbs point
process models can be fitted to point pattern data
using a function ppm similar to lm or glm. Models may
include dependence on covariates, interpoint interaction
and dependence on marks. Fitted models can be simulated automatically.
Also provides facilities for formal inference (such as chi-squared
tests) and model diagnostics (including simulation
envelopes, residuals, residual plots and Q-Q plots).
DESCRIPTION | 6 +-
INDEX | 4 +
R/affine.S | 4 -
R/dummy.S | 24 +++++----
R/images.R | 21 +++++++-
R/mpl.R | 15 +++--
R/plot.owin.S | 40 +++++++++++++--
R/plot.plotppm.R | 15 +++--
R/plot.ppm.S | 36 +++++++++-----
R/ppmclass.R | 4 -
R/predict.ppm.S | 131 +++++++++++++++++++++++++++++++++++++++++++---------
R/quadclass.S | 12 +++-
R/quadscheme.S | 32 +++++++-----
R/rescale.R | 14 +++++
R/weights.S | 4 -
data/murchison.rda |only
demo/data.R | 5 +
demo/spatstat.R | 19 +++++++
man/00spatstat.Rd | 35 ++++++++++---
man/copper.Rd | 1
man/internal.Rd | 8 +--
man/murchison.Rd |only
man/pixelquad.Rd |only
man/plot.owin.Rd | 7 +-
man/plot.plotppm.Rd | 7 ++
man/plot.ppm.Rd | 6 +-
man/ppm.Rd | 9 +++
man/predict.ppm.Rd | 113 +++++++++++++++++++++++++++++---------------
man/rescale.im.Rd |only
man/subset.quad.Rd |only
man/vcov.ppm.Rd | 22 ++++++++
src/xyseg.c | 56 +++++++++++++++++++++-
32 files changed, 500 insertions(+), 150 deletions(-)
Author: Justin Lokhorst, Bill Venables and Berwin Turlach;
port to R, tests etc: Martin Maechler
Diff between lasso2 versions 1.2-6 dated 2007-09-30 and 1.2-8 dated 2008-09-08
Title: L1 constrained estimation aka `lasso'
Description: Routines and documentation for solving regression problems
while imposing an L1 constraint on the estimates, based on
the algorithm of Osborne et al. (1998)
lasso2-1.2-6/lasso2/inst/doc/Manual-vignette.aux |only
lasso2-1.2-6/lasso2/inst/doc/Manual-vignette.log |only
lasso2-1.2-8/lasso2/ChangeLog | 10 ++++++++++
lasso2-1.2-8/lasso2/DESCRIPTION | 8 ++++----
lasso2-1.2-8/lasso2/inst/doc/Makefile |only
lasso2-1.2-8/lasso2/inst/doc/Manual-vignette.pdf |binary
lasso2-1.2-8/lasso2/inst/doc/Manual-vignette.tex | 2 +-
lasso2-1.2-8/lasso2/man/gcv.Rd | 1 -
lasso2-1.2-8/lasso2/man/gl1ce.Rd | 1 -
lasso2-1.2-8/lasso2/man/summary.l1ce.Rd | 1 -
10 files changed, 15 insertions(+), 8 deletions(-)
Author: Jonathan Weeks
Diff between plink versions 0.0-4 dated 2007-12-24 and 0.0-5 dated 2008-09-08
Title: IRT Separate Calibration Linking Methods
Description: This package uses item response theory methods to compute linking constants and conduct
chain linking of tests for multiple groups under a nonequivalent groups common item design.
It allows for mean/mean, mean/sigma, Haebara, and Stocking-Lord calibrations of dichotomous
(1PL, 2PL, and 3PL) and/or polytomous (graded response, partial credit/generalized partial
credit, nominal, and multiple-choice model) common items.
CITATION |only
DESCRIPTION | 10 +++++-----
NEWS |only
R/irt.pars.R | 1 +
R/link.R | 2 +-
R/plink.R | 11 +++--------
R/plot.R | 6 +++---
R/sep.pars.R | 2 +-
R/summary.R | 16 +++++++---------
man/as.irt.pars.Rd | 8 ++++----
man/as.poly.mod.Rd | 2 +-
man/as.weight.Rd | 2 +-
man/combine.pars.Rd | 2 +-
man/drm-methods.Rd | 2 +-
man/gpcm-methods.Rd | 2 +-
man/grm-methods.Rd | 2 +-
man/irt.pars-class.Rd | 2 +-
man/irt.prob-class.Rd | 2 +-
man/is.irt.pars.Rd | 2 +-
man/link-class.Rd | 2 +-
man/link.con.Rd | 2 +-
man/list.poly-class.Rd | 2 +-
man/mcm-methods.Rd | 2 +-
man/mixed-methods.Rd | 2 +-
man/nrm-methods.Rd | 2 +-
man/plink-methods.Rd | 6 ++++--
man/plink-package.Rd | 4 ++--
man/plot.irt.prob.Rd | 2 +-
man/poly.mod-class.Rd | 2 +-
man/sep.pars-class.Rd | 4 ++--
man/sep.pars-methods.Rd | 2 +-
man/summary.irt.pars.Rd | 6 ++++--
32 files changed, 55 insertions(+), 57 deletions(-)
Author: Josh Ulrich
Title: Convert values to/from raw vectors
Description: Functions to easily convert data to binary formats other programs/machines can understand.
Diff between pack versions 0.1 dated 2008-08-17 and 0.1-1 dated 2008-09-08
DESCRIPTION | 10 +++---- NAMESPACE |only R/pack.R | 59 +++++++++++++++++++++++++++++----------------- R/unpack.R | 66 +++++++++++++++++++++++++++++++++++++--------------- man/numToRaw.Rd | 2 - man/pack-package.Rd | 9 +++---- man/pack.Rd | 20 ++++++++++----- man/rawToNum.Rd | 2 - man/unpack.Rd | 41 ++++++++++++++++++++------------ 9 files changed, 136 insertions(+), 73 deletions(-)
Author: Marco Scutari
Title: Bayesian network structure learning
Description: Bayesian network structure learning
via constraint-based (also known as 'conditional
independence') and score-based algorithms.
This package implements the Grow-Shrink (GS)
algorithm, the Incremental Association (IAMB)
algorithm, the Interleaved-IAMB (Inter-IAMB)
algorithm, the Fast-IAMB (Fast-IAMB) algorithm
and the Hill-Climbing (HC) greedy search
algorithm for both discrete and gaussian networks,
along with many score functions and conditional
independence tests.
Some utility functions (model comparison and
manipulation, random data generation, arc
orientation testing) are also included.
Diff between bnlearn versions 0.8 dated 2008-06-20 and 0.9 dated 2008-09-08
bnlearn-0.8/bnlearn/man/31.choose.direction.Rd |only bnlearn-0.8/bnlearn/man/32.arc.strength.Rd |only bnlearn-0.8/bnlearn/src/nparams.c |only bnlearn-0.9/bnlearn/Changelog |only bnlearn-0.9/bnlearn/DESCRIPTION | 6 bnlearn-0.9/bnlearn/NAMESPACE | 13 bnlearn-0.9/bnlearn/R/arc.strength.R | 6 bnlearn-0.9/bnlearn/R/backend-indep.R | 72 ++-- bnlearn-0.9/bnlearn/R/backend-score.R | 40 +- bnlearn-0.9/bnlearn/R/frontend.R | 443 ++++++++++++++++--------- bnlearn-0.9/bnlearn/R/globals.R |only bnlearn-0.9/bnlearn/R/graph-generation.R | 19 - bnlearn-0.9/bnlearn/R/hill-climbing.R | 34 - bnlearn-0.9/bnlearn/R/methods.R | 14 bnlearn-0.9/bnlearn/R/scores.R | 22 - bnlearn-0.9/bnlearn/R/simulation.R | 11 bnlearn-0.9/bnlearn/R/test.R | 211 +++++++++-- bnlearn-0.9/bnlearn/R/utils-arcs.R | 21 + bnlearn-0.9/bnlearn/R/utils-graph.R | 284 +--------------- bnlearn-0.9/bnlearn/R/utils-sanitization.R | 86 ++++ bnlearn-0.9/bnlearn/R/utils-tests.R | 114 +++--- bnlearn-0.9/bnlearn/man/00.bnlearn-package.Rd | 14 bnlearn-0.9/bnlearn/man/10.gs.Rd | 9 bnlearn-0.9/bnlearn/man/11.iamb.Rd | 9 bnlearn-0.9/bnlearn/man/12.fast.iamb.Rd | 9 bnlearn-0.9/bnlearn/man/13.inter.iamb.Rd | 9 bnlearn-0.9/bnlearn/man/20.mb.Rd | 22 - bnlearn-0.9/bnlearn/man/22.modelstring.Rd | 3 bnlearn-0.9/bnlearn/man/24.graphgen.Rd | 1 bnlearn-0.9/bnlearn/man/25.ordering.Rd | 4 bnlearn-0.9/bnlearn/man/31.ci.test.Rd |only bnlearn-0.9/bnlearn/man/32.choose.direction.Rd |only bnlearn-0.9/bnlearn/man/33.arc.strength.Rd |only bnlearn-0.9/bnlearn/man/40.rbn.Rd | 5 bnlearn-0.9/bnlearn/man/A2.asia.Rd | 7 bnlearn-0.9/bnlearn/src/bayesian.network.c |only bnlearn-0.9/bnlearn/src/is.dag.c | 88 ++++ bnlearn-0.9/bnlearn/src/path.c |only bnlearn-0.9/bnlearn/src/pearson.x2.c |only 39 files changed, 908 insertions(+), 668 deletions(-)
Author: David A. James and Saikat DebRoy
Title: R interface to the MySQL database
Description: Database interface and MySQL driver for R.
This version complies with the database interface
definition as implemented in the package DBI 0.2-2.
Diff between RMySQL versions 0.6-0 dated 2007-06-01 and 0.6-1 dated 2008-09-08
DESCRIPTION | 8 ++++---- R/MySQL.R | 18 +++++++++++++++--- R/MySQLSupport.R | 10 ++++++---- inst/NEWS | 19 +++++++++++++++++++ man/dbDataType-methods.Rd | 3 +-- man/dbGetInfo-methods.Rd | 3 ++- src/RS-DBI.c | 13 +++++++++---- src/RS-DBI.h | 4 +++- src/RS-MySQL.c | 20 ++++++++++++-------- 9 files changed, 71 insertions(+), 27 deletions(-)
Author: Laercio Junio da Silva
Diff between laercio versions 0.9-5 dated 2008-07-20 and 1.0-0 dated 2008-09-07
Title: Duncan test, Tukey test and Scott-Knott test.
Description: The package contains functions to compare and group means.
DESCRIPTION | 6 +++---
R/LScottKnott.R | 2 +-
R/LScottKnott.aov.r | 49 +++++++++++++++++++++++++++----------------------
R/ldata.R | 2 +-
man/LScottKnott.Rd | 17 ++++++++++++++---
man/laercio-package.Rd | 4 ++--
6 files changed, 48 insertions(+), 32 deletions(-)
Author: Chong Gu
Diff between gss versions 1.0-1 dated 2008-07-05 and 1.0-2 dated 2008-09-07
Title: General Smoothing Splines
Description: A comprehensive package for structural multivariate
function estimation using smoothing splines.
ChangeLog | 6 ++++++
DESCRIPTION | 4 ++--
R/mkran.R | 1 +
R/predict.ssanova.R | 8 ++++----
R/project.gssanova.R | 2 +-
R/project.ssanova.R | 2 +-
R/sshzd.R | 1 +
src/reg.f | 4 ++--
8 files changed, 18 insertions(+), 10 deletions(-)
Author: Michael Malecki
Title: apsrtable model-output formatter for social science
Description: Formats latex tables from one or more model objects side-by-side with standard errors below, not unlike tables found in such journals as the American Political Science Review.
Diff between apsrtable versions 0.5-2 dated 2008-08-22 and 0.5-3 dated 2008-09-07
DESCRIPTION | 4 ++-- R/apsrtable.R | 6 +++--- man/apsrtable.Rd | 2 +- 3 files changed, 6 insertions(+), 6 deletions(-)
Author: Virasakdi Chongsuvivatwong
Diff between epicalc versions 2.7.1.2 dated 2008-07-11 and 2.7.2.1 dated 2008-09-07
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.
DESCRIPTION | 6 +-
R/epicalc.R | 170 ++++++++++++++++++++++++++++++++++++++----------------------
2 files changed, 113 insertions(+), 63 deletions(-)
Author: Reinhard Furrer
Title: SPArse Matrix
Description: Set of function for sparse matrix algebra.
Differences with SparseM/Matrix are:
(1) we only support (essentially) one sparse matrix format,
(2) based on transparent and simple structure(s),
(3) tailored for MCMC calculations within GMRF.
(4) S3 and S4 like-"compatible" ... and it is fast.
Diff between spam versions 0.15-0 dated 2008-06-15 and 0.15-1 dated 2008-09-06
DESCRIPTION | 6 NAMESPACE | 9 + R/definitions.R | 322 ++++++++++++++++++++++++++++++++++++--------------- R/dist.R | 20 +-- R/spam_solve.R | 45 ++++--- inst/NEWS | 36 +++++ man/allequal.Rd |only man/chol.Rd | 2 man/dim.Rd | 5 man/display.Rd | 3 man/image.Rd | 4 man/isSymmetric.Rd |only man/nearestdist.Rd | 19 ++- man/spam-class.Rd | 6 man/spam.creation.Rd | 23 ++- man/todo.Rd | 2 man/triplet.Rd | 16 +- man/xybind.Rd | 2 src/cholmodified.f | 40 ++++-- src/dist.f | 236 ++++++++++++++----------------------- src/spamown.f | 132 ++++++++++++++++---- tests/dist.R | 40 +++++- tests/overall.R | 49 +++++++ 23 files changed, 681 insertions(+), 336 deletions(-)
Author: R. H. Baayen
Title: Data sets and functions with "Analyzing Linguistic Data: A practical introduction to statistics".
Description: Data sets exemplifying statistical methods, and some
facilitatory utility functions used in
"Analyzing Linguistic Data: A practical introduction to
statistics using R", Cambridge University Press, 2008.
Diff between languageR versions 0.95 dated 2008-07-12 and 0.953 dated 2008-09-06
DESCRIPTION | 6 ++-- R/plot.logistic.fit.fnc.R | 18 +++++++++---- R/plotAll.fnc.R | 59 +++++++++++++++++++++---------------------- R/plotLMER.fnc.R | 21 ++++++++++++--- R/pvals.fnc.R | 23 +++++++--------- man/plot.logistic.fit.fnc.Rd | 28 ++++++++++++++++++-- man/plotAll.fnc.Rd | 5 ++- man/plotLMER.fnc.Rd | 20 ++++++++++---- 8 files changed, 118 insertions(+), 62 deletions(-)
Author: Dylan Arena
Title: Calculate probabilities of various dice-rolling events
Description: This package provides utilities to calculate the probabilities of various dice-rolling events, such as the probability of rolling a four-sided die six times and getting a 4, a 3, and either a 1 or 2 among the six rolls (in any order); the probability of rolling two six-sided dice three times and getting a 10 on the first roll, followed by a 4 on the second roll, followed by anything but a 7 on the third roll; or the probabilities of each possible total of rolling five six-sided dice, dropping the lowest two rolls, and summing the remaining dice.
Diff between dice versions 1.0-1 dated 2008-01-19 and 1.1 dated 2008-09-06
dice-1.0-1/dice/man/getOutcomeProb.Rd |only dice-1.1/dice/DESCRIPTION | 12 +- dice-1.1/dice/R/dice.R | 178 +++++++++++++++++++--------------- dice-1.1/dice/man/dice-package.Rd | 27 +++-- dice-1.1/dice/man/getEventProb.Rd |only dice-1.1/dice/man/getTotalProbs.Rd | 18 +-- 6 files changed, 135 insertions(+), 100 deletions(-)
Author: Matthias Templ
Title: Statistical Disclosure Control methods for the generation of public- and scientific-use files.
Description: Data from statistical agencies and other institutions are mostly confidential. This package can be used for the generation of save (micro)data, i.e. for the generation of public- and scientific-use files.
Diff between sdcMicro versions 2.5.0 dated 2008-06-10 and 2.5.1 dated 2008-09-05
DESCRIPTION | 6 +-- R/freqCalc.r | 1 R/microaggregation.R | 76 +++++++++++++++++++++++++++++++++-------- inst/doc/functionsRMD.c |only inst/doc/sdcMicroPaper-001.pdf | 4 +- inst/doc/sdcMicroPaper.log | 2 - 6 files changed, 70 insertions(+), 19 deletions(-)
Author: A.I. McLeod
Title: R Workspace Manager
Description: APL-like functions for managing R workspaces.
Diff between rwm versions 1.24 dated 2008-08-23 and 1.25 dated 2008-09-05
DESCRIPTION | 6 +++--- INDEX | 1 + R/continuews.R |only man/InitializeRWM.Rd | 4 ++++ man/TestRWMSetup.Rd | 4 ++++ man/clearws.Rd | 4 ++++ man/continuews.Rd |only man/loadws.Rd | 4 ++++ man/rwm-package.Rd | 16 +++++++++++----- man/savews.Rd | 4 ++++ 10 files changed, 35 insertions(+), 8 deletions(-)
Author: Valentin Todorov
Diff between rrcov versions 0.4-06 dated 2008-06-18 and 0.4-07 dated 2008-09-05
Title: Scalable Robust Estimators with High Breakdown Point
Description: Robust Location and Scatter Estimation and Robust Multivariate Analysis with High Breakdown Point.
rrcov-0.4-06/rrcov/INDEX |only
rrcov-0.4-06/rrcov/inst/doc/CovControlModel-04-02.gif |only
rrcov-0.4-06/rrcov/inst/doc/CovModelFull-04-03.gif |only
rrcov-0.4-06/rrcov/inst/doc/PcaModel-04-03.gif |only
rrcov-0.4-07/rrcov/ChangeLog | 30
rrcov-0.4-07/rrcov/DESCRIPTION | 6
rrcov-0.4-07/rrcov/R/AllClasses.R | 34
rrcov-0.4-07/rrcov/R/CovClassic.R | 8
rrcov-0.4-07/rrcov/R/CovControl.R | 17
rrcov-0.4-07/rrcov/R/CovMest.R | 17
rrcov-0.4-07/rrcov/R/CovMve.R | 116 +-
rrcov-0.4-07/rrcov/R/CovOgk.R | 102 +-
rrcov-0.4-07/rrcov/R/CovRobust.R | 6
rrcov-0.4-07/rrcov/R/CovSest.R | 585 ++++++++++++++
rrcov-0.4-07/rrcov/R/covMest3.R | 8
rrcov-0.4-07/rrcov/R/plot-utils.R | 18
rrcov-0.4-07/rrcov/data/un86.rda |only
rrcov-0.4-07/rrcov/inst/doc/CovControlModel-04-07.gif |only
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rrcov-0.4-07/rrcov/man/CovControlOgk.Rd | 29
rrcov-0.4-07/rrcov/man/CovControlSest-class.Rd | 2
rrcov-0.4-07/rrcov/man/CovControlSest.Rd | 18
rrcov-0.4-07/rrcov/man/CovMest.Rd | 3
rrcov-0.4-07/rrcov/man/CovMve-class.Rd | 7
rrcov-0.4-07/rrcov/man/CovMve.Rd | 42 -
rrcov-0.4-07/rrcov/man/CovOgk.Rd | 16
rrcov-0.4-07/rrcov/man/CovSest.Rd | 55 +
rrcov-0.4-07/rrcov/man/covMest3.Rd | 5
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rrcov-0.4-07/rrcov/src/Makevars |only
rrcov-0.4-07/rrcov/src/covOPW.c |only
rrcov-0.4-07/rrcov/src/fast-mve.c | 28
rrcov-0.4-07/rrcov/tests/thubert.Rout.save | 712 +++++++++---------
rrcov-0.4-07/rrcov/tests/tmcd4.Rout.save | 119 +--
rrcov-0.4-07/rrcov/tests/tmest.Rout.save | 6
rrcov-0.4-07/rrcov/tests/tmest4.Rout.save | 6
rrcov-0.4-07/rrcov/tests/tmve4.Rout.save | 134 +--
rrcov-0.4-07/rrcov/tests/togk4.Rout.save | 6
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rrcov-0.4-07/rrcov/tests/tsest.Rout.save |only
41 files changed, 1467 insertions(+), 668 deletions(-)
Author: Hemant Ishwaran
Diff between randomSurvivalForest versions 3.5.0 dated 2008-07-28 and 3.5.1 dated 2008-09-05
More information about randomSurvivalForest at CRAN
Title: Ishwaran and Kogalur's Random Survival Forest
Description: Ensemble survival analysis based on a random forest of trees using random inputs.
randomSurvivalForest-3.5.0/randomSurvivalForest/inst/doc/rsf-Rnews-vignette.pdf |only
randomSurvivalForest-3.5.1/randomSurvivalForest/DESCRIPTION | 6 +--
randomSurvivalForest-3.5.1/randomSurvivalForest/R/extract.factor.R | 2 -
randomSurvivalForest-3.5.1/randomSurvivalForest/R/find.interaction.R | 2 -
randomSurvivalForest-3.5.1/randomSurvivalForest/R/interaction.rsf.R | 2 -
randomSurvivalForest-3.5.1/randomSurvivalForest/R/plot.ensemble.R | 2 -
randomSurvivalForest-3.5.1/randomSurvivalForest/R/plot.error.R | 2 -
randomSurvivalForest-3.5.1/randomSurvivalForest/R/plot.proximity.R | 2 -
randomSurvivalForest-3.5.1/randomSurvivalForest/R/plot.rsf.R | 2 -
randomSurvivalForest-3.5.1/randomSurvivalForest/R/plot.variable.R | 2 -
randomSurvivalForest-3.5.1/randomSurvivalForest/R/pmml2rsf.R | 2 -
randomSurvivalForest-3.5.1/randomSurvivalForest/R/predict.rsf.R | 2 -
randomSurvivalForest-3.5.1/randomSurvivalForest/R/print.rsf.R | 2 -
randomSurvivalForest-3.5.1/randomSurvivalForest/R/randomSurvivalForest.R | 2 -
randomSurvivalForest-3.5.1/randomSurvivalForest/R/rsf.R | 2 -
randomSurvivalForest-3.5.1/randomSurvivalForest/R/rsf.default.R | 2 -
randomSurvivalForest-3.5.1/randomSurvivalForest/R/rsf.formula.R | 2 -
randomSurvivalForest-3.5.1/randomSurvivalForest/R/rsf.news.R | 2 -
randomSurvivalForest-3.5.1/randomSurvivalForest/R/rsf2pmml.R | 2 -
randomSurvivalForest-3.5.1/randomSurvivalForest/R/zzz.R | 2 -
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randomSurvivalForest-3.5.1/randomSurvivalForest/src/extern.h | 2 -
randomSurvivalForest-3.5.1/randomSurvivalForest/src/factor.h | 2 -
randomSurvivalForest-3.5.1/randomSurvivalForest/src/global.h | 2 -
randomSurvivalForest-3.5.1/randomSurvivalForest/src/node.h | 2 -
randomSurvivalForest-3.5.1/randomSurvivalForest/src/node_ops.c | 2 -
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randomSurvivalForest-3.5.1/randomSurvivalForest/src/nrutil.c | 2 -
randomSurvivalForest-3.5.1/randomSurvivalForest/src/nrutil.h | 2 -
randomSurvivalForest-3.5.1/randomSurvivalForest/src/rsf.c | 2 -
randomSurvivalForest-3.5.1/randomSurvivalForest/src/rsf.h | 2 -
randomSurvivalForest-3.5.1/randomSurvivalForest/src/rsfBootstrap.c | 2 -
randomSurvivalForest-3.5.1/randomSurvivalForest/src/rsfBootstrap.h | 2 -
randomSurvivalForest-3.5.1/randomSurvivalForest/src/rsfEntry.c | 2 -
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randomSurvivalForest-3.5.1/randomSurvivalForest/src/rsfImpute.c | 2 -
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randomSurvivalForest-3.5.1/randomSurvivalForest/src/rsfSplitUtil.c | 4 +-
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50 files changed, 69 insertions(+), 61 deletions(-)
Permanent link
Author: Brian S. Yandell
Diff between qtlbim versions 1.7.7 dated 2008-04-24 and 1.8.1 dated 2008-09-05
Title: QTL Bayesian Interval Mapping
Description: Functions for model selection for genetic architecture.
qtlbim-1.7.7/qtlbim/demo |only
qtlbim-1.7.7/qtlbim/inst/ChangeLog.txt |only
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qtlbim-1.8.1/qtlbim/R/close.R | 127
qtlbim-1.8.1/qtlbim/R/coda.R | 4
qtlbim-1.8.1/qtlbim/R/condloci.R | 9
qtlbim-1.8.1/qtlbim/R/covar.R | 25
qtlbim-1.8.1/qtlbim/R/findloci.R | 11
qtlbim-1.8.1/qtlbim/R/gbye.R | 32
qtlbim-1.8.1/qtlbim/R/hpd.R | 2
qtlbim-1.8.1/qtlbim/R/io.R | 558
qtlbim-1.8.1/qtlbim/R/mcmc.R | 160
qtlbim-1.8.1/qtlbim/R/pairloci.R | 30
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qtlbim-1.8.1/qtlbim/R/qb.R | 72
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qtlbim-1.8.1/qtlbim/R/sim.R | 358
qtlbim-1.8.1/qtlbim/R/slice.R | 82
qtlbim-1.8.1/qtlbim/R/sweave.R | 37
qtlbim-1.8.1/qtlbim/inst/doc/bpPDF/slide-1-15.pdf | 154
qtlbim-1.8.1/qtlbim/inst/doc/bpPDF/slide-1-4.pdf | 158
qtlbim-1.8.1/qtlbim/inst/doc/bpPDF/slide-1-6.pdf | 182
qtlbim-1.8.1/qtlbim/inst/doc/bpPDF/slide-15-4.pdf | 158
qtlbim-1.8.1/qtlbim/inst/doc/bpPDF/slide-15-6.pdf | 174
qtlbim-1.8.1/qtlbim/inst/doc/bpPDF/slide-4-6.pdf | 158
qtlbim-1.8.1/qtlbim/inst/doc/bpPDF/slide1hpd.pdf | 6
qtlbim-1.8.1/qtlbim/inst/doc/bpPDF/slide2LOD-1.pdf | 6
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qtlbim-1.8.1/qtlbim/man/close.Rd | 2
qtlbim-1.8.1/qtlbim/man/coda.Rd | 3
qtlbim-1.8.1/qtlbim/man/meancomp.Rd | 2
qtlbim-1.8.1/qtlbim/man/pairloci.Rd | 2
qtlbim-1.8.1/qtlbim/man/qb-internal.Rd | 10
qtlbim-1.8.1/qtlbim/man/qbExample.Rd | 2
qtlbim-1.8.1/qtlbim/man/remove.Rd | 2
qtlbim-1.8.1/qtlbim/man/scanone.Rd | 3
qtlbim-1.8.1/qtlbim/man/scantwo.Rd | 3
qtlbim-1.8.1/qtlbim/man/sim.Rd | 9
qtlbim-1.8.1/qtlbim/man/sliceone.Rd | 2
qtlbim-1.8.1/qtlbim/man/slicetwo.Rd | 5
qtlbim-1.8.1/qtlbim/man/subset.Rd | 4
qtlbim-1.8.1/qtlbim/man/varcomp.Rd | 2
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qtlbim-1.8.1/qtlbim/src/GlobalVars.c | 47
qtlbim-1.8.1/qtlbim/src/GlobalVars.h | 96
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qtlbim-1.8.1/qtlbim/src/MatrixUtils.h |only
qtlbim-1.8.1/qtlbim/src/MultipleTraitsMCMC.c |only
qtlbim-1.8.1/qtlbim/src/MultipleTraitsMCMC.h |only
qtlbim-1.8.1/qtlbim/src/OutbredF2.c |only
qtlbim-1.8.1/qtlbim/src/RBayesianAnovaSetup.c |only
qtlbim-1.8.1/qtlbim/src/RInterfaces.h | 19
qtlbim-1.8.1/qtlbim/src/RMultipleTraitsMCMCSetup.c |only
qtlbim-1.8.1/qtlbim/src/ROutputManager.c | 14
qtlbim-1.8.1/qtlbim/src/RSingleTraitMCMCSetup.c | 17
qtlbim-1.8.1/qtlbim/src/SingleTraitMCMC.c | 62
qtlbim-1.8.1/qtlbim/src/SingleTraitMCMCSamplingRoutines.c | 11
qtlbim-1.8.1/qtlbim/src/StatUtils.c | 29
qtlbim-1.8.1/qtlbim/src/StatUtils.h | 1
94 files changed, 29589 insertions(+), 30127 deletions(-)
Author: Jim Lemon
Diff between prettyR versions 1.3-2 dated 2008-06-23 and 1.3-3 dated 2008-09-05
Title: Pretty descriptive stats.
Description: Functions for conventionally formatted descriptive stats, and
to format R output as HTML.
DESCRIPTION | 6 +++---
R/delim.table.R | 6 ++++--
man/delim.table.Rd | 5 ++++-
man/freq.Rd | 2 +-
4 files changed, 12 insertions(+), 7 deletions(-)
Author: Jim Lemon
Diff between plotrix versions 2.4-6 dated 2008-08-20 and 2.4-7 dated 2008-09-05
Title: Various plotting functions
Description: Lots of plots, various labeling, axis and color scaling functions.
DESCRIPTION | 6 +-
R/axis.break.R | 13 ++++-
R/barp.R | 10 ++--
R/emptyspace.R | 14 +++--
R/gap.barplot.R | 2
R/gradient.rect.R | 2
R/radial.plot.R | 26 ++++++++++
R/taylor.diagram.R | 128 ++++++++++++++++++++++++++++++++--------------------
man/axis.break.Rd | 2
man/barp.Rd | 2
man/clock24.plot.Rd | 3 -
man/emptyspace.Rd | 2
man/polar.plot.Rd | 2
man/radial.plot.Rd | 8 ++-
14 files changed, 151 insertions(+), 69 deletions(-)
Author: Karline Soetaert
Diff between limSolve versions 1.1 dated 2008-04-24 and 1.2 dated 2008-09-05
Title: Solving linear inverse models
Description: Functions that (1.) Find the minimum/maximum of a linear or quadratic function:
min or max (f(x)), where f(x) = ||Ax-b||^2 or f(x) = sum(ai*xi)
subject to equality constraints Ex=f and/or inequality constraints Gx>=h.
(2.) Sample an underdetermined- or overdetermined system Ex=f subject to Gx>=h, and if applicable Ax~=b.
(3.) Solve a linear system Ax=B for the unknown x. Includes banded and tridiagonal linear systems.
The package calls Fortran functions from LINPACK
limSolve-1.1/limSolve/inst/docs |only
limSolve-1.2/limSolve/DESCRIPTION | 4
limSolve-1.2/limSolve/R/inverse.R | 412 +
limSolve-1.2/limSolve/data/E_coli.rda |only
limSolve-1.2/limSolve/data/RigaWeb.rda |only
limSolve-1.2/limSolve/demo/limSolve.r | 4
limSolve-1.2/limSolve/inst/doc |only
limSolve-1.2/limSolve/man/Chemtax.Rd | 7
limSolve-1.2/limSolve/man/E_coli.Rd |only
limSolve-1.2/limSolve/man/Minkdiet.Rd | 7
limSolve-1.2/limSolve/man/RigaWeb.rd |only
limSolve-1.2/limSolve/man/Solve.banded.Rd | 2
limSolve-1.2/limSolve/man/Solve.tridiag.Rd | 2
limSolve-1.2/limSolve/man/ldei.Rd | 13
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limSolve-1.2/limSolve/man/linp.Rd | 49
limSolve-1.2/limSolve/man/lsei.Rd | 17
limSolve-1.2/limSolve/man/varranges.Rd | 17
limSolve-1.2/limSolve/man/varsample.Rd | 3
limSolve-1.2/limSolve/man/xranges.Rd | 49
limSolve-1.2/limSolve/man/xsample.Rd | 63
limSolve-1.2/limSolve/src/inverse.f | 6893 ++++++++++-------------------
22 files changed, 2993 insertions(+), 4549 deletions(-)
Author: Deepayan Sarkar
Diff between latticeExtra versions 0.5-1 dated 2008-07-28 and 0.5-2 dated 2008-09-05
Title: Extra Graphical Utilities Based on Lattice
Description: Extra graphical utilities based on lattice
latticeExtra-0.5-1/latticeExtra/R/marginals.R |only
latticeExtra-0.5-1/latticeExtra/inst/Changes |only
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latticeExtra-0.5-2/latticeExtra/DESCRIPTION | 8 -
latticeExtra-0.5-2/latticeExtra/NAMESPACE | 7 -
latticeExtra-0.5-2/latticeExtra/R/c.trellis.R | 17 +--
latticeExtra-0.5-2/latticeExtra/R/layer.R | 88 ++++---------------
latticeExtra-0.5-2/latticeExtra/R/marginal.plot.R |only
latticeExtra-0.5-2/latticeExtra/R/tileplot.R |only
latticeExtra-0.5-2/latticeExtra/inst/NEWS |only
latticeExtra-0.5-2/latticeExtra/man/c.trellis.Rd | 47 +++++-----
latticeExtra-0.5-2/latticeExtra/man/layer.Rd | 84 +++++++++---------
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latticeExtra-0.5-2/latticeExtra/man/panel.voronoi.Rd |only
latticeExtra-0.5-2/latticeExtra/man/tileplot.Rd |only
latticeExtra-0.5-2/latticeExtra/old.svnlog |only
17 files changed, 104 insertions(+), 147 deletions(-)
Author: Deepayan Sarkar
Diff between lattice versions 0.17-13 dated 2008-08-06 and 0.17-14 dated 2008-09-05
Title: Lattice Graphics
Description: Implementation of Trellis Graphics. See ?Lattice for a
brief introduction
DESCRIPTION | 6
NAMESPACE | 1
NEWS | 4
R/axis.R | 23 ++-
R/bwplot.R | 11 +
R/cloud.R | 2
R/densityplot.R | 45 +++++-
R/interaction.R | 186 +++++++++++++++++++++++++++
R/layout.R | 317 +++++++++++++++++++++++++++++------------------
R/legend.R | 2
R/miscellaneous.R | 6
R/panels.R | 4
R/parallel.R | 16 +-
R/update.trellis.R | 32 +++-
demo/lattice.R | 21 ++-
man/Lattice.Rd | 5
man/barchart.table.Rd | 6
man/draw.key.Rd | 3
man/histogram.Rd | 12 +
man/interaction.Rd | 31 ++++
man/llines.Rd | 24 +--
man/panel.densityplot.Rd | 6
man/panel.parallel.Rd | 23 ++-
man/prepanel.default.Rd | 12 +
man/splom.Rd | 11 +
man/update.trellis.Rd | 12 +
po/R-lattice.pot | 2
27 files changed, 613 insertions(+), 210 deletions(-)
Author: Max Kuhn, Steve Weston
Title: Classification and Regression Training in Parallel Using NetworkSpaces
Description: Augment some caret functions using parallel processing
Diff between caretNWS versions 0.19 dated 2008-06-11 and 0.23 dated 2008-09-05
DESCRIPTION | 8 R/trainNWS.R | 528 ++++++++++++++++++++++++++++--------------------- R/trainNWSControl.R | 12 - man/trainNWS.Rd | 69 ++++-- man/trainNWSControl.Rd | 8 5 files changed, 371 insertions(+), 254 deletions(-)
Author: Max Kuhn, Nathan Coulter
Title: Classification and Regression Training LSF Style
Description: Augment some caret functions for parallel processing
Diff between caretLSF versions 1.16 dated 2008-06-11 and 1.23 dated 2008-09-05
DESCRIPTION | 8 R/trainLSF.R | 428 ++++++++++++++++++++++++++++--------------------- R/trainLSFControl.R | 11 - man/trainLSF.Rd | 31 ++- man/trainLSFControl.Rd | 6 5 files changed, 293 insertions(+), 191 deletions(-)
Author: Max Kuhn. Contributions from Jed Wing, Steve Weston and Andre Williams
Title: Classification and Regression Training
Description: Misc functions for training and plotting classification and regression models
Diff between caret versions 3.32 dated 2008-08-01 and 3.37 dated 2008-09-05
DESCRIPTION | 8 NAMESPACE | 12 R/confusionMatrix.R | 2 R/createGrid.R | 9 R/createModel.R | 132 +++++++- R/getTrainPerf.R | 22 - R/lattice.train.R |only R/misc.R | 142 +++++++-- R/plot.train.R | 446 ++++++++++++++-------------- R/predict.train.R | 38 +- R/predictionFunction.R | 61 +++ R/print.train.R | 16 - R/probFunction.R | 17 - R/resampleHist.R | 15 R/selection.R | 31 + R/train.default.R | 163 +++++++--- R/trainControl.R | 7 inst/CHANGES |only inst/doc/caretMisc.pdf | 737 +++++++++++++++++++++++------------------------ inst/doc/caretTrain.Rnw | 219 ++++++++++--- inst/doc/caretTrain.pdf |binary inst/doc/caretVarImp.pdf |binary man/lattice.Rd |only man/plot.train.Rd | 8 man/postResample.Rd | 14 man/print.train.Rd | 7 man/resampleHist.Rd | 6 man/selection.Rd | 16 - man/train.Rd | 79 +++-- man/trainControl.Rd | 18 - 30 files changed, 1372 insertions(+), 853 deletions(-)
Author: Jarrod Hadfield
Title: ML and MCMC Methods for Pedigree Reconstruction and Analysis
Description: The primary aim of MasterBayes is to use MCMC techniques to integrate over uncertainty in pedigree configurations estimated from molecular markers and phenotypic data. Emphasis is put on the marginal distribution of parameters that relate the phenotypic data to the pedigree. All simulation is done in compiled C++ for efficency.
Diff between MasterBayes versions 2.3 dated 2008-06-16 and 2.4 dated 2008-09-05
MasterBayes-2.3/MasterBayes/inst/doc/Tutorial.tex |only MasterBayes-2.4/MasterBayes/DESCRIPTION | 6 MasterBayes-2.4/MasterBayes/R/ErrorCheck.R | 4 MasterBayes-2.4/MasterBayes/R/MCMCped.R | 24 MasterBayes-2.4/MasterBayes/R/genotype.list.R | 1 MasterBayes-2.4/MasterBayes/R/getXlist.R | 11 MasterBayes-2.4/MasterBayes/R/varPed.R | 64 MasterBayes-2.4/MasterBayes/inst/doc/Figures/Tutorial-050.pdf |only MasterBayes-2.4/MasterBayes/inst/doc/Figures/Tutorial-model.DSconfig.pdf |only MasterBayes-2.4/MasterBayes/inst/doc/Figures/Tutorial.Rnw | 89 MasterBayes-2.4/MasterBayes/inst/doc/Rplots.pdf |only MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-006.pdf | 6 MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-007.pdf | 6 MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-008.pdf | 6 MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-009.pdf | 6 MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-022.eps | 6429 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-022.pdf | 7054 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-027.eps | 5968 +- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-027.pdf | 7022 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-030.eps | 5380 +- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-030.pdf | 6524 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-035.eps |17018 ++++---- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-035.pdf |19979 ++++----- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-039.eps | 5930 +- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-039.pdf | 6546 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-044.eps |only MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-044.pdf |only MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-047.eps | 5997 +- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-047.pdf | 6535 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-050.eps | 3954 - MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-057.eps |15625 +++---- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-057.pdf |20976 ++++----- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-060.eps |16008 +++---- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-060.pdf |20982 +++++----- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-063.eps | 6200 +- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-063.pdf | 7056 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-068.eps | 6132 +- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-068.pdf | 7069 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-070.eps | 6385 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-070.pdf | 7044 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-073.eps | 6152 +- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-073.pdf | 7069 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-076.eps | 6121 +- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-076.pdf | 7186 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-078.eps | 6178 +- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-078.pdf | 6933 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-081.eps | 6026 +- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-081.pdf | 7184 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-084.eps | 5768 +- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-084.pdf | 7036 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-087.eps | 6012 +- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-087.pdf | 7059 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-090.eps | 5747 +- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-090.pdf | 7020 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-093.eps | 6001 +- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-093.pdf | 7022 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-096.eps |11294 ++--- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-096.pdf |14028 +++--- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-099.eps |19735 ++++----- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-099.pdf |14040 +++--- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-EPP2Test.eps | 6026 +- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-EPP2Test.pdf | 7184 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-EPPmerge.eps | 5768 +- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-EPPmerge.pdf | 7036 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-Herm.eps | 6001 +- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-Herm.pdf | 7022 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-MGped.eps | 5747 +- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-MGped.pdf | 7020 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-model.DSconfig.eps | 3954 - MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-model.INT.cntr.eps |16008 +++---- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-model.INT.cntr.pdf |20982 +++++----- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-model.INT.eps |15625 +++---- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-model.INT.pdf |20976 ++++----- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-model.ass.mat.eps | 6012 +- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-model.ass.mat.pdf | 7059 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-model.config.eps | 5997 +- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-model.config.pdf | 6535 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-model.miss.eps | 6132 +- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-model.miss.pdf | 7069 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-model.miss2.eps | 6121 +- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-model.miss2.pdf | 7186 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-model.miss2US.eps | 6178 +- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-model.miss2US.pdf | 6933 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-model.missTest.eps | 6152 +- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-model.missTest.pdf | 7069 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-model.missUS.eps | 6385 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-model.missUS.pdf | 7044 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-model.pedEE2.eps |only MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-model.pedEE2.pdf |only MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-model2beta.eps | 6429 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-model2beta.pdf | 7054 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-model3beta.eps | 5968 +- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-model3beta.pdf | 7022 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-model4US.eps | 5380 +- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-model4US.pdf | 6524 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-model5.eps |17018 ++++---- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-model5.pdf |19979 ++++----- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-model6US.eps | 5930 +- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-model6US.pdf | 6546 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-mon1.eps |11294 ++--- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-mon1.pdf |14028 +++--- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-mon2.eps |19735 ++++----- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-mon2.pdf |14040 +++--- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-ys.eps | 6200 +- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial-ys.pdf | 7056 +-- MasterBayes-2.4/MasterBayes/inst/doc/Tutorial.Rnw |only MasterBayes-2.4/MasterBayes/inst/doc/Tutorial.pdf |binary MasterBayes-2.4/MasterBayes/man/MCMCped.Rd | 3 MasterBayes-2.4/MasterBayes/man/MasterBayes.Rd | 2 MasterBayes-2.4/MasterBayes/man/genotype.list.Rd | 2 MasterBayes-2.4/MasterBayes/man/varPed.Rd | 10 MasterBayes-2.4/MasterBayes/src/LikFunctions.cc | 180 MasterBayes-2.4/MasterBayes/src/LikFunctions.h | 2 MasterBayes-2.4/MasterBayes/src/MCMCped.cc | 17 MasterBayes-2.4/MasterBayes/src/SampG.cc | 13 115 files changed, 381495 insertions(+), 381805 deletions(-)
Author: Christophe Dutang (except SFMT algorithm from M. Matsumoto, M. Saito and WELL generator from P. L'Ecuyer and Knuth-TAOCP RNG from D. Knuth)
Title: toolbox for pseudo and quasi random number generation and RNG tests.
Description: The package provides (1) pseudo random generators - general linear congruential generators (Park Miller) and multiple recursive generators (Knuth TAOCP), generalized feedback shift register (SF-Mersenne Twister algorithm and WELL generator); (2) a quasi random generator - the Torus algorithm (for other low-discrepancy sequences, use the 'Rmetrics - fOptions' package) and (3) some additional tests such as the gap test, the serial test, the poker test... For true random number generation, use the 'random' package and for Latin Hypercube Sampling (a hybrid qmc method), use the 'lhs' package.
Diff between randtoolbox versions 1.03 dated 2008-08-31 and 1.04 dated 2008-09-03
DESCRIPTION | 8 configure | 180 ++ configure.ac | 5 inst/NEWS | 12 inst/doc/randtoolbox.pdf | 3705 +++++++++++++++++++++++------------------------ man/randgen.Rd | 22 src/SFMT.h | 2 src/config.h | 6 src/config.h.in | 2 9 files changed, 2053 insertions(+), 1889 deletions(-)
Author: Keith Poole
Diff between oc versions 0.03 dated 2007-08-25 and 0.04 dated 2008-09-03
Title: OC Roll Call Analysis Software.
Description: Estimates Optimal Classification scores from roll call votes supplied though a 'rollcall' object from package 'pscl'.
DESCRIPTION | 8 +-
inst/doc/Rplots.ps | 204 ++++++++++++++++++++++++++---------------------------
inst/doc/oc.pdf |binary
src/Makevars | 1
src/oc.f90 | 140 +++++++++++++-----------------------
5 files changed, 157 insertions(+), 196 deletions(-)
Author: Lixin Gong, William Constantine, and Alex Chen
Title: Protein Mass Spectra Processing
Description: This package provides tools for protein mass spectra processing
including data preparation, denoising, noise estimation, baseline correction,
intensity normalization, peak detection, peak alignment, peak quantification,
and various functionalities for data ingestion/conversion, mass calibration,
data quality assessment, and protein mass spectra simulation.
It also provides auxiliary tools for data representation, data visualization,
and pipeline processing history recording and retrieval.
Diff between msProcess versions 1.0.3 dated 2008-06-02 and 1.0.4 dated 2008-09-03
msProcess-1.0.3/msProcess/swingui/R/getMethodProps.q |only msProcess-1.0.4/msProcess/DESCRIPTION | 10 msProcess-1.0.4/msProcess/R/ms_align.q | 12 msProcess-1.0.4/msProcess/R/ms_base.q | 4 msProcess-1.0.4/msProcess/R/ms_gui.q | 46 msProcess-1.0.4/msProcess/R/ms_io.q | 7 msProcess-1.0.4/msProcess/R/ms_peak.q | 13 msProcess-1.0.4/msProcess/R/ms_set.q | 29 msProcess-1.0.4/msProcess/R/ms_util.q | 7 msProcess-1.0.4/msProcess/R/ms_xml.q | 2 msProcess-1.0.4/msProcess/R/zzz.R | 337 msProcess-1.0.4/msProcess/demo/00Index | 12 msProcess-1.0.4/msProcess/inst |only msProcess-1.0.4/msProcess/man/msList.Rd | 11 msProcess-1.0.4/msProcess/man/msLogic.Rd | 2 msProcess-1.0.4/msProcess/man/msObjects.Rd |only msProcess-1.0.4/msProcess/man/msPeakMRD.Rd | 4 msProcess-1.0.4/msProcess/man/msPlot.Rd | 2 msProcess-1.0.4/msProcess/man/msProcess-package.Rd | 86 msProcess-1.0.4/msProcess/man/msSet.Rd | 2 msProcess-1.0.4/msProcess/man/msVisual.Rd |only msProcess-1.0.4/msProcess/swingui/R/backMSAlign.q | 67 msProcess-1.0.4/msProcess/swingui/R/backMSDenoise.q | 46 msProcess-1.0.4/msProcess/swingui/R/backMSDetrend.q | 59 msProcess-1.0.4/msProcess/swingui/R/backMSDisplayMSList.q |only msProcess-1.0.4/msProcess/swingui/R/backMSDisplayMSSet.q |only msProcess-1.0.4/msProcess/swingui/R/backMSFilterMSList.q |only msProcess-1.0.4/msProcess/swingui/R/backMSFilterMSSet.q |only msProcess-1.0.4/msProcess/swingui/R/backMSImport.q |only msProcess-1.0.4/msProcess/swingui/R/backMSMergeMSList.q |only msProcess-1.0.4/msProcess/swingui/R/backMSNoise.q | 33 msProcess-1.0.4/msProcess/swingui/R/backMSNormalize.q | 33 msProcess-1.0.4/msProcess/swingui/R/backMSPeak.q | 130 msProcess-1.0.4/msProcess/swingui/R/backMSPrepare.q | 26 msProcess-1.0.4/msProcess/swingui/R/backMSQuantify.q |only msProcess-1.0.4/msProcess/swingui/R/guiUtils.q | 55 msProcess-1.0.4/msProcess/swingui/R/loadMSMenu.q | 109 msProcess-1.0.4/msProcess/swingui/R/loadMSProps.q | 12 msProcess-1.0.4/msProcess/swingui/R/menuMSAlign.q | 8 msProcess-1.0.4/msProcess/swingui/R/menuMSDenoise.q | 37 msProcess-1.0.4/msProcess/swingui/R/menuMSDetrend.q | 17 msProcess-1.0.4/msProcess/swingui/R/menuMSDisplayMSList.q |only msProcess-1.0.4/msProcess/swingui/R/menuMSDisplayMSSet.q |only msProcess-1.0.4/msProcess/swingui/R/menuMSFilterMSList.q |only msProcess-1.0.4/msProcess/swingui/R/menuMSFilterMSSet.q |only msProcess-1.0.4/msProcess/swingui/R/menuMSImport.q |only msProcess-1.0.4/msProcess/swingui/R/menuMSMergeMSList.q |only msProcess-1.0.4/msProcess/swingui/R/menuMSNoise.q | 12 msProcess-1.0.4/msProcess/swingui/R/menuMSNormalize.q | 8 msProcess-1.0.4/msProcess/swingui/R/menuMSPeak.q | 98 msProcess-1.0.4/msProcess/swingui/R/menuMSQuantify.q |only msProcess-1.0.4/msProcess/swingui/guicreate/MSDialogProps.ssc | 5523 ++++++---- 52 files changed, 4603 insertions(+), 2256 deletions(-)
Author: Achim Zeileis, Kurt Hornik
Title: CRAN Task Views
Description: Server-side and client-side tools for task views
to CRAN-style repositories
Diff between ctv versions 0.4-3 dated 2008-06-05 and 0.4-4 dated 2008-09-03
DESCRIPTION | 6 NEWS | 5 R/ctv-server.R | 9 inst/ctv/Bayesian.ctv | 623 +++++++++++++++++++++---------------------- inst/ctv/Econometrics.ctv | 4 inst/ctv/Environmetrics.ctv | 114 ++++--- inst/ctv/MachineLearning.ctv | 3 inst/ctv/Optimization.ctv | 83 +++-- inst/ctv/Psychometrics.ctv | 15 - inst/ctv/Robust.ctv | 11 inst/ctv/Spatial.ctv | 40 ++ inst/ctv/Survival.ctv | 112 +++++-- inst/ctv/TimeSeries.ct |only inst/ctv/gR.ctv | 22 + inst/doc/ctv-howto.pdf |binary 15 files changed, 589 insertions(+), 458 deletions(-)
Author: Maja Pohar, Gaj Vidmar
Title: Augmented Convex Hull Plots
Description: Informative and nice plots for grouped bivariate data.
Diff between chplot versions 1.2 dated 2005-07-12 and 1.3 dated 2008-09-03
DESCRIPTION | 6 +++--- R/chplot.r | 18 +++++++++++------- 2 files changed, 14 insertions(+), 10 deletions(-)
Author: Christine Porzelius, Harald Binder
Title: Parallelised Estimation of Prediction Error
Description: Package peperr is designed for prediction error estimation through resampling techniques, possibly accelerated by parallel execution on a compute cluster. Newly developed model fitting routines can be easily incorporated.
Diff between peperr versions 1.0-2 dated 2008-08-13 and 1.0-3 dated 2008-09-02
peperr-1.0-2/peperr/changeLog.backup |only peperr-1.0-3/peperr/DESCRIPTION | 4 - peperr-1.0-3/peperr/NAMESPACE | 9 ++- peperr-1.0-3/peperr/R/complexity.ipec.CoxBoost.R | 3 - peperr-1.0-3/peperr/R/complexity.ripec.CoxBoost.R |only peperr-1.0-3/peperr/R/peperr.R | 35 +++++++++++- peperr-1.0-3/peperr/R/plot.peperr.R | 56 ++++++++++---------- peperr-1.0-3/peperr/R/pmpec.R | 2 peperr-1.0-3/peperr/changeLog | 10 +++ peperr-1.0-3/peperr/man/complexity.ipec.CoxBoost.Rd | 6 +- peperr-1.0-3/peperr/man/peperr.Rd | 21 ++++--- peperr-1.0-3/peperr/man/plot.peperr.Rd | 2 12 files changed, 99 insertions(+), 49 deletions(-)
Author: John Verzani
Title: Toolkit implementation of gWidgets for tcltk package
Description: Port of gWidgets API to the tcltk package. Requires TK 8.5 or greater for the tile (ttk)widgets http://www.tcl.tk/software/tcltk/8.5.tml. This is default on Windows. Under linux, it must be installed. Under Mac OS X (10.5) it must be upgraded. See www.tcl.tk to download source. Under the Mac it compiles and installs cleanly.
Diff between gWidgetstcltk versions 0.0-18 dated 2008-08-31 and 0.0-19 dated 2008-09-02
DESCRIPTION | 4 ++-- NEWS | 4 ++++ R/gtable.R | 7 ++++--- 3 files changed, 10 insertions(+), 5 deletions(-)
Author: Michael Lawrence, John Verzani
Title: Toolkit implementation of gWidgets for RGtk2
Description: Port of gWidgets API to RGtk2
Diff between gWidgetsRGtk2 versions 0.0-40 dated 2008-08-27 and 0.0-41 dated 2008-09-02
ChangeLog | 10 +++++++ DESCRIPTION | 4 +-- NEWS | 11 ++++++++ R/gedit.R | 76 +++++++++++++++++++++++++++++++++++------------------------- R/ggroup.R | 32 ++++++++++++++----------- 5 files changed, 86 insertions(+), 47 deletions(-)
Author: Stefano Iacus
Diff between cem versions 1.0.41 dated 2008-08-20 and 1.0.44 dated 2008-09-02
Title: CEM: Software for Coarsened Exact Matching
Description: This program implements the coarsened exact matching algorithm
(and many extensions) described in Stefano M. Iacus, Gary King,
and Giuseppe Porro, "Matching for Causal Inference Without
Balance Checking," http://gking.harvard.edu/files/abs/cem-abs.shtml
DESCRIPTION | 6
R/cem.R | 6
R/cem.main.R | 27
R/imb.meas.R | 12
inst/doc/Rplots.pdf | 128 +--
inst/doc/cem.Rnw | 10
inst/doc/cem.pdf | 1908 +++++++++++++++++++++++++-------------------------
inst/doc/coarsen1.pdf | 100 +-
inst/doc/coarsen2.pdf | 32
inst/doc/copyRd.Rout | 2
inst/doc/index.shtml | 4
man/cem.Rd | 3
man/relax.cem.Rd | 9
13 files changed, 1127 insertions(+), 1120 deletions(-)
Author: S. Dejean, N. Oumouhou, D. Estivals, B. Mangin
Title: HapIM
Description: The package provides a set of functions whose aim is to propose 4 methods of QTL detection. HAPimLD is an interval-mapping method designed for unrelated individuals with no family information that makes use of linkage disequilibrium. HAPimLDL is an interval-mapping method for design of half-sib families. It combines linkage analysis and linkage disequilibrium. HaploMax is based on an analysis of variance with a dose haplotype effect. HaploMaxHS is based on an analysis of variance with a sire effect and a dose haplotype effect in half-sib family design. Fundings for the package development were provided to the LDLmapQTL project by the ANR GENANIMAL program and APIS-GENE.
Diff between HAPim versions 1.0 dated 2008-07-07 and 1.2 dated 2008-09-01
HAPim-1.0/HAPim/R/alleletransmere.R |only HAPim-1.0/HAPim/R/alleletranspere.R |only HAPim-1.0/HAPim/R/structure.R |only HAPim-1.0/HAPim/man/alleletransmere.Rd |only HAPim-1.0/HAPim/man/alleletranspere.Rd |only HAPim-1.0/HAPim/man/structure.Rd |only HAPim-1.2/HAPim/DESCRIPTION | 10 +- HAPim-1.2/HAPim/R/hapim.LD.add.R | 35 +++++---- HAPim-1.2/HAPim/R/hapim.LDL.add.R | 89 +++++++++++------------ HAPim-1.2/HAPim/R/haplomax.HS.add.R | 102 +++++---------------------- HAPim-1.2/HAPim/R/haplomax.add.R | 102 +++++---------------------- HAPim-1.2/HAPim/R/structure.hap.R |only HAPim-1.2/HAPim/data/data.test.rda |binary HAPim-1.2/HAPim/man/HAPim-package.Rd | 22 +++-- HAPim-1.2/HAPim/man/allele.marq.Rd | 13 +-- HAPim-1.2/HAPim/man/corresp.Rd | 20 +++-- HAPim-1.2/HAPim/man/data.test.Rd | 37 +++++---- HAPim-1.2/HAPim/man/depart.LD.Rd | 13 +-- HAPim-1.2/HAPim/man/depart.LDL.Rd | 23 ++---- HAPim-1.2/HAPim/man/descendant.pere.Rd | 17 ++-- HAPim-1.2/HAPim/man/distance.marqueurs.Rd | 13 ++- HAPim-1.2/HAPim/man/distance.test.Rd | 18 ++-- HAPim-1.2/HAPim/man/esp.freq.hap.Rd | 19 ++--- HAPim-1.2/HAPim/man/freq.all.Rd | 10 +- HAPim-1.2/HAPim/man/haldanem1.Rd | 14 +-- HAPim-1.2/HAPim/man/hapim.LD.add.Rd | 87 +++++++++++------------ HAPim-1.2/HAPim/man/hapim.LDL.add.Rd | 108 +++++++++++++++-------------- HAPim-1.2/HAPim/man/haplomax.HS.add.Rd | 82 ++++++++++++---------- HAPim-1.2/HAPim/man/haplomax.add.Rd | 63 ++++++++-------- HAPim-1.2/HAPim/man/moyenne.pere.Rd | 20 +++-- HAPim-1.2/HAPim/man/obj.LD.add.H0.Rd | 18 ++-- HAPim-1.2/HAPim/man/obj.LD.add.Rd | 24 +++--- HAPim-1.2/HAPim/man/obj.LDL.add.H0.Rd | 22 ++--- HAPim-1.2/HAPim/man/obj.LDL.add.Rd | 33 +++++--- HAPim-1.2/HAPim/man/obj.haplomax.HS.add.Rd | 24 +++--- HAPim-1.2/HAPim/man/obj.haplomax.add.Rd | 18 ++-- HAPim-1.2/HAPim/man/pi.hap.NI.Rd | 20 ++--- HAPim-1.2/HAPim/man/pi.hap.Rd | 19 +++-- HAPim-1.2/HAPim/man/poids.D.Rd | 19 +++-- HAPim-1.2/HAPim/man/proba.DL.Rd | 17 ++-- HAPim-1.2/HAPim/man/proba.DL.diplotype.Rd | 9 +- HAPim-1.2/HAPim/man/recode.hap.Rd | 13 +-- HAPim-1.2/HAPim/man/retrouve.all.Rd | 26 +++--- HAPim-1.2/HAPim/man/structure.hap.Rd |only HAPim-1.2/HAPim/man/vrais.LD.add.Rd | 22 +++-- HAPim-1.2/HAPim/man/vrais.LDL.add.Rd | 41 ++++++----- HAPim-1.2/HAPim/man/vrais.LDL.add.pere.Rd | 36 ++++----- 47 files changed, 613 insertions(+), 665 deletions(-)
Author: Martyn Plummer
Title: Bayesian graphical models using MCMC
Description: Interface to the JAGS MCMC library
Diff between rjags versions 1.0.3-2 dated 2008-08-25 and 1.0.3-3 dated 2008-09-01
DESCRIPTION | 8 ++++---- R/windows/zzz.R | 16 ++++------------ configure | 27 ++++++++++++++++++++------- configure.ac | 25 +++++++++++++++++++------ jags-win32/lib/libjags.dll.a |binary 5 files changed, 47 insertions(+), 29 deletions(-)
Author: Charles J. Geyer
Diff between rcdd versions 1.1 dated 2008-04-14 and 1.1-1 dated 2008-09-01
Title: rcdd (Computational Geometry)
Description: R interface to (some of) cddlib,
see http://www.ifor.math.ethz.ch/~fukuda/cdd_home/cdd.html
converts back and forth between two representations of a convex polytope:
as solution of a set of linear equalities and inequalities and as
convex hull of set of points and rays,
also does linear programming and redundant generator elimination
(for example, convex hull in n dimensions), all with exact
infinite-precision rational arithmetic.
CHANGES | 9 +++++++++
DESCRIPTION | 12 +++++++-----
inst/doc/.build.timestamp |only
inst/doc/vinny.pdf |binary
man/lpcdd.Rd | 5 +++--
src/init.c | 2 ++
src/lpcdd.c | 23 +++++++++++++++++++++--
src/lpcdd_f.c | 30 ++++++++++++++++++++++++++++--
tests/bug2.R |only
tests/bug2.Rout.save |only
10 files changed, 70 insertions(+), 11 deletions(-)
Author: Alberto Viglione
Title: Non-supervised Regional Frequency Analysis
Description: A collection of statistical tools for objective (non-supervised) applications
of the Regional Frequency Analysis methods in hydrology.
The package refers to the index-value method and, more precisely, helps the
hydrologist to: (1) regionalize the index-value; (2) form homogeneous regions
with similar growth curves; (3) fit distribution functions to the
empirical regional growth curves.
Diff between nsRFA versions 0.5-8 dated 2008-08-21 and 0.6-0 dated 2008-09-01
DESCRIPTION | 12 - R/DISTPLOTS.R | 355 ++++++++++++++++++++++++++++------------- R/REGRDIAGNOSTICS.R | 5 R/bestlm.R |only inst/doc/.build.timestamp |only inst/doc/Fig1ElamirSeheult.Rnw | 6 inst/doc/Fig1ElamirSeheult.pdf |binary inst/doc/MSClaio2008.Rnw | 91 +++++++--- inst/doc/MSClaio2008.pdf |binary inst/doc/nsRFA_ex01.Rnw |only inst/doc/nsRFA_ex01.pdf |only man/AD.dist.Rd | 13 - man/BayesianMCMC.Rd | 10 - man/DIAGNOSTICS.Rd | 5 man/DISTPLOTS.Rd | 61 ++++--- man/EXP.Rd | 10 - man/FEH1000.Rd | 11 - man/GENLOGIS.Rd | 11 - man/GENPAR.Rd | 10 - man/GEV.Rd | 11 - man/GOFlaio2004.Rd | 8 man/GOFmontecarlo.Rd | 18 -- man/GUMBEL.Rd | 10 - man/HOMTESTS.Rd | 25 -- man/HW.original.Rd | 36 +--- man/KAPPA.Rd | 11 - man/LOGNORM.Rd | 10 - man/Lmoments.Rd | 8 man/MLlaio2004.Rd | 9 - man/MSClaio2008.Rd | 13 - man/P3.Rd | 12 - man/REGRDIAGNOSTICS.Rd | 13 - man/SERIESPLOTS.Rd | 7 man/STATICPLOTS.Rd | 13 - man/bestlm.Rd |only man/functionsLaio.Rd | 3 man/hydroSIMN.Rd | 14 - man/moments.Rd | 6 man/nsRFA-internal.Rd | 11 - man/nsRFA-package.Rd | 281 +++++++++++++++++++++++++++++--- man/roi.Rd | 15 - man/traceWminim.Rd | 17 - man/varLmoments.Rd | 7 src/leaps.f |only src/leapshdr.f |only 45 files changed, 755 insertions(+), 403 deletions(-)
Author: Peter Wickham
Diff between normwn.test versions 1.1 dated 2008-08-25 and 1.2 dated 2008-09-01
Title: Normality and White Noise Testing
Description: Includes Omnibus Univariate and Multivariate Normality
Tests (See Doornik and Hansen (1994)). One variation allows for the possiblity of weak dependence rather than independence in the variable(s). Also included is an univariate white noise test where the null hypothesis is for "white noise" rather than "strict white
noise". The package deals with similar approaches to testing as
the "nortest","moments",and "mvnormtest" packages in R.
DESCRIPTION | 8 -
man/normality.test1.Rd | 185 ++++++---------------------------------------
man/normality.test2.Rd | 199 ++++++-------------------------------------------
man/whitenoise.test.Rd | 72 +++--------------
4 files changed, 68 insertions(+), 396 deletions(-)
Author: Matthew Dowle
Title: Extension of data.frame. i and j expressions, keys and binary search.
Description: Like a data.frame but i and j may be expressions evaluated within the frame. i is then like base::with and j like select in base::subset. When i is itself a data.table, a join is invoked similar to base::merge but uses binary search on the sorted key.
Diff between data.table versions 1.1 dated 2008-08-27 and 1.2 dated 2008-09-01
data.table-1.1/data.table/README |only data.table-1.2/data.table/DESCRIPTION | 8 ++++---- data.table-1.2/data.table/man/Extract.data.table.Rd | 18 +++++++++--------- data.table-1.2/data.table/man/data.table.Rd | 20 ++++++++++++-------- 4 files changed, 25 insertions(+), 21 deletions(-)
Author: Original code by many authors, notably
Peter Rousseeuw and Christophe Croux, see file 'Copyrights';
Valentin Todorov
Diff between robustbase versions 0.4-2 dated 2008-08-06 and 0.4-3 dated 2008-08-31
Title: Basic Robust Statistics
Description: "Essential" Robust Statistics. The goal is to provide
tools allowing to analyze data with robust methods. This includes
regression methodology including model selections and multivariate
statistics where we strive to cover the book "Robust Statistics,
Theory and Methods" by Maronna, Martin and Yohai; Wiley 2006.
ChangeLog | 18 ++++++++++++++++++
DESCRIPTION | 6 +++---
NAMESPACE | 2 +-
R/huber.R | 12 ++++--------
R/ltsPlot.R | 2 +-
R/ltsReg.R | 2 +-
R/plot.lmrob.R | 2 +-
R/qnsn.R | 2 +-
man/cushny.Rd | 13 ++++++++++---
tests/mc-strict.R | 8 +++++---
10 files changed, 45 insertions(+), 22 deletions(-)
Author: Christophe Dutang (except SFMT algorithm from M. Matsumoto, M. Saito and WELL generator from P. L'Ecuyer and Knuth-TAOCP RNG from D. Knuth)
Title: toolbox for pseudo and quasi random number generation and RNG tests.
Description: The package provides (1) pseudo random generators - general linear congruential generators (Park Miller), generalized feedback shift register (SF-Mersenne Twister algorithm and WELL generator); (2) a quasi random generator - the Torus algorithm (for other low-discrepancy sequences, use the 'Rmetrics - fOptions' package) and (3) some additional tests such as the gap test, the serial test, the poker test... For true random number generation, use the 'random' package and for Latin Hypercube Sampling (a hybrid qmc method), use the 'lhs' package.
Diff between randtoolbox versions 1.02 dated 2008-07-28 and 1.03 dated 2008-08-31
randtoolbox-1.02/randtoolbox/src/SFMT-params.h |only randtoolbox-1.02/randtoolbox/src/SFMT-params11213.h |only randtoolbox-1.02/randtoolbox/src/SFMT-params1279.h |only randtoolbox-1.02/randtoolbox/src/SFMT-params132049.h |only randtoolbox-1.02/randtoolbox/src/SFMT-params19937.h |only randtoolbox-1.02/randtoolbox/src/SFMT-params216091.h |only randtoolbox-1.02/randtoolbox/src/SFMT-params2281.h |only randtoolbox-1.02/randtoolbox/src/SFMT-params4253.h |only randtoolbox-1.02/randtoolbox/src/SFMT-params44497.h |only randtoolbox-1.02/randtoolbox/src/SFMT-params607.h |only randtoolbox-1.02/randtoolbox/src/SFMT-params86243.h |only randtoolbox-1.02/randtoolbox/src/params |only randtoolbox-1.03/randtoolbox/DESCRIPTION | 11 randtoolbox-1.03/randtoolbox/LICENCE | 15 randtoolbox-1.03/randtoolbox/NAMESPACE | 4 randtoolbox-1.03/randtoolbox/R/randgen.R | 75 randtoolbox-1.03/randtoolbox/ax_ext.m4 |only randtoolbox-1.03/randtoolbox/configure | 399 randtoolbox-1.03/randtoolbox/configure.ac | 177 randtoolbox-1.03/randtoolbox/inst/NEWS | 14 randtoolbox-1.03/randtoolbox/inst/doc/.build.timestamp |only randtoolbox-1.03/randtoolbox/inst/doc/Makefile | 2 randtoolbox-1.03/randtoolbox/inst/doc/Sweave.sh |only randtoolbox-1.03/randtoolbox/inst/doc/randtoolbox.Rnw | 622 - randtoolbox-1.03/randtoolbox/inst/doc/randtoolbox.bib | 13 randtoolbox-1.03/randtoolbox/inst/doc/randtoolbox.pdf | 9640 +++++++++-------- randtoolbox-1.03/randtoolbox/man/aux.Rd | 1 randtoolbox-1.03/randtoolbox/man/randgen.Rd | 233 randtoolbox-1.03/randtoolbox/src/SFMT-sse2.h | 8 randtoolbox-1.03/randtoolbox/src/SFMT.c | 1094 + randtoolbox-1.03/randtoolbox/src/SFMT.h | 27 randtoolbox-1.03/randtoolbox/src/WELL1024a.c |only randtoolbox-1.03/randtoolbox/src/WELL1024a.h |only randtoolbox-1.03/randtoolbox/src/WELL19937a.c |only randtoolbox-1.03/randtoolbox/src/WELL19937a.h |only randtoolbox-1.03/randtoolbox/src/WELL44497a.c |only randtoolbox-1.03/randtoolbox/src/WELL44497a.h |only randtoolbox-1.03/randtoolbox/src/WELL512a.c |only randtoolbox-1.03/randtoolbox/src/WELL512a.h |only randtoolbox-1.03/randtoolbox/src/WELL521a.c |only randtoolbox-1.03/randtoolbox/src/WELL521a.h |only randtoolbox-1.03/randtoolbox/src/config.h | 9 randtoolbox-1.03/randtoolbox/src/config.h.in | 5 randtoolbox-1.03/randtoolbox/src/init.c | 20 randtoolbox-1.03/randtoolbox/src/knuthTAOCP2002.c |only randtoolbox-1.03/randtoolbox/src/knuthTAOCP2002.h |only randtoolbox-1.03/randtoolbox/src/randtoolbox.c | 728 - randtoolbox-1.03/randtoolbox/src/randtoolbox.h | 29 48 files changed, 8251 insertions(+), 4875 deletions(-)
Author: Max Kuhn, Steve Weaston
Title: Sweave processing of Open Document Format (ODF) files
Description: Sweave processing of Open Document Format (ODF) files
Diff between odfWeave versions 0.7.8 dated 2008-08-27 and 0.7.9 dated 2008-08-31
DESCRIPTION | 4 ++-- R/odfTable.character.R | 11 +++++++++-- R/odfTable.data.frame.R | 10 +++++++++- R/odfTable.matrix.R | 10 +++++++++- R/odfTable.numeric.R | 9 ++++++++- inst/doc/odfWeave.pdf |binary inst/doc/odfWeave.tex | 2 +- man/odfTable.Rd | 2 +- 8 files changed, 39 insertions(+), 9 deletions(-)
Author: L. Andries van der Ark
Diff between mokken versions 0.3 dated 2007-11-06 and 1.0 dated 2008-08-31
Title: Mokken Scale Analysis in R
Description: mokken contains functions for performing mokken
scale analysis on test and questionnaire data. It includes an automated
item selection algorithm, and various checks of model assumptions.
DESCRIPTION | 6 +++---
NAMESPACE | 2 +-
R/check.monotonicity.R | 4 ++--
R/check.reliability.R |only
R/search.normal.R | 11 ++++++++++-
man/check.reliability.Rd |only
man/mokken-package.Rd | 6 +++++-
7 files changed, 21 insertions(+), 8 deletions(-)
Author: Derek Young
Tatiana Benaglia
Didier Chauveau
Ryan Elmore
Tom Hettmansperger
David Hunter
Hoben Thomas
Fengjuan Xuan
Title: Tools for analyzing finite mixture models
Description: A collection of R functions for analyzing finite mixture models.
Diff between mixtools versions 0.3.0 dated 2008-02-06 and 0.3.1 dated 2008-08-31
mixtools-0.3.0/mixtools/R/plotmix.R |only mixtools-0.3.1/mixtools/DESCRIPTION | 10 - mixtools-0.3.1/mixtools/R/bootse.R | 35 ++++ mixtools-0.3.1/mixtools/R/density.npEM.R | 44 ++--- mixtools-0.3.1/mixtools/R/ise.npEM.R | 11 - mixtools-0.3.1/mixtools/R/multmixEM.R | 139 ++++++----------- mixtools-0.3.1/mixtools/R/normalmixEM.R | 19 +- mixtools-0.3.1/mixtools/R/normalmixEM2comp.R | 13 - mixtools-0.3.1/mixtools/R/normalmixinit.R | 37 +++- mixtools-0.3.1/mixtools/R/npEM.R |only mixtools-0.3.1/mixtools/R/npEMindrep.R | 84 ---------- mixtools-0.3.1/mixtools/R/plot.mixEM.R |only mixtools-0.3.1/mixtools/R/plot.npEM.R | 47 +++-- mixtools-0.3.1/mixtools/R/spEMsymloc.R | 13 - mixtools-0.3.1/mixtools/R/wIQR.R |only mixtools-0.3.1/mixtools/R/zzz.R | 11 + mixtools-0.3.1/mixtools/man/compCDF.Rd | 11 - mixtools-0.3.1/mixtools/man/density.npEM.Rd | 4 mixtools-0.3.1/mixtools/man/initializations.Rd | 4 mixtools-0.3.1/mixtools/man/ise.npEM.Rd | 13 - mixtools-0.3.1/mixtools/man/multmixEM.Rd | 8 mixtools-0.3.1/mixtools/man/normalmixEM.Rd | 37 ++-- mixtools-0.3.1/mixtools/man/normalmixEM2comp.Rd | 3 mixtools-0.3.1/mixtools/man/npEM.Rd |only mixtools-0.3.1/mixtools/man/npEMindrep.Rd | 99 ------------ mixtools-0.3.1/mixtools/man/plot.mixEM.Rd | 21 ++ mixtools-0.3.1/mixtools/man/plot.npEM.Rd | 23 +- mixtools-0.3.1/mixtools/man/plotseq.npEM.Rd | 4 mixtools-0.3.1/mixtools/man/print.npEM.Rd | 6 mixtools-0.3.1/mixtools/man/rmvnormmix.Rd | 2 mixtools-0.3.1/mixtools/man/spEMsymloc.Rd | 6 mixtools-0.3.1/mixtools/man/summary.npEM.Rd | 8 mixtools-0.3.1/mixtools/man/wIQR.Rd |only mixtools-0.3.1/mixtools/man/wkde.Rd | 4 mixtools-0.3.1/mixtools/src/kernelsmoothrepeated.c | 23 +- mixtools-0.3.1/mixtools/src/kernelsmoothrepeated.c.old |only mixtools-0.3.1/mixtools/src/kernelsmoothrepeatedbw.c |only 37 files changed, 325 insertions(+), 414 deletions(-)
Author: original by Gareth Ambler
Diff between mfp versions 1.4.5 dated 2008-06-26 and 1.4.6 dated 2008-08-31
Title: Multivariable Fractional Polynomials
Description: Fractional polynomials are used to represent curvature in regression models. A key reference is Royston and Altman, 1994.
mfp-1.4.5/mfp/inst/doc/mfp-FIG1.pdf |only
mfp-1.4.5/mfp/inst/doc/mfp-FIG2.pdf |only
mfp-1.4.5/mfp/inst/doc/mfp.tex |only
mfp-1.4.6/mfp/Changelog | 1 +
mfp-1.4.6/mfp/DESCRIPTION | 6 +++---
mfp-1.4.6/mfp/R/fp.order.R | 2 +-
mfp-1.4.6/mfp/R/fp.rescale.R | 5 -----
mfp-1.4.6/mfp/R/mfp.R | 27 +++++++++++++++------------
mfp-1.4.6/mfp/R/mfp.fit.R | 2 --
mfp-1.4.6/mfp/R/print.mfp.R | 2 +-
mfp-1.4.6/mfp/inst/doc/.build.timestamp |only
mfp-1.4.6/mfp/inst/doc/mfp.pdf |binary
12 files changed, 21 insertions(+), 24 deletions(-)
Author: Torsten Hothorn
Title: Maximally Selected Rank Statistics
Description: Maximally selected rank statistics with
several p-value approximations.
Diff between maxstat versions 0.7-11 dated 2007-10-09 and 0.7-12 dated 2008-08-31
CHANGES | 6 +++++- DESCRIPTION | 6 +++--- R/maxstat.R | 6 +++--- R/maxstat.test.R | 2 +- inst/doc/maxstat.pdf |binary src/maxstatpermdist.c | 2 +- src/newcorr.c | 2 +- tests/maxstat-Ex.R | 3 +-- tests/maxstat-Ex.Rout.save | 3 +-- 9 files changed, 16 insertions(+), 14 deletions(-)
Author: Michel Berkelaar and others
Title: Interface to Lp_solve v. 5.5 to solve linear/integer programs
Description: Lp_solve is freely available (under LGPL 2) software for
solving linear, integer and mixed integer programs. In this implementation
we supply a "wrapper" function in C and some R functions that solve
general linear/integer problems, assignment problems, and transportation
problems. This version calls lp_solve version 5.5.
Diff between lpSolve versions 5.6.3 dated 2008-06-06 and 5.6.4 dated 2008-08-31
DESCRIPTION | 6 +++--- R/lp.R | 2 +- R/lp.transport.R | 7 +------ man/lp.transport.Rd | 2 +- src/lpslink56.c | 4 ++-- 5 files changed, 8 insertions(+), 13 deletions(-)
Author: John Verzani
Title: Toolkit implementation of gWidgets for tcltk package
Description: Port of gWidgets API to the tcltk package. Requires TK 8.5 or greater for the tile (ttk)widgets http://www.tcl.tk/software/tcltk/8.5.tml. This is default on Windows. Under linux, it must be installed. Under Mac OS X (10.5) it must be upgraded. See www.tcl.tk to download source. Under the Mac it compiles and installs cleanly.
Diff between gWidgetstcltk versions 0.0-17 dated 2008-08-27 and 0.0-18 dated 2008-08-31
DESCRIPTION | 4 ++-- NEWS | 6 +++++- R/gtable.R | 17 +++++++---------- 3 files changed, 14 insertions(+), 13 deletions(-)
Author: Torsten Hothorn and Kurt Hornik
Title: Exact Distributions for Rank and Permutation Tests
Description: Computes exact conditional p-values and quantiles using an
implementation of the Shift-Algorithm by Streitberg & Roehmel.
Diff between exactRankTests versions 0.8-16 dated 2007-10-09 and 0.8-17 dated 2008-08-31
CHANGES | 4 ++++ DESCRIPTION | 9 ++++----- tests/exactRankTests-Ex.R | 3 +-- tests/exactRankTests-Ex.Rout.save | 3 +-- tests/exactRankTests-ExOLD.R | 3 +-- tests/exactRankTests-ExOLD.Rout.save | 3 +-- 6 files changed, 12 insertions(+), 13 deletions(-)
More information about exactRankTests at CRAN
Permanent link
Author: Jun Yan
Diff between copula versions 0.6-6 dated 2008-01-22 and 0.7-5 dated 2008-08-31
Title: Multivariate dependence with copulas
Description: Classes (S4) of commonly used copulas including elliptical (normal and t), Archimedean (Clayton, Gumbel, Frank, and Ali-Mikhail-Haq), extreme value (Husler-Reiss and Galambos), and other families (Plackett and Farlie-Gumbel-Morgenstern). Methods for density, distribution, random number generation, bivariate dependence measures, perspective and contour plots. Functions for fitting copula models. Independence tests among random variables and random vectors. Serial independence tests for univariate and multivariate continuous time series. Goodness-of-fit tests for copulas based on multipliers and on the parametric bootstrap.
copula-0.6-6/copula/R/ellipCopulaMeth.R |only
copula-0.6-6/copula/R/empcop.test.R |only
copula-0.6-6/copula/R/frankDer.R |only
copula-0.6-6/copula/R/frankPdfExpr.R |only
copula-0.6-6/copula/inst/.log |only
copula-0.6-6/copula/inst/doc |only
copula-0.6-6/copula/inst/mathnb |only
copula-0.6-6/copula/man/assocMeasures-methods.Rd |only
copula-0.6-6/copula/man/empcopm.test.Rd |only
copula-0.6-6/copula/man/empcops.test.Rd |only
copula-0.6-6/copula/man/empcopsm.test.Rd |only
copula-0.6-6/copula/man/empcopu.test.Rd |only
copula-0.7-5/copula/ChangeLog | 27
copula-0.7-5/copula/DESCRIPTION | 10
copula-0.7-5/copula/NAMESPACE | 24
copula-0.7-5/copula/R/Classes.R | 328
copula-0.7-5/copula/R/amhCopula.R | 15
copula-0.7-5/copula/R/amhExpr.R | 172
copula-0.7-5/copula/R/archmCopula.R |only
copula-0.7-5/copula/R/claytonCopula.R | 47
copula-0.7-5/copula/R/claytonExpr.R | 4284 ++++++++
copula-0.7-5/copula/R/copula.R |only
copula-0.7-5/copula/R/ellipCopula.R |only
copula-0.7-5/copula/R/empcoptest.R |only
copula-0.7-5/copula/R/evCopula.R |only
copula-0.7-5/copula/R/fgmCopula.R | 24
copula-0.7-5/copula/R/fitCopula.R | 60
copula-0.7-5/copula/R/frankCopula.R | 29
copula-0.7-5/copula/R/frankExpr.R | 3406 ++++++
copula-0.7-5/copula/R/galambosCopula.R | 5
copula-0.7-5/copula/R/gofCopula.R |only
copula-0.7-5/copula/R/graphics.R | 66
copula-0.7-5/copula/R/gumbelCopula.R | 79
copula-0.7-5/copula/R/gumbelExpr.R |11618 +++++++++++++++++++++--
copula-0.7-5/copula/R/huslerReissCopula.R | 5
copula-0.7-5/copula/R/mgofMclt.R |only
copula-0.7-5/copula/R/mvdc.R | 5
copula-0.7-5/copula/R/normalCopula.R | 15
copula-0.7-5/copula/R/plackettCopula.R | 57
copula-0.7-5/copula/R/plackettExpr.R |only
copula-0.7-5/copula/R/stable.R | 1
copula-0.7-5/copula/R/sysdata.rda |only
copula-0.7-5/copula/R/tCopula.R | 64
copula-0.7-5/copula/inst/ToDo |only
copula-0.7-5/copula/inst/docs |only
copula-0.7-5/copula/man/Copula.Rd | 61
copula-0.7-5/copula/man/Mvdc.Rd | 47
copula-0.7-5/copula/man/archmCopula-class.Rd | 31
copula-0.7-5/copula/man/archmCopula.Rd | 48
copula-0.7-5/copula/man/assocMeasures.Rd |only
copula-0.7-5/copula/man/contour-methods.Rd | 28
copula-0.7-5/copula/man/copula-class.Rd | 23
copula-0.7-5/copula/man/ellipCopula-class.Rd | 23
copula-0.7-5/copula/man/ellipCopula.Rd | 24
copula-0.7-5/copula/man/evCopula-class.Rd | 31
copula-0.7-5/copula/man/evCopula.Rd | 9
copula-0.7-5/copula/man/fgmCopula-class.Rd | 28
copula-0.7-5/copula/man/fgmCopula.Rd | 28
copula-0.7-5/copula/man/fitCopula-class.Rd | 39
copula-0.7-5/copula/man/fitCopula.Rd | 83
copula-0.7-5/copula/man/generator-methods.Rd | 31
copula-0.7-5/copula/man/gofCopula.Rd |only
copula-0.7-5/copula/man/indepTest.Rd |only
copula-0.7-5/copula/man/multIndepTest.Rd |only
copula-0.7-5/copula/man/multSerialIndepTest.Rd |only
copula-0.7-5/copula/man/mvdc-class.Rd | 11
copula-0.7-5/copula/man/persp-methods.Rd | 26
copula-0.7-5/copula/man/plackettCopula.Rd | 15
copula-0.7-5/copula/man/serialIndepTest.Rd |only
copula-0.7-5/copula/man/show-methods.Rd | 12
copula-0.7-5/copula/man/summary-methods.Rd | 10
copula-0.7-5/copula/src/empcop.stat.c | 2
copula-0.7-5/copula/src/gof.c |only
73 files changed, 19615 insertions(+), 1336 deletions(-)
Author: James E. Helmreich
Diff between PSAgraphics versions 1.0 dated 2007-05-10 and 1.1 dated 2008-08-31
Title: Propensity Score Analysis Graphics
Description: A collection of functions that primarily produce graphics to aid in a
Propensity Score Analysis (PSA). Functions include: cat.psa and box.psa to test
balance within strata of categorical and quantitative covariates,
circ.psa for a representation of the estimated effect size by stratum,
loess.psa that provides a graphic and loess based effect size estimate,
and various balance functions that provide measures of the balance achieved
via a PSA in a categorical covariate.
DESCRIPTION | 6 +-
R/bal.ks.psa.R | 6 +-
R/bal.ms.psa.R | 10 +--
R/box.psa.R | 58 ++++++++++++++--------
R/cat.psa.R | 33 +++++++++---
R/circ.psa.R | 69 ++++++++++++++++++++------
R/loess.psa.R | 46 ++++++++++-------
man/PSAgraphics-package.Rd |only
man/bal.ms.psa.Rd | 18 +++---
man/box.psa.Rd | 44 +++++++++-------
man/cat.psa.Rd | 38 +++++++-------
man/circ.psa.Rd | 117 +++++++++++++++++++++++++--------------------
man/loess.psa.Rd | 59 +++++++++++-----------
13 files changed, 302 insertions(+), 202 deletions(-)
Author: Douglas Bates
Diff between Matrix versions 0.999375-11 dated 2008-07-28 and 0.999375-13 dated 2008-08-31
Title: A Matrix package for R
Description: Classes and methods for dense and sparse matrices and
operations on them using Lapack, CSparse and CHOLMOD
Matrix-0.999375-11/Matrix/inst/doc/factor2sparse.Rnw |only
Matrix-0.999375-11/Matrix/inst/doc/factor2sparse.pdf |only
Matrix-0.999375-13/Matrix/ChangeLog | 102 ++
Matrix-0.999375-13/Matrix/DESCRIPTION | 6
Matrix-0.999375-13/Matrix/Done | 8
Matrix-0.999375-13/Matrix/NAMESPACE | 1
Matrix-0.999375-13/Matrix/R/AllClass.R | 24
Matrix-0.999375-13/Matrix/R/Auxiliaries.R | 41
Matrix-0.999375-13/Matrix/R/CHMfactor.R | 13
Matrix-0.999375-13/Matrix/R/Csparse.R | 2
Matrix-0.999375-13/Matrix/R/LU.R | 6
Matrix-0.999375-13/Matrix/R/Matrix.R | 24
Matrix-0.999375-13/Matrix/R/Ops.R | 80 +
Matrix-0.999375-13/Matrix/R/Tsparse.R | 10
Matrix-0.999375-13/Matrix/R/denseMatrix.R | 10
Matrix-0.999375-13/Matrix/R/dgCMatrix.R | 6
Matrix-0.999375-13/Matrix/R/diagMatrix.R | 28
Matrix-0.999375-13/Matrix/R/nsCMatrix.R | 3
Matrix-0.999375-13/Matrix/R/nsparseMatrix.R | 6
Matrix-0.999375-13/Matrix/R/sparseMatrix.R | 90 +
Matrix-0.999375-13/Matrix/R/sparseVector.R | 111 ++
Matrix-0.999375-13/Matrix/TODO | 14
Matrix-0.999375-13/Matrix/inst/doc/Comparisons.pdf |binary
Matrix-0.999375-13/Matrix/inst/doc/Design-issues.Rnw | 4
Matrix-0.999375-13/Matrix/inst/doc/Design-issues.pdf | 466 +++++-----
Matrix-0.999375-13/Matrix/inst/doc/Intro2Matrix.pdf | 780 ++++++++---------
Matrix-0.999375-13/Matrix/inst/doc/Introduction.pdf |binary
Matrix-0.999375-13/Matrix/inst/doc/sparseModels.Rnw |only
Matrix-0.999375-13/Matrix/inst/doc/sparseModels.pdf |only
Matrix-0.999375-13/Matrix/man/CHMfactor-class.Rd | 49 -
Matrix-0.999375-13/Matrix/man/Subassign-methods.Rd | 12
Matrix-0.999375-13/Matrix/man/all.equal-methods.Rd |only
Matrix-0.999375-13/Matrix/man/diagonalMatrix-class.Rd | 4
Matrix-0.999375-13/Matrix/man/lu.Rd | 22
Matrix-0.999375-13/Matrix/man/nMatrix-class.Rd | 20
Matrix-0.999375-13/Matrix/man/nsparseMatrix-classes.Rd | 13
Matrix-0.999375-13/Matrix/man/sparseLU-class.Rd | 10
Matrix-0.999375-13/Matrix/man/sparseMatrix-class.Rd | 12
Matrix-0.999375-13/Matrix/man/unused-classes.Rd | 2
Matrix-0.999375-13/Matrix/src/Mutils.c | 1
Matrix-0.999375-13/Matrix/src/dense.c | 3
Matrix-0.999375-13/Matrix/src/dgCMatrix.c | 45
Matrix-0.999375-13/Matrix/src/dgCMatrix.h | 2
Matrix-0.999375-13/Matrix/src/init.c | 2
Matrix-0.999375-13/Matrix/tests/Simple.R | 26
Matrix-0.999375-13/Matrix/tests/bind.R | 2
Matrix-0.999375-13/Matrix/tests/bind.Rout.save | 2
Matrix-0.999375-13/Matrix/tests/dg_Matrix.R | 2
Matrix-0.999375-13/Matrix/tests/factorizing.R | 1
Matrix-0.999375-13/Matrix/tests/indexing.R | 4
Matrix-0.999375-13/Matrix/tests/indexing.Rout.save | 12
51 files changed, 1263 insertions(+), 818 deletions(-)
Author: Qianxing Mo, Mithat Gonen and Glenn Heller
Title: Concordance Probability Estimates in Survival Analysis
Description: Functions to calculate concordance probability estimates in survival analysis
Diff between CPE versions 1.3 dated 2008-02-20 and 1.4 dated 2008-08-31
DESCRIPTION | 4 - R/phcpe.R | 17 ++++- R/zzz.R | 2 man/phcpe.Rd | 28 ++++++--- src/phcpe.c | 171 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++--- 5 files changed, 198 insertions(+), 24 deletions(-)
Author: David Meyer and Christian Buchta
Title: Distance and Similarity Measures
Description: Provides an extensible framework for the effcient calculation of auto- and cross-proximities, along with implementations of the most popular ones.
Diff between proxy versions 0.4 dated 2008-05-28 and 0.4-1 dated 2008-08-29
DESCRIPTION | 6 +++--- NEWS |only R/dissimilarities.R | 8 ++++++-- inst/NEWS | 4 ++++ 4 files changed, 13 insertions(+), 5 deletions(-)
Author: Yves Croissant
Diff between mlogit versions 0.1-0 dated 2008-05-16 and 0.1-1 dated 2008-08-27
Title: multinomial logit model
Description: Estimation of the multinomial logit model with alternative and/or individual specific variables
DESCRIPTION | 10 -
NAMESPACE | 25 ++-
R/logitform.R |only
R/methods.mlogit.R |only
R/mlogit.R | 373 +++++++++++++++++++++++------------------------------
R/mlogit.test.R |only
changelog |only
man/hmftest.Rd |only
man/logitform.Rd |only
man/mlogit.Rd | 117 +++++++++++-----
man/mlogit.data.Rd | 98 +++++++------
11 files changed, 327 insertions(+), 296 deletions(-)
Author: John Verzani
Title: Toolkit implementation of gWidgets for tcltk package
Description: Port of gWidgets API to the tcltk package. Requires TK 8.5 or greater for the tile (ttk)widgets http://www.tcl.tk/software/tcltk/8.5.tml. This is default on Windows. Under linux, it must be installed. Under Mac OS X (10.5) it must be upgraded. See www.tcl.tk to download source. Under the Mac it compiles and installs cleanly.
Diff between gWidgetstcltk versions 0.0-16 dated 2008-08-22 and 0.0-17 dated 2008-08-27
DESCRIPTION | 4 ++-- NEWS | 5 +++++ R/gtable.R | 15 +++++++++------ 3 files changed, 16 insertions(+), 8 deletions(-)
Author: Michael Lawrence, John Verzani
Title: Toolkit implementation of gWidgets for RGtk2
Description: Port of gWidgets API to RGtk2
Diff between gWidgetsRGtk2 versions 0.0-39 dated 2008-08-22 and 0.0-40 dated 2008-08-27
ChangeLog | 15 ++++++++ DESCRIPTION | 4 +- R/aaaGenerics.R | 21 ++++++------ R/common.R | 8 ++-- R/gdfnotebook.R | 2 - R/gedit.R | 12 ++++--- R/ggraphics.R | 2 - R/ggraphicsnotebook.R | 2 - R/ggrid.R | 6 ++- R/ggroup.R | 34 ++++++++++---------- R/glabel.R | 4 +- R/glayout.R | 25 ++++++++------ R/gnotebook.R | 2 - R/gtkStuff.R | 17 +++++++++- R/icons.R | 84 +++++++++++--------------------------------------- 15 files changed, 116 insertions(+), 122 deletions(-)
Author: Kenneth Knoblauch and Laurence T. Maloney,
based in part on C code written by Laurence T. Maloney
and J. N. Yang
Title: Maximum Likelihood Difference Scaling
Description: Difference scaling is a method for scaling perceived
supra-threshold differences. The package contains functions that
allow the user to design and run a difference scaling experiment,
to fit the resulting data by maximum likelihood and test the
internal validity of the estimated scale.
Diff between MLDS versions 0.1-1 dated 2008-01-19 and 0.1-2 dated 2008-08-27
MLDS-0.1-1/MLDS/._DESCRIPTION |only MLDS-0.1-1/MLDS/._NAMESPACE |only MLDS-0.1-1/MLDS/doc |only MLDS-0.1-2/MLDS/DESCRIPTION | 8 +-- MLDS-0.1-2/MLDS/NAMESPACE | 3 - MLDS-0.1-2/MLDS/R/binom.diagnostics.R | 14 +++--- MLDS-0.1-2/MLDS/R/logLik.mlds.R | 4 + MLDS-0.1-2/MLDS/R/mlds.R | 63 ++++++++++++++++++++++++++++++- MLDS-0.1-2/MLDS/R/print.summary.mlds.R | 6 ++ MLDS-0.1-2/MLDS/R/summary.mlds.R | 8 ++- MLDS-0.1-2/MLDS/inst |only MLDS-0.1-2/MLDS/man/binom.diagnostics.Rd | 5 +- MLDS-0.1-2/MLDS/man/mlds.Rd | 55 ++++++++++++++++++--------- 13 files changed, 129 insertions(+), 37 deletions(-)
Author: David Meyer, Achim Zeileis, Kurt Hornik
Title: Visualizing Categorical Data
Description: Visualization techniques, data sets, summary and inference
procedures aimed particularly at categorical data. Special
emphasis is given to highly extensible grid graphics. The
package was inspired by the book "Visualizing Categorical Data"
by Michael Friendly.
Diff between vcd versions 1.1 dated 2008-08-22 and 1.1-1 dated 2008-08-27
DESCRIPTION | 6 +++--- R/strucplot.R | 18 ++++++++++++++---- data/Baseball.rda |binary inst/doc/.build.timestamp |only inst/doc/hcl-colors.pdf | 30 +++++++++++++++--------------- inst/doc/residual-shadings.pdf | 26 +++++++++++++------------- inst/doc/strucplot.pdf |binary man/strucplot.Rd | 11 +++++++---- 8 files changed, 52 insertions(+), 39 deletions(-)
Author: Max Kuhn, Steve Weaston
Title: Sweave processing of Open Document Format (ODF) files
Description: Sweave processing of Open Document Format (ODF) files
Diff between odfWeave versions 0.7.7 dated 2008-08-24 and 0.7.8 dated 2008-08-27
DESCRIPTION | 6 +++--- R/odfTableGen.R | 2 +- inst/doc/odfWeave.pdf |binary inst/doc/odfWeave.tex | 2 +- 4 files changed, 5 insertions(+), 5 deletions(-)
Author: Andrew Gelman
Diff between JudgeIt versions 1.3.2 dated 2008-08-25 and 1.3.3 dated 2008-08-27
Title: JudgeIt
Description: Calculates bias, responsiveness, and other characteristics of
two-party electoral systems, with district-level electoral and
other data.
DESCRIPTION | 6
NAMESPACE | 18 +
R/visibles.R | 19 +
demo/judgeit.primer.R | 3
inst/doc/index.shtml | 2
inst/doc/judgeit.log | 4
inst/doc/judgeit.pdf | 838 +++++++++++++++++++++++++-------------------------
inst/doc/judgeit.tex | 2
8 files changed, 466 insertions(+), 426 deletions(-)
Author: Matthieu Lesnoff
Diff between aod versions 1.1-24 dated 2007-09-30 and 1.1-27 dated 2008-08-26
Title: Analysis of Overdispersed Data
Description: This package provides a set of functions to analyse overdispersed counts or proportions. Most of the methods are already available elsewhere but are scattered in different packages. The proposed functions should be considered as complements to more sophisticated methods such as generalized estimating equations (GEE) or generalized linear mixed effect models (GLMM).
DESCRIPTION | 12 ++++++------
R/betabin.R | 15 +++++++++------
R/logLik.R | 20 ++++++++++++++------
R/negbin.R | 13 ++++++++-----
R/show-glimML.R | 9 ++++++++-
inst/CITATION |only
inst/doc/CHANGES | 35 ++++++++++++++++++++---------------
man/AIC.Rd | 50 +++++++++++++++++++-------------------------------
man/aic-class.Rd | 29 ++++++++++-------------------
man/anova.glimML.Rd | 4 ++--
man/aod-pkg.Rd | 6 +++---
man/coef.Rd | 4 ++--
man/deviance.Rd | 4 ++--
man/df.residual.Rd | 4 ++--
man/drs-class.Rd | 8 ++++----
man/fitted.Rd | 4 ++--
man/glimML-class.Rd | 2 +-
man/glimQL-class.Rd | 2 +-
man/icc-class.Rd | 2 +-
man/logLik.Rd | 4 ++--
man/quasibin.Rd | 2 +-
man/residuals.Rd | 4 ++--
man/varbin-class.Rd | 2 +-
man/vcov.Rd | 4 ++--
man/wald.test.Rd | 7 +++----
25 files changed, 125 insertions(+), 121 deletions(-)
Author: Holger Froehlich
Diff between GOSim versions 1.1.4.2 dated 2008-08-14 and 1.1.5.0 dated 2008-08-26
Title: Computation of functional similarities between GO terms and gene products; GO enrichement analysis
Description: This package implements several functions useful for
computing similarities between GO terms and gene products based on their GO annotation. Moreover it allows for computing a GO enrichment analysis
DESCRIPTION | 10
R/geneSimilarity.R | 111 +
R/general.R | 2
R/manifold_embedding.R |only
R/normalize.kernel.R |only
R/termSimilarity.R | 20
data/ICsBPflyall.rda |binary
data/ICsBPhumanall.rda |binary
data/ICsBPmalariaall.rda |binary
data/ICsBPmouseall.rda |binary
data/ICsBPratall.rda |binary
data/ICsBPyeastall.rda |binary
data/ICsCCflyall.rda |binary
data/ICsCChumanall.rda |binary
data/ICsCCmalariaall.rda |binary
data/ICsCCmouseall.rda |binary
data/ICsCCratall.rda |binary
data/ICsCCyeastall.rda |binary
data/ICsMFflyall.rda |binary
data/ICsMFhumanall.rda |binary
data/ICsMFmalariaall.rda |binary
data/ICsMFmouseall.rda |binary
data/ICsMFratall.rda |binary
data/ICsMFyeastall.rda |binary
inst/doc/GOSim.Rnw | 97 -
inst/doc/GOSim.aux | 83 -
inst/doc/GOSim.bbl | 17
inst/doc/GOSim.blg | 62
inst/doc/GOSim.log | 62
inst/doc/GOSim.out | 15
inst/doc/GOSim.pdf | 3022 +++++++++++++++++++++------------------
inst/doc/GOSim.tex | 229 +-
inst/doc/references.bib |only
man/calc.diffusion.kernel.Rd |only
man/calcICs.Rd | 11
man/getGeneFeatures.Rd |only
man/getGeneFeaturesPrototypes.Rd | 10
man/getGeneSim.Rd | 24
man/getTermSim.Rd | 22
39 files changed, 2178 insertions(+), 1619 deletions(-)
Author: Luc Wouters
Diff between mpm versions 1.0-7 dated 2008-05-19 and 1.0-11 dated 2008-08-26
Title: Multivariate Projection Methods
Description: Exploratory graphical analysis of multivariate data,
specifically gene expression data with different projection
methods: principal component analysis, correspondence
analysis, spectral map analysis.
DESCRIPTION | 12 ++++++------
NEWS |only
R/dump.summary.R |only
R/dump.summary.mpm.R |only
R/mpm.R | 35 +++++++++++++++++++++++++----------
R/plot.mpm.R | 45 ++++++++++++++++++++++++++++++++-------------
R/summary.mpm.R | 4 ++--
inst |only
man/dump.summary.mpm.Rd |only
man/plot.mpm.Rd | 21 +++++++++++++--------
man/summary.mpm.Rd | 2 +-
11 files changed, 79 insertions(+), 40 deletions(-)
Author: Original by Joseph L. Schafer
Diff between lmm versions 0.3-4 dated 2005-05-09 and 0.3-5 dated 2008-08-26
Title: Linear mixed models
Description: Some improved procedures for linear mixed models
lmm-0.3-4/lmm/INDEX |only
lmm-0.3-5/lmm/DESCRIPTION | 14 ++++++--------
lmm-0.3-5/lmm/LICENSE |only
lmm-0.3-5/lmm/NAMESPACE | 9 +--------
lmm-0.3-5/lmm/inst |only
5 files changed, 7 insertions(+), 16 deletions(-)
Author: Roger D. Peng
Diff between filehash versions 1.1 dated 2008-05-02 and 2.0 dated 2008-08-26
Title: Simple key-value database
Description: Simple key-value database
DESCRIPTION | 8
NAMESPACE | 13 +
R/dump.R | 67 ++++---
R/filehash-DB1.R | 412 +++++++++++++++++++++-------------------------
R/filehash.R | 5
R/hash.R |only
R/queue.R |only
R/stack.R |only
R/zzz.R | 28 +--
inst/doc/combined.bib | 2
inst/doc/filehash.Rnw | 8
inst/doc/filehash.pdf |binary
man/createQ.Rd |only
man/createS.Rd |only
man/dump.Rd | 6
man/push.Rd |only
man/queue-class.Rd |only
man/stack-class.Rd |only
src |only
tests/SHA1SUM |only
tests/misc |only
tests/reg-tests.R | 22 ++
tests/reg-tests.Rout.save | 34 +++
tests/testdb-v1.1 |only
tests/testdb-v2.0 |only
tests/versions.R |only
tests/versions.Rout.save |only
27 files changed, 326 insertions(+), 279 deletions(-)
Author: Achim Zeileis, Christian Kleiber
Title: Applied Econometrics with R
Description: Functions, data sets, examples, demos, and vignettes for the book
Christian Kleiber and Achim Zeileis (2008),
Applied Econometrics with R, Springer-Verlag, New York.
ISBN 978-0-387-77316-2. (See the vignette for a package overview.)
Diff between AER versions 0.9-0 dated 2008-05-28 and 1.0-0 dated 2008-08-26
DESCRIPTION | 16 +++++++--------- NEWS |only demo |only inst/CITATION | 7 +++++-- inst/doc |only man/Affairs.Rd | 2 +- man/BenderlyZwick.Rd | 6 +++--- man/ManufactCosts.Rd | 2 +- man/OrangeCounty.Rd | 2 +- man/TechChange.Rd | 2 +- man/TradeCredit.Rd | 2 +- man/USConsump1950.Rd | 2 +- man/USConsump1979.Rd | 2 +- man/USConsump1993.Rd | 2 +- man/USGasB.Rd | 2 +- man/USGasG.Rd | 2 +- man/USInvest.Rd | 2 +- man/USMacroB.Rd | 2 +- man/USMacroG.Rd | 2 +- man/USMacroSW.Rd | 2 +- man/USMacroSWM.Rd | 2 +- man/USMacroSWQ.Rd | 2 +- man/USMoney.Rd | 2 +- man/ivreg.fit.Rd | 2 +- man/summary.ivreg.Rd | 2 +- tests |only 26 files changed, 34 insertions(+), 33 deletions(-)
Author: Douglas Bates
Diff between lme4 versions 0.999375-25 dated 2008-08-14 and 0.999375-26 dated 2008-08-26
Title: Linear mixed-effects models using S4 classes
Description: Fit linear and generalized linear mixed-effects models.
ChangeLog | 4
DESCRIPTION | 6
NAMESPACE | 9
R/AllClass.R | 5
R/lmer.R | 58 +++--
inst/doc/Implementation.pdf |binary
inst/doc/PLSvGLS.pdf |binary
inst/doc/Theory.pdf |binary
src/Syms.h | 3
src/init.c | 7
src/lmer.c | 452 +++++++++++++++++++++++++++++++-------------
src/lmer.h | 4
12 files changed, 386 insertions(+), 162 deletions(-)
Author: Göran Broström
Title: Event History Analysis
Description: A package for survival and event history analysis
Diff between eha versions 1.2-0 dated 2008-07-20 and 1.2-2 dated 2008-08-26
ChangeLog | 5 +++ DESCRIPTION | 6 ++-- INDEX | 2 - R/coxreg.R | 63 ++++++++++++++++++++++++++++------------------- R/coxreg.fit.R | 1 R/geome.fit.R | 2 - R/mlreg.R | 2 + R/piecewise.R | 2 - man/EV.Rd | 8 ++--- man/Gompertz.Rd | 8 ++--- man/Makeham.Rd | 14 ++++------ man/aftreg.Rd | 15 +++++------ man/age.window.Rd | 2 - man/cal.window.Rd | 2 - man/check.surv.Rd | 2 - man/coxreg.Rd | 7 ++--- man/geome.fit.Rd | 12 ++++---- man/join.spells.Rd | 2 - man/make.communal.Rd | 4 +- man/male.mortality.Rd | 2 - man/phreg.Rd | 4 +- man/piecewise.Rd | 4 +- man/risksets.Rd | 2 - man/toBinary.Rd | 67 ++++++++------------------------------------------ man/weibreg.Rd | 4 +- src/coxfun.c | 53 ++++++++++++++++++++------------------- src/sup.c | 4 +- 27 files changed, 139 insertions(+), 160 deletions(-)
Author: Kaspar Rufibach
Diff between smoothtail versions 1.1.1 dated 2007-10-04 and 1.1.2 dated 2008-08-25
Title: Smooth Estimation of GPD Shape Parameter
Description: Given independent and identically distributed observations X(1), ..., X(n) from a Generalized Pareto
distribution with shape parameter gamma in [-1,0], this package offers several estimates to compute estimates of gamma.
The estimates are based on the principle of replacing the order statistics by quantiles of a distribution
function based on a log--concave density function. This procedure is justified by the fact that the GPD density
is log--concave for gamma in [-1,0].
CHANGES | 5 +++++
DESCRIPTION | 12 ++++++------
R/generalizedPick.r |only
R/lambdaGenPick.r |only
man/falk.Rd | 8 ++++----
man/falkMVUE.Rd | 10 +++++-----
man/generalizedPick.Rd |only
man/gpd.Rd | 4 ++--
man/lambdaGenPick.Rd |only
man/pickands.Rd | 8 ++++----
man/smoothtail-package.Rd | 33 ++++++++++++++++++---------------
11 files changed, 44 insertions(+), 36 deletions(-)
Author: Martyn Plummer
Title: Bayesian graphical models using MCMC
Description: Interface to the JAGS MCMC library
Diff between rjags versions 1.0.3-1 dated 2008-07-28 and 1.0.3-2 dated 2008-08-25
rjags-1.0.3-1/rjags/R/windows/zzz.R.in |only rjags-1.0.3-1/rjags/configure.ac.keep |only rjags-1.0.3-1/rjags/configure.ac.test |only rjags-1.0.3-1/rjags/configure.win |only rjags-1.0.3-2/rjags/DESCRIPTION | 8 ++++---- rjags-1.0.3-2/rjags/R/windows/zzz.R |only 6 files changed, 4 insertions(+), 4 deletions(-)
Author: Peter Wickham
Diff between normwn.test versions 1.0 dated 2008-02-21 and 1.1 dated 2008-08-25
Title: Normality and White Noise Testing
Description: Includes Omnibus Univariate and Multivariate Normality
Tests (See Doornik and Hansen (1994). One variation allows for the possiblity of weak dependence rather than independence in the variable(s). Also included is an univariate white noise test where the null hypothesis is for "white noise" rather than "strict white
noise". The package deals with similar approaches to testing as
the "nortest","moments",and "mvnormtest" packages in R.
normwn.test-1.0/normwn.test/man/normwn.test-package.Rd |only
normwn.test-1.1/normwn.test/DESCRIPTION | 15 -
normwn.test-1.1/normwn.test/R/whitenoise.test.R | 2
normwn.test-1.1/normwn.test/man/normality.test1.Rd | 199 +++++++++++++---
normwn.test-1.1/normwn.test/man/normality.test2.Rd | 210 ++++++++++++++---
normwn.test-1.1/normwn.test/man/whitenoise.test.Rd | 85 +++++-
6 files changed, 421 insertions(+), 90 deletions(-)
Author: Kaspar Rufibach
Diff between modehunt versions 1.0.2 dated 2008-08-24 and 1.0.3 dated 2008-08-25
Title: Multiscale Analysis for Density Functions
Description: Given independent and identically distributed observations X(1), ..., X(n) from a density f,
this package provides five methods to perform a multiscale analysis about f as well as the necessary critical
values. The first method, introduced in Duembgen and Walther (2008), provides simultaneous confidence statements
for the existence and location of local increases (or decreases) of f, based on all intervals I(all) spanned by
any two observations X(j), X(k). The second method approximates the latter approach by using only a subset of
I(all) and is therefore computationally much more efficient, but asymptotically equivalent. Omitting the additive
correction term Gamma in either method offers another two approaches which are more powerful on small scales and
less powerful on large scales, however, not asymptotically minimax optimal anymore. Finally, the block procedure is a
compromise between adding Gamma or not, having intermediate power properties. The latter is again asymptotically
equivalent to the first and was introduced in Rufibach and Walther (2007).
CHANGES | 11 ++++++++---
DESCRIPTION | 6 +++---
man/modehunt-package.Rd | 4 ++--
3 files changed, 13 insertions(+), 8 deletions(-)
Author: Andrew Gelman
Diff between JudgeIt versions 1.2.0 dated 2008-03-21 and 1.3.2 dated 2008-08-25
Title: JudgeIt
Description: Calculates bias, responsiveness, and other characteristics of
two-party electoral systems, with district-level electoral and
other data.
DESCRIPTION | 6
NAMESPACE | 39
R/operators.R | 92 +
R/quantities.R | 635 +++------
R/visibles.R | 905 +++++++------
demo/00Index | 1
demo/distreportdemo.R | 14
demo/judgeit.primer.R |only
demo/probdemo.R | 6
demo/seatsdemo.R | 7
demo/svsumdemo.R | 9
inst/doc/index.shtml | 2
inst/doc/judgeit.aux | 28
inst/doc/judgeit.bbl | 14
inst/doc/judgeit.blg | 2
inst/doc/judgeit.log | 108 -
inst/doc/judgeit.out | 24
inst/doc/judgeit.pdf | 3453 +++++++++++++++++++++++---------------------------
inst/doc/judgeit.tex | 1104 +++++++--------
inst/doc/judgeit.toc | 28
man/judgeit.Rd | 119 -
man/seats.Rd |only
man/v2s.Rd | 4
man/vshar.Rd | 38
24 files changed, 3218 insertions(+), 3420 deletions(-)
Author: Paul Murrell
Diff between hexView versions 0.3 dated 2006-12-07 and 0.3-1 dated 2008-08-25
Title: Viewing Binary Files
Description: Functions to view files in raw binary form like in a hex editor. Additional functions to specify and read arbitrary binary formats.
ChangeLog |only
DESCRIPTION | 4 ++--
NAMESPACE | 1 +
R/rawFormat.R | 3 +++
4 files changed, 6 insertions(+), 2 deletions(-)
Author: Christian Buchta and Michael Hahsler
Title: Clustering for Business Analytics
Description: Implements clustering techniques such as Proximus and Rock, utility functions for efficient computation of cross distances and data manipulation.
Diff between cba versions 0.2-4 dated 2007-10-23 and 0.2-5 dated 2008-08-25
DESCRIPTION | 6 +++--- man/proximus.Rd | 2 +- man/rockCluster.Rd | 2 +- 3 files changed, 5 insertions(+), 5 deletions(-)
Author: Max Kuhn, Steve Weaston
Title: Sweave processing of Open Document Format (ODF) files
Description: Sweave processing of Open Document Format (ODF) files
Diff between odfWeave versions 0.7.6 dated 2008-08-07 and 0.7.7 dated 2008-08-24
DESCRIPTION | 6 +++--- R/odfTableGen.R | 5 +++-- inst/doc/odfWeave.pdf |binary inst/doc/odfWeave.tex | 2 +- 4 files changed, 7 insertions(+), 6 deletions(-)
Author: David A. James
Title: SQLite interface for R
Description: Database Interface R driver for SQLite.
This package embeds the SQLite database engine in R and
provides an interface compliant with the DBI package.
The source for the SQLite engine (version 3.6.0) is included.
Diff between RSQLite versions 0.6-9 dated 2008-06-11 and 0.7-0 dated 2008-08-24
DESCRIPTION | 6 configure | 1521 configure.in | 3 src/sqlite/sqlite3.c |135765 ++++++++++++++++++++++++++++-------------------- src/sqlite/sqlite3.h | 5765 +- src/sqlite/sqlite3ext.h |only 6 files changed, 86160 insertions(+), 56900 deletions(-)
Author: David B. Dahl
Diff between xtable versions 1.5-2 dated 2007-10-11 and 1.5-3 dated 2008-08-24
Title: Export tables to LaTeX or HTML
Description: Coerce data to LaTeX and HTML tables
xtable-1.5-2/xtable/inst/doc/xtableGallery.aux |only
xtable-1.5-2/xtable/inst/doc/xtableGallery.log |only
xtable-1.5-2/xtable/inst/doc/xtableGallery.tex |only
xtable-1.5-2/xtable/inst/doc/xtableGallery.txt |only
xtable-1.5-3/xtable/DESCRIPTION | 6 +++---
xtable-1.5-3/xtable/R/print.xtable.R | 8 +++++---
xtable-1.5-3/xtable/inst/doc/xtableGallery.pdf |binary
7 files changed, 8 insertions(+), 6 deletions(-)
Author: Kaspar Rufibach
Diff between modehunt versions 1.0.1 dated 2007-10-09 and 1.0.2 dated 2008-08-24
Title: Multiscale Analysis for Density Functions
Description: Given independent and identically distributed observations X(1), ..., X(n) from a density f,
this package provides five methods to perform a multiscale analysis about f as well as the necessary critical
values. The first method, introduced in Duembgen and Walther (2008), provides simultaneous confidence statements
for the existence and location of local increases (or decreases) of f, based on all intervals I(all) spanned by
any two observations X(j), X(k). The second method approximates the latter approach by using only a subset of
I(all) and is therefore computationally much more efficient, but asymptotically equivalent. Omitting the additive
correction term Gamma in either method offers another two approaches which are more powerful on small scales and
less powerful on large scales, however, not asymptotically minimax optimal anymore. Finally, the block procedure is a
compromise between adding Gamma or not, having intermediate power properties. The latter is again asymptotically
equivalent to the first and was introduced in Rufibach and Walther (2007).
CHANGES | 4 ++++
DESCRIPTION | 14 +++++++-------
R/criticalValuesAll.R | 4 ++--
R/criticalValuesApprox.R | 4 ++--
man/blocks.Rd | 2 +-
man/criticalValuesAll.Rd | 2 +-
man/criticalValuesApprox.Rd | 2 +-
man/lin.Rd | 2 +-
man/minimalIntervals.Rd | 2 +-
man/modeHunting.Rd | 8 ++++----
man/modeHuntingApprox.Rd | 6 +++---
man/modeHuntingBlock.Rd | 6 +++---
man/modehunt-package.Rd | 20 ++++++++++----------
man/myRound.Rd | 2 +-
man/preProcessX.Rd | 4 ++--
15 files changed, 43 insertions(+), 39 deletions(-)
Author: William H. Asquith
Title: L-moments, Trimmed L-moments, L-comoments, and Many Distributions
Description: The package implements the statistical theory of L-moments including
L-moment estimation, probability-weighted moment estimation, parameter estimation
for numerous familiar and not-so-familiar distributions, and L-moment estimation
for the same distributions from the parameters. L-moments are derived from the
expectations of order statistics and are linear with respect to the probability-
weighted moments. L-moments are directly analogous to the well-known product
moments; however, L-moments have many advantages including unbiasedness,
robustness, and consistency with respect to the product moments. This package
is oriented around the FORTRAN algorithms of J.R.M. Hosking, and the
nomenclature for many of the functions parallels that of the Hosking library.
However, numerous extensions are made to aid in expand of the breadth and ease
of L-moment application. Much theoretical extension of L-moment theory has
occurred in recent years. E.A.H. Elamir and A.H. Seheult have developed the
trimmed L-moments, which are implemented in this package. Further, recent
developments by Robert Serfling and Peng Xiao have extended L-moments into
multivariate space; the so-called sample L-comoments are implemented here. The
supported distributions with moment type shown as L (L-moments) or TL (trimmed
L-moments) and additional support for right-tail censoring ([RC]) include:
Cauchy(TL), Exponential(L), Gamma(L), Generalized Extreme Value(L),
Generalized Lambda(L & TL), Generalized Logistic (L), Generalized Normal(L),
Generalized Pareto(L[RC] & TL), Gumbel(L), Normal(L), Kappa(L),
Pearson Type III(L), Reverse Gumbel(L[RC]), Wakeby(L), and Weibull(L).
Diff between lmomco versions 0.94 dated 2008-06-08 and 0.95 dated 2008-08-24
ChangeLog | 18 ++++++++++++++++++ DESCRIPTION | 6 +++--- INDEX | 35 +++++++++++++++++++++++++++++++++++ R/parTLgld.R | 1 + R/parTLgpa.R | 1 + R/parcau.R | 1 + R/parexp.R | 1 + R/pargam.R | 1 + R/pargev.R | 1 + R/pargld.R | 1 + R/parglo.R | 2 +- R/pargno.R | 1 + R/pargpa.R | 1 + R/pargpaRC.R | 6 +++++- R/pargum.R | 1 + R/parkap.R | 1 + R/parnor.R | 1 + R/parpe3.R | 1 + R/parrevgum.R | 1 + R/parwak.R | 2 ++ R/parwei.R | 2 ++ R/quakap.R | 6 ++---- R/quawak.R | 1 + R/sen.mean.R | 2 +- R/vec2par.R | 16 +++++++++++++++- data/DrillBitLifetime.txt |only data/IRSrefunds.by.state.RData |only data/USGSsta01515000peaks.RData |only data/USGSsta02366500peaks.RData |only data/USGSsta05405000peaks.RData |only data/USGSsta06766000dvs.RData |only data/USGSsta08151500peaks.RData |only data/USGSsta08167000peaks.RData |only data/USGSsta08190000peaks.RData |only data/USGSsta09442000peaks.RData |only data/USGSsta14321000peaks.RData |only data/amarilloprecip.RData |only data/canyonprecip.RData |only data/claudeprecip.RData |only data/herefordprecip.RData |only data/tulia6Eprecip.RData |only data/tuliaprecip.RData |only data/vegaprecip.RData |only inst/READMEinst |only inst/testdata |only man/DrillBitLifetime.Rd |only man/IRSrefunds.by.state.Rd |only man/USGSsta01515000peaks.Rd |only man/USGSsta02366500peaks.Rd |only man/USGSsta05405000peaks.Rd |only man/USGSsta06766000dvs.Rd |only man/USGSsta08151500peaks.Rd |only man/USGSsta08167000peaks.Rd |only man/USGSsta08190000peaks.Rd |only man/USGSsta09442000peaks.Rd |only man/USGSsta14321000peaks.Rd |only man/amarilloprecip.Rd |only man/canyonprecip.Rd |only man/claudeprecip.Rd |only man/herefordprecip.Rd |only man/tulia6Eprecip.Rd |only man/tuliaprecip.Rd |only man/vegaprecip.Rd |only man/z.par2qua.Rd | 2 +- 64 files changed, 100 insertions(+), 12 deletions(-)
Author: Martin Schlather
Diff between RandomFields versions 1.3.30 dated 2007-10-03 and 1.3.34 dated 2008-08-24
Title: Simulation and Analysis of Random Fields
Description: Simulation of Gaussian and extreme value random fields;
conditional simulation; kriging
DESCRIPTION | 8 +--
R/D.H.R | 5 +-
R/MLE.R | 41 +++++++++++++----
R/auxiliary.R | 17 +++----
R/convert.R | 2
R/empvario.R | 2
R/getNset.R | 11 +---
R/modelling.R | 16 +++++-
man/Dev.Rd | 3 -
man/auxiliary.fcts.Rd | 4 -
src/Hyperfcts.cc | 11 ++++
src/MPP.cc | 2
src/MPPFcts.cc | 6 +-
src/RFCovFcts.cc | 94 ++++++++++++++++++++--------------------
src/RFcircembed.cc | 24 ++++++----
src/RFdirect.cc | 6 +-
src/RFempvario.cc | 10 ++--
src/RFgetNset.cc | 31 ++++++++++---
src/RFnugget.cc | 3 -
src/RFother.cc | 2
src/RFsimu.cc | 108 ++++++++++++++++++++++++++---------------------
src/RFsimu.h | 2
src/RFtbm.cc | 25 +++-------
src/RandomFields.h | 10 +++-
src/Xempvario.cc | 4 -
src/addownfctns.cc | 3 -
src/extremes.cc | 16 ++----
src/modelling.cc | 11 +++-
tests/RFtest.Cond.Simu.R | 1
tests/source.R | 4 -
30 files changed, 271 insertions(+), 211 deletions(-)
Author: A.I. McLeod and Ying Zhang
Title: Subset AR Model Fitting
Description: Complete functions are given for model identification, estimation and diagnostic checking for AR and subset AR models. Two types of subset AR models are supported. One family of subset AR models, denoted by ARp, is formed by taking subet of the original AR coefficients and in the other, denoted by ARz, subsets of the partial autocorrelations are used. The main advantage of the ARz model is its applicability to very large order models.
Diff between FitAR versions 1.71 dated 2008-07-16 and 1.72 dated 2008-08-24
DESCRIPTION | 6 - R/FitARz.R | 176 +++++++++++++++++++++++++++------------------------ man/Boot.FitAR.Rd | 3 man/FitAR-package.Rd | 4 - 4 files changed, 103 insertions(+), 86 deletions(-)
Author: Steve Kembel
Diff between picante versions 0.3-0 dated 2008-07-20 and 0.4-0 dated 2008-08-23
Title: Tools for integrating phylogenies and ecology
Description: Phylocom integration, community analyses, null-models, traits and evolution in R
picante |only
1 file changed
Author: Michael Lawrence, John Verzani
Title: Toolkit implementation of gWidgets for RGtk2
Description: Port of gWidgets API to RGtk2
Diff between gWidgetsRGtk2 versions 0.0-38 dated 2008-08-08 and 0.0-39 dated 2008-08-22
ChangeLog | 17 +++++++++++++++++ DESCRIPTION | 4 ++-- NEWS | 14 ++++++++++++++ R/aaaGenerics.R | 1 + R/gedit.R | 4 ++++ R/gframe.R | 6 +++--- R/gimage.R | 1 + R/glabel.R | 7 +++++++ R/gtext.R | 1 + R/gtree.R | 2 ++ man/gWidgetsRGtk2-package.Rd | 39 ++++++++++++++++++++++++++++++--------- 11 files changed, 82 insertions(+), 14 deletions(-)
Author: Robin K. S. Hankin
Title: Additive partitions of integers
Description: Additive partitions of integers. Enumerates the
partitions, unequal partitions, and restricted partitions of an
integer; the three corresponding partition functions are also
given. Set partitions are now included.
Diff between partitions versions 1.7-4 dated 2007-10-04 and 1.7-5 dated 2008-08-22
DESCRIPTION | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-)
Author: Robin K. S. Hankin
Title: create and investigate magic squares
Description: a collection of efficient, vectorized algorithms for the
creation and investigation of magic squares and hypercubes, including
a variety of functions for the manipulation and analysis of
arbitrarily dimensioned arrays. The package includes methods for
creating normal magic squares of any order greater than 2. The
ultimate intention is for the package to be a computerized embodiment
all magic square knowledge, including direct numerical verification
of properties of magic squares (such as recent results on the
determinant of odd-ordered semimagic squares). The package also
serves as a rebuttal to the often-heard comment "I thought R
was just for statistics".
Diff between magic versions 1.3-33 dated 2008-05-13 and 1.3-34 dated 2008-08-22
DESCRIPTION | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-)
Author: Robin K. S. Hankin
Title: The hypergeometric function
Description: The hypergeometric function, hypergeo(), for complex numbers
Diff between hypergeo versions 1.1-6 dated 2008-06-13 and 1.1-8 dated 2008-08-22
DESCRIPTION | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-)
Author: Robin K. S. Hankin; qrng functions by Duncan Murdoch and
multimin by Andrew Clausen
Title: wrapper for the Gnu Scientific Library
Description:
An R wrapper for the special functions and quasi random number
generators of the Gnu Scientific Library
(http://www.gnu.org/software/gsl/). See gsl-package.Rd for details of
overall package organization, and Misc.Rd for some functions that are
widely used in the package.
Diff between gsl versions 1.8-8 dated 2007-10-16 and 1.8-11 dated 2008-08-22
DESCRIPTION | 10 +++++----- R/expint.R | 3 +-- man/Expint.Rd | 40 ++++------------------------------------ src/expint.c | 3 +-- 4 files changed, 11 insertions(+), 45 deletions(-)
Author: Robin K. S. Hankin
Title: Continued fractions
Description: Various utilities for evaluating continued fractions
Diff between contfrac versions 1.1-4 dated 2008-05-19 and 1.1-5 dated 2008-08-22
DESCRIPTION | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-)
Author: Robin K. S. Hankin
Title: electrical properties of resistor networks
Description: electrical properties of resistor networks.
Diff between ResistorArray versions 1.0-20 dated 2008-05-19 and 1.0-22 dated 2008-08-22
DESCRIPTION | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-)
Author: Robin K. S. Hankin
Title: The Davies quantile function
Description: The Davies quantile function and the Generalized Lambda distribution
Diff between Davies versions 1.1-2 dated 2008-05-13 and 1.1-3 dated 2008-08-22
DESCRIPTION | 6 +++--- inst/CITATION | 2 +- 2 files changed, 4 insertions(+), 4 deletions(-)
Author: Robin K. S. Hankin
Title: Very large numbers in R
Description: Handles very large numbers in R. Real numbers are held
using their natural logarithms, plus a logical flag indicating
sign. The package includes a vignette that gives a step-by-step
introduction to using S4 methods.
Diff between Brobdingnag versions 1.1-2 dated 2007-10-11 and 1.1-3 dated 2008-08-22
DESCRIPTION | 6 +++--- inst/doc/brob.pdf |binary 2 files changed, 3 insertions(+), 3 deletions(-)
Author: Tom Price
Diff between waveclock versions 1.0-1 dated 2008-07-11 and 1.0-2 dated 2008-08-22
Title: Time-frequency analysis of cycling cell luminescence data
Description: waveclock is an R function designed to assess the period and
amplitude of cycling cell luminescence data. The function reconstructs
the modal frequencies from a continuous wavelet decomposition of the
luminescence data using the 'crazy climbers' algorithm described in
"Practical Time-Frequency Analysis: Gabor and Wavelet Transforms with
an Implementation in S", by Rene Carmona, Wen L. Hwang and Bruno
Torresani, Academic Press, 1998.
CHANGES | 5 +++++
DESCRIPTION | 6 +++---
R/my.crcrec.R | 2 +-
R/waveclock.R | 29 ++++++++++++++---------------
man/waveclock.Rd | 12 ++++++++----
5 files changed, 31 insertions(+), 23 deletions(-)
Author: David Meyer, Achim Zeileis, Kurt Hornik
Title: Visualizing Categorical Data
Description: Visualization techniques, data sets, summary and inference
procedures aimed particularly at categorical data. Special
emphasis is given to highly extensible grid graphics. The
package was inspired by the book "Visualizing Categorical Data"
by Michael Friendly.
Diff between vcd versions 1.0-9 dated 2008-08-01 and 1.1 dated 2008-08-22
DESCRIPTION | 6 +-- NAMESPACE | 14 +++++--- R/labeling.R | 36 ++++++++++++++++++++- R/mosaic.R | 69 ++++++++++++++++++++++++----------------- R/sieve.R | 37 +++++++++++---------- R/tile.R |only inst/doc/hcl-colors.pdf | 30 ++++++++--------- inst/doc/residual-shadings.pdf | 26 +++++++-------- inst/doc/strucplot.pdf |binary man/labeling_border.Rd | 21 ++++++++++++ man/mosaic.Rd | 10 +++++ man/struc_mosaic.Rd | 10 +++++ man/tile.Rd |only 13 files changed, 174 insertions(+), 85 deletions(-)
Author: Thomas Lumley
Title: analysis of complex survey samples
Description: Summary statistics, generalised linear models, and general maximum pseudolikelihood estimation for multistage stratified, cluster-sampled, unequally weighted survey samples. Variances by Taylor series linearisation or replicate weights. Post-stratification, calibration, and raking. Two-phase designs. Graphics.
Diff between survey versions 3.8 dated 2008-08-09 and 3.8-1 dated 2008-08-22
._NAMESPACE |binary .gdb_history |only DESCRIPTION | 4 ++-- INDEX | 1 + NAMESPACE | 6 +++++- R/olr.R | 37 ++++++++++++++++++++++++++++++++++--- R/svymi.R | 21 +++++++++++++++++++++ inst/CITATION | 6 +++--- inst/NEWS | 8 ++++++++ inst/doc/._survey.Rnw |only inst/doc/._survey.tex |only inst/doc/domain.log | 4 ++-- inst/doc/domain.pdf |binary inst/doc/domain.tex | 14 +++++++------- inst/doc/epi.log | 4 ++-- inst/doc/epi.pdf |binary inst/doc/epi.tex | 10 +++++----- inst/doc/phase1.log | 4 ++-- inst/doc/phase1.pdf |binary inst/doc/survey.log | 4 ++-- inst/doc/survey.pdf |binary man/svyolr.Rd | 7 +++++-- man/with.svyimputationList.Rd | 8 +++++++- 23 files changed, 106 insertions(+), 32 deletions(-)
Author: Jochen Knaus
Title: Easier cluster computing (based on snow).
Description: Toplevel wrapper around snow for easier development of
parallel R programs.
All functions work in sequential mode, too, if no cluster is present.
Package is also designed as connector to the cluster management tool
sfCluster, but can also used without it.
Diff between snowfall versions 1.52 dated 2008-07-05 and 1.53 dated 2008-08-22
DESCRIPTION | 6 +++--- R/init.R | 13 +++++++++++-- inst/doc/snowfall.pdf |binary 3 files changed, 14 insertions(+), 5 deletions(-)
Author: Michael Hahsler, Christian Buchta and Kurt Hornik
Title: Infrastructure for seriation
Description: Infrastructure for seriation with an implementation of several
seriation/sequencing techniques to reorder matrices, dissimilarity
matrices, and dendrograms. Also contains some visualizations techniques
based on seriation.
Diff between seriation versions 0.1-4 dated 2008-04-04 and 0.1-5 dated 2008-08-22
DESCRIPTION | 15 +++++++++------ inst/doc/seriation.pdf |binary tests/criterion.R | 4 ++-- 3 files changed, 11 insertions(+), 8 deletions(-)
Author: John Verzani
Title: Toolkit implementation of gWidgets for tcltk package
Description: Port of gWidgets API to the tcltk package. Requires TK 8.5 or greater for the tile (ttk)widgets http://www.tcl.tk/software/tcltk/8.5.tml. This is default on Windows. Under linux, it must be installed. Under Mac OS X (10.5) it must be upgraded. See www.tcl.tk to download source. Under the Mac it compiles and installs cleanly.
Diff between gWidgetstcltk versions 0.0-15 dated 2008-08-11 and 0.0-16 dated 2008-08-22
DESCRIPTION | 4 ++-- NEWS | 5 +++++ R/ggroup.R | 2 +- 3 files changed, 8 insertions(+), 3 deletions(-)
Author: Christopher Jackson
Title: Density strips and other methods for compactly illustrating distributions
Description: Graphical methods for compactly illustrating probability distributions, including density strips, density regions, sectioned density plots and varying width strips.
Diff between denstrip versions 1.0 dated 2008-08-17 and 1.1 dated 2008-08-22
ChangeLog | 14 ++++++++++++++ DESCRIPTION | 7 +++---- R/denstrip.R | 25 +++++++++++++++++-------- inst/NEWS | 11 +++++++++++ man/seqToIntervals.Rd |only 5 files changed, 45 insertions(+), 12 deletions(-)
Author: Katharine M. Mullen, Sergey Laptenok, Ivo H. M. van Stokkum
Title: a problem solving environment for fitting separable nonlinear models in physics and chemistry applications
Description: TIMP is a problem solving environment for fitting separable nonlinear models to measurements arising in physics and chemistry experiments, and has been extensively applied to time-resolved spectroscopy and FLIM-FRET data.
Diff between TIMP versions 1.6 dated 2008-04-27 and 1.7 dated 2008-08-22
TIMP-1.6/TIMP/R/plotEst.R |only TIMP-1.7/TIMP/DESCRIPTION | 8 TIMP-1.7/TIMP/NAMESPACE | 8 TIMP-1.7/TIMP/R/compModelMass.R | 3 TIMP-1.7/TIMP/R/displayEst.R | 25 - TIMP-1.7/TIMP/R/doubleDiff.R |only TIMP-1.7/TIMP/R/examineFit.R | 8 TIMP-1.7/TIMP/R/fillK.R | 14 TIMP-1.7/TIMP/R/fillResult.R | 4 TIMP-1.7/TIMP/R/fitModel.R | 126 ++++--- TIMP-1.7/TIMP/R/gaus.R | 15 TIMP-1.7/TIMP/R/getGroups.R | 7 TIMP-1.7/TIMP/R/getModel.R | 3 TIMP-1.7/TIMP/R/getResid.R | 4 TIMP-1.7/TIMP/R/getResidRet.R | 35 -- TIMP-1.7/TIMP/R/getResults.R | 33 - TIMP-1.7/TIMP/R/getXList.R | 102 +++++- TIMP-1.7/TIMP/R/init.opt.R | 80 ++-- TIMP-1.7/TIMP/R/modifyModel.R | 2 TIMP-1.7/TIMP/R/plotFLIM.R | 541 ++++++++++++++++++++------------ TIMP-1.7/TIMP/R/plotKinBreakDown.R | 18 - TIMP-1.7/TIMP/R/plotKinSpecEst.R | 2 TIMP-1.7/TIMP/R/preProcess.R | 6 TIMP-1.7/TIMP/R/set_getClpindepX_mass.R | 5 TIMP-1.7/TIMP/R/set_plotter_kin.R | 18 - TIMP-1.7/TIMP/R/set_plotter_spec.R | 38 +- TIMP-1.7/TIMP/R/simndecay_gen.R | 75 ++-- TIMP-1.7/TIMP/R/skew.R | 6 TIMP-1.7/TIMP/R/sumKinSpecEst.R | 16 TIMP-1.7/TIMP/R/weightPsi.R | 3 TIMP-1.7/TIMP/R/writeEst.R | 78 +--- TIMP-1.7/TIMP/Rplots.pdf |only TIMP-1.7/TIMP/man/FLIMplots.Rd |only TIMP-1.7/TIMP/man/dat-class.Rd | 123 +++---- TIMP-1.7/TIMP/man/efit2file.Rd | 2 TIMP-1.7/TIMP/man/getResults.Rd | 47 +- TIMP-1.7/TIMP/man/kin-class.Rd | 57 +-- TIMP-1.7/TIMP/man/kinopt-class.Rd | 7 TIMP-1.7/TIMP/man/opt-class.Rd | 4 TIMP-1.7/TIMP/man/preProcess.Rd | 11 TIMP-1.7/TIMP/man/writeAverage.Rd | 2 TIMP-1.7/TIMP/tests/spectral_script.R | 16 42 files changed, 919 insertions(+), 633 deletions(-)
Author: R by Martin Schlather
Diff between SoPhy versions 1.0.32 dated 2007-10-04 and 1.0.33 dated 2008-08-22
Title: Soil Physics Tools
Description: SWMS_2D interface
DESCRIPTION | 8 ++++----
R/3dplot.R | 8 ++++----
R/Sophy.R | 6 +++---
R/extremal.coeff.R | 5 +++--
R/rgb.R | 2 +-
R/sh.R | 7 +++++--
R/simu.R | 6 +-----
R/swms2d.R | 7 ++++++-
8 files changed, 27 insertions(+), 22 deletions(-)
Author: Cyril Piou
Title: Pattern Oriented Modelling Information Criterion
Description: This package propose calculations of a non-parsimonious based information criterion to check the quality of simulations results of ABM/IBM or other non-linear rule-based models. The POMIC is based on the KL divergence and likelihood theory. This method is still under development and further work are needed for the incorporation of model complexity measurement in the information criterion.
Diff between Pomic versions 0.9.0 dated 2008-06-01 and 0.9.1 dated 2008-08-22
DESCRIPTION | 8 ++++---- NEWS |only man/Pomic-package.Rd | 6 +++--- man/analyse.pomics.Rd | 2 +- man/pomic.Rd | 2 +- man/pomic.corrected.rd | 2 +- man/pomic.simple.rd | 2 +- man/pomic.timeseries.rd | 2 +- man/summarize.parameters.Rd | 2 +- man/summarize.pomics.Rd | 2 +- 10 files changed, 14 insertions(+), 14 deletions(-)
Author: Martin Schlather
Diff between MarkedPointProcess versions 0.2.8 dated 2008-03-27 and 0.2.9 dated 2008-08-22
More information about MarkedPointProcess at CRAN
Title: Analysis of Marks of Marked Point Processes
Description: Non-parametric Analysis of the Marks of Marked Point Processes
DESCRIPTION | 4 ++--
R/srd.R | 21 +++++++++++----------
2 files changed, 13 insertions(+), 12 deletions(-)
Permanent link
Author: Yurii Aulchenko, Maksim Struchalin
Title: genome-wide SNP association analysis
Description: a package for genome-wide association analysis between
quantitative or binary traits and single-nucleiotide
polymorphisms (SNPs).
Diff between GenABEL versions 1.3-9 dated 2008-05-07 and 1.4-0 dated 2008-08-22
GenABEL-1.3-9/GenABEL/inst/doc/GenABEL-tutorial.pdf |only GenABEL-1.4-0/GenABEL/CHANGES.LOG | 864 +-- GenABEL-1.4-0/GenABEL/DESCRIPTION | 27 GenABEL-1.4-0/GenABEL/NAMESPACE | 1 GenABEL-1.4-0/GenABEL/R/GASurv.R | 32 GenABEL-1.4-0/GenABEL/R/check.marker.R | 8 GenABEL-1.4-0/GenABEL/R/check.marker.internal.R | 4 GenABEL-1.4-0/GenABEL/R/checkphengen.R | 14 GenABEL-1.4-0/GenABEL/R/convert.snp.affymetrix.R | 10 GenABEL-1.4-0/GenABEL/R/descriptives.trait.R | 4 GenABEL-1.4-0/GenABEL/R/estlambda.R | 20 GenABEL-1.4-0/GenABEL/R/merge.gwaa.data.R | 8 GenABEL-1.4-0/GenABEL/R/merge.snp.data.R | 694 +- GenABEL-1.4-0/GenABEL/R/mlreg.R | 226 GenABEL-1.4-0/GenABEL/R/ztransform.R | 2 GenABEL-1.4-0/GenABEL/inst/doc/ABEL-tutorial.pdf |only GenABEL-1.4-0/GenABEL/inst/doc/GenABEL-manual.pdf | 4716 +++++++++---------- GenABEL-1.4-0/GenABEL/inst/doc/index.html | 2 GenABEL-1.4-0/GenABEL/man/GenABEL-package.Rd | 4 GenABEL-1.4-0/GenABEL/man/check.marker.Rd | 2 GenABEL-1.4-0/GenABEL/man/convert.snp.affymetrix.Rd | 52 GenABEL-1.4-0/GenABEL/man/convert.snp.ped.Rd | 2 GenABEL-1.4-0/GenABEL/src/Chip.cpp | 49 GenABEL-1.4-0/GenABEL/src/Chip.h | 2 GenABEL-1.4-0/GenABEL/src/convert.snp.affymetrix.cpp | 46 GenABEL-1.4-0/GenABEL/src/gtps_container.cpp | 43 GenABEL-1.4-0/GenABEL/src/gtps_container.h | 16 GenABEL-1.4-0/GenABEL/src/merge.snp.data.cpp | 133 GenABEL-1.4-0/GenABEL/tags |only 29 files changed, 3497 insertions(+), 3484 deletions(-)
Author: Tomas Johannesson & Halldor Bjornsson, Icelandic Met. Office; Gabor Grothendieck
Title: Stineman, a consistently well behaved method of interpolation
Description: A consistently well behaved method of interpolation based on piecewise rational functions using Stineman's algorithm
Diff between stinepack versions 1.1 dated 2006-10-06 and 1.2 dated 2008-08-21
DESCRIPTION | 4 ++-- R/parabolaSlopes.R | 8 ++------ R/stinemanSlopes.R | 4 ++-- 3 files changed, 6 insertions(+), 10 deletions(-)
Author: Alberto Viglione
Title: Non-supervised Regional Frequency Analysis
Description: A collection of statistical tools for objective (non-supervised) applications
of the Regional Frequency Analysis methods in hydrology.
Diff between nsRFA versions 0.5-5 dated 2008-08-06 and 0.5-8 dated 2008-08-21
DESCRIPTION | 8 - R/BayesianMCMC.R | 186 +++++++++++++++++++++++++++++------------ R/GOFlaio2004.R | 16 +-- R/GOFmontecarlo.R | 4 R/HW.original.R | 3 R/MLlaio2004.R | 16 +-- R/MSClaio2008.R |only inst/doc/Fig1ElamirSeheult.pdf |binary inst/doc/MSClaio2008.Rnw |only inst/doc/MSClaio2008.pdf |only man/BayesianMCMC.Rd | 30 ++++-- man/GOFlaio2004.Rd | 10 +- man/MLlaio2004.Rd | 8 - man/MSClaio2008.Rd |only 14 files changed, 191 insertions(+), 90 deletions(-)
Author: Chris Fraley and Adrian Raftery
Title: Model-Based Clustering / Normal Mixture Modeling
Description: Model-based clustering and normal mixture modeling
including Bayesian regularization
Diff between mclust versions 3.1-5 dated 2008-05-19 and 3.1-6 dated 2008-08-21
DESCRIPTION | 5 - LICENSE | 93 +------------------------- R/mclust.R | 164 ++++++++++++++++++++++------------------------ R/zzz.R | 4 - man/mclustDA.Rd | 2 man/plot.Mclust.Rd | 4 - man/plot.mclustBIC.Rd | 7 + man/plot.mclustDA.Rd | 2 man/plot.mclustDAtrain.Rd | 2 9 files changed, 100 insertions(+), 183 deletions(-)
Author: Gregory Warnes, with contributions from Gregor Gorjanc,
Friedrich Leisch, and Michael Man.
Title: Population Genetics
Description: Classes and methods for handling genetic data. Includes
classes to represent genotypes and haplotypes at single markers up
to multiple markers on multiple chromosomes. Function include
allele frequencies, flagging homo/heterozygotes, flagging carriers
of certain alleles, estimating and testing for Hardy-Weinberg
disequilibrium, estimating and testing for linkage disequilibrium,
...
Diff between genetics versions 1.3.3 dated 2008-04-30 and 1.3.4 dated 2008-08-21
ChangeLog | 19 +++++++++++++++++++ DESCRIPTION | 6 +++--- NEWS | 8 ++++++++ R/makeGenotypes.R | 4 ++-- inst/ChangeLog | 19 +++++++++++++++++++ inst/NEWS | 8 ++++++++ tests/makeGenotype_with_sep.R |only 7 files changed, 59 insertions(+), 5 deletions(-)
Author: Mark Stevenson
Diff between epiR versions 0.9-9 dated 2008-08-18 and 0.9-10 dated 2008-08-21
Title: Functions for analysing epidemiological data
Description: A package for analysing epidemiological data. Contains functions
for directly and indirectly adjusting measures of disease frequency,
quantifying measures of association on the basis of single or multiple
strata of count data presented in a contingency table, and computing
confidence intervals around incidence risk and incidence rate estimates.
Miscellaneous functions for use in meta-analysis, diagnostic test
interpretation, and sample size calculations.
DESCRIPTION | 6
R/epi.tests.R | 122 ++-
doc/epiR.pdf | 1939 +++++++++++++++++++++++++++----------------------------
man/epi.tests.Rd | 32
4 files changed, 1078 insertions(+), 1021 deletions(-)
Author: Chris Fraley, Adrian E. Raftery, J. McLean Sloughter,
Tilmann Gneiting, University of Washington
With contributions from Bobby Yuen and Michael Polokowski
Title: Probabilistic Forecasting using Ensembles and Bayesian Model Averaging
Description: Bayesian Model Averaging to create probabilistic
forecasts from ensemble forecasts and weather observations.
Diff between ensembleBMA versions 3.0-4 dated 2008-08-20 and 3.0-4.1 dated 2008-08-21
DESCRIPTION | 4 ++-- R/ensembleBMAgamma0.R | 2 +- R/ensembleBMAnormal.R | 4 ++-- R/fitBMAgamma0.R | 8 ++++---- R/fitBMAnormal.R | 4 ++-- 5 files changed, 11 insertions(+), 11 deletions(-)
Author: Robin Nunkesser
Diff between RFreak versions 0.2-2 dated 2008-07-05 and 0.2-3 dated 2008-08-21
Title: R/FrEAK interface
Description: An R interface to a modified version of the Free Evolutionary Algorithm Kit FrEAK. FrEAK is a toolkit written in Java to design and analyze evolutionary algorithms. Both the R interface and an extended version of FrEAK are contained in the RFreak package. For more information on FrEAK see http://sourceforge.net/projects/freak427/.
RFreak-0.2-2/RFreak/man/RFreak-package.Rd |only
RFreak-0.2-3/RFreak/DESCRIPTION | 6
RFreak-0.2-3/RFreak/R/functions.r | 2
RFreak-0.2-3/RFreak/inst/java/resource/freak/gui/help/footnode.html | 2
RFreak-0.2-3/RFreak/inst/java/resource/freak/gui/help/index.html | 482 +++++-----
RFreak-0.2-3/RFreak/inst/java/resource/freak/gui/help/node1.html | 4
RFreak-0.2-3/RFreak/inst/java/resource/freak/gui/help/node3.html | 268 ++---
RFreak-0.2-3/RFreak/inst/java/resource/freak/gui/help/node4.html | 284 ++---
RFreak-0.2-3/RFreak/inst/java/resource/freak/gui/help/node5.html | 186 +--
RFreak-0.2-3/RFreak/inst/java/resource/freak/gui/help/node7.html | 3
RFreak-0.2-3/RFreak/inst/java/resource/freak/gui/help/node8.html | 3
RFreak-0.2-3/RFreak/inst/java/resource/freak/gui/help/usersguide.html | 38
RFreak-0.2-3/RFreak/inst/java/src/freak/core/modulesupport/ClassCollector.java | 2
RFreak-0.2-3/RFreak/inst/java/src/freak/core/util/GraphViz.java | 2
RFreak-0.2-3/RFreak/inst/java/src/freak/gui/scheduleeditor/ScheduleEditor.java | 2
RFreak-0.2-3/RFreak/inst/java/src/freak/gui/scheduleeditor/ScheduleEditorPanel.java | 2
RFreak-0.2-3/RFreak/inst/java/src/freak/rinterface/control/RFreak.java | 2
RFreak-0.2-3/RFreak/man/predict-method.Rd | 7
18 files changed, 647 insertions(+), 648 deletions(-)
Author: Eun-Kyung Lee, Sung Gon Yi, Yoojin Jung, Junghyun Namkung, Taesung Park
Title: ORMDR
Description: Odds ratio based multifactor-dimensionality reduction method for detecting gene-gene interactions
Diff between ORMDR versions 1.3 dated 2008-08-02 and 1.3-1 dated 2008-08-21
DESCRIPTION | 4 ++-- R/mdr_revised.R | 26 +++++++++++++++++--------- 2 files changed, 19 insertions(+), 11 deletions(-)
Author: Stefan Theussl and Kurt Hornik
Title: R/GNU Linear Programming Kit Interface
Description: R interface to the GNU Linear Programing Kit (GLPK version 4.30).
GLPK is open source software for solving large-scale linear programming (LP),
mixed integer linear programming (MILP) and other related problems.
Diff between Rglpk versions 0.2-3 dated 2008-06-09 and 0.2-5 dated 2008-08-20
Rglpk-0.2-3/Rglpk/src/glplpx20.c |only Rglpk-0.2-5/Rglpk/DESCRIPTION | 10 Rglpk-0.2-5/Rglpk/R/Rglpk_solve.R | 37 Rglpk-0.2-5/Rglpk/R/filereader.R | 7 Rglpk-0.2-5/Rglpk/R/zzz.R |only Rglpk-0.2-5/Rglpk/inst |only Rglpk-0.2-5/Rglpk/src/Rglpk.h |only Rglpk-0.2-5/Rglpk/src/Rglpk_initialize.c |only Rglpk-0.2-5/Rglpk/src/Rglpk_read_file.c | 55 Rglpk-0.2-5/Rglpk/src/Rglpk_solve.c | 3 Rglpk-0.2-5/Rglpk/src/glpapi.h | 8 Rglpk-0.2-5/Rglpk/src/glpapi01.c | 63 Rglpk-0.2-5/Rglpk/src/glpapi06.c | 6 Rglpk-0.2-5/Rglpk/src/glpapi10.c | 15 Rglpk-0.2-5/Rglpk/src/glpapi13.c | 3209 +++++++++++++++++++++++++------ Rglpk-0.2-5/Rglpk/src/glpapi14.c |only Rglpk-0.2-5/Rglpk/src/glpapi15.c |only Rglpk-0.2-5/Rglpk/src/glpbfd.c | 1 Rglpk-0.2-5/Rglpk/src/glpbfd.h | 4 Rglpk-0.2-5/Rglpk/src/glpipp02.c | 9 Rglpk-0.2-5/Rglpk/src/glpk.h | 30 Rglpk-0.2-5/Rglpk/src/glplib02.c | 4 Rglpk-0.2-5/Rglpk/src/glplib10.c | 2 Rglpk-0.2-5/Rglpk/src/glplpp01.c | 10 Rglpk-0.2-5/Rglpk/src/glplpx01.c | 49 Rglpk-0.2-5/Rglpk/src/glplpx02.c | 4 Rglpk-0.2-5/Rglpk/src/glplpx04.c | 70 Rglpk-0.2-5/Rglpk/src/glplpx10.c | 7 Rglpk-0.2-5/Rglpk/src/glplpx14.c | 2621 ------------------------- Rglpk-0.2-5/Rglpk/src/glplpx16.c | 1278 +----------- Rglpk-0.2-5/Rglpk/src/glplpx17.c | 685 +++++- Rglpk-0.2-5/Rglpk/src/glplpx18.c | 722 +----- Rglpk-0.2-5/Rglpk/src/glplpx19.c | 1365 +++++++++++-- Rglpk-0.2-5/Rglpk/src/glpmpl.h | 402 +-- Rglpk-0.2-5/Rglpk/src/glpmpl01.c | 10 Rglpk-0.2-5/Rglpk/src/glpmpl03.c | 99 Rglpk-0.2-5/Rglpk/src/glpspm.c | 231 ++ Rglpk-0.2-5/Rglpk/src/glpspm.h | 54 Rglpk-0.2-5/Rglpk/src/glpspx.h | 80 Rglpk-0.2-5/Rglpk/src/glpspx03.c |only Rglpk-0.2-5/Rglpk/src/glpsql.c | 2 41 files changed, 5624 insertions(+), 5528 deletions(-)
Author: Stefano Iacus
Diff between cem versions 1.0.39 dated 2008-08-20 and 1.0.41 dated 2008-08-20
Title: CEM: Software for Coarsened Exact Matching
Description: This program implements the coarsened exact matching algorithm
(and many extensions) described in Stefano M. Iacus, Gary King,
and Giuseppe Porro, "Matching for Causal Inference Without
Balance Checking," http://gking.harvard.edu/files/abs/cem-abs.shtml
DESCRIPTION | 8
inst/doc/Rplots.pdf | 4
inst/doc/cem.Rnw | 12
inst/doc/cem.pdf | 1544 ++++++++++++++++++++++++--------------------------
inst/doc/coarsen1.pdf | 4
inst/doc/coarsen2.pdf | 4
inst/doc/copyRd.Rout | 2
inst/doc/index.shtml | 4
8 files changed, 787 insertions(+), 795 deletions(-)
Author: Jari Oksanen, Roeland Kindt, Pierre Legendre, Bob O'Hara, Gavin L. Simpson,
M. Henry H. Stevens, Helene Wagner
Title: Community Ecology Package
Description: Ordination methods, diversity analysis and other
functions for community and vegetation ecologists.
Diff between vegan versions 1.13-1 dated 2008-06-11 and 1.13-2 dated 2008-08-20
DESCRIPTION | 6 R/oecosimu.R | 2 R/ordiArgAbsorber.R | 2 R/orditkplot.R | 5 R/permutest.cca.R | 3 R/plot.procrustes.R | 15 R/print.summary.cca.R | 13 R/scores.rda.R | 13 R/varpart.R | 3 inst/ChangeLog | 37 + inst/NEWS | 34 + inst/doc/.build.timestamp |only inst/doc/FAQ-vegan.pdf |binary inst/doc/decision-vegan.pdf | 1448 +++++++++++++++++++++---------------------- inst/doc/decision-vegan.tex | 16 inst/doc/diversity-vegan.pdf |binary inst/doc/diversity-vegan.tex | 61 - inst/doc/intro-vegan.pdf |binary inst/doc/intro-vegan.tex | 59 - man/cascadeKM.Rd | 20 man/cca.Rd | 4 man/varpart.Rd | 4 man/vegan-internal.Rd | 3 23 files changed, 912 insertions(+), 836 deletions(-)
Author: Roland Fried
Diff between robfilter versions 2.0 dated 2008-08-06 and 2.1 dated 2008-08-20
Title: Robust Time Series Filters
Description: A set of functions to filter time series based on concepts from robust statistics.
DESCRIPTION | 4 ++--
R/madore.filter.R | 8 +++++---
2 files changed, 7 insertions(+), 5 deletions(-)
Author: Andrej-Nikolai Spiess
Diff between qpcR versions 1.1-3 dated 2008-06-09 and 1.1-5 dated 2008-08-20
Title: Modelling and analysis of real-time PCR data
Description: Model fitting, optimal model selection and calculation of various features that are essential in the analysis of quantitative real-time polymerase chain reaction (qPCR).
DESCRIPTION | 6 +--
NAMESPACE | 3 +
R/LR.r |only
R/PRESS.R |only
R/RSS.R |only
R/akaike.weights.R |only
R/mchoice.R | 97 +++++++++++++++++++++++++------------------------
R/modlist.R | 4 +-
R/onAttach.R | 2 -
R/pcrbatch.R | 4 +-
R/pcropt1.R | 6 +--
R/ratiocalc.modlist.R | 22 +++++------
R/ratiocalc.pcrbatch.R | 25 ++++++------
R/residplot.R |only
data/guescini1.rda |only
data/guescini2.rda |only
man/LR.Rd |only
man/PRESS.Rd |only
man/RSS.Rd |only
man/akaike.weights.Rd |only
man/guescini1.Rd |only
man/guescini2.Rd |only
man/mchoice.Rd | 41 ++++++++++++++------
man/modlist.Rd | 7 ++-
man/pcrbatch.Rd | 11 ++++-
man/propagate.Rd | 4 ++
man/qpcR.Rd | 15 +++++--
man/ratiocalc.Rd | 7 +++
man/residplot.Rd |only
29 files changed, 150 insertions(+), 104 deletions(-)
Author: Jim Lemon
Diff between plotrix versions 2.4-5 dated 2008-07-29 and 2.4-6 dated 2008-08-20
Title: Various plotting functions
Description: Lots of plots, various labeling, axis and color scaling functions.
plotrix-2.4-5/plotrix/man/dispbars.Rd |only
plotrix-2.4-6/plotrix/DESCRIPTION | 10 +-
plotrix-2.4-6/plotrix/INDEX | 3
plotrix-2.4-6/plotrix/R/brkdn.plot.R | 28 ------
plotrix-2.4-6/plotrix/R/clplot.R |only
plotrix-2.4-6/plotrix/R/dendrite.R | 1
plotrix-2.4-6/plotrix/R/dispersion.R |only
plotrix-2.4-6/plotrix/R/gap.plot.R | 8 -
plotrix-2.4-6/plotrix/R/plotCI.R | 145 ++++++++++++++++++--------------
plotrix-2.4-6/plotrix/R/qt.plot.R |only
plotrix-2.4-6/plotrix/R/revaxis.R |only
plotrix-2.4-6/plotrix/man/clplot.Rd |only
plotrix-2.4-6/plotrix/man/dispersion.Rd |only
plotrix-2.4-6/plotrix/man/plotCI.Rd | 3
plotrix-2.4-6/plotrix/man/qt.plot.Rd |only
plotrix-2.4-6/plotrix/man/revaxis.Rd |only
16 files changed, 102 insertions(+), 96 deletions(-)
Author: Kim-Anh Le Cao and Patrick Chabrier
Title: Optimal Feature Weighting algorithm
Description: This package implements the stochastic meta algorithm called Optimal Feature Weighting for two multiclass classifiers, CART and SVM
Diff between ofw versions 0.1-2 dated 2008-02-13 and 0.1-3 dated 2008-08-20
DESCRIPTION | 6 - NAMESPACE | 2 R/evaluateCART.learnCART.R | 4 - R/evaluateSVM.learnSVM.R | 117 +++++++++++-------------------- R/learn.default.R | 23 +++--- R/learnCART.default.R | 11 +- R/learnSVM.default.R | 165 +++++++------------------------------------- R/ofw.default.R | 14 ++- R/ofwCART.default.R | 12 ++- R/ofwSVM.default.R | 113 +++++------------------------- R/ofwTune.default.R | 4 - R/simplexe.R |only R/svmlearn.R |only man/evaluate.learn.Rd | 7 + man/evaluateCARTparallel.Rd | 5 - man/internal.Rd | 25 +----- man/learn.Rd | 21 ++--- man/ofw.Rd | 36 +++++---- man/ofwTune.Rd | 21 +++-- man/srbct.Rd | 16 +--- src/agregTree.c | 9 +- 21 files changed, 209 insertions(+), 402 deletions(-)
Author:
Heike Trautmann
Diff between mco versions 1.0.0 dated 2008-08-07 and 1.0.2 dated 2008-08-20
Title: Multi criteria optimization algorithms
Description:
DESCRIPTION | 6 +-
NAMESPACE | 14 +++++
R/mco.R |only
R/nsga2.R | 36 ++++++++++++-
R/qs.R |only
man/generationalDistance.Rd |only
man/normalizeFront.Rd |only
man/nsga2.Rd | 18 ++++--
man/paretoFront.Rd |only
src/hv.c |only
src/nsga2.c | 117 ++++++++++++++++++++++++--------------------
11 files changed, 128 insertions(+), 63 deletions(-)
Author: Wenxuan Zhong
Diff between lda.cv versions 1.1-1 dated 2008-08-14 and 1.1-2 dated 2008-08-20
Title: Cross-validation for linear discriminate analysis
Description: This is the gui interface to calculate cross-validation of the principle component and discriminate analysis
DESCRIPTION | 4 ++--
R/lda.cv.R | 2 +-
man/ldacv.gui.Rd | 14 +++++++++-----
3 files changed, 12 insertions(+), 8 deletions(-)
Author: Edzer J. Pebesma
Diff between gstat versions 0.9-47 dated 2008-05-16 and 0.9-48 dated 2008-08-20
Title: geostatistical modelling, prediction and simulation
Description: variogram modelling; simple, ordinary and universal point
or block (co)kriging, sequential Gaussian or indicator (co)simulation;
variogram and variogram map plotting utility functions.
DESCRIPTION | 6
R/variogramLine.R | 14
inst/ChangeLog | 72
inst/doc/gstat.pdf |29845 +++++++++++++++++++++++++--------------------------
man/fulmar.Rd | 12
man/sic97.Rd | 2
man/variogramLine.Rd | 11
src/machine.hin | 2
src/mapio.c | 44
src/s.c | 63
src/spbkp.c | 2
src/spchfctr.c | 2
src/version.h | 4
13 files changed, 14871 insertions(+), 15208 deletions(-)
Author: Chris Fraley, Adrian E. Raftery, J. McLean Sloughter,
Tilmann Gneiting, University of Washington
With contributions from Bobby Yuen and Michael Polokowski
Title: Probabilistic Forecasting using Ensembles and Bayesian Model Averaging
Description: Bayesian Model Averaging to create probabilistic
forecasts from ensemble forecasts and weather observations.
Diff between ensembleBMA versions 3.0-3 dated 2008-07-28 and 3.0-4 dated 2008-08-20
DESCRIPTION | 6 +++--- R/ensembleBMAgamma0.R | 32 +++++++++++++++++++++++++------- R/ensembleBMAnormal.R | 34 +++++++++++++++++++++++++++------- R/fitBMAgamma0.R | 15 +++++++++++++-- R/getHH.R |only man/dateCheck.Rd | 1 + man/prcpDJdata.Rd | 1 - 7 files changed, 69 insertions(+), 20 deletions(-)
Author: Andrew Gelman
Diff between arm versions 1.1-14 dated 2008-07-28 and 1.1-15 dated 2008-08-20
Title: Data Analysis Using Regression and Multilevel/Hierarchical Models
Description: R functions for processing lm, glm, mer and polr outputs.
arm-1.1-14/arm/R/array.append.R |only
arm-1.1-14/arm/man/array.append.Rd |only
arm-1.1-15/arm/CHANGELOG | 11 +
arm-1.1-15/arm/DESCRIPTION | 6
arm-1.1-15/arm/NAMESPACE | 1
arm-1.1-15/arm/R/bayesglm.R | 35 +++--
arm-1.1-15/arm/R/coefplot.R | 233 +++++++++++++++++++++----------------
arm-1.1-15/arm/R/sim.R | 2
arm-1.1-15/arm/man/bayesglm.Rd | 7 -
arm-1.1-15/arm/man/coefplot.Rd | 6
10 files changed, 178 insertions(+), 123 deletions(-)
Author: Jonathan M. Lees
Title: Graphics for Spherical Distributions and Earthquake Focal Mechanisms
Description: Graphics for statistics on a sphere, as applied to geological fault data, crystalogaphy, earthquake focal mechanisms, radiation patterns, ternary plots and geographical/geological maps.
Diff between RFOC versions 1.0-3 dated 2007-12-10 and 1.0-4 dated 2008-08-20
RFOC-1.0-3/RFOC/man/RFOC.Rcheck |only RFOC-1.0-4/RFOC/DESCRIPTION | 6 +++--- RFOC-1.0-4/RFOC/R/plotMEC.R |only RFOC-1.0-4/RFOC/R/printMEC.R |only RFOC-1.0-4/RFOC/data/PKAM.RData |only RFOC-1.0-4/RFOC/inst |only RFOC-1.0-4/RFOC/man/GreatDist.Rd | 8 +++----- RFOC-1.0-4/RFOC/man/PKAM.Rd |only RFOC-1.0-4/RFOC/man/PlotTernfoc.Rd | 6 ++---- RFOC-1.0-4/RFOC/man/RFOC-package.Rd | 4 ++-- RFOC-1.0-4/RFOC/man/Wnet.Rd | 6 +++--- RFOC-1.0-4/RFOC/man/circtics.Rd | 6 +++--- RFOC-1.0-4/RFOC/man/imageSCALE.Rd | 6 +++--- RFOC-1.0-4/RFOC/man/inside.Rd | 7 +++---- RFOC-1.0-4/RFOC/man/makenet.Rd | 5 +---- RFOC-1.0-4/RFOC/man/plotMEC.Rd |only RFOC-1.0-4/RFOC/man/printMEC.Rd |only 17 files changed, 23 insertions(+), 31 deletions(-)
Author: Jonathan M. Lees
Title: Topographic and Geologic Mapping
Description: Set of routines for making Map Projections (forward and inverse), Topographic Maps, Perspective plots, Geological Maps, geological map symbols, geological databases, interactive plotting and selection of focus regions.
Diff between GEOmap versions 1.0-9 dated 2008-06-26 and 1.2-0 dated 2008-08-20
DESCRIPTION | 8 ++++---- R/GEOTOPO.R | 1 + R/SELGEOmap.R |only R/geoarea.R | 20 ++++++++++++++++---- R/getgreatarc.R |only R/plotGEOmapXY.R | 10 ++++------ R/sqrTICXY.R |only R/zebra.R | 21 ++++++++++++--------- inst/doc/GEOmap.pdf |binary man/GEOmap-package.Rd | 31 ++++++++++++++++++++++++++++--- man/SELGEOmap.Rd |only man/addLLXY.Rd | 15 +++++++++++---- man/geoarea.Rd | 8 ++++++-- man/getgreatarc.Rd |only man/projtype.Rd | 5 +++++ man/setPROJ.Rd | 26 +++++++++++++++++++++----- man/sqrTICXY.Rd |only man/zebra.Rd | 4 +++- 18 files changed, 111 insertions(+), 38 deletions(-)
Author: Pedro Brasil
Diff between DiagnosisMed versions 0.0.1 dated 2008-07-05 and 0.0.2 dated 2008-08-20
Title: Diagnostic test accuracy evaluation for medical professionals
Description: DiagnosisMed is a package to analyze data from diagnostic test accuracy evaluating health conditions. It is being built to be used by health professionals. This package is - or soon will be - able to estimate sample size for common situations in diagnostic test accuracy, estimate sensitivity and specificity form categorical and continuous test results including some evaluations of indeterminate results, or compare different analysis strategies into measures commonly used by health professionals.
DESCRIPTION | 12 +--
R/diagnosis.r | 159 ++++++++++++++++++++++++++++------------------------
R/diagnosisI.r | 140 +++++++++++++++++++++++++--------------------
R/interact.ROC.r |only
R/plot.diag.r | 51 ++++++++--------
R/print.diag.r | 44 +++++++-------
R/zzz.r | 2
data |only
man/diagnosis.Rd | 53 ++++++++++-------
man/interact.ROC.Rd |only
man/plot.diag.Rd | 22 +++----
man/print.diag.Rd | 8 +-
man/rocdata.Rd |only
13 files changed, 265 insertions(+), 226 deletions(-)
Author: Achim Zeileis, Ajay Shah, Ila Patnaik
Title: Exchange Rate Regime Analysis
Description: Exchange rate regression and structural change tools
for estimating, testing, dating, and monitoring
(de facto) exchange rate regimes.
Diff between fxregime versions 0.1-0 dated 2007-08-29 and 0.2-0 dated 2008-08-19
fxregime-0.1-0/fxregime/inst/doc/inr_reg.rda |only fxregime-0.2-0/fxregime/DESCRIPTION | 14 +- fxregime-0.2-0/fxregime/NAMESPACE | 8 + fxregime-0.2-0/fxregime/NEWS | 19 +++ fxregime-0.2-0/fxregime/R/fxlm.R | 33 ++++++ fxregime-0.2-0/fxregime/R/fxregimes.R | 111 ++++++++++++++++++++++ fxregime-0.2-0/fxregime/data/FXRatesCHF.rda |binary fxregime-0.2-0/fxregime/inst/CITATION |only fxregime-0.2-0/fxregime/inst/doc/CNY.Rnw | 87 +++++++++-------- fxregime-0.2-0/fxregime/inst/doc/CNY.pdf |binary fxregime-0.2-0/fxregime/inst/doc/INR.Rnw | 115 +++++++++++------------ fxregime-0.2-0/fxregime/inst/doc/INR.pdf |binary fxregime-0.2-0/fxregime/man/confint.fxregimes.Rd |only fxregime-0.2-0/fxregime/man/fxlm.Rd | 11 +- fxregime-0.2-0/fxregime/man/fxmonitor.Rd | 10 +- fxregime-0.2-0/fxregime/man/fxregimes.Rd | 12 +- fxregime-0.2-0/fxregime/man/fxreturns.Rd | 8 - fxregime-0.2-0/fxregime/man/fxtools.Rd | 12 +- 18 files changed, 301 insertions(+), 139 deletions(-)
Author: Katherine S. Pollard, Yongchao Ge, Sandra Taylor, Sandrine Dudoit
Title: Resampling-based multiple hypothesis testing
Description: Non-parametric bootstrap and permutation resampling-based
multiple testing procedures for controlling the family-wise
error rate (FWER), generalized family-wise error rate (gFWER),
tail probability of the proportion of false positives (TPPFP),
and false discovery rate (FDR). Single-step and step-wise
methods are implemented. Tests based on a variety of t- and
F-statistics (including t-statistics based on regression
parameters from linear and survival models) are included.
Results are reported in terms of adjusted p-values,
confindence regions and test statistic cutoffs. The procedures
are directly applicable to identifying differentially
expressed genes in DNA microarray experiments.
Diff between multtest versions 1.16.1 dated 2007-07-16 and 1.21.1 dated 2008-08-18
multtest-1.16.1/multtest/INDEX |only multtest-1.21.1/multtest/DESCRIPTION | 6 +++--- multtest-1.21.1/multtest/R/test.R | 2 +- multtest-1.21.1/multtest/inst/doc/MTP.tex | 8 ++++---- multtest-1.21.1/multtest/inst/otherDocs/MTP.Rnw | 8 ++++---- multtest-1.21.1/multtest/inst/otherDocs/MTPALL.Rnw | 4 ++-- multtest-1.21.1/multtest/inst/otherDocs/multtest.Rnw | 2 +- multtest-1.21.1/multtest/man/MTP.Rd | 6 +++--- multtest-1.21.1/multtest/man/boot.null.Rd | 2 +- multtest-1.21.1/multtest/man/meanX.Rd | 2 +- multtest-1.21.1/multtest/man/mt.maxT.Rd | 1 - 11 files changed, 20 insertions(+), 21 deletions(-)
Author: Katherine S. Pollard, with Mark J. van der Laan
Diff between hopach versions 2.0.1 dated 2008-07-29 and 2.0.2 dated 2008-08-18
Title: Hierarchical Ordered Partitioning and Collapsing Hybrid (HOPACH)
Description: The HOPACH clustering algorithm builds a hierarchical
tree of clusters by recursively partitioning a data set, while
ordering and possibly collapsing clusters at each level. The
algorithm uses the Mean/Median Split Silhouette (MSS) criteria
to identify the level of the tree with maximally homogeneous
clusters. It also runs the tree down to produce a final
ordered list of the elements. The non-parametric bootstrap
allows one to estimate the probability that each element
belongs to each cluster (fuzzy clustering).
DESCRIPTION | 4
R/hopach.R | 2030 ++++++++++++++++++++++-----------------------
inst/doc/hopach.pdf | 413 ++++-----
man/boot2fuzzy.Rd | 142 +--
man/bootplot.Rd | 136 +--
man/bootstrap.Rd | 158 +--
man/correlationordering.Rd | 126 +-
man/disscosangle.Rd | 3
man/distancematrix.Rd | 3
man/dplot.Rd | 124 +-
man/hdist-class.Rd | 5
man/hopach.Rd | 3
man/hopach.internal.Rd | 328 +++----
man/hopach2tree.Rd | 158 +--
man/labelstomss.Rd | 230 ++---
man/makeoutput.Rd | 132 +-
man/prune.Rd | 92 +-
17 files changed, 2048 insertions(+), 2039 deletions(-)
Author: Tom Price
Diff between cgh versions 1.0-4 dated 2008-08-07 and 1.0-5 dated 2008-08-18
Title: Microarray CGH analysis using the Smith-Waterman algorithm
Description: Functions to analyze microarray comparative genome hybridization data using the Smith-Waterman algorithm
CHANGES | 5 +-
DESCRIPTION | 8 +--
NAMESPACE | 19 ++++-----
src/sw.c | 124 +++++++++++++++++++++++++++++++++++++++---------------------
4 files changed, 98 insertions(+), 58 deletions(-)
Author: Mark Stevenson
Diff between epiR versions 0.9-8 dated 2008-07-09 and 0.9-9 dated 2008-08-18
Title: Functions for analysing epidemiological data
Description: A package for analysing epidemiological data. Contains functions
for directly and indirectly adjusting measures of disease frequency,
quantifying measures of association on the basis of single or multiple
strata of count data presented in a contingency table, and computing
confidence intervals around incidence risk and incidence rate estimates.
Miscellaneous functions for use in meta-analysis, diagnostic test
interpretation, and sample size calculations.
DESCRIPTION | 6 +-
doc/epiR.pdf | 116 +++++++++++++++++++++++++++++++++++++++++++++++--------
man/epi.tests.Rd | 4 -
3 files changed, 106 insertions(+), 20 deletions(-)
Author: John M Chambers
Title: Functions and Exampels for "Software for Data Analysis"
Description: Functions, examples and other software related to the book
"Software for Data Analysis: Programming with R". See
package?SoDA for an overview.
Diff between SoDA versions 1.0-1 dated 2008-07-14 and 1.0-2 dated 2008-08-18
DESCRIPTION | 4 ++-- R/zzz.R | 11 +++++++++++ inst/Examples/marsPlot.R | 3 ++- inst/Examples/marsPlot2.R | 2 +- inst/Examples/marsPlot3.R | 2 +- man/Examples.Rd | 22 ++++++++++++++++++---- man/SoDA-package.Rd | 3 ++- man/runExample.Rd | 5 +++-- man/triDiagonal.Rd | 2 +- 9 files changed, 41 insertions(+), 13 deletions(-)
Author: Arnaud Estoup, Gilles Guillot, Filipe Santos
Title: Simulation and MCMC inference for subdivided populations
Description: Detection of structure from multilocus genetic data.
Diff between Geneland versions 3.0.0 dated 2008-08-13 and 3.0.2 dated 2008-08-18
ChangeLog | 82 ++++-------------------------------- DESCRIPTION | 4 - R/MCMC.R | 2 R/zzz.R | 6 +- src/main.f | 134 ++++++++++++++++++++++++++++++------------------------------ 5 files changed, 83 insertions(+), 145 deletions(-)
Author: Rainer Opgen-Rhein, Juliane Schaefer, and
Korbinian Strimmer.
Title: Modeling and Inferring Gene Networks
Description: GeneNet is a package for analyzing gene expression
(time series) data with focus on the inference of gene networks.
In particular, GeneNet implements the methods of Schaefer and
Strimmer (2005a,b,c) and Opgen-Rhein and Strimmer (2006, 2007)
for learning large-scale gene association networks (including
assignment of putative directions).
Diff between GeneNet versions 1.2.1 dated 2007-10-21 and 1.2.2 dated 2008-08-18
CHANGES | 7 +++++++ DESCRIPTION | 8 ++++---- R/ggm.make.dot.R | 9 +++++---- 3 files changed, 16 insertions(+), 8 deletions(-)
Author: Manuel Morales
Diff between sciplot versions 1.0-2 dated 2008-05-03 and 1.0-3 dated 2008-08-17
Title: Scientific Graphing Functions for Factorial Designs
Description: A collection of functions that creates graphs with error
bars for data collected from one-way or higher factorial
designs.
CHANGELOG | 1 +
DESCRIPTION | 4 ++--
R/lineplot.CI.R | 2 +-
3 files changed, 4 insertions(+), 3 deletions(-)
Author: Aaron A. King, Edward L. Ionides, Carles Martinez Breto
Title: Statistical inference for partially observed Markov processes
Description: Inference methods for partially-observed Markov processes
Diff between pomp versions 0.20-8 dated 2008-08-01 and 0.21-3 dated 2008-08-17
DESCRIPTION | 10 - NAMESPACE | 2 R/aaa.R | 5 R/pomp.R | 88 +++++++++--- R/trajectory-pomp.R |only data/ou2.rda |binary inst/ChangeLog | 65 +++++++++ inst/doc/Rplots.pdf | 4 inst/doc/compiled_code_in_pomp.pdf |binary inst/doc/intro_to_pomp.pdf |binary inst/examples/logistic.R | 9 - inst/examples/sir.R | 25 ++- man/mif-class.Rd | 2 man/pomp-class.Rd | 3 man/pomp.Rd | 12 + man/skeleton-pomp.Rd | 2 man/trajectory-pomp.Rd |only src/euler.c | 22 ++- src/skeleton.c | 41 +++-- tests/logistic.R | 7 - tests/logistic.Rout.save | 22 ++- tests/ou2-mif.Rout.save | 7 - tests/sir.R | 201 +++++++++++++++------------- tests/sir.Rout.save | 257 ++++++++++++++++++++----------------- 24 files changed, 497 insertions(+), 287 deletions(-)
Author: Ulrike Groemping
Title: Inequality constrained inference in linear normal situations
Description: This package implements parameter estimation in normal (linear) models under linear equality and inequality constraints and implements normal likelihood ratio tests involving inequality-constrained hypotheses. For inequality-constrained linear models, averaging over R-squared for different orderings of regressors is also included.
Diff between ic.infer versions 1.0-4 dated 2008-08-14 and 1.0-5 dated 2008-08-17
DESCRIPTION | 6 +++--- R/ic.test.R | 2 +- R/or.relimp.default.R | 4 ++-- R/orlm.default.R | 2 +- inst/doc/News.pdf |binary man/ic.est.Rd | 7 +++++-- tests |only 7 files changed, 12 insertions(+), 9 deletions(-)
Author: Ulrike Groemping
Title: Inequality constrained inference in linear normal situations
Description: This package implements parameter estimation in normal (linear) models under linear equality and inequality constraints and implements normal likelihood ratio tests involving inequality-constrained hypotheses. For inequality-constrained linear models, averaging over R-squared for different orderings of regressors is also included.
Diff between ic.infer versions 1.0-3 dated 2008-08-13 and 1.0-4 dated 2008-08-14
DESCRIPTION | 6 +++--- NAMESPACE | 6 ++++-- R/plot.orlm.R | 2 ++ R/summary.orest.R | 30 +++++++++++++++--------------- inst/doc/News.pdf |binary man/ic.est.Rd | 7 +++++-- 6 files changed, 29 insertions(+), 22 deletions(-)
Author: Duncan Temple Lang
Diff between rggobi versions 2.1.9 dated 2008-05-02 and 2.1.10 dated 2008-08-14
Title: Interface between R and GGobi
Description: The rggobi package provides a command-line interface to GGobi, an interactive and dynamic graphics package. Rggobi complements GGobi's graphical user interface, providing a way to fluidly transition between analysis and exploration, as well as automating common tasks.
DESCRIPTION | 8 ++--
R/datasets.r | 3 +
R/next-version/brush.r |only
src/RSGGobi.h | 2 -
src/brush.c | 8 ++--
src/display.c | 3 +
src/ggobi.c | 89 -------------------------------------------------
7 files changed, 14 insertions(+), 99 deletions(-)
Author: Roger Koenker
Diff between quantreg versions 4.17 dated 2008-02-22 and 4.20 dated 2008-08-14
Title: Quantile Regression
Description: Quantile regression and related methods.
quantreg-4.17/quantreg/ChangeLog.MM |only
quantreg-4.17/quantreg/REVISIONS |only
quantreg-4.17/quantreg/man/rq.fit.fn.Rd |only
quantreg-4.20/quantreg/DESCRIPTION | 6
quantreg-4.20/quantreg/R/crq.R | 4
quantreg-4.20/quantreg/R/quantreg.R | 236 ++++++++++++++++-------------
quantreg-4.20/quantreg/R/rqss.R | 58 ++++---
quantreg-4.20/quantreg/R/table.R | 45 ++++-
quantreg-4.20/quantreg/inst/ChangeLog |only
quantreg-4.20/quantreg/inst/FAQ |only
quantreg-4.20/quantreg/inst/doc/crq.pdf |only
quantreg-4.20/quantreg/inst/doc/rq.pdf |binary
quantreg-4.20/quantreg/man/Mammals.Rd | 14 +
quantreg-4.20/quantreg/man/boot.crq.Rd | 6
quantreg-4.20/quantreg/man/crq.Rd | 5
quantreg-4.20/quantreg/man/rq.Rd | 6
quantreg-4.20/quantreg/man/rq.fit.Rd | 2
quantreg-4.20/quantreg/man/rq.fit.br.Rd | 2
quantreg-4.20/quantreg/man/rq.fit.fnb.Rd | 4
quantreg-4.20/quantreg/man/rq.fit.lasso.Rd | 36 +++-
quantreg-4.20/quantreg/man/rq.fit.scad.Rd | 42 ++++-
quantreg-4.20/quantreg/man/rq.object.Rd | 23 ++
quantreg-4.20/quantreg/man/rq.wfit.Rd | 2
quantreg-4.20/quantreg/man/rqss.object.Rd | 2
quantreg-4.20/quantreg/man/summary.crq.Rd | 1
quantreg-4.20/quantreg/src/._crq.f |only
quantreg-4.20/quantreg/src/crq.f | 39 +++-
quantreg-4.20/quantreg/src/ratfor/rls.r |only
quantreg-4.20/quantreg/src/ratfor/rqbr.r | 2
29 files changed, 358 insertions(+), 177 deletions(-)
Author: Nicholas J. Lewin-Koh and Roger Bivand, contributions by Edzer J. Pebesma, Eric Archer, Stéphane Dray, David Forrest, Patrick Giraudoux, Duncan Golicher, Virgilio Gómez Rubio, Patrick Hausmann, Thomas Jagger, Sebastian P. Luque, Don MacQueen, Andrew Niccolai and Tom Short
Title: Tools for reading and handling spatial objects
Description: Set of tools for manipulating and reading geographic data, in particular ESRI shapefiles; C code used from shapelib. It includes binary access to GSHHS shoreline files. The package also provides interface wrappers for exchanging spatial objects with packages such as PBSmapping, spatstat, maps, RArcInfo, Stata tmap, WinBUGS, Mondrian, and others.
Diff between maptools versions 0.7-14 dated 2008-07-05 and 0.7-15 dated 2008-08-14
ChangeLog | 7 ++++++- DESCRIPTION | 6 +++--- R/spmaps.R | 8 ++++++-- inst/ChangeLog | 7 ++++++- 4 files changed, 21 insertions(+), 7 deletions(-)
Author: Douglas Bates
Diff between lme4 versions 0.999375-24 dated 2008-08-06 and 0.999375-25 dated 2008-08-14
Title: Linear mixed-effects models using S4 classes
Description: Fit linear and generalized linear mixed-effects models.
lme4-0.999375-24/lme4/inst/doc/AGQ.Rnw |only
lme4-0.999375-24/lme4/inst/doc/AGQ.pdf |only
lme4-0.999375-24/lme4/inst/doc/SpecifyingLMMs.Rnw |only
lme4-0.999375-24/lme4/inst/doc/SpecifyingLMMs.pdf |only
lme4-0.999375-24/lme4/inst/doc/auto |only
lme4-0.999375-24/lme4/tests/StratVar.R |only
lme4-0.999375-25/lme4/ChangeLog | 34 ++++++++
lme4-0.999375-25/lme4/DESCRIPTION | 6 -
lme4-0.999375-25/lme4/R/lmer.R | 84 +++++++++++++---------
lme4-0.999375-25/lme4/inst/doc/Implementation.Rnw | 3
lme4-0.999375-25/lme4/inst/doc/Implementation.pdf |binary
lme4-0.999375-25/lme4/inst/doc/PLSvGLS.pdf |binary
lme4-0.999375-25/lme4/inst/doc/Theory.pdf |binary
lme4-0.999375-25/lme4/tests/lmer-1.R | 13 +++
lme4-0.999375-25/lme4/tests/lmer-1.Rout.save | 19 ++++
15 files changed, 119 insertions(+), 40 deletions(-)
Author: S original by Venables & Ripley.
R port by Brian Ripley
Diff between VR versions 7.2-43 dated 2008-08-02 and 7.2-44 dated 2008-08-14
Bundle: VR
Contains: MASS class nnet spatial
DESCRIPTION | 6 -
MASS/R/add.R | 43 +++++--
MASS/data/mammals.rda |binary
MASS/inst/NEWS | 3
MASS/man/boxcox.Rd | 1
MASS/man/cov.rob.Rd | 1
MASS/man/cov.trob.Rd | 1
MASS/man/isoMDS.Rd | 1
MASS/man/lda.Rd | 1
MASS/man/lqs.Rd | 3
MASS/man/parcoord.Rd | 2
MASS/man/phones.Rd | 2
MASS/man/predict.lda.Rd | 1
MASS/man/predict.lqs.Rd | 1
MASS/man/predict.qda.Rd | 1
MASS/man/qda.Rd | 1
MASS/man/rlm.Rd | 269 ++++++++++++++++++++++++------------------------
MASS/man/rms.curv.Rd | 1
MASS/man/sammon.Rd | 1
WHATS.NEW | 4
nnet/R/nnet.R | 4
nnet/inst/NEWS | 1
nnet/man/nnet.Rd | 5
nnet/src/nnet.c | 8 -
24 files changed, 187 insertions(+), 174 deletions(-)
Author: Michael Lawrence
Diff between RGtk2 versions 2.12.5-3 dated 2008-04-06 and 2.12.6 dated 2008-08-14
Title: R bindings for Gtk 2.8.0 and above
Description: Facilities in the R language for programming
graphical interfaces using Gtk, the Gimp Tool Kit.
RGtk2-2.12.5-3/RGtk2/inst/examples/GtkWidget-2.R |only
RGtk2-2.12.5-3/RGtk2/inst/examples/cairo-Patterns.R |only
RGtk2-2.12.5-3/RGtk2/issues.txt |only
RGtk2-2.12.5-3/RGtk2/man/gtkTooltipsetCustom.Rd |only
RGtk2-2.12.5-3/RGtk2/man/gtkTooltipsetIcon.Rd |only
RGtk2-2.12.5-3/RGtk2/man/gtkTooltipsetIconFromStock.Rd |only
RGtk2-2.12.5-3/RGtk2/man/gtkTooltipsetMarkup.Rd |only
RGtk2-2.12.5-3/RGtk2/man/gtkTooltipsetText.Rd |only
RGtk2-2.12.5-3/RGtk2/man/gtkTooltipsetTipArea.Rd |only
RGtk2-2.12.5-3/RGtk2/man/pango-PangoRenderer.Rd |only
RGtk2-2.12.5-3/RGtk2/src/cairo-enums.h |only
RGtk2-2.12.6/RGtk2/DESCRIPTION | 4
RGtk2-2.12.6/RGtk2/R/cairoEnumDefs.R | 5
RGtk2-2.12.6/RGtk2/R/cairoFuncs.R | 113
RGtk2-2.12.6/RGtk2/R/gtkFuncs.R | 14
RGtk2-2.12.6/RGtk2/R/gtkManuals.R | 17
RGtk2-2.12.6/RGtk2/R/pangoFuncs.R | 144 +
RGtk2-2.12.6/RGtk2/R/zzz.R | 6
RGtk2-2.12.6/RGtk2/aclocal.m4 |only
RGtk2-2.12.6/RGtk2/configure.in | 4
RGtk2-2.12.6/RGtk2/demo/00Index | 3
RGtk2-2.12.6/RGtk2/demo/builder.R |only
RGtk2-2.12.6/RGtk2/demo/text-scroll.R |only
RGtk2-2.12.6/RGtk2/demo/tooltips.R |only
RGtk2-2.12.6/RGtk2/inst/examples/GtkAboutDialog-1.R | 4
RGtk2-2.12.6/RGtk2/inst/examples/GtkAccelLabel.R | 24
RGtk2-2.12.6/RGtk2/inst/examples/GtkCellRenderer.R | 6
RGtk2-2.12.6/RGtk2/inst/examples/GtkCombo-1.R | 7
RGtk2-2.12.6/RGtk2/inst/examples/GtkCombo-2.R | 30
RGtk2-2.12.6/RGtk2/inst/examples/GtkDialog-1.R | 17
RGtk2-2.12.6/RGtk2/inst/examples/GtkDialog-3.R | 14
RGtk2-2.12.6/RGtk2/inst/examples/GtkDialog-4.R | 10
RGtk2-2.12.6/RGtk2/inst/examples/GtkDrawingArea.R | 13
RGtk2-2.12.6/RGtk2/inst/examples/GtkFileChooserDialog.R | 13
RGtk2-2.12.6/RGtk2/inst/examples/GtkFileSelection.R | 25
RGtk2-2.12.6/RGtk2/inst/examples/GtkIconTheme.R | 15
RGtk2-2.12.6/RGtk2/inst/examples/GtkIconView.R | 2
RGtk2-2.12.6/RGtk2/inst/examples/GtkImage-2.R | 47
RGtk2-2.12.6/RGtk2/inst/examples/GtkLabel-3.R | 2
RGtk2-2.12.6/RGtk2/inst/examples/GtkListStore-1.R | 22
RGtk2-2.12.6/RGtk2/inst/examples/GtkMenu-1.R | 5
RGtk2-2.12.6/RGtk2/inst/examples/GtkMenu-2.R | 17
RGtk2-2.12.6/RGtk2/inst/examples/GtkMessageDialog-1.R | 6
RGtk2-2.12.6/RGtk2/inst/examples/GtkMessageDialog-2.R | 3
RGtk2-2.12.6/RGtk2/inst/examples/GtkMessageDialog-3.R | 4
RGtk2-2.12.6/RGtk2/inst/examples/GtkNotebook-2.R | 5
RGtk2-2.12.6/RGtk2/inst/examples/GtkPageSetup.R | 4
RGtk2-2.12.6/RGtk2/inst/examples/GtkRadioAction.R | 13
RGtk2-2.12.6/RGtk2/inst/examples/GtkRadioButton.R | 33
RGtk2-2.12.6/RGtk2/inst/examples/GtkRadioMenuItem.R | 3
RGtk2-2.12.6/RGtk2/inst/examples/GtkRecentChooserDialog.R | 5
RGtk2-2.12.6/RGtk2/inst/examples/GtkSocket.R | 4
RGtk2-2.12.6/RGtk2/inst/examples/GtkSpinButton-1.R | 22
RGtk2-2.12.6/RGtk2/inst/examples/GtkSpinButton-2.R | 20
RGtk2-2.12.6/RGtk2/inst/examples/GtkToggleButton.R | 24
RGtk2-2.12.6/RGtk2/inst/examples/GtkTooltips.R | 44
RGtk2-2.12.6/RGtk2/inst/examples/GtkTreeModel-1.R | 22
RGtk2-2.12.6/RGtk2/inst/examples/GtkTreeModel-2.R | 37
RGtk2-2.12.6/RGtk2/inst/examples/GtkTreeModelSort-1.R | 24
RGtk2-2.12.6/RGtk2/inst/examples/GtkTreeModelSort-2.R | 14
RGtk2-2.12.6/RGtk2/inst/examples/GtkTreeViewColumn.R | 3
RGtk2-2.12.6/RGtk2/inst/examples/GtkWidget-3.R | 10
RGtk2-2.12.6/RGtk2/inst/examples/GtkWidget-4.R | 8
RGtk2-2.12.6/RGtk2/inst/examples/GtkWidget-5.R | 19
RGtk2-2.12.6/RGtk2/inst/examples/GtkWidget-6.R | 57
RGtk2-2.12.6/RGtk2/inst/examples/GtkWidget-7.R |only
RGtk2-2.12.6/RGtk2/inst/examples/cairo-Patterns-1.R |only
RGtk2-2.12.6/RGtk2/inst/examples/cairo-Patterns-2.R |only
RGtk2-2.12.6/RGtk2/inst/examples/cairo-Version-Information-4.R | 2
RGtk2-2.12.6/RGtk2/inst/examples/gdk-Cursors.R | 37
RGtk2-2.12.6/RGtk2/inst/examples/gdk-GdkRGB.R | 6
RGtk2-2.12.6/RGtk2/inst/examples/gdk-Keyboard-Handling-1.R | 6
RGtk2-2.12.6/RGtk2/inst/examples/gdk-Keyboard-Handling-2.R | 5
RGtk2-2.12.6/RGtk2/inst/examples/gdk-Pango-Interaction.R | 65
RGtk2-2.12.6/RGtk2/inst/examples/gdk-Windows-1.R | 2
RGtk2-2.12.6/RGtk2/inst/examples/gdk-Windows-2.R | 3
RGtk2-2.12.6/RGtk2/inst/examples/gdk-pixbuf-scaling.R | 21
RGtk2-2.12.6/RGtk2/inst/examples/gtk-High-level-Printing-API-2.R | 8
RGtk2-2.12.6/RGtk2/inst/examples/gtk-Resource-Files-12.R | 6
RGtk2-2.12.6/RGtk2/inst/examples/pango-Cairo-Rendering.R | 75
RGtk2-2.12.6/RGtk2/inst/include/RGtk2/cairo-enums.h | 4
RGtk2-2.12.6/RGtk2/inst/include/RGtk2/gobjectImports.c | 10
RGtk2-2.12.6/RGtk2/inst/include/RGtk2/pangoUserFuncImports.c | 10
RGtk2-2.12.6/RGtk2/inst/include/RGtk2/pangoUserFuncs.h | 5
RGtk2-2.12.6/RGtk2/inst/notes |only
RGtk2-2.12.6/RGtk2/inst/ui |only
RGtk2-2.12.6/RGtk2/man/AtkAction.Rd | 2
RGtk2-2.12.6/RGtk2/man/AtkComponent.Rd | 2
RGtk2-2.12.6/RGtk2/man/AtkDocument.Rd | 2
RGtk2-2.12.6/RGtk2/man/AtkEditableText.Rd | 5
RGtk2-2.12.6/RGtk2/man/AtkGObjectAccessible.Rd | 2
RGtk2-2.12.6/RGtk2/man/AtkHyperlink.Rd | 2
RGtk2-2.12.6/RGtk2/man/AtkHypertext.Rd | 2
RGtk2-2.12.6/RGtk2/man/AtkImage.Rd | 5
RGtk2-2.12.6/RGtk2/man/AtkNoOpObject.Rd | 2
RGtk2-2.12.6/RGtk2/man/AtkNoOpObjectFactory.Rd | 2
RGtk2-2.12.6/RGtk2/man/AtkObject.Rd | 28
RGtk2-2.12.6/RGtk2/man/AtkObjectFactory.Rd | 2
RGtk2-2.12.6/RGtk2/man/AtkRegistry.Rd | 2
RGtk2-2.12.6/RGtk2/man/AtkRelation.Rd | 2
RGtk2-2.12.6/RGtk2/man/AtkRelationSet.Rd | 2
RGtk2-2.12.6/RGtk2/man/AtkSelection.Rd | 2
RGtk2-2.12.6/RGtk2/man/AtkStreamableContent.Rd | 2
RGtk2-2.12.6/RGtk2/man/AtkTable.Rd | 2
RGtk2-2.12.6/RGtk2/man/AtkText.Rd | 5
RGtk2-2.12.6/RGtk2/man/AtkUtil.Rd | 8
RGtk2-2.12.6/RGtk2/man/AtkValue.Rd | 2
RGtk2-2.12.6/RGtk2/man/CAIRO.Rd | 9
RGtk2-2.12.6/RGtk2/man/GdkDisplay.Rd | 7
RGtk2-2.12.6/RGtk2/man/GdkDisplayManager.Rd | 4
RGtk2-2.12.6/RGtk2/man/GdkPixbufLoader.Rd | 12
RGtk2-2.12.6/RGtk2/man/GdkScreen.Rd | 8
RGtk2-2.12.6/RGtk2/man/GladeXML.Rd | 2
RGtk2-2.12.6/RGtk2/man/GtkAboutDialog.Rd | 18
RGtk2-2.12.6/RGtk2/man/GtkAccelLabel.Rd | 38
RGtk2-2.12.6/RGtk2/man/GtkAccessible.Rd | 2
RGtk2-2.12.6/RGtk2/man/GtkAction.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkActionGroup.Rd | 19
RGtk2-2.12.6/RGtk2/man/GtkAdjustment.Rd | 6
RGtk2-2.12.6/RGtk2/man/GtkAlignment.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkArrow.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkAspectFrame.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkAssistant.Rd | 12
RGtk2-2.12.6/RGtk2/man/GtkBin.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkBox.Rd | 13
RGtk2-2.12.6/RGtk2/man/GtkBuilder.Rd | 18
RGtk2-2.12.6/RGtk2/man/GtkButton.Rd | 28
RGtk2-2.12.6/RGtk2/man/GtkButtonBox.Rd | 13
RGtk2-2.12.6/RGtk2/man/GtkCList.Rd | 38
RGtk2-2.12.6/RGtk2/man/GtkCTree.Rd | 34
RGtk2-2.12.6/RGtk2/man/GtkCalendar.Rd | 24
RGtk2-2.12.6/RGtk2/man/GtkCellEditable.Rd | 12
RGtk2-2.12.6/RGtk2/man/GtkCellLayout.Rd | 5
RGtk2-2.12.6/RGtk2/man/GtkCellRenderer.Rd | 15
RGtk2-2.12.6/RGtk2/man/GtkCellRendererAccel.Rd | 6
RGtk2-2.12.6/RGtk2/man/GtkCellRendererCombo.Rd | 5
RGtk2-2.12.6/RGtk2/man/GtkCellRendererPixbuf.Rd | 2
RGtk2-2.12.6/RGtk2/man/GtkCellRendererProgress.Rd | 2
RGtk2-2.12.6/RGtk2/man/GtkCellRendererSpin.Rd | 2
RGtk2-2.12.6/RGtk2/man/GtkCellRendererText.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkCellRendererToggle.Rd | 6
RGtk2-2.12.6/RGtk2/man/GtkCellView.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkCheckButton.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkCheckMenuItem.Rd | 8
RGtk2-2.12.6/RGtk2/man/GtkColorButton.Rd | 6
RGtk2-2.12.6/RGtk2/man/GtkColorSelection.Rd | 6
RGtk2-2.12.6/RGtk2/man/GtkColorSelectionDialog.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkCombo.Rd | 56
RGtk2-2.12.6/RGtk2/man/GtkComboBox.Rd | 45
RGtk2-2.12.6/RGtk2/man/GtkComboBoxEntry.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkContainer.Rd | 15
RGtk2-2.12.6/RGtk2/man/GtkCurve.Rd | 12
RGtk2-2.12.6/RGtk2/man/GtkDialog.Rd | 36
RGtk2-2.12.6/RGtk2/man/GtkDrawingArea.Rd | 21
RGtk2-2.12.6/RGtk2/man/GtkEditable.Rd | 10
RGtk2-2.12.6/RGtk2/man/GtkEntry.Rd | 26
RGtk2-2.12.6/RGtk2/man/GtkEntryCompletion.Rd | 19
RGtk2-2.12.6/RGtk2/man/GtkEventBox.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkExpander.Rd | 10
RGtk2-2.12.6/RGtk2/man/GtkFileChooser.Rd | 197 -
RGtk2-2.12.6/RGtk2/man/GtkFileChooserButton.Rd | 16
RGtk2-2.12.6/RGtk2/man/GtkFileChooserDialog.Rd | 31
RGtk2-2.12.6/RGtk2/man/GtkFileChooserWidget.Rd | 6
RGtk2-2.12.6/RGtk2/man/GtkFileSelection.Rd | 33
RGtk2-2.12.6/RGtk2/man/GtkFixed.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkFontButton.Rd | 6
RGtk2-2.12.6/RGtk2/man/GtkFontSelection.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkFontSelectionDialog.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkFrame.Rd | 9
RGtk2-2.12.6/RGtk2/man/GtkGammaCurve.Rd | 10
RGtk2-2.12.6/RGtk2/man/GtkHBox.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkHButtonBox.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkHPaned.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkHRuler.Rd | 10
RGtk2-2.12.6/RGtk2/man/GtkHScale.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkHScrollbar.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkHSeparator.Rd | 10
RGtk2-2.12.6/RGtk2/man/GtkHandleBox.Rd | 8
RGtk2-2.12.6/RGtk2/man/GtkIMContext.Rd | 14
RGtk2-2.12.6/RGtk2/man/GtkIMContextSimple.Rd | 2
RGtk2-2.12.6/RGtk2/man/GtkIMMulticontext.Rd | 2
RGtk2-2.12.6/RGtk2/man/GtkIconTheme.Rd | 19
RGtk2-2.12.6/RGtk2/man/GtkIconView.Rd | 22
RGtk2-2.12.6/RGtk2/man/GtkImage.Rd | 60
RGtk2-2.12.6/RGtk2/man/GtkImageMenuItem.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkInputDialog.Rd | 14
RGtk2-2.12.6/RGtk2/man/GtkInvisible.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkItem.Rd | 10
RGtk2-2.12.6/RGtk2/man/GtkItemFactory.Rd | 2
RGtk2-2.12.6/RGtk2/man/GtkLabel.Rd | 23
RGtk2-2.12.6/RGtk2/man/GtkLayout.Rd | 6
RGtk2-2.12.6/RGtk2/man/GtkLinkButton.Rd | 10
RGtk2-2.12.6/RGtk2/man/GtkList.Rd | 10
RGtk2-2.12.6/RGtk2/man/GtkListItem.Rd | 24
RGtk2-2.12.6/RGtk2/man/GtkListStore.Rd | 31
RGtk2-2.12.6/RGtk2/man/GtkMenu.Rd | 51
RGtk2-2.12.6/RGtk2/man/GtkMenuBar.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkMenuItem.Rd | 12
RGtk2-2.12.6/RGtk2/man/GtkMenuShell.Rd | 20
RGtk2-2.12.6/RGtk2/man/GtkMenuToolButton.Rd | 6
RGtk2-2.12.6/RGtk2/man/GtkMessageDialog.Rd | 17
RGtk2-2.12.6/RGtk2/man/GtkMisc.Rd | 12
RGtk2-2.12.6/RGtk2/man/GtkNotebook.Rd | 31
RGtk2-2.12.6/RGtk2/man/GtkOldEditable.Rd | 30
RGtk2-2.12.6/RGtk2/man/GtkOptionMenu.Rd | 6
RGtk2-2.12.6/RGtk2/man/GtkPageSetup.Rd | 10
RGtk2-2.12.6/RGtk2/man/GtkPaned.Rd | 99
RGtk2-2.12.6/RGtk2/man/GtkPixmap.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkPlug.Rd | 12
RGtk2-2.12.6/RGtk2/man/GtkPreview.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkPrintContext.Rd | 6
RGtk2-2.12.6/RGtk2/man/GtkPrintSettings.Rd | 2
RGtk2-2.12.6/RGtk2/man/GtkProgress.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkProgressBar.Rd | 10
RGtk2-2.12.6/RGtk2/man/GtkRadioAction.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkRadioButton.Rd | 43
RGtk2-2.12.6/RGtk2/man/GtkRadioMenuItem.Rd | 13
RGtk2-2.12.6/RGtk2/man/GtkRadioToolButton.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkRange.Rd | 16
RGtk2-2.12.6/RGtk2/man/GtkRecentAction.Rd | 2
RGtk2-2.12.6/RGtk2/man/GtkRecentChooser.Rd | 87
RGtk2-2.12.6/RGtk2/man/GtkRecentChooserDialog.Rd | 13
RGtk2-2.12.6/RGtk2/man/GtkRecentChooserMenu.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkRecentChooserWidget.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkRecentFilter.Rd | 2
RGtk2-2.12.6/RGtk2/man/GtkRecentManager.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkRuler.Rd | 10
RGtk2-2.12.6/RGtk2/man/GtkScale.Rd | 10
RGtk2-2.12.6/RGtk2/man/GtkScaleButton.Rd | 10
RGtk2-2.12.6/RGtk2/man/GtkScrollbar.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkScrolledWindow.Rd | 8
RGtk2-2.12.6/RGtk2/man/GtkSeparator.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkSeparatorMenuItem.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkSeparatorToolItem.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkSettings.Rd | 18
RGtk2-2.12.6/RGtk2/man/GtkSizeGroup.Rd | 8
RGtk2-2.12.6/RGtk2/man/GtkSocket.Rd | 24
RGtk2-2.12.6/RGtk2/man/GtkSpinButton.Rd | 61
RGtk2-2.12.6/RGtk2/man/GtkStatusIcon.Rd | 10
RGtk2-2.12.6/RGtk2/man/GtkStatusbar.Rd | 8
RGtk2-2.12.6/RGtk2/man/GtkStyle.Rd | 6
RGtk2-2.12.6/RGtk2/man/GtkTable.Rd | 13
RGtk2-2.12.6/RGtk2/man/GtkTearoffMenuItem.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkTextBuffer.Rd | 26
RGtk2-2.12.6/RGtk2/man/GtkTextMark.Rd | 6
RGtk2-2.12.6/RGtk2/man/GtkTextTag.Rd | 9
RGtk2-2.12.6/RGtk2/man/GtkTextTagTable.Rd | 8
RGtk2-2.12.6/RGtk2/man/GtkTextView.Rd | 44
RGtk2-2.12.6/RGtk2/man/GtkTipsQuery.Rd | 12
RGtk2-2.12.6/RGtk2/man/GtkToggleAction.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkToggleButton.Rd | 34
RGtk2-2.12.6/RGtk2/man/GtkToggleToolButton.Rd | 6
RGtk2-2.12.6/RGtk2/man/GtkToolButton.Rd | 6
RGtk2-2.12.6/RGtk2/man/GtkToolItem.Rd | 14
RGtk2-2.12.6/RGtk2/man/GtkToolbar.Rd | 20
RGtk2-2.12.6/RGtk2/man/GtkTooltip.Rd | 22
RGtk2-2.12.6/RGtk2/man/GtkTooltips.Rd | 56
RGtk2-2.12.6/RGtk2/man/GtkTreeModel.Rd | 92
RGtk2-2.12.6/RGtk2/man/GtkTreeModelFilter.Rd | 2
RGtk2-2.12.6/RGtk2/man/GtkTreeModelSort.Rd | 49
RGtk2-2.12.6/RGtk2/man/GtkTreeSelection.Rd | 6
RGtk2-2.12.6/RGtk2/man/GtkTreeSortable.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkTreeStore.Rd | 5
RGtk2-2.12.6/RGtk2/man/GtkTreeView.Rd | 43
RGtk2-2.12.6/RGtk2/man/GtkTreeViewColumn.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkUIManager.Rd | 26
RGtk2-2.12.6/RGtk2/man/GtkVBox.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkVButtonBox.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkVPaned.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkVRuler.Rd | 10
RGtk2-2.12.6/RGtk2/man/GtkVScale.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkVScrollbar.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkVSeparator.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkViewport.Rd | 6
RGtk2-2.12.6/RGtk2/man/GtkVolumeButton.Rd | 4
RGtk2-2.12.6/RGtk2/man/GtkWidget.Rd | 352 +-
RGtk2-2.12.6/RGtk2/man/GtkWindow.Rd | 14
RGtk2-2.12.6/RGtk2/man/GtkWindowGroup.Rd | 2
RGtk2-2.12.6/RGtk2/man/Pango.Rd | 2
RGtk2-2.12.6/RGtk2/man/PangoRenderer.Rd |only
RGtk2-2.12.6/RGtk2/man/RGtk.Rd | 7
RGtk2-2.12.6/RGtk2/man/atk-AtkState.Rd | 72
RGtk2-2.12.6/RGtk2/man/atkActionDoAction.Rd | 2
RGtk2-2.12.6/RGtk2/man/atkActionGetKeybinding.Rd | 14
RGtk2-2.12.6/RGtk2/man/atkActionGetName.Rd | 14
RGtk2-2.12.6/RGtk2/man/atkComponentContains.Rd | 2
RGtk2-2.12.6/RGtk2/man/atkComponentGrabFocus.Rd | 2
RGtk2-2.12.6/RGtk2/man/atkComponentSetExtents.Rd | 2
RGtk2-2.12.6/RGtk2/man/atkComponentSetPosition.Rd | 2
RGtk2-2.12.6/RGtk2/man/atkComponentSetSize.Rd | 2
RGtk2-2.12.6/RGtk2/man/atkDocumentGetAttributeValue.Rd | 3
RGtk2-2.12.6/RGtk2/man/atkDocumentGetAttributes.Rd | 4
RGtk2-2.12.6/RGtk2/man/atkDocumentSetAttributeValue.Rd | 3
RGtk2-2.12.6/RGtk2/man/atkEditableTextSetRunAttributes.Rd | 2
RGtk2-2.12.6/RGtk2/man/atkGetFocusObject.Rd | 4
RGtk2-2.12.6/RGtk2/man/atkHyperlinkIsSelectedLink.Rd | 4
RGtk2-2.12.6/RGtk2/man/atkObjectGetAttributes.Rd | 4
RGtk2-2.12.6/RGtk2/man/atkObjectGetLayer.Rd | 1
RGtk2-2.12.6/RGtk2/man/atkObjectGetMdiZorder.Rd | 1
RGtk2-2.12.6/RGtk2/man/atkRelationAddTarget.Rd | 2
RGtk2-2.12.6/RGtk2/man/atkRelationNew.Rd | 2
RGtk2-2.12.6/RGtk2/man/atkRelationSetContains.Rd | 2
RGtk2-2.12.6/RGtk2/man/atkStateSetAddState.Rd | 2
RGtk2-2.12.6/RGtk2/man/atkStateSetContainsState.Rd | 2
RGtk2-2.12.6/RGtk2/man/atkStateSetContainsStates.Rd | 2
RGtk2-2.12.6/RGtk2/man/atkStateSetIsEmpty.Rd | 2
RGtk2-2.12.6/RGtk2/man/atkStateSetRemoveState.Rd | 2
RGtk2-2.12.6/RGtk2/man/atkTextAddSelection.Rd | 2
RGtk2-2.12.6/RGtk2/man/atkTextGetBoundedRanges.Rd | 4
RGtk2-2.12.6/RGtk2/man/atkTextRemoveSelection.Rd | 2
RGtk2-2.12.6/RGtk2/man/atkTextSetCaretOffset.Rd | 2
RGtk2-2.12.6/RGtk2/man/atkTextSetSelection.Rd | 2
RGtk2-2.12.6/RGtk2/man/atkValueSetCurrentValue.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairo-Error-Handling.Rd | 20
RGtk2-2.12.6/RGtk2/man/cairo-Font-Options.Rd | 8
RGtk2-2.12.6/RGtk2/man/cairo-Image-Surfaces.Rd | 8
RGtk2-2.12.6/RGtk2/man/cairo-PDF-Surfaces.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairo-PNG-Support.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairo-Paths.Rd | 4
RGtk2-2.12.6/RGtk2/man/cairo-Patterns.Rd | 46
RGtk2-2.12.6/RGtk2/man/cairo-PostScript-Surfaces.Rd | 19
RGtk2-2.12.6/RGtk2/man/cairo-SVG-Surfaces.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairo-Scaled-Fonts.Rd | 8
RGtk2-2.12.6/RGtk2/man/cairo-Text.Rd | 7
RGtk2-2.12.6/RGtk2/man/cairo-Transformations.Rd | 5
RGtk2-2.12.6/RGtk2/man/cairo-Types.Rd | 3
RGtk2-2.12.6/RGtk2/man/cairo-Version-Information.Rd | 16
RGtk2-2.12.6/RGtk2/man/cairo-cairo-matrix-t.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairo-cairo-surface-t.Rd | 19
RGtk2-2.12.6/RGtk2/man/cairo-cairo-t.Rd | 75
RGtk2-2.12.6/RGtk2/man/cairoArc.Rd | 6
RGtk2-2.12.6/RGtk2/man/cairoClip.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoClipPreserve.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoClosePath.Rd | 4
RGtk2-2.12.6/RGtk2/man/cairoCopyClipRectangleList.Rd | 7
RGtk2-2.12.6/RGtk2/man/cairoCopyPage.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoCopyPath.Rd | 8
RGtk2-2.12.6/RGtk2/man/cairoCopyPathFlat.Rd | 5
RGtk2-2.12.6/RGtk2/man/cairoCreate.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoFill.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoFillExtents.Rd | 14
RGtk2-2.12.6/RGtk2/man/cairoFillPreserve.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoFontFaceSetUserData.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoFontFaceStatus.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoFontOptionsEqual.Rd | 4
RGtk2-2.12.6/RGtk2/man/cairoFontOptionsStatus.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoFormatStrideForWidth.Rd |only
RGtk2-2.12.6/RGtk2/man/cairoGetCurrentPoint.Rd | 21
RGtk2-2.12.6/RGtk2/man/cairoGetFontFace.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoGetGroupTarget.Rd | 19
RGtk2-2.12.6/RGtk2/man/cairoGetScaledFont.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoHasCurrentPoint.Rd |only
RGtk2-2.12.6/RGtk2/man/cairoImageSurfaceCreate.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoImageSurfaceCreateForData.Rd | 30
RGtk2-2.12.6/RGtk2/man/cairoImageSurfaceGetData.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoMatrixInit.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoMatrixInitRotate.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoMatrixInitScale.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoMatrixInitTranslate.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoMatrixInvert.Rd | 6
RGtk2-2.12.6/RGtk2/man/cairoMatrixScale.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoMatrixTransformDistance.Rd | 3
RGtk2-2.12.6/RGtk2/man/cairoMatrixTranslate.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoPathExtents.Rd |only
RGtk2-2.12.6/RGtk2/man/cairoPatternAddColorStopRgb.Rd | 6
RGtk2-2.12.6/RGtk2/man/cairoPatternAddColorStopRgba.Rd | 6
RGtk2-2.12.6/RGtk2/man/cairoPatternCreateForSurface.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoPatternCreateLinear.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoPatternCreateRadial.Rd | 4
RGtk2-2.12.6/RGtk2/man/cairoPatternCreateRgb.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoPatternCreateRgba.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoPatternGetColorStopCount.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoPatternGetColorStopRgba.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoPatternGetLinearPoints.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoPatternGetRadialCircles.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoPatternGetRgba.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoPatternGetSurface.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoPatternSetFilter.Rd | 9
RGtk2-2.12.6/RGtk2/man/cairoPatternSetMatrix.Rd | 6
RGtk2-2.12.6/RGtk2/man/cairoPatternSetUserData.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoPatternStatus.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoPdfSurfaceCreate.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoPdfSurfaceCreateForStream.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoPdfSurfaceSetSize.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoPopGroupToSource.Rd | 6
RGtk2-2.12.6/RGtk2/man/cairoPsGetLevels.Rd |only
RGtk2-2.12.6/RGtk2/man/cairoPsLevelToString.Rd |only
RGtk2-2.12.6/RGtk2/man/cairoPsSurfaceCreate.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoPsSurfaceCreateForStream.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoPsSurfaceDscBeginPageSetup.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoPsSurfaceDscBeginSetup.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoPsSurfaceDscComment.Rd | 5
RGtk2-2.12.6/RGtk2/man/cairoPsSurfaceGetEps.Rd |only
RGtk2-2.12.6/RGtk2/man/cairoPsSurfaceRestrictToLevel.Rd |only
RGtk2-2.12.6/RGtk2/man/cairoPsSurfaceSetEps.Rd |only
RGtk2-2.12.6/RGtk2/man/cairoPsSurfaceSetSize.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoPushGroup.Rd | 3
RGtk2-2.12.6/RGtk2/man/cairoPushGroupWithContent.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoScaledFontCreate.Rd | 3
RGtk2-2.12.6/RGtk2/man/cairoScaledFontGlyphExtents.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoScaledFontSetUserData.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoScaledFontStatus.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoSetDash.Rd | 6
RGtk2-2.12.6/RGtk2/man/cairoSetFillRule.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoSetUserData.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoShowGlyphs.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoShowPage.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoShowText.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoStatus.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoStatusToString.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoStroke.Rd | 8
RGtk2-2.12.6/RGtk2/man/cairoStrokeExtents.Rd | 15
RGtk2-2.12.6/RGtk2/man/cairoStrokePreserve.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoSurfaceCopyPage.Rd |only
RGtk2-2.12.6/RGtk2/man/cairoSurfaceCreateSimilar.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoSurfaceSetFallbackResolution.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoSurfaceSetUserData.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoSurfaceShowPage.Rd |only
RGtk2-2.12.6/RGtk2/man/cairoSurfaceStatus.Rd | 4
RGtk2-2.12.6/RGtk2/man/cairoSurfaceWriteToPng.Rd | 6
RGtk2-2.12.6/RGtk2/man/cairoSurfaceWriteToPngStream.Rd | 4
RGtk2-2.12.6/RGtk2/man/cairoSvgSurfaceCreate.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoSvgSurfaceCreateForStream.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoSvgVersionToString.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoTextPath.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoTranslate.Rd | 2
RGtk2-2.12.6/RGtk2/man/cairoVersion.Rd | 8
RGtk2-2.12.6/RGtk2/man/gdk-Bitmaps-and-Pixmaps.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdk-Drawing-Primitives.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdk-Event-Structures.Rd | 8
RGtk2-2.12.6/RGtk2/man/gdk-Events.Rd | 3
RGtk2-2.12.6/RGtk2/man/gdk-GdkRGB.Rd | 12
RGtk2-2.12.6/RGtk2/man/gdk-Graphics-Contexts.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdk-Images.Rd | 23
RGtk2-2.12.6/RGtk2/man/gdk-Keyboard-Handling.Rd | 6
RGtk2-2.12.6/RGtk2/man/gdk-Pango-Interaction.Rd | 75
RGtk2-2.12.6/RGtk2/man/gdk-Points-Rectangles-and-Regions.Rd | 12
RGtk2-2.12.6/RGtk2/man/gdk-Windows.Rd | 16
RGtk2-2.12.6/RGtk2/man/gdk-pixbuf-Module-Interface.Rd | 12
RGtk2-2.12.6/RGtk2/man/gdk-pixbuf-animation.Rd | 4
RGtk2-2.12.6/RGtk2/man/gdk-pixbuf-gdk-pixbuf.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdk-pixbuf-scaling.Rd | 33
RGtk2-2.12.6/RGtk2/man/gdkColorAlloc.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkColorBlack.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkColorChange.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkColorParse.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkColorWhite.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkColormapAllocColor.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkColormapQueryColor.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkCursorNewForDisplay.Rd | 34
RGtk2-2.12.6/RGtk2/man/gdkCursorNewFromPixmap.Rd | 40
RGtk2-2.12.6/RGtk2/man/gdkDeviceGetAxis.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkDeviceGetHistory.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkDisplayPointerIsGrabbed.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkDisplaySupportsClipboardPersistence.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkDisplaySupportsComposite.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkDisplaySupportsInputShapes.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkDisplaySupportsShapes.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkDragDropSucceeded.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkDrawArc.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkDrawPolygon.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkDrawRectangle.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkDrawableCopyToImage.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkDropFinish.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkDropReply.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkEventGetAxis.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkEventGetCoords.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkEventGetRootCoords.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkEventGetState.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkEventsPending.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkGetShowEvents.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkKeySyms.Rd | 1349 +++++++++-
RGtk2-2.12.6/RGtk2/man/gdkKeymapGetDirection.Rd | 5
RGtk2-2.12.6/RGtk2/man/gdkKeymapGetEntriesForKeycode.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkKeymapGetEntriesForKeyval.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkKeymapHaveBidiLayouts.Rd | 5
RGtk2-2.12.6/RGtk2/man/gdkKeymapTranslateKeyboardState.Rd | 19
RGtk2-2.12.6/RGtk2/man/gdkPixbufAnimationIsStaticImage.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkPixbufAnimationIterAdvance.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkPixbufAnimationIterOnCurrentlyLoadingFrame.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkPixbufComposite.Rd | 6
RGtk2-2.12.6/RGtk2/man/gdkPixbufCopyArea.Rd | 3
RGtk2-2.12.6/RGtk2/man/gdkPixbufFlip.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkPixbufFormatSetDisabled.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkPixbufGetFromImage.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkPixbufGetHasAlpha.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkPixbufLoaderClose.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkPixbufLoaderWrite.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkPixbufNewFromFileAtScale.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkPixbufSave.Rd | 3
RGtk2-2.12.6/RGtk2/man/gdkPixbufScale.Rd | 6
RGtk2-2.12.6/RGtk2/man/gdkPixbufSetOption.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkPointerIsGrabbed.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkRectangleIntersect.Rd | 12
RGtk2-2.12.6/RGtk2/man/gdkRegionEmpty.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkRegionEqual.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkRegionPointIn.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkRegionRectIn.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkRegionSpansIntersectForeach.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkScreenGetSetting.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkSetShowEvents.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkSpawnCommandLineOnScreen.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkWindowGetGeometry.Rd | 3
RGtk2-2.12.6/RGtk2/man/gdkWindowInvalidateRegion.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkWindowIsViewable.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkWindowIsVisible.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkWindowSetAcceptFocus.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkWindowSetComposited.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkWindowSetDebugUpdates.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkWindowSetFocusOnMap.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkWindowSetModalHint.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkWindowSetOverrideRedirect.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkWindowSetSkipPagerHint.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkWindowSetSkipTaskbarHint.Rd | 2
RGtk2-2.12.6/RGtk2/man/gdkWindowSetStaticGravities.Rd | 4
RGtk2-2.12.6/RGtk2/man/gdkWindowSetUrgencyHint.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtk-Accelerator-Maps.Rd | 4
RGtk2-2.12.6/RGtk2/man/gtk-Clipboards.Rd | 5
RGtk2-2.12.6/RGtk2/man/gtk-GtkTreeView-drag-and-drop.Rd | 4
RGtk2-2.12.6/RGtk2/man/gtk-High-level-Printing-API.Rd | 57
RGtk2-2.12.6/RGtk2/man/gtk-Keyboard-Accelerators.Rd | 8
RGtk2-2.12.6/RGtk2/man/gtk-Resource-Files.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtk-Themeable-Stock-Images.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtk-gtkbuildable.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtk-gtkfilefilter.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkAboutDialogGetWrapLicense.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkAccelGroupDisconnect.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkAccelGroupDisconnectKey.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkAccelGroupsActivate.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkAccelMapChangeEntry.Rd | 4
RGtk2-2.12.6/RGtk2/man/gtkAccelMapLookupEntry.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkAcceleratorValid.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkActionGetSensitive.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkActionGetVisible.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkActionGroupGetSensitive.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkActionGroupGetVisible.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkActionIsSensitive.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkActionIsVisible.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkActionNew.Rd | 7
RGtk2-2.12.6/RGtk2/man/gtkActionSetSensitive.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkActionSetVisible.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkAssistantGetPageComplete.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkBoxGetHomogeneous.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkBoxPackEnd.Rd | 6
RGtk2-2.12.6/RGtk2/man/gtkBoxPackEndDefaults.Rd | 4
RGtk2-2.12.6/RGtk2/man/gtkBoxPackStart.Rd | 6
RGtk2-2.12.6/RGtk2/man/gtkBoxPackStartDefaults.Rd | 4
RGtk2-2.12.6/RGtk2/man/gtkBoxQueryChildPacking.Rd | 8
RGtk2-2.12.6/RGtk2/man/gtkBoxSetChildPacking.Rd | 8
RGtk2-2.12.6/RGtk2/man/gtkBoxSetHomogeneous.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkBoxSetSpacing.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkBuildableConstructChild.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkBuildableCustomTagEnd.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkBuildableCustomTagStart.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkBuilderGetTypeFromName.Rd | 3
RGtk2-2.12.6/RGtk2/man/gtkBuilderSetTranslationDomain.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkBuilderValueFromString.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkBuilderValueFromStringType.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkButtonGetFocusOnClick.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkButtonGetUseStock.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkButtonGetUseUnderline.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkButtonSetImage.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkButtonSetUseStock.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkButtonSetUseUnderline.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkCalendarMarkDay.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkCalendarSelectMonth.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkCalendarUnmarkDay.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkCellLayoutPackEnd.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkCellLayoutPackStart.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkCellRendererActivate.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkCellRendererStopEditing.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkCellRendererToggleGetActive.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkCellRendererToggleGetRadio.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkCellRendererToggleSetRadio.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkCellViewGetSizeOfRow.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkCheckMenuItemGetActive.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkCheckMenuItemGetInconsistent.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkCheckMenuItemSetInconsistent.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkClipboardSetWithData.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkClipboardSetWithOwner.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkClipboardWaitForTargets.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkClipboardWaitIsImageAvailable.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkClipboardWaitIsRichTextAvailable.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkClipboardWaitIsTargetAvailable.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkClipboardWaitIsTextAvailable.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkColorButtonGetUseAlpha.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkColorButtonSetUseAlpha.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkColorSelectionGetHasOpacityControl.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkColorSelectionGetHasPalette.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkColorSelectionIsAdjusting.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkColorSelectionPaletteFromString.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkColorSelectionSetHasOpacityControl.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkColorSelectionSetHasPalette.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkComboBoxGetActiveIter.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkComboBoxGetFocusOnClick.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkComboBoxSetAddTearoffs.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkContainerGetFocusChain.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkContainerPropagateExpose.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkContainerSetBorderWidth.Rd | 5
RGtk2-2.12.6/RGtk2/man/gtkDialogGetHasSeparator.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkDialogNewWithButtons.Rd | 16
RGtk2-2.12.6/RGtk2/man/gtkDialogRun.Rd | 12
RGtk2-2.12.6/RGtk2/man/gtkDialogSetAlternativeButtonOrder.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkDialogSetAlternativeButtonOrderFromArray.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkDialogSetHasSeparator.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkDialogSetResponseSensitive.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkDragCheckThreshold.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkDragDestGetTrackMotion.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkDrawArrow.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkDrawInsertionCursor.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkDrawPolygon.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkEditableGetEditable.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkEntryCompletionGetInlineCompletion.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkEntryCompletionGetInlineSelection.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkEntryCompletionGetPopupCompletion.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkEntryCompletionGetPopupSetWidth.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkEntryCompletionGetPopupSingleMatch.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkEntryCompletionSetInlineCompletion.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkEntryCompletionSetInlineSelection.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkEntryCompletionSetPopupCompletion.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkEntryCompletionSetPopupSetWidth.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkEntryCompletionSetPopupSingleMatch.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkEntryGetActivatesDefault.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkEntryGetInnerBorder.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkEntryGetVisibility.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkEntrySetActivatesDefault.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkEntrySetEditable.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkEntrySetVisibility.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkEventBoxGetAboveChild.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkEventBoxGetVisibleWindow.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkEventBoxSetAboveChild.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkEventBoxSetVisibleWindow.Rd | 3
RGtk2-2.12.6/RGtk2/man/gtkExpanderGetUseMarkup.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkExpanderGetUseUnderline.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkExpanderSetUseMarkup.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkExpanderSetUseUnderline.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkFileChooserAddShortcutFolder.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkFileChooserAddShortcutFolderUri.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkFileChooserButtonGetFocusOnClick.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkFileChooserButtonNewWithDialog.Rd | 16
RGtk2-2.12.6/RGtk2/man/gtkFileChooserGetDoOverwriteConfirmation.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkFileChooserGetLocalOnly.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkFileChooserGetPreviewWidgetActive.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkFileChooserGetSelectMultiple.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkFileChooserGetShowHidden.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkFileChooserGetUsePreviewLabel.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkFileChooserRemoveShortcutFolder.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkFileChooserRemoveShortcutFolderUri.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkFileChooserSelectFilename.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkFileChooserSelectUri.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkFileChooserSetCurrentFolder.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkFileChooserSetCurrentFolderUri.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkFileChooserSetFilename.Rd | 5
RGtk2-2.12.6/RGtk2/man/gtkFileChooserSetLocalOnly.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkFileChooserSetSelectMultiple.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkFileChooserSetShowHidden.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkFileChooserSetUri.Rd | 5
RGtk2-2.12.6/RGtk2/man/gtkFileFilterFilter.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkFileSelectionGetSelectMultiple.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkFixedGetHasWindow.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkFixedSetHasWindow.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkFontButtonSetShowSize.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkFontButtonSetShowStyle.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkFontSelectionSetFontName.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkIMContextDeleteSurrounding.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkIMContextFilterKeypress.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkIMContextGetSurrounding.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkIconInfoGetAttachPoints.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkIconInfoGetEmbeddedRect.Rd | 4
RGtk2-2.12.6/RGtk2/man/gtkIconSetAddSource.Rd | 3
RGtk2-2.12.6/RGtk2/man/gtkIconSizeLookup.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkIconSizeLookupForSettings.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkIconSourceGetDirectionWildcarded.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkIconSourceGetSizeWildcarded.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkIconSourceGetStateWildcarded.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkIconSourceSetDirectionWildcarded.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkIconSourceSetSizeWildcarded.Rd | 5
RGtk2-2.12.6/RGtk2/man/gtkIconSourceSetStateWildcarded.Rd | 5
RGtk2-2.12.6/RGtk2/man/gtkIconThemeAddBuiltinIcon.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkIconThemeChooseIcon.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkIconThemeHasIcon.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkIconThemeRescanIfNeeded.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkIconViewGetCursor.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkIconViewGetItemAtPos.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkIconViewGetReorderable.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkIconViewGetSelectedItems.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkIconViewGetTooltipColumn.Rd | 5
RGtk2-2.12.6/RGtk2/man/gtkIconViewGetTooltipContext.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkIconViewGetVisibleRange.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkIconViewPathIsSelected.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkIconViewSetCursor.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkIconViewSetReorderable.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkIconViewSetTooltipCell.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkIconViewSetTooltipColumn.Rd | 4
RGtk2-2.12.6/RGtk2/man/gtkIconViewSetTooltipItem.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkItemFactoryPopupData.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkItemFactoryPopupDataFromWidget.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkLabelGetEllipsize.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkLabelGetJustify.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkLabelGetLineWrap.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkLabelGetLineWrapMode.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkLabelGetSelectable.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkLabelGetSelectionBounds.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkLabelGetSingleLineMode.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkLabelGetUseMarkup.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkLabelGetUseUnderline.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkLabelSetAttributes.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkLabelSetLabel.Rd | 4
RGtk2-2.12.6/RGtk2/man/gtkLabelSetSelectable.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkLabelSetSingleLineMode.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkLabelSetUseMarkup.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkLabelSetUseUnderline.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkListSetSelectionMode.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkListStoreIterIsValid.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkListStoreRemove.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkMenuGetTearoffState.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkMenuItemGetRightJustified.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkMenuPopup.Rd | 9
RGtk2-2.12.6/RGtk2/man/gtkMenuShellGetTakeFocus.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkMenuShellSetTakeFocus.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkMessageDialogFormatSecondaryMarkup.Rd | 3
RGtk2-2.12.6/RGtk2/man/gtkMessageDialogNewWithMarkup.Rd | 7
RGtk2-2.12.6/RGtk2/man/gtkNotebookGetMenuLabelText.Rd | 8
RGtk2-2.12.6/RGtk2/man/gtkNotebookGetScrollable.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkNotebookGetShowBorder.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkNotebookGetShowTabs.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkNotebookGetTabLabelText.Rd | 4
RGtk2-2.12.6/RGtk2/man/gtkNotebookGetTabReorderable.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkNotebookSetHomogeneousTabs.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkNotebookSetScrollable.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkNotebookSetShowBorder.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkNotebookSetShowTabs.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkNotebookSetTabDetachable.Rd | 11
RGtk2-2.12.6/RGtk2/man/gtkPageSetupToFile.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkPaintArrow.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkPaintPolygon.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkPaperSizeIsEqual.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkPrintOperationCancel.Rd | 4
RGtk2-2.12.6/RGtk2/man/gtkPrintOperationGetError.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkPrintOperationIsFinished.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkPrintOperationPreviewIsSelected.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkPrintOperationPreviewRenderPage.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkPrintOperationRun.Rd | 18
RGtk2-2.12.6/RGtk2/man/gtkPrintOperationSetAllowAsync.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkPrintOperationSetDefaultPageSetup.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkPrintOperationSetNPages.Rd | 6
RGtk2-2.12.6/RGtk2/man/gtkPrintOperationSetPrintSettings.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkPrintOperationSetShowProgress.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkPrintOperationSetTrackPrintStatus.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkPrintOperationSetUseFullPage.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkPrintSettingsGetBool.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkPrintSettingsHasKey.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkPrintSettingsToFile.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkProgressBarGetEllipsize.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRadioActionGetGroup.Rd | 13
RGtk2-2.12.6/RGtk2/man/gtkRadioActionNew.Rd | 11
RGtk2-2.12.6/RGtk2/man/gtkRangeGetInverted.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRangeGetRestrictToFillLevel.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRangeGetShowFillLevel.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRangeSetInverted.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRangeSetValue.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRcGetStyleByPaths.Rd | 6
RGtk2-2.12.6/RGtk2/man/gtkRcParseColor.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRcParseColorFull.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRcPropertyParseBorder.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRcPropertyParseColor.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRcPropertyParseEnum.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRcPropertyParseFlags.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRcPropertyParseRequisition.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRcReparseAll.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRcReparseAllForSettings.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRecentActionGetShowNumbers.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRecentActionNew.Rd | 7
RGtk2-2.12.6/RGtk2/man/gtkRecentActionNewForManager.Rd | 10
RGtk2-2.12.6/RGtk2/man/gtkRecentActionSetShowNumbers.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRecentChooserGetLocalOnly.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRecentChooserGetSelectMultiple.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRecentChooserGetShowIcons.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRecentChooserGetShowNotFound.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRecentChooserGetShowPrivate.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRecentChooserGetShowTips.Rd | 5
RGtk2-2.12.6/RGtk2/man/gtkRecentChooserMenuGetShowNumbers.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRecentChooserSelectUri.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRecentChooserSetCurrentUri.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRecentChooserSetLocalOnly.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRecentChooserSetSelectMultiple.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRecentChooserSetShowPrivate.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRecentChooserSetShowTips.Rd | 5
RGtk2-2.12.6/RGtk2/man/gtkRecentFilterFilter.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRecentInfoExists.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRecentInfoGetApplicationInfo.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRecentInfoGetPrivateHint.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRecentInfoGetUriDisplay.Rd | 3
RGtk2-2.12.6/RGtk2/man/gtkRecentInfoHasApplication.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRecentInfoHasGroup.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRecentInfoIsLocal.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRecentInfoMatch.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRecentManagerAddFull.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRecentManagerAddItem.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRecentManagerHasItem.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRecentManagerMoveItem.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRecentManagerRemoveItem.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkRulerSetRange.Rd | 13
RGtk2-2.12.6/RGtk2/man/gtkScaleButtonSetIcons.Rd | 4
RGtk2-2.12.6/RGtk2/man/gtkScaleButtonSetValue.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkScaleGetLayout.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkScaleGetLayoutOffsets.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkSelectionClear.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkSelectionConvert.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkSelectionDataGetTargets.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkSelectionDataSetPixbuf.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkSelectionDataSetText.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkSelectionDataSetUris.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkSelectionDataTargetsIncludeImage.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkSelectionDataTargetsIncludeRichText.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkSelectionDataTargetsIncludeText.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkSelectionDataTargetsIncludeUri.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkSelectionOwnerSet.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkSeparatorToolItemGetDraw.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkSizeGroupGetIgnoreHidden.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkSpinButtonGetNumeric.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkSpinButtonGetSnapToTicks.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkSpinButtonGetWrap.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkStatusIconGetBlinking.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkStatusIconGetGeometry.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkStatusIconGetVisible.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkStatusIconIsEmbedded.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkStatusIconSetBlinking.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkStatusIconSetVisible.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkStatusbarGetHasResizeGrip.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkStatusbarSetHasResizeGrip.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkStockLookup.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkStyleLookupColor.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTableGetDefaultColSpacing.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTableGetDefaultRowSpacing.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTableGetHomogeneous.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTargetListFind.Rd | 5
RGtk2-2.12.6/RGtk2/man/gtkTargetsIncludeImage.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTargetsIncludeRichText.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTargetsIncludeText.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTargetsIncludeUri.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextBufferBackspace.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextBufferCreateTag.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextBufferDeserialize.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextBufferGetHasSelection.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextBufferGetModified.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextBufferRegisterDeserializeFormat.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextBufferRegisterSerializeFormat.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextChildAnchorGetDeleted.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterBackwardCursorPosition.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterBackwardCursorPositions.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterBackwardSentenceStart.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterBackwardSentenceStarts.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterBackwardVisibleCursorPosition.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterBackwardVisibleCursorPositions.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterBackwardVisibleWordStart.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterBackwardVisibleWordStarts.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterBackwardWordStart.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterBackwardWordStarts.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterCanInsert.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterEditable.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterEndsSentence.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterEndsWord.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterEqual.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterForwardCursorPosition.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterForwardCursorPositions.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterForwardLine.Rd | 8
RGtk2-2.12.6/RGtk2/man/gtkTextIterForwardSentenceEnd.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterForwardSentenceEnds.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterForwardToLineEnd.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterForwardVisibleCursorPosition.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterForwardVisibleCursorPositions.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterForwardVisibleWordEnd.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterForwardVisibleWordEnds.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterForwardWordEnd.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterForwardWordEnds.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterGetAttributes.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterGetToggledTags.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterInRange.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterInsideSentence.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterInsideWord.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterIsCursorPosition.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterStartsSentence.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextIterStartsWord.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextMarkGetLeftGravity.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextMarkGetVisible.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextViewBackwardDisplayLine.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextViewBackwardDisplayLineStart.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextViewForwardDisplayLine.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextViewForwardDisplayLineEnd.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextViewGetAcceptsTab.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextViewMoveMarkOnscreen.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextViewMoveVisually.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextViewPlaceCursorOnscreen.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextViewScrollToIter.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextViewSetAcceptsTab.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextViewSetOverwrite.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTextViewStartsDisplayLine.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkToggleActionNew.Rd | 7
RGtk2-2.12.6/RGtk2/man/gtkToggleButtonGetInconsistent.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkToggleButtonGetMode.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkToggleButtonSetInconsistent.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkToggleToolButtonGetActive.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkToolButtonGetUseUnderline.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkToolItemGetExpand.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkToolItemGetHomogeneous.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkToolItemGetIsImportant.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkToolItemGetReliefStyle.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkToolItemGetUseDragWindow.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkToolItemGetVisibleHorizontal.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkToolbarAppendElement.Rd | 3
RGtk2-2.12.6/RGtk2/man/gtkToolbarGetShowArrow.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkToolbarGetTooltips.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkToolbarInsertElement.Rd | 3
RGtk2-2.12.6/RGtk2/man/gtkToolbarPrependElement.Rd | 3
RGtk2-2.12.6/RGtk2/man/gtkTooltipSetCustom.Rd |only
RGtk2-2.12.6/RGtk2/man/gtkTooltipSetIcon.Rd |only
RGtk2-2.12.6/RGtk2/man/gtkTooltipSetIconFromStock.Rd |only
RGtk2-2.12.6/RGtk2/man/gtkTooltipSetMarkup.Rd |only
RGtk2-2.12.6/RGtk2/man/gtkTooltipSetText.Rd |only
RGtk2-2.12.6/RGtk2/man/gtkTooltipSetTipArea.Rd |only
RGtk2-2.12.6/RGtk2/man/gtkTooltipsGetInfoFromTipWindow.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeDragDestRowDropPossible.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeDragSourceDragDataDelete.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeDragSourceDragDataGet.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeDragSourceRowDraggable.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeGetRowDragData.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeModelFilterConvertChildIterToIter.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeModelGetIter.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeModelGetIterFirst.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeModelGetIterFromString.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeModelIterChildren.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeModelIterHasChild.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeModelIterNext.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeModelIterNthChild.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeModelIterParent.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeModelSortIterIsValid.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreePathIsAncestor.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreePathIsDescendant.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreePathPrev.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreePathUp.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeRowReferenceValid.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeSelectionIterIsSelected.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeSelectionPathIsSelected.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeSetRowDragData.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeSortableGetSortColumnId.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeSortableHasDefaultSortFunc.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeStoreIsAncestor.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeStoreIterIsValid.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeStoreRemove.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewCollapseRow.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewColumnCellGetPosition.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewColumnCellIsVisible.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewColumnCellSetCellData.Rd | 4
RGtk2-2.12.6/RGtk2/man/gtkTreeViewColumnGetClickable.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewColumnGetExpand.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewColumnGetReorderable.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewColumnGetResizable.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewColumnNewWithAttributes.Rd | 3
RGtk2-2.12.6/RGtk2/man/gtkTreeViewColumnPackEnd.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewColumnPackStart.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewColumnSetClickable.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewColumnSetExpand.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewColumnSetReorderable.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewColumnSetResizable.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewColumnSetSortIndicator.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewColumnSetVisible.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewExpandRow.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewGetEnableTreeLines.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewGetFixedHeightMode.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewGetHeadersClickable.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewGetHoverExpand.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewGetHoverSelection.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewGetPathAtPos.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewGetReorderable.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewGetRubberBanding.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewGetRulesHint.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewGetShowExpanders.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewGetTooltipColumn.Rd | 5
RGtk2-2.12.6/RGtk2/man/gtkTreeViewGetTooltipContext.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewGetVisibleRange.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewIsRubberBandingActive.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewRowExpanded.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewSetCursor.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewSetCursorOnCell.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewSetEnableSearch.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewSetEnableTreeLines.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewSetExpanderColumn.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewSetFixedHeightMode.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewSetHeadersClickable.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewSetHeadersVisible.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewSetHoverExpand.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewSetHoverSelection.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewSetReorderable.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewSetRubberBanding.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewSetRulesHint.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewSetShowExpanders.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkTreeViewSetTooltipCell.Rd | 11
RGtk2-2.12.6/RGtk2/man/gtkTreeViewSetTooltipColumn.Rd | 4
RGtk2-2.12.6/RGtk2/man/gtkTreeViewSetTooltipRow.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkVolumeButtonNew.Rd | 4
RGtk2-2.12.6/RGtk2/man/gtkWidgetActivate.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWidgetCanActivateAccel.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWidgetChildFocus.Rd | 4
RGtk2-2.12.6/RGtk2/man/gtkWidgetCreatePangoLayout.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWidgetErrorBell.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWidgetGetChildRequisition.Rd | 5
RGtk2-2.12.6/RGtk2/man/gtkWidgetGetChildVisible.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWidgetGetPangoContext.Rd | 4
RGtk2-2.12.6/RGtk2/man/gtkWidgetHasScreen.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWidgetHideOnDelete.Rd | 4
RGtk2-2.12.6/RGtk2/man/gtkWidgetIntersect.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWidgetIsAncestor.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWidgetIsComposited.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWidgetIsFocus.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWidgetKeynavFailed.Rd | 6
RGtk2-2.12.6/RGtk2/man/gtkWidgetModifyCursor.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWidgetSetAppPaintable.Rd | 4
RGtk2-2.12.6/RGtk2/man/gtkWidgetSetDoubleBuffered.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWidgetSetNoShowAll.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWidgetSetScrollAdjustments.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWidgetSetSensitive.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWidgetSetTooltipMarkup.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWidgetSetTooltipText.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWidgetTranslateCoordinates.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWindowActivateDefault.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWindowActivateFocus.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWindowActivateKey.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWindowGetAcceptFocus.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWindowGetDecorated.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWindowGetDeletable.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWindowGetDestroyWithParent.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWindowGetFocusOnMap.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWindowGetHasFrame.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWindowGetModal.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWindowGetPosition.Rd | 3
RGtk2-2.12.6/RGtk2/man/gtkWindowGetResizable.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWindowGetSkipPagerHint.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWindowGetSkipTaskbarHint.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWindowGetUrgencyHint.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWindowHasToplevelFocus.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWindowIsActive.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWindowMnemonicActivate.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWindowPropagateKeyEvent.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWindowSetAcceptFocus.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWindowSetAutoStartupNotification.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWindowSetDecorated.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWindowSetDefaultIconFromFile.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWindowSetDeletable.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWindowSetFocusOnMap.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWindowSetIconFromFile.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWindowSetResizable.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWindowSetSkipPagerHint.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWindowSetSkipTaskbarHint.Rd | 2
RGtk2-2.12.6/RGtk2/man/gtkWindowSetTypeHint.Rd | 3
RGtk2-2.12.6/RGtk2/man/gtkWindowSetUrgencyHint.Rd | 2
RGtk2-2.12.6/RGtk2/man/pango-Cairo-Rendering.Rd | 127
RGtk2-2.12.6/RGtk2/man/pango-Fonts.Rd | 13
RGtk2-2.12.6/RGtk2/man/pango-Glyph-Storage.Rd | 5
RGtk2-2.12.6/RGtk2/man/pango-Layout-Objects.Rd | 7
RGtk2-2.12.6/RGtk2/man/pango-Scripts.Rd | 4
RGtk2-2.12.6/RGtk2/man/pango-Text-Attributes.Rd | 7
RGtk2-2.12.6/RGtk2/man/pango-Text-Processing.Rd | 3
RGtk2-2.12.6/RGtk2/man/pango-Vertical-Text.Rd | 43
RGtk2-2.12.6/RGtk2/man/pangoAttrFallbackNew.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoAttrIteratorNext.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoAttrListCopy.Rd | 5
RGtk2-2.12.6/RGtk2/man/pangoAttrStrikethroughNew.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoAttributeEqual.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoAttributeInit.Rd |only
RGtk2-2.12.6/RGtk2/man/pangoBreak.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoCairoContextGetFontOptions.Rd | 1
RGtk2-2.12.6/RGtk2/man/pangoCairoContextGetShapeRenderer.Rd |only
RGtk2-2.12.6/RGtk2/man/pangoCairoContextSetFontOptions.Rd | 1
RGtk2-2.12.6/RGtk2/man/pangoCairoContextSetShapeRenderer.Rd |only
RGtk2-2.12.6/RGtk2/man/pangoCairoFontGetScaledFont.Rd |only
RGtk2-2.12.6/RGtk2/man/pangoCairoFontMapGetDefault.Rd | 9
RGtk2-2.12.6/RGtk2/man/pangoCairoFontMapGetFontType.Rd |only
RGtk2-2.12.6/RGtk2/man/pangoCairoFontMapNewForFontType.Rd |only
RGtk2-2.12.6/RGtk2/man/pangoCairoGlyphStringPath.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoCairoShowGlyphString.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoColorCopy.Rd | 5
RGtk2-2.12.6/RGtk2/man/pangoColorFree.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoColorParse.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoContextLoadFont.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoContextLoadFontset.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoExtentsToPixels.Rd | 21
RGtk2-2.12.6/RGtk2/man/pangoFontDescriptionBetterMatch.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoFontDescriptionCopy.Rd | 5
RGtk2-2.12.6/RGtk2/man/pangoFontDescriptionCopyStatic.Rd | 5
RGtk2-2.12.6/RGtk2/man/pangoFontDescriptionEqual.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoFontDescriptionGetSizeIsAbsolute.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoFontDescriptionSetAbsoluteSize.Rd | 3
RGtk2-2.12.6/RGtk2/man/pangoFontFaceIsSynthesized.Rd |only
RGtk2-2.12.6/RGtk2/man/pangoFontFamilyIsMonospace.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoFontGetFontMap.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoFontGetGlyphExtents.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoFontGetMetrics.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoFontMapLoadFont.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoFontMapLoadFontset.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoGetMirrorChar.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoGlyphStringCopy.Rd | 5
RGtk2-2.12.6/RGtk2/man/pangoGlyphStringIndexToX.Rd | 4
RGtk2-2.12.6/RGtk2/man/pangoGlyphStringXToIndex.Rd | 6
RGtk2-2.12.6/RGtk2/man/pangoGravityGetForScript.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoGravityToRotation.Rd | 8
RGtk2-2.12.6/RGtk2/man/pangoItemCopy.Rd | 5
RGtk2-2.12.6/RGtk2/man/pangoLanguageIncludesScript.Rd | 9
RGtk2-2.12.6/RGtk2/man/pangoLanguageMatches.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoLayoutGetAutoDir.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoLayoutGetHeight.Rd |only
RGtk2-2.12.6/RGtk2/man/pangoLayoutGetIndent.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoLayoutGetLineCount.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoLayoutGetPixelExtents.Rd | 4
RGtk2-2.12.6/RGtk2/man/pangoLayoutGetSingleParagraphMode.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoLayoutGetSpacing.Rd | 5
RGtk2-2.12.6/RGtk2/man/pangoLayoutGetUnknownGlyphsCount.Rd | 7
RGtk2-2.12.6/RGtk2/man/pangoLayoutGetWidth.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoLayoutIsEllipsized.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoLayoutIsWrapped.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoLayoutIterAtLastLine.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoLayoutIterGetLayout.Rd |only
RGtk2-2.12.6/RGtk2/man/pangoLayoutLineGetPixelExtents.Rd | 4
RGtk2-2.12.6/RGtk2/man/pangoLayoutLineGetXRanges.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoLayoutLineIndexToX.Rd | 6
RGtk2-2.12.6/RGtk2/man/pangoLayoutLineXToIndex.Rd | 8
RGtk2-2.12.6/RGtk2/man/pangoLayoutSetAttributes.Rd | 5
RGtk2-2.12.6/RGtk2/man/pangoLayoutSetEllipsize.Rd | 11
RGtk2-2.12.6/RGtk2/man/pangoLayoutSetHeight.Rd |only
RGtk2-2.12.6/RGtk2/man/pangoLayoutSetIndent.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoLayoutSetJustify.Rd | 3
RGtk2-2.12.6/RGtk2/man/pangoLayoutSetSpacing.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoLayoutSetText.Rd | 5
RGtk2-2.12.6/RGtk2/man/pangoLayoutSetWidth.Rd | 5
RGtk2-2.12.6/RGtk2/man/pangoLayoutSetWrap.Rd | 4
RGtk2-2.12.6/RGtk2/man/pangoLayoutXyToIndex.Rd | 6
RGtk2-2.12.6/RGtk2/man/pangoMatrixCopy.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoMatrixTransformDistance.Rd | 3
RGtk2-2.12.6/RGtk2/man/pangoMatrixTransformPixelRectangle.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoMatrixTransformRectangle.Rd | 5
RGtk2-2.12.6/RGtk2/man/pangoParseMarkup.Rd | 7
RGtk2-2.12.6/RGtk2/man/pangoRendererGetLayout.Rd |only
RGtk2-2.12.6/RGtk2/man/pangoRendererGetLayoutLine.Rd |only
RGtk2-2.12.6/RGtk2/man/pangoRendererPartChanged.Rd | 4
RGtk2-2.12.6/RGtk2/man/pangoReorderItems.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoScriptForUnichar.Rd | 5
RGtk2-2.12.6/RGtk2/man/pangoScriptGetSampleLanguage.Rd | 17
RGtk2-2.12.6/RGtk2/man/pangoScriptIterNext.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoShape.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoTabArrayCopy.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoVersion.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoVersionCheck.Rd | 2
RGtk2-2.12.6/RGtk2/man/pangoVersionString.Rd | 2
RGtk2-2.12.6/RGtk2/src/RGtk2/cairo-enums.h | 4
RGtk2-2.12.6/RGtk2/src/RGtk2/gobjectImports.c | 10
RGtk2-2.12.6/RGtk2/src/RGtk2/pangoUserFuncImports.c | 10
RGtk2-2.12.6/RGtk2/src/RGtk2/pangoUserFuncs.h | 5
RGtk2-2.12.6/RGtk2/src/Rgtk.c | 55
RGtk2-2.12.6/RGtk2/src/cairo-enums.c | 379 ++
RGtk2-2.12.6/RGtk2/src/cairoFuncs.c | 206 +
RGtk2-2.12.6/RGtk2/src/cairoFuncs.h | 30
RGtk2-2.12.6/RGtk2/src/exports/pangoUserFuncExports.c | 3
RGtk2-2.12.6/RGtk2/src/gtkFuncs.c | 66
RGtk2-2.12.6/RGtk2/src/gtkManuals.c | 61
RGtk2-2.12.6/RGtk2/src/pangoFuncs.c | 251 +
RGtk2-2.12.6/RGtk2/src/pangoFuncs.h | 38
RGtk2-2.12.6/RGtk2/src/pangoUserFuncs.c | 38
1167 files changed, 6453 insertions(+), 3454 deletions(-)
Author: Holger Froehlich
Diff between GOSim versions 1.1.4.1 dated 2008-07-08 and 1.1.4.2 dated 2008-08-14
Title: Computation of functional similarities between GO terms and gene products; GO enrichement analysis
Description: This package implements several functions useful for
computing similarities between GO terms and gene products based on their GO annotation. Moreover it allows for computing a GO enrichment analysis
DESCRIPTION | 6
R/termSimilarity.R | 8
data/ICsBPflyall.rda |binary
data/ICsBPhumanall.rda |binary
data/ICsBPmalariaall.rda |binary
data/ICsBPratall.rda |binary
data/ICsBPyeastall.rda |binary
data/ICsCCflyall.rda |binary
data/ICsCChumanall.rda |binary
data/ICsCCmalariaall.rda |binary
data/ICsCCmouseall.rda |binary
data/ICsCCratall.rda |binary
data/ICsCCyeastall.rda |binary
data/ICsMFflyall.rda |binary
data/ICsMFhumanall.rda |binary
data/ICsMFmalariaall.rda |binary
data/ICsMFmouseall.rda |binary
data/ICsMFratall.rda |binary
data/ICsMFyeastall.rda |binary
inst/doc/GOSim.log | 10
inst/doc/GOSim.pdf | 1106 +++++++++++++++++++++++------------------------
inst/doc/GOSim.tex | 71 +--
22 files changed, 607 insertions(+), 594 deletions(-)
Author: Hai Liu
Diff between COZIGAM versions 1.0-2 dated 2008-06-25 and 1.0-3 dated 2008-08-14
Title: Constrained Zero-Inflated Generalized Additive Model
Description: COnstrained Zero-Inflated Generalized Additive Model (COZIGAM) fitting with associated model plotting and prediction
DESCRIPTION | 6 +++---
data |only
man/COZIGAM.cts.rd | 3 +--
man/COZIGAM.dis.rd |only
man/alaska.rd |only
man/eggdata.rd |only
6 files changed, 4 insertions(+), 5 deletions(-)
Author: lp_solve
Diff between lpSolveAPI versions 5.5.0.12-3 dated 2008-06-16 and 5.5.0.13 dated 2008-08-13
Title: Interface to lp_solve 5.5.0.13
Description: The lpSolveAPI package provides an R interface to the lp_solve
library API - lp_solve is a Mixed Integer Linear Programming (MILP) solver
with support for pure linear, (mixed) integer/binary, semi-continuous
and special ordered sets (SOS) models.
lpSolveAPI-5.5.0.12-3/lpSolveAPI/Deprecated |only
lpSolveAPI-5.5.0.12-3/lpSolveAPI/build |only
lpSolveAPI-5.5.0.12-3/lpSolveAPI/inst/include/fortify.h |only
lpSolveAPI-5.5.0.12-3/lpSolveAPI/lpSolveAPI.xcodeproj/konis.mode1v3 |only
lpSolveAPI-5.5.0.12-3/lpSolveAPI/lpSolveAPI.xcodeproj/konis.pbxuser |only
lpSolveAPI-5.5.0.12-3/lpSolveAPI/src/fortify.c |only
lpSolveAPI-5.5.0.13/lpSolveAPI/DESCRIPTION | 10
lpSolveAPI-5.5.0.13/lpSolveAPI/R/plot.lpExtPtr.q |only
lpSolveAPI-5.5.0.13/lpSolveAPI/inst/doc |only
lpSolveAPI-5.5.0.13/lpSolveAPI/inst/include/lp_lib.h | 4
lpSolveAPI-5.5.0.13/lpSolveAPI/inst/include/lp_rlp.h | 2046 +++---
lpSolveAPI-5.5.0.13/lpSolveAPI/inst/include/yacc_read.h | 71
lpSolveAPI-5.5.0.13/lpSolveAPI/lpSolveAPI.xcodeproj/project.pbxproj | 234
lpSolveAPI-5.5.0.13/lpSolveAPI/man/plot.lpExtPtr.Rd |only
lpSolveAPI-5.5.0.13/lpSolveAPI/src/Makevars | 10
lpSolveAPI-5.5.0.13/lpSolveAPI/src/Makevars.win | 10
lpSolveAPI-5.5.0.13/lpSolveAPI/src/lp_MPS.c | 96
lpSolveAPI-5.5.0.13/lpSolveAPI/src/lp_lib.c | 63
lpSolveAPI-5.5.0.13/lpSolveAPI/src/lp_presolve.c | 19
lpSolveAPI-5.5.0.13/lpSolveAPI/src/lp_rlp.c | 3212 ++++++----
lpSolveAPI-5.5.0.13/lpSolveAPI/src/lp_utils.c | 4
lpSolveAPI-5.5.0.13/lpSolveAPI/src/lusol.c | 2
lpSolveAPI-5.5.0.13/lpSolveAPI/src/myblas.c | 28
lpSolveAPI-5.5.0.13/lpSolveAPI/src/yacc_read.c | 792 +-
lpSolveAPI-5.5.0.13/lpSolveAPI/website/Rpackage.html | 47
25 files changed, 4048 insertions(+), 2600 deletions(-)
Author: Arnaud Estoup, Gilles Guillot, Filipe Santos
Title: Simulation and MCMC inference for subdivided populations
Description: Detection of structure from multilocus genetic data.
Diff between Geneland versions 2.0.12 dated 2008-01-19 and 3.0.0 dated 2008-08-13
Geneland-2.0.12/Geneland/R/mcmcFmodel.R |only Geneland-2.0.12/Geneland/man/mcmcFmodel.Rd |only Geneland-2.0.12/Geneland/src/algama.f |only Geneland-2.0.12/Geneland/src/postprocesschain.f |only Geneland-2.0.12/Geneland/src/randlib-1.3.f |only Geneland-3.0.0/Geneland/ChangeLog | 99 Geneland-3.0.0/Geneland/DESCRIPTION | 12 Geneland-3.0.0/Geneland/R/EstimateFreqNA.R |only Geneland-3.0.0/Geneland/R/FormatGenotypes.R | 1 Geneland-3.0.0/Geneland/R/Fstat.R | 24 Geneland-3.0.0/Geneland/R/Fstat.output.R | 83 Geneland-3.0.0/Geneland/R/Geneland.GUI.R | 611 + Geneland-3.0.0/Geneland/R/MCMC.R |only Geneland-3.0.0/Geneland/R/PlanarProj.R |only Geneland-3.0.0/Geneland/R/PlotDrift.R | 4 Geneland-3.0.0/Geneland/R/Plotnpop.R | 44 Geneland-3.0.0/Geneland/R/PostProcessChain.R | 76 Geneland-3.0.0/Geneland/R/PostProcessMultChain.R |only Geneland-3.0.0/Geneland/R/PosteriorMode.R | 35 Geneland-3.0.0/Geneland/R/gl2gp.R | 38 Geneland-3.0.0/Geneland/R/show.simdata.R | 16 Geneland-3.0.0/Geneland/R/simFmodel.R | 37 Geneland-3.0.0/Geneland/R/simdata.R | 3 Geneland-3.0.0/Geneland/R/zzz.R | 30 Geneland-3.0.0/Geneland/data |only Geneland-3.0.0/Geneland/inst/doc |only Geneland-3.0.0/Geneland/man/EstimateFreqNA.Rd |only Geneland-3.0.0/Geneland/man/FormatGenotypes.Rd | 2 Geneland-3.0.0/Geneland/man/Fstat.Rd | 23 Geneland-3.0.0/Geneland/man/Fstat.output.Rd | 10 Geneland-3.0.0/Geneland/man/Geneland-package.Rd | 55 Geneland-3.0.0/Geneland/man/MCMC.Rd |only Geneland-3.0.0/Geneland/man/PlanarProj.Rd |only Geneland-3.0.0/Geneland/man/PlotFreq.Rd | 2 Geneland-3.0.0/Geneland/man/Plotnpop.Rd | 4 Geneland-3.0.0/Geneland/man/PostProcessChain.Rd | 2 Geneland-3.0.0/Geneland/man/PostProcessMultChain.Rd |only Geneland-3.0.0/Geneland/man/PosteriorMode.Rd | 3 Geneland-3.0.0/Geneland/man/coordinates.Rd |only Geneland-3.0.0/Geneland/man/genotypes.Rd |only Geneland-3.0.0/Geneland/man/simFmodel.Rd | 13 Geneland-3.0.0/Geneland/man/simdata.Rd | 8 Geneland-3.0.0/Geneland/src/alarousset.f | 34 Geneland-3.0.0/Geneland/src/ggfstat.f | 249 Geneland-3.0.0/Geneland/src/main.f | 7636 ++++++++++---------- Geneland-3.0.0/Geneland/src/wrapper.c |only 46 files changed, 5008 insertions(+), 4146 deletions(-)
Author: Christine Porzelius, Harald Binder
Title: Parallelised Estimation of Prediction Error
Description: Package peperr is designed for prediction error estimation through resampling techniques, possibly accelerated by parallel execution on a compute cluster. Newly developed model fitting routines can be easily incorporated.
Diff between peperr versions 1.0-1 dated 2008-07-29 and 1.0-2 dated 2008-08-13
DESCRIPTION | 4 - NAMESPACE | 3 R/PLL.coxph.R |only R/aggregation.brier.R | 1 R/aggregation.pmpec.R | 8 +- R/complexity.ipec.CoxBoost.R | 2 R/peperr.R | 135 +++++++++++++++++++++---------------------- R/plot.peperr.R | 11 ++- R/pmpec.R | 6 - R/print.peperr.R | 2 changeLog.backup |only man/PLL.CoxBoost.Rd | 4 - man/PLL.coxph.Rd |only man/fit.coxph.Rd | 2 man/peperr.Rd | 6 - 15 files changed, 97 insertions(+), 87 deletions(-)
Author: Tristen Hayfield
Diff between np versions 0.20-0 dated 2008-07-28 and 0.20-1 dated 2008-08-13
Title: Nonparametric kernel smoothing methods for mixed data types
Description: This package provides a variety of nonparametric (and semiparametric) kernel methods that seamlessly handle a mix of continuous, unordered, and ordered factor data types. We would like to gratefully acknowledge support from the Natural Sciences and Engineering Research Council of Canada (NSERC:www.nserc.ca), the Social Sciences and Humanities Research Council of Canada (SSHRC:www.sshrc.ca), and the Shared Hierarchical Academic Research Computing Network (SHARCNET:www.sharcnet.ca).
CHANGELOG | 17
DESCRIPTION | 6
R/zzz.R | 2
inst/doc/np.pdf | 1561 ++++++++++++++++-----------------
inst/doc/np_faq.pdf | 2403 +++++++++++++++++++++++++++-------------------------
src/jksum.c | 31
src/kernele.c | 52 -
7 files changed, 2089 insertions(+), 1983 deletions(-)
Author: Ulrike Groemping
Title: Inequality constrained inference in linear normal situations
Description: This package implements parameter estimation in normal (linear) models under linear equality and inequality constraints and implements normal likelihood ratio tests involving inequality-constrained hypotheses. For inequality-constrained linear models, averaging over R-squared for different orderings of regressors is also included.
Diff between ic.infer versions 0.8-3 dated 2008-08-02 and 1.0-3 dated 2008-08-13
DESCRIPTION | 7 ++- NAMESPACE | 3 + R/all.R2.R | 61 +++++++++++++++------------------ R/ic.test.R | 8 ++-- R/ic.weights.R | 68 ++++++++++++++++++++++++++++--------- R/or.relimp.R | 22 +----------- R/or.relimp.default.R |only R/or.relimp.lm.R |only R/orlm.R | 87 +----------------------------------------------- R/orlm.default.R |only R/orlm.forboot.R | 13 +++---- R/orlm.lm.R |only inst/doc/News.pdf |binary man/ic.infer-package.rd |only man/ic.weights.rd | 5 ++ man/or.relimp.rd | 32 +++++++++++++---- man/orlm.rd | 28 ++++++++++++--- 17 files changed, 153 insertions(+), 181 deletions(-)
Author: Roger D. Peng
Diff between tsModel versions 0.5 dated 2008-08-12 and 0.5-1 dated 2008-08-12
Title: Time Series Modeling for Air Pollution and Health
Description: Tools for specifying time series regression models
DESCRIPTION | 8 ++++----
R/useRbook.R | 4 ++--
2 files changed, 6 insertions(+), 6 deletions(-)
Author: David Meyer and Kurt Hornik (with contributions by Christian Buchta)
Title: Sets, Generalized Sets, and Customizable Sets.
Description: Data structures and basic operations for ordinary sets,
generalizations such as fuzzy sets, multisets, and
fuzzy multisets, and customizable sets.
Diff between sets versions 0.3-1 dated 2008-08-11 and 0.3-2 dated 2008-08-12
DESCRIPTION | 6 +++--- R/cset.R | 6 +++--- R/tuple.R | 6 +++--- R/utilities.R | 11 +++++------ inst/doc/set.pdf |binary man/closure.Rd | 2 +- man/cset.Rd | 24 ++++++++++++------------ man/gset.Rd | 9 +++++---- man/labels.Rd | 3 ++- man/options.Rd | 11 ++++++----- man/set.Rd | 12 ++++++++---- man/tuple.Rd | 5 +++-- src/qsort-Vbody.h | 6 +++--- 13 files changed, 54 insertions(+), 47 deletions(-)
Author: Ulrike Groemping, with contributions from Matthias Lehrkamp
Title: Relative importance of regressors in linear models
Description: relaimpo provides several metrics for assessing relative importance in linear models. These can be printed, plotted and bootstrapped. The recommended metric is lmg, which provides a decomposition of the model explained variance into non-negative contributions. There is a version of this package available that additionally provides a new and also recommended metric called pmvd. If you are a non-US user, you can download this extended version from Ulrike Groempings web site.
Diff between relaimpo versions 2.0-2 dated 2008-04-04 and 2.1 dated 2008-08-12
DESCRIPTION | 6 +++--- R/calc.relimp.default.intern.R | 17 ++++++++++++++++- R/classes.R | 2 +- R/list2vecc.R |only R/print.relimplm.R | 8 +++++++- R/varicalc.R | 35 ++++++++++++++++------------------- inst/doc/News.pdf |binary man/calc.relimp.Rd | 9 ++++++++- man/classesmethods.relaimpo.Rd | 18 ++++++++++++++++-- man/relimplm-class.Rd | 5 ++++- 10 files changed, 71 insertions(+), 29 deletions(-)
Author: Fabian Scheipl
Title: Exact (Restricted) Likelihood Ratio tests for mixed and additive models.
Description: Rapid, simulation-based exact (restricted) likelihood ratio tests for testing the presence of variance components/nonparametric terms for models fit with nlme::lme(),lme4::lmer(), mgcv::gamm() and SemiPar:spm()
Diff between RLRsim versions 2.0-1 dated 2008-08-07 and 2.0-2 dated 2008-08-12
DESCRIPTION | 6 +++--- R/extract.lmerDesign.R | 2 +- 2 files changed, 4 insertions(+), 4 deletions(-)
Author: PBAT: Christoph Lange, pbatR: Thomas Hoffmann
Title: P2BAT
Description: This package provides data analysis via the pbat program, and an alternative internal implementation of the power calculations via simulation only. For analysis, this package provides a frontend to the PBAT software, automatically reading in the output from the pbat program and displaying the corresponding figure when appropriate (i.e. PBAT-logrank). It includes support for multiple processes and clusters. For analysis, users must download PBAT and accept it's license, available on the PBAT webpage. Both the data analysis and power calculations have command line and graphical interfaces using tcltk.
Diff between pbatR versions 2.1.1 dated 2008-05-09 and 2.1.2 dated 2008-08-12
DESCRIPTION | 8 ++++---- R/pbat.R | 7 ++++++- R/strings.R | 24 ++++++++++++++++-------- man/pbat.Rd | 10 +++++++++- 4 files changed, 35 insertions(+), 14 deletions(-)
Author: John Verzani
Title: Toolkit implementation of gWidgets for tcltk package
Description: Port of gWidgets API to the tcltk package. Requires TK 8.5 or greater for the tile (ttk)widgets http://www.tcl.tk/software/tcltk/8.5.tml. This is default on Windows. Under linux, it must be installed. Under Mac OS X (10.5) it must be upgraded. See www.tcl.tk to download source. Under the Mac it compiles and installs cleanly.
Diff between gWidgetstcltk versions 0.0-14 dated 2008-08-08 and 0.0-15 dated 2008-08-11
DESCRIPTION | 4 ++-- NEWS | 6 ++++++ R/gfile.R | 10 +++++----- R/gtree.R | 37 ++++++++++++++++++++----------------- 4 files changed, 33 insertions(+), 24 deletions(-)
Author: David Meyer and Kurt Hornik (with contributions by Christian Buchta)
Title: Sets, Generalized Sets, and Customizable Sets.
Description: Data structures and basic operations for ordinary sets,
generalizations such as fuzzy sets, multisets, and
fuzzy multisets, and customizable sets.
Diff between sets versions 0.3 dated 2008-08-11 and 0.3-1 dated 2008-08-11
DESCRIPTION | 4 ++-- R/converters.R | 23 +++++++++++++++++------ R/cset.R | 2 +- inst/doc/set.Rnw | 5 +++++ inst/doc/set.pdf |binary man/cset.Rd | 4 ++++ 6 files changed, 29 insertions(+), 9 deletions(-)
Author: Kurt Hornik and David Meyer
Title: Data Structures and Algorithms for Relations
Description: Data structures and algorithms for k-ary relations with
arbitrary domains, featuring relational algebra, predicate functions,
and fitters for consensus relations.
Diff between relations versions 0.3-3 dated 2008-04-23 and 0.4-0 dated 2008-08-11
relations-0.3-3/relations/man/reflexfuns.Rd |only relations-0.3-3/relations/man/transfuns.Rd |only relations-0.4-0/relations/DESCRIPTION | 13 relations-0.4-0/relations/NAMESPACE | 38 - relations-0.4-0/relations/NEWS | 37 + relations-0.4-0/relations/R/algebra.R | 53 + relations-0.4-0/relations/R/charfun.R | 25 relations-0.4-0/relations/R/choice.R | 33 relations-0.4-0/relations/R/consensus.R | 102 ++- relations-0.4-0/relations/R/dissimilarity.R | 8 relations-0.4-0/relations/R/domain.R | 6 relations-0.4-0/relations/R/dual.R | 45 - relations-0.4-0/relations/R/ensemble.R | 194 +++-- relations-0.4-0/relations/R/fitters.R | 281 +++++--- relations-0.4-0/relations/R/getters.R | 118 +++ relations-0.4-0/relations/R/graph.R | 12 relations-0.4-0/relations/R/incidence.R | 17 relations-0.4-0/relations/R/lsap.R | 4 relations-0.4-0/relations/R/milp.R | 151 +++- relations-0.4-0/relations/R/operators.R | 22 relations-0.4-0/relations/R/plot.R | 44 - relations-0.4-0/relations/R/predicates.R | 42 - relations-0.4-0/relations/R/relation.R | 304 +++++---- relations-0.4-0/relations/R/scores.R | 40 + relations-0.4-0/relations/R/sparse.R | 337 ++++++++-- relations-0.4-0/relations/R/table.R | 10 relations-0.4-0/relations/R/transform.R | 10 relations-0.4-0/relations/R/utilities.R | 104 +-- relations-0.4-0/relations/R/violations.R | 252 ++++++- relations-0.4-0/relations/data/SVM_Benchmarking_Classification.rda |binary relations-0.4-0/relations/data/SVM_Benchmarking_Classification_Consensus.rda |binary relations-0.4-0/relations/data/SVM_Benchmarking_Regression.rda |binary relations-0.4-0/relations/data/SVM_Benchmarking_Regression_Consensus.rda |binary relations-0.4-0/relations/inst/NEWS | 37 + relations-0.4-0/relations/inst/doc/relations.Rnw | 59 - relations-0.4-0/relations/inst/doc/relations.pdf |binary relations-0.4-0/relations/man/algebra.Rd | 14 relations-0.4-0/relations/man/charfun.Rd | 10 relations-0.4-0/relations/man/classes.Rd | 13 relations-0.4-0/relations/man/closure.Rd |only relations-0.4-0/relations/man/consensus.Rd | 33 relations-0.4-0/relations/man/incidence.Rd | 4 relations-0.4-0/relations/man/pclust.Rd | 6 relations-0.4-0/relations/man/plot.Rd | 20 relations-0.4-0/relations/man/predicates.Rd | 35 - relations-0.4-0/relations/man/reduction.Rd |only relations-0.4-0/relations/man/relation.Rd | 20 relations-0.4-0/relations/man/scores.Rd | 63 + relations-0.4-0/relations/man/setters.Rd | 3 relations-0.4-0/relations/man/transform.Rd | 8 relations-0.4-0/relations/man/violations.Rd | 44 - 51 files changed, 1974 insertions(+), 697 deletions(-)
Author: G. Jay Kerns
Diff between RcmdrPlugin.IPSUR versions 0.1-4 dated 2008-02-17 and 0.1-5 dated 2008-08-11
More information about RcmdrPlugin.IPSUR at CRAN
Title: Introduction to Probability and Statistics Using R
Description:
This package accompanies G. Andy Chang and G. Jay Kerns, Introduction to Probability and Statistics Using R (in progress).
The package contributes functions unique to the book as well as specific configuration and selected functionality to the R Commander by John Fox.
RcmdrPlugin.IPSUR-0.1-4/RcmdrPlugin.IPSUR/inst/etc/menus-exceptions.txt |only
RcmdrPlugin.IPSUR-0.1-5/RcmdrPlugin.IPSUR/DESCRIPTION | 6 -
RcmdrPlugin.IPSUR-0.1-5/RcmdrPlugin.IPSUR/R/misc.r | 44 ++++++++++
RcmdrPlugin.IPSUR-0.1-5/RcmdrPlugin.IPSUR/inst/etc/menus.txt | 10 ++
RcmdrPlugin.IPSUR-0.1-5/RcmdrPlugin.IPSUR/man/IPSUR-package.Rd | 6 -
5 files changed, 60 insertions(+), 6 deletions(-)
Permanent link
More information about ConvergenceConcepts at CRAN
Permanent link
Author: David Meyer and Kurt Hornik (with contributions by Christian Buchta)
Title: Sets, Generalized Sets, and Customizable Sets.
Description: Data structures and basic operations for ordinary sets,
generalizations such as fuzzy sets, multisets, and
fuzzy multisets, and customizable sets.
Diff between sets versions 0.2-1 dated 2008-07-30 and 0.3 dated 2008-08-11
DESCRIPTION | 12 ++-- NAMESPACE | 89 ++++++++++++++++++++++++++++++++++++ NEWS | 4 + R/allEqual.R |only R/cardinality.R | 8 ++- R/cartesian.R | 15 ++++++ R/closure.R | 20 ++++++-- R/combn.R | 28 ++++++++++- R/complement.R | 38 ++++++++++++--- R/converters.R | 112 +++++++++++++++++++++++++++++++++++++++++++--- R/cset.R |only R/cut.R | 5 +- R/element.R | 2 R/extractors.R | 108 ++++++++++++++++++++++++++++++++++++++++++-- R/gset.R | 52 +++++++++++++-------- R/intersection.R | 38 +++++++++++++-- R/labels.R | 3 - R/memberships.R | 6 +- R/options.R | 8 +-- R/outer.R | 17 ++++-- R/plot.R | 5 +- R/power.R | 15 +++++- R/predicates.R | 111 +++++++++++++++++++++++++++++++++++++++++---- R/reduction.R | 25 ++++------ R/rep.R | 3 + R/set.R | 67 ++++++++++++++++----------- R/similarity.R | 18 +++++++ R/str.R | 7 ++ R/sumdiff.R | 58 +++++++++++++++++++++++ R/summary.R | 20 ++++++++ R/symdiff.R | 26 ++++++++++ R/tuple.R | 2 R/union.R | 31 ++++++++++++ R/utilities.R | 68 ++++++++++++++++++++------- inst/NEWS | 4 + inst/doc/.build.timestamp |only inst/doc/set.Rnw | 107 +++++++++++++++++++++++++++++++++++++++++++ inst/doc/set.pdf |binary man/cset.Rd |only man/labels.Rd | 9 ++- man/options.Rd | 24 +++++++-- man/outer.Rd | 3 + man/set.Rd | 4 + 43 files changed, 1015 insertions(+), 157 deletions(-)
Author: Jouni Kerman
Diff between rv versions 0.949 dated 2007-10-10 and 1.0 dated 2008-08-11
Title: Simulation-based random variable object class in R
Description: Simulation-based random variable object class
rv-0.949/rv/man/Extremes.Rd |only
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rv-1.0/rv/COPYRIGHTS | 2
rv-1.0/rv/DESCRIPTION | 8
rv-1.0/rv/NAMESPACE | 305 -
rv-1.0/rv/R/rv.R | 6806 +++++++++++--------------
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rv-1.0/rv/inst/doc/fb-examscores-intervals.pdf |only
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rv-1.0/rv/man/unlist.rv.Rd | 10
114 files changed, 4219 insertions(+), 4406 deletions(-)
Author: Mathieu Pigeon, Michel Jacques, Vincent Goulet
Title: Modeling of data using expert opinion
Description: Expert opinion (or judgment) is a body of techniques to
estimate the distribution of a random variable when data is scarce
or unavailable. Opinions on the quantiles of the distribution are
sought from experts in the field and aggregated into a final
estimate. The package supports aggregation by means of the Cooke,
Mendel-Sheridan and predefined weights models.
Diff between expert versions 0.1-1 dated 2008-07-18 and 0.1-2 dated 2008-08-11
DESCRIPTION | 13 +++++++++---- NAMESPACE | 3 +++ R/MS.R | 3 ++- R/cooke.R | 5 ++++- R/expert.R | 16 ++++++++++------ R/print.expert.R | 22 ++++++++++++---------- R/summary.expert.R |only R/weights.R | 5 ++++- inst/NEWS |only man/expert.Rd | 43 +++++++++++++++++++++++++++++++++++++------ po/.svn |only 11 files changed, 81 insertions(+), 29 deletions(-)
Author: Dirk Eddelbuettel
Diff between RQuantLib versions 0.2.8 dated 2008-01-08 and 0.2.9 dated 2008-08-11
Title: R interface to the QuantLib library
Description: The RQuantLib package makes selected parts of QuantLib
visible to the R user. Currently some basic option pricing
functions are included, as well as fixed-income functions that
can be used for interest rate curve construction and Bermuda
swaption pricing. Further software contributions are welcome.
The QuantLib project aims to provide a comprehensive software
framework for quantitative finance. The goal is to provide a
standard open source library for quantitative analysis,
modeling, trading, and risk management of financial
assets.
The Windows binary version is self-contained and does not require
a QuantLib (or Boost) installation. This version of RQuantLib for
Windows was built using QuantLib 0.8.1 and Boost 1.34.0.
Parts of RQuantLib use the Rcpp R/C++ interface class library.
See the RcppTemplate package on CRAN for more information on Rcpp.
Note that while RQuantLib's code is licensed under the GPL (v2 or
later), QuantLib itself is released under a somewhat less
restrictive Open Source license (see QuantLib-License.txt).
DESCRIPTION | 6 +++---
configure.in | 15 +++------------
inst/ChangeLog | 23 +++++++++++++++--------
src/curves.cpp | 57 ++++++++++++++++++++++++++++++++++++++++++---------------
4 files changed, 63 insertions(+), 38 deletions(-)
Author: Ollivier TARAMASCO
Title: Hidden Markov Models simulations and estimations
Description: Discrete, univariate or multivariate gaussian,
mixture of univariate or multivariate gaussian HMM functions for simulation and estimation.
Diff between RHmm versions 1.0.3 dated 2008-06-26 and 1.0.4 dated 2008-08-11
RHmm-1.0.3/RHmm/src/AllDistributions.h |only RHmm-1.0.3/RHmm/src/Hmm.h |only RHmm-1.0.3/RHmm/src/MultivariateNormalUtil.cpp |only RHmm-1.0.3/RHmm/src/MultivariateNormalUtil.h |only RHmm-1.0.3/RHmm/src/OTMathUtil.h |only RHmm-1.0.3/RHmm/src/RHmm.cpp |only RHmm-1.0.3/RHmm/src/RHmm.h |only RHmm-1.0.3/RHmm/src/R_Equivalents.h |only RHmm-1.0.3/RHmm/src/cBaumWelch.cpp |only RHmm-1.0.3/RHmm/src/cBaumWelch.h |only RHmm-1.0.3/RHmm/src/cBaumWelchInParam.cpp |only RHmm-1.0.3/RHmm/src/cBaumWelchInParam.h |only RHmm-1.0.3/RHmm/src/cDiscrete.cpp |only RHmm-1.0.3/RHmm/src/cDiscrete.h |only RHmm-1.0.3/RHmm/src/cDistribution.h |only RHmm-1.0.3/RHmm/src/cHmm.cpp |only RHmm-1.0.3/RHmm/src/cHmm.h |only RHmm-1.0.3/RHmm/src/cHmmFit.cpp |only RHmm-1.0.3/RHmm/src/cHmmFit.h |only RHmm-1.0.3/RHmm/src/cInParam.cpp |only RHmm-1.0.3/RHmm/src/cInParam.h |only RHmm-1.0.3/RHmm/src/cMixtMultivariateNormal.cpp |only RHmm-1.0.3/RHmm/src/cMixtMultivariateNormal.h |only RHmm-1.0.3/RHmm/src/cMixtUnivariateNormal.cpp |only RHmm-1.0.3/RHmm/src/cMixtUnivariateNormal.h |only RHmm-1.0.3/RHmm/src/cMultivariateNormal.h |only RHmm-1.0.3/RHmm/src/cMutivariateNormal.cpp |only RHmm-1.0.3/RHmm/src/cOTError.cpp |only RHmm-1.0.3/RHmm/src/cOTError.h |only RHmm-1.0.3/RHmm/src/cOTMatrix.cpp |only RHmm-1.0.3/RHmm/src/cOTMatrix.h |only RHmm-1.0.3/RHmm/src/cOTVector.cpp |only RHmm-1.0.3/RHmm/src/cOTVector.h |only RHmm-1.0.3/RHmm/src/cRUtils.cpp |only RHmm-1.0.3/RHmm/src/cRUtils.h |only RHmm-1.0.3/RHmm/src/cRandomGenerator.h |only RHmm-1.0.3/RHmm/src/cUnivariateNormal.cpp |only RHmm-1.0.3/RHmm/src/cUnivariateNormal.h |only RHmm-1.0.3/RHmm/src/cViterbi.cpp |only RHmm-1.0.3/RHmm/src/cViterbi.h |only RHmm-1.0.3/RHmm/src/samplesUtil.cpp |only RHmm-1.0.3/RHmm/src/samplesUtil.h |only RHmm-1.0.4/RHmm/DESCRIPTION | 24 ++++++++++++------------ RHmm-1.0.4/RHmm/README | 3 ++- RHmm-1.0.4/RHmm/src/alldistributions.h |only RHmm-1.0.4/RHmm/src/cbaumwelch.cpp |only RHmm-1.0.4/RHmm/src/cbaumwelch.h |only RHmm-1.0.4/RHmm/src/cbaumwelchinparam.cpp |only RHmm-1.0.4/RHmm/src/cbaumwelchinparam.h |only RHmm-1.0.4/RHmm/src/cdiscrete.cpp |only RHmm-1.0.4/RHmm/src/cdiscrete.h |only RHmm-1.0.4/RHmm/src/cdistribution.h |only RHmm-1.0.4/RHmm/src/chmm.cpp |only RHmm-1.0.4/RHmm/src/chmm.h |only RHmm-1.0.4/RHmm/src/chmmfit.cpp |only RHmm-1.0.4/RHmm/src/chmmfit.h |only RHmm-1.0.4/RHmm/src/cinparam.cpp |only RHmm-1.0.4/RHmm/src/cinparam.h |only RHmm-1.0.4/RHmm/src/cmixtmultivariatemormal.cpp |only RHmm-1.0.4/RHmm/src/cmixtmultivariatenormal.h |only RHmm-1.0.4/RHmm/src/cmixtunivariatenormal.cpp |only RHmm-1.0.4/RHmm/src/cmixtunivariatenormal.h |only RHmm-1.0.4/RHmm/src/cmultivariatenormal.h |only RHmm-1.0.4/RHmm/src/cmutivariatenormal.cpp |only RHmm-1.0.4/RHmm/src/coterror.cpp |only RHmm-1.0.4/RHmm/src/coterror.h |only RHmm-1.0.4/RHmm/src/cotmatrix.cpp |only RHmm-1.0.4/RHmm/src/cotmatrix.h |only RHmm-1.0.4/RHmm/src/cotvector.cpp |only RHmm-1.0.4/RHmm/src/cotvector.h |only RHmm-1.0.4/RHmm/src/crandomgenerator.h |only RHmm-1.0.4/RHmm/src/crutils.cpp |only RHmm-1.0.4/RHmm/src/crutils.h |only RHmm-1.0.4/RHmm/src/cunivariatenormal.cpp |only RHmm-1.0.4/RHmm/src/cunivariatenormal.h |only RHmm-1.0.4/RHmm/src/cviterbi.cpp |only RHmm-1.0.4/RHmm/src/cviterbi.h |only RHmm-1.0.4/RHmm/src/hmm.h |only RHmm-1.0.4/RHmm/src/kmeans.cpp | 4 ++-- RHmm-1.0.4/RHmm/src/kmeans.h | 8 ++++---- RHmm-1.0.4/RHmm/src/multivariatenormalutil.cpp |only RHmm-1.0.4/RHmm/src/multivariatenormalutil.h |only RHmm-1.0.4/RHmm/src/otmathutil.h |only RHmm-1.0.4/RHmm/src/r_equivalents.h |only RHmm-1.0.4/RHmm/src/rhmm.cpp |only RHmm-1.0.4/RHmm/src/rhmm.h |only RHmm-1.0.4/RHmm/src/samplesutil.cpp |only RHmm-1.0.4/RHmm/src/samplesutil.h |only 88 files changed, 20 insertions(+), 19 deletions(-)
Author: Dirk Eddelbuettel
Diff between RDieHarder versions 0.0.6 dated 2008-07-28 and 0.0.7 dated 2008-08-11
Title: R interface to the dieharder RNG test suite
Description: The RDieHarder packages provides an R interface to the
dieharder suite of random number generators and tests that was
developed by Robert G. Brown, extending earlier work by George
Marsaglia and others.
RDieHarder-0.0.6/RDieHarder/inst/doc/RDieHarder-r-rngs.pdf |only
RDieHarder-0.0.6/RDieHarder/inst/doc/RDieHarder-rd-example.pdf |only
RDieHarder-0.0.6/RDieHarder/inst/doc/RDieHarder-rd-example1.pdf |only
RDieHarder-0.0.6/RDieHarder/inst/doc/RDieHarder.Rdata |only
RDieHarder-0.0.6/RDieHarder/inst/doc/RDieHarder.tex |only
RDieHarder-0.0.6/RDieHarder/src/Makefile |only
RDieHarder-0.0.7/RDieHarder/DESCRIPTION | 14
RDieHarder-0.0.7/RDieHarder/cleanup | 5
RDieHarder-0.0.7/RDieHarder/configure |only
RDieHarder-0.0.7/RDieHarder/configure.in |only
RDieHarder-0.0.7/RDieHarder/inst/doc/RDieHarder.pdf | 2191 ++--------
RDieHarder-0.0.7/RDieHarder/src/Makevars.in |only
RDieHarder-0.0.7/RDieHarder/src/db_gnu_r_rngs.c | 2
13 files changed, 521 insertions(+), 1691 deletions(-)
Author: This package is 99% based on the Rcmdr package written by John Fox
Diff between QCAGUI versions 1.3-1 dated 2008-03-21 and 1.3-5 dated 2008-08-11
Title: QCA Graphical User Interface
Description: QCAGUI is a graphical user interface (GUI) for the QCA package, derived from R Commander. Because QCA has little to do with statistics, the menus from Rcmdr were stripped down to the very basics. In crisp sets QCA, data is binary therefore it is fairly decent to treat it as categorical (1 - presence; 0 - absence). In order to ease the primary analysis (e.g. tables of frequencies) and the creation of basic graphs, this package activates some menus that are not available in Rcmdr but for factors. Users should be aware, however, that QCAGUI is not a package for statistics; Rcmdr is better for this purpose
DESCRIPTION | 6 +-
R/analyze-menu.R | 135 ++++++++++++++++++++++++++++++++------------------
man/QCAGUI.package.Rd | 4 -
3 files changed, 94 insertions(+), 51 deletions(-)
Author: Michael Hahsler and Kurt Hornik
Title: Traveling Salesperson Problem (TSP)
Description: Basic infrastructure and some algorithms for the traveling
salesperson problem (TSP). The package provides some simple algorithms and
an interface to Concorde, the currently fastest TSP solver. Concorde
itself is not included in the package and has to be obtained separately.
Diff between TSP versions 0.2-3 dated 2008-02-03 and 0.2-4 dated 2008-08-10
DESCRIPTION | 11 inst/doc/.build.timestamp |only inst/doc/Rplots.ps |only inst/doc/TSP.Rnw_old |only inst/doc/TSP.pdf | 1413 ++++++++++++++++++++++------------------------ src/two_opt.c | 2 6 files changed, 706 insertions(+), 720 deletions(-)
Author: Thomas Lumley
Title: analysis of complex survey samples
Description: Summary statistics, generalised linear models, and general maximum pseudolikelihood estimation for multistage stratified, cluster-sampled, unequally weighted survey samples. Variances by Taylor series linearisation or replicate weights. Post-stratification, calibration, and raking. Two-phase designs. Graphics.
Diff between survey versions 3.7 dated 2008-07-28 and 3.8 dated 2008-08-09
survey-3.7/survey/.gdb_history |only survey-3.8/survey/._NAMESPACE |binary survey-3.8/survey/DESCRIPTION | 6 +++--- survey-3.8/survey/NAMESPACE | 15 ++++++++++++++- survey-3.8/survey/R/olr.R |only survey-3.8/survey/R/regtest.R | 22 ++++++++++++++++++++-- survey-3.8/survey/R/svykm.R |only survey-3.8/survey/THANKS | 7 +++++++ survey-3.8/survey/inst/COPYING |only survey-3.8/survey/inst/NEWS | 6 ++++++ survey-3.8/survey/inst/doc/domain.log | 4 ++-- survey-3.8/survey/inst/doc/domain.pdf |binary survey-3.8/survey/inst/doc/domain.tex | 14 +++++++------- survey-3.8/survey/inst/doc/epi.log | 4 ++-- survey-3.8/survey/inst/doc/epi.pdf |binary survey-3.8/survey/inst/doc/epi.tex | 10 +++++----- survey-3.8/survey/inst/doc/phase1.log | 4 ++-- survey-3.8/survey/inst/doc/phase1.pdf |binary survey-3.8/survey/inst/doc/survey.log | 4 ++-- survey-3.8/survey/inst/doc/survey.pdf |binary survey-3.8/survey/man/svykm.Rd |only survey-3.8/survey/man/svyolr.Rd |only 22 files changed, 70 insertions(+), 26 deletions(-)
Author: Erin Hodgess
Diff between RcmdrPlugin.epack versions 1.1-2 dated 2008-06-19 and 1.1-3 dated 2008-08-09
More information about RcmdrPlugin.epack at CRAN
Title: Rcmdr plugin for time series
Description: This package provides an Rcmdr "plug-in" based on the
time series functions. Contributors: G. Jay Kerns, John Fox, and Richard Heiberger.
DESCRIPTION | 6 +++---
R/RcmdrPlugin.epack.R | 32 ++++++++++++++++++++++----------
inst/etc/menus.txt | 6 ++----
man/RcmdrPlugin.epack-internal.Rd | 2 +-
4 files changed, 28 insertions(+), 18 deletions(-)
Permanent link
Author: Alex Couture-Beil
Diff between rjson versions 0.1.1 dated 2007-08-01 and 0.1.2 dated 2008-08-08
Title: JSON for R
Description: Converts R object into JSON objects and vice-versa
rjson-0.1.1/rjson/changelog.txt |only
rjson-0.1.2/rjson/DESCRIPTION | 6 +++---
rjson-0.1.2/rjson/R/json.R | 2 +-
3 files changed, 4 insertions(+), 4 deletions(-)
Author: Robin Nunkesser
Diff between rPorta versions 0.1-5 dated 2008-05-20 and 0.1-6 dated 2008-08-08
Title: R/PORTA interface
Description: An R interface to a modified version of PORTA. For more information on PORTA see http://www.zib.de/Optimization/Software/Porta/.
DESCRIPTION | 8 ++++----
R/functions.r | 22 ++++++++++++++++++++++
man/as.ieq.Rd |only
man/as.ieqFile.Rd |only
man/as.poiFile.Rd |only
man/failureRegions.Rd | 3 +++
man/fctp-method.Rd | 6 ++++++
man/ieqFile-class.Rd | 4 +++-
man/poiFile-class.Rd | 1 +
man/traf-method.Rd | 3 +++
man/vint-method.Rd | 7 +++++--
src/arith.c | 2 +-
src/arith.h | 2 +-
src/common.c | 2 +-
src/common.h | 2 +-
src/four_mot.c | 2 +-
src/four_mot.h | 2 +-
src/inout.c | 49 +++++++++++++++++++++++++++----------------------
src/inout.h | 2 +-
src/largecalc.c | 2 +-
src/largecalc.h | 2 +-
src/log.c | 2 +-
src/log.h | 2 +-
src/mp.c | 2 +-
src/mp.h | 2 +-
src/porta.c | 17 +++++++++--------
src/porta.h | 2 +-
src/portsort.c | 2 +-
src/portsort.h | 2 +-
src/valid.c | 16 ++++++++--------
src/valid.h | 2 +-
31 files changed, 108 insertions(+), 62 deletions(-)
Author: REvolution Computing
Diff between nws versions 1.6.3 dated 2008-03-21 and 1.7.0.0 dated 2008-08-08
Title: R functions for NetWorkSpaces and Sleigh
Description: Provides coordination and parallel execution
facilities, as well as limited cross-language data exchange,
using the netWorkSpaces server developed by REvolution
Computing
DESCRIPTION | 4
NAMESPACE | 5 -
R/batchNodeList.R |only
R/cmdLaunchOptions.R | 18 +++
R/nws.R | 97 ++++++++++++++-------
R/sleigh-internal.R | 72 ++++++++++-----
R/sleigh.R | 69 ++++++++++-----
R/sleighPending.R | 8 +
R/workerLoop.R | 4
demo/pportfolio.R | 3
inst/ChangeLog | 14 +++
inst/README | 4
inst/bin/RNWSSleighWorker.sh | 5 -
inst/bin/RSleighService.py | 19 +++-
inst/bin/sleighmon.R | 4
inst/examples/hello.R | 3
inst/examples/ping.R | 3
inst/examples/pong.R | 3
inst/examples/sleigh/birthday.R | 3
inst/examples/sleigh/bootstrap.R | 3
inst/examples/sleigh/cross.R | 3
inst/examples/sleigh/eachWorker_ex.R | 3
inst/examples/sleigh/kmeans.R | 3
inst/examples/sleigh/mandelbrot.R | 3
inst/examples/sleigh/mandelbrot2.R | 3
inst/examples/sleigh/mandelbrot3.R | 3
inst/examples/sleigh/mandelbrot4.R | 3
inst/examples/sleigh/matrix_multiplication.R | 3
inst/examples/sleigh/mc_sim.R | 3
inst/examples/sleigh/nnet-germandata.R | 3
inst/examples/sleigh/nnet.R | 3
inst/examples/sleigh/nonblocking.R | 3
inst/examples/sleigh/numactl.R |only
inst/examples/sleigh/par_contestant.R | 3
inst/examples/sleigh/portfolio.R | 3
inst/examples/sleigh/pping.R | 3
inst/examples/sleigh/pportfolio.R | 3
inst/examples/sleigh/prandomforest.R | 3
inst/examples/sleigh/prandomforest2.R | 3
inst/examples/sleigh/ring.R | 3
inst/examples/sleigh/rlecuyer.R |only
inst/examples/sleigh/seq_contestant.R | 3
inst/examples/sleigh/sinc.R | 3
inst/examples/sleigh/sinc2.R | 3
inst/examples/sleigh/sinc3.R | 3
inst/examples/sleigh/sleighBootstrap.R | 3
inst/examples/sleigh/sleighBootstrap2.R | 3
inst/examples/sleigh/sleighBootstrap3.R | 3
inst/examples/sleigh/sleighBootstrap4.R | 3
inst/examples/sleigh/sleighHello.R | 3
man/batchNodeList.Rd |only
man/checkSleigh-methods.Rd | 11 +-
man/close-methods.Rd | 18 +--
man/defaultSleighOptions.Rd | 4
man/eachElem-methods.Rd | 98 ++++++++++-----------
man/eachWorker-methods.Rd | 4
man/envcmd.Rd | 8 -
man/isClosure.Rd | 16 +--
man/launch.Rd | 9 +
man/lsfSleigh.Rd | 6 -
man/lsfcmd.Rd | 32 +++----
man/netWorkSpace-class.Rd | 67 +++++++-------
man/nws-package.Rd | 15 ++-
man/nwsClose-methods.Rd | 2
man/nwsDeclare-methods.Rd | 26 ++---
man/nwsDeleteVar-methods.Rd | 6 -
man/nwsDeleteWs-methods.Rd | 2
man/nwsFetch-methods.Rd | 19 ++--
man/nwsFetchFile-methods.Rd | 17 +--
man/nwsFetchTry-methods.Rd | 21 ++--
man/nwsFetchTryFile-methods.Rd | 19 ++--
man/nwsFind-methods.Rd | 19 ++--
man/nwsFindFile-methods.Rd | 20 ++--
man/nwsFindTry-methods.Rd | 24 ++---
man/nwsFindTryFile-methods.Rd | 20 ++--
man/nwsIFetch-methods.Rd | 16 +--
man/nwsIFetchTry-methods.Rd | 18 +--
man/nwsIFind-methods.Rd | 16 +--
man/nwsIFindTry-methods.Rd | 18 +--
man/nwsListVars-methods.Rd | 33 ++++---
man/nwsListWss-methods.Rd | 16 +--
man/nwsMktempWs-methods.Rd | 12 +-
man/nwsOpenWs-methods.Rd | 29 +++---
man/nwsServer-class.Rd | 11 +-
man/nwsServerObject-methods.Rd | 4
man/nwsStore-methods.Rd | 23 ++---
man/nwsStoreFile-methods.Rd | 18 ++-
man/nwsUseWs-methods.Rd | 6 -
man/nwsVariable-methods.Rd | 9 +
man/nwsWsName-methods.Rd | 2
man/rankCount-methods.Rd | 6 -
man/rshcmd.Rd | 26 +++--
man/rwincmd.Rd |only
man/scriptcmd.Rd | 12 +-
man/sleigh-class.Rd | 123 +++++++++++++++------------
man/sleighPending-class.Rd | 32 +++----
man/sshcmd.Rd | 30 +++---
man/status-methods.Rd | 29 +++---
man/stopSleigh-methods.Rd | 4
man/waitSleigh-methods.Rd | 15 +--
man/workerCount-methods.Rd | 2
man/workerLoop.Rd | 4
102 files changed, 793 insertions(+), 629 deletions(-)
More information about ResearchMethods at CRAN
Permanent link
Author: Nicholas L. Crookston
Diff between yaImpute versions 1.0-5 dated 2008-07-18 and 1.0-6 dated 2008-08-08
Title: yaImpute: An R Package for k-NN Imputation
Description: Performs popular nearest neighbor routines for imputation
DESCRIPTION | 6
R/asciigridimpute.R | 47 +
R/errorstats.R | 272 +++++------
R/findFactors.R | 54 +-
R/modified.randomForest.default.R | 920 +++++++++++++++++++-------------------
R/notablydistant.R | 14
R/whatsMax.R | 58 +-
R/yaiRFsummary.R | 88 +--
R/yaiVarImp.R | 70 +-
9 files changed, 765 insertions(+), 764 deletions(-)
Author: Roger Bivand and Danlin Yu
Title: Geographically weighted regression
Description: Functions for computing geographically weighted
regressions based on work by Chris
Brunsdon, Martin Charlton and Stewart Fortheringham,
http://ncg.nuim.ie/ncg/GWR/index.htm
Diff between spgwr versions 0.5-3 dated 2008-06-24 and 0.5-4 dated 2008-08-08
ChangeLog | 5 +++++ DESCRIPTION | 6 +++--- R/gwr1.R | 15 +++++++++------ inst/ChangeLog | 5 +++++ man/ggwr.Rd | 4 +++- 5 files changed, 25 insertions(+), 10 deletions(-)
Author: Roger Bivand
Title: Interface between GRASS 6 geographical information system and R
Description: Interpreted interface between GRASS 6 geographical
information system and R, based on starting R from within the GRASS
environment.
Diff between spgrass6 versions 0.5-10 dated 2008-07-05 and 0.5-11 dated 2008-08-08
ChangeLog | 16 ++++++++++++++++ DESCRIPTION | 6 +++--- R/bin_link.R | 9 +++++++-- inst/ChangeLog | 16 ++++++++++++++++ 4 files changed, 42 insertions(+), 5 deletions(-)
Author: Andrew Parnell and Andrew Jackson
Title: Stable Isotope Analysis in R
Description: This package takes data on organism isotopes and fits a Bayesian model to their dietary habits based upon a Gaussian likelihood with a mixture dirichlet-distributed prior on the mean.
Diff between siar versions 3.2 dated 2008-06-12 and 3.3 dated 2008-08-08
DESCRIPTION | 8 - NAMESPACE | 3 R/siaraddcross.r |only R/siardemo.R | 4 R/siarmcmcdirichlet.R | 2 R/siarmenu.R | 21 +++ R/siarplotdata.r | 225 ++------------------------------------- R/siarplotdatawrapper.r |only R/siarplottarget.r |only R/siarproportionbygroupplot.r |only R/siarsolomcmc.r | 2 man/siaraddcross.Rd |only man/siarmcmcdirichlet.Rd | 2 man/siarmenu.Rd | 2 man/siarplotdatawrapper.Rd |only man/siarplottarget.Rd |only man/siarproportionbygroupplot.rd |only src/siarmcmcv3.c | 2 src/siarsolomcmcv3.c | 5 19 files changed, 46 insertions(+), 230 deletions(-)
Author: Peter Frommolt
Title: Standardized high-throughput evaluation of compound screens
Description: Calculation of IC50 values, automatic drawing of kill-curves and validation of compound screens on 96- and 384-well plates.
Diff between ic50 versions 1.0 dated 2008-08-06 and 1.2 dated 2008-08-08
DESCRIPTION | 10 +++---- R/hts.R | 4 +- R/ic50.R | 3 +- R/misc.R | 36 +++++++++++++++++--------- data/A549_1.rda |binary data/A549_2.rda |binary data/Calu1_1.rda |binary data/Calu1_2.rda |binary data/H322_1.rda |binary data/H322_2.rda |binary data/HCC2429_1.rda |binary data/HCC2429_2.rda |binary data/default384_control.rda |binary data/default384_dilution.rda |binary data/default384_measure.rda |binary data/default96_control.rda |binary data/default96_dilution.rda |binary data/default96_measure.rda |binary data/mpi384_control.rda |binary data/mpi384_dilution.rda |binary data/mpi384_measure.rda |binary data/mpi96_control.rda |binary data/mpi96_dilution.rda |binary data/mpi96_measure.rda |binary man/design.Rd | 14 +++++----- man/hts.Rd | 59 +++++++++++++++++++++---------------------- man/ic50.Rd | 55 ++++++++++++++-------------------------- man/nsclc.Rd | 11 +++++--- 28 files changed, 98 insertions(+), 94 deletions(-)
Author: John Verzani
Title: Toolkit implementation of gWidgets for tcltk package
Description: Port of gWidgets API to the tcltk package. Requires TK 8.5 or greater for the tile (ttk)widgets http://www.tcl.tk/software/tcltk/8.5.tml. This is default on Windows. Under linux, it must be installed. Under Mac OS X (10.5) it must be upgraded. See www.tcl.tk to download source. Under the Mac it compiles and installs cleanly.
Diff between gWidgetstcltk versions 0.0-13 dated 2008-07-20 and 0.0-14 dated 2008-08-08
DESCRIPTION | 4 ++-- NEWS | 4 ++++ R/gtree.R | 24 ++++++++++++++++++++---- 3 files changed, 26 insertions(+), 6 deletions(-)
Author: Michael Lawrence, John Verzani
Title: Toolkit implementation of gWidgets for RGtk2
Description: Port of gWidgets API to RGtk2
Diff between gWidgetsRGtk2 versions 0.0-37 dated 2008-08-06 and 0.0-38 dated 2008-08-08
DESCRIPTION | 4 ++-- NEWS | 4 +++- R/gtree.R | 8 ++++++-- 3 files changed, 11 insertions(+), 5 deletions(-)
Author: R-core members, Saikat DebRoy
Diff between foreign versions 0.8-28 dated 2008-08-02 and 0.8-29 dated 2008-08-08
Title: Read Data Stored by Minitab, S, SAS, SPSS, Stata, Systat, dBase, ...
Description: Functions for reading and writing data stored by statistical
packages such as Minitab, S, SAS, SPSS, Stata, Systat, ...,
and for reading and writing .dbf (dBase) files.
ChangeLog | 22 ++++++-
DESCRIPTION | 6 -
R/R_systat.R | 4 -
R/Sread.R | 68 +++++++++++-----------
R/arff.R | 22 +++----
R/dbf.R | 14 ++--
R/minitab.R | 2
R/octave.R | 68 +++++++++++-----------
R/read.dta.R | 39 ++++++------
R/read.epiinfo.R | 47 +++++++--------
R/read.ssd.R | 8 +-
R/spss.R | 57 +++++++++++++++++-
R/writeForeignCode.R | 7 --
R/writeForeignSAS.R | 14 ++--
R/xport.R | 2
man/read.spss.Rd | 28 +++++++--
man/write.dta.Rd | 8 +-
src/dbfopen.c | 31 ++++++----
src/minitab.c | 19 +++---
src/sfm-read.c | 48 +++++++--------
src/spss.c | 154 +++++++++++++++++++++++++++++++++++++++++----------
src/stataread.c | 7 +-
tests/spss.R | 4 -
tests/spss.Rout.save | 21 +++---
24 files changed, 448 insertions(+), 252 deletions(-)
Author: John Fox
Diff between Rcmdr versions 1.3-15 dated 2008-06-08 and 1.4-0 dated 2008-08-08
Title: R Commander
Description:
A platform-independent basic-statistics GUI (graphical user interface) for R, based on the tcltk package.
Rcmdr-1.3-15/Rcmdr/man/stem.leaf.Rd |only
Rcmdr-1.3-15/Rcmdr/po/R-sl_utf-8.po |only
Rcmdr-1.4-0/Rcmdr/DESCRIPTION | 8
Rcmdr-1.4-0/Rcmdr/NAMESPACE | 7
Rcmdr-1.4-0/Rcmdr/R/commander.R | 57
Rcmdr-1.4-0/Rcmdr/R/data-menu.R | 121
Rcmdr-1.4-0/Rcmdr/R/file-menu.R | 33
Rcmdr-1.4-0/Rcmdr/R/graphs-menu.R | 294
Rcmdr-1.4-0/Rcmdr/R/model-menu.R | 49
Rcmdr-1.4-0/Rcmdr/R/startup.R | 4
Rcmdr-1.4-0/Rcmdr/R/statistics-nonparametric-menu.R | 27
Rcmdr-1.4-0/Rcmdr/R/statistics-summaries-menu.R | 8
Rcmdr-1.4-0/Rcmdr/R/utilities.R | 130
Rcmdr-1.4-0/Rcmdr/inst/CHANGES | 34
Rcmdr-1.4-0/Rcmdr/inst/etc/Rcmdr-menus.txt | 16
Rcmdr-1.4-0/Rcmdr/inst/po/it/LC_MESSAGES/R-Rcmdr.mo |binary
Rcmdr-1.4-0/Rcmdr/inst/po/ru/LC_MESSAGES/R-Rcmdr.mo |binary
Rcmdr-1.4-0/Rcmdr/man/Commander.Rd | 23
Rcmdr-1.4-0/Rcmdr/man/Plugins.Rd | 9
Rcmdr-1.4-0/Rcmdr/man/Rcmdr-package.Rd | 8
Rcmdr-1.4-0/Rcmdr/man/Rcmdr.Utilities.Rd | 5
Rcmdr-1.4-0/Rcmdr/po/R-Rcmdr.pot | 109
Rcmdr-1.4-0/Rcmdr/po/R-it.po | 7080 ++++++++++----------
Rcmdr-1.4-0/Rcmdr/po/R-ru.po | 140
24 files changed, 4369 insertions(+), 3793 deletions(-)
Author: David Harte
Title: Time Dependent Point Process Modelling
Description: This package fits and analyses time dependent marked point process models with an emphasis on earthquake modelling. For a more detailed introduction to the package, see the topic "PtProcess". A list of recent changes can be found in the topic "Changes".
Diff between PtProcess versions 3.0-0 dated 2008-05-30 and 3.1-0 dated 2008-08-08
DESCRIPTION | 8 ++++---- R/neglogLik.R | 4 ++-- inst/doc/index.html | 14 ++++++++++---- man/Changes.Rd | 6 ++++-- man/linksrm.Rd | 2 +- man/mpp.Rd | 2 +- man/neglogLik.Rd | 10 +++++----- 7 files changed, 27 insertions(+), 19 deletions(-)
Author: David Harte
Title: Hidden Markov Models
Description: Contains functions for the analysis of Discrete Time Hidden Markov Models, Markov Modulated GLMs and the Markov Modulated Poisson Process. It includes functions for simulation, parameter estimation, and the Viterbi algorithm. See the topic "HiddenMarkov" for an introduction to the package, and "Changes" for a list of recent changes. The algorithms are based of those of Walter Zucchini.
Diff between HiddenMarkov versions 1.2-5 dated 2008-06-23 and 1.2-6 dated 2008-08-08
HiddenMarkov-1.2-5/HiddenMarkov/man/dthmm-obsolete.Rd |only HiddenMarkov-1.2-5/HiddenMarkov/man/mmpp-obsolete.Rd |only HiddenMarkov-1.2-5/HiddenMarkov/man/mmpp.misc.Rd |only HiddenMarkov-1.2-6/HiddenMarkov/DESCRIPTION | 8 +- HiddenMarkov-1.2-6/HiddenMarkov/R/mmpp.R | 2 HiddenMarkov-1.2-6/HiddenMarkov/R/neglogLik.R | 4 - HiddenMarkov-1.2-6/HiddenMarkov/inst/doc/index.html | 16 +++- HiddenMarkov-1.2-6/HiddenMarkov/man/BaumWelch.Rd | 7 - HiddenMarkov-1.2-6/HiddenMarkov/man/Changes.Rd | 15 +++- HiddenMarkov-1.2-6/HiddenMarkov/man/Estep.Rd | 3 HiddenMarkov-1.2-6/HiddenMarkov/man/HiddenMarkov-dthmm-deprecated.Rd |only HiddenMarkov-1.2-6/HiddenMarkov/man/HiddenMarkov-mmpp-deprecated.Rd |only HiddenMarkov-1.2-6/HiddenMarkov/man/HiddenMarkov.Rd | 36 +++++++++- HiddenMarkov-1.2-6/HiddenMarkov/man/dthmm.Rd | 11 --- HiddenMarkov-1.2-6/HiddenMarkov/man/forwardback.Rd | 8 -- HiddenMarkov-1.2-6/HiddenMarkov/man/mmglm.Rd | 7 - HiddenMarkov-1.2-6/HiddenMarkov/man/mmpp-2nd-level-functions.Rd |only HiddenMarkov-1.2-6/HiddenMarkov/man/mmpp.Rd | 9 -- HiddenMarkov-1.2-6/HiddenMarkov/man/neglogLik.Rd | 22 +++--- HiddenMarkov-1.2-6/HiddenMarkov/man/probhmm.Rd | 3 20 files changed, 84 insertions(+), 67 deletions(-)
Author: Cathy W. S. Chen, Edward M.H. Lin, F.C. Liu, and Richard Gerlach
Title: On Bayesian analysis of Threshold autoregressive model (BAYSTAR)
Description: The manuscript introduces the BAYSTAR package, which provides the functionality for Bayesian estimation in autoregressive threshold models.
Diff between BAYSTAR versions 0.1-1 dated 2008-01-28 and 0.1-2 dated 2008-08-08
CHANGELOG | 4 ++++ DESCRIPTION | 6 +++--- R/BAYSTAR.R | 4 ++-- R/TAR.lagd.R | 2 +- 4 files changed, 10 insertions(+), 6 deletions(-)
Author: Alexandros Karatzoglou, Alex Smola, Kurt Hornik
Title: Kernel Methods Lab
Description: Kernel-based machine learning methods for classification, regression,
clustering, novelty detection, quantile regression and dimensionality reduction.
Among other methods kernlab includes Support Vector Machines,
Spectral Clustering, Kernel PCA and a QP solver.
Diff between kernlab versions 0.9-5 dated 2007-06-12 and 0.9-7 dated 2008-08-07
COPYRIGHTS | 5 DESCRIPTION | 7 NAMESPACE | 28 - R/aobjects.R | 156 +++++-- R/gausspr.R | 2 R/ipop.R | 2 R/kcca.R | 62 ++ R/kernels.R | 1014 +++++++++++++++++++++++++++++++++--------------- R/kkmeans.R | 2 R/kmmd.R |only R/kqr.R | 2 R/ksvm.R | 246 +++++------ R/lssvm.R | 71 ++- R/rvm.R | 40 + R/sigest.R | 21 R/specc.R | 20 data/reuters.rda |only inst/doc/kernlab.pdf |binary man/as.kernelMatrix.Rd | 1 man/dots.Rd | 17 man/kcca-class.Rd | 26 - man/kcca.Rd | 17 man/kernel-class.Rd | 2 man/kmmd-class.Rd |only man/kmmd.Rd |only man/ksvm-class.Rd | 5 man/ksvm.Rd | 5 man/lssvm-class.Rd | 1 man/reuters.Rd |only man/sigest.Rd | 5 man/specc.Rd | 2 man/stringdot.Rd |only src/brweight.cpp |only src/brweight.h |only src/ctable.cpp |only src/ctable.h |only src/cweight.cpp |only src/cweight.h |only src/datatype.h |only src/errorcode.h |only src/esa.cpp |only src/esa.h |only src/expdecayweight.cpp |only src/expdecayweight.h |only src/ilcpfactory.h |only src/inductionsort.cpp |only src/inductionsort.h |only src/introsort.h |only src/isafactory.h |only src/iweightfactory.h |only src/kspectrumweight.cpp |only src/kspectrumweight.h |only src/lcp.cpp |only src/lcp.h |only src/msufsort.cpp |only src/msufsort.h |only src/stack.h |only src/stringkernel.cpp |only src/stringkernel.h |only src/svm.cpp | 10 src/wkasailcp.cpp |only src/wkasailcp.h |only src/wmsufsort.cpp |only src/wmsufsort.h |only 64 files changed, 1180 insertions(+), 589 deletions(-)
Author: Lukas Meier
Title: Fitting user specified models with Group Lasso penalty
Description: Fits user specified (GAM-) models with Group Lasso penalty
Diff between grplasso versions 0.2-2 dated 2007-11-28 and 0.3-1 dated 2008-08-07
grplasso-0.2-2/grplasso/tests/test-package.R |only grplasso-0.3-1/grplasso/DESCRIPTION | 8 - grplasso-0.3-1/grplasso/NAMESPACE | 1 grplasso-0.3-1/grplasso/R/control.R | 13 + grplasso-0.3-1/grplasso/R/family.R | 43 +++-- grplasso-0.3-1/grplasso/R/grplasso.R | 175 +++++++++++++++------- grplasso-0.3-1/grplasso/R/helpers.R | 2 grplasso-0.3-1/grplasso/R/methods.R | 58 ++++++- grplasso-0.3-1/grplasso/R/zzz.R | 14 - grplasso-0.3-1/grplasso/man/grpl.control-class.Rd | 2 grplasso-0.3-1/grplasso/man/grpl.control.Rd | 7 grplasso-0.3-1/grplasso/man/grpl.model-class.Rd | 4 grplasso-0.3-1/grplasso/man/grpl.model.Rd | 4 grplasso-0.3-1/grplasso/tests/test_extractor.R |only grplasso-0.3-1/grplasso/tests/test_grplasso.R |only 15 files changed, 236 insertions(+), 95 deletions(-)
More information about StreamMetabolism at CRAN
Permanent link
Author: Andrea Peters and Torsten Hothorn
Title: Improved Predictors
Description: Improved predictive models by indirect classification and
bagging for classification, regression and survival problems
as well as resampling based estimators of prediction error.
Diff between ipred versions 0.8-5 dated 2007-10-10 and 0.8-6 dated 2008-08-07
ipred-0.8-5/ipred/inst/doc/ipred-examples.log |only ipred-0.8-5/ipred/inst/doc/ipred-examples.tex |only ipred-0.8-6/ipred/CHANGES | 6 +++--- ipred-0.8-6/ipred/DESCRIPTION | 6 +++--- ipred-0.8-6/ipred/R/inbagg.R | 8 ++++++-- ipred-0.8-6/ipred/R/inclass.R | 4 ++-- ipred-0.8-6/ipred/inst/doc/ipred-examples.pdf |binary ipred-0.8-6/ipred/man/DLBCL.Rd | 2 +- ipred-0.8-6/ipred/man/GBSG2.Rd | 2 +- ipred-0.8-6/ipred/man/GlaucomaM.Rd | 2 +- ipred-0.8-6/ipred/man/GlaucomaMVF.Rd | 2 +- ipred-0.8-6/ipred/man/Smoking.Rd | 2 +- ipred-0.8-6/ipred/man/dystrophy.Rd | 2 +- 13 files changed, 20 insertions(+), 16 deletions(-)
Author: Jonathan Harrington and others, IPS LMU Muenchen & IPDS CAU Kiel
Title: Interface to the Emu Speech Database System
Description: Provides an interface to the Emu speech database system and
many special purpose functions for display and analysis of speech
data.
Diff between emu versions 3.2 dated 2008-05-30 and 4.0 dated 2008-08-07
emu-3.2/emu/R/trackapply.S |only emu-3.2/emu/man/trackapply.Rd |only emu-4.0/emu/DESCRIPTION | 32 - emu-4.0/emu/R/AAoptions.S | 4 emu-4.0/emu/R/Firstlib.S | 2 emu-4.0/emu/R/MethodEPG.S | 16 emu-4.0/emu/R/bark.S | 52 +- emu-4.0/emu/R/buildtrack.S | 90 ++-- emu-4.0/emu/R/classplot.R |only emu-4.0/emu/R/dct.S | 82 +-- emu-4.0/emu/R/dimtrackdata.S | 30 - emu-4.0/emu/R/dplot.S | 256 +++++++---- emu-4.0/emu/R/emu.track.S | 820 +++++++++++++++++++------------------- emu-4.0/emu/R/end.emusegs.S | 12 emu-4.0/emu/R/epg.class.S | 63 +- emu-4.0/emu/R/eplot.S | 97 +--- emu-4.0/emu/R/locus.S | 76 +-- emu-4.0/emu/R/makelab.S | 122 ++--- emu-4.0/emu/R/mu.colour.S | 146 +++--- emu-4.0/emu/R/palate.S | 100 ++-- emu-4.0/emu/R/plafit.S | 72 +-- emu-4.0/emu/R/spectralclass.S | 306 ++++++-------- emu-4.0/emu/R/start.trackdata.S | 24 - emu-4.0/emu/R/trackdata.class.S | 175 ++++---- emu-4.0/emu/R/tracktimes.S | 42 - emu-4.0/emu/R/trapply.R |only emu-4.0/emu/data/coutts.rda |binary emu-4.0/emu/data/fr.rda |only emu-4.0/emu/data/stops2.rda |only emu-4.0/emu/man/by.trackdata.Rd | 6 emu-4.0/emu/man/classplot.Rd |only emu-4.0/emu/man/coutts.rms.Rd |only emu-4.0/emu/man/dbnorm.Rd | 94 ++-- emu-4.0/emu/man/dorfric.vl.Rd | 42 - emu-4.0/emu/man/dplot.Rd | 42 - emu-4.0/emu/man/emu.query.Rd | 116 ++--- emu-4.0/emu/man/emu.track.Rd | 186 ++++---- emu-4.0/emu/man/epgconindices.Rd | 2 emu-4.0/emu/man/eplot.Rd | 31 - emu-4.0/emu/man/fr.Rd |only emu-4.0/emu/man/fr.dft.Rd |only emu-4.0/emu/man/fr.l.Rd |only emu-4.0/emu/man/fr.sp.Rd |only emu-4.0/emu/man/freqtoint.Rd | 98 ++-- emu-4.0/emu/man/is.spectral.Rd | 76 +-- emu-4.0/emu/man/locus.Rd | 9 emu-4.0/emu/man/mu.colour.Rd | 14 emu-4.0/emu/man/plot.spectral.Rd | 8 emu-4.0/emu/man/plot.trackdata.Rd | 70 +-- emu-4.0/emu/man/rad.Rd | 70 +-- emu-4.0/emu/man/shift.Rd | 80 +-- emu-4.0/emu/man/stops.Rd |only emu-4.0/emu/man/stops.bark.Rd |only emu-4.0/emu/man/stops.dct.Rd |only emu-4.0/emu/man/stops.dft.Rd |only emu-4.0/emu/man/stops.l.Rd |only emu-4.0/emu/man/stops.sp.Rd |only emu-4.0/emu/man/stopsvow.Rd |only emu-4.0/emu/man/stopsvow.fm.Rd |only emu-4.0/emu/man/stopsvow.l.Rd |only emu-4.0/emu/man/trackfreq.Rd | 82 +-- emu-4.0/emu/man/trapply.Rd |only 62 files changed, 1856 insertions(+), 1789 deletions(-)
Author: Ingmar Visser
Diff between depmix versions 0.9.3 dated 2007-11-26 and 0.9.4 dated 2008-08-07
Title: Dependent Mixture Models
Description: Fit (multigroup) mixtures of latent Markov models on mixed categorical and continuous (timeseries) data
CHANGES | 25 +------------------------
DESCRIPTION | 6 +++---
src/logl.h | 2 +-
src/npsolfit.h | 2 +-
4 files changed, 6 insertions(+), 29 deletions(-)
Author: Rense Nieuwenhuis
Title: Automated access to old World Fertility Survey data saved in fixed-width format based on ISI-formatted codebooks.
Description: Old statistical data was often stored in formats that are difficult to gain access to by modern statistical software. An example of this are the data-files of the `World Fertility Survey', which are stored in fixed-width format and accompanied by codebooks in a format developed by the International Statistical Institute. The read.isi package allows to gain access to these statistical data automatically, or to convert to codebook to SPSS-syntax.
Diff between Read.isi versions 0.4 dated 2008-08-03 and 0.5 dated 2008-08-07
DESCRIPTION | 8 ++++---- R/clean.R | 7 ++++++- R/convert.isi.R | 7 ++----- R/read.codebook.isi.R | 2 +- R/read.isi.R | 2 +- inst |only man/Read.isi-package.Rd | 33 +++++++++++++++++++++------------ man/clean.Rd | 6 ++++++ man/read.codebook.isi.Rd | 5 +---- 9 files changed, 42 insertions(+), 28 deletions(-)
Author: Max Kuhn, Steve Weaston
Title: Sweave processing of Open Document Format (ODF) files
Description: Sweave processing of Open Document Format (ODF) files
Diff between odfWeave versions 0.7.5 dated 2008-05-09 and 0.7.6 dated 2008-08-07
odfWeave-0.7.5/._odfWeave |only odfWeave-0.7.5/odfWeave/._DESCRIPTION |only odfWeave-0.7.5/odfWeave/._NAMESPACE |only odfWeave-0.7.5/odfWeave/._R |only odfWeave-0.7.5/odfWeave/._ToDo |only odfWeave-0.7.5/odfWeave/._inst |only odfWeave-0.7.5/odfWeave/._man |only odfWeave-0.7.5/odfWeave/R/._RweaveOdf.R |only odfWeave-0.7.5/odfWeave/R/._addFontDecs.R |only odfWeave-0.7.5/odfWeave/R/._addStyleDefs.R |only odfWeave-0.7.5/odfWeave/R/._adjustImageSize.R |only odfWeave-0.7.5/odfWeave/R/._figGen.R |only odfWeave-0.7.5/odfWeave/R/._getExt.R |only odfWeave-0.7.5/odfWeave/R/._getStyles.R |only odfWeave-0.7.5/odfWeave/R/._listString.R |only odfWeave-0.7.5/odfWeave/R/._matrixPaste.R |only odfWeave-0.7.5/odfWeave/R/._odfCat.R |only odfWeave-0.7.5/odfWeave/R/._odfDataType.R |only odfWeave-0.7.5/odfWeave/R/._odfEnv.R |only odfWeave-0.7.5/odfWeave/R/._odfFigureCaption.R |only odfWeave-0.7.5/odfWeave/R/._odfInsertPlot.R |only odfWeave-0.7.5/odfWeave/R/._odfItemize.R |only odfWeave-0.7.5/odfWeave/R/._odfPageBreak.R |only odfWeave-0.7.5/odfWeave/R/._odfSetPageStyle.R |only odfWeave-0.7.5/odfWeave/R/._odfStyleGen.R |only odfWeave-0.7.5/odfWeave/R/._odfTable.R |only odfWeave-0.7.5/odfWeave/R/._odfTable.character.R |only odfWeave-0.7.5/odfWeave/R/._odfTable.data.frame.R |only odfWeave-0.7.5/odfWeave/R/._odfTable.matrix.R |only odfWeave-0.7.5/odfWeave/R/._odfTable.numeric.R |only odfWeave-0.7.5/odfWeave/R/._odfTableCaption.R |only odfWeave-0.7.5/odfWeave/R/._odfTableGen.R |only odfWeave-0.7.5/odfWeave/R/._odfTmpDir.R |only odfWeave-0.7.5/odfWeave/R/._odfTranslate.R |only odfWeave-0.7.5/odfWeave/R/._odfWeave.R |only odfWeave-0.7.5/odfWeave/R/._odfWeaveControl.R |only odfWeave-0.7.5/odfWeave/R/._pkgVersions.R |only odfWeave-0.7.5/odfWeave/R/._postproc.R |only odfWeave-0.7.5/odfWeave/R/._preproc.R |only odfWeave-0.7.5/odfWeave/R/._procstyles.R |only odfWeave-0.7.5/odfWeave/R/._tableStyles.R |only odfWeave-0.7.5/odfWeave/R/._xmlUtils.R |only odfWeave-0.7.5/odfWeave/inst/._doc |only odfWeave-0.7.5/odfWeave/inst/._examples |only odfWeave-0.7.5/odfWeave/inst/doc/._RnewsExample.pdf |only odfWeave-0.7.5/odfWeave/inst/doc/._RnewsOut.pdf |only odfWeave-0.7.5/odfWeave/inst/doc/._odfWeave.Rnw |only odfWeave-0.7.5/odfWeave/inst/doc/._odfWeave.pdf |only odfWeave-0.7.5/odfWeave/inst/doc/._odfWeave.tex |only odfWeave-0.7.5/odfWeave/inst/examples/._Frink.png |only odfWeave-0.7.5/odfWeave/inst/examples/._RunFormatting.R |only odfWeave-0.7.5/odfWeave/inst/examples/._examples.odt |only odfWeave-0.7.5/odfWeave/inst/examples/._formatting.odt |only odfWeave-0.7.5/odfWeave/inst/examples/._formattingOut.odt |only odfWeave-0.7.5/odfWeave/inst/examples/._simple.odt |only odfWeave-0.7.5/odfWeave/inst/examples/._testCases.odt |only odfWeave-0.7.5/odfWeave/man/._PreProc.Rd |only odfWeave-0.7.5/odfWeave/man/._RweaveOdf.Rd |only odfWeave-0.7.5/odfWeave/man/._adjustImageSize.Rd |only odfWeave-0.7.5/odfWeave/man/._announce.Rd |only odfWeave-0.7.5/odfWeave/man/._listString.Rd |only odfWeave-0.7.5/odfWeave/man/._matrixPaste.Rd |only odfWeave-0.7.5/odfWeave/man/._odfCat.Rd |only odfWeave-0.7.5/odfWeave/man/._odfFigureCaption.Rd |only odfWeave-0.7.5/odfWeave/man/._odfInsertPlot.Rd |only odfWeave-0.7.5/odfWeave/man/._odfItemize.Rd |only odfWeave-0.7.5/odfWeave/man/._odfPageBreak.Rd |only odfWeave-0.7.5/odfWeave/man/._odfSetPageStyle.Rd |only odfWeave-0.7.5/odfWeave/man/._odfTable.Rd |only odfWeave-0.7.5/odfWeave/man/._odfTableCaption.Rd |only odfWeave-0.7.5/odfWeave/man/._odfTmpDir.Rd |only odfWeave-0.7.5/odfWeave/man/._odfWeave.Rd |only odfWeave-0.7.5/odfWeave/man/._odfWeaveControl.Rd |only odfWeave-0.7.5/odfWeave/man/._pkgVersions.Rd |only odfWeave-0.7.5/odfWeave/man/._styles.Rd |only odfWeave-0.7.5/odfWeave/man/._tableStyles.Rd |only odfWeave-0.7.6/odfWeave/DESCRIPTION | 6 ++-- odfWeave-0.7.6/odfWeave/R/odfFigureCaption.R | 18 ++++++++++++++ odfWeave-0.7.6/odfWeave/R/odfTableCaption.R | 3 ++ odfWeave-0.7.6/odfWeave/inst/doc/odfWeave.pdf |binary odfWeave-0.7.6/odfWeave/inst/doc/odfWeave.tex | 2 - 81 files changed, 25 insertions(+), 4 deletions(-)
Author: Tom Price
Diff between cgh versions 1.0-3 dated 2008-05-25 and 1.0-4 dated 2008-08-07
Title: Microarray CGH analysis using the Smith-Waterman algorithm
Description: Functions to analyze microarray comparative genome hybridization data using the Smith-Waterman algorithm
cgh-1.0-3/cgh/Changes |only
cgh-1.0-3/cgh/inst |only
cgh-1.0-4/cgh/CHANGES |only
cgh-1.0-4/cgh/DESCRIPTION | 6
cgh-1.0-4/cgh/R/cgh.R | 384 +++++++++++++++++++++++-----------------------
cgh-1.0-4/cgh/src/sw.c | 6
6 files changed, 198 insertions(+), 198 deletions(-)
Author: Ben Bolker
Diff between bbmle versions 0.8.5 dated 2008-03-09 and 0.8.9 dated 2008-08-07
Title: Tools for general maximum likelihood estimation
Description: Methods and functions for fitting maximum likelihood models in R. This package modifies and extends the mle classes in the stats4 package.
bbmle-0.8.5/bbmle/NAMESPACE.old |only
bbmle-0.8.5/bbmle/NEWS.old |only
bbmle-0.8.5/bbmle/experimental |only
bbmle-0.8.5/bbmle/inst |only
bbmle-0.8.9/bbmle/DESCRIPTION | 8
bbmle-0.8.9/bbmle/NEWS | 160 ++++--
bbmle-0.8.9/bbmle/R/dists.R |only
bbmle-0.8.9/bbmle/R/mle.R | 483 +++++++++++++-------
bbmle-0.8.9/bbmle/R/predict.R |only
bbmle-0.8.9/bbmle/TODO | 17
bbmle-0.8.9/bbmle/man/BIC-methods.Rd | 14
bbmle-0.8.9/bbmle/man/ICtab.Rd | 21
bbmle-0.8.9/bbmle/man/as.data.frame.profile.mle2.Rd |only
bbmle-0.8.9/bbmle/man/call.to.char.Rd |only
bbmle-0.8.9/bbmle/man/mle.Rd | 14
bbmle-0.8.9/bbmle/man/predict-methods.Rd |only
bbmle-0.8.9/bbmle/man/profile-methods.Rd | 21
bbmle-0.8.9/bbmle/man/profile.mle-class.Rd | 11
bbmle-0.8.9/bbmle/man/sbinom.Rd |only
bbmle-0.8.9/bbmle/man/slice.mle-class.Rd | 3
bbmle-0.8.9/bbmle/tests/grtest1.R |only
bbmle-0.8.9/bbmle/tests/grtest1.Rout |only
bbmle-0.8.9/bbmle/tests/predict.R |only
23 files changed, 510 insertions(+), 242 deletions(-)
Author: Kurt Hornik, with contributions from Christian Buchta,
Torsten Hothorn, Alexandros Karatzoglou, David Meyer, and
Achim Zeileis
Title: R/Weka interface
Description: An R interface to Weka (Version 3.5.8).
Weka is a collection of machine learning algorithms for data mining
tasks written in Java, containing tools for data pre-processing,
classification, regression, clustering, association rules, and
visualization. Both the R interface and Weka itself are contained
in the RWeka package. For more information on Weka see
http://www.cs.waikato.ac.nz/~ml/weka/.
Diff between RWeka versions 0.3-12 dated 2008-06-25 and 0.3-13 dated 2008-08-07
CHANGELOG | 4 + DESCRIPTION | 8 +- NAMESPACE | 5 + R/classifiers.R | 113 +++++++++++++++++++++++++++++---------- R/evaluate.R | 21 +++++-- R/filters.R | 7 -- R/readers.R | 96 ++++++++++++++++++++++++++++----- R/techinfo.R | 8 +- R/utils.R | 8 -- R/wow.R | 6 +- R/zzz.R | 2 inst/jar/RWeka.jar |binary inst/jar/weka.jar |binary java/RWekaInterfaces.class |binary man/Weka_classifier_functions.Rd | 25 ++++++-- man/Weka_classifier_lazy.Rd | 22 +++++-- man/Weka_classifier_meta.Rd | 36 ++++++++---- man/Weka_classifier_rules.Rd | 28 +++++++-- man/Weka_classifier_trees.Rd | 28 +++++++-- man/Weka_interfaces.Rd | 4 - tests/data_exchange.R | 8 +- tests/data_exchange.Rout.save | 12 +--- 22 files changed, 320 insertions(+), 121 deletions(-)
Author: Fabian Scheipl
Title: Exact (Restricted) Likelihood Ratio tests for mixed and additive models.
Description: Rapid, simulation-based exact (restricted) likelihood ratio tests for testing the presence of variance components/nonparametric terms for models fit with nlme::lme(),lme4::lmer(), mgcv::gamm() and SemiPar:spm()
Diff between RLRsim versions 2.0 dated 2008-07-28 and 2.0-1 dated 2008-08-07
DESCRIPTION | 6 +++--- R/exactLRT.R | 4 ++-- R/exactRLRT.R | 24 +++++++++++------------- R/extract.lmerDesign.R | 17 ++++++++--------- man/extract.lmeDesign.Rd | 4 ++-- 5 files changed, 26 insertions(+), 29 deletions(-)
Author: Jae H. Kim
Title: Variance Ratio tests and spectral shape tests for Weak-form Market Efficiency
Description: A collection of variance ratio and spectral shapte tests
Diff between vrtest versions 0.86 dated 2008-04-20 and 0.90 dated 2008-08-06
DESCRIPTION | 10 +++++----- NAMESPACE | 2 +- R/Adjust.thin.R |only R/Auto.VR.R | 2 +- R/Ave.Ex.R |only R/Chen.Deo.R | 2 +- R/IACM.R |only R/ISIMP.R |only R/Spec.shape.R |only R/VR.minus.1.R |only R/VR.plot.R | 1 + R/stat.plot.R | 3 ++- R/wild.R |only data |only man/Adjust.thin.Rd |only man/Auto.VR.Rd | 9 ++++++--- man/Ave.Ex.Rd |only man/Boot.test.Rd | 7 +++++-- man/Chen.Deo.Rd | 7 +++++-- man/Chow.Denning.Rd | 7 +++++-- man/Joint.Wright.Rd | 7 +++++-- man/Lo.Mac.Rd | 7 +++++-- man/Spec.shape.Rd |only man/Subsample.test.Rd | 7 +++++-- man/VR.minus.1.Rd |only man/VR.plot.Rd | 7 +++++-- man/Wald.Rd | 7 +++++-- man/Wright.Rd | 7 +++++-- man/exrates.Rd |only 29 files changed, 62 insertions(+), 30 deletions(-)
Author: Karline Soetaert
Diff between shape versions 1.1 dated 2008-02-21 and 1.2 dated 2008-08-06
Title: Functions for plotting graphical shapes, colors
Description: Functions for plotting graphical shapes
such as ellipses, circles, cylinders, arrows, ...
Support for the book "A practical guide to ecological modelling -
using R as a simulation platform" by Karline Soetaert and Peter M.J. Herman (2008). Springer.
Includes demo(colorshapes)
DESCRIPTION | 11 ++++++-----
demo/colorshapes.r | 4 ++--
inst |only
man/shape.Rd |only
4 files changed, 8 insertions(+), 7 deletions(-)
Author: Original code by many authors, notably
Peter Rousseeuw and Christophe Croux, see file 'Copyrights';
Valentin Todorov
Diff between robustbase versions 0.2-8 dated 2007-06-23 and 0.4-2 dated 2008-08-06
Title: Basic Robust Statistics
Description: "Essential" Robust Statistics. The goal is to provide
tools allowing to analyze data with robust methods. This includes
regression methodology including model selections and multivariate
statistics where we strive to cover the book "Robust Statistics,
Theory and Methods" by Maronna, Martin and Yohai; Wiley 2006.
robustbase-0.2-8/robustbase/man/lmrob.MM.Rd |only
robustbase-0.4-2/robustbase/ChangeLog | 162
robustbase-0.4-2/robustbase/DESCRIPTION | 16
robustbase-0.4-2/robustbase/Done | 16
robustbase-0.4-2/robustbase/NAMESPACE | 18
robustbase-0.4-2/robustbase/R/OGK.R | 2
robustbase-0.4-2/robustbase/R/adjbox.R |only
robustbase-0.4-2/robustbase/R/adjoutlyingness.R |only
robustbase-0.4-2/robustbase/R/anova.lmrob.R | 9
robustbase-0.4-2/robustbase/R/covMcd.R | 190 -
robustbase-0.4-2/robustbase/R/covPlot.R | 2
robustbase-0.4-2/robustbase/R/glmrob.R | 7
robustbase-0.4-2/robustbase/R/glmrobMqle.R | 30
robustbase-0.4-2/robustbase/R/lmrob.MM.R | 173
robustbase-0.4-2/robustbase/R/lmrob.R | 91
robustbase-0.4-2/robustbase/R/ltsReg.R | 20
robustbase-0.4-2/robustbase/R/mc.R |only
robustbase-0.4-2/robustbase/R/plot.lmrob.R | 23
robustbase-0.4-2/robustbase/R/qnsn.R | 22
robustbase-0.4-2/robustbase/R/tolEllipse.R | 8
robustbase-0.4-2/robustbase/TODO | 25
robustbase-0.4-2/robustbase/data/CrohnD.rda |only
robustbase-0.4-2/robustbase/data/ambientNOxCH.rda |only
robustbase-0.4-2/robustbase/data/condroz.rda |only
robustbase-0.4-2/robustbase/data/cushny.R |only
robustbase-0.4-2/robustbase/data/kootenay.tab |only
robustbase-0.4-2/robustbase/data/los.rda |only
robustbase-0.4-2/robustbase/data/pulpfiber.tab |only
robustbase-0.4-2/robustbase/inst/mcnaive.R |only
robustbase-0.4-2/robustbase/man/CrohnD.Rd |only
robustbase-0.4-2/robustbase/man/NOxEmissions.Rd | 5
robustbase-0.4-2/robustbase/man/adjOutlyingness.Rd |only
robustbase-0.4-2/robustbase/man/adjbox.Rd |only
robustbase-0.4-2/robustbase/man/adjboxStats.Rd |only
robustbase-0.4-2/robustbase/man/ambientNOxCH.Rd |only
robustbase-0.4-2/robustbase/man/condroz.Rd |only
robustbase-0.4-2/robustbase/man/covMcd.Rd | 5
robustbase-0.4-2/robustbase/man/covPlot.Rd | 13
robustbase-0.4-2/robustbase/man/cushny.Rd |only
robustbase-0.4-2/robustbase/man/glmrob.Rd | 8
robustbase-0.4-2/robustbase/man/kootenay.Rd |only
robustbase-0.4-2/robustbase/man/lmrob..M..fit.Rd |only
robustbase-0.4-2/robustbase/man/lmrob.Rd | 8
robustbase-0.4-2/robustbase/man/lmrob.fit.MM.Rd | 45
robustbase-0.4-2/robustbase/man/los.Rd |only
robustbase-0.4-2/robustbase/man/mc.Rd |only
robustbase-0.4-2/robustbase/man/pkg-internal.Rd | 4
robustbase-0.4-2/robustbase/man/plot.lmrob.Rd | 16
robustbase-0.4-2/robustbase/man/pulpfiber.Rd |only
robustbase-0.4-2/robustbase/man/summarizeRobWeights.Rd | 8
robustbase-0.4-2/robustbase/man/summary.lmrob.Rd | 28
robustbase-0.4-2/robustbase/man/tukeyPsi1.Rd | 6
robustbase-0.4-2/robustbase/src/init.c | 7
robustbase-0.4-2/robustbase/src/lmrob.c | 47
robustbase-0.4-2/robustbase/src/mc.c |only
robustbase-0.4-2/robustbase/src/qn_sn.c | 142
robustbase-0.4-2/robustbase/src/rf-common.f | 494 +-
robustbase-0.4-2/robustbase/src/rffastmcd.f | 2302 ++++++-------
robustbase-0.4-2/robustbase/src/rfltsreg.f | 1274 +++----
robustbase-0.4-2/robustbase/src/robustbase.h | 27
robustbase-0.4-2/robustbase/src/wgt_himed.c |only
robustbase-0.4-2/robustbase/src/wgt_himed_templ.h |only
robustbase-0.4-2/robustbase/tests/MCD-specials.Rout.save | 144
robustbase-0.4-2/robustbase/tests/binom-ni-small.Rout.save | 15
robustbase-0.4-2/robustbase/tests/lmrob-data.Rout.save | 39
robustbase-0.4-2/robustbase/tests/lmrob-ex12.R | 10
robustbase-0.4-2/robustbase/tests/mc-etc.R |only
robustbase-0.4-2/robustbase/tests/mc-etc.Rout.save |only
robustbase-0.4-2/robustbase/tests/mc-strict.R |only
robustbase-0.4-2/robustbase/tests/poisson-ex.R | 49
robustbase-0.4-2/robustbase/tests/psi-rho-etc.R |only
robustbase-0.4-2/robustbase/tests/tlts.Rout.save | 26
robustbase-0.4-2/robustbase/tests/tmcd.R | 7
robustbase-0.4-2/robustbase/tests/tmcd.Rout.save | 293 -
robustbase-0.4-2/robustbase/tests/wgt-himed-xtra.R | 30
75 files changed, 3140 insertions(+), 2726 deletions(-)
Author: Roland Fried
Diff between robfilter versions 1.0 dated 2008-01-29 and 2.0 dated 2008-08-06
Title: Robust Time Series Filters
Description: A set of functions to filter time series based on concepts from robust statistics.
robfilter-1.0/robfilter/inst/doc/getting_started.dvi |only
robfilter-2.0/robfilter/DESCRIPTION | 17 +-
robfilter-2.0/robfilter/NAMESPACE | 8 +
robfilter-2.0/robfilter/R/adore.filter.R |only
robfilter-2.0/robfilter/R/madore.filter.R |only
robfilter-2.0/robfilter/R/robregfilter.R | 52 +++++--
robfilter-2.0/robfilter/R/wrm-filter.R | 8 -
robfilter-2.0/robfilter/data |only
robfilter-2.0/robfilter/inst/doc/getting_started.aux | 13 +
robfilter-2.0/robfilter/inst/doc/getting_started.log | 132 +++++++++++--------
robfilter-2.0/robfilter/inst/doc/getting_started.pdf |binary
robfilter-2.0/robfilter/inst/doc/getting_started.tex | 50 +++++--
robfilter-2.0/robfilter/man/adore.filter.Rd |only
robfilter-2.0/robfilter/man/const.Rd |only
robfilter-2.0/robfilter/man/critvals.Rd |only
robfilter-2.0/robfilter/man/madore.filter.Rd |only
robfilter-2.0/robfilter/man/multi.ts.Rd |only
robfilter-2.0/robfilter/man/wrm.smooth.Rd | 3
robfilter-2.0/robfilter/src/CircularArray.h | 5
robfilter-2.0/robfilter/src/LQDAdvanced.cpp | 4
robfilter-2.0/robfilter/src/LQDAdvanced.h | 23 ++-
robfilter-2.0/robfilter/src/Line.cpp | 8 +
robfilter-2.0/robfilter/src/Line.h | 14 +-
robfilter-2.0/robfilter/src/MedianFilter.cpp | 5
robfilter-2.0/robfilter/src/MedianFilter.h | 2
robfilter-2.0/robfilter/src/RMquick.cpp | 2
robfilter-2.0/robfilter/src/RMquick.h | 85 ++++++++----
robfilter-2.0/robfilter/src/hammock.cpp | 128 +++++++++++++++---
robfilter-2.0/robfilter/src/hammock.h | 46 +++++-
robfilter-2.0/robfilter/src/robust.cpp | 113 ++++++++++++++--
robfilter-2.0/robfilter/src/segment_tree.cpp | 4
31 files changed, 546 insertions(+), 176 deletions(-)
Author: Daniel Adler
Diff between rgl versions 0.80 dated 2008-07-21 and 0.81 dated 2008-08-06
Title: 3D visualization device system (OpenGL)
Description: 3D visualization device (OpenGL)
DESCRIPTION | 6 +++---
R/fonts.R | 13 -------------
R/zzz.R | 14 +++++++++++++-
cleanup | 3 ++-
configure | 9 ++++++++-
configure.ac | 11 +++++++++--
inst/NEWS | 8 ++++++++
src/Makevars.in | 7 +++++--
src/glgui.cpp | 25 +++++++++++++++++--------
src/glgui.hpp | 3 ++-
src/osxgui.cpp | 11 ++++++++---
src/win32gui.cpp | 13 +++++++++----
src/x11gui.cpp | 13 +++++++++----
13 files changed, 93 insertions(+), 43 deletions(-)
Author: Felix Andrews
Diff between playwith versions 0.9-10 dated 2008-07-29 and 0.9-11 dated 2008-08-06
Title: A GUI for interactive plots using GTK+
Description: A GTK+ graphical user interface for viewing and interacting with R plots.
It tries to work out the structure of a plot, in order to interact with it.
The built-in features include: navigating the data space, identifying data points,
editing and annotating the plot, and saving to a file. New tools can be defined.
Also includes latticist, a lattice-based tool for exploratory visualisation.
DESCRIPTION | 14 -
NAMESPACE | 7
R/API.R | 103 ++++-----
R/autoplay.R |only
R/latticist.R | 542 +++++++++++++++++++++++++++++++++---------------
R/playTools_annotate.R | 9
R/playTools_edit.call.R | 4
R/playTools_inspector.R | 9
R/playTools_time.mode.R | 2
R/playwith.R | 288 +++++++++----------------
R/plotSettingsGui.R | 8
R/settings.R | 1
inst/NEWS | 23 ++
man/callArg.Rd | 17 -
man/latticist.Rd | 46 +++-
man/playwith.Rd | 354 ++++++++++++++++++++-----------
16 files changed, 871 insertions(+), 556 deletions(-)
Author: Alberto Viglione
Title: Non-supervised Regional Frequency Analysis
Description: A collection of statistical tools for objective (non-supervised) applications
of the Regional Frequency Analysis methods in hydrology.
Diff between nsRFA versions 0.5-3 dated 2008-07-18 and 0.5-5 dated 2008-08-06
DESCRIPTION | 6 - R/BayesianMCMC.R | 126 +++++++++++++++++++++++++++++++++-------- inst/doc/Fig1ElamirSeheult.pdf |binary man/BayesianMCMC.Rd | 17 +++-- 4 files changed, 116 insertions(+), 33 deletions(-)
Author: Peter Langfelder
Diff between moduleColor versions 1.06 dated 2008-05-13 and 1.08 dated 2008-08-06
Title: Basic module functions
Description: Methods for color labeling, calculation of eigengenes, merging of closely related modules.
Changelog | 10 +++
DESCRIPTION | 6 +-
R/Functions.R | 105 +++++++++++++++++++++++++++--------------
man/checkSets.Rd | 4 -
man/moduleColor-package.Rd | 12 +---
man/moduleColor.getMEprefix.Rd | 2
man/moduleColor.setMEprefix.Rd | 2
man/moduleEigengenes.Rd | 4 -
man/moduleNumber.Rd | 4 -
man/multiSetMEs.Rd | 5 +
man/plotHclustColors.Rd | 6 +-
11 files changed, 101 insertions(+), 59 deletions(-)
Author: Martin Elff
Title: Convenience Tools for Data Management,
Simulation, and Presentation of Estimates
Description: A couple of tools
for preparing (especially social science) survey data,
conducting simulation studies, and presentation
of results of statistical analyses.
Diff between memisc versions 0.11-10 dated 2008-04-17 and 0.11-11 dated 2008-08-06
DESCRIPTION | 4 ++-- R/mcf.R | 3 ++- 2 files changed, 4 insertions(+), 3 deletions(-)
Author: Doug McIlroy. Packaged for R by Ray Brownrigg and Thomas P Minka.
Title: Map Projections
Description: Converts latitude/longitude into projected coordinates.
Diff between mapproj versions 1.1-7.1 dated 2005-04-26 and 1.1-7.2 dated 2008-08-06
mapproj-1.1-7.1/mapproj/src/mapproj_res.rc |only mapproj-1.1-7.2/mapproj/DESCRIPTION | 6 +++--- mapproj-1.1-7.2/mapproj/R/mapproj.r | 4 +++- 3 files changed, 6 insertions(+), 4 deletions(-)
Author: Douglas Bates
Diff between lme4 versions 0.999375-23 dated 2008-07-29 and 0.999375-24 dated 2008-08-06
Title: Linear mixed-effects models using S4 classes
Description: Fit linear and generalized linear mixed-effects models.
DESCRIPTION | 6 +-
NAMESPACE | 1
R/lmer.R | 42 ++++++++++++++++++-
inst/doc/AGQ.Rnw |only
inst/doc/AGQ.pdf |only
inst/doc/Implementation.pdf |binary
inst/doc/PLSvGLS.pdf |binary
inst/doc/SpecifyingLMMs.Rnw |only
inst/doc/SpecifyingLMMs.pdf |only
inst/doc/Theory.pdf |binary
inst/doc/auto |only
man/ranef.Rd | 4 -
src/init.c | 45 ++++++++++----------
src/lmer.c | 96 ++++++++++++++++++++++++++++++++++++++++++++
src/lmer.h | 1
tests/StratVar.R |only
16 files changed, 167 insertions(+), 28 deletions(-)
Author: Deepayan Sarkar
Diff between lattice versions 0.17-12 dated 2008-07-28 and 0.17-13 dated 2008-08-06
Title: Lattice Graphics
Description: Implementation of Trellis Graphics. See ?Lattice for a
brief introduction
DESCRIPTION | 6 +--
NAMESPACE | 1
NEWS | 6 +++
R/bwplot.R | 18 ++++++---
R/densityplot.R | 7 ++-
R/histogram.R | 7 ++-
R/panels.R | 6 ++-
R/parallel.R | 87 +++++++++++++++++++++++++++++++----------------
R/qqmath.R | 7 ++-
SvnLog | 50 +++++++++++++++++++++++++++
man/panel.densityplot.Rd | 4 +-
man/panel.functions.Rd | 24 ++++++++++--
man/panel.parallel.Rd | 22 ++---------
man/prepanel.default.Rd | 8 +++-
man/splom.Rd | 5 ++
po/R-lattice.pot | 2 -
16 files changed, 189 insertions(+), 71 deletions(-)
Author: Christian Roever, Nils Raabe, Karsten Luebke, Uwe Ligges, Gero Szepannek, Marc Zentgraf
Title: Classification and visualization
Description: Miscellaneous functions for classification and visualization
developed at the Fakultaet Statistik, Technische Universitaet Dortmund
Diff between klaR versions 0.5-6 dated 2008-01-16 and 0.5-7 dated 2008-08-06
Changes-ToDo | 2 +- DESCRIPTION | 8 ++++---- NAMESPACE | 7 ++++++- R/corclust.R |only R/locpvs.R |only man/classscatter.Rd | 1 - man/corclust.Rd |only man/locpvs.Rd |only man/predict.locpvs.Rd |only man/predict.pvs.Rd |only man/pvs.Rd |only 11 files changed, 11 insertions(+), 7 deletions(-)
Author: John Verzani
Title: Toolkit implementation of gWidgets for www
Description: Port of gWidgets API to www using Rpad to link R with a web page and Ext to create widgets.
Diff between gWidgetsWWW versions 0.0-2 dated 2008-07-28 and 0.0-3 dated 2008-08-06
DESCRIPTION | 4 +- NEWS | 10 +++++++ R/aaa.R | 64 ++++++++++++++++++++++++++++----------------- R/common.R | 16 ++++++++++- R/dialogs.R | 6 +--- R/gbutton.R | 3 -- R/gcalendar.R | 23 ++++++++++++---- R/ggooglemaps.R | 33 +++++++++++------------ R/glayout.R | 4 ++ R/gseparator.R | 2 - R/gslider.R | 39 --------------------------- R/gstatusbar.R | 4 +- R/gtable.R | 1 R/gwindow.R | 25 ++++++++--------- TODO.txt | 12 ++++++-- man/gWidgetsWWW-package.Rd | 17 ++++++++++- man/ggooglemaps.Rd | 21 ++++++++------ 17 files changed, 160 insertions(+), 124 deletions(-)
Author: Michael Lawrence, John Verzani
Title: Toolkit implementation of gWidgets for RGtk2
Description: Port of gWidgets API to RGtk2
Diff between gWidgetsRGtk2 versions 0.0-36 dated 2008-07-20 and 0.0-37 dated 2008-08-06
ChangeLog | 6 ++++++ DESCRIPTION | 7 ++++--- R/ggrid.R | 6 +++--- R/ggroup.R | 2 +- 4 files changed, 14 insertions(+), 7 deletions(-)
Author: Peter Langfelder
Diff between dynamicTreeCut versions 1.11-3 dated 2008-04-04 and 1.12 dated 2008-08-06
More information about dynamicTreeCut at CRAN
Title: Methods for detection of clusters in hierarchical clustering dendrograms.
Description: Contains methods for detection of clusters in hierarchical clustering dendrograms.
Changelog | 15 +++++
DESCRIPTION | 8 +--
R/TreeCut.R | 39 ++++++++++-----
R/cutreeDynamic.R | 108 +++++++++++++++++++++---------------------
man/cutreeDynamic.Rd | 10 ++-
man/cutreeDynamicTree.Rd | 4 -
man/cutreeHybrid.Rd | 14 +++--
man/dynamicTreeCut-package.Rd | 8 +--
man/printFlush.Rd | 6 +-
9 files changed, 126 insertions(+), 86 deletions(-)
Permanent link
Author: Karline Soetaert
Diff between diagram versions 1.1 dated 2008-02-21 and 1.2 dated 2008-08-06
Title: Functions for visualising simple graphs (networks), plotting flow diagrams
Description: Visualises simple graphs (networks) based on a transition matrix, utilities to plot flow diagrams,
visualising webs,...
Support for the book "A practical guide to ecological modelling -
using R as a simulation platform"
by Karline Soetaert and Peter M.J. Herman (2008). Springer.
Includes demo(flowchart), demo(plotmat), demo(plotweb)
diagram-1.1/diagram/pdf |only
diagram-1.2/diagram/DESCRIPTION | 10 ++++++----
diagram-1.2/diagram/R/diagram.r | 22 +++++++++++++++-------
diagram-1.2/diagram/inst |only
diagram-1.2/diagram/man/Teasel.Rd | 3 ++-
diagram-1.2/diagram/man/bentarrow.Rd | 3 ++-
diagram-1.2/diagram/man/coordinates.Rd | 3 ++-
diagram-1.2/diagram/man/curvedarrow.Rd | 3 ++-
diagram-1.2/diagram/man/diagram.Rd |only
diagram-1.2/diagram/man/plotmat.Rd | 20 ++++++++++++++++++--
diagram-1.2/diagram/man/plotweb.Rd | 7 ++++---
diagram-1.2/diagram/man/segmentarrow.Rd | 3 ++-
diagram-1.2/diagram/man/selfarrow.Rd | 3 ++-
diagram-1.2/diagram/man/shadowbox.Rd | 3 ++-
diagram-1.2/diagram/man/splitarrow.Rd | 3 ++-
diagram-1.2/diagram/man/straightarrow.Rd | 3 ++-
diagram-1.2/diagram/man/textdiamond.Rd | 3 ++-
diagram-1.2/diagram/man/textellipse.Rd | 3 ++-
diagram-1.2/diagram/man/textempty.Rd | 3 ++-
diagram-1.2/diagram/man/texthexa.Rd | 3 ++-
diagram-1.2/diagram/man/textmulti.Rd | 3 ++-
diagram-1.2/diagram/man/textplain.Rd | 3 ++-
diagram-1.2/diagram/man/textrect.Rd | 3 ++-
diagram-1.2/diagram/man/textround.Rd | 3 ++-
diagram-1.2/diagram/man/treearrow.Rd | 3 ++-
25 files changed, 79 insertions(+), 34 deletions(-)
Author: Katharine M. Mullen
Title: The Stark-Parker algorithm for bounded-variable least squares
Description: An R interface to the Stark-Parker algorithm for bounded-variable least squares
Diff between bvls versions 1.0 dated 2007-12-03 and 1.1 dated 2008-08-06
DESCRIPTION | 5 ++--- R/bvls.R | 2 +- man/bvls.Rd | 35 +++++++++++++++++++++-------------- src/bvls.f | 5 +++-- 4 files changed, 27 insertions(+), 20 deletions(-)
Author: Hsin-ya Lee
Diff between bear versions 1.1.2 dated 2008-07-28 and 1.1.3 dated 2008-08-06
Title: Average bioequivalence and bioavailability data analysis tool
Description: An average bioequivalence (ABE) and bioavailability data analysis tool including sample size estimation, noncompartmental analysis (NCA) and ANOVA (lm) for a standard RT/TR 2-treatment, 2-sequence, 2-period, and balanced, cross-over design
bear-1.1.2/bear/R/rawdata.r |only
bear-1.1.2/bear/man/rawdata.rd |only
bear-1.1.3/bear/DESCRIPTION | 8 -
bear-1.1.3/bear/R/NCAGLManalyze.r | 24 ++++
bear-1.1.3/bear/R/NCAanalyze.r | 29 ++++-
bear-1.1.3/bear/R/demosize.r | 168 +++++++++++++++++++++++----------
bear-1.1.3/bear/R/logdata.r | 189 +++++++++++++++++++++++---------------
bear-1.1.3/bear/R/sizemenu.r | 18 +--
bear-1.1.3/bear/R/zzz.R | 45 ++++-----
bear-1.1.3/bear/man/logdata.rd | 19 +++
10 files changed, 325 insertions(+), 175 deletions(-)
Author: Paul Gilbert
Diff between TSpadi versions 2008.5-1 dated 2008-05-08 and 2008.8-1 dated 2008-08-06
Title: TSdbi Interface to PADI Time Series Server (for e.g. Fame)
Description: Provides methods for generics in the TSdbi package to
connect through a protocol for application database interface (PADI)
to a time series database (e.g. Fame).
DESCRIPTION | 6 +++---
inst/doc/TSpadiFame.pdf |binary
2 files changed, 3 insertions(+), 3 deletions(-)
Author: Paul Gilbert
Diff between TSdbi versions 2008.5-1 dated 2008-05-08 and 2008.8-1 dated 2008-08-06
Title: Time Series Database Interface
Description: TSdbi provides an common interface to time series databases.
TSdbi-2008.5-1/TSdbi/S4checks.R.tex |only
TSdbi-2008.8-1/TSdbi/DESCRIPTION | 6 ++---
TSdbi-2008.8-1/TSdbi/NEWS | 10 ++++++++
TSdbi-2008.8-1/TSdbi/R/TSdbi.R | 12 +++++-----
TSdbi-2008.8-1/TSdbi/R/TSquery.R | 16 ++++++-------
TSdbi-2008.8-1/TSdbi/inst/TSsql/HistQuote.TSsql | 8 +++---
TSdbi-2008.8-1/TSdbi/inst/doc/TSdbi.pdf |binary
TSdbi-2008.8-1/TSdbi/man/TSget.Rd | 4 +--
TSdbi-2008.8-1/TSdbi/man/TSput.Rd | 4 +--
TSdbi-2008.8-1/TSdbi/man/TSquery.Rd | 3 --
TSdbi-2008.8-1/TSdbi/man/standardSQL.Rd | 28 ++++++++++++------------
11 files changed, 50 insertions(+), 41 deletions(-)
Author: Paul Gilbert
Diff between TSSQLite versions 2008.5-1 dated 2008-05-08 and 2008.8-1 dated 2008-08-06
Title: Time Series Database Interface extentions for SQLite
Description: TSSQLite provides a SQLite interface for TSdbi.
DESCRIPTION | 6
R/TSdbiMethods.R | 12
Rplots.pdf |37203 +++++++++++++++++++++++++-------------------------
inst/doc/TSSQLite.pdf |binary
test |binary
5 files changed, 18939 insertions(+), 18282 deletions(-)
Author: Paul Gilbert
Diff between TSMySQL versions 2008.5-1 dated 2008-05-08 and 2008.8-1 dated 2008-08-06
Title: Time Series Database Interface extensions for MySQL
Description: TSMySQL provides a MySQL interface for TSdbi.
TSMySQL-2008.5-1/TSMySQL/S4checks.R.tex |only
TSMySQL-2008.8-1/TSMySQL/DESCRIPTION | 6
TSMySQL-2008.8-1/TSMySQL/R/TSdbiMethods.R | 12
TSMySQL-2008.8-1/TSMySQL/Rplots.pdf |37163 +++++++++++++-------------
TSMySQL-2008.8-1/TSMySQL/inst/doc/TSMySQL.pdf |binary
5 files changed, 18921 insertions(+), 18260 deletions(-)
Author: Daniel Ho
Diff between MatchIt versions 2.4-5 dated 2008-07-21 and 2.4-7 dated 2008-08-06
Title: MatchIt
Description: MatchIt preprocesses data by selecting approximate matched samples
of the treated and control groups with similar covariate
distributions, drawing on a large variety of matching methods.
After preprocessing data with MatchIt, whatever standard parametric
technique one might have used without preprocessing can be used, but
the results will be far less model dependent.
DESCRIPTION | 6
R/matchit.R | 12
R/matchit2subclass.R | 16
R/print.summary.matchit.exact.R | 8
R/summary.matchit.exact.R | 9
inst/doc/index.shtml | 2
inst/doc/matchit.log | 10
inst/doc/matchit.pdf | 1899 +++++++++++++++++++---------------------
inst/doc/matchit.tex | 4
9 files changed, 979 insertions(+), 987 deletions(-)
Author: Corneliu Henegar
Diff between FunNet versions 1.00-2 dated 2008-06-20 and 1.00-3 dated 2008-08-06
Title: Integrative Functional Analysis of Transcriptional Networks
Description: FunNet is an integrative tool for analyzing gene co-expression networks built from
microarray expression data. The analytic model implemented in this library
involves two abstraction layers: transcriptional and functional (biological roles).
A functional profiling technique using Gene Ontology & KEGG annotations is
applied to extract a list of relevant biological themes from
microarray expression profiling data. Afterwards multiple-instance
representations are built to relate significant themes to their
transcriptional instances (i.e. the two layers of the model). An adapted
non-linear dynamical system model is used to quantify the proximity of relevant
genomic themes based on the similarity of the expression profiles of their gene instances.
Eventually an unsupervised multiple-instance clustering procedure, relying on
the two abstraction layers, is used to identify the structure of the co-expression
network composed from modules of functionally related transcripts. Functional
and transcriptional maps of the co-expression network are provided separately
together with detailed information on the network centrality of related transcripts
and genomic themes.
DESCRIPTION | 8 -
R/FunNet.R | 223 +++++++++++++++++++++++++++++++++++------------
R/sysdata.rda |binary
man/normalize.connect.Rd |only
4 files changed, 173 insertions(+), 58 deletions(-)
Author: Ravi Varadhan
Title: Solving and optimizing large-scale nonlinear systems
Description: Barzilai-Borwein Spectral Methods for solving nonlinear system of
equations, and for optimizing nonlinear objective functions subject to simple
constraints.
Diff between BB versions 2008.7-1 dated 2008-07-28 and 2008.8-1 dated 2008-08-06
DESCRIPTION | 6 +++--- NEWS | 10 ++++++++-- R/dfsane.R | 7 ++++++- R/sane.R | 6 ++++++ R/spg.R | 6 ++++++ inst/doc/BB.pdf |binary 6 files changed, 29 insertions(+), 6 deletions(-)
Author: Daniel Adler
Diff between ff versions 1.0-1 dated 2007-11-03 and 2.0.0 dated 2008-08-03
Title: memory-efficient storage of large atomic vectors and arrays on disk and fast access functions
Description: The ff package provides atomic data structures that are stored on
disk but behave (almost) as if they were in RAM by transparently
mapping only a section (pagesize) in main memory - the effective
virtual memory consumption per ff object. ff supports atomic data types
'double', 'logical', 'raw' and 'integer' and close-to-atomic types
'factor', 'POSIXct' and custom close-to-atomic types. ff now has native
C-support for vectors, matrices and arrays with flexible dimorder
(major column-order, major row-order and generalizations for arrays).
ff objects store raw data in binary flat files in native encoding,
and complement this with metadata stored in R as physical and virtual
attributes. ff objects have well-defined hybrid copying semantics,
which gives rise to certain performance improvements through
virtualization. ff objects can be stored and reopened across R
sessions. ff files can be shared by multiple ff R objects
(using different data en/de-coding schemes) in the same process
or from multiple R processes to exploit parallelism. A wide choice of
finalizer options allows to work with 'permanent' files as well as
creating/removing 'temporary' ff files completely transparent to the
user. On certain OS/Filesystem combinations, creating the ff files
works without notable delay thanks to using sparse file allocation.
Several access optimization techniques such as Hybrid Index
Preprocessing and Virtualization are implemented to achieve good
performance even with large datasets, for example virtual matrix
transpose without touching a single byte on disk. Further, to reduce
disk I/O, the atomic data gets stored native and compact on binary flat
files i.e. logicals take up exactly 2 bits to represent TRUE, FALSE
and NA. Beyond basic access functions, the ff package also provides
compatibility functions that facilitate writing code for ff and ram
objects and support for batch processing on ff objects (e.g. as.ram,
as.ff, ffapply).
NOTE: A professional extension is available from the authors, which
integrates additional high-performance features neatly into the ff
package. The extension allows efficient handling of symmetric matrices
and supports more packed data types: boolean (1 bit), quad (2 bit
unsigned), nibble (4 bit unsigned), byte (1 byte signed with NAs),
ubyte (1 byte unsigned), short (2 byte signed with NAs), ushort (2 byte
unsigned), single (4 byte float with NAs). For example 'quad' allows
efficient storage of genomic data as an 'A','T','G','C' factor.
The unsigned types support 'circular' arithmetic.
ff-1.0-1/ff/R/error.R |only
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ff-2.0.0/ff/ANNOUNCEMENT.txt |only
ff-2.0.0/ff/DESCRIPTION | 67
ff-2.0.0/ff/LICENSE | 33
ff-2.0.0/ff/NAMESPACE | 541 +++
ff-2.0.0/ff/R/CFUN.R |only
ff-2.0.0/ff/R/array.R |only
ff-2.0.0/ff/R/as.ff.R |only
ff-2.0.0/ff/R/bigsample.R |only
ff-2.0.0/ff/R/ff.R | 4469 +++++++++++++++++++++++++++-
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ff-2.0.0/ff/R/ffreturn.R |only
ff-2.0.0/ff/R/generics.R |only
ff-2.0.0/ff/R/getpagesize.R | 74
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ff-2.0.0/ff/README_devel.txt |only
ff-2.0.0/ff/configure | 591 +++
ff-2.0.0/ff/configure.ac | 5
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ff-2.0.0/ff/man/rlepack.rd |only
ff-2.0.0/ff/man/swap.rd |only
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ff-2.0.0/ff/man/symmetric.rd |only
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ff-2.0.0/ff/man/undim.rd |only
ff-2.0.0/ff/man/unsort.rd |only
ff-2.0.0/ff/man/update.ff.rd |only
ff-2.0.0/ff/man/vecprint.rd |only
ff-2.0.0/ff/man/vector.vmode.rd |only
ff-2.0.0/ff/man/vector2array.rd |only
ff-2.0.0/ff/man/vectorIndex2arrayIndex.rd |only
ff-2.0.0/ff/man/vmode.rd |only
ff-2.0.0/ff/man/vt.rd |only
ff-2.0.0/ff/man/vw.rd |only
ff-2.0.0/ff/prebuild.sh |only
ff-2.0.0/ff/src/Array.hpp | 363 +-
ff-2.0.0/ff/src/Error.cpp | 19
ff-2.0.0/ff/src/Error.hpp | 21
ff-2.0.0/ff/src/FSInfo.hpp | 62
ff-2.0.0/ff/src/FSInfo_statfs.cpp | 18
ff-2.0.0/ff/src/FSInfo_win32.cpp | 18
ff-2.0.0/ff/src/FileMapping.hpp | 80
ff-2.0.0/ff/src/MMapFileMapping.cpp | 55
ff-2.0.0/ff/src/MMapFileMapping.hpp | 205 -
ff-2.0.0/ff/src/Win32FileMapping.cpp | 82
ff-2.0.0/ff/src/Win32FileMapping.hpp | 247 -
ff-2.0.0/ff/src/ac_config.h.in | 21
ff-2.0.0/ff/src/config.h | 10
ff-2.0.0/ff/src/ff.cpp | 353 +-
ff-2.0.0/ff/src/ff.h | 95
ff-2.0.0/ff/src/r_ff.c |only
ff-2.0.0/ff/src/r_ff.h |only
ff-2.0.0/ff/src/r_ff_addgetset.h |only
ff-2.0.0/ff/src/r_ff_makevmodes.h |only
ff-2.0.0/ff/src/r_ff_methoddeclaration.h |only
ff-2.0.0/ff/src/r_ff_methodswitch.h |only
ff-2.0.0/ff/src/types.hpp | 52
ff-2.0.0/ff/src/utk_config.hpp |only
ff-2.0.0/ff/src/utk_file_allocate_fseek.cpp |only
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ff-2.0.0/ff/src/utk_platform_macros.hpp |only
144 files changed, 6748 insertions(+), 733 deletions(-)
Author: Graham Williams
Diff between rattle versions 2.3.46 dated 2008-07-07 and 2.3.65 dated 2008-08-02
Title: A graphical user interface for data mining in R using GTK
Description: Rattle provides a Gnome (RGtk2) based interface to
R functionality for data mining. The aim is to provide
a simple and intuitive interface that allows a user to quickly
load data from a CSV file (or via ODBC), transform and explore the data,
and build and evaluate models, and export models as PMML (predictive
modelling markup language). All of this with knowing little about R.
All R commands are logged and available for the user, as a tool to
then begin interacting directly with R itself, if so desired. Rattle also
exports a number of utility functions and the graphical user interface does
not need to be run to deploy these.
CITATION |only
DESCRIPTION | 10
R/associate.R | 63 +-
R/cluster.R | 210 +-----
R/data.R | 332 +++++++---
R/export.R | 18
R/model.R | 435 ++++++++++---
R/nnet.R | 9
R/projects.R | 56 +
R/random_forest.R | 8
R/rattle.R | 711 +++++++++++++++-------
R/rpart.R | 188 +++---
data/audit.RData |binary
inst/arff/audit.arff | 8
inst/csv/audit.csv | 20
inst/etc/rattle.glade | 1554 ++++++++++++++++++++++++++------------------------
man/internal.Rd | 4
17 files changed, 2147 insertions(+), 1479 deletions(-)
Author: Rob J Hyndman
Diff between forecasting versions 1.13 dated 2008-06-16 and 1.14 dated 2008-08-02
Bundle: forecasting
Contains: forecast fma Mcomp expsmooth
DESCRIPTION | 6 +++---
Mcomp/data/M1.rda |binary
Mcomp/data/M3.rda |binary
3 files changed, 3 insertions(+), 3 deletions(-)
Author: Martin Maechler and many others.
Title: Utilities from Seminar fuer Statistik ETH Zurich
Description: Useful utilities ['goodies'] from Seminar fuer Statistik ETH
Zurich, many ported from S-plus times.
Diff between sfsmisc versions 1.0-3 dated 2008-06-26 and 1.0-4 dated 2008-08-02
ChangeLog | 15 ++++++++++++++- DESCRIPTION | 6 +++--- R/misc-goodies.R | 9 +++++---- R/zzz.R | 3 +-- embedded-nul-BDR.mail |only inst/ChangeLog | 15 ++++++++++++++- man/AsciiToInt.Rd | 13 ++++++++----- tests/misc.R |only 8 files changed, 45 insertions(+), 16 deletions(-)
Author: Ulrike Groemping
Title: Inequality constrained inference in linear normal situations
Description: This package implements parameter estimation in normal (linear) models under linear equality and inequality constraints and implements normal likelihood ratio tests involving inequality-constrained hypotheses. For inequality-constrained linear models, averaging over R-squared for different orderings of regressors is also included.
Diff between ic.infer versions 0.8-1 dated 2008-07-17 and 0.8-3 dated 2008-08-02
DESCRIPTION | 8 - R/all.R2.R | 78 +++++---- R/boot.orlm.R | 47 +++-- R/ic.est.r | 103 +++++++----- R/ic.test.R | 392 ++++++++++++++++++++++++++++--------------------- R/ic.weights.R | 87 ++++++---- R/or.relimp.R | 9 - R/orlm.R | 132 +++++++++------- R/orlm.forboot.R | 10 - R/orlm.forboot.fixed.R | 6 R/plot.orlm.R | 8 - R/print.ict.R | 8 - R/print.orlm.R | 1 R/summary.ict.R | 181 ++++++++++++++-------- R/summary.orest.R |only R/summary.orlm.R | 244 +++++++++++++++++++----------- inst/doc/News.pdf |binary man/ic.est.Rd | 11 + man/ic.test.rd | 25 ++- man/ic.weights.rd | 9 - man/orlm.rd | 12 + 21 files changed, 834 insertions(+), 537 deletions(-)
Author: R-core members, Saikat DebRoy
Diff between foreign versions 0.8-27 dated 2008-07-16 and 0.8-28 dated 2008-08-02
Title: Read Data Stored by Minitab, S, SAS, SPSS, Stata, Systat, dBase, ...
Description: Functions for reading and writing data stored by statistical
packages such as Minitab, S, SAS, SPSS, Stata, Systat, ...,
and for reading and writing .dbf (dBase) files.
foreign-0.8-27/foreign/K_Van_Dijck_patch |only
foreign-0.8-27/foreign/K_Van_Dijck_patch-2 |only
foreign-0.8-27/foreign/src/sfm-read.c.orig |only
foreign-0.8-27/foreign/src/sfm-read.c.rej |only
foreign-0.8-27/foreign/src/var.h.in.orig |only
foreign-0.8-27/foreign/src/var.h.in.rej |only
foreign-0.8-28/foreign/ChangeLog | 15 ++++++++++++---
foreign-0.8-28/foreign/DESCRIPTION | 6 +++---
foreign-0.8-28/foreign/src/minitab.c | 2 +-
foreign-0.8-28/foreign/src/sfm-read.c | 9 ++++-----
10 files changed, 20 insertions(+), 12 deletions(-)
Author: S original by Venables & Ripley.
R port by Brian Ripley
Diff between VR versions 7.2-42 dated 2008-05-05 and 7.2-43 dated 2008-08-02
Bundle: VR
Contains: MASS class nnet spatial
DESCRIPTION | 6 +++---
MASS/R/negbin.R | 4 ++--
MASS/R/polr.R | 2 +-
MASS/R/profiles.R | 8 ++++----
MASS/inst/NEWS | 5 +++++
MASS/man/confint.Rd | 7 ++++---
MASS/man/plot.profile.Rd |only
MASS/man/profile.glm.Rd |only
MASS/tests/glm.nb.R | 21 +++++++++++++++++++++
WHATS.NEW | 6 +++++-
10 files changed, 45 insertions(+), 14 deletions(-)
Author: Eun-Kyung Lee, Sung Gon Yi, Yoojin Jung, Junghyun Namkung, Taesung Park
Title: ORMDR
Description: Odds ratio based multifactor-dimensionality reduction method for detecting gene-gene interactions
Diff between ORMDR versions 1.2 dated 2008-03-07 and 1.3 dated 2008-08-02
DESCRIPTION | 16 ++-- R/mdr_revised.R | 203 +++++++++++++++++++++++++++++++------------------------- man/mdr.c.Rd | 3 3 files changed, 124 insertions(+), 98 deletions(-)
Author: Arnaud Le Rouzic, 2007-2008
Title: Implementation of the Natural and Orthogonal InterAction (NOIA) model
Description: The NOIA model, as described extensively in Alvarez-Castro & Carlborg (2007), is a framework facilitating the estimation of genetic effects and genotype-to-phenotype maps. This package provides the basic tools to perform linear and multilinear regressions from real populations (provided the phenotype and the genotype of every individuals), estimating the genetic effects from different reference points, the genotypic values, and the decomposition of genetic variances in a multi-locus, 2 alleles system. This package is presented in Le Rouzic & Alvarez-Castro (2008).
Diff between noia versions 0.91 dated 2008-04-27 and 0.92 dated 2008-08-01
DESCRIPTION | 10 +- R/GPmap.R | 7 + R/Sloc.R | 20 ++-- R/bilinearStep.R |only R/checkgenZ.R |only R/effectsNamesGeneral.R | 6 + R/effectsSelect.R | 26 +---- R/effectsVariances.R | 18 ++-- R/genZ2S.R | 18 +++- R/genZ2X.R |only R/genZ2ZS.R |only R/geneticEffects.R | 12 +- R/linearRegression.R | 45 ++-------- R/multilinearRegression.R | 188 +++++++++++++++++++++++++++--------------- R/partialX.R |only R/prepareRegression.R |only R/print.noia.common.R | 14 +-- R/reconstructLinearEffects.R | 4 R/startingValues.R | 90 ++++++++++++++++++-- R/startingValuesLinear.R | 41 ++++++--- R/startingValuesMultilinear.R | 10 +- R/startingValuesNothing.R |only R/startingValuesReg.R |only R/statusMaxDom.R |only R/statusMaxLevel.R |only man/A_noia-package.Rd | 34 ++++--- man/B_geneticRegression.Rd | 41 +++++---- man/GPmap.Rd | 4 man/effectsNames.Rd | 44 ++++++--- man/geneticEffects.Rd | 16 ++- man/genotypesNames.Rd | 6 - man/matrix2list.Rd | 2 man/multilinearTools.Rd | 56 +++++++++--- man/noiaMatrix.Rd | 34 ++++++- man/printNoia.Rd | 4 man/simulatePop.Rd | 2 man/varianceDecomposition.Rd | 5 - 37 files changed, 486 insertions(+), 271 deletions(-)
Author: David Meyer, Achim Zeileis, Kurt Hornik
Title: Visualizing Categorical Data
Description: Visualization techniques, data sets, summary and inference
procedures aimed particularly at categorical data. Special
emphasis is given to highly extensible grid graphics. The
package was inspired by the book "Visualizing Categorical Data"
by Michael Friendly.
Diff between vcd versions 1.0-8 dated 2008-05-08 and 1.0-9 dated 2008-08-01
vcd-1.0-8/vcd/inst/doc/Rplots.ps |only vcd-1.0-8/vcd/inst/doc/bkde.png |only vcd-1.0-8/vcd/inst/doc/bkde2.png |only vcd-1.0-8/vcd/inst/doc/class.png |only vcd-1.0-8/vcd/inst/doc/hcl-colors-arthritis1.pdf |only vcd-1.0-8/vcd/inst/doc/hcl-colors-pal-d1.pdf |only vcd-1.0-8/vcd/inst/doc/hcl-colors-pal-q1.pdf |only vcd-1.0-8/vcd/inst/doc/hcl-colors-pal-s1.pdf |only vcd-1.0-8/vcd/inst/doc/hcl-colors-seats1.pdf |only vcd-1.0-8/vcd/inst/doc/hcl-colors-votes1.pdf |only vcd-1.0-8/vcd/inst/doc/hcl-colors.aux |only vcd-1.0-8/vcd/inst/doc/hcl-colors.bbl |only vcd-1.0-8/vcd/inst/doc/hcl-colors.blg |only vcd-1.0-8/vcd/inst/doc/hcl-colors.log |only vcd-1.0-8/vcd/inst/doc/hcl-colors.out |only vcd-1.0-8/vcd/inst/doc/hcl-colors.tex |only vcd-1.0-8/vcd/inst/doc/residual-shadings-Arthritis-classic1.pdf |only vcd-1.0-8/vcd/inst/doc/residual-shadings-Punishment-assoc1.pdf |only vcd-1.0-8/vcd/inst/doc/residual-shadings-Punishment-mosaic1.pdf |only vcd-1.0-8/vcd/inst/doc/residual-shadings-alzheimer-plot1.pdf 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Author: Barry Rowlingson
Diff between splancs versions 2.01-23 dated 2007-08-25 and 2.01-24 dated 2008-08-01
Title: Spatial and Space-Time Point Pattern Analysis
Description: Spatial and Space-Time Point Pattern Analysis Functions
DESCRIPTION | 6 +++---
R/spkernel2d.R | 6 ++++--
2 files changed, 7 insertions(+), 5 deletions(-)
Author: Tuomas Rajala
Title: Graphs for spatial point patterns
Description: Graphs, graph visualization and graph component calculations, ment to be used as a tool in
spatial point pattern analysis. See package 'spatstat' for more info about spatial point patterns.
Diff between spatgraphs versions 0.52 dated 2007-11-17 and 2.01 dated 2008-08-01
spatgraphs-0.52/spatgraphs/.cdtproject |only spatgraphs-0.52/spatgraphs/.cproject |only spatgraphs-0.52/spatgraphs/R/dists.R |only spatgraphs-0.52/spatgraphs/R/graphs.R |only spatgraphs-0.52/spatgraphs/R/plotting.R |only spatgraphs-0.52/spatgraphs/R/summaries.R |only spatgraphs-0.52/spatgraphs/man/spatgraphs-ccc_graph.Rd |only spatgraphs-0.52/spatgraphs/man/spatgraphs-clusfun.Rd |only spatgraphs-0.52/spatgraphs/man/spatgraphs-confun.Rd |only spatgraphs-0.52/spatgraphs/man/spatgraphs-cumconfun.Rd |only spatgraphs-0.52/spatgraphs/man/spatgraphs-gabriel_graph.Rd |only spatgraphs-0.52/spatgraphs/man/spatgraphs-mst_cut.Rd |only spatgraphs-0.52/spatgraphs/man/spatgraphs-mst_prune.Rd |only spatgraphs-0.52/spatgraphs/man/spatgraphs-plot_clusters.Rd |only spatgraphs-0.52/spatgraphs/man/spatgraphs-plot_graphs.Rd |only spatgraphs-0.52/spatgraphs/man/spatgraphs-print.sgc.Rd |only spatgraphs-0.52/spatgraphs/man/spatgraphs-sg_dists.Rd |only spatgraphs-0.52/spatgraphs/man/spatgraphs-sgcluster.Rd |only spatgraphs-0.52/spatgraphs/man/spatgraphs-sgclusterlist.Rd |only spatgraphs-0.52/spatgraphs/man/spatgraphs-spin3d.Rd |only spatgraphs-0.52/spatgraphs/src/sg_clustering.c |only spatgraphs-0.52/spatgraphs/src/sg_clustering.h |only spatgraphs-0.52/spatgraphs/src/sg_dists.c |only spatgraphs-0.52/spatgraphs/src/sg_dists.h |only spatgraphs-0.52/spatgraphs/src/sg_summaries.c |only spatgraphs-0.52/spatgraphs/src/sg_summaries.h |only spatgraphs-0.52/spatgraphs/src/spatgraphs.c |only spatgraphs-0.52/spatgraphs/src/spatgraphs.h |only spatgraphs-2.01/spatgraphs/.project | 6 spatgraphs-2.01/spatgraphs/DESCRIPTION | 13 - spatgraphs-2.01/spatgraphs/INDEX | 1 spatgraphs-2.01/spatgraphs/R/First.R | 6 spatgraphs-2.01/spatgraphs/R/adjacency.R |only spatgraphs-2.01/spatgraphs/R/class.R | 73 +++++++--- spatgraphs-2.01/spatgraphs/R/clustering.R | 41 ------ spatgraphs-2.01/spatgraphs/R/graphtodxf.R |only spatgraphs-2.01/spatgraphs/R/mstoperations.R |only spatgraphs-2.01/spatgraphs/R/others.R |only spatgraphs-2.01/spatgraphs/R/plot.R |only spatgraphs-2.01/spatgraphs/R/runif3d.R | 28 +++- spatgraphs-2.01/spatgraphs/R/spatgraph.R |only spatgraphs-2.01/spatgraphs/R/sumfuns.R |only spatgraphs-2.01/spatgraphs/ToAdd.TXT0 | 59 +++++--- spatgraphs-2.01/spatgraphs/man/spatgraphs-cut.sg.Rd |only spatgraphs-2.01/spatgraphs/man/spatgraphs-mailer.Rd |only spatgraphs-2.01/spatgraphs/man/spatgraphs-package.Rd | 87 +++++++------ spatgraphs-2.01/spatgraphs/man/spatgraphs-plot.sg.Rd |only spatgraphs-2.01/spatgraphs/man/spatgraphs-print.sg.Rd | 4 spatgraphs-2.01/spatgraphs/man/spatgraphs-runif3d.Rd | 19 +- spatgraphs-2.01/spatgraphs/man/spatgraphs-sg.Rd | 15 +- spatgraphs-2.01/spatgraphs/man/spatgraphs-sg2dxf.Rd |only spatgraphs-2.01/spatgraphs/man/spatgraphs-sgc.Rd | 4 spatgraphs-2.01/spatgraphs/man/spatgraphs-shake.Rd |only spatgraphs-2.01/spatgraphs/man/spatgraphs-spatcluster.Rd |only spatgraphs-2.01/spatgraphs/man/spatgraphs-spatgraph.Rd | 54 ++++++-- spatgraphs-2.01/spatgraphs/src/Graph.cpp |only spatgraphs-2.01/spatgraphs/src/Graph.h |only spatgraphs-2.01/spatgraphs/src/Pp.cpp |only spatgraphs-2.01/spatgraphs/src/Pp.h |only spatgraphs-2.01/spatgraphs/src/Rextras.cpp |only spatgraphs-2.01/spatgraphs/src/Rextras.h |only spatgraphs-2.01/spatgraphs/src/clustering.cpp |only spatgraphs-2.01/spatgraphs/src/cutprune.cpp |only spatgraphs-2.01/spatgraphs/src/dists.cpp |only spatgraphs-2.01/spatgraphs/src/dists.h |only spatgraphs-2.01/spatgraphs/src/rgraph.cpp |only 66 files changed, 247 insertions(+), 163 deletions(-)
Author: Jens Oehlschlägel
Diff between rindex versions 0.06 dated 2007-10-22 and 0.08 dated 2008-08-01
Title: Indexing for R
Description: Index structures allow quickly accessing elements from large collections.
While btree are optimized for disk databases and ttree for ram databases we use hybrid static indexing which is quite optimal for R.
DESCRIPTION | 10 +++++-----
R/index.R | 4 ++--
src/index.c | 12 ++++++------
src/zzz.c | 2 +-
4 files changed, 14 insertions(+), 14 deletions(-)
Author: Aaron A. King, Edward L. Ionides, Carles Martinez Breto
Title: Partially-observed Markov processes
Description: Inference methods for partially-observed Markov processes
Diff between pomp versions 0.20-4 dated 2008-07-21 and 0.20-8 dated 2008-08-01
DESCRIPTION | 6 R/aaa.R | 101 +---- R/compare.mif.R | 2 R/dmeasure-pomp.R | 2 R/dprocess-pomp.R | 2 R/euler.R | 8 R/init.state-pomp.R | 2 R/mif-methods.R | 2 R/mif.R | 145 ++++++-- R/particles-mif.R | 8 R/pfilter-mif.R | 3 R/pfilter.R | 16 R/plot-pomp.R | 4 R/pomp-methods.R | 24 - R/pomp.R | 68 ++-- R/rmeasure-pomp.R | 2 R/rprocess-pomp.R | 2 R/simulate-pomp.R | 4 R/skeleton-pomp.R | 2 R/sobol.R | 4 data/ou2.rda |binary inst/ChangeLog | 629 ++++--------------------------------- inst/NEWS | 22 + inst/O_CHANGES |only inst/doc/.build.timestamp |only inst/doc/Rplots.pdf |only inst/doc/compiled_code_in_pomp.pdf |binary inst/doc/intro_to_pomp.Rnw | 6 inst/doc/intro_to_pomp.pdf |binary inst/examples/logistic.R | 2 inst/examples/rw2.R | 2 inst/examples/sir.R | 146 ++++---- man/mif.Rd | 52 ++- man/pomp.Rd | 26 - src/ou2.c | 2 tests/examples.R |only tests/ou2-mif.R | 11 tests/ou2-mif.Rout.save | 17 - 38 files changed, 448 insertions(+), 874 deletions(-)
Author: Paul Murrell and Richard Walton.
Title: Importing Vector Graphics
Description: Functions for converting, importing, and drawing PostScript
pictures in R plots.
Diff between grImport versions 0.3 dated 2008-07-28 and 0.3-1 dated 2008-08-01
DESCRIPTION | 6 +++--- NAMESPACE | 2 +- inst/doc/changes.txt | 6 ++++++ 3 files changed, 10 insertions(+), 4 deletions(-)
Author: Marcelino de la Cruz Rot, with contributions of Philip M. Dixon
Title: Functions for spatial point pattern analysis
Description: Some wrappers, functions and data sets for for spatial point pattern analysis (mainly based on spatstat), used in the book "Introduccion al Analisis Espacial de Datos en Ecologia y Ciencias Ambientales: Metodos y Aplicaciones".
Diff between ecespa versions 1.0-3 dated 2007-11-11 and 1.1-0 dated 2008-08-01
ecespa-1.0-3/ecespa/R/getis.plot.R |only ecespa-1.0-3/ecespa/R/marksum.plot.R |only ecespa-1.0-3/ecespa/man/ecespa-package.Rd |only ecespa-1.1-0/ecespa/DESCRIPTION | 10 ecespa-1.1-0/ecespa/R/K012.R | 107 ++++---- ecespa-1.1-0/ecespa/R/K1K2.R | 149 ++++++------ ecespa-1.1-0/ecespa/R/Kci.R |only ecespa-1.1-0/ecespa/R/Kclust.R | 5 ecespa-1.1-0/ecespa/R/Ki.R |only ecespa-1.1-0/ecespa/R/Kinhom.log.R |only ecespa-1.1-0/ecespa/R/Kmm.R | 77 ++++-- ecespa-1.1-0/ecespa/R/Kmulti.ls.R | 18 - ecespa-1.1-0/ecespa/R/NNid.R | 27 -- ecespa-1.1-0/ecespa/R/check.R | 14 - ecespa-1.1-0/ecespa/R/dixon2002.R | 146 +++++------- ecespa-1.1-0/ecespa/R/getis.R | 35 +- ecespa-1.1-0/ecespa/R/ginv.R | 25 -- ecespa-1.1-0/ecespa/R/haz.ppp.R | 19 - ecespa-1.1-0/ecespa/R/ipc.estK.R |only ecespa-1.1-0/ecespa/R/mNNinfo.R | 62 +---- ecespa-1.1-0/ecespa/R/mNNinfo2.R | 302 ++++++++++++------------- ecespa-1.1-0/ecespa/R/mNNtest.R | 55 +--- ecespa-1.1-0/ecespa/R/marksum.R | 54 ++-- ecespa-1.1-0/ecespa/R/p2colasr.R | 34 +- ecespa-1.1-0/ecespa/R/pc.estK.R | 19 - ecespa-1.1-0/ecespa/R/plot.ecespa.getis.R |only ecespa-1.1-0/ecespa/R/plot.ecespa.kci.R |only ecespa-1.1-0/ecespa/R/plot.ecespa.kmm.R |only ecespa-1.1-0/ecespa/R/plot.ecespa.marksum.R |only ecespa-1.1-0/ecespa/R/plot.ecespa.minconfit.R |only ecespa-1.1-0/ecespa/R/plot.ecespa.syrjala.R |only ecespa-1.1-0/ecespa/R/print.ecespa.getis.R |only ecespa-1.1-0/ecespa/R/print.ecespa.kci.R |only ecespa-1.1-0/ecespa/R/print.ecespa.kmm.R |only ecespa-1.1-0/ecespa/R/print.ecespa.marksum.R |only ecespa-1.1-0/ecespa/R/print.ecespa.minconfit.R |only ecespa-1.1-0/ecespa/R/print.ecespa.syrjala.R |only ecespa-1.1-0/ecespa/R/rIPCP.R |only ecespa-1.1-0/ecespa/R/sim.poissonc.R | 60 ++-- ecespa-1.1-0/ecespa/R/syrjala.test.R |only ecespa-1.1-0/ecespa/data/Helianthemum.rda |binary ecespa-1.1-0/ecespa/data/fig1.rda |binary ecespa-1.1-0/ecespa/data/fig2.rda |binary ecespa-1.1-0/ecespa/data/fig3.rda |binary ecespa-1.1-0/ecespa/data/gypsophylous.rda |binary ecespa-1.1-0/ecespa/data/quercusvm.rda |only ecespa-1.1-0/ecespa/data/seedlings1.rda |binary ecespa-1.1-0/ecespa/data/seedlings2.rda |binary ecespa-1.1-0/ecespa/data/swamp.rda |binary ecespa-1.1-0/ecespa/data/syr1.rda |only ecespa-1.1-0/ecespa/data/syr2.rda |only ecespa-1.1-0/ecespa/data/syr3.rda |only ecespa-1.1-0/ecespa/inst |only ecespa-1.1-0/ecespa/man/00ecespa.Rd |only ecespa-1.1-0/ecespa/man/Helianthemum.Rd | 13 - ecespa-1.1-0/ecespa/man/K012.Rd | 12 ecespa-1.1-0/ecespa/man/K1K2.rd | 10 ecespa-1.1-0/ecespa/man/Kci.Rd |only ecespa-1.1-0/ecespa/man/Kinhom.log.rd |only ecespa-1.1-0/ecespa/man/Kmm.Rd | 79 +++++- ecespa-1.1-0/ecespa/man/getis.rd | 27 +- ecespa-1.1-0/ecespa/man/ipc.estK.Rd |only ecespa-1.1-0/ecespa/man/marksum.rd | 42 +-- ecespa-1.1-0/ecespa/man/pc.estK.rd | 13 - ecespa-1.1-0/ecespa/man/quercusvm.Rd |only ecespa-1.1-0/ecespa/man/rIPCP.Rd |only ecespa-1.1-0/ecespa/man/sim.poissonc.rd | 7 ecespa-1.1-0/ecespa/man/syrjala.data.Rd |only ecespa-1.1-0/ecespa/man/syrjala.test.Rd |only 69 files changed, 743 insertions(+), 678 deletions(-)
Author: Karline Soetaert
Diff between deSolve versions 1.2-1 dated 2008-07-21 and 1.2-2 dated 2008-08-01
Title: General solvers for ordinary differential equations
(ODE) and for differential algebraic equations (DAE)
Description: Functions that solve a system of first-order ordinary
differential equations (ODE) and of differential algebraic
equations (DAE).
The functions provide an interface to the FORTRAN functions
lsoda, lsodar, lsode, lsodes, dvode and daspk.
The package also contains routines designed for solving
uni-and multicomponent 1-D and 2-D reactive transport models.
DESCRIPTION | 38 -
R/rk.R | 25
R/rk4.R | 15
R/rkAuto.R | 17
R/rkFixed.R | 68 +-
inst/doc/compiledCode.pdf | 1429 +++++++++++++++++++++++-----------------------
inst/svnversion | 2
man/ode.Rd | 4
man/rk.Rd | 15
man/rk4.Rd | 28
10 files changed, 845 insertions(+), 796 deletions(-)
Author: Rasmus E. Benestad
Diff between clim.pact versions 2.2-14 dated 2008-04-10 and 2.2-15 dated 2008-08-01
Title: Climate analysis and empirical-statistical downscaling (ESD) package for monthly and daily data.
Description: The package contains R functions for retrieving data, making climate analysis and downscaling of monthly mean and daily mean global climate scenarios. (Windows-users may need to obtain the 'ncdf' package from URL 'http://www.stats.ox.ac.uk/pub/RWin/' to get clim.pact to work). The package is also described in the book 'Empirical-Statistical Downscaling (http://www.worldscibooks.com/environsci/6908.html)
clim.pact-2.2-14/clim.pact/data/addland.R |only
clim.pact-2.2-14/clim.pact/data/addland.Rdata |only
clim.pact-2.2-14/clim.pact/data/addland2.R |only
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clim.pact-2.2-14/clim.pact/data/eof.dc.R |only
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clim.pact-2.2-14/clim.pact/data/eof.dmc.R |only
clim.pact-2.2-14/clim.pact/data/eof.dmc.Rdata |only
clim.pact-2.2-14/clim.pact/data/eof.mc.R |only
clim.pact-2.2-14/clim.pact/data/eof.mc.Rdata |only
clim.pact-2.2-14/clim.pact/data/eof.slp.R |only
clim.pact-2.2-14/clim.pact/data/eof.slp.Rdata |only
clim.pact-2.2-14/clim.pact/data/helsinki.t2m.R |only
clim.pact-2.2-14/clim.pact/data/helsinki.t2m.Rdata |only
clim.pact-2.2-14/clim.pact/data/koebenhavn.t2m.R |only
clim.pact-2.2-14/clim.pact/data/koebenhavn.t2m.Rdata |only
clim.pact-2.2-14/clim.pact/data/meta.nacd.R |only
clim.pact-2.2-14/clim.pact/data/meta.nacd.Rdata |only
clim.pact-2.2-14/clim.pact/data/nordklim.meta.R |only
clim.pact-2.2-14/clim.pact/data/nordklim.meta.Rdata |only
clim.pact-2.2-14/clim.pact/data/nordklim.meta.Rdata_old |only
clim.pact-2.2-14/clim.pact/data/oslo.t2m.R |only
clim.pact-2.2-14/clim.pact/data/oslo.t2m.Rdata |only
clim.pact-2.2-14/clim.pact/data/stockholm.t2m.R |only
clim.pact-2.2-14/clim.pact/data/stockholm.t2m.Rdata |only
clim.pact-2.2-14/clim.pact/data/tromsoe.t2m.R |only
clim.pact-2.2-14/clim.pact/data/tromsoe.t2m.Rdata |only
clim.pact-2.2-15/clim.pact/DESCRIPTION | 10 +++---
clim.pact-2.2-15/clim.pact/R/R2cdf.R | 6 +--
clim.pact-2.2-15/clim.pact/R/combine.R |only
clim.pact-2.2-15/clim.pact/R/corField.R | 22 ++++++++++++--
clim.pact-2.2-15/clim.pact/R/ds.R | 3 -
clim.pact-2.2-15/clim.pact/R/eof.R | 10 +++---
clim.pact-2.2-15/clim.pact/R/map.R | 3 +
clim.pact-2.2-15/clim.pact/R/mapField.R | 16 +++++-----
clim.pact-2.2-15/clim.pact/R/plotEOF.R | 25 ++++++++++++++--
clim.pact-2.2-15/clim.pact/R/plotStation.R | 4 +-
clim.pact-2.2-15/clim.pact/R/retrieve.nc.R | 17 +++++++---
clim.pact-2.2-15/clim.pact/R/satellite.R | 11 +++++--
clim.pact-2.2-15/clim.pact/data/addland.rda |only
clim.pact-2.2-15/clim.pact/data/addland2.rda |only
clim.pact-2.2-15/clim.pact/data/bergen.t2m.da |only
clim.pact-2.2-15/clim.pact/data/eof.c.rda |only
clim.pact-2.2-15/clim.pact/data/eof.dc.rda |only
clim.pact-2.2-15/clim.pact/data/eof.dmc.rda |only
clim.pact-2.2-15/clim.pact/data/eof.mc.rda |only
clim.pact-2.2-15/clim.pact/data/eof.slp.rda |only
clim.pact-2.2-15/clim.pact/data/helsinki.t2m.rda |only
clim.pact-2.2-15/clim.pact/data/koebenhavn.t2m.rda |only
clim.pact-2.2-15/clim.pact/data/meta.nacd.rda |only
clim.pact-2.2-15/clim.pact/data/nordklim.meta.rda |only
clim.pact-2.2-15/clim.pact/data/oslo.t2m.rda |only
clim.pact-2.2-15/clim.pact/data/stockholm.t2m.rda |only
clim.pact-2.2-15/clim.pact/data/tromsoe.t2m.rda |only
clim.pact-2.2-15/clim.pact/man/mixFields.Rd | 20 ++++++++++++
clim.pact-2.2-15/clim.pact/man/plot.station.Rd | 2 -
58 files changed, 109 insertions(+), 40 deletions(-)
Author: Max Kuhn. Contributions from Jed Wing, Steve Weston and Andre Williams
Title: Classification and Regression Training
Description: Misc functions for training and plotting classification and regression models
Diff between caret versions 3.25 dated 2008-07-12 and 3.32 dated 2008-08-01
DESCRIPTION | 8 NAMESPACE | 6 R/createGrid.R | 30 R/createModel.R | 127 +- R/extractPrediction.R | 55 R/extractProb.R | 52 R/misc.R | 143 +- R/plot.train.R | 4 R/plsda.R | 283 ++-- R/predict.train.R |only R/predictionFunction.R | 36 R/print.train.R | 8 R/probFunction.R | 25 R/selection.R | 20 R/train.default.R | 10 inst/doc/caretMisc.Rnw | 60 inst/doc/caretMisc.pdf | 2919 +++++++++++++++++++++++++++++------------------ inst/doc/caretTrain.Rnw | 207 ++- inst/doc/caretTrain.pdf |binary inst/doc/caretVarImp.pdf |binary man/extractPrediction.Rd | 58 man/pcaNNet.Rd | 2 man/plsda.Rd | 61 man/train.Rd | 6 24 files changed, 2743 insertions(+), 1377 deletions(-)
Author: Thibaut Jombart
Diff between adegenet versions 1.2-0 dated 2008-07-08 and 1.2-1 dated 2008-08-01
Title: adegenet: a R package for the multivariate analysis of genetic markers.
Description: Classes and functions for genetic data analysis within the multivariate framework.
ChangeLog | 47 +++++++++++++++++++++++++++++++++++++++++++++++
DESCRIPTION | 6 +++---
R/import.R | 9 ++++++---
R/spca.R | 2 +-
TODO | 15 ++++++---------
inst/CITATION | 5 ++++-
man/adegenet.package.Rd | 22 +++++++++++++++-------
man/read.structure.Rd | 4 +++-
man/scale.Rd | 31 +++++++++++++++++++++++++++++++
9 files changed, 116 insertions(+), 25 deletions(-)
Author: Richard M. Heiberger, with contributions from Burt Holland.
Title: Rcmdr support for the HH package
Description: Rcmdr menu support for many of the functions in the HH package.
The focus is on menu items for functions we use in our introductory courses.
Diff between RcmdrPlugin.HH versions 1.1-14 dated 2008-07-12 and 1.1-15 dated 2008-08-01
DESCRIPTION | 8 ++++---- R/Projector.R | 52 ++++++++++++++++++---------------------------------- 2 files changed, 22 insertions(+), 38 deletions(-)
More information about RcmdrPlugin.HH at CRAN
Permanent link
Author: Richard M. Heiberger
Title: Statistical Analysis and Data Display: Heiberger and Holland
Description: Support software for Statistical Analysis and Data
Display (Springer, ISBN 0-387-40270-5). This contemporary
presentation of statistical methods features extensive use of
graphical displays for exploring data and for displaying the
analysis. The authors demonstrate how to analyze data---showing
code, graphics, and accompanying computer listings---for all the
methods they cover. They emphasize how to construct and
interpret graphs, discuss principles of graphical design, and
show how accompanying traditional tabular results are used to
confirm the visual impressions derived directly from the
graphs. Many of the graphical formats are novel and appear
here for the first time in print. All chapters have exercises.
Diff between HH versions 2.1-13 dated 2008-07-12 and 2.1-15 dated 2008-08-01
HH-2.1-13/HH/inst/doc |only HH-2.1-13/HH/inst/scripts |only HH-2.1-15/HH/DESCRIPTION | 6 +++--- HH-2.1-15/HH/R/mcp.993.R | 3 +++ HH-2.1-15/HH/R/norm.curve.R | 23 +++++++++++++++-------- HH-2.1-15/HH/R/panel.dotplot.tb.R | 4 ++++ HH-2.1-15/HH/man/norm.curve.Rd | 4 ++-- 7 files changed, 27 insertions(+), 13 deletions(-)
Author: David Meyer and Kurt Hornik (with contributions by Christian Buchta)
Title: Sets and Generalized Sets
Description: Data structures and basic operations for ordinary sets,
and generalizations such as fuzzy sets, multisets, and
fuzzy multisets.
Diff between sets versions 0.2 dated 2008-07-10 and 0.2-1 dated 2008-07-30
DESCRIPTION | 6 +++--- NAMESPACE | 1 + NEWS | 9 +++++++++ R/labels.R | 2 +- R/options.R |only R/tuple.R | 4 ++-- R/utilities.R | 3 ++- inst/NEWS | 9 +++++++++ inst/doc/set.pdf |binary man/options.Rd |only 10 files changed, 27 insertions(+), 7 deletions(-)
Author: Lester Yuan, Tom Stockton, Doug Bronson, Pasha Minallah, and Mark Fitzgerald
Title: Provides a GUI to several statistical methods useful for causal assessment.
Description: Using JGR, provides a GUI to several statistical methods -
scatterplot, boxplot, linear regression, generalized linear regression, quantile,
regression, conditional probability calculations,
and regression trees.
Diff between CADStat versions 2.1-08 dated 2008-07-28 and 2.1-09 dated 2008-07-30
DESCRIPTION | 6 - R/conditionalprob.JGR.R | 110 +++++++++++++++++++++++++--------- inst/doc/.svn |only inst/doc/conditionalprob.JGR-img3.png |binary inst/doc/conditionalprob.JGR.html | 6 - inst/doc/conditionalprob.JGR.odt |binary 6 files changed, 87 insertions(+), 35 deletions(-)
Author: Adelchi Azzalini
Diff between sn versions 0.4-4 dated 2007-10-08 and 0.4-5 dated 2008-07-29
Title: The skew-normal and skew-t distributions
Description: Functions for manipulating skew-normal and skew-t probability
distributions, and for fitting them to data, in the scalar and in the
multivariate case.
DESCRIPTION | 6 +++---
R/sn.R | 14 +++++++-------
man/sn.mle.Rd | 6 +++---
3 files changed, 13 insertions(+), 13 deletions(-)
Author: Jim Lemon
Diff between plotrix versions 2.4-3 dated 2008-06-06 and 2.4-5 dated 2008-07-29
Title: Various plotting functions
Description: Lots of plots, various labeling, axis and color scaling functions.
DESCRIPTION | 13 +-
INDEX | 14 ++
R/barp.R | 6 -
R/boxed.labels.R | 15 +-
R/dendrite.R |only
R/gap.boxplot.R | 204 ++++++++++++++++++-------------------
R/gap.plot.R | 254 +++++++++++++++++++++++++++--------------------
R/getIntersectList.R |only
R/intersectDiagram.R |only
R/makeIntersectList.R |only
R/pasteCols.R |only
R/piper.diagram.R |only
R/radial.plot.R | 12 +-
man/convert.meq.Rd |only
man/furc.Rd |only
man/gap.boxplot.Rd | 6 -
man/gap.plot.Rd | 59 +++++++---
man/getIntersectList.Rd |only
man/intersectDiagram.Rd |only
man/listDepth.Rd |only
man/makeDendrite.Rd |only
man/makeIntersectList.Rd |only
man/p.ions.Rd |only
man/pasteCols.Rd |only
man/piper.coords.Rd |only
man/piper.diagram.Rd |only
man/piper.points.Rd |only
man/piper.set.Rd |only
man/piper.text.Rd |only
man/plot.dendrite.Rd |only
man/radial.plot.Rd | 18 ++-
man/sumDendrite.Rd |only
man/triax.plot.Rd | 2
man/vectorField.Rd | 12 +-
34 files changed, 359 insertions(+), 256 deletions(-)
Author: Christine Porzelius, Harald Binder
Title: Parallelised Estimation of Prediction Error
Description: Package peperr is designed for prediction error estimation through resampling techniques, possibly accelerated by parallel execution on a compute cluster. Newly developed model fitting routines can be easily incorporated.
Diff between peperr versions 1.0 dated 2008-07-15 and 1.0-1 dated 2008-07-29
DESCRIPTION | 8 +++---- NAMESPACE | 2 - R/aggregation.pmpec.R | 13 ++++------- R/fit.CoxBoost.R | 12 +++++----- R/peperr.R | 4 +-- R/plot.peperr.R | 8 +++---- R/pmpec.R | 44 +++++++++++++++++++++++++--------------- R/predictProb.CoxBoost.R | 4 +-- R/predictProb.R | 4 +-- R/predictProb.coxph.R | 5 +++- R/predictProb.survfit.R | 4 +-- changeLog |only man/aggregation.pmpec.Rd | 2 - man/complexity.ipec.CoxBoost.Rd | 2 - man/peperr.Rd | 8 +++---- man/pmpec.Rd | 8 ++++--- man/predictProb.CoxBoost.Rd | 6 ++--- man/predictProb.Rd | 10 ++++++--- man/predictProb.coxph.Rd | 6 ++--- man/predictProb.survfit.Rd | 5 ++-- 20 files changed, 87 insertions(+), 68 deletions(-)
Author: Douglas Bates
Diff between lme4 versions 0.999375-22 dated 2008-07-12 and 0.999375-23 dated 2008-07-29
Title: Linear mixed-effects models using S4 classes
Description: Fit linear and generalized linear mixed-effects models.
ChangeLog | 23 ++++++++++++++++++++
DESCRIPTION | 8 +++----
R/jml.R | 4 +--
R/lmer.R | 4 +--
data/VerbAgg.rda |only
inst/doc/Implementation.pdf |binary
inst/doc/PLSvGLS.pdf |binary
inst/doc/Theory.pdf |binary
man/VerbAgg.Rd |only
src/init.c | 50 ++++++++++++++++++++++----------------------
src/lmer.c | 16 ++++++++------
11 files changed, 66 insertions(+), 39 deletions(-)
Author: Felix Andrews
Diff between playwith versions 0.9-8 dated 2008-07-17 and 0.9-10 dated 2008-07-29
Title: A GUI for interactive plots using GTK+
Description: A GTK+ graphical user interface for viewing and interacting with R plots.
It tries to work out the structure of a plot, in order to interact with it.
The built-in features include: zooming the data space, identifying data points,
editing and annotating the plot, and saving to a file. New tools can be defined.
Also includes latticist, a lattice-based tool for exploratory visualisation.
playwith-0.9-10/playwith/DESCRIPTION | 12 +++----
playwith-0.9-10/playwith/NAMESPACE | 2 -
playwith-0.9-10/playwith/R/API.R | 34 ++++++++------------
playwith-0.9-10/playwith/R/gridwork.R |only
playwith-0.9-10/playwith/R/latticist.R | 26 ++++++++++-----
playwith-0.9-10/playwith/R/playTools.R | 10 ++++-
playwith-0.9-10/playwith/R/playTools_identify.R | 6 ++-
playwith-0.9-10/playwith/R/playTools_inspector.R |only
playwith-0.9-10/playwith/R/playTools_theme.R | 33 ++++++++++---------
playwith-0.9-10/playwith/R/playTools_time.mode.R | 2 +
playwith-0.9-10/playwith/R/playwith.R | 37 ++++++++++++---------
playwith-0.9-10/playwith/R/plotSettingsGui.R | 39 ++++++++++++-----------
playwith-0.9-10/playwith/R/settings.R | 2 +
playwith-0.9-10/playwith/inst/NEWS | 23 +++++++++++++
playwith-0.9-10/playwith/man/latticist.Rd | 13 +++++--
playwith-0.9-10/playwith/man/playwith.Rd | 3 -
playwith-0.9-8/playwith/R/marginals.R |only
playwith-0.9-8/playwith/man/marginals.Rd |only
18 files changed, 149 insertions(+), 93 deletions(-)
Author: Aaron A. King
Diff between ouch versions 2.3-11 dated 2008-07-28 and 2.4-1 dated 2008-07-29
Title: Ornstein-Uhlenbeck models for phylogenetic comparative hypotheses
Description: Fit and compare Ornstein-Uhlenbeck models for evolution along a phylogenetic tree.
ouch-2.3-11/ouch/tests/snizard.R |only
ouch-2.3-11/ouch/tests/snizard.Rout.save |only
ouch-2.3-11/ouch/tests/snizard_tree.ape |only
ouch-2.3-11/ouch/tests/squamates.csv |only
ouch-2.4-1/ouch/DESCRIPTION | 6 +++---
ouch-2.4-1/ouch/inst/SVN-REVISION |only
6 files changed, 3 insertions(+), 3 deletions(-)
Author: Katherine S. Pollard, with Mark J. van der Laan
Diff between hopach versions 2.0.0 dated 2008-07-28 and 2.0.1 dated 2008-07-29
Title: Hierarchical Ordered Partitioning and Collapsing Hybrid (HOPACH)
Description: The HOPACH clustering algorithm builds a hierarchical
tree of clusters by recursively partitioning a data set, while
ordering and possibly collapsing clusters at each level. The
algorithm uses the Mean/Median Split Silhouette (MSS) criteria
to identify the level of the tree with maximally homogeneous
clusters. It also runs the tree down to produce a final
ordered list of the elements. The non-parametric bootstrap
allows one to estimate the probability that each element
belongs to each cluster (fuzzy clustering).
DESCRIPTION | 12
inst/doc/hopach.pdf | 2159 ++++++++++++++++++++++++++--------------------------
man/hdist-class.Rd | 4
3 files changed, 1094 insertions(+), 1081 deletions(-)
Author: K. Burkett
Diff between hapassoc versions 1.2 dated 2008-07-20 and 1.2-1 dated 2008-07-29
Title: Inference of trait associations with SNP haplotypes and other attributes using the EM Algorithm
Description: The following R functions are used for inference of trait associations with haplotypes and other covariates in generalized linear models. The functions are developed primarily for data collected in cohort or cross-sectional studies. They can accommodate uncertain haplotype phase and handle missing genotypes at some SNPs.
hapassoc-1.2-1/hapassoc/DESCRIPTION | 4
hapassoc-1.2-1/hapassoc/R/hapassoc.R | 13
hapassoc-1.2-1/hapassoc/R/logLik_hapassoc.R | 12
hapassoc-1.2-1/hapassoc/inst/ChangeLog | 108 ++
hapassoc-1.2-1/hapassoc/inst/doc/hapassoc.pdf | 1036 +++++++++++++-------------
hapassoc-1.2/hapassoc/src/tapply_sum.c |only
6 files changed, 645 insertions(+), 528 deletions(-)
Author: Clement Calenge, contributions from Mathieu Basille, Stephane Dray and Scott Fortmann-Roe
Title: Analysis of habitat selection by animals
Description: A collection of tools for the analysis of habitat selection by animals
Diff between adehabitat versions 1.7.1 dated 2007-12-14 and 1.7.2 dated 2008-07-29
CONTENTS | 7 +++++ DESCRIPTION | 8 +++--- INDEX | 3 ++ R/biv.plot.r | 1 R/compana.r | 4 +++ R/dunnfa.r |only R/hr.rast.r | 5 ++-- R/kernelbb.r | 1 R/mcp.rast.r | 22 ++++++++++++++++- R/spixdf2kasc.r | 65 +++++++++++++++++++++------------------------------- man/area2asc.Rd | 6 ++++ man/dunnfa.Rd |only man/enfa.Rd | 8 +++++- man/hr.rast.Rd | 6 ++++ man/kasc2spixdf.Rd | 4 ++- man/madifa.Rd | 10 ++++---- man/mcp.rast.Rd | 8 ++++-- man/rotxy.Rd | 2 - man/scatter.enfa.Rd | 7 +++++ 19 files changed, 108 insertions(+), 59 deletions(-)
Author: Adrian Baddeley
Diff between spatstat versions 1.14-0 dated 2008-07-28 and 1.14-1 dated 2008-07-29
Title: Spatial Point Pattern analysis, model-fitting, simulation, tests
Description: A package for analysing spatial data,
mainly Spatial Point Patterns, including multitype/marked points
and spatial covariates, in any two-dimensional spatial region.
Contains functions for plotting spatial data,
exploratory data analysis, model-fitting, simulation,
spatial sampling, model diagnostics,
and formal inference. Data types include point patterns,
line segment patterns, spatial windows, and
pixel images. Point process models can be
fitted to point pattern data. Cluster type models are fitted
by the method of minimum contrast. Very general Gibbs point
process models can be fitted to point pattern data
using a function ppm similar to lm or glm. Models may
include dependence on covariates, interpoint interaction
and dependence on marks. Fitted models can be simulated automatically.
Also provides facilities for formal inference (such as chi-squared
tests) and model diagnostics (including simulation
envelopes, residuals, residual plots and Q-Q plots).
DESCRIPTION | 6 +-
INDEX | 2
R/alltypes.R | 12 +++--
R/blur.R | 5 --
R/deldir.R |only
R/diagnoseppm.R | 10 ++--
R/eem.R | 2
R/fitted.ppm.R | 10 ++--
R/lurking.R | 106 +++++++++++++++++++++++++++++++--------------------
R/mpl.R | 6 +-
R/pcfcross.R |only
R/ppmclass.R | 23 +++++++----
R/quadclass.S | 16 +++++++
R/quadrattest.R | 6 +-
R/random.S | 31 +++++++++-----
R/residppm.R | 8 +--
R/rmhmodel.ppm.R | 4 -
R/tess.R | 12 -----
R/vcov.ppm.R | 9 ++--
demo/diagnose.R | 76 +++++++++++++++++++++++++-----------
demo/spatstat.R | 19 +++++++++
man/00spatstat.Rd | 14 ++++--
man/alltypes.Rd | 13 ++++--
man/delaunay.Rd |only
man/dirichlet.Rd | 15 +++----
man/dummy.ppm.Rd | 18 +++++++-
man/fitted.ppm.Rd | 8 +++
man/internal.Rd | 4 +
man/lurking.Rd | 13 +++++-
man/pcf.ppp.Rd | 21 +++++++++-
man/pcfcross.Rd |only
man/ppm.Rd | 18 +++++---
man/quad.ppm.Rd | 19 +++++++--
man/rNeymanScott.Rd | 20 +++++++--
man/residuals.ppm.Rd | 9 +++-
man/rmhmodel.ppm.Rd | 2
tests/rmhmodel.ppm.R |only
37 files changed, 365 insertions(+), 172 deletions(-)
Author: Delphine Charif and Jean R. Lobry and Anamaria Necsulea and Leonor Palmeira and Simon Penel
Title: Biological Sequences Retrieval and Analysis
Description: Exploratory data analysis and data visualization
for biological sequence (DNA and protein) data. Include also
utilities for sequence data management under the ACNUC system.
Diff between seqinr versions 1.1-6 dated 2008-05-21 and 1.1-7 dated 2008-07-29
seqinr-1.1-6/seqinr/inst/doc/seqinr_1_1-6.pdf |only seqinr-1.1-7/seqinr/DESCRIPTION | 6 seqinr-1.1-7/seqinr/R/as.matrix.alignment.R |only seqinr-1.1-7/seqinr/R/autosocket.R | 2 seqinr-1.1-7/seqinr/R/bma.R |only seqinr-1.1-7/seqinr/R/cai.R |only seqinr-1.1-7/seqinr/R/consensus.R |only seqinr-1.1-7/seqinr/R/read.fasta.R | 77 ++ seqinr-1.1-7/seqinr/R/words.pos.R | 9 seqinr-1.1-7/seqinr/data/caitab.RData |only seqinr-1.1-7/seqinr/data/pK.RData |only seqinr-1.1-7/seqinr/inst/doc/seqinr_1_1-7.pdf |only seqinr-1.1-7/seqinr/inst/doc/src/appendix/releasenotes.rnw | 71 ++ seqinr-1.1-7/seqinr/inst/doc/src/appendix/releasenotes.tex | 84 ++- seqinr-1.1-7/seqinr/inst/doc/src/book/book.rnw | 14 seqinr-1.1-7/seqinr/inst/doc/src/config/book.bib | 48 + seqinr-1.1-7/seqinr/inst/doc/src/figs/cover.pdf | 306 +++++------ seqinr-1.1-7/seqinr/inst/doc/src/frontmatter/cover.tex | 20 seqinr-1.1-7/seqinr/inst/doc/src/mainmatter/nonparastats.rnw | 13 seqinr-1.1-7/seqinr/inst/doc/src/mainmatter/nonparastats.tex | 29 - seqinr-1.1-7/seqinr/inst/doc/src/misc/seqinRtodolist.txt | 2 seqinr-1.1-7/seqinr/inst/sequences/ct.bfa |only seqinr-1.1-7/seqinr/inst/sequences/scuco.txt |only seqinr-1.1-7/seqinr/inst/sequences/test.mase | 38 - seqinr-1.1-7/seqinr/man/amb.Rd | 3 seqinr-1.1-7/seqinr/man/as.matrix.alignment.Rd |only seqinr-1.1-7/seqinr/man/bma.Rd |only seqinr-1.1-7/seqinr/man/cai.Rd |only seqinr-1.1-7/seqinr/man/caitab.Rd |only seqinr-1.1-7/seqinr/man/consensus.Rd |only seqinr-1.1-7/seqinr/man/ec999.Rd | 2 seqinr-1.1-7/seqinr/man/oriloc.Rd | 37 - seqinr-1.1-7/seqinr/man/pK.Rd |only seqinr-1.1-7/seqinr/man/read.alignment.Rd | 15 seqinr-1.1-7/seqinr/man/read.fasta.Rd | 50 + seqinr-1.1-7/seqinr/man/words.pos.Rd | 32 - seqinr-1.1-7/seqinr/man/zscore.Rd | 22 37 files changed, 623 insertions(+), 257 deletions(-)
Author: Thomas Lumley
Title: analysis of complex survey samples
Description: Summary statistics, generalised linear models, and general maximum pseudolikelihood estimation for multistage stratified, cluster-sampled, unequally weighted survey samples. Variances by Taylor series linearisation or replicate weights. Post-stratification, calibration, and raking. Two-phase designs. Graphics.
Diff between survey versions 3.6-13 dated 2007-10-30 and 3.7 dated 2008-07-28
._NAMESPACE |only DESCRIPTION | 6 +++--- INDEX | 2 ++ NAMESPACE | 12 ++++++++++-- R/grake.R | 2 +- R/multistage.R | 12 +++++++++--- R/survey.R | 39 ++++++++++++++++++++------------------- R/surveyby.R | 2 +- R/surveychisq.R | 20 ++++++++++++-------- R/surveygraph.R | 16 ++++++++++++++-- R/svykappa.R |only R/svymi.R |only inst/NEWS | 11 +++++++++++ inst/doc/domain.log | 5 ++--- inst/doc/domain.pdf |binary inst/doc/domain.tex | 14 +++++++------- inst/doc/epi.log | 5 ++--- inst/doc/epi.pdf |binary inst/doc/epi.tex | 10 +++++----- inst/doc/phase1.log | 5 ++--- inst/doc/phase1.pdf |binary inst/doc/survey.log | 5 ++--- inst/doc/survey.pdf |binary man/svycdf.Rd | 5 +++-- man/svychisq.Rd | 7 +++++-- man/svydesign.Rd | 15 ++++++++++++--- man/svykappa.Rd |only man/svyplot.Rd | 28 +++++++++++++++++++++++----- man/with.svyimputationList.Rd |only 29 files changed, 146 insertions(+), 75 deletions(-)
Author: Aaron A. King
Title: Subplex optimization algorithm
Description: The subplex algorithm for unconstrained optimization, developed by Tom Rowan.
Diff between subplex versions 1.1-2 dated 2008-06-25 and 1.1-3 dated 2008-07-28
DESCRIPTION | 6 +++--- src/call_subplex.c | 16 ++++++++-------- 2 files changed, 11 insertions(+), 11 deletions(-)
Author: William Constantine, Tim Hesterberg,
Knut Wittkowski, Tingting Song
Title: Insightful package providing missing S-PLUS functionality in R
Description: Currently there are many functions in S-PLUS that are
missing in R. To facilitate the conversion of S-PLUS packages to R
packages, this package provides some missing S-PLUS functionality
in R.
Diff between splus2R versions 1.0-3 dated 2008-02-20 and 1.0-5 dated 2008-07-28
splus2R-1.0-3/splus2R/inst/bookexams |only splus2R-1.0-3/splus2R/inst/doc/splus2R-manual.dvi |only splus2R-1.0-3/splus2R/inst/include |only splus2R-1.0-3/splus2R/man/is.zero.Rd |only splus2R-1.0-5/splus2R/DESCRIPTION | 29 +++++++++--------- splus2R-1.0-5/splus2R/NAMESPACE | 18 +++++------ splus2R-1.0-5/splus2R/R/Swrappers.R | 12 +------ splus2R-1.0-5/splus2R/R/bits.per.integer.R |only splus2R-1.0-5/splus2R/R/is.inf.R |only splus2R-1.0-5/splus2R/R/is.number.R |only splus2R-1.0-5/splus2R/R/is.orderable.R |only splus2R-1.0-5/splus2R/R/muS2RC.R |only splus2R-1.0-5/splus2R/R/showStructure.R |only splus2R-1.0-5/splus2R/R/sigseriesS3.R | 14 ++++---- splus2R-1.0-5/splus2R/inst/doc/signalSeries.txt |only splus2R-1.0-5/splus2R/man/MC.Rd |only splus2R-1.0-5/splus2R/man/anyMissing.Rd | 11 ------ splus2R-1.0-5/splus2R/man/as.rectangular.Rd | 13 +------- splus2R-1.0-5/splus2R/man/asSeriesData.Rd | 9 ----- splus2R-1.0-5/splus2R/man/bits.per.integer.Rd |only splus2R-1.0-5/splus2R/man/colIds.Rd | 13 -------- splus2R-1.0-5/splus2R/man/deparseText.Rd | 11 ------ splus2R-1.0-5/splus2R/man/do.test.Rd | 4 ++ splus2R-1.0-5/splus2R/man/ifelse1.Rd | 11 ------ splus2R-1.0-5/splus2R/man/is.inf.Rd |only splus2R-1.0-5/splus2R/man/is.missing.Rd | 13 +------- splus2R-1.0-5/splus2R/man/is.number.Rd |only splus2R-1.0-5/splus2R/man/is.numeric.atomic.vector.Rd | 11 ------ splus2R-1.0-5/splus2R/man/is.orderable.Rd |only splus2R-1.0-5/splus2R/man/is.rectangular.Rd | 11 ------ splus2R-1.0-5/splus2R/man/lowerCase.Rd | 11 ------ splus2R-1.0-5/splus2R/man/nDotArgs.Rd | 9 ----- splus2R-1.0-5/splus2R/man/numCols.Rd | 11 ------ splus2R-1.0-5/splus2R/man/numericSequence-methods.Rd | 9 ----- splus2R-1.0-5/splus2R/man/numericSequence.Rd | 9 ----- splus2R-1.0-5/splus2R/man/oldUnclass.Rd | 11 ------ splus2R-1.0-5/splus2R/man/peaks.Rd | 11 ------ splus2R-1.0-5/splus2R/man/positions.Rd | 11 ------ splus2R-1.0-5/splus2R/man/rmvnorm.Rd | 11 ------ splus2R-1.0-5/splus2R/man/seriesData.Rd | 9 ----- splus2R-1.0-5/splus2R/man/seriesDataNew.Rd | 9 ----- splus2R-1.0-5/splus2R/man/seriesDataValid.Rd | 9 ----- splus2R-1.0-5/splus2R/man/showStructure.Rd |only splus2R-1.0-5/splus2R/man/signalSeries-methods.Rd | 9 ----- splus2R-1.0-5/splus2R/man/signalSeries.Rd | 9 ----- splus2R-1.0-5/splus2R/man/stdev.Rd | 11 ------ splus2R-1.0-5/splus2R/man/subscript2d.Rd | 9 ----- splus2R-1.0-5/splus2R/man/vecnorm.Rd | 11 ------ splus2R-1.0-5/splus2R/man/which.na.Rd | 11 ------ splus2R-1.0-5/splus2R/tests/showStructure.R |only splus2R-1.0-5/splus2R/tests/showStructure.Rout.save |only 51 files changed, 56 insertions(+), 304 deletions(-)
Author: Adrian Baddeley
Diff between spatstat versions 1.13-4 dated 2008-07-18 and 1.14-0 dated 2008-07-28
Title: Spatial Point Pattern analysis, model-fitting, simulation, tests
Description: A package for analysing spatial data,
mainly Spatial Point Patterns, including multitype/marked points
and spatial covariates, in any two-dimensional spatial region.
Contains functions for plotting spatial data,
exploratory data analysis, model-fitting, simulation,
spatial sampling, model diagnostics,
and formal inference. Data types include point patterns,
line segment patterns, spatial windows, and
pixel images. Point process models can be
fitted to point pattern data. Cluster type models are fitted
by the method of minimum contrast. Very general Gibbs point
process models can be fitted to point pattern data
using a function ppm similar to lm or glm. Models may
include dependence on covariates, interpoint interaction
and dependence on marks. Fitted models can be simulated automatically.
Also provides facilities for formal inference (such as chi-squared
tests) and model diagnostics (including simulation
envelopes, residuals, residual plots and Q-Q plots).
DESCRIPTION | 10 ++--
INDEX | 10 +++-
R/by.ppp.R |only
R/cut.ppp.R |only
R/kppm.R | 9 ++-
R/plot.splitppp.R | 26 +++++++----
R/ppp.S | 12 -----
R/rmh.default.R | 44 +++++++++---------
R/rmhmodel.R | 102 +++++++++++++++++++++++++++++++++++++-------
R/rmhmodel.ppm.R | 9 +++
R/split.ppp.R | 89 ++++++++++++++++++++++++++++----------
R/tess.R |only
R/wingeom.S | 4 -
demo/spatstat.R | 21 ++++++++-
inst/ratfor/Makefile | 18 ++++---
inst/ratfor/badgey.r |only
inst/ratfor/cif.h | 5 ++
inst/ratfor/geyer.r | 74 ++++++++++++++++++-------------
inst/ratfor/initaux.r | 32 +++++++------
inst/ratfor/methas.template | 17 +++++--
inst/ratfor/mh1.r | 17 +++++--
inst/ratfor/mh10.r | 17 +++++--
inst/ratfor/mh11.r |only
inst/ratfor/mh2.r | 17 +++++--
inst/ratfor/mh3.r | 17 +++++--
inst/ratfor/mh4.r | 15 +++++-
inst/ratfor/mh5.r | 15 +++++-
inst/ratfor/mh6.r | 17 +++++--
inst/ratfor/mh7.r | 17 +++++--
inst/ratfor/mh8.r | 19 ++++++--
inst/ratfor/mh9.r | 17 +++++--
inst/ratfor/updaux.r | 68 +++++++++++++++++------------
man/00spatstat.Rd | 29 +++++++++++-
man/BadGey.Rd | 2
man/blur.Rd | 12 +++--
man/by.ppp.Rd |only
man/cut.ppp.Rd | 78 ++++++++++++++++++++++++++-------
man/dirichlet.Rd |only
man/internal.Rd | 4 +
man/plot.listof.Rd | 8 ++-
man/plot.owin.Rd | 3 -
man/plot.splitppp.Rd | 10 +++-
man/plot.tess.Rd |only
man/rmh.default.Rd | 42 +++++++++++++++++-
man/rmhmodel.default.Rd | 38 +++++++++-------
man/rmhmodel.ppm.Rd | 2
man/split.ppp.Rd | 57 ++++++++++++++++--------
man/subset.splitppp.Rd | 6 +-
man/subset.tess.Rd |only
man/tess.Rd |only
man/tiles.Rd |only
src/badgey.f |only
src/geyer.f | 73 +++++++++++++++++++------------
src/initaux.f | 35 +++++++++------
src/mh1.f | 3 -
src/mh10.f | 3 -
src/mh11.f |only
src/mh2.f | 3 -
src/mh3.f | 3 -
src/mh4.f | 3 -
src/mh5.f | 3 -
src/mh6.f | 3 -
src/mh7.f | 3 -
src/mh8.f | 6 +-
src/mh9.f | 3 -
src/updaux.f | 88 +++++++++++++++++++++++++------------
66 files changed, 867 insertions(+), 371 deletions(-)
Author: Luke Tierney, A. J. Rossini, Na Li, H. Sevcikova
Title: Simple Network of Workstations
Description: Support for simple parallel computing in R.
Diff between snow versions 0.3-0 dated 2008-06-25 and 0.3-3 dated 2008-07-28
DESCRIPTION | 4 - R/mpi.R | 47 ++++++++++++------ R/nws.R | 123 ++++++++++++++++++++++++++++++++++++------------- R/pvm.R | 45 +++++++++++------ R/snow.R | 21 +++++++- R/sock.R | 106 ++++++++++++++++++++++++++++++++---------- README | 63 +++++++++++++++---------- inst/RMPInode.R |only inst/RNWSnode.R |only inst/RNWSnode.sh | 6 +- inst/RPVMnode.R |only inst/RSOCKnode.R |only inst/RunSnowWorker |only inst/RunSnowWorker.bat |only man/snow-internal.Rd | 4 + man/snow-startstop.Rd | 56 +++++++++++++++++++--- 16 files changed, 350 insertions(+), 125 deletions(-)
Author: Stefano Maria Iacus
Title: Simulation and Inference for Stochastic Differential Equations
Description: Companion package to the book `Simulation and Inference for
Stochastic Differential Equations With R Examples',
ISBN 978-0-387-75838-1, Springer, NY.
Diff between sde versions 2.0.0 dated 2007-11-26 and 2.0.1 dated 2008-07-28
DESCRIPTION | 6 +++--- R/sdeAIC.R | 8 +++++--- inst/doc/changes.txt | 5 +++++ 3 files changed, 13 insertions(+), 6 deletions(-)
Author: Martyn Plummer
Title: Bayesian graphical models using MCMC
Description: Interface to the JAGS MCMC library
Diff between rjags versions 1.0.2-3 dated 2008-05-20 and 1.0.3-1 dated 2008-07-28
DESCRIPTION | 8 +++---- R/jags.R | 51 +++++++++++++++++++++++++++++++++++++++-------- R/jags.object.R | 7 ++++-- R/windows/zzz.R.in | 2 - configure | 22 ++++++++++---------- configure.ac | 2 - man/jags.object.Rd | 12 +++++++++-- src/jags.cc | 57 ++++++++++++++++++++++++++++++++++++++++++----------- 8 files changed, 121 insertions(+), 40 deletions(-)
Author: Christophe Dutang (for the code except the SFMT algorithm from M. Matsumoto and M. Saito)
Title: toolbox for pseudo and quasi random number generation and RNG tests.
Description: The package provides (1) pseudo random generators - general linear congruential generators such as Park Miller sequence and SF-Mersenne Twister algorithm; (2) a quasi random generator - the Torus algorithm (for other low-discrepancy sequences, use the 'Rmetrics - fOptions' package) and (3) some additional tests such as the gap test, the serial test... For true random number generation, use the 'random' package.
Diff between randtoolbox versions 1.00 dated 2008-05-25 and 1.02 dated 2008-07-28
randtoolbox-1.00/randtoolbox/inst/doc/rapport.pdf |only randtoolbox-1.00/randtoolbox/man/testrng.Rd |only randtoolbox-1.02/randtoolbox/DESCRIPTION | 10 randtoolbox-1.02/randtoolbox/LICENCE |only randtoolbox-1.02/randtoolbox/NAMESPACE | 7 randtoolbox-1.02/randtoolbox/R/qmc.R |only randtoolbox-1.02/randtoolbox/R/randgen.R | 46 randtoolbox-1.02/randtoolbox/R/testrng.R | 531 randtoolbox-1.02/randtoolbox/cleanup |only randtoolbox-1.02/randtoolbox/configure |only randtoolbox-1.02/randtoolbox/configure.ac |only randtoolbox-1.02/randtoolbox/configure.win |only randtoolbox-1.02/randtoolbox/inst/CITATION |only randtoolbox-1.02/randtoolbox/inst/NEWS |only randtoolbox-1.02/randtoolbox/inst/doc/DOC1e5.pdf |only randtoolbox-1.02/randtoolbox/inst/doc/Makefile |only randtoolbox-1.02/randtoolbox/inst/doc/randtoolbox.Rnw |only randtoolbox-1.02/randtoolbox/inst/doc/randtoolbox.bib |only randtoolbox-1.02/randtoolbox/inst/doc/randtoolbox.pdf |only randtoolbox-1.02/randtoolbox/inst/doc/vanilla.pdf |only randtoolbox-1.02/randtoolbox/man/aux.Rd |only randtoolbox-1.02/randtoolbox/man/colltest.Rd |only randtoolbox-1.02/randtoolbox/man/freqtest.Rd |only randtoolbox-1.02/randtoolbox/man/gaptest.Rd |only randtoolbox-1.02/randtoolbox/man/ordertest.Rd |only randtoolbox-1.02/randtoolbox/man/pokertest.Rd |only randtoolbox-1.02/randtoolbox/man/randgen.Rd | 36 randtoolbox-1.02/randtoolbox/man/serialtest.Rd |only randtoolbox-1.02/randtoolbox/src/config.h |only randtoolbox-1.02/randtoolbox/src/config.h.in |only randtoolbox-1.02/randtoolbox/src/config.h.win |only randtoolbox-1.02/randtoolbox/src/init.c | 10 randtoolbox-1.02/randtoolbox/src/randtoolbox.c |12723 +++++++++++++++++- randtoolbox-1.02/randtoolbox/src/randtoolbox.h | 25 randtoolbox-1.02/randtoolbox/src/testrng.c | 96 randtoolbox-1.02/randtoolbox/src/testrng.h | 10 36 files changed, 13207 insertions(+), 287 deletions(-)
Author: Hemant Ishwaran
Diff between randomSurvivalForest versions 3.2.3 dated 2008-04-09 and 3.5.0 dated 2008-07-28
More information about randomSurvivalForest at CRAN
Title: Ishwaran and Kogalur's Random Survival Forest
Description: Ensemble survival analysis based on a random forest of trees using random inputs.
randomSurvivalForest-3.2.3/randomSurvivalForest/R/pmml_to_rsf.R |only
randomSurvivalForest-3.2.3/randomSurvivalForest/R/rsf_to_pmml.R |only
randomSurvivalForest-3.2.3/randomSurvivalForest/man/pmml_to_rsf.Rd |only
randomSurvivalForest-3.2.3/randomSurvivalForest/man/rsf_to_pmml.Rd |only
randomSurvivalForest-3.5.0/randomSurvivalForest/DESCRIPTION | 10
randomSurvivalForest-3.5.0/randomSurvivalForest/NAMESPACE | 4
randomSurvivalForest-3.5.0/randomSurvivalForest/R/extract.factor.R |only
randomSurvivalForest-3.5.0/randomSurvivalForest/R/find.interaction.R | 14
randomSurvivalForest-3.5.0/randomSurvivalForest/R/interaction.rsf.R | 114
randomSurvivalForest-3.5.0/randomSurvivalForest/R/plot.ensemble.R | 2
randomSurvivalForest-3.5.0/randomSurvivalForest/R/plot.error.R | 4
randomSurvivalForest-3.5.0/randomSurvivalForest/R/plot.proximity.R | 2
randomSurvivalForest-3.5.0/randomSurvivalForest/R/plot.rsf.R | 2
randomSurvivalForest-3.5.0/randomSurvivalForest/R/plot.variable.R | 130
randomSurvivalForest-3.5.0/randomSurvivalForest/R/pmml2rsf.R |only
randomSurvivalForest-3.5.0/randomSurvivalForest/R/predict.rsf.R | 321 -
randomSurvivalForest-3.5.0/randomSurvivalForest/R/print.rsf.R | 15
randomSurvivalForest-3.5.0/randomSurvivalForest/R/randomSurvivalForest.R | 2
randomSurvivalForest-3.5.0/randomSurvivalForest/R/rsf.R | 2
randomSurvivalForest-3.5.0/randomSurvivalForest/R/rsf.default.R | 245 -
randomSurvivalForest-3.5.0/randomSurvivalForest/R/rsf.formula.R | 2
randomSurvivalForest-3.5.0/randomSurvivalForest/R/rsf.news.R | 2
randomSurvivalForest-3.5.0/randomSurvivalForest/R/rsf2pmml.R |only
randomSurvivalForest-3.5.0/randomSurvivalForest/R/zzz.R | 2
randomSurvivalForest-3.5.0/randomSurvivalForest/inst/NEWS | 30
randomSurvivalForest-3.5.0/randomSurvivalForest/inst/doc |only
randomSurvivalForest-3.5.0/randomSurvivalForest/man/find.interaction.Rd | 34
randomSurvivalForest-3.5.0/randomSurvivalForest/man/interaction.rsf.Rd | 67
randomSurvivalForest-3.5.0/randomSurvivalForest/man/plot.variable.Rd | 34
randomSurvivalForest-3.5.0/randomSurvivalForest/man/pmml2rsf.Rd |only
randomSurvivalForest-3.5.0/randomSurvivalForest/man/predict.rsf.Rd | 48
randomSurvivalForest-3.5.0/randomSurvivalForest/man/print.rsf.Rd | 6
randomSurvivalForest-3.5.0/randomSurvivalForest/man/rsf.Rd | 317 -
randomSurvivalForest-3.5.0/randomSurvivalForest/man/rsf2pmml.Rd |only
randomSurvivalForest-3.5.0/randomSurvivalForest/src/extern.h | 27
randomSurvivalForest-3.5.0/randomSurvivalForest/src/factor.h |only
randomSurvivalForest-3.5.0/randomSurvivalForest/src/global.h | 61
randomSurvivalForest-3.5.0/randomSurvivalForest/src/node.h | 7
randomSurvivalForest-3.5.0/randomSurvivalForest/src/node_ops.c | 82
randomSurvivalForest-3.5.0/randomSurvivalForest/src/node_ops.h | 23
randomSurvivalForest-3.5.0/randomSurvivalForest/src/nrutil.c | 174
randomSurvivalForest-3.5.0/randomSurvivalForest/src/nrutil.h | 45
randomSurvivalForest-3.5.0/randomSurvivalForest/src/rsf.c | 367 +
randomSurvivalForest-3.5.0/randomSurvivalForest/src/rsf.h | 8
randomSurvivalForest-3.5.0/randomSurvivalForest/src/rsfBootstrap.c | 24
randomSurvivalForest-3.5.0/randomSurvivalForest/src/rsfBootstrap.h | 2
randomSurvivalForest-3.5.0/randomSurvivalForest/src/rsfEntry.c | 33
randomSurvivalForest-3.5.0/randomSurvivalForest/src/rsfEntry.h | 13
randomSurvivalForest-3.5.0/randomSurvivalForest/src/rsfFactorOps.c |only
randomSurvivalForest-3.5.0/randomSurvivalForest/src/rsfFactorOps.h |only
randomSurvivalForest-3.5.0/randomSurvivalForest/src/rsfImpute.c | 269 -
randomSurvivalForest-3.5.0/randomSurvivalForest/src/rsfImpute.h | 22
randomSurvivalForest-3.5.0/randomSurvivalForest/src/rsfSplit.c | 2052 ++--------
randomSurvivalForest-3.5.0/randomSurvivalForest/src/rsfSplit.h | 35
randomSurvivalForest-3.5.0/randomSurvivalForest/src/rsfSplitUtil.c |only
randomSurvivalForest-3.5.0/randomSurvivalForest/src/rsfSplitUtil.h |only
randomSurvivalForest-3.5.0/randomSurvivalForest/src/rsfStack.c | 675 ++-
randomSurvivalForest-3.5.0/randomSurvivalForest/src/rsfStack.h | 54
randomSurvivalForest-3.5.0/randomSurvivalForest/src/rsfUtil.c | 370 +
randomSurvivalForest-3.5.0/randomSurvivalForest/src/rsfUtil.h | 14
60 files changed, 2933 insertions(+), 2833 deletions(-)
Permanent link
Author: Ken Beath
Diff between randomLCA versions 0.5-2 dated 2008-07-15 and 0.5-3 dated 2008-07-28
Title: Random Effects Latent Class Analysis
Description: Fits random effects latent class models, as well as standard latent class models.
DESCRIPTION | 6 +++---
NAMESPACE | 7 +++++++
R/bestlca.R | 11 ++++++-----
R/fit.adapt.random.randomLCA.R | 5 ++---
R/fit.adapt.random2.randomLCA.R | 5 ++---
R/fit.adapt.random2byclass.randomLCA.R | 5 ++---
R/fit.adapt.randombyclass.randomLCA.R | 8 ++++----
R/fit.fixed.randomLCA.R | 5 ++---
R/misc.randomLCA.R |only
R/summary.randomLCA.R | 23 +++++++++++++++++------
inst/NEWS | 8 ++++++++
inst/doc/randomLCA-example.Rnw | 14 +++++++-------
inst/doc/randomLCA-example.pdf |binary
man/AIC.Rd |only
man/BIC.Rd |only
man/logLik.Rd |only
man/summary.Rd | 12 +++++++++++-
17 files changed, 71 insertions(+), 38 deletions(-)
Author: Brian J. Smith
Diff between ramps versions 0.6-5 dated 2008-07-09 and 0.6-6 dated 2008-07-28
Title: Bayesian Geostatistical Modeling with RAMPS
Description: Bayesian geostatistical modeling of Gaussian processes using a reparameterized and marginalized posterior sampling (RAMPS) algorithm designed to lower autocorrelation in MCMC samples. Package performance is tuned for large spatial datasets.
DESCRIPTION | 8 ++++----
R/control.R | 5 ++---
R/engine.R | 33 +++++++++++++--------------------
R/georamps.R | 3 ++-
R/utils.R | 5 +++++
5 files changed, 26 insertions(+), 28 deletions(-)
Author: Ioannis Kosmidis
Diff between profileModel versions 0.5-3 dated 2008-03-21 and 0.5-4 dated 2008-07-28
Title: Tools for profiling inference functions for various model classes
Description: profileModel provides tools that can be used to calculate, evaluate, plot and use for inference the profiles of *arbitrary* inference functions for *arbitrary* 'glm'-like fitted models with linear predictors.
DESCRIPTION | 4 ++--
NAMESPACE | 1 +
R/signedSquareRoots.R | 2 +-
inst/CHANGES | 4 ++++
4 files changed, 8 insertions(+), 3 deletions(-)
Author: Aaron A. King
Diff between ouch versions 1.2-4 dated 2007-06-12 and 2.3-11 dated 2008-07-28
Title: Ornstein-Uhlenbeck models for phylogenetic comparative hypotheses
Description: Fit and compare Ornstein-Uhlenbeck models for evolution along a phylogenetic tree.
ouch-1.2-4/ouch/CITATION |only
ouch-1.2-4/ouch/GPL |only
ouch-1.2-4/ouch/INDEX |only
ouch-1.2-4/ouch/R/parser.R |only
ouch-1.2-4/ouch/R/tree.R |only
ouch-1.2-4/ouch/R/zzz.R |only
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ouch-1.2-4/ouch/data/anolis.ssd.rda |only
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ouch-1.2-4/ouch/man/tree.Rd |only
ouch-2.3-11/ouch/DESCRIPTION | 19 -
ouch-2.3-11/ouch/NAMESPACE | 27 +
ouch-2.3-11/ouch/R/aaa.R | 62 +++
ouch-2.3-11/ouch/R/ape2ouch.R |only
ouch-2.3-11/ouch/R/brown.R | 165 +++++++---
ouch-2.3-11/ouch/R/deprecated.R |only
ouch-2.3-11/ouch/R/glssoln.R | 19 -
ouch-2.3-11/ouch/R/hansen.R | 463 +++++++++++++++++++++--------
ouch-2.3-11/ouch/R/methods.R |only
ouch-2.3-11/ouch/R/ouchtree.R |only
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ouch-2.3-11/ouch/data/anolis.ssd.csv |only
ouch-2.3-11/ouch/data/bimac.csv |only
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ouch-2.3-11/ouch/man/bimac.Rd | 120 +++----
ouch-2.3-11/ouch/man/brown.Rd | 57 +--
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ouch-2.3-11/ouch/man/hansen.Rd | 133 +++-----
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ouch-2.3-11/ouch/src |only
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40 files changed, 737 insertions(+), 418 deletions(-)
Author: Nandita Mukhopadhyay
Diff between nplplot versions 4.0 dated 2008-03-27 and 4.0.2 dated 2008-07-28
Title: Plotting non-parametric LOD scores from multiple input files
Description: This package consists of one function nplplot
which takes an non-parametric linkage analysis results file
containing a table with marker names, positions and one or more
linkage score columns. For a detailed description of this
function, use the help() command within R.
DESCRIPTION | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
Author: Tristen Hayfield
Diff between np versions 0.14-3 dated 2008-05-02 and 0.20-0 dated 2008-07-28
Title: Nonparametric kernel smoothing methods for mixed data types
Description: This package provides a variety of nonparametric (and semiparametric) kernel methods that seamlessly handle a mix of continuous, unordered, and ordered factor data types. We would like to gratefully acknowledge support from the Natural Sciences and Engineering Research Council of Canada (NSERC:www.nserc.ca), the Social Sciences and Humanities Research Council of Canada (SSHRC:www.sshrc.ca), and the Shared Hierarchical Academic Research Computing Network (SHARCNET:www.sharcnet.ca).
CHANGELOG | 18 +
DESCRIPTION | 12
NAMESPACE | 7
R/bandwidth.R | 2
R/conbandwidth.R | 2
R/conmode.R | 12
R/np.condensity.R | 128 ++++++----
R/np.condensity.bw.R | 20 +
R/np.condistribution.R | 128 ++++++----
R/np.conmode.R | 122 ++++++---
R/np.density.R | 99 +++++--
R/np.density.bw.R | 13 -
R/np.distribution.R | 95 +++++--
R/np.kernel.R | 14 -
R/np.plot.R | 2
R/np.plregression.R | 122 ++++++++-
R/np.plregression.bw.R | 19 +
R/np.qregression.R | 127 ++++++----
R/np.regression.R | 134 ++++++----
R/np.regression.bw.R | 12
R/np.restest.R |only
R/np.sigtest.R | 180 +++++++++++---
R/np.singleindex.R | 129 ++++++----
R/np.singleindex.bw.R | 13 -
R/np.smoothcoef.R | 155 ++++++++----
R/np.smoothcoef.bw.R | 19 +
R/plbandwidth.R | 2
R/rbandwidth.R | 2
R/sibandwidth.R | 2
R/smoothbandwidth.R | 2
R/util.R | 11
R/zzz.R | 2
data/Italy.rda |binary
data/oecdpanel.rda |binary
data/wage1.rda |binary
inst |only
man/data-italy.Rd | 2
man/data-oecd.Rd | 2
man/data-wage1.Rd | 6
man/np-package.Rd | 76 +++---
man/np.cmstest.Rd | 2
man/np.condensity.Rd | 25 -
man/np.condensity.bw.Rd | 35 +-
man/np.conmode.Rd | 11
man/np.density.Rd | 40 +--
man/np.density.bw.Rd | 48 ++-
man/np.kernelsum.Rd | 22 -
man/np.plot.Rd | 7
man/np.plregression.Rd | 28 +-
man/np.plregression.bw.Rd | 38 +--
man/np.qcmstest.Rd | 2
man/np.qregression.Rd | 16 -
man/np.regression.Rd | 47 +--
man/np.regression.bw.Rd | 46 ++-
man/np.sigtest.Rd | 42 ++-
man/np.singleindex.Rd | 17 -
man/np.singleindex.bw.Rd | 16 -
man/np.smoothcoef.Rd | 15 -
man/np.smoothcoef.bw.Rd | 28 +-
src/headers.h | 236 ++++++++++++++++++
src/jksum.c | 580 +++++++++++++++++++++-------------------------
src/kernel.c | 45 +++
src/kernelcv.c | 7
src/kernele.c | 76 ++----
src/np.c | 218 -----------------
65 files changed, 2063 insertions(+), 1275 deletions(-)
Author: Carter T. Butts
Diff between network versions 1.3 dated 2008-02-01 and 1.4-1 dated 2008-07-28
Title: Classes for Relational Data
Description: Tools to create and modify network objects. The network class can represent a range of relational data types, and supports arbitrary vertex/edge/graph attributes.
ChangeLog | 82 ++++++++++++
DESCRIPTION | 8 -
INDEX | 5
R/access.R | 30 +++-
R/coercion.R | 26 ++-
R/constructors.R | 59 ++++----
R/fileio.R | 107 ++++++++++++---
R/misc.R | 41 +++++-
R/operators.R | 15 +-
R/plot.R | 56 +++++++-
R/printsum.R | 299 ++++++++++++++++++++++++++++++--------------
R/zzz.R | 4
inst/CITATION | 47 +++---
inst/network.api |only
man/add.edges.Rd | 3
man/add.vertices.Rd | 3
man/as.matrix.network.Rd | 3
man/as.network.matrix.Rd | 3
man/as.sociomatrix.Rd | 3
man/attribute.methods.Rd | 3
man/deletion.methods.Rd | 3
man/edgeset.constructors.Rd | 3
man/emon.Rd | 2
man/flo.Rd | 3
man/get.edges.Rd | 3
man/get.neighborhood.Rd | 4
man/is.adjacent.Rd | 14 +-
man/network-internal.Rd | 6
man/network-operators.Rd | 4
man/network-package.Rd | 9 -
man/network.Rd | 4
man/network.arrow.Rd | 3
man/network.density.Rd | 6
man/network.dyadcount.Rd | 15 +-
man/network.edgecount.Rd | 5
man/network.extraction.Rd | 7 -
man/network.indicators.Rd | 3
man/network.initialize.Rd | 3
man/network.layout.Rd | 6
man/network.naedgecount.Rd |only
man/network.size.Rd | 3
man/network.vertex.Rd | 3
man/permute.vertexIDs.Rd | 3
man/plot.network.Rd | 7 -
man/prod.network.Rd | 3
man/read.paj.Rd | 2
man/sum.network.Rd | 3
man/which.matrix.type.Rd | 3
src/access.c | 62 ++++++++-
src/access.h | 4
tests/network.battery.R | 2
51 files changed, 745 insertions(+), 250 deletions(-)
Author: Christopher Jackson
Diff between msm versions 0.8 dated 2008-03-28 and 0.8.1 dated 2008-07-28
Title: Multi-state Markov and hidden Markov models in continuous time
Description: Functions for fitting general continuous-time Markov and hidden
Markov multi-state models to longitudinal data. Both Markov
transition rates and the hidden Markov output process can be modelled
in terms of covariates. A variety of observation schemes are
supported, including processes observed at arbitrary times,
completely-observed processes, and censored states.
ChangeLog | 41 +++++++-
DESCRIPTION | 6 -
R/boot.R | 50 +++++----
R/hmm.R | 2
R/msm.R | 173 ++++++++++++++++++++++++++--------
R/outputs.R | 49 +++++++--
R/pearson.R | 86 +++++++++--------
R/utils.R | 7 -
inst/NEWS | 227 ++++++++++++++++++++++++---------------------
inst/doc/msm-manual.pdf |binary
man/msm.Rd | 56 +++++++++--
man/pearson.msm.Rd | 6 -
man/plot.prevalence.msm.Rd | 7 +
man/plotprog.msm.Rd | 9 -
man/totlos.msm.Rd | 6 -
src/lik.c | 27 ++---
src/pijt.c | 8 -
tests/debug.dat |only
tests/fev.R | 2
tests/misc.R | 83 +++++++++-------
tests/pci.R |only
tests/sim.R | 1
tests/simple.R | 6 -
23 files changed, 557 insertions(+), 295 deletions(-)
Author: Deepayan Sarkar
Diff between latticeExtra versions 0.4-1 dated 2008-05-19 and 0.5-1 dated 2008-07-28
Title: Extra Graphical Utilities Based on Lattice
Description: Extra graphical utilities based on lattice
DESCRIPTION | 10 +++++-----
NAMESPACE | 13 +++++++++++++
R/c.trellis.R |only
R/layer.R |only
R/marginals.R |only
R/utilities.R | 8 +++++---
man/c.trellis.Rd |only
man/layer.Rd |only
man/marginals.Rd |only
man/useOuterStrips.Rd | 7 ++++++-
10 files changed, 29 insertions(+), 9 deletions(-)
Author: Deepayan Sarkar
Diff between lattice versions 0.17-10 dated 2008-06-24 and 0.17-12 dated 2008-07-28
Title: Lattice Graphics
Description: Implementation of Trellis Graphics. See ?Lattice for a
brief introduction
DESCRIPTION | 6 +++---
R/bwplot.R | 35 ++++++++++++++++++++++++-----------
R/histogram.R | 8 ++++----
R/miscellaneous.R | 13 +++++++++++++
R/qq.R | 9 ++++-----
R/qqmath.R | 6 +++---
R/xyplot.R | 9 +--------
man/histogram.Rd | 2 +-
man/panel.bwplot.Rd | 9 +++++----
9 files changed, 58 insertions(+), 39 deletions(-)
Author: Katherine S. Pollard, with Mark J. van der Laan
Diff between hopach versions 1.4.3 dated 2006-11-28 and 2.0.0 dated 2008-07-28
Title: Hierarchical Ordered Partitioning and Collapsing Hybrid
(HOPACH)
Description: The HOPACH clustering algorithm builds a hierarchical
tree of clusters by recursively partitioning a data set, while
ordering and possibly collapsing clusters at each level. The
algorithm uses the Mean/Median Split Silhouette (MSS) criteria
to identify the level of the tree with maximally homogeneous
clusters. It also runs the tree down to produce a final
ordered list of the elements. The non-parametric bootstrap
allows one to estimate the probability that each element
belongs to each cluster (fuzzy clustering).
DESCRIPTION | 35 +--
INDEX | 21 +
NAMESPACE |only
R/boot2fuzzy.R |only
R/bootplot.R | 5
R/bootstrap.R | 4
R/distance.R | 214 ++++++-------------
R/dplot.R | 8
R/hdistClass.R |only
R/hopach.R | 503 ++++++++++++++++++++-------------------------
R/hopach2tree.R |only
R/output.R |only
R/prune.R | 2
R/zzz.R | 14 +
data |only
inst/doc/bootplot.pdf |only
inst/doc/dplot.pdf |only
inst/doc/golub.R |only
inst/doc/hopach.Rnw |only
inst/doc/hopach.bib |only
inst/doc/hopach.pdf |only
man/boot2fuzzy.Rd |only
man/bootplot.Rd | 4
man/bootstrap.Rd | 6
man/correlationordering.Rd | 6
man/disscosangle.Rd | 67 ++++-
man/distancematrix.Rd | 60 +++--
man/dplot.Rd | 7
man/golub.Rd |only
man/hdist-class.Rd |only
man/hopach.Rd | 31 +-
man/hopach.internal.Rd | 7
man/hopach2tree.Rd |only
man/labelstomss.Rd | 37 +--
man/makeoutput.Rd |only
man/prune.Rd | 8
src |only
37 files changed, 497 insertions(+), 542 deletions(-)
Author: Jan de Leeuw, Patrick Mair
Title: Homogeneity Analysis
Description: This package performs a homogeneity analysis and various extensions. Rank restrictions on the category quantifications can be imposed (nonlinear PCA). The categories are transformed by means of optimal scaling with options for nominal, ordinal, and numerical scale levels (for rank-1 restrictions). Variables can be grouped into sets, in order to emulate regression analysis and canonical correlation analysis.
Diff between homals versions 0.9-5 dated 2008-07-05 and 0.9-7 dated 2008-07-28
DESCRIPTION | 6 +-- R/homals.R | 87 ++++++++++++++++++++++++++++++---------------- R/plot.homals.R | 10 ++--- R/plot3d.homals.R | 2 - R/print.homals.R | 3 + R/restrictY.R | 2 - R/summary.homals.R | 5 +- R/updateY.R | 55 +++++++++++++++++------------ data/senate07.rda |only data/sleeping.rda |binary inst/doc/.build.timestamp |only inst/doc/homalsR.pdf |binary man/homals-package.Rd | 4 +- man/homals.Rd | 6 +-- man/senate07.Rd |only man/sleeping.Rd | 12 +++--- 16 files changed, 118 insertions(+), 74 deletions(-)
Author: Paul Murrell and Richard Walton.
Title: Importing Vector Graphics
Description: Functions for converting, importing, and drawing PostScript
pictures in R plots.
Diff between grImport versions 0.2-4 dated 2007-06-20 and 0.3 dated 2008-07-28
DESCRIPTION | 4 ++-- R/picture2grid.R | 17 +++++++++++++---- inst/doc/changes.txt | 12 ++++++++++++ man/grid.picture.Rd | 4 ++++ 4 files changed, 31 insertions(+), 6 deletions(-)
Author: Ronja Foraita, Fabian Sobotka
Title: Validation of graphical models
Description: Simulate data sets given a dependence model, validate
graphical models using the bootstrap, find the best prediction
model using cross validation.
Diff between gmvalid versions 1.0 dated 2007-11-08 and 1.1 dated 2008-07-28
gmvalid-1.0/gmvalid/R/gm.analysis.R |only gmvalid-1.0/gmvalid/R/gm.boot.mim.R |only gmvalid-1.0/gmvalid/R/gm.cv.R |only gmvalid-1.0/gmvalid/R/gm.mim.R |only gmvalid-1.0/gmvalid/R/gm.sim.ixj.R |only gmvalid-1.0/gmvalid/WS_FTP.LOG |only gmvalid-1.0/gmvalid/gmvalid.Rcheck |only gmvalid-1.0/gmvalid/gmvalid_1.0.tar.gz |only gmvalid-1.0/gmvalid/gmvalid_1.0.zip |only gmvalid-1.0/gmvalid/man/dp.Rd |only gmvalid-1.0/gmvalid/man/gm.analysis.Rd |only gmvalid-1.0/gmvalid/man/gm.boot.coco.Rd |only gmvalid-1.0/gmvalid/man/gm.boot.mim.Rd |only gmvalid-1.0/gmvalid/man/gm.coco.Rd |only gmvalid-1.0/gmvalid/man/gm.csi.Rd |only gmvalid-1.0/gmvalid/man/gm.cv.Rd |only gmvalid-1.0/gmvalid/man/gm.mim.Rd |only gmvalid-1.0/gmvalid/man/gmvalid-package.Rd |only gmvalid-1.0/gmvalid/man/wam.Rd |only gmvalid-1.1/gmvalid/ChangeLog |only gmvalid-1.1/gmvalid/DESCRIPTION | 14 - gmvalid-1.1/gmvalid/R/gm.boot.coco.R | 95 +++------ gmvalid-1.1/gmvalid/R/gm.chi.R |only gmvalid-1.1/gmvalid/R/gm.coco.R | 100 ++++++---- gmvalid-1.1/gmvalid/R/gm.csi.R | 131 +++++++------ gmvalid-1.1/gmvalid/R/gm.gms.R |only gmvalid-1.1/gmvalid/R/gm.plot.R | 290 ++++++++++++----------------- gmvalid-1.1/gmvalid/R/gm.screening.R |only gmvalid-1.1/gmvalid/R/gm.si.R | 4 gmvalid-1.1/gmvalid/R/unix |only gmvalid-1.1/gmvalid/R/windows |only gmvalid-1.1/gmvalid/data/dp.rda |binary gmvalid-1.1/gmvalid/data/idd35.rda |binary gmvalid-1.1/gmvalid/data/wam.rda |binary gmvalid-1.1/gmvalid/data/wynder.rda |binary gmvalid-1.1/gmvalid/man/gm.chi.Rd |only gmvalid-1.1/gmvalid/man/gm.screening.Rd |only gmvalid-1.1/gmvalid/man/unix |only gmvalid-1.1/gmvalid/man/windows |only 39 files changed, 314 insertions(+), 320 deletions(-)
Author: John Verzani
Title: Toolkit implementation of gWidgets for www
Description: Port of gWidgets API to www using Rpad to link R with a web page and Ext to create widgets.
Diff between gWidgetsWWW versions 0.0-1 dated 2008-07-20 and 0.0-2 dated 2008-07-28
DESCRIPTION | 4 ++-- NEWS | 7 +++++++ R/aaa.R | 41 +++++++++++++++++++++++++++++------------ R/dialogs.R | 6 +++--- R/gcalendar.R | 4 ++-- R/gcombobox.R | 4 ++-- R/ggooglemaps.R | 4 +++- R/ggroup.R | 3 +++ R/ghtml.R | 2 ++ R/gnotebook.R | 2 ++ R/gradio.R | 2 ++ R/gstatusbar.R | 2 ++ R/gtable.R | 6 ++++-- R/gtext.R | 2 ++ R/gwindow.R | 34 +++++++++++++++++++++++----------- TODO.txt | 2 ++ man/gWidgetsWWW-package.Rd | 43 +++++++++++++++++++++++++++++++++++++++++-- 17 files changed, 131 insertions(+), 37 deletions(-)
Author: Laurie Davies
Diff between ftnonpar versions 0.1-82 dated 2008-01-04 and 0.1-83 dated 2008-07-28
Title: Features and Strings for Nonparametric Regression
Description: The package contains R-functions to perform the
methods in nonparametric regression and
density estimation, described in
Davies, P. L. and Kovac, A. (2001) Local Extremes, Runs, Strings and Multiresolution (with discussion) Annals of Statistics. 29. p1-65
Davies, P. L. and Kovac, A. (2004) Densities, Spectral Densities and Modality Annals of Statistics. Annals of Statistics. 32. p1093-1136
Kovac, A. (2006) Smooth functions and local extreme values. Computational Statistics and Data Analysis (to appear)
D\"umbgen, L. and Kovac, A. (2006) Extensions of smoothing via taut strings
Davies, P. L. (1995) Data features. Statistica Neerlandica 49,185-245.
DESCRIPTION | 6 +++---
R/genpmreg.R | 4 ++--
R/pmreg.R | 2 +-
R/smqreg.R | 4 ++--
man/ftnonpar-internal.Rd | 2 +-
src/smqreg.c | 2 +-
6 files changed, 10 insertions(+), 10 deletions(-)
Author: Juan R González, and Virginie Rondeau
Diff between frailtypack versions 2.0-2 dated 2005-11-21 and 2.1-1 dated 2008-07-28
Title: Frailty models using maximum penalized likelihood estimation
Description: Fit a shared gamma frailty model and Cox proportional hazards model using a Penalized Likelihood
on the hazard function. Left truncated, censored data and strata (max=2) are allowed. Clustered and
recurrent survival times can be studied (the Andersen-Gill (1982) approach has been implemented
for recurrent events). An automatic choice of the smoothing parameter is possible using an approximated
cross-validation procedure.
DESCRIPTION | 8 ++++----
R/frailtypack.R | 4 ++--
frailtypack |only
src/frailtypack.f | 9 +++++----
4 files changed, 11 insertions(+), 10 deletions(-)
Author: Tomas Aragon
Diff between epitools versions 0.4-9 dated 2008-03-22 and 0.5-0 dated 2008-07-28
Title: Epidemiology Tools
Description: EpiTools: R Package for Epidemiologic Data and Graphics
DESCRIPTION | 8 ++++----
R/pois.byar.R | 2 +-
2 files changed, 5 insertions(+), 5 deletions(-)
Author: Rajarshi Guha
Diff between fingerprint versions 2.8 dated 2008-07-20 and 2.8.1 dated 2008-07-28
Title: Functions to operate on binary fingerprint data
Description: This package contains functions to manipulate binary fingerprints
of arbitrary length. A fingerprint is represented by an object of S4 class 'fingerprint'
which is internally represented a vector of integers, such
that each element represents the position in the fingerprint that is set to 1.
The bitwise logical functions in R are overridden so that they can be used directly
with 'fingerprint' objects. A number of distance metrics are also
available (many contributed by Michael Fadock). Fingerprints
can be converted to Euclidean vectors (i.e., points on the unit hypersphere) and
can also be folded using OR. Arbitrary fingerprint formats can be handled via line
handlers. Currently handlers are provided for CDK, MOE and BCI fingerprint data.
DESCRIPTION | 6 +++---
man/fold.Rd | 6 ++----
2 files changed, 5 insertions(+), 7 deletions(-)
Author: Chris Fraley, Adrian E. Raftery, J. McLean Sloughter,
Tilmann Gneiting, University of Washington
With contributions from Bobby Yuen and Michael Polokowski
Title: Probabilistic Forecasting using Ensembles and Bayesian Model Averaging
Description: Bayesian Model Averaging to create probabilistic
forecasts from ensemble forecasts and weather observations.
Diff between ensembleBMA versions 3.0-2 dated 2008-06-24 and 3.0-3 dated 2008-07-28
DESCRIPTION | 11 ++++---- R/brierScore.ensembleBMAgamma0.R | 34 +++++++++++++----------- R/brierScore.ensembleBMAnormal.R | 34 +++++++++++++++--------- R/cdf.ensembleBMAgamma0.R | 25 +++++++++++------- R/cdf.ensembleBMAnormal.R | 28 +++++++++++--------- R/crps.ensembleBMAgamma0.R | 37 ++++++++++----------------- R/crps.ensembleBMAnormal.R | 36 ++++++++++---------------- R/crps.fitBMAnormal.R | 2 - R/ensembleBMA.R | 3 -- R/ensembleBMAgamma0.R | 43 ++++++++++++++++++++----------- R/ensembleBMAnormal.R | 45 ++++++++++++++++++++++++--------- R/fitBMAgamma0.R | 37 +++++++++++++++++++-------- R/fitBMAnormal.R | 3 +- R/julTOymdh.R | 10 ++++++- R/mae.ensembleBMAgamma0.R | 41 ++++++++++++++++-------------- R/mae.ensembleBMAnormal.R | 37 +++++++++++++-------------- R/modelParameters.ensembleBMAgamma0.R | 2 - R/modelParameters.ensembleBMAnormal.R | 2 - R/plotProbcast.R | 23 ++++++++-------- R/quantileForecast.ensembleBMAgamma0.R | 34 +++++++++++------------- R/quantileForecast.ensembleBMAnormal.R | 19 +++++++++---- R/ymdhTOjul.R | 1 man/ensembleBMA.Rd | 27 ++++++------------- man/ensembleBMAgamma0.Rd | 10 ------- man/ensembleBMAnormal.Rd | 25 ++++++------------ man/plotProbcast.Rd | 4 +- 26 files changed, 310 insertions(+), 263 deletions(-)
Author: R by Meinhard Ploner,Fortran by Georg Heinze
Title: Weighted Cox regression
Description: Weighted estimation for Cox regression
Diff between coxphw versions 1.0 dated 2008-05-25 and 1.1 dated 2008-07-28
DESCRIPTION | 6 +- R/coxphw.r | 61 ++++++-------------- man/coxphw.Rd | 31 ++++++++-- src/coxphw.f90 | 170 ++++++++++++++++++++++++++++++++++++--------------------- 4 files changed, 155 insertions(+), 113 deletions(-)
Author: Guy Brock
Diff between clValid versions 0.5-6 dated 2008-01-28 and 0.5-7 dated 2008-07-28
Title: Validation of Clustering Results
Description: Statistical and biological validation of clustering results.
clValid-0.5-6/clValid/inst/doc/clValid-006.pdf |only
clValid-0.5-6/clValid/inst/doc/clValid-010.pdf |only
clValid-0.5-6/clValid/inst/doc/clValid-015.pdf |only
clValid-0.5-6/clValid/inst/doc/clValid-016.pdf |only
clValid-0.5-6/clValid/inst/doc/clValid-021.pdf |only
clValid-0.5-6/clValid/inst/doc/clValid-022.pdf |only
clValid-0.5-6/clValid/inst/doc/clValid-025.pdf |only
clValid-0.5-6/clValid/inst/doc/clValid.aux |only
clValid-0.5-6/clValid/inst/doc/clValid.log |only
clValid-0.5-6/clValid/inst/doc/clValid.out |only
clValid-0.5-6/clValid/inst/doc/clValid.tex |only
clValid-0.5-7/clValid/DESCRIPTION | 6 +++---
clValid-0.5-7/clValid/inst/doc/Rplots.pdf |only
clValid-0.5-7/clValid/inst/doc/auto/clValid.el | 2 +-
clValid-0.5-7/clValid/inst/doc/clValid.Rnw | 2 +-
clValid-0.5-7/clValid/inst/doc/clValid.pdf |binary
clValid-0.5-7/clValid/inst/doc/gbMacros.sty |only
clValid-0.5-7/clValid/man/clValid-class.Rd | 24 ++++++++++++------------
18 files changed, 17 insertions(+), 17 deletions(-)
Author: Michael J. Kane and John W. Emerson
Title: Manage massive matrices in R using C++, with UNIX support for shared memory
Description: Use C++ to create, store, access, and manipulate massive matrices. Under UNIX, it also supports use of shared memory.
Diff between bigmemory versions 2.2 dated 2008-07-18 and 2.3 dated 2008-07-28
DESCRIPTION | 6 +++--- man/bigmemory-package.Rd | 4 ++-- src/CbigmemoRy.cpp | 2 +- 3 files changed, 6 insertions(+), 6 deletions(-)
Author: Hsin-ya Lee
Diff between bear versions 1.0.0 dated 2008-07-11 and 1.1.2 dated 2008-07-28
Title: Bioequivalence and Bioavability data analysis with crossover design (ABE)
Description: A bioequivalence and bioavability data analysis tool including sample size estimation, noncompartmental analysis (NCA) and generalized linear model (GLM)
bear-1.0.0/bear/R/NCAAnalyze.r |only
bear-1.1.2/bear/DESCRIPTION | 10 -
bear-1.1.2/bear/R/GLManalyze.r | 90 ++++-------
bear-1.1.2/bear/R/GLMcsv.r |only
bear-1.1.2/bear/R/GLMdata.r |only
bear-1.1.2/bear/R/GLMmenu.r | 8 -
bear-1.1.2/bear/R/GLMoutput.r | 83 ++++------
bear-1.1.2/bear/R/NCAGLManalyze.r | 287 ++++++++++++++++++--------------------
bear-1.1.2/bear/R/NCAGLMcsv.r |only
bear-1.1.2/bear/R/NCAGLMdata.r | 49 +++---
bear-1.1.2/bear/R/NCAGLMmenu.r | 6
bear-1.1.2/bear/R/NCAanalyze.r |only
bear-1.1.2/bear/R/NCAcsv.r |only
bear-1.1.2/bear/R/NCAdata.r | 50 +++---
bear-1.1.2/bear/R/NCAmenu.r | 4
bear-1.1.2/bear/R/NCAoutput.r | 54 +++----
bear-1.1.2/bear/R/NCAplot.r | 4
bear-1.1.2/bear/R/bye.r | 2
bear-1.1.2/bear/R/demoGLM.r | 80 ++++------
bear-1.1.2/bear/R/demoNCA.r | 194 +++++++++++++------------
bear-1.1.2/bear/R/demoNCAGLM.r | 267 ++++++++++++++++-------------------
bear-1.1.2/bear/R/demosize.r | 18 +-
bear-1.1.2/bear/R/go.r | 10 -
bear-1.1.2/bear/R/logdata.r | 76 +++++-----
bear-1.1.2/bear/R/rawdata.r | 57 ++++---
bear-1.1.2/bear/R/sizemenu.r | 8 -
bear-1.1.2/bear/R/zzz.R | 14 -
bear-1.1.2/bear/man/GLMcsv.rd |only
bear-1.1.2/bear/man/GLMdata.rd |only
bear-1.1.2/bear/man/NCAGLMcsv.rd |only
bear-1.1.2/bear/man/NCAcsv.rd |only
31 files changed, 668 insertions(+), 703 deletions(-)
Author: Andrew Gelman
Diff between arm versions 1.1-13 dated 2008-07-18 and 1.1-14 dated 2008-07-28
Title: Data Analysis Using Regression and Multilevel/Hierarchical Models
Description: R functions for processing lm, glm, mer and polr outputs.
arm-1.1-13/arm/R/balanceplot.R |only
arm-1.1-13/arm/man/balanceplot.Rd |only
arm-1.1-14/arm/CHANGELOG | 19 +++++++++++++++++-
arm-1.1-14/arm/DESCRIPTION | 6 ++---
arm-1.1-14/arm/NAMESPACE | 7 +++++-
arm-1.1-14/arm/R/AllClass.R | 9 ++++++++
arm-1.1-14/arm/R/AllGeneric.R | 4 +--
arm-1.1-14/arm/R/AllInternal.R | 5 +++-
arm-1.1-14/arm/R/array.append.R |only
arm-1.1-14/arm/R/balance.R |only
arm-1.1-14/arm/R/coefplot.R | 32 +++++++++++++++----------------
arm-1.1-14/arm/R/invlogit.R | 4 +++
arm-1.1-14/arm/R/residual.plot.R |only
arm-1.1-14/arm/R/sim.R | 2 -
arm-1.1-14/arm/man/array.append.Rd |only
arm-1.1-14/arm/man/balance.Rd |only
arm-1.1-14/arm/man/binnedplot.Rd | 2 +
arm-1.1-14/arm/man/coefplot.Rd | 5 ++++
arm-1.1-14/arm/man/contrasts.bayes.Rd | 1
arm-1.1-14/arm/man/corrplot.Rd | 4 +++
arm-1.1-14/arm/man/display.Rd | 2 -
arm-1.1-14/arm/man/fround.Rd | 2 -
arm-1.1-14/arm/man/go.Rd | 1
arm-1.1-14/arm/man/lalonde.Rd | 2 -
arm-1.1-14/arm/man/matching.Rd | 8 ++++---
arm-1.1-14/arm/man/model.matrix.bayes.Rd | 3 +-
arm-1.1-14/arm/man/multicomp.plot.Rd | 14 +++++++++----
arm-1.1-14/arm/man/rescale.Rd | 2 -
arm-1.1-14/arm/man/residual.plot.Rd |only
arm-1.1-14/arm/man/se.coef.Rd | 4 ++-
arm-1.1-14/arm/man/sigma.hat.Rd | 5 ++--
arm-1.1-14/arm/man/standardize.Rd | 3 +-
arm-1.1-14/arm/man/triangleplot.Rd | 6 ++++-
33 files changed, 110 insertions(+), 42 deletions(-)
Author: Felipe de Mendiburu
Title: Statistical Procedures for Agricultural Research
Description: Agricolae is a project in order to obtain the degree of master in Systems Engineering in the National University of Engineering in Lima-Peru (UNI in Spanish). These functions are currently utilized by the International Potato Center Research (CIP), the Universidad Nacional Agraria La Molina (UNALM-PERU), and the Instituto Nacional de Investigacion Agricola (INIA-PERU). It comprises the functionality of statistical analysis into experimental designs applied specially for field experiments in agriculture and plant breeding: Lattice, factorial, complete and incomplete block, Latin Square, Greaco, Alpha designs, Cyclic designs, comparison of multi-location trials, comparison between treatments, resampling, simulation, biodiversity indexes and consensus cluster.
Diff between agricolae versions 1.0-4 dated 2007-09-11 and 1.0-5 dated 2008-07-28
agricolae-1.0-4/agricolae/.cvsignore |only agricolae-1.0-4/agricolae/.project |only agricolae-1.0-4/agricolae/Para instalar agricola en DOS.txt |only agricolae-1.0-4/agricolae/R/VanderWarden.r |only agricolae-1.0-4/agricolae/R/decimals.R |only agricolae-1.0-4/agricolae/R/design.bib.r |only agricolae-1.0-4/agricolae/R/friedman.test.R |only agricolae-1.0-4/agricolae/R/gxyz.R |only agricolae-1.0-4/agricolae/R/kruskal.test.R |only agricolae-1.0-4/agricolae/R/lattice.simple.R |only agricolae-1.0-4/agricolae/R/mxyz.R |only agricolae-1.0-4/agricolae/README |only agricolae-1.0-4/agricolae/data/carolina1.rda |only agricolae-1.0-4/agricolae/data/carolina2.rda |only agricolae-1.0-4/agricolae/data/carolina3.rda |only agricolae-1.0-4/agricolae/data/homog1.rda |only agricolae-1.0-4/agricolae/data/ltrv.rda |only agricolae-1.0-4/agricolae/data/trees.rda |only agricolae-1.0-4/agricolae/hace agricolae.r |only agricolae-1.0-4/agricolae/man/carolina1.Rd |only agricolae-1.0-4/agricolae/man/carolina2.Rd |only agricolae-1.0-4/agricolae/man/carolina3.Rd |only agricolae-1.0-4/agricolae/man/decimals.Rd |only agricolae-1.0-4/agricolae/man/friedman.test.Rd |only agricolae-1.0-4/agricolae/man/gxyz.Rd |only agricolae-1.0-4/agricolae/man/homog1.Rd |only agricolae-1.0-4/agricolae/man/kruskal.test.Rd |only agricolae-1.0-4/agricolae/man/lattice.simple.Rd |only agricolae-1.0-4/agricolae/man/ltrv.Rd |only agricolae-1.0-4/agricolae/man/mxyz.Rd |only agricolae-1.0-4/agricolae/man/trees.Rd |only agricolae-1.0-5/agricolae/DESCRIPTION | 8 agricolae-1.0-5/agricolae/R/AMMI.R | 17 agricolae-1.0-5/agricolae/R/AMMI.contour.R | 5 agricolae-1.0-5/agricolae/R/BIB.test.R | 206 +++++---- agricolae-1.0-5/agricolae/R/HSD.test.R | 9 agricolae-1.0-5/agricolae/R/LSD.test.R | 11 agricolae-1.0-5/agricolae/R/PBIB.test.R | 26 - agricolae-1.0-5/agricolae/R/audpc.R | 2 agricolae-1.0-5/agricolae/R/bar.err.R | 2 agricolae-1.0-5/agricolae/R/bar.group.R | 2 agricolae-1.0-5/agricolae/R/carolina.R | 2 agricolae-1.0-5/agricolae/R/consensus.R | 5 agricolae-1.0-5/agricolae/R/correl.R | 2 agricolae-1.0-5/agricolae/R/correlation.R | 5 agricolae-1.0-5/agricolae/R/cv.model.R | 2 agricolae-1.0-5/agricolae/R/cv.similarity.R | 2 agricolae-1.0-5/agricolae/R/delete.na.R | 2 agricolae-1.0-5/agricolae/R/design.ab.R | 2 agricolae-1.0-5/agricolae/R/design.alpha.R | 251 ++++++------ agricolae-1.0-5/agricolae/R/design.bib.R |only agricolae-1.0-5/agricolae/R/design.crd.R | 2 agricolae-1.0-5/agricolae/R/design.cyclic.R |only agricolae-1.0-5/agricolae/R/design.graeco.R | 123 +++-- agricolae-1.0-5/agricolae/R/design.lattice.R |only agricolae-1.0-5/agricolae/R/design.lsd.R | 2 agricolae-1.0-5/agricolae/R/design.rcbd.R | 2 agricolae-1.0-5/agricolae/R/durbin.test.R | 4 agricolae-1.0-5/agricolae/R/fact.nk.R | 2 agricolae-1.0-5/agricolae/R/friedman.R |only agricolae-1.0-5/agricolae/R/graph.freq.R | 93 +++- agricolae-1.0-5/agricolae/R/grid3p.R | 2 agricolae-1.0-5/agricolae/R/hcut.R | 5 agricolae-1.0-5/agricolae/R/hgroups.R | 3 agricolae-1.0-5/agricolae/R/index.bio.R | 3 agricolae-1.0-5/agricolae/R/intervals.freq.R | 4 agricolae-1.0-5/agricolae/R/join.freq.R | 2 agricolae-1.0-5/agricolae/R/kendall.R | 2 agricolae-1.0-5/agricolae/R/kruskal.R |only agricolae-1.0-5/agricolae/R/kurtosis.R | 2 agricolae-1.0-5/agricolae/R/lastC.R | 2 agricolae-1.0-5/agricolae/R/lineXtester.R | 5 agricolae-1.0-5/agricolae/R/montecarlo.R |only agricolae-1.0-5/agricolae/R/nonadditivity.R | 2 agricolae-1.0-5/agricolae/R/normal.freq.R | 11 agricolae-1.0-5/agricolae/R/ojiva.freq.R | 19 agricolae-1.0-5/agricolae/R/order.group.R | 2 agricolae-1.0-5/agricolae/R/order.stat.R | 2 agricolae-1.0-5/agricolae/R/path.analysis.R | 2 agricolae-1.0-5/agricolae/R/polygon.freq.R | 8 agricolae-1.0-5/agricolae/R/random.ab.R | 2 agricolae-1.0-5/agricolae/R/reg.homog.R | 2 agricolae-1.0-5/agricolae/R/resampling.cv.R | 2 agricolae-1.0-5/agricolae/R/resampling.model.R | 14 agricolae-1.0-5/agricolae/R/similarity.R | 2 agricolae-1.0-5/agricolae/R/simulation.model.R | 13 agricolae-1.0-5/agricolae/R/skewness.R | 2 agricolae-1.0-5/agricolae/R/stability.nonpar.R | 2 agricolae-1.0-5/agricolae/R/stability.par.R | 2 agricolae-1.0-5/agricolae/R/stat.freq.R | 2 agricolae-1.0-5/agricolae/R/strip.plot.R | 16 agricolae-1.0-5/agricolae/R/sturges.freq.R | 45 +- agricolae-1.0-5/agricolae/R/table.freq.R | 2 agricolae-1.0-5/agricolae/R/tapply.stat.R | 4 agricolae-1.0-5/agricolae/R/vark.R | 2 agricolae-1.0-5/agricolae/R/waerden.test.R |only agricolae-1.0-5/agricolae/R/waller.R | 2 agricolae-1.0-5/agricolae/R/waller.test.R | 9 agricolae-1.0-5/agricolae/R/wxyz.R | 2 agricolae-1.0-5/agricolae/data/CIC.rda |binary agricolae-1.0-5/agricolae/data/Chz2006.rda |only agricolae-1.0-5/agricolae/data/ComasOxapampa.rda |binary agricolae-1.0-5/agricolae/data/DC.rda |only agricolae-1.0-5/agricolae/data/Glycoalkaloids.rda |binary agricolae-1.0-5/agricolae/data/Hco2006.rda |only agricolae-1.0-5/agricolae/data/LxT.rda |binary agricolae-1.0-5/agricolae/data/RioChillon.rda |binary agricolae-1.0-5/agricolae/data/clay.rda |binary agricolae-1.0-5/agricolae/data/corn.rda |binary agricolae-1.0-5/agricolae/data/cotton.rda |binary agricolae-1.0-5/agricolae/data/disease.rda |binary agricolae-1.0-5/agricolae/data/frijol.rda |only agricolae-1.0-5/agricolae/data/genxenv.rda |binary agricolae-1.0-5/agricolae/data/grass.rda |binary agricolae-1.0-5/agricolae/data/greenhouse.rda |only agricolae-1.0-5/agricolae/data/growth.rda |binary agricolae-1.0-5/agricolae/data/haynes.rda |binary agricolae-1.0-5/agricolae/data/heterosis.rda |only agricolae-1.0-5/agricolae/data/huasahuasi.rda |binary agricolae-1.0-5/agricolae/data/markers.rda |binary agricolae-1.0-5/agricolae/data/melon.rda |binary agricolae-1.0-5/agricolae/data/natives.rda |binary agricolae-1.0-5/agricolae/data/pamCIP.rda |binary agricolae-1.0-5/agricolae/data/paracsho.rda |binary agricolae-1.0-5/agricolae/data/plots.rda |binary agricolae-1.0-5/agricolae/data/plrv.rda |only agricolae-1.0-5/agricolae/data/potato.rda |binary agricolae-1.0-5/agricolae/data/ralstonia.rda |binary agricolae-1.0-5/agricolae/data/rice.rda |binary agricolae-1.0-5/agricolae/data/sinRepAmmi.rda |binary agricolae-1.0-5/agricolae/data/soil.rda |binary agricolae-1.0-5/agricolae/data/sweetpotato.rda |binary agricolae-1.0-5/agricolae/data/wilt.rda |binary agricolae-1.0-5/agricolae/data/yacon.rda |only agricolae-1.0-5/agricolae/man/AMMI.Rd | 28 - agricolae-1.0-5/agricolae/man/BIB.test.Rd | 13 agricolae-1.0-5/agricolae/man/CIC.Rd | 36 + agricolae-1.0-5/agricolae/man/Chz2006.Rd |only agricolae-1.0-5/agricolae/man/ComasOxapampa.Rd | 39 + agricolae-1.0-5/agricolae/man/DC.Rd |only agricolae-1.0-5/agricolae/man/HSD.test.Rd | 1 agricolae-1.0-5/agricolae/man/Hco2006.Rd |only agricolae-1.0-5/agricolae/man/LSD.test.Rd | 1 agricolae-1.0-5/agricolae/man/PBIB.test.Rd | 10 agricolae-1.0-5/agricolae/man/agricolae.package.Rd | 10 agricolae-1.0-5/agricolae/man/audpc.Rd | 40 + agricolae-1.0-5/agricolae/man/bar.err.Rd | 11 agricolae-1.0-5/agricolae/man/bar.group.Rd | 5 agricolae-1.0-5/agricolae/man/carolina.Rd | 9 agricolae-1.0-5/agricolae/man/consensus.Rd | 2 agricolae-1.0-5/agricolae/man/design.alpha.Rd | 17 agricolae-1.0-5/agricolae/man/design.cyclic.Rd |only agricolae-1.0-5/agricolae/man/design.graeco.Rd | 15 agricolae-1.0-5/agricolae/man/design.lattice.Rd |only agricolae-1.0-5/agricolae/man/friedman.Rd |only agricolae-1.0-5/agricolae/man/frijol.Rd |only agricolae-1.0-5/agricolae/man/graph.freq.Rd | 52 +- agricolae-1.0-5/agricolae/man/greenhouse.Rd |only agricolae-1.0-5/agricolae/man/grid3p.Rd | 14 agricolae-1.0-5/agricolae/man/hcut.Rd | 2 agricolae-1.0-5/agricolae/man/heterosis.Rd |only agricolae-1.0-5/agricolae/man/hgroups.Rd | 2 agricolae-1.0-5/agricolae/man/huasahuasi.Rd | 53 +- agricolae-1.0-5/agricolae/man/index.bio.Rd | 2 agricolae-1.0-5/agricolae/man/join.freq.Rd | 10 agricolae-1.0-5/agricolae/man/kruskal.Rd |only agricolae-1.0-5/agricolae/man/lineXtester.Rd | 10 agricolae-1.0-5/agricolae/man/melon.Rd | 2 agricolae-1.0-5/agricolae/man/montecarlo.Rd |only agricolae-1.0-5/agricolae/man/normal.freq.Rd | 11 agricolae-1.0-5/agricolae/man/ojiva.freq.Rd | 6 agricolae-1.0-5/agricolae/man/path.analysis.Rd | 9 agricolae-1.0-5/agricolae/man/plots.Rd | 4 agricolae-1.0-5/agricolae/man/plrv.Rd |only agricolae-1.0-5/agricolae/man/polygon.freq.Rd | 10 agricolae-1.0-5/agricolae/man/ralstonia.Rd | 31 - agricolae-1.0-5/agricolae/man/reg.homog.Rd | 4 agricolae-1.0-5/agricolae/man/simulation.model.Rd | 6 agricolae-1.0-5/agricolae/man/soil.Rd | 30 + agricolae-1.0-5/agricolae/man/stability.nonpar.Rd | 12 agricolae-1.0-5/agricolae/man/strip.plot.Rd | 11 agricolae-1.0-5/agricolae/man/sturges.freq.Rd | 15 agricolae-1.0-5/agricolae/man/tapply.stat.Rd | 35 - agricolae-1.0-5/agricolae/man/wilt.Rd | 39 + agricolae-1.0-5/agricolae/man/wxyz.Rd | 2 agricolae-1.0-5/agricolae/man/yacon.Rd |only 186 files changed, 951 insertions(+), 648 deletions(-)
Author: Vinzenz Erhardt
Title: Zero Inflated Generalized Poisson (ZIGP) regression models
Description: Adapt and analyze and compare GP, ZIP and ZIGP regression models
Diff between ZIGP versions 2.3 dated 2008-07-05 and 2.4 dated 2008-07-28
DESCRIPTION | 6 +++--- R/wald.test.r | 20 ++++++++++++++++---- man/ZIGP-package.rd | 4 ++-- 3 files changed, 21 insertions(+), 9 deletions(-)
Author: Duncan Temple Lang (duncan@wald.ucdavis.edu)
Title: Tools for parsing and generating XML within R and S-Plus.
Description: Parsing facilities for arbitrary XML files, DTDs and HTML, offering both
event and tree based parsers which are customizable with R functions.
Diff between XML versions 1.95-3 dated 2008-06-27 and 1.96-0 dated 2008-07-28
Changes | 42 +++++++++++++++++++++++ DESCRIPTION | 4 +- INSTALL | 2 - NAMESPACE | 23 ++++++++++-- R/XMLClasses.R | 26 +++++++++++--- R/error.R | 12 ++++++ R/hashTree.R | 2 - R/parseDTD.R | 2 - R/schema.S |only R/summary.R |only R/xmlInternalSource.R | 53 +++++++++++++++-------------- R/xmlNodes.R | 37 +++++++++++++++++++- R/xmlOutputBuffer.R | 30 ++++++++++------ R/xmlOutputDOM.R | 51 +++++++++++++++++++++++++-- R/xmlTree.R | 14 +++---- R/xmlTreeParse.R | 8 +++- configure | 2 - configure.in | 2 - inst/Docs/FAQ.html | 36 +++++++++++++++++++ inst/Docs/MathML.pdf |only inst/Docs/Outline.pdf |only inst/Docs/Tour.pdf |only inst/Docs/WritingXML.html |only inst/Docs/description.pdf |only inst/Docs/gettingStarted.html |only inst/Docs/gettingStarted.pdf |only inst/Docs/manual.pdf |only inst/Docs/shortIntro.html |only inst/Docs/shortIntro.pdf |only inst/exampleData/author.xml |only inst/exampleData/author.xsd |only inst/exampleData/author1.xml |only inst/exampleData/author2.xml |only inst/exampleData/entityValue |only inst/exampleData/foo.dtd | 3 + inst/examples/author.R |only inst/examples/docbook.R |only inst/examples/itunes.R |only inst/examples/itunesSax.R | 2 - inst/examples/itunesSax1.R |only inst/examples/itunesSax2.R |only inst/examples/moby.R |only inst/examples/wikipediaSchema.R |only inst/examples/xpath.R |only man/XMLNode-class.Rd | 9 ++++ man/schema-class.Rd |only man/xmlChildren.Rd | 1 man/xmlElementSummary.Rd |only man/xmlEventParse.Rd | 19 ++++++++++ man/xmlFlatListTree.Rd | 2 - man/xmlOutput.Rd | 40 +++++++++++++++++---- man/xmlSchemaValidate.Rd |only man/xmlTreeParse.Rd | 24 +++++++++++-- src/DocParse.c | 7 +++ src/EventParse.c | 6 +-- src/EventParse.h | 9 ++++ src/XMLEventParse.c | 73 ++++++++++++++++++++++++++++++++-------- src/XMLTree.c | 22 ++++++++++++ src/schema.c |only src/xpath.c | 41 +++++++++++++++++++++- 60 files changed, 503 insertions(+), 101 deletions(-)
Author: Kung-Sik Chan
Title: Time Series Analysis
Description: Contains R functions and datasets detailed in the book
"Time Series Analysis with Applications in R (second edition)" by Jonathan Cryer and Kung-Sik Chan
Diff between TSA versions 0.96 dated 2008-07-07 and 0.97 dated 2008-07-28
DESCRIPTION | 6 +-- R/ARMAspec.R | 83 +++++++++++++++++++-------------------------- man/ARMAspec.Rd | 2 - man/BoxCox.ar.Rd | 15 ++++---- man/LB.test.Rd | 6 +-- man/McLeod.Li.test.Rd | 5 +- man/TSA-package.Rd | 4 +- man/arima.Rd | 9 ++-- man/arima.boot.Rd | 6 +-- man/arimax.Rd | 2 - man/bluebird.Rd | 3 + man/bluebirdlite.Rd | 2 - man/co2.Rd | 2 - man/deere1.Rd | 3 + man/deere3.Rd | 2 - man/detectAO.Rd | 9 +++- man/detectIO.Rd | 9 +++- man/eacf.Rd | 6 +-- man/fitted.Arimax.Rd | 2 - man/gBox.Rd | 4 +- man/garch.sim.Rd | 4 +- man/harmonic.Rd | 4 +- man/kurtosis.Rd | 2 - man/lagplot.Rd | 8 ++-- man/larain.Rd | 2 - man/milk.Rd | 3 + man/plot.Arima.Rd | 6 +-- man/predict.TAR.Rd | 4 +- man/qar.sim.Rd | 4 +- man/rstandard.Arima.Rd | 2 - man/runs.Rd | 2 - man/season.Rd | 6 +-- man/spots1.Rd | 2 - man/summary.armasubsets.Rd | 2 - man/tar.skeleton.Rd | 2 - man/tempdub.Rd | 5 +- man/tsdiag.Arima.Rd | 5 +- man/tsdiag.TAR.Rd | 2 - man/veilleux.Rd | 2 - man/zlag.Rd | 2 - 40 files changed, 126 insertions(+), 123 deletions(-)
Author: Simon Urbanek
Diff between Rserve versions 0.4-7 dated 2007-01-14 and 0.5-1 dated 2008-07-28
Title: Binary R server
Description: Rserve acts as a socket server (TCP/IP or local sockets)
which allows binary requests to be sent to R. Every
connection has a separate workspace and working
directory. Client-side implementations are available
for popular languages such as C/C++ and Java, allowing
any application to use facilities of R without the need of
linking to R code. Rserve supports remote connection,
user authentication and file transfer. A simple R client
is included in this package as well.
Rserve-0.4-7/Rserve/src/client/Makefile.in |only
Rserve-0.4-7/Rserve/src/client/Makefile.win |only
Rserve-0.4-7/Rserve/src/client/Rconnection.cc |only
Rserve-0.4-7/Rserve/src/client/Rconnection.h |only
Rserve-0.4-7/Rserve/src/client/ReadMe.txt |only
Rserve-0.4-7/Rserve/src/client/demo1.cc |only
Rserve-0.4-7/Rserve/src/client/java |only
Rserve-0.4-7/Rserve/src/client/rcmd.cc |only
Rserve-0.4-7/Rserve/src/client/rcons.cc |only
Rserve-0.4-7/Rserve/src/include/config.h.in |only
Rserve-0.5-1/Rserve/DESCRIPTION | 2
Rserve-0.5-1/Rserve/NEWS | 37 +
Rserve-0.5-1/Rserve/R/conn.R | 106 +++--
Rserve-0.5-1/Rserve/clients |only
Rserve-0.5-1/Rserve/configure | 4
Rserve-0.5-1/Rserve/configure.ac | 2
Rserve-0.5-1/Rserve/man/Rclient.Rd | 53 ++
Rserve-0.5-1/Rserve/src/Makefile.in | 7
Rserve-0.5-1/Rserve/src/Rserv.c | 505 ++++++++++++++++++++------
Rserve-0.5-1/Rserve/src/Rsrv.h | 81 ++--
Rserve-0.5-1/Rserve/src/client/README.txt |only
Rserve-0.5-1/Rserve/src/client/cxx |only
Rserve-0.5-1/Rserve/src/client/java-new |only
Rserve-0.5-1/Rserve/src/client/java-old |only
Rserve-0.5-1/Rserve/src/mergefat | 18
Rserve-0.5-1/Rserve/version | 2
26 files changed, 630 insertions(+), 187 deletions(-)
Author: Jonathan M. Lees
Title: Seismic Time Series Analysis Tools
Description: Multiple interactive codes to analyze seismic data, via, spectrum analysis, wavelet transforms, particle motion, hodograms.
Diff between RSEIS versions 1.1-1 dated 2008-06-23 and 1.1-3 dated 2008-07-28
RSEIS-1.1-1/RSEIS/R/drive.MTM.R |only RSEIS-1.1-1/RSEIS/inst/doc/hodo.tex |only RSEIS-1.1-1/RSEIS/man/drive.MTM.Rd |only RSEIS-1.1-3/RSEIS/DESCRIPTION | 6 RSEIS-1.1-3/RSEIS/R/MTM.drive.R |only RSEIS-1.1-3/RSEIS/R/PICK.GEN.R | 1033 +++++++++++++++++---------------- RSEIS-1.1-3/RSEIS/R/PMOT.drive.R | 57 - RSEIS-1.1-3/RSEIS/R/SNET.drive.R | 55 - RSEIS-1.1-3/RSEIS/R/SPECT.drive.R | 62 - RSEIS-1.1-3/RSEIS/R/evolAR.R |only RSEIS-1.1-3/RSEIS/R/evolMTM.R |only RSEIS-1.1-3/RSEIS/R/evolfft.R | 2 RSEIS-1.1-3/RSEIS/R/get.slepians.R |only RSEIS-1.1-3/RSEIS/R/mtapspec.R | 11 RSEIS-1.1-3/RSEIS/R/pickgeninfo.R |only RSEIS-1.1-3/RSEIS/R/pickhandler.R |only RSEIS-1.1-3/RSEIS/R/plotevol.R | 42 + RSEIS-1.1-3/RSEIS/R/plt.MTM0.R | 69 +- RSEIS-1.1-3/RSEIS/R/setstas.R | 2 RSEIS-1.1-3/RSEIS/R/wlet.drive.R | 65 +- RSEIS-1.1-3/RSEIS/demo/00Index | 1 RSEIS-1.1-3/RSEIS/demo/COSO.R | 28 RSEIS-1.1-3/RSEIS/demo/FILT.R | 18 RSEIS-1.1-3/RSEIS/demo/MTM.R |only RSEIS-1.1-3/RSEIS/demo/REVENT.R | 5 RSEIS-1.1-3/RSEIS/demo/SPECT.R | 33 - RSEIS-1.1-3/RSEIS/demo/SUNrs.R | 10 RSEIS-1.1-3/RSEIS/inst/doc/hodo.pdf |binary RSEIS-1.1-3/RSEIS/inst/doc/rseis.pdf |binary RSEIS-1.1-3/RSEIS/man/MTM.drive.Rd |only RSEIS-1.1-3/RSEIS/man/MTMplot.Rd | 2 RSEIS-1.1-3/RSEIS/man/RSEIS-package.Rd | 6 RSEIS-1.1-3/RSEIS/man/evolAR.Rd |only RSEIS-1.1-3/RSEIS/man/evolMTM.Rd |only RSEIS-1.1-3/RSEIS/man/evolfft.Rd | 35 - RSEIS-1.1-3/RSEIS/man/get.slepians.Rd |only RSEIS-1.1-3/RSEIS/man/pickgeninfo.Rd |only RSEIS-1.1-3/RSEIS/man/pickhandler.Rd |only RSEIS-1.1-3/RSEIS/man/plotevol.Rd | 15 RSEIS-1.1-3/RSEIS/man/plt.MTM0.Rd | 2 RSEIS-1.1-3/RSEIS/src/MTAPSRC.c | 41 + 41 files changed, 915 insertions(+), 685 deletions(-)
Author: Fabian Scheipl
Title: Exact (Restricted) Likelihood Ratio tests for mixed and additive models.
Description: Rapid, simulation-based exact (restricted) likelihood ratio tests for testing the presence of variance components/nonparametric terms for models fit with nlme::lme(),lme4::lmer(), mgcv::gamm() and SemiPar:spm()
Diff between RLRsim versions 1.0 dated 2007-06-02 and 2.0 dated 2008-07-28
DESCRIPTION | 10 ++++----- NAMESPACE |only R/LRTSim.R | 50 +++++++++++++++++------------------------------ R/RLRTSim.R | 47 +++++++++++++++----------------------------- R/exactLRT.R | 26 +++++++++--------------- R/exactRLRT.R | 23 +++++++-------------- R/extract.lmeDesign.R | 42 --------------------------------------- R/extract.lmerDesign.R | 18 ++++++++-------- man/LRTSim.Rd | 29 +++++++++++++++++---------- man/exactLRT.Rd | 31 +++++++---------------------- man/exactRLRT.Rd | 39 ++++++++++++++++++------------------ man/extract.lmeDesign.Rd | 2 - src |only 13 files changed, 115 insertions(+), 202 deletions(-)
Author: Dirk Eddelbuettel
Diff between RDieHarder versions 0.0.5 dated 2007-08-09 and 0.0.6 dated 2008-07-28
Title: R interface to the dieharder RNG test suite
Description: The RDieHarder packages provides an R interface to the
dieharder suite of random number generators and tests that was
developed by Robert G. Brown, extending earlier work by George
Marsaglia and others.
RDieHarder-0.0.5/RDieHarder/inst/doc/RDieHarder.aux |only
RDieHarder-0.0.5/RDieHarder/inst/doc/RDieHarder.bbl |only
RDieHarder-0.0.5/RDieHarder/inst/doc/RDieHarder.blg |only
RDieHarder-0.0.5/RDieHarder/inst/doc/RDieHarder.log |only
RDieHarder-0.0.5/RDieHarder/inst/doc/RDieHarder.out |only
RDieHarder-0.0.5/RDieHarder/src/Makevars |only
RDieHarder-0.0.6/RDieHarder/DESCRIPTION | 6 +-
RDieHarder-0.0.6/RDieHarder/inst/doc/RDieHarder-r-rngs.pdf | 6 +-
RDieHarder-0.0.6/RDieHarder/inst/doc/RDieHarder-rd-example.pdf | 6 +-
RDieHarder-0.0.6/RDieHarder/inst/doc/RDieHarder-rd-example1.pdf | 6 +-
RDieHarder-0.0.6/RDieHarder/inst/doc/RDieHarder.Rdata |binary
RDieHarder-0.0.6/RDieHarder/inst/doc/RDieHarder.pdf | 24 +++++-----
RDieHarder-0.0.6/RDieHarder/src/Makefile | 6 +-
RDieHarder-0.0.6/RDieHarder/src/dieharder.c | 4 +
14 files changed, 31 insertions(+), 27 deletions(-)
Author: Duncan Temple Lang
Title: HTTP request interface
Description: The package allows one to compose HTTP requests to fetch URIs, post forms,
etc. and process the results returned by the Web server.
This provides a great deal of control over the HTTP connection and the form
of the request while providing a higher-level interface than is available just
using R socket connections. Additionally, the underlying implementation is robust
and extensive, supporting SSL/HTTPS, cookies, redirects, authentication, etc.
Diff between RCurl versions 0.9-3 dated 2008-05-13 and 0.9-4 dated 2008-07-28
Changes.html | 11 ++++++++++- DESCRIPTION | 4 ++-- R/header.R | 8 ++++---- 3 files changed, 16 insertions(+), 7 deletions(-)
Author: Jon Schnute
Diff between PBSmapping versions 2.55 dated 2008-01-26 and 2.57 dated 2008-07-28
Title: PBS Mapping 2.57
Description: This software has evolved from fisheries research
conducted at the Pacific Biological Station (PBS) in Nanaimo,
British Columbia, Canada. It extends the R language to include
two-dimensional plotting features similar to those commonly
available in a Geographic Information System (GIS). Embedded
C code speeds algorithms from computational geometry, such as
finding polygons that contain specified point events or
converting between longitude-latitude and Universal Transverse
Mercator (UTM) coordinates. It includes data for a global
shoreline and other data sets in the public domain. The R directory
'../library/PBSmapping/doc' includes a complete user guide
PBSmapping-UG.pdf. To use this package effectively, please
consult the guide.
PBSmapping-2.55/PBSmapping/ChangeLog.txt |only
PBSmapping-2.55/PBSmapping/inst/PBSmapping-UG.pdf |only
PBSmapping-2.57/PBSmapping/DESCRIPTION | 21
PBSmapping-2.57/PBSmapping/R/PBSmapping.r | 974 +++++++++++-----------
PBSmapping-2.57/PBSmapping/R/zzz.r | 25
PBSmapping-2.57/PBSmapping/inst/doc |only
PBSmapping-2.57/PBSmapping/man/importShapefile.Rd | 55 -
7 files changed, 541 insertions(+), 534 deletions(-)
Author: Douglas Bates
Diff between Matrix versions 0.999375-10 dated 2008-06-26 and 0.999375-11 dated 2008-07-28
Title: A Matrix package for R
Description: Classes and methods for dense and sparse matrices and
operations on them using Lapack, CSparse and CHOLMOD
ChangeLog | 140 +++
DESCRIPTION | 6
Done | 18
NAMESPACE | 1
R/AllClass.R | 16
R/AllGeneric.R | 10
R/Auxiliaries.R | 29
R/Csparse.R | 23
R/Matrix.R | 7
R/Ops.R | 4
R/Rsparse.R | 16
R/Tsparse.R | 54 -
R/dgeMatrix.R | 4
R/diagMatrix.R | 130 ++-
R/dtCMatrix.R | 35
R/pMatrix.R | 4
R/sparseMatrix.R | 58 +
R/sparseVector.R | 110 ++
TODO | 21
inst/doc/Comparisons.pdf |binary
inst/doc/Design-issues.pdf | 380 ++++-----
inst/doc/Intro2Matrix.Rnw | 38
inst/doc/Intro2Matrix.pdf | 1768 +++++++++++++++++++++++---------------------
inst/doc/Introduction.pdf |binary
inst/doc/factor2sparse.Rnw |only
inst/doc/factor2sparse.pdf |only
inst/include/Matrix.h | 14
inst/include/Matrix_stubs.c | 30
inst/test-tools.R | 12
man/CsparseMatrix-class.Rd | 19
man/Matrix-class.Rd | 1
man/Subassign-methods.Rd | 26
man/dgeMatrix-class.Rd | 1
man/diagonalMatrix-class.Rd | 2
man/drop0.Rd | 16
man/dsCMatrix-class.Rd | 14
man/dsyMatrix-class.Rd | 6
man/dtCMatrix-class.Rd | 8
man/image-methods.Rd | 2
man/sparseVector-class.Rd | 29
src/CHMfactor.c | 10
src/Csparse.c | 57 -
src/Tsparse.c | 4
src/chm_common.c | 216 ++++-
src/chm_common.h | 15
src/cs_utils.c | 55 +
src/cs_utils.h | 7
src/dgCMatrix.c | 34
src/dsCMatrix.c | 6
src/dtCMatrix.c | 207 +----
src/dtCMatrix.h | 14
src/dtTMatrix.c | 4
src/init.c | 11
src/sparseQR.c | 12
src/t_gCMatrix_colSums.c | 2
tests/Simple.R | 44 +
tests/bind.R | 3
tests/bind.Rout.save | 7
tests/matprod.R | 12
tests/other-pkgs.R | 20
tests/validObj.R | 57 +
61 files changed, 2341 insertions(+), 1508 deletions(-)
Author: Markus Helbig
Diff between JGR versions 1.6-1 dated 2008-06-19 and 1.6-2 dated 2008-07-28
Title: JGR - Java Gui for R
Description: Java GUI for R - cross-platform, universal and unified Graphical User Interface for R. For full functionality on Windows and Mac OS X JGR requires a start application which depends on your OS. This can be downloaded from JGR's website: http://www.rosuda.org/JGR
DESCRIPTION | 2
NEWS | 14
R/JGR.R | 4
inst/java/JGR.jar |binary
inst/scripts/run.in | 2
launcher/macosx/English.lproj/InfoPlist.strings | 4
launcher/macosx/JGR_App.xcodeproj/project.pbxproj | 1
launcher/macosx/main.c | 226 +++++++-------
launcher/windows/jgr.c | 354 ++++++++++++++--------
run.in | 2
10 files changed, 372 insertions(+), 237 deletions(-)
Author: Andreas Ruckstuhl, Thomas Unternaehrer, Rene Locher
Title: Utilities of Institute of Data Analyses and Process Design (www.idp.zhaw.ch)
Description: The IDPmisc package contains different high-level graphics functions for displaying large datasets, displaying circular data in a very flexible way, finding local maxima, brewing color ramps, drawing nice arrows, zooming 2D-plots, creating figures with differently colored margin and plot region. In addition, the package contains auxiliary functions for data manipulation like omitting observations with irregular values or selecting data by logical vectors, which include NAs. Other functions are especially useful in spectroscopy and analyses of environmental data: robust baseline fitting, finding peaks in spectra.
Diff between IDPmisc versions 0.9.7 dated 2008-07-11 and 0.9.9 dated 2008-07-28
ChangeLog | 6 +++++- DESCRIPTION | 6 +++--- R/longtsPlot.R | 8 +++++--- man/IDPmisc-package.Rd | 4 ++-- man/draw.leg.Rd | 10 +++++----- 5 files changed, 20 insertions(+), 14 deletions(-)
Author: Simon Urbanek
Diff between Cairo versions 1.4-2 dated 2008-04-04 and 1.4-3 dated 2008-07-28
Title: R graphics device using cairo graphics library for creating high-quality bitmap (PNG, JPEG, TIFF), vector (PDF, SVG, PostScript) and display (X11 and Win32) output.
Description: This package provides a Cairo graphics device that can be use to create high-quality vector (PDF, PostScript and SVG) and bitmap output (PNG,JPEG,TIFF), and high-quality rendering in displays (X11 and Win32). Since it uses the same back-end for all output, copying across formats is WYSIWYG. Files are created without the dependence on X11 or other external programs. This device supports alpha channel (semi-transparent drawing) and resulting images can contain transparent and semi-transparent regions. It is ideal for use in server environemnts (file output) and as a replacement for other devices that don't have Cairo's capabilities such as alpha support or anti-aliasing. Backends are modular such that any subset of backends is supported.
DESCRIPTION | 2 +-
NEWS | 8 ++++++++
src/cairogd.h | 2 +-
src/cairotalk.c | 11 +++++------
4 files changed, 15 insertions(+), 8 deletions(-)
Author: Lester Yuan, Tom Stockton, Doug Bronson, Pasha Minallah, and Mark Fitzgerald
Title: Provides a GUI to several statistical methods useful for causal assessment.
Description: Using JGR, provides a GUI to several statistical methods -
scatterplot, boxplot, linear regression, generalized linear regression, quantile,
regression, conditional probability calculations,
and regression trees.
Diff between CADStat versions 2.1-07 dated 2008-07-09 and 2.1-08 dated 2008-07-28
CADStat-2.1-07/CADStat/.svn |only CADStat-2.1-07/CADStat/inst/doc/CADStat.JGR.xhtml |only CADStat-2.1-07/CADStat/inst/doc/bioinfer.JGR.xhtml |only CADStat-2.1-07/CADStat/inst/doc/boxplot.JGR.xhtml |only CADStat-2.1-07/CADStat/inst/doc/conditionalprob.JGR.xhtml |only CADStat-2.1-07/CADStat/inst/doc/cor.JGR.xhtml |only CADStat-2.1-07/CADStat/inst/doc/glm.pred.JGR.xhtml |only CADStat-2.1-07/CADStat/inst/doc/lm.JGR.xhtml |only CADStat-2.1-07/CADStat/inst/doc/loaddata.xhtml |only CADStat-2.1-07/CADStat/inst/doc/rpart.JGR.xhtml |only CADStat-2.1-07/CADStat/inst/doc/rq.JGR.xhtml |only CADStat-2.1-07/CADStat/inst/doc/scatterplot.JGR.xhtml |only CADStat-2.1-08/CADStat/DESCRIPTION | 6 +-- CADStat-2.1-08/CADStat/inst/doc/CADStat.JGR.html |only CADStat-2.1-08/CADStat/inst/doc/bioinfer.JGR.html |only CADStat-2.1-08/CADStat/inst/doc/boxplot.JGR.html |only CADStat-2.1-08/CADStat/inst/doc/conditionalprob.JGR.html |only CADStat-2.1-08/CADStat/inst/doc/cor.JGR.html |only CADStat-2.1-08/CADStat/inst/doc/glm.pred.JGR.html |only CADStat-2.1-08/CADStat/inst/doc/lm.JGR.html |only CADStat-2.1-08/CADStat/inst/doc/loaddata.html |only CADStat-2.1-08/CADStat/inst/doc/rpart.JGR.html |only CADStat-2.1-08/CADStat/inst/doc/rq.JGR.html |only CADStat-2.1-08/CADStat/inst/doc/scatterplot.JGR.html |only CADStat-2.1-08/CADStat/inst/menu/menu.xml | 22 +++++++------- 25 files changed, 14 insertions(+), 14 deletions(-)
Author: Ravi Varadhan
Title: Solving and optimizing large-scale nonlinear systems
Description: Barzilai-Borwein Spectral Methods for solving nonlinear system of
equations, and for optimizing nonlinear objective functions subject to simple
constraints.
Diff between BB versions 2008.5-1 dated 2008-05-02 and 2008.7-1 dated 2008-07-28
DESCRIPTION | 6 +++--- NEWS | 12 +++++++++--- R/dfsane.R | 1 + inst/doc/BB.pdf |binary tests/vmmix.R | 5 +++-- 5 files changed, 16 insertions(+), 8 deletions(-)
Author: James Honaker
Diff between Amelia versions 1.1-32 dated 2008-07-18 and 1.1-33 dated 2008-07-28
Title: Amelia II: A Program for Missing Data
Description: Amelia II "multiply imputes" missing data in a single cross-section
(such as a survey), from a time series (like variables collected for
each year in a country), or from a time-series-cross-sectional data
set (such as collected by years for each of several countries).
Amelia II implements our bootstrapping-based algorithm that gives
essentially the same answers as the standard IP or EMis approaches,
is usually considerably faster than existing approaches and can
handle many more variables. Unlike Amelia I and other statistically
rigorous imputation software, it virtually never crashes (but please
let us know if you find to the contrary!). The program also
generalizes existing approaches by allowing for trends in time series
across observations within a cross-sectional unit, as well as priors
that allow experts to incorporate beliefs they have about the values
of missing cells in their data. Amelia II also includes useful
diagnostics of the fit of multiple imputation models. The program
works from the R command line or via a graphical user interface that
does not require users to know R.
DESCRIPTION | 6
R/amcheck.r | 73 ++--
R/ameliagui.r | 33 +
R/diag.r | 49 +-
R/emb.r | 18 -
R/prep.r | 7
inst/doc/amelia.log | 4
inst/doc/amelia.pdf | 853 +++++++++++++++++++++++++--------------------------
inst/doc/index.shtml | 2
9 files changed, 523 insertions(+), 522 deletions(-)
Author: Daniel Adler
Diff between rgl versions 0.79 dated 2008-06-03 and 0.80 dated 2008-07-21
Title: 3D visualization device system (OpenGL)
Description: 3D visualization device (OpenGL)
rgl-0.79/rgl/src/ext/ftgl/FTBBox.h |only
rgl-0.79/rgl/src/ext/ftgl/FTBitmapGlyph.cpp |only
rgl-0.79/rgl/src/ext/ftgl/FTBitmapGlyph.h |only
rgl-0.79/rgl/src/ext/ftgl/FTExtrdGlyph.cpp |only
rgl-0.79/rgl/src/ext/ftgl/FTExtrdGlyph.h |only
rgl-0.79/rgl/src/ext/ftgl/FTFont.cpp |only
rgl-0.79/rgl/src/ext/ftgl/FTFont.h |only
rgl-0.79/rgl/src/ext/ftgl/FTGL.h |only
rgl-0.79/rgl/src/ext/ftgl/FTGLBitmapFont.cpp |only
rgl-0.79/rgl/src/ext/ftgl/FTGLBitmapFont.h |only
rgl-0.79/rgl/src/ext/ftgl/FTGLExtrdFont.cpp |only
rgl-0.79/rgl/src/ext/ftgl/FTGLExtrdFont.h |only
rgl-0.79/rgl/src/ext/ftgl/FTGLOutlineFont.cpp |only
rgl-0.79/rgl/src/ext/ftgl/FTGLOutlineFont.h |only
rgl-0.79/rgl/src/ext/ftgl/FTGLPixmapFont.cpp |only
rgl-0.79/rgl/src/ext/ftgl/FTGLPixmapFont.h |only
rgl-0.79/rgl/src/ext/ftgl/FTGLPolygonFont.cpp |only
rgl-0.79/rgl/src/ext/ftgl/FTGLPolygonFont.h |only
rgl-0.79/rgl/src/ext/ftgl/FTGLTextureFont.cpp |only
rgl-0.79/rgl/src/ext/ftgl/FTGLTextureFont.h |only
rgl-0.79/rgl/src/ext/ftgl/FTGlyph.cpp |only
rgl-0.79/rgl/src/ext/ftgl/FTGlyph.h |only
rgl-0.79/rgl/src/ext/ftgl/FTOutlineGlyph.cpp |only
rgl-0.79/rgl/src/ext/ftgl/FTOutlineGlyph.h |only
rgl-0.79/rgl/src/ext/ftgl/FTPixmapGlyph.cpp |only
rgl-0.79/rgl/src/ext/ftgl/FTPixmapGlyph.h |only
rgl-0.79/rgl/src/ext/ftgl/FTPoint.h |only
rgl-0.79/rgl/src/ext/ftgl/FTPolyGlyph.cpp |only
rgl-0.79/rgl/src/ext/ftgl/FTPolyGlyph.h |only
rgl-0.79/rgl/src/ext/ftgl/FTTextureGlyph.cpp |only
rgl-0.79/rgl/src/ext/ftgl/FTTextureGlyph.h |only
rgl-0.80/rgl/DESCRIPTION | 26
rgl-0.80/rgl/R/r3d.rgl.R | 4
rgl-0.80/rgl/configure | 4740 ++++++++++++----------
rgl-0.80/rgl/inst/NEWS | 4
rgl-0.80/rgl/man/texts.Rd | 3
rgl-0.80/rgl/src/BBoxDeco.cpp | 108
rgl-0.80/rgl/src/TextSet.hpp | 6
rgl-0.80/rgl/src/build/autoconf/config.guess | 60
rgl-0.80/rgl/src/build/autoconf/config.sub | 78
rgl-0.80/rgl/src/build/autoconf/install-sh | 678 ++-
rgl-0.80/rgl/src/ext/ftgl/FTBuffer.cpp |only
rgl-0.80/rgl/src/ext/ftgl/FTCharToGlyphIndexMap.h | 91
rgl-0.80/rgl/src/ext/ftgl/FTCharmap.cpp | 90
rgl-0.80/rgl/src/ext/ftgl/FTCharmap.h | 71
rgl-0.80/rgl/src/ext/ftgl/FTContour.cpp | 306 -
rgl-0.80/rgl/src/ext/ftgl/FTContour.h | 155
rgl-0.80/rgl/src/ext/ftgl/FTFace.cpp | 177
rgl-0.80/rgl/src/ext/ftgl/FTFace.h | 72
rgl-0.80/rgl/src/ext/ftgl/FTFont |only
rgl-0.80/rgl/src/ext/ftgl/FTGL |only
rgl-0.80/rgl/src/ext/ftgl/FTGlyph |only
rgl-0.80/rgl/src/ext/ftgl/FTGlyphContainer.cpp | 108
rgl-0.80/rgl/src/ext/ftgl/FTGlyphContainer.h | 66
rgl-0.80/rgl/src/ext/ftgl/FTInternals.h |only
rgl-0.80/rgl/src/ext/ftgl/FTLayout |only
rgl-0.80/rgl/src/ext/ftgl/FTLibrary.cpp | 51
rgl-0.80/rgl/src/ext/ftgl/FTLibrary.h | 55
rgl-0.80/rgl/src/ext/ftgl/FTList.h | 57
rgl-0.80/rgl/src/ext/ftgl/FTPoint.cpp | 51
rgl-0.80/rgl/src/ext/ftgl/FTSize.cpp | 71
rgl-0.80/rgl/src/ext/ftgl/FTSize.h | 58
rgl-0.80/rgl/src/ext/ftgl/FTUnicode.h |only
rgl-0.80/rgl/src/ext/ftgl/FTVector.h | 147
rgl-0.80/rgl/src/ext/ftgl/FTVectoriser.cpp | 265 -
rgl-0.80/rgl/src/ext/ftgl/FTVectoriser.h | 140
rgl-0.80/rgl/src/ext/ftgl/config.h |only
rgl-0.80/rgl/src/ftgl.cpp | 24
rgl-0.80/rgl/src/glgui.cpp | 8
rgl-0.80/rgl/src/glgui.hpp | 4
70 files changed, 4798 insertions(+), 2976 deletions(-)
Author: Karline Soetaert
Diff between deSolve versions 1.2 dated 2008-07-18 and 1.2-1 dated 2008-07-21
Title: General solvers for ordinary differential equations
(ODE) and for differential algebraic equations (DAE)
Description: Functions that solve a system of first-order ordinary
differential equations (ODE) and of differential algebraic
equations (DAE).
The functions provide an interface to the FORTRAN functions
lsoda, lsodar, lsode, lsodes, dvode and daspk.
The package also contains routines designed for solving
uni-and multicomponent 1-D and 2-D reactive transport models.
DESCRIPTION | 4
inst/doc/compiledCode.Rnw | 26
inst/doc/compiledCode.pdf | 1549 ++++++++++++++++++++++++----------------------
3 files changed, 840 insertions(+), 739 deletions(-)
Author: Aaron A. King, Edward L. Ionides, Carles Martinez Breto
Title: Partially-observed Markov processes
Description: Inference methods for partially-observed Markov processes
Diff between pomp versions 0.20-2 dated 2008-07-16 and 0.20-4 dated 2008-07-21
DESCRIPTION | 6 R/aaa.R | 1 R/init.state-pomp.R | 6 R/pomp.R | 9 - data/ou2.rda |binary inst/ChangeLog | 266 +++++++++++++++++++++++-------------- inst/NEWS | 74 ++++++---- inst/doc/compiled_code_in_pomp.Rnw | 2 inst/doc/compiled_code_in_pomp.pdf |binary inst/doc/intro_to_pomp.Rnw | 34 +--- inst/doc/intro_to_pomp.pdf |binary inst/examples/logistic.R |only inst/examples/rw2.R |only inst/examples/sir.c | 4 inst/include/pomp.h | 9 - man/dprocess-pomp.Rd | 88 ++++++------ man/mif-class.Rd | 2 man/ou2.Rd | 1 man/pomp-class.Rd | 4 man/pomp.Rd | 8 - man/rmeasure-pomp.Rd | 6 src/dmeasure.c | 17 -- src/dprocess.c | 28 ++- src/euler.c | 156 +++++++++++++++------ src/eulermultinom.c | 2 src/initstate.c | 42 +++++ src/lookup_table.c | 26 +-- src/ou2.c | 14 - src/pomp.h | 9 - src/pomp_internal.h | 3 src/rmeasure.c | 65 ++++++--- src/rprocess.c | 28 ++- src/sir.c | 4 tests/logistic.R |only tests/logistic.Rout.save |only tests/sir.R | 32 ++-- tests/sir.Rout.save | 76 +++++----- 37 files changed, 613 insertions(+), 409 deletions(-)
Author: Paul Murrell
Title: Comparing Objects for Differences
Description: Functions for comparing vectors and data frames.
Diff between compare versions 0.1 dated 2008-06-16 and 0.2 dated 2008-07-21
DESCRIPTION | 6 NAMESPACE | 5 R/file.R | 9 + R/same.R | 278 +++++++++++++++++++++++++++++++++------------ inst/doc/compare-intro.Rnw | 2 inst/doc/compare-intro.pdf |binary inst/doc/compare.tex | 84 ++++++++----- inst/doc/fundamentals.pdf |binary man/compareEqual.Rd | 7 - man/compareFile.Rd | 8 + tests/test.R | 105 ++++++++++++++++ 11 files changed, 397 insertions(+), 107 deletions(-)
Author: Henrik Bengtsson
Diff between R.matlab versions 1.2.2 dated 2008-07-18 and 1.2.3 dated 2008-07-21
Title: Read and write of MAT files together with R-to-Matlab connectivity
Description: This package provides methods to read and write MAT files. It also makes it possible to communicate (evaluate code, send and retrieve objects etc.) with Matlab v6 or higher running locally or on a remote host.
R.matlab-1.2.2/R.matlab/inst/mat-files/StructWithSparseMatrix-v4.mat |only
R.matlab-1.2.3/R.matlab/DESCRIPTION | 6 +-
R.matlab-1.2.3/R.matlab/R/readMat.R | 2
R.matlab-1.2.3/R.matlab/incl/readMat.Rex | 26 ++++++----
R.matlab-1.2.3/R.matlab/inst/NEWS | 5 +
R.matlab-1.2.3/R.matlab/inst/mat-files/StructWithSparseMatrix-v4,compressed.mat |only
R.matlab-1.2.3/R.matlab/man/Matlab.Rd | 2
R.matlab-1.2.3/R.matlab/man/R.matlab-package.Rd | 2
R.matlab-1.2.3/R.matlab/man/readMat.Rd | 26 ++++++----
R.matlab-1.2.3/R.matlab/man/writeMat.Rd | 17 ++++++
10 files changed, 63 insertions(+), 23 deletions(-)
Author: Daniel Ho
Diff between MatchIt versions 2.4-4 dated 2008-07-20 and 2.4-5 dated 2008-07-21
Title: MatchIt
Description: MatchIt preprocesses data by selecting approximate matched samples
of the treated and control groups with similar covariate
distributions, drawing on a large variety of matching methods.
After preprocessing data with MatchIt, whatever standard parametric
technique one might have used without preprocessing can be used, but
the results will be far less model dependent.
DESCRIPTION | 6
R/matchit.R | 2
inst/doc/index.shtml | 2
inst/doc/matchit.log | 4
inst/doc/matchit.pdf | 1970 +++++++++++++++++++++++++--------------------------
inst/doc/matchit.tex | 1
6 files changed, 992 insertions(+), 993 deletions(-)
Author: Klaus Schliep
Title: Phylogenetic analysis in R
Description: Phylogenetic analysis in R (Estimation of phylogenetic
trees and networks using Maximum Likelihood, Maximum Parsimony,
Distance methods & Hadamard conjugation)
Diff between phangorn versions 0.0-1 dated 2008-03-25 and 0.0-2 dated 2008-07-20
phangorn-0.0-1/phangorn/man/phangorn-internal.Rd |only phangorn-0.0-2/phangorn/Changes |only phangorn-0.0-2/phangorn/DESCRIPTION | 8 phangorn-0.0-2/phangorn/NAMESPACE |only phangorn-0.0-2/phangorn/R/phylo.R | 4270 ++++++++++++----------- phangorn-0.0-2/phangorn/man/NJ.Rd | 6 phangorn-0.0-2/phangorn/man/dist.hamming.Rd |only phangorn-0.0-2/phangorn/man/hadamard.Rd | 2 phangorn-0.0-2/phangorn/man/parsimony.Rd | 2 phangorn-0.0-2/phangorn/man/phyDat.Rd | 3 phangorn-0.0-2/phangorn/man/pml.Rd | 79 phangorn-0.0-2/phangorn/man/treedist.Rd | 2 phangorn-0.0-2/phangorn/man/upgma.Rd | 2 phangorn-0.0-2/phangorn/src/init.c |only phangorn-0.0-2/phangorn/src/phangorn.c | 240 + phangorn-0.0-2/phangorn/src/phangorn.h |only 16 files changed, 2507 insertions(+), 2107 deletions(-)
Author: Klaus Schliep & Klaus Hechenbichler
Title: Weighted k-Nearest Neighbors
Description: Weighted k-Nearest Neighbors Classification and Regression
Diff between kknn versions 1.0-5 dated 2007-10-11 and 1.0-6 dated 2008-07-20
DESCRIPTION | 8 INDEX | 16 R/kknn.R | 1060 +++++++++++++++++++++++++++++------------------------------- 3 files changed, 535 insertions(+), 549 deletions(-)
Author: Laercio Junio da Silva
Diff between laercio versions 0.9-4 dated 2008-07-15 and 0.9-5 dated 2008-07-20
Title: Duncan test, Tukey test and Scott-Knott test.
Description: The package contains functions to compare and group means.
DESCRIPTION | 6 +++---
R/LScottKnott.aov.r | 24 ++++++++++++++----------
man/laercio-package.Rd | 4 ++--
3 files changed, 19 insertions(+), 15 deletions(-)
Author: John Verzani
Title: Toolkit implementation of gWidgets for tcltk package
Description: Port of gWidgets API to the tcltk package. Requires TK 8.5 or greater for the tile (ttk)widgets http://www.tcl.tk/software/tcltk/8.5.tml. This is default on Windows. Under linux, it must be installed. Under Mac OS X (10.5) it must be upgraded. See www.tcl.tk to download source. Under the Mac it compiles and installs cleanly.
Diff between gWidgetstcltk versions 0.0-11 dated 2008-07-20 and 0.0-13 dated 2008-07-20
DESCRIPTION | 4 ++-- NEWS | 6 ++++++ R/zzz.R | 6 ++++++ tests/RunTests.R | 18 +++++++++++------- 4 files changed, 25 insertions(+), 9 deletions(-)
Author: Patrick Mair, Reinhold Hatzinger
Title: Extended Rasch Modeling.
Description: eRm fits Rasch models (RM), linear logistic test models (LLTM), rating scale model (RSM), linear rating scale models (LRSM), partial credit models (PCM), and linear partial credit models (LPCM). Missing values are allowed in the data matrix. Additional features are the ML estimation of the person parameters, Andersen's LR-test, item-specific Wald test, itemfit and personfit statistics including infit and outfit measures, various ICC and related plots, automated stepwise item elimination, simulation module for various binary data matrices. An eRm platform is provided at R-forge (see URL).
Diff between eRm versions 0.9-8.2 dated 2008-05-25 and 0.10-1 dated 2008-07-20
DESCRIPTION | 11 ++++--- NAMESPACE | 9 ++++++ R/IC.ppar.r | 67 +++++++++++++++++++++++++++++++++++++---------- R/Rsquared.R |only R/Waldtest.Rm.R | 30 ++------------------- R/cldeviance.R |only R/cwdeviance.r |only R/gofIRT.R |only R/gofIRT.ppar.R |only R/hoslem.R |only R/itemfit.ppar.R | 11 ------- R/logLik.ppar.r | 4 +- R/person.parameter.eRm.R | 30 +-------------------- R/pifit.internal.r | 4 +- R/pmat.ppar.R | 13 +++------ R/predict.ppar.R |only R/print.ICr.r | 6 +--- R/print.gof.R |only R/print.step.r |only R/rostdeviance.r |only R/stepwiseIt.R |only R/stepwiseIt.eRm.R |only R/summary.eRm.R | 2 - R/summary.gof.R |only inst/doc/eRmvig.pdf |binary man/IC.Rd |only man/eRm-package.Rd | 4 +- man/gofIRT.Rd |only man/itemfit.ppar.Rd | 6 ++-- man/person.parameter.Rd | 7 ---- man/predict.ppar.Rd |only man/stepwiseIt.Rd |only 32 files changed, 93 insertions(+), 111 deletions(-)
Author: John Verzani
Title: Toolkit implementation of gWidgets for tcltk package
Description: Port of gWidgets API to the tcltk package. Requires TK 8.5 or greater for the tile (ttk)widgets http://www.tcl.tk/software/tcltk/8.5.tml. This is default on Windows. Under linux, it must be installed. Under Mac OS X (10.5) it must be upgraded. See www.tcl.tk to download source. Under the Mac it compiles and installs cleanly.
Diff between gWidgetstcltk versions 0.0-9 dated 2008-05-06 and 0.0-11 dated 2008-07-20
DESCRIPTION | 10 +++++----- NEWS | 12 ++++++++++++ R/gframe.R | 2 +- man/gWidgetstcltk-undocumented.Rd | 33 +++++++++++++++++++++++++++++++-- 4 files changed, 49 insertions(+), 8 deletions(-)
Author: John Verzani
Title: Toolkit implementation of gWidgets for rJava
Description: Port of gWidgets API to the rJava interface between R and Java.
Diff between gWidgetsrJava versions 0.0-12 dated 2008-06-11 and 0.0-13 dated 2008-07-20
DESCRIPTION | 4 ++-- man/gWidgetsrJava-undocumented.Rd | 1 + 2 files changed, 3 insertions(+), 2 deletions(-)
Author: Michael Lawrence, John Verzani
Title: Toolkit implementation of gWidgets for RGtk2
Description: Port of gWidgets API to RGtk2
Diff between gWidgetsRGtk2 versions 0.0-35 dated 2008-06-11 and 0.0-36 dated 2008-07-20
ChangeLog | 13 +++++++++++++ DESCRIPTION | 4 ++-- NEWS | 6 ++++++ R/gpanedgroup.R | 2 +- R/gradio.R | 13 +++++++++++++ R/gtoolbar.R | 2 +- R/gvarbrowser.R | 8 +++++++- man/gWidgetsRGtk2-undocumented.Rd | 4 +++- 8 files changed, 46 insertions(+), 6 deletions(-)
Author: Karl W Broman
Diff between qtl versions 1.08-56 dated 2008-04-09 and 1.09-43 dated 2008-07-20
Title: Tools for analyzing QTL experiments
Description: Analysis of experimental crosses to identify genes (called quantitative trait loci, QTLs) contributing to variation in quantitative traits.
DESCRIPTION | 6 -
INDEX | 4
R/add_threshold.R | 12 +-
R/addqtl.R | 95 ++++++++++++++---
R/argmax.geno.R | 6 -
R/calc.genoprob.R | 8 -
R/calc.pairprob.R | 6 -
R/cim.R | 7 +
R/countXO.R | 4
R/effectplot.R | 123 ++++++++++++++--------
R/effectscan.R | 4
R/errorlod.R | 10 -
R/est.map.R | 4
R/est.rf.R | 21 ++-
R/fitqtl.R | 110 ++++++++++++++++++--
R/makeqtl.R | 99 ++++++++++++++++--
R/plot.R | 70 +++++++++----
R/plot.scanone.R | 63 ++++++++---
R/plot.scantwo.R | 50 ++++++---
R/plotModel.R |only
R/read.cross.R | 18 ++-
R/read.cross.csv.R | 19 ++-
R/read.cross.csvs.R | 22 ++--
R/read.cross.mm.R | 10 -
R/read.cross.qtx.R | 12 +-
R/refineqtl.R | 84 ++++++++++++---
R/ripple.R | 6 -
R/scanone.R | 18 ++-
R/scanoneboot.R | 7 +
R/scanqtl.R | 26 +++-
R/scantwo.R | 19 ++-
R/sim.geno.R | 6 -
R/stepwiseqtl.R |only
R/summary.cross.R | 90 +++++++++++++---
R/summary.scanone.R | 29 ++++-
R/summary.scantwo.R | 30 ++++-
R/summary.scantwo.old.R | 6 -
R/tryallpositions.R | 6 -
R/util.R | 133 ++++++++++++++++++++----
R/write.cross.R | 8 -
R/xchr.R | 8 -
inst/BUGS.txt | 13 ++
inst/README.txt | 18 +--
inst/STATUS.txt | 185 ++++++++++++++++++++++++++++++++++
inst/TODO.txt | 67 ++++++------
inst/docs/new_multiqtl.Rnw | 242 +++++++++++++++++++++++++++++++++++++--------
inst/docs/new_multiqtl.pdf |binary
inst/docs/rqtltour.R | 11 +-
inst/docs/rqtltour.pdf |binary
inst/docs/rqtltour.tex | 97 +++++++++++++++---
man/addint.Rd | 16 ++
man/addpair.Rd | 13 +-
man/addqtl.Rd | 13 +-
man/arithscan.Rd | 4
man/arithscanperm.Rd | 4
man/bayesint.Rd | 19 ++-
man/c.scanone.Rd | 2
man/calc.penalties.Rd |only
man/cim.Rd | 6 -
man/effectplot.Rd | 12 +-
man/fake.bc.Rd | 6 -
man/fitqtl.Rd | 27 ++---
man/geno.image.Rd | 2
man/lodint.Rd | 19 ++-
man/nmissing.Rd | 2
man/ntyped.Rd |only
man/plot.missing.Rd | 2
man/plot.pheno.Rd | 6 -
man/plot.pxg.Rd | 6 -
man/plot.rf.Rd | 3
man/plotModel.Rd |only
man/qtl-internal.Rd | 26 ++++
man/refineqtl.Rd | 22 +++-
man/reorderqtl.Rd | 8 +
man/scanone.Rd | 35 ++++--
man/scanoneboot.Rd | 6 -
man/scanqtl.Rd | 12 +-
man/scantwo.Rd | 22 ++--
man/stepwiseqtl.Rd |only
man/subset.cross.Rd | 2
man/summary.fitqtl.Rd | 5
man/summary.scantwo.Rd | 2
src/fitqtl_hk.c | 4
src/hmm_4way.c | 6 -
src/hmm_bc.c | 6 -
src/hmm_main.c | 2
86 files changed, 1719 insertions(+), 493 deletions(-)
Author: Steve Kembel
Diff between picante versions 0.2-0 dated 2008-06-18 and 0.3-0 dated 2008-07-20
Title: Tools for integrating phylogenies and ecology
Description: Phylocom integration, community analyses, null-models, traits and evolution in R
DESCRIPTION | 8 ++++----
R/evolve.trait.R | 4 +++-
R/pblm.R |only
R/phylodiversity.R | 11 +++++++++--
R/phylostruct.R |only
R/pic.circular.R | 2 +-
R/specaccum.psr.R | 4 ++--
R/sppregs.R |only
man/pblm.Rd |only
man/phylostruct.Rd |only
man/sppregs.Rd |only
11 files changed, 19 insertions(+), 10 deletions(-)
Author: Robert B. Gramacy
Diff between monomvn versions 1.3-1 dated 2008-06-20 and 1.4 dated 2008-07-20
Title: Estimation for multivariate normal data with monotone missingness
Description: Estimation of multivariate normal data of arbitrary dimension
where the pattern of missing data is monotone. Through the use of
parsimonious/shrinkage regressions (plsr, pcr, lasso, ridge, etc.),
where standard regressions fail, the package can handle an
(almost) arbitrary amount of missing data. The current version
supports maximum likelihood inference and beta implementation
of a Bayesian version employing a Bayesian lasso. A fully
functional standalone (beta) interface to the Bayesian lasso
(from Park & Casella) and ridge regression with model selection
via Reversible Jump is also provided
monomvn-1.3-1/monomvn/man/kl.norm.Rd |only
monomvn-1.4/monomvn/.Rbuildindex.78724 |only
monomvn-1.4/monomvn/ChangeLog | 51 +
monomvn-1.4/monomvn/DESCRIPTION | 13
monomvn-1.4/monomvn/R/blasso.R | 109 ++-
monomvn-1.4/monomvn/R/blasso.s3.R | 15
monomvn-1.4/monomvn/R/bmonomvn.R | 143 ++++-
monomvn-1.4/monomvn/R/kl.norm.R | 88 ++-
monomvn-1.4/monomvn/R/monomvn.R | 10
monomvn-1.4/monomvn/R/monomvn.s3.R | 4
monomvn-1.4/monomvn/R/posdef.approx.R | 50 +
monomvn-1.4/monomvn/R/randmvn.R | 62 +-
monomvn-1.4/monomvn/R/regress.R | 18
monomvn-1.4/monomvn/R/regress.lars.R | 30 -
monomvn-1.4/monomvn/R/regress.ridge.R | 73 +-
monomvn-1.4/monomvn/man/blasso.Rd | 143 ++---
monomvn-1.4/monomvn/man/blasso.s3.Rd | 16
monomvn-1.4/monomvn/man/bmonomvn.Rd | 164 +++--
monomvn-1.4/monomvn/man/cement.Rd | 2
monomvn-1.4/monomvn/man/metrics.Rd |only
monomvn-1.4/monomvn/man/monomvn-internal.Rd | 2
monomvn-1.4/monomvn/man/monomvn-package.Rd | 18
monomvn-1.4/monomvn/man/monomvn.Rd | 88 +--
monomvn-1.4/monomvn/man/monomvn.s3.Rd | 6
monomvn-1.4/monomvn/man/posdef.approx.Rd | 15
monomvn-1.4/monomvn/man/randmvn.Rd | 34 +
monomvn-1.4/monomvn/man/regress.Rd | 35 -
monomvn-1.4/monomvn/man/rmono.Rd | 20
monomvn-1.4/monomvn/man/rwish.Rd | 2
monomvn-1.4/monomvn/src/blasso.cc | 798 ++++++++++++++++++----------
monomvn-1.4/monomvn/src/blasso.h | 71 +-
monomvn-1.4/monomvn/src/bmonomvn.cc | 148 +++--
monomvn-1.4/monomvn/src/bmonomvn.h | 20
monomvn-1.4/monomvn/src/matrix.c | 25
monomvn-1.4/monomvn/src/matrix.h | 2
35 files changed, 1571 insertions(+), 704 deletions(-)
Author: Justin Harrington
Title: Tools for linear grouping analysis (LGA)
Description: Tools for linear grouping analysis. Three user-level functions: gap, rlga and lga.
Diff between lga versions 1.1-0 dated 2008-02-24 and 1.1-1 dated 2008-07-20
ChangeLog | 10 ++++ DESCRIPTION | 6 +- R/lga.R | 116 +++++++++++++++++++++++++++++-------------------- R/rlga.R | 69 ++++++++++++++++++++--------- data/corridorWalls.rda |only man/corridorWalls.Rd |only man/lga-package.Rd | 6 ++ man/lga.Rd | 23 +++++++-- 8 files changed, 155 insertions(+), 75 deletions(-)
Author: K. Burkett
Diff between hapassoc versions 1.1-1 dated 2007-09-23 and 1.2 dated 2008-07-20
Title: Inference of trait associations with SNP haplotypes and other attributes using the EM Algorithm
Description: The following R functions are used for inference of trait associations with haplotypes and other covariates in generalized linear models. The functions are developed primarily for data collected in cohort or cross-sectional studies. They can accommodate uncertain haplotype phase and handle missing genotypes at some SNPs.
DESCRIPTION | 12
R/hapassoc.R | 269 ++++++++++++-
R/logLik_hapassoc.R | 8
R/summaryHap.R | 6
inst/doc/hapassoc.pdf | 964 ++++++++++++++++++++++++-------------------------
man/PreHap.Rd | 2
man/anova_hapassoc.Rd | 3
man/hapassoc.Rd | 63 ++-
man/logLik_hapassoc.Rd | 6
src/tapply_sum.c |only
10 files changed, 794 insertions(+), 539 deletions(-)
Author: Rajarshi Guha
Diff between fingerprint versions 2.7 dated 2007-11-09 and 2.8 dated 2008-07-20
Title: Functions to operate on binary fingerprint data
Description: This package contains functions to manipulate binary fingerprints
of arbitrary length. A fingerprint is represented by an object of S4 class 'fingerprint'
which is internally represented a vector of integers, such
that each element represents the position in the fingerprint that is set to 1.
The bitwise logical functions in R are overridden so that they can be used directly
with 'fingerprint' objects. A number of distance metrics are also
available (many contributed by Michael Fadock). Fingerprints
can be converted to Euclidean vectors (i.e., points on the unit hypersphere) and
can also be folded using OR. Arbitrary fingerprint formats can be handled via line
handlers. Currently handlers are provided for CDK, MOE and BCI fingerprint data.
DESCRIPTION | 8 ++++----
R/misc.R | 2 +-
man/fold.Rd | 2 +-
3 files changed, 6 insertions(+), 6 deletions(-)
Author: Göran Broström
Title: Event History Analysis
Description: A package for survival and event history analysis
Diff between eha versions 1.0 dated 2007-10-07 and 1.2-0 dated 2008-07-20
eha-1.0/eha/R/hweibull.R |only eha-1.0/eha/ToDo |only eha-1.2-0/eha/ChangeLog | 12 ++++ eha-1.2-0/eha/DESCRIPTION | 6 +- eha-1.2-0/eha/INDEX | 20 ++++++ eha-1.2-0/eha/NAMESPACE | 29 +++++++--- eha-1.2-0/eha/R/Extreme_Value.R |only eha-1.2-0/eha/R/Gompertz.R |only eha-1.2-0/eha/R/Loglogistic.R |only eha-1.2-0/eha/R/Lognormal.R |only eha-1.2-0/eha/R/Makeham.R |only eha-1.2-0/eha/R/Weibull.R |only eha-1.2-0/eha/R/aftreg.R |only eha-1.2-0/eha/R/aftreg.fit.R |only eha-1.2-0/eha/R/check.dist.R |only eha-1.2-0/eha/R/coxreg.R | 64 +++++++++++----------- eha-1.2-0/eha/R/coxreg.fit.R | 104 +++++++++++++++++++++--------------- eha-1.2-0/eha/R/mlreg.R | 38 ++++++------- eha-1.2-0/eha/R/phfunc.R |only eha-1.2-0/eha/R/phreg.R |only eha-1.2-0/eha/R/phreg.fit.R |only eha-1.2-0/eha/R/plot.aftreg.R |only eha-1.2-0/eha/R/plot.coxreg.R |only eha-1.2-0/eha/R/plot.hazdata.R |only eha-1.2-0/eha/R/plot.phreg.R |only eha-1.2-0/eha/R/plot.surv.R | 46 +++++++-------- eha-1.2-0/eha/R/plot.weibreg.R | 25 ++++---- eha-1.2-0/eha/R/print.aftreg.R |only eha-1.2-0/eha/R/print.phreg.R |only eha-1.2-0/eha/R/toBinary.R | 3 - eha-1.2-0/eha/R/wfunk.R | 34 ++++++----- eha-1.2-0/eha/data |only eha-1.2-0/eha/inst |only eha-1.2-0/eha/man/EV.Rd |only eha-1.2-0/eha/man/Gompertz.Rd |only eha-1.2-0/eha/man/Loglogistic.Rd |only eha-1.2-0/eha/man/Lognormal.Rd |only eha-1.2-0/eha/man/Makeham.Rd |only eha-1.2-0/eha/man/aftreg.Rd |only eha-1.2-0/eha/man/aftreg.fit.Rd |only eha-1.2-0/eha/man/check.dist.Rd |only eha-1.2-0/eha/man/check.surv.Rd | 4 - eha-1.2-0/eha/man/coxreg.Rd | 7 ++ eha-1.2-0/eha/man/coxreg.fit.Rd | 4 + eha-1.2-0/eha/man/geome.fit.Rd | 4 - eha-1.2-0/eha/man/male.mortality.Rd |only eha-1.2-0/eha/man/mlreg.Rd | 14 +++- eha-1.2-0/eha/man/perstat.Rd | 4 - eha-1.2-0/eha/man/phfunc.Rd |only eha-1.2-0/eha/man/phreg.Rd |only eha-1.2-0/eha/man/phreg.fit.Rd |only eha-1.2-0/eha/man/plot.aftreg.Rd |only eha-1.2-0/eha/man/plot.coxreg.Rd |only eha-1.2-0/eha/man/plot.hazdata.Rd |only eha-1.2-0/eha/man/plot.phreg.Rd |only eha-1.2-0/eha/man/plot.weibreg.Rd | 4 - eha-1.2-0/eha/man/print.aftreg.Rd |only eha-1.2-0/eha/man/print.phreg.Rd |only eha-1.2-0/eha/man/print.weibreg.Rd | 3 - eha-1.2-0/eha/man/toBinary.Rd | 1 eha-1.2-0/eha/man/toDate.Rd | 2 eha-1.2-0/eha/man/toTime.Rd | 2 eha-1.2-0/eha/man/wfunk.Rd | 6 +- eha-1.2-0/eha/src/Makevars | 2 eha-1.2-0/eha/src/aftexpreg.c |only eha-1.2-0/eha/src/aftreg.c |only eha-1.2-0/eha/src/aftreg.h |only eha-1.2-0/eha/src/coxfun.c | 61 ++++++++++++++------- eha-1.2-0/eha/src/coxfun.h | 6 +- eha-1.2-0/eha/src/getsums.f | 10 +-- eha-1.2-0/eha/src/getsums.null.f | 8 +- eha-1.2-0/eha/src/loglik_aft.c |only eha-1.2-0/eha/src/loglik_aft.h |only eha-1.2-0/eha/src/loglik_ph.c |only eha-1.2-0/eha/src/loglik_ph.h |only eha-1.2-0/eha/src/phexpreg.c |only eha-1.2-0/eha/src/phfun.c |only eha-1.2-0/eha/src/phfun.h |only eha-1.2-0/eha/src/phreg.c |only eha-1.2-0/eha/src/phreg.h |only eha-1.2-0/eha/src/sup.c | 32 ++++++++--- eha-1.2-0/eha/src/sup.h | 1 eha-1.2-0/eha/src/weibreg.c | 66 +++++++++++++++++++++- eha-1.2-0/eha/src/wfunc.f | 48 ++++++++-------- eha-1.2-0/eha/src/wfunc.null.f | 16 ++--- 85 files changed, 439 insertions(+), 247 deletions(-)
Author: Guido van Steen
Title: dataframes2xls writes data frames to xls files
Description: dataframes2xls writes data frames to xls files. It supports multiple sheets and basic formatting.
Diff between dataframes2xls versions 0.4.1 dated 2008-06-09 and 0.4.2 dated 2008-07-20
DESCRIPTION | 6 +++--- inst/doc/README | 4 +--- inst/python/csv2xls.py | 2 +- 3 files changed, 5 insertions(+), 7 deletions(-)
More information about dataframes2xls at CRAN
Permanent link
Author: Daniel Ho
Diff between MatchIt versions 2.3-1 dated 2007-10-12 and 2.4-4 dated 2008-07-20
Title: MatchIt
Description: MatchIt preprocesses data by selecting approximate matched samples
of the treated and control groups with similar covariate
distributions, drawing on a large variety of matching methods.
After preprocessing data with MatchIt, whatever standard parametric
technique one might have used without preprocessing can be used, but
the results will be far less model dependent.
DESCRIPTION | 11
R/matchit.R | 4
R/matchit2cem.R |only
R/matchit2full.R | 5
R/summary.matchit.subclass.R | 4
demo/00Index | 1
demo/cem.R |only
inst/doc/faq.tex | 34
inst/doc/index.shtml | 2
inst/doc/matchit.aux | 98
inst/doc/matchit.bbl | 55
inst/doc/matchit.blg | 69
inst/doc/matchit.log | 130 -
inst/doc/matchit.out | 1
inst/doc/matchit.pdf | 5309 ++++++++++++++++++++++---------------------
inst/doc/matchit.tex | 7
inst/doc/matchit.toc | 46
inst/doc/matchit2zelig.tex | 51
inst/doc/matchitref.tex | 27
inst/doc/overview.tex | 2
inst/doc/preprocess.tex | 56
21 files changed, 3080 insertions(+), 2832 deletions(-)
Author: Compiled by Adrian Trapletti
Diff between tseries versions 0.10-15 dated 2008-05-08 and 0.10-16 dated 2008-07-18
Title: Time series analysis and computational finance
Description: Package for time series analysis and computational finance
ChangeLog | 10 +++++++++-
DESCRIPTION | 6 +++---
R/finance.R | 4 ++--
3 files changed, 14 insertions(+), 6 deletions(-)
Author: S original by David James
Diff between chron versions 2.3-23 dated 2008-05-20 and 2.3-24 dated 2008-07-18
Title: Chronological objects which can handle dates and times
Description: Chronological objects which can handle dates and times
ChangeLog | 9 +++++++++
DESCRIPTION | 6 +++---
R/chron.R | 22 ++++++++++++++++------
man/chron.Rd | 11 +++++++++++
4 files changed, 39 insertions(+), 9 deletions(-)
Author: Nicholas L. Crookston
Diff between yaImpute versions 1.0-4 dated 2008-03-21 and 1.0-5 dated 2008-07-18
Title: yaImpute: An R Package for k-NN Imputation
Description: Performs popular nearest neighbor routines for imputation
DESCRIPTION | 22 +++++++++++-----------
NAMESPACE | 14 +++++++-------
R/asciigridimpute.R | 18 +++++++++++++-----
R/yai.R | 19 ++++++++++++++-----
4 files changed, 45 insertions(+), 28 deletions(-)
Author: Adrian Baddeley
Diff between spatstat versions 1.13-3 dated 2008-06-23 and 1.13-4 dated 2008-07-18
Title: Spatial Point Pattern analysis, model-fitting, simulation, tests
Description: A package for analysing spatial data,
mainly Spatial Point Patterns, including multitype/marked points
and spatial covariates, in any two-dimensional spatial region.
Contains functions for plotting spatial data,
exploratory data analysis, model-fitting, simulation,
spatial sampling, model diagnostics,
and formal inference. Data types include point patterns,
line segment patterns, spatial windows, and
pixel images. Point process models can be
fitted to point pattern data. Cluster type models are fitted
by the method of minimum contrast. Very general Gibbs point
process models can be fitted to point pattern data
using a function ppm similar to lm or glm. Models may
include dependence on covariates, interpoint interaction
and dependence on marks. Fitted models can be simulated automatically.
Also provides facilities for formal inference (such as chi-squared
tests) and model diagnostics (including simulation
envelopes, residuals, residual plots and Q-Q plots).
DESCRIPTION | 8 ++--
INDEX | 10 +++++
R/closepairs.R | 82 ++++++++++++++++++++++++++++++++++------------
R/diagnoseppm.R | 4 +-
R/effectfun.R |only
R/eval.im.R | 9 ++---
R/kppm.R |only
R/levelset.R | 8 ++--
R/lurking.R | 10 +++--
R/marks.R | 3 +
R/mpl.R | 9 +++--
R/options.R | 3 +
R/plot.im.R | 32 +++++++++++++-----
R/ppmclass.R | 22 ++++++++++++
R/ppp.S | 52 +++++++++++++++++------------
R/update.ppm.R | 24 +++++++++++--
R/window.S | 8 ++++
R/wingeom.S | 84 ++++++++++++++++++++++++++++++++++++++++++------
data/chorley.rda |binary
data/urkiola.rda |only
demo/data.R | 3 +
demo/spatstat.R | 2 -
man/00spatstat.Rd | 67 ++++++++++++++++++++++++++------------
man/as.owin.Rd | 9 ++++-
man/effectfun.Rd |only
man/eval.im.Rd | 3 +
man/gpc2owin.Rd |only
man/internal.Rd | 12 ++++++
man/intersect.owin.Rd | 8 +---
man/kppm.Rd |only
man/lurking.Rd | 4 +-
man/matclust.estK.Rd | 7 +++-
man/mincontrast.Rd | 3 +
man/plot.im.Rd | 55 ++++++++++++++++++++++++++-----
man/plot.kppm.Rd |only
man/predict.kppm.Rd |only
man/rMatClust.Rd | 9 ++---
man/rSSI.Rd | 2 -
man/rThomas.Rd | 6 ++-
man/rmpoispp.Rd | 6 ++-
man/rpoispp.Rd | 25 ++++++++++++--
man/simulate.kppm.Rd |only
man/solutionset.Rd | 4 +-
man/spatstat.options.Rd | 6 +++
man/subset.ppp.Rd | 12 ++++--
man/thomas.estK.Rd | 4 ++
man/update.kppm.Rd |only
man/update.ppm.Rd | 16 ++++++++-
man/urkiola.Rd |only
tests/step.R |only
50 files changed, 482 insertions(+), 149 deletions(-)
Author: Arne Henningsen
Diff between sampleSelection versions 0.6-0 dated 2008-07-14 and 0.6-1 dated 2008-07-18
More information about sampleSelection at CRAN
Title: Sample Selection Models
Description: Estimation of Sample Selection Models
DESCRIPTION | 6 +++---
INDEX | 4 ++--
inst/doc |only
3 files changed, 5 insertions(+), 5 deletions(-)
Permanent link
Author: Simon Jackman, with contributions from
Alex Tahk, Achim Zeileis, Christina Maimone and Jim Fearon
Title: Political Science Computational Laboratory, Stanford University
Description: Bayesian analysis of item-response theory (IRT) models, roll call analysis;
computing highest density regions; maximum likelihood estimation of
zero-inflated and hurdle models for count data; goodness-of-fit measures for
GLMs; data sets used in writing and teaching at the Political Science
Computational Laboratory; seats-votes curves.
Diff between pscl versions 0.97 dated 2008-07-16 and 1.00 dated 2008-07-18
pscl-0.97/pscl/inst/doc/.build.timestamp |only pscl-1.00/pscl/DESCRIPTION | 6 +++--- pscl-1.00/pscl/HISTORY | 20 ++++++++++++-------- pscl-1.00/pscl/R/margins.rollcall.r | 4 ++-- pscl-1.00/pscl/inst/CITATION | 28 +++++++++++++++++++--------- pscl-1.00/pscl/inst/doc/auto/countreg.el | 17 +++++++++++------ pscl-1.00/pscl/inst/doc/countreg.pdf |binary pscl-1.00/pscl/man/computeMargins.Rd | 6 +++--- pscl-1.00/pscl/man/hurdle.Rd | 12 +++++------- pscl-1.00/pscl/man/zeroinfl.Rd | 12 +++++------- 10 files changed, 60 insertions(+), 45 deletions(-)
Author: Alberto Viglione
Title: Non-supervised Regional Frequency Analysis
Description: A collection of statistical tools for objective (non-supervised) applications
of the Regional Frequency Analysis methods in hydrology.
Diff between nsRFA versions 0.5-2 dated 2008-04-24 and 0.5-3 dated 2008-07-18
DESCRIPTION | 6 +++--- R/BayesianMCMC.R |only R/EXP.R | 14 +++++++++----- R/GENLOGIS.R | 9 ++++++--- R/GENPAR.R | 9 ++++++--- R/GEV.R | 12 ++++++++---- R/LOGNORM.R | 9 ++++++--- R/MLlaio2004.R | 12 ++++++------ R/P3.R | 8 ++++---- data/functionsLaio.rda |binary inst/doc/Fig1ElamirSeheult.pdf |binary man/BayesianMCMC.Rd |only man/functionsLaio.Rd | 8 ++++---- 13 files changed, 52 insertions(+), 35 deletions(-)
Author: Karline Soetaert
Diff between deSolve versions 1.1 dated 2008-06-01 and 1.2 dated 2008-07-18
Title: General solvers for ordinary differential equations
(ODE) and for differential algebraic equations (DAE)
Description: Functions that solve a system of first-order ordinary
differential equations (ODE) and of differential algebraic
equations (DAE).
The functions provide an interface to the FORTRAN functions
lsoda, lsodar, lsode, lsodes, dvode and daspk.
The package also contains routines designed for solving
uni-and multicomponent 1-D and 2-D reactive transport models.
deSolve-1.1/deSolve/inst/doc/compiledCode.tex |only
deSolve-1.2/deSolve/DESCRIPTION | 21 -
deSolve-1.2/deSolve/R/daspk.R | 2
deSolve-1.2/deSolve/R/lsoda.R | 2
deSolve-1.2/deSolve/R/lsodar.R | 2
deSolve-1.2/deSolve/R/lsode.R | 440 +++++++++++++-------------
deSolve-1.2/deSolve/R/lsodes.R | 2
deSolve-1.2/deSolve/R/rk4.R | 57 ---
deSolve-1.2/deSolve/R/rkAuto.R | 8
deSolve-1.2/deSolve/R/rkMethod.R | 18 -
deSolve-1.2/deSolve/R/vode.R | 2
deSolve-1.2/deSolve/demo/rk_solvers.R | 7
deSolve-1.2/deSolve/inst/doc/compiledCode.Rnw |only
deSolve-1.2/deSolve/inst/doc/compiledCode.pdf |binary
deSolve-1.2/deSolve/inst/doc/jss.bst |only
deSolve-1.2/deSolve/inst/doc/jss.cls |only
deSolve-1.2/deSolve/inst/doc/mymod.c |only
deSolve-1.2/deSolve/inst/doc/mymod.f |only
deSolve-1.2/deSolve/inst/dynload/satres.c |only
deSolve-1.2/deSolve/inst/dynload/satres.f |only
deSolve-1.2/deSolve/inst/dynload/satres.r |only
deSolve-1.2/deSolve/inst/svnversion | 2
deSolve-1.2/deSolve/man/ccl4model.Rd | 3
deSolve-1.2/deSolve/man/deSolve.Rd |only
deSolve-1.2/deSolve/man/lsodar.Rd | 2
deSolve-1.2/deSolve/man/ode.1D.Rd | 4
deSolve-1.2/deSolve/man/ode.2D.Rd | 2
deSolve-1.2/deSolve/man/rk.Rd | 87 ++---
deSolve-1.2/deSolve/man/rk4.Rd | 13
deSolve-1.2/deSolve/man/rkMethod.Rd | 51 +--
deSolve-1.2/deSolve/src/R_init_deSolve.c |only
deSolve-1.2/deSolve/src/deSolve_utils.c | 4
32 files changed, 340 insertions(+), 389 deletions(-)
Author: Michael J. Kane and John W. Emerson
Title: Manage massive matrices in R using C++, with UNIX support for shared memory
Description: Use C++ to create, store, access, and manipulate massive matrices. Under UNIX, it also supports use of shared memory.
Diff between bigmemory versions 2.1 dated 2008-06-23 and 2.2 dated 2008-07-18
DESCRIPTION | 6 +++--- R/kmeans.R | 2 ++ man/bigmemory-package.Rd | 4 ++-- man/kmeans.big.matrix.Rd | 6 ++++++ 4 files changed, 13 insertions(+), 5 deletions(-)
Author: Andrew Gelman
Diff between arm versions 1.1-12 dated 2008-07-17 and 1.1-13 dated 2008-07-18
Title: Data Analysis Using Regression and Multilevel/Hierarchical Models
Description: R functions for processing lm, glm, mer and polr outputs.
CHANGELOG | 5 +++++
DESCRIPTION | 6 +++---
R/bayespolr.R | 2 +-
3 files changed, 9 insertions(+), 4 deletions(-)
Author: Henrik Bengtsson
Diff between R.matlab versions 1.1.4 dated 2007-11-29 and 1.2.2 dated 2008-07-18
Title: Read and write of MAT files together with R-to-Matlab connectivity
Description: This package provides methods to read and write MAT files. It also makes it possible to communicate (evaluate code, send and retrieve objects etc.) with Matlab v6 or higher running locally or on a remote host.
R.matlab-1.1.4/R.matlab/inst/HISTORY |only
R.matlab-1.2.2/R.matlab/DESCRIPTION | 13
R.matlab-1.2.2/R.matlab/R/000.R | 25
R.matlab-1.2.2/R.matlab/R/999.package.R | 9
R.matlab-1.2.2/R.matlab/R/Matlab.R | 4
R.matlab-1.2.2/R.matlab/R/readMat.R | 3683 +++++-----
R.matlab-1.2.2/R.matlab/R/writeMat.R | 686 +
R.matlab-1.2.2/R.matlab/incl/readMat.Rex | 22
R.matlab-1.2.2/R.matlab/inst/NEWS |only
R.matlab-1.2.2/R.matlab/inst/mat-files/StructWithSparseMatrix-v4.mat |only
R.matlab-1.2.2/R.matlab/man/Matlab.Rd | 63
R.matlab-1.2.2/R.matlab/man/R.matlab-package.Rd | 14
R.matlab-1.2.2/R.matlab/man/Sys.setenv.Rd | 2
R.matlab-1.2.2/R.matlab/man/readMat.Rd | 52
14 files changed, 2425 insertions(+), 2148 deletions(-)
Author: James Honaker
Diff between Amelia versions 1.1-30 dated 2008-06-09 and 1.1-32 dated 2008-07-18
Title: Amelia II: A Program for Missing Data
Description: Amelia II "multiply imputes" missing data in a single cross-section
(such as a survey), from a time series (like variables collected for
each year in a country), or from a time-series-cross-sectional data
set (such as collected by years for each of several countries).
Amelia II implements our bootstrapping-based algorithm that gives
essentially the same answers as the standard IP or EMis approaches,
is usually considerably faster than existing approaches and can
handle many more variables. Unlike Amelia I and other statistically
rigorous imputation software, it virtually never crashes (but please
let us know if you find to the contrary!). The program also
generalizes existing approaches by allowing for trends in time series
across observations within a cross-sectional unit, as well as priors
that allow experts to incorporate beliefs they have about the values
of missing cells in their data. Amelia II also includes useful
diagnostics of the fit of multiple imputation models. The program
works from the R command line or via a graphical user interface that
does not require users to know R.
DESCRIPTION | 6
R/ameliagui.r | 4
R/emb.r | 12
inst/doc/amelia.bbl | 6
inst/doc/amelia.blg | 2
inst/doc/amelia.log | 4
inst/doc/amelia.pdf | 686 +++++++++++++++++++++++++--------------------------
inst/doc/index.shtml | 13
8 files changed, 372 insertions(+), 361 deletions(-)
Author: Felix Andrews
Diff between playwith versions 0.9-7 dated 2008-07-15 and 0.9-8 dated 2008-07-17
Title: A GUI for interactive plots using GTK+
Description: A GTK+ graphical user interface for viewing and interacting with R plots.
It tries to work out the structure of a plot, in order to interact with it.
The built-in features include: zooming the data space, identifying data points,
editing and annotating the plot, and saving to a file. New tools can be defined.
Also includes latticist, a lattice-based tool for exploratory visualisation.
DESCRIPTION | 6
R/API.R | 27 ++--
R/latticist.R | 295 ++++++++++++++-------------------------------
R/marginals.R |only
R/playTools.R | 28 ++--
R/playTools_clickhandler.R | 4
R/playTools_options.R | 2
R/playTools_time.mode.R | 2
R/utilities.R | 16 +-
inst/NEWS | 6
man/latticist.Rd | 13 +
man/marginals.Rd | 20 ++-
man/playwith.Rd | 3
13 files changed, 172 insertions(+), 250 deletions(-)
Author: Ulrike Groemping
Title: Inequality constrained inference in linear normal situations
Description: This package implements parameter estimation in normal (linear) models under linear equality and inequality constraints and implements normal likelihood ratio tests involving inequality-constrained hypotheses. For inequality-constrained linear models, averaging over R-squared for different orderings of regressors is also included.
Diff between ic.infer versions 0.8 dated 2008-07-15 and 0.8-1 dated 2008-07-17
DESCRIPTION | 6 +++--- R/all.R2.R | 4 ++++ R/or.relimp.R | 4 ++++ R/orlm.R | 9 +++++++-- inst/doc/News.pdf |binary man/or.relimp.rd | 5 ++++- man/orlm.rd | 16 +++++++++++++--- 7 files changed, 35 insertions(+), 9 deletions(-)
Author: S original (EVIS) by Alexander McNeil
Diff between evir versions 1.5 dated 2007-05-01 and 1.6 dated 2008-07-17
Title: Extreme Values in R
Description: Functions for extreme value theory, which may be
divided into the following groups; exploratory data analysis,
block maxima, peaks over thresholds (univariate and bivariate),
point processes, gev/gpd distributions.
DESCRIPTION | 9 ++++-----
inst/CHANGES | 10 +++++++---
2 files changed, 11 insertions(+), 8 deletions(-)
Author: Alec Stephenson. Function fbvpot by Chris Ferro.
Title: Functions for extreme value distributions
Description: Extends simulation, distribution, quantile and
density functions to univariate and multivariate parametric
extreme value distributions, and provides fitting functions
which calculate maximum likelihood estimates for univariate
and bivariate maxima models, and for univariate and
bivariate threshold models.
Diff between evd versions 2.2-3 dated 2006-09-29 and 2.2-4 dated 2008-07-17
DESCRIPTION | 7 +++---- R/uvfit.R | 4 +++- inst/CHANGES | 7 +++++++ 3 files changed, 13 insertions(+), 5 deletions(-)
Author: Andrew Gelman
Diff between arm versions 1.1-11 dated 2008-07-15 and 1.1-12 dated 2008-07-17
Title: Data Analysis Using Regression and Multilevel/Hierarchical Models
Description: R functions for processing lm, glm, mer and polr outputs.
CHANGELOG | 7 ++++++-
DESCRIPTION | 6 +++---
R/bayespolr.R | 19 ++++++++++++-------
3 files changed, 21 insertions(+), 11 deletions(-)
Author: Chris Stubben, Brook Milligan, Patrick Nantel
Title: Construction and analysis of matrix population models
Description: Construct and analyze projection matrix models from a demography study of marked individuals classified by age or stage. The package covers methods described in Matrix Population Models by Caswell (2001) and Quantitative Conservation Biology by Morris and Doak (2002).
Diff between popbio versions 1.1.8 dated 2008-03-14 and 1.1.9 dated 2008-07-16
popbio-1.1.8/popbio/data/hudcorrs.R |only popbio-1.1.8/popbio/inst/doc |only popbio-1.1.9/popbio/DESCRIPTION | 6 +-- popbio-1.1.9/popbio/R/multiresultm.R | 2 - popbio-1.1.9/popbio/R/projection.matrix.R | 11 +++-- popbio-1.1.9/popbio/R/vitalsens.R | 2 - popbio-1.1.9/popbio/data/hudcorrs.rda |only popbio-1.1.9/popbio/inst/._CITATION |only popbio-1.1.9/popbio/inst/CITATION |only popbio-1.1.9/popbio/inst/ChangeLog |only popbio-1.1.9/popbio/man/01Introduction.Rd | 7 ++- popbio-1.1.9/popbio/man/02Caswell.Rd | 9 ++++ popbio-1.1.9/popbio/man/boot.transitions.Rd | 50 ++++++++----------------- popbio-1.1.9/popbio/man/extCDF.Rd | 3 - popbio-1.1.9/popbio/man/hudcorrs.Rd | 4 -- popbio-1.1.9/popbio/man/multiresultm.Rd | 12 +++--- popbio-1.1.9/popbio/man/projection.matrix.Rd | 53 ++++++++++++--------------- popbio-1.1.9/popbio/man/teasel.Rd | 2 - popbio-1.1.9/popbio/man/test.census.Rd | 24 ++++++------ popbio-1.1.9/popbio/man/vitalsens.Rd | 6 +-- popbio-1.1.9/popbio/man/woodpecker.Rd | 4 ++ 21 files changed, 97 insertions(+), 98 deletions(-)
Author: Aaron A. King, Edward L. Ionides, Carles Martinez Breto
Title: Partially-observed Markov processes
Description: Inference methods for partially-observed Markov processes
Diff between pomp versions 0.19-1 dated 2008-05-19 and 0.20-2 dated 2008-07-16
pomp-0.19-1/pomp/R/print-pomp.R |only pomp-0.19-1/pomp/inst/include/euler.h |only pomp-0.19-1/pomp/inst/include/lookup_table.h |only pomp-0.19-1/pomp/src/euler.h |only pomp-0.19-1/pomp/src/lookup_table.h |only pomp-0.20-2/pomp/DESCRIPTION | 6 pomp-0.20-2/pomp/NAMESPACE | 20 - pomp-0.20-2/pomp/R/aaa.R | 100 +++++ pomp-0.20-2/pomp/R/compare.mif.R |only pomp-0.20-2/pomp/R/dmeasure-pomp.R | 12 pomp-0.20-2/pomp/R/euler.R | 60 ++- pomp-0.20-2/pomp/R/init.state-pomp.R | 1 pomp-0.20-2/pomp/R/mif-methods.R | 26 + pomp-0.20-2/pomp/R/mif.R | 25 + pomp-0.20-2/pomp/R/plot-pomp.R | 12 pomp-0.20-2/pomp/R/pomp-methods.R | 49 ++ pomp-0.20-2/pomp/R/pomp.R | 288 +++++++++++++++-- pomp-0.20-2/pomp/R/rmeasure-pomp.R | 12 pomp-0.20-2/pomp/R/simulate-pomp.R | 5 pomp-0.20-2/pomp/R/skeleton-pomp.R |only pomp-0.20-2/pomp/data/ou2.rda |binary pomp-0.20-2/pomp/inst/ChangeLog |only pomp-0.20-2/pomp/inst/NEWS |only pomp-0.20-2/pomp/inst/doc/compiled_code_in_pomp.Rnw | 123 ------- pomp-0.20-2/pomp/inst/doc/compiled_code_in_pomp.pdf |binary pomp-0.20-2/pomp/inst/doc/intro_to_pomp.Rnw | 87 ++--- pomp-0.20-2/pomp/inst/doc/intro_to_pomp.pdf |binary pomp-0.20-2/pomp/inst/examples/sir.R | 251 ++++++++------ pomp-0.20-2/pomp/inst/examples/sir.c | 104 ++++-- pomp-0.20-2/pomp/inst/include/pomp.h |only pomp-0.20-2/pomp/man/dmeasure-pomp.Rd | 5 pomp-0.20-2/pomp/man/dprocess-pomp.Rd | 88 ++--- pomp-0.20-2/pomp/man/euler.Rd | 154 +++------ pomp-0.20-2/pomp/man/eulermultinom.Rd | 2 pomp-0.20-2/pomp/man/mif-class.Rd | 15 pomp-0.20-2/pomp/man/mif-methods.Rd | 25 + pomp-0.20-2/pomp/man/mif.Rd | 5 pomp-0.20-2/pomp/man/pomp-class.Rd | 109 +----- pomp-0.20-2/pomp/man/pomp-methods.Rd |only pomp-0.20-2/pomp/man/pomp.Rd | 142 +++++--- pomp-0.20-2/pomp/man/rmeasure-pomp.Rd | 38 +- pomp-0.20-2/pomp/man/skeleton-pomp.Rd |only pomp-0.20-2/pomp/src/bspline.c | 2 pomp-0.20-2/pomp/src/dmeasure.c | 259 +++++++++++++-- pomp-0.20-2/pomp/src/dprocess.c | 32 + pomp-0.20-2/pomp/src/dsobol.c | 2 pomp-0.20-2/pomp/src/euler.c | 336 ++++++++++++++++---- pomp-0.20-2/pomp/src/eulermultinom.c | 2 pomp-0.20-2/pomp/src/initstate.c | 47 ++ pomp-0.20-2/pomp/src/lookup_table.c | 49 ++ pomp-0.20-2/pomp/src/ou2.c | 200 ++--------- pomp-0.20-2/pomp/src/pomp.h | 228 ++++++++----- pomp-0.20-2/pomp/src/pomp_fun.c |only pomp-0.20-2/pomp/src/pomp_internal.h |only pomp-0.20-2/pomp/src/resample.c | 2 pomp-0.20-2/pomp/src/rmeasure.c | 249 ++++++++++++-- pomp-0.20-2/pomp/src/rprocess.c | 30 + pomp-0.20-2/pomp/src/sir.c | 104 ++++-- pomp-0.20-2/pomp/src/skeleton.c |only pomp-0.20-2/pomp/tests/ou2-kalman.R | 18 - pomp-0.20-2/pomp/tests/ou2-kalman.Rout.save |only pomp-0.20-2/pomp/tests/ou2-mif.R | 22 - pomp-0.20-2/pomp/tests/ou2-mif.Rout.save |only pomp-0.20-2/pomp/tests/ou2-simulate.Rout.save |only pomp-0.20-2/pomp/tests/rw2.R | 137 +++++--- pomp-0.20-2/pomp/tests/rw2.Rout.save |only pomp-0.20-2/pomp/tests/sir.R |only pomp-0.20-2/pomp/tests/sir.Rout.save |only 68 files changed, 2287 insertions(+), 1196 deletions(-)
Author: Simon Jackman, with contributions from
Alex Tahk, Achim Zeileis, Christina Maimone and Jim Fearon
Title: Political Science Computational Laboratory, Stanford University
Description: Bayesian analysis of item-response theory (IRT) models, roll call analysis;
computing highest density regions; maximum likelihood estimation of
zero-inflated and hurdle models for count data; goodness-of-fit measures for
GLMs; data sets used in writing and teaching at the Political Science
Computational Laboratory; seats-votes curves.
Diff between pscl versions 0.96 dated 2008-06-26 and 0.97 dated 2008-07-16
DESCRIPTION | 6 - HISTORY | 9 ++ R/dropRollCall.r | 157 ++++++++++++++++++++++++++++++++--------- R/ideal.r | 10 ++ R/igamma.r | 20 +++-- R/margins.rollcall.r | 3 R/plot.ideal.r | 8 +- R/postProcess.r | 33 ++++---- R/rollcall.r | 114 +++++++++++++++++++++-------- R/summary.ideal.r | 34 ++++++-- data/presidentialElections.rda |only data/s109.rda |binary inst/doc/.build.timestamp |only inst/doc/auto/countreg.el | 17 +--- inst/doc/countreg.pdf |binary man/dropRollCall.Rd | 66 +++++++++++++---- man/dropUnanimous.Rd | 2 man/hitmiss.Rd | 3 man/idealToMCMC.Rd | 5 - man/plot.ideal.Rd | 7 + man/presidentialElections.Rd |only man/readKH.Rd | 5 - man/s109.Rd | 38 +++++---- man/simpi.Rd | 4 - man/summary.rollcall.Rd | 6 + 25 files changed, 388 insertions(+), 159 deletions(-)
Author: Kaspar Rufibach
Diff between logcondens versions 1.3.1 dated 2007-10-04 and 1.3.2 dated 2008-07-16
Title: Estimate a Log-Concave Probability Density from iid Observations
Description: Given independent and identically distributed observations X(1), ..., X(n), this package allows to
compute a concave, piecewise linear function phi on [X(1), X(n)] with knots only in {X(1), X(2), ..., X(n)}
such that L(phi) = sum_{i=1}^n W(i)*phi(X(i)) - int_{X(1)}^{X(n)} exp(phi(x)) dx is maximal, for some
weights W(1), ..., W(n) s.t. sum_{i=1}^n W(i) = 1. According to the results in Duembgen and Rufibach (2008),
this function phi maximizes the ordinary log-likelihood sum_{i=1}^n W(i)*phi(X(i))
under the constraint that phi is concave. The corresponding function exp(phi) is a log-concave probability density.
Two algorithms are offered: An active set algorithm and one based on the pool-adjacent-violaters algorithm.
DESCRIPTION | 14
R/intF.r | 4
inst/doc/logcondens_vignette.pdf | 751 +++++++++++++++++++--------------------
man/Jfunctions.Rd | 4
man/Lhat_eta.Rd | 4
man/Local_LL.Rd | 4
man/Local_LL_all.Rd | 4
man/MLE.Rd | 4
man/activeSetLogCon.Rd | 12
man/activeSetRoutines.Rd | 4
man/evaluateLogConDens.Rd | 4
man/icmaLogCon.Rd | 4
man/intECDF.Rd | 10
man/intF.Rd | 16
man/isoMean.Rd | 4
man/logcondens-package.Rd | 22 -
man/qloglin.Rd | 4
man/quadDeriv.Rd | 4
man/quantilesLogConDens.Rd | 4
man/reparametrizations.Rd | 4
man/robust.Rd | 4
21 files changed, 447 insertions(+), 438 deletions(-)
Author: Michel Grabisch, Ivan Kojadinovic, Patrick Meyer.
Title: Non-additive measure and integral manipulation functions
Description: Kappalab, which stands for "laboratory for capacities", is an S4 tool box for capacity (or non-additive measure, fuzzy measure) and integral manipulation on a finite setting. It contains routines for handling various types of set functions such as games or capacities. It can be used to compute several non-additive integrals: the Choquet integral, the Sugeno integral, and the symmetric and asymmetric Choquet integrals. An analysis of capacities in terms of decision behavior can be performed through the computation of various indices such as the Shapley value, the interaction index, the orness degree, etc. The well-known Möbius transform, as well as other equivalent representations of set functions can also be computed. Kappalab further contains seven capacity identification routines: three least squares based approaches, a method based on linear programming, a maximum entropy like method based on variance minimization, a minimum distance approach and an unsupervised approach grounded on parametric entropies. The functions contained in Kappalab can for instance be used in the framework of multicriteria decision making or cooperative game theory.
Diff between kappalab versions 0.4-1 dated 2007-12-07 and 0.4-3 dated 2008-07-16
kappalab-0.4-1/kappalab/man/round-methods.Rd |only kappalab-0.4-3/kappalab/DESCRIPTION | 6 +++--- kappalab-0.4-3/kappalab/NAMESPACE | 2 +- kappalab-0.4-3/kappalab/R/AllGeneric.R | 6 +++--- kappalab-0.4-3/kappalab/R/ls.ranking.capa.ident.R | 12 +++++++++--- kappalab-0.4-3/kappalab/R/superclass.set.func.R | 2 +- kappalab-0.4-3/kappalab/man/Choquet.integral-methods.Rd | 2 +- kappalab-0.4-3/kappalab/man/Mobius-methods.Rd | 2 +- kappalab-0.4-3/kappalab/man/Mobius.capacity-class.Rd | 2 +- kappalab-0.4-3/kappalab/man/Mobius.card.set.func-class.Rd | 2 +- kappalab-0.4-3/kappalab/man/Mobius.game-class.Rd | 2 +- kappalab-0.4-3/kappalab/man/Mobius.set.func-class.Rd | 6 +++--- kappalab-0.4-3/kappalab/man/Sipos.integral-methods.Rd | 2 +- kappalab-0.4-3/kappalab/man/Sugeno.integral-methods.Rd | 2 +- kappalab-0.4-3/kappalab/man/entropy-methods.Rd | 2 +- kappalab-0.4-3/kappalab/man/favor-methods.Rd | 2 +- kappalab-0.4-3/kappalab/man/is.kadditive-methods.Rd | 2 +- kappalab-0.4-3/kappalab/man/is.monotone-methods.Rd | 2 +- kappalab-0.4-3/kappalab/man/is.normalized-methods.Rd | 2 +- kappalab-0.4-3/kappalab/man/ls.ranking.capa.ident.Rd | 2 +- kappalab-0.4-3/kappalab/man/rnd-methods.Rd |only kappalab-0.4-3/kappalab/man/show-methods.Rd | 2 +- kappalab-0.4-3/kappalab/man/superclass.set.func-class.Rd | 6 +++--- kappalab-0.4-3/kappalab/man/to.data.frame-methods.Rd | 2 +- kappalab-0.4-3/kappalab/man/variance-methods.Rd | 2 +- kappalab-0.4-3/kappalab/man/veto-methods.Rd | 2 +- kappalab-0.4-3/kappalab/man/zeta-methods.Rd | 2 +- kappalab-0.4-3/kappalab/src/core.c | 4 ++++ 28 files changed, 45 insertions(+), 35 deletions(-)
Author: R-core members, Saikat DebRoy
Diff between foreign versions 0.8-26 dated 2008-05-29 and 0.8-27 dated 2008-07-16
Title: Read Data Stored by Minitab, S, SAS, SPSS, Stata, Systat, dBase, ...
Description: Functions for reading and writing data stored by statistical
packages such as Minitab, S, SAS, SPSS, Stata, Systat, ...,
and for reading and writing .dbf (dBase) files.
ChangeLog | 43 ++++--
DESCRIPTION | 6
K_Van_Dijck_patch |only
K_Van_Dijck_patch-2 |only
src/SASxport.c | 7 -
src/minitab.c | 5
src/sfm-read.c | 72 ++++++++++-
src/sfm-read.c.orig |only
src/sfm-read.c.rej |only
src/spss.c | 5
src/stataread.c | 7 -
src/var.h.in | 12 +
src/var.h.in.orig |only
src/var.h.in.rej |only
tests/sas.R | 1
tests/spss.R | 70 +++++++---
tests/spss.Rout.save | 326 ++++++++-------------------------------------------
tests/spss_long.sav |only
18 files changed, 230 insertions(+), 324 deletions(-)
Author: Chandra Erdman and John W. Emerson
Title: A Package for Performing a Bayesian Analysis of Change Point Problems
Description: An implementation of the Barry and Hartigan (1993) product partition model for the standard change point problem using Markov Chain Monte Carlo.
Diff between bcp versions 2.0 dated 2008-06-01 and 2.1 dated 2008-07-16
DESCRIPTION | 23 +++--- NAMESPACE | 2 R/bcp.R | 88 ++++++++++++++++++++++++- R/output.R | 5 + man/RealInt.Rd | 39 ++++++----- man/bcp.Rd | 142 +++++++++++++++++++++++++---------------- man/coriell.Rd | 107 ++++++++++++++++--------------- man/fitted.bcp.Rd | 150 +++++++++++-------------------------------- man/interval.prob.Rd |only man/plot.bcp.Rd | 154 ++++++++++++--------------------------------- man/print.bcp.Rd | 170 +++++++++++++++---------------------------------- man/residuals.bcp.Rd | 149 +++++++++++-------------------------------- man/summary.bcp.Rd | 174 ++++++++++++++++----------------------------------- 13 files changed, 496 insertions(+), 707 deletions(-)
Author: A.I. McLeod and Ying Zhang
Title: Subset AR Model Fitting
Description: Complete functions are given for model identification, estimation and diagnostic checking for AR and subset AR models. Two types of subset AR models are supported. One family of subset AR models, denoted by ARp, is formed by taking subet of the original AR coefficients and in the other, denoted by ARz, subsets of the partial autocorrelations are used. The main advantage of the ARz model is its applicability to very large order models.
Diff between FitAR versions 1.7 dated 2008-06-25 and 1.71 dated 2008-07-16
DESCRIPTION | 6 +++--- R/cts.R | 6 +++++- man/FitAR-package.Rd | 4 ++-- man/cts.Rd | 36 +++++++++++++++++++++++++++++++++--- 4 files changed, 43 insertions(+), 9 deletions(-)
Author: Andreas Kiermeier
Diff between AcceptanceSampling versions 0.1-4 dated 2008-05-16 and 1.0-0 dated 2008-07-16
More information about AcceptanceSampling at CRAN
Title: Creation and evaluation of Acceptance Sampling Plans
Description: This package provides functionality for creating and
evaluating acceptance sampling plans. Plans can be single,
double or multiple sampling plans
DESCRIPTION | 4 ++--
inst |only
2 files changed, 2 insertions(+), 2 deletions(-)
Permanent link
Author: Laercio Junio da Silva
Diff between laercio versions 0.9-3 dated 2008-07-05 and 0.9-4 dated 2008-07-15
Title: Duncan test, Tukey test and Scott-Knott test.
Description: The package contains functions to compare and group means.
DESCRIPTION | 6 +++---
R/LScottKnott.aov.r | 34 +++++++++++++++++-----------------
man/laercio-package.Rd | 4 ++--
3 files changed, 22 insertions(+), 22 deletions(-)
Author: Ulrike Groemping
Title: Inequality constrained inference in linear normal situations
Description: This package implements parameter estimation in normal (linear) models under linear equality and inequality constraints and implements normal likelihood ratio tests involving inequality-constrained hypotheses. For inequality-constrained linear models, averaging over R-squared for different orderings of regressors is also included.
Diff between ic.infer versions 0.7 dated 2008-07-14 and 0.8 dated 2008-07-15
ic.infer-0.7/ic.infer/COPYING |only ic.infer-0.7/ic.infer/COPYRIGHT |only ic.infer-0.8/ic.infer/DESCRIPTION | 10 ++++----- ic.infer-0.8/ic.infer/LICENSE |only ic.infer-0.8/ic.infer/NAMESPACE | 2 - ic.infer-0.8/ic.infer/R/all.R2.R |only ic.infer-0.8/ic.infer/R/ic.test.R | 7 +++++- ic.infer-0.8/ic.infer/R/ic.weights.R | 34 +++++++++++++++++++++++---------- ic.infer-0.8/ic.infer/R/or.relimp.R |only ic.infer-0.8/ic.infer/R/summary.orlm.R | 9 +++++++- ic.infer-0.8/ic.infer/inst |only ic.infer-0.8/ic.infer/man/or.relimp.rd |only ic.infer-0.8/ic.infer/man/orlm.rd | 13 +++++++----- 13 files changed, 52 insertions(+), 23 deletions(-)
Author: Andrew Gelman
Diff between arm versions 1.1-10 dated 2008-07-11 and 1.1-11 dated 2008-07-15
Title: Data Analysis Using Regression and Multilevel/Hierarchical Models
Description: R functions for processing lm, glm, mer and polr outputs.
CHANGELOG | 5 +++
DESCRIPTION | 10 +++---
R/coefplot.R | 82 ++++++++++++++++++++++++++++++++++++--------------------
man/coefplot.Rd | 21 +++++---------
4 files changed, 72 insertions(+), 46 deletions(-)
Author: Julian Taylor
Diff between wgaim versions 0.1-1 dated 2008-07-05 and 0.1-2 dated 2008-07-15
Title: Whole Genome Average Interval Mapping for QTL detection using mixed models
Description: This package integrates sophisticated mixed modelling methods with a whole genome approach to detecting significant QTL's in linkage maps.
DESCRIPTION | 4 ++--
R/wgaim.R | 41 +++++++++++++++++++++++------------------
man/read.interval.Rd | 2 +-
man/wgaim-internal.Rd | 11 +++++------
4 files changed, 31 insertions(+), 27 deletions(-)
Author: Gilles Pujol
Title: Sensitivity Analysis
Description: A collection of functions for factor screening and
global sensitivity analysis of model output.
Diff between sensitivity versions 1.3-1 dated 2008-07-11 and 1.4-0 dated 2008-07-15
sensitivity-1.3-1/sensitivity/HISTORY |only sensitivity-1.3-1/sensitivity/R/fast_saltelli99.R |only sensitivity-1.3-1/sensitivity/R/generic.R |only sensitivity-1.3-1/sensitivity/R/plot.R |only sensitivity-1.3-1/sensitivity/R/sobol_saltelli02.R |only sensitivity-1.3-1/sensitivity/R/sobol_sobol93.R |only sensitivity-1.3-1/sensitivity/R/srcpcc.R |only sensitivity-1.3-1/sensitivity/TODO |only sensitivity-1.3-1/sensitivity/inst |only sensitivity-1.3-1/sensitivity/man/fast.Rd |only sensitivity-1.3-1/sensitivity/man/srcpcc.Rd |only sensitivity-1.3-1/sensitivity/man/tell.Rd |only sensitivity-1.4-0/sensitivity/COPYRIGHT | 11 sensitivity-1.4-0/sensitivity/DESCRIPTION | 22 sensitivity-1.4-0/sensitivity/LICENSE | 60 +- sensitivity-1.4-0/sensitivity/NAMESPACE | 43 + sensitivity-1.4-0/sensitivity/R/base.R |only sensitivity-1.4-0/sensitivity/R/bootstats.R | 46 - sensitivity-1.4-0/sensitivity/R/fast99.R |only sensitivity-1.4-0/sensitivity/R/morris.R | 374 ++++++--------- sensitivity-1.4-0/sensitivity/R/morris_oat.R |only sensitivity-1.4-0/sensitivity/R/morris_sfd.R |only sensitivity-1.4-0/sensitivity/R/morris_simplex.R |only sensitivity-1.4-0/sensitivity/R/nodeplot.R |only sensitivity-1.4-0/sensitivity/R/pcc.R |only sensitivity-1.4-0/sensitivity/R/sb.R |only sensitivity-1.4-0/sensitivity/R/sobol.R |only sensitivity-1.4-0/sensitivity/R/sobol2002.R |only sensitivity-1.4-0/sensitivity/R/src.R |only sensitivity-1.4-0/sensitivity/R/template_replace.R |only sensitivity-1.4-0/sensitivity/R/testmodels.R | 76 +-- sensitivity-1.4-0/sensitivity/man/decoupling.Rd |only sensitivity-1.4-0/sensitivity/man/fast99.Rd |only sensitivity-1.4-0/sensitivity/man/morris.Rd | 187 ++++--- sensitivity-1.4-0/sensitivity/man/pcc.Rd |only sensitivity-1.4-0/sensitivity/man/sb.Rd |only sensitivity-1.4-0/sensitivity/man/sensitivity-package.Rd | 115 +--- sensitivity-1.4-0/sensitivity/man/sobol.Rd | 139 ++--- sensitivity-1.4-0/sensitivity/man/sobol2002.Rd |only sensitivity-1.4-0/sensitivity/man/src.Rd |only sensitivity-1.4-0/sensitivity/man/template_replace.Rd |only sensitivity-1.4-0/sensitivity/man/testmodels.Rd | 24 42 files changed, 557 insertions(+), 540 deletions(-)
Author: Ken Beath
Diff between randomLCA versions 0.5-1 dated 2008-07-12 and 0.5-2 dated 2008-07-15
Title: Random Effects Latent Class Analysis
Description: Fits random effects latent class models, as well as standard latent class models.
DESCRIPTION | 6 +-
NAMESPACE | 1
R/plot.randomLCA.R | 9 ++++
R/summary.randomLCA.R | 89 +++++++++++++++++++++++------------------
inst/NEWS | 6 ++
inst/doc/randomLCA-example.Rnw | 16 ++++---
inst/doc/randomLCA-example.pdf |binary
7 files changed, 80 insertions(+), 47 deletions(-)
Author: Kenneth Knoblauch
Title: Functions for analyzing psychophysical data in R
Description: An assortment of functions that could be useful in analyzing data from pyschophysical experiments. It includes functions for calculating d' from several different experimental designs, links for mafc to be used with the binomial family in glm (and possibly other contexts) and self-Start functions for estimating gamma values for CRT screen calibrations.
Diff between psyphy versions 0.0-7 dated 2008-06-08 and 0.0-8 dated 2008-07-15
DESCRIPTION | 8 ++++---- NAMESPACE | 4 +++- R/gl.links.R |only R/glm.lambda.R | 5 ++++- R/psyfun.2asym.R |only doc/TODO | 2 +- inst/NEWS | 9 +++++++-- man/glm.WH.Rd | 11 ++++------- man/glm.lambda.Rd | 11 ++++------- man/logit.2asym.Rd |only man/mafc.Rd | 9 +++------ man/probit.lambda.Rd | 11 ++++------- man/psyfun.2asym.Rd |only 13 files changed, 34 insertions(+), 36 deletions(-)
Author: Felix Andrews
Diff between playwith versions 0.9-3 dated 2008-07-05 and 0.9-7 dated 2008-07-15
Title: A GUI for interactive plots using GTK+
Description: A GTK+ graphical user interface for viewing and interacting with R plots.
It tries to work out the structure of a plot, in order to interact with it.
The built-in features include: zooming the data space, identifying data points,
editing and annotating the plot, and saving to a file. New tools can be defined.
Also includes latticist, a lattice-based tool for exploratory visualisation.
DESCRIPTION | 14 +--
NAMESPACE | 8 ++
R/API.R | 73 +++++++++++++++-----
R/latticist.R |only
R/playTools_clickhandler.R |only
R/playTools_coords.R | 28 ++-----
R/playTools_edit.call.R | 2
R/playTools_identify.R | 161 ++++++++++++++++++++++++++-------------------
R/playTools_zero.R | 27 ++++++-
R/playTools_zoom.R | 79 +++++++---------------
R/playwith.R | 40 -----------
R/settings.R | 3
inst/NEWS | 52 ++++++++++++++
man/callArg.Rd | 8 +-
man/cutEq.Rd |only
man/latticist.Rd |only
man/marginals.Rd |only
man/playwith.Rd | 12 +--
18 files changed, 295 insertions(+), 212 deletions(-)
Author: Stephen Milborrow
Title: Just-in-time compiler for the R language
Description:
Enable just-in-time (JIT) compilation.
The functions in this package are useful only under Ra and have no effect under R.
See \url{http://www.milbo.users.sonic.net/ra/index.html}.
This version of the jit package is for Ra 1.1.1 and higher.
Diff between jit versions 0.0-7 dated 2008-06-01 and 0.0-8 dated 2008-07-15
DESCRIPTION | 6 +++--- NEWS | 2 ++ man/jit.Rd | 3 ++- 3 files changed, 7 insertions(+), 4 deletions(-)
More information about marginalmodelplots at CRAN
Permanent link
Author: Stephen Milborrow
derived from mda:mars by Trevor Hastie and Rob Tibshirani.
Title: Multivariate Adaptive Regression Spline Models
Description: Build regression models using the techniques in Friedman's
papers "Fast MARS" and "Multivariate Adaptive Regression Splines".
(The term "MARS" is copyrighted and thus not used in the name of the package.)
Diff between earth versions 2.0-4 dated 2008-07-08 and 2.0-5 dated 2008-07-15
DESCRIPTION | 4 ++-- NEWS | 3 +++ man/format.earth.Rd | 8 ++++---- src/tests/earth.times.bat | 2 +- src/tests/test.earth.full.Rout.save | 2 +- src/tests/test.earthc.mak | 2 +- src/tests/test.plotmo.Rout.save | 18 ++++-------------- 7 files changed, 16 insertions(+), 23 deletions(-)
Author: Frank Schaarschmidt
Title: Evaluation and experimental design for binomial group testing
Description: Confidence intervals and tests for a single binomial proportion.
Exact and approximate methods for equal group size and exact method for designs with unequal group sizes.
Exact, Score and Wald Test for standard binomial and binomial group testing for designs with equal group size.
Experimental design depending on power, controlling bias and mse of the estimator
depending on group size and sample size, and calculation of expected interval width.
Diff between binGroup versions 0.3-1 dated 2007-02-11 and 0.3-2 dated 2008-07-15
DESCRIPTION | 12 +++++++----- R/plot.nDesign.R | 19 +++++++++++-------- R/plot.sDesign.R | 17 ++++++++++++----- R/print.bgtCI.R | 10 +++++++--- R/print.bgtTest.R | 9 +++++++-- R/print.binDesign.R | 9 +++++++-- R/print.nDesign.R | 18 +++++++++++------- R/print.sDesign.R | 13 +++++++++---- man/bgtCI.Rd | 16 ++++++++++------ man/bgtPower.Rd | 9 ++++++--- man/bgtTest.Rd | 8 +++----- man/bgtWidth.Rd | 9 ++++++--- man/bgtvs.Rd | 6 +++--- man/binCI.Rd | 6 +++--- man/binDesign.Rd | 11 ++++++++--- man/binGroup.Rd |only man/binPower.Rd | 4 ++-- man/binTest.Rd | 6 ++---- man/binWidth.Rd | 7 ++----- man/estDesign.Rd | 1 - man/nDesign.Rd | 4 ++-- man/plot.binDesign.Rd | 2 -- man/plot.nDesign.Rd | 3 +-- man/plot.sDesign.Rd | 1 - man/print.bgtCI.Rd | 3 +-- man/print.bgtvs.Rd | 7 +++---- man/print.binDesign.Rd | 4 ++-- man/print.nDesign.Rd | 6 +----- man/print.sDesign.Rd | 4 +--- man/sDesign.Rd | 9 ++++++--- 30 files changed, 133 insertions(+), 100 deletions(-)
Author: Nicolas Turenne
Diff between svcR versions 1.4 dated 2008-05-27 and 1.4.1 dated 2008-07-14
Title: svcR package
Description: svcR implements a support vector machine technique for clustering
DESCRIPTION | 4 ++--
R/svcR.R | 2 +-
src/svcR.c | 27 ++++++++++++++++-----------
3 files changed, 19 insertions(+), 14 deletions(-)
Author: John M Chambers
Title: Functions and Exampels for "Software for Data Analysis"
Description: Functions, examples and other software related to the book
"Software for Data Analysis: Programming with R". See
package?SoDA for an overview.
Diff between SoDA versions 0.97-1 dated 2008-01-07 and 1.0-1 dated 2008-07-14
DESCRIPTION | 13 +-- NAMESPACE | 5 - R/demoSource.R | 125 ++++++++++++++++++++++++++--------- R/localRFiles.R |only R/recoverHandler.R | 2 R/runExample.R |only R/showEnv.R |only R/tryRequire.R |only R/zzz.R | 10 -- data/.exampleFiles.csv |only data/examplePages.R |only data/examplePages.csv |only exec |only inst/Examples/GPSTrackClass.R |only inst/Examples/GPSUtils.R |only inst/Examples/IQclosure.R |only inst/Examples/IQreplace.R |only inst/Examples/PerlChunks.perl |only inst/Examples/PerlFieldsToLines.perl |only inst/Examples/PerlReadRepeated.perl |only inst/Examples/SoDAinit.c |only inst/Examples/arrowFactor.R |only inst/Examples/baseOpFuns.R |only inst/Examples/bbMargins.R |only inst/Examples/binaryCount.R |only inst/Examples/binaryRep_3_15.R |only inst/Examples/binaryRep_45.R |only inst/Examples/bitRepExample.R |only inst/Examples/changeFunctions.R |only inst/Examples/cloudsModelFrame.R | 3 inst/Examples/dataFrame.R |only inst/Examples/dataFrameAsDataFrame.R |only inst/Examples/dateStuff.perl |only inst/Examples/dowNames.R |only inst/Examples/dropFormula.R |only inst/Examples/dropModel.R |only inst/Examples/dummyQuantile.R |only inst/Examples/fieldsToLines.R |only inst/Examples/findDateForm.perl |only inst/Examples/geoXY.R |only inst/Examples/gpsScatterPlot.R |only inst/Examples/gpstrack.txt |only inst/Examples/graphicMargins.R |only inst/Examples/gridSegments.R |only inst/Examples/hashWords.perl |only inst/Examples/htmlOut.perl |only inst/Examples/implicitUpdate.R |only inst/Examples/implicitUpdateEx.R |only inst/Examples/implicitWith.R |only inst/Examples/indexingFirst.R |only inst/Examples/irisBwplot.R |only inst/Examples/irregTS.R |only inst/Examples/madCall.R |only inst/Examples/madMatch.R |only inst/Examples/marsPlot.R |only inst/Examples/marsPlot2.R |only inst/Examples/marsPlot3.R |only inst/Examples/marsRead.R |only inst/Examples/numericComparison.R |only inst/Examples/perlMonths.perl |only inst/Examples/perpOperator.R |only inst/Examples/plotGPS.R |only inst/Examples/plotGPS1.R |only inst/Examples/plotGPSArrows.R |only inst/Examples/plotGPSArrows2.R |only inst/Examples/plotGPSTrackMethod.R |only inst/Examples/quickBrownFox.R |only inst/Examples/quickBrownFox2.R |only inst/Examples/quoteWords.R |only inst/Examples/randomSlippageTest.R |only inst/Examples/readRepeated.R |only inst/Examples/recoverHandler.R |only inst/Examples/regForColorPlot.R |only inst/Examples/replaceChar.R |only inst/Examples/replaceLong.R |only inst/Examples/scaleVisual.R |only inst/Examples/scanGPS1.R |only inst/Examples/showPrimTypes.R |only inst/Examples/showPrimitives.R |only inst/Examples/speedGPS.R |only inst/Examples/splitRepeated.R |only inst/Examples/stateCities.txt |only inst/Examples/subsetMethodTrack.R |only inst/Examples/testSdFun.R |only inst/Examples/trackArrows.R |only inst/Examples/trackClass.R |only inst/Examples/trackCompareMethods.R |only inst/Examples/trackEqualMethods.R |only inst/Examples/trackInitialize.R |only inst/Examples/trackNumeric.R |only inst/Examples/trackNumericOps.R |only inst/Examples/trackNumericOps2.R |only inst/Examples/trellisPars.R |only inst/Examples/triDiag.R |only inst/Examples/triDiag2.R |only inst/Examples/triDiag3.R |only inst/Examples/undefinedGets.R |only inst/Examples/undefinedVector.R |only inst/Examples/weather1.csv |only inst/Examples/weather1CSV.csv |only inst/doc |only inst/examplePages.csv |only man/SoDA-package.Rd | 36 ++++++++-- man/chunksAdd.Rd | 14 +-- man/demoSource.Rd | 55 ++++++++++++--- man/demoSourceClass.Rd | 7 + man/exampleFiles.Rd | 50 +++++++++++--- man/geoDist.Rd | 2 man/localRFiles.Rd |only man/runExample.Rd |only man/showEnv.Rd |only man/simulationResult.Rd | 5 - man/tryRequire.Rd |only tests/chunksAdd.R | 1 114 files changed, 235 insertions(+), 93 deletions(-)
Author: Arne Henningsen
Diff between sampleSelection versions 0.5-5 dated 2008-06-06 and 0.6-0 dated 2008-07-14
More information about sampleSelection at CRAN
Title: Sample Selection Models
Description: Estimation of Sample Selection Models
DESCRIPTION | 8 -
INDEX | 2
data/nlswork.rda |only
inst |only
man/nlswork.Rd |only
tests/heckit.Rout.save | 269 +++++++++++++++++++++++-----------------------
tests/probit.Rout.save | 10 +
tests/selection.Rout.save | 12 +-
8 files changed, 164 insertions(+), 137 deletions(-)
Permanent link
Author: Thomas D. Fletcher
Title: Applied Psychometric Theory
Description: Contains functions useful for correlation theory,
meta-analysis (validity-generalization),
reliability, item analysis, inter-rater reliability,
and classical utility
Diff between psychometric versions 0.1.2 dated 2007-03-05 and 2.0 dated 2008-07-14
DESCRIPTION | 8 +++--- R/item.exam.R | 58 +++++++++++++++++++++++++++----------------- README.txt | 3 ++ man/CAFAA.Rd | 3 -- man/CI.Rsq.Rd | 3 -- man/CI.Rsqlm.Rd | 3 -- man/CI.tscore.Rd | 3 -- man/CIr.Rd | 3 -- man/CIrb.Rd | 3 -- man/CIrdif.Rd | 3 -- man/CIz.Rd | 3 -- man/CVF.Rd | 3 -- man/CVratio.Rd | 3 -- man/ClassUtil.Rd | 3 -- man/CredIntRho.Rd | 3 -- man/EnterMeta.Rd | 3 -- man/Est.true.Rd | 3 -- man/FileDrawer.Rd | 4 --- man/FunnelPlot.Rd | 3 -- man/ICC.CI.Rd | 3 -- man/ICC.lme.Rd | 3 -- man/MetaTable.Rd | 3 -- man/Qrbar.Rd | 3 -- man/Qrho.Rd | 4 --- man/SBrel.Rd | 3 -- man/SE.Meas.Rd | 3 -- man/SErbar.Rd | 3 -- man/SEz.Rd | 3 -- man/TestScores.Rd | 2 - man/Utility.Rd | 3 -- man/alpha.CI.Rd | 3 -- man/alpha.Rd | 3 -- man/artifacts.Rd | 3 -- man/cRRr.Rd | 3 -- man/discrim.Rd | 3 -- man/item.exam.Rd | 13 +++++---- man/psychometric-package.Rd | 20 +++++++++------ man/pvaaa.Rd | 3 -- man/pvse.Rd | 3 -- man/r.nil.Rd | 3 -- man/r2z.Rd | 3 -- man/rbar.Rd | 3 -- man/rdif.nul.Rd | 3 -- man/rhoCA.Rd | 3 -- man/varAV.Rd | 3 -- man/varRCA.Rd | 3 -- man/varRes.Rd | 3 -- man/varResT.Rd | 3 -- man/vare.Rd | 4 --- man/varr.Rd | 3 -- man/z2r.Rd | 2 - 51 files changed, 108 insertions(+), 133 deletions(-)
Author: Raoul Grasman and Robert B. Gramacy
Diff between geometry versions 0.1-2 dated 2008-05-13 and 0.1-3 dated 2008-07-14
Title: Mesh generation and surface tesselation
Description: This package makes the qhull library (www.qhull.org) available in R,
in a similar manner as in Octave and MATLAB. Qhull computes convex hulls,
Delaunay triangulations, halfspace intersections about a point, Voronoi diagrams,
furthest-site Delaunay triangulations, and furthest-site Voronoi diagrams.
It runs in 2-d, 3-d, 4-d, and higher dimensions. It implements the Quickhull
algorithm for computing the convex hull. Qhull does not support constrained
Delaunay triangulations, or mesh generation of non-convex objects, but the
package does include some R functions that allow for this. Currently the package
only gives access to Delaunay triangulation and convex hull computation.
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geometry-0.1-3/geometry/DESCRIPTION | 5 ++--
geometry-0.1-3/geometry/R/convhulln.R | 2 -
geometry-0.1-3/geometry/man/convhulln.Rd | 20 ++++++++++--------
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geometry-0.1-3/geometry/src/._delaunayn.c |only
geometry-0.1-3/geometry/src/._global.c |only
geometry-0.1-3/geometry/src/convhulln.c | 6 +++--
geometry-0.1-3/geometry/src/src/__voronoi__.c |only
122 files changed, 20 insertions(+), 13 deletions(-)
Author: Jun Yan
Diff between geepack versions 1.0-13 dated 2007-09-12 and 1.0-14 dated 2008-07-14
Title: Generalized Estimating Equation Package
Description: Generalized estimating equations solver for parameters in mean, scale, and correlation structures, through mean link, scale link, and correlation link. Can also handle clustered categorical responses.
ChangeLog | 6 ++++++
DESCRIPTION | 6 +++---
R/geeglm.R | 14 +++++++++++---
3 files changed, 20 insertions(+), 6 deletions(-)
Author: Sřren Hřjsgaard
Diff between gRc versions 0.2.1 dated 2008-05-07 and 0.2.2 dated 2008-07-14
Title: Inference in Graphical Gaussian Models with Edge and Vertex Symmetries
Description: Estimation, model selection and other aspects of statistical inference in Graphical Gaussian models with edge and vertex symmetries (Graphical Gaussian models with colours)
ChangeLog | 15 +++
DESCRIPTION | 9 +-
R/RCON-IPM5.R | 12 +-
R/add1drop1.R | 14 +--
R/cleverTraceMat.R | 3
R/comparecc.R | 99 ++++++++++++++++++++++++
R/display4.R | 41 +++++++++-
R/fitMain.R | 10 +-
R/rcox-ScoreMatching4.R | 34 +++++---
R/rcox4.R | 134 ++++++++++++++++-----------------
R/sets-SetOp-Lists.R | 23 +++++
R/stepwise4.R | 13 ---
R/update4.R | 99 ++++++++++++++----------
R/utility4.R | 10 +-
R/xxx2yyy.R | 92 +++++++++++++---------
R/zzz-generatingClasscImplementation.R | 19 ++++
R/zzz.R | 7 +
Wishlist.txt | 5 -
man/add1drop1.Rd | 4
man/internal.Rd | 3
man/rcox.Rd | 29 ++++---
man/update.Rd | 3
22 files changed, 464 insertions(+), 214 deletions(-)
Author: Sřren Hřjsgaard
Diff between gRain versions 0.3.3 dated 2008-06-13 and 0.3.4 dated 2008-07-14
Title: Graphical Independence Networks
Description: A package for probability propagation in graphical independence networks, also known as probabilistic expert systems (which includes Bayesian networks as a special case).
ChangeLog | 7 +++++
DESCRIPTION | 7 +++--
R/TabOpArray.R | 55 ++++++++++++++++++++++++++++++++++++++++++++++-
R/display.R | 6 +++++
Wishlist.txt | 2 +
inst/doc/gRain-intro.pdf |binary
6 files changed, 73 insertions(+), 4 deletions(-)
Author: Thomas D. Fletcher
Title: Quantitative Psychology Tools
Description: Contains functions useful for data screening,
testing moderation, mediation and estimating power.
Diff between QuantPsyc versions 1.1 dated 2008-05-13 and 1.2 dated 2008-07-14
DESCRIPTION | 8 ++++---- man/Make.Z.Rd | 3 +-- man/QuantPsyc-package.Rd | 12 ++++++------ man/distInd.ef.Rd | 3 +-- man/distal.med.Rd | 3 +-- man/eda.uni.Rd | 3 +-- man/graph.mod.Rd | 3 +-- man/lm.beta.Rd | 3 +-- man/mean.center.Rd | 3 +-- man/moderate.lm.Rd | 3 +-- man/mult.norm.Rd | 3 +-- man/norm.Rd | 3 +-- man/plot.normX.Rd | 3 +-- man/powerF.Rd | 3 +-- man/proxInd.ef.Rd | 3 +-- man/proximal.med.Rd | 3 +-- man/sim.slopes.Rd | 5 +---- 17 files changed, 25 insertions(+), 42 deletions(-)
Author: Alexander McNeil for S-Plus original; R port by Scott Ulman
Title: Provides R-language code to examine Quantitative Risk Management concepts
Description: This is a free R-language library designed to accompany the book
Quantitative Risk Management: Concepts, Techniques and Tools by Alexander
J. McNeil, Rudiger Frey and Paul Embrechts. A separate SPlus version can be
downloaded from Alexander McNeil's URL at
http://www.ma.hw.ac.uk/~mcneil/book/QRMlib.html
Diff between QRMlib versions 1.4.3 dated 2008-07-07 and 1.4.4 dated 2008-07-14
DESCRIPTION | 6 inst/Chap5/S2-Archimedean.R | 79 inst/Chap5/S3-Fitting.R | 3 inst/Docs/QRMlib.pdf | 5912 ++++++++++++++++++++++---------------------- inst/README.txt | 4 man/0-QRMlib-package.Rd | 4 6 files changed, 3040 insertions(+), 2968 deletions(-)
Author: Jose L. Izquierdo
Diff between Metabonomic versions 1.0 dated 2008-07-07 and 1.1 dated 2008-07-14
Title: GUI for Metabonomic Analysis
Description: Graphical User Interface for the Metabonomic Analysis (Baseline, Normalization, Peak Detection,
PCA, PLS, Nearest Neigbourgt, Neural Network) developed to make easy this data analysis.
DESCRIPTION | 8 ++++----
R/Met.Outliers.R | 1 -
R/Met.PCA.R | 2 +-
R/Metabonomic.R | 6 +++---
4 files changed, 8 insertions(+), 9 deletions(-)
Author: Alejandro Jara
Diff between DPpackage versions 1.0-5 dated 2007-09-14 and 1.0-6 dated 2008-07-14
Title: Bayesian Nonparametric and Semiparametric Analysis
Description:
This package contains functions to perform inference via
simulation from the posterior distributions for Bayesian nonparametric and
semiparametric models. Although the name of the package was motivated
by the Dirichlet Process prior, the package considers and will consider
other priors on functional spaces. So far, DPpackage includes models
considering Dirichlet Processes, Dependent Dirichlet Processes, Polya Trees,
Mixtures of Triangular distributions, and Random Bernstein polynomials priors. The package
also includes models considering Penalized B-Splines.
Currently the package includes semiparametric models for marginal and
conditional density estimation, ROC curve analysis,
interval censored data, binary regression models, generalized linear mixed
models, IRT type models, and generalized additive models. The package also contains functions
to compute Pseudo-Bayes factors for model comparison, and to elicitate the precision
parameter of the Dirichlet Process. To maximize computational efficiency,
the actual sampling for each model is done in compiled FORTRAN. The functions
return objects which can be subsequently analyzed with functions provided in
the coda package.
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DPpackage-1.0-6/DPpackage/NAMESPACE | 46 +++++++++-
DPpackage-1.0-6/DPpackage/R/BDPdensity.R | 2
DPpackage-1.0-6/DPpackage/R/CSDPbinary.R | 4
DPpackage-1.0-6/DPpackage/R/DPMglmm.R | 2
DPpackage-1.0-6/DPpackage/R/DPMlmm.R | 2
DPpackage-1.0-6/DPpackage/R/DPMmeta.R | 2
DPpackage-1.0-6/DPpackage/R/DPMolmm.R | 2
DPpackage-1.0-6/DPpackage/R/DPMrandom.R | 2
DPpackage-1.0-6/DPpackage/R/DPbinary.R | 4
DPpackage-1.0-6/DPpackage/R/DPcaterpillar.R | 4
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DPpackage-1.0-6/DPpackage/R/DPelicit.R | 4
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DPpackage-1.0-6/DPpackage/R/DPlmm.R | 4
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DPpackage-1.0-6/DPpackage/R/DPrasch.R | 4
DPpackage-1.0-6/DPpackage/R/DPraschpoisson.R | 4
DPpackage-1.0-6/DPpackage/R/DProc.R | 4
DPpackage-1.0-6/DPpackage/R/DPsurvint.R | 4
DPpackage-1.0-6/DPpackage/R/FPTbinary.R | 4
DPpackage-1.0-6/DPpackage/R/FPTrasch.R | 4
DPpackage-1.0-6/DPpackage/R/FPTraschpoisson.R | 4
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DPpackage-1.0-6/DPpackage/R/PSgam.R | 2
DPpackage-1.0-6/DPpackage/R/PTdensity.R | 2
DPpackage-1.0-6/DPpackage/R/PTlm.R | 2
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DPpackage-1.0-6/DPpackage/R/Pbinary.R | 4
DPpackage-1.0-6/DPpackage/R/TDPdensity.R | 2
DPpackage-1.0-6/DPpackage/R/hidden.R | 10 +-
DPpackage-1.0-6/DPpackage/R/ps.R | 2
DPpackage-1.0-6/DPpackage/data/calgb.pred.rda |only
DPpackage-1.0-6/DPpackage/data/calgb.rda |only
DPpackage-1.0-6/DPpackage/man/DPMmeta.Rd | 4
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DPpackage-1.0-6/DPpackage/man/DPdensity.Rd | 4
DPpackage-1.0-6/DPpackage/man/DPmultmeta.Rd |only
DPpackage-1.0-6/DPpackage/man/DPrasch.Rd | 4
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DPpackage-1.0-6/DPpackage/man/LDDPdensity.Rd |only
DPpackage-1.0-6/DPpackage/man/PSgam.Rd | 4
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DPpackage-1.0-6/DPpackage/man/deterioration.Rd | 1
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DPpackage-1.0-6/DPpackage/man/uniond.Rd | 5 -
DPpackage-1.0-6/DPpackage/src/DPMglmmlogit.f | 6 -
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DPpackage-1.0-6/DPpackage/src/LDDPdensity.f |only
DPpackage-1.0-6/DPpackage/src/Makevars | 2
DPpackage-1.0-6/DPpackage/src/ToolsBDP.f | 17 ++-
DPpackage-1.0-6/DPpackage/src/ToolsBayes.c |only
DPpackage-1.0-6/DPpackage/src/ToolsBayes.h |only
DPpackage-1.0-6/DPpackage/src/ToolsCCdflib.c |only
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DPpackage-1.0-6/DPpackage/src/ToolsCdflib.f | 29 ++++--
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DPpackage-1.0-6/DPpackage/src/ToolsIpmpar.c |only
DPpackage-1.0-6/DPpackage/src/ToolsMathconst.h |only
DPpackage-1.0-6/DPpackage/src/ToolsMatrix.f | 90 ++++++++++++++++++++
DPpackage-1.0-6/DPpackage/src/ToolsMess.c |only
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DPpackage-1.0-6/DPpackage/src/ToolsRegr.h |only
DPpackage-1.0-6/DPpackage/src/ToolsRfun.c | 5 +
DPpackage-1.0-6/DPpackage/src/ToolsRnumbers.f | 83 ++++++++++++++++++
DPpackage-1.0-6/DPpackage/src/ToolsSB.f |only
DPpackage-1.0-6/DPpackage/src/ToolsUnixrep.c |only
DPpackage-1.0-6/DPpackage/src/ToolsUnixrep.h |only
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108 files changed, 330 insertions(+), 96 deletions(-)
Author: Douglas Bates
Diff between lme4 versions 0.999375-21 dated 2008-07-11 and 0.999375-22 dated 2008-07-12
Title: Linear mixed-effects models using S4 classes
Description: Fit linear and generalized linear mixed-effects models.
ChangeLog | 20 ++++
DESCRIPTION | 6 -
R/lmer.R | 150 +++++++++++++++++++++---------------
inst/doc/Implementation.pdf |binary
inst/doc/PLSvGLS.Rnw | 21 +++++
inst/doc/PLSvGLS.pdf |binary
inst/doc/Theory.pdf |binary
man/lmer.Rd | 15 ++-
src/lmer.c | 3
tests/nlmer.R | 13 +--
tests/nlmer.Rout.save | 180 +++++++++++++++++++++-----------------------
11 files changed, 236 insertions(+), 172 deletions(-)
Author: R. H. Baayen
Title: Data sets and functions with "Analyzing Linguistic Data: A practical introduction to statistics".
Description: Data sets exemplifying statistical methods, and some
facilitatory utility functions used in
"Analyzing Linguistic Data: A practical introduction to
statistics using R", Cambridge University Press, 2008.
Diff between languageR versions 0.94 dated 2008-07-08 and 0.95 dated 2008-07-12
DESCRIPTION | 4 - R/aovlmer.fnc.R | 9 +-- R/preparePredictor.fnc.R | 1 R/pvals.fnc.R | 128 ++++++++++++++++++----------------------------- man/aovlmer.fnc.Rd | 10 +-- man/lexdec.Rd | 4 + man/pvals.fnc.Rd | 9 ++- 7 files changed, 73 insertions(+), 92 deletions(-)
Author: Gabor Csardi
Diff between igraph versions 0.5 dated 2008-02-13 and 0.5.1 dated 2008-07-12
Title: Routines for simple graphs, network analysis.
Description: Routines for simple graphs and network analysis. igraph can
handle large graphs very well and provides functions for generating random
and regular graphs, graph visualization, centrality indices and much more.
ChangeLog | 86 ++++
ChangeLog.orig |only
ChangeLog.rej |only
DESCRIPTION | 6
NAMESPACE | 11
R/CohesiveBlocks.R | 73 ++--
R/auto.R | 51 ++
R/centrality.R | 35 +
R/community.R | 9
R/conversion.R | 193 ++++++++++-
R/games.R | 4
R/layout.R | 156 ++++++++
R/plot.R | 172 +++------
R/plot.common.R | 4
R/plot.shapes.R |only
R/structural.properties.R | 34 +
R/structure.generators.R | 259 +++++++++++++-
configure | 18 -
man/arpack.Rd | 24 +
man/conversion.Rd | 12
man/degree.sequence.game.Rd | 32 +
man/fastgreedy.community.Rd | 11
man/graph.adjacency.Rd | 32 +
man/graph.adjlist.Rd |only
man/graph.constructors.Rd | 15
man/graph.data.frame.Rd |only
man/graphNEL.Rd |only
man/igraph.vertex.shapes.Rd |only
man/is.mutual.Rd |only
man/layout.Rd | 6
man/layout.drl.Rd |only
man/plot.common.Rd | 32 +
man/shortest.paths.Rd | 32 +
man/similarity.Rd | 18 -
man/walktrap.community.Rd | 4
src/DensityGrid.cpp |only
src/DensityGrid.h |only
src/Makevars |only
src/Makevars.win | 2
src/NetDataTypes.cpp | 2
src/NetDataTypes.h | 40 +-
src/NetRoutines.cpp | 8
src/adjlist.c | 14
src/arpack.c | 142 +++++++-
src/arpack.h | 3
src/attributes.h | 4
src/bliss.cc | 4
src/bliss_graph.cc | 11
src/bliss_kqueue.hh | 1
src/bliss_kstack.hh | 1
src/cattributes.c | 24 -
src/centrality.c | 14
src/clustertool.cpp | 14
src/cocitation.c | 115 +++++-
src/community.c | 3
src/components.c | 52 ++
src/drl_Node.h |only
src/drl_graph.cpp |only
src/drl_graph.h |only
src/drl_layout.cpp |only
src/drl_layout.h |only
src/drl_parse.cpp |only
src/drl_parse.h |only
src/dtrexc.c | 2
src/dtrsen.c | 2
src/error.c | 7
src/error.h | 30 +
src/fast_community.c | 25 -
src/flow.c | 125 ++++++-
src/foreign-gml-lexer.c | 58 ++-
src/foreign-graphml.c | 15
src/foreign-lgl-lexer.c | 86 +++-
src/foreign-lgl-parser.c | 35 +
src/foreign-lgl-parser.h | 2
src/foreign-ncol-lexer.c | 84 +++-
src/foreign-ncol-parser.c | 30 -
src/foreign-ncol-parser.h | 2
src/foreign-pajek-lexer.c | 58 ++-
src/foreign-pajek-parser.c | 210 ++++++-----
src/foreign-pajek-parser.h | 2
src/foreign.c | 53 ++-
src/forestfire.c | 6
src/games.c | 353 ++++++++++++++++----
src/gengraph_box_list.cpp |only
src/gengraph_box_list.h |only
src/gengraph_definitions.h |only
src/gengraph_degree_sequence.cpp |only
src/gengraph_degree_sequence.h |only
src/gengraph_graph_molloy_hash.cpp |only
src/gengraph_graph_molloy_hash.h |only
src/gengraph_graph_molloy_optimized.cpp |only
src/gengraph_graph_molloy_optimized.h |only
src/gengraph_hash.h |only
src/gengraph_header.h |only
src/gengraph_mr-connected.cpp |only
src/gengraph_powerlaw.cpp |only
src/gengraph_powerlaw.h |only
src/gengraph_qsort.h |only
src/gengraph_random.cpp |only
src/gengraph_random.h |only
src/gengraph_vertex_cover.h |only
src/heap.c | 2
src/igraph.h | 130 +++++++
src/iterators.c | 4
src/layout.c | 205 ++++++-----
src/matrix.pmt | 2
src/pottsmodel_2.cpp | 23 -
src/random.c | 12
src/random.h | 3
src/rinterface.c | 299 ++++++++++++++++-
src/spmatrix.c | 2
src/structural_properties.c | 561 +++++++++++++++++++++++++++++++-
src/structure_generators.c | 341 +++++++++++++++++++
src/topology.c | 24 +
src/type_indexededgelist.c | 4
src/types.h | 2
src/vector.h | 6
src/vector.pmt | 67 +++
src/walktrap.cpp | 1
src/walktrap_graph.cpp | 1
120 files changed, 3939 insertions(+), 718 deletions(-)
Author: Francois Husson, Julie Josse, Sebastien Le, Jeremy Mazet
Title: Factor Analysis and Data Mining with R
Description: an R package for exploratory data analysis
Diff between FactoMineR versions 1.08 dated 2008-02-22 and 1.09 dated 2008-07-12
DESCRIPTION | 6 +-- NAMESPACE | 2 - R/CA.R | 2 + R/MCA.R | 3 + R/PCA.R | 8 ++-- R/catdes.r | 4 +- R/condes.r |only R/dimdesc.r | 79 +++++++++---------------------------------------- R/graph.var.R | 4 +- R/plot.AFDM.R | 4 +- data/tea.rda |only man/AFDM.Rd | 6 ++- man/CA.Rd | 2 - man/DMFA.Rd | 2 - man/HMFA.Rd | 3 + man/MCA.Rd | 4 +- man/MFA.Rd | 2 - man/PCA.Rd | 2 - man/catdes.Rd | 8 ++-- man/coeffRV.Rd | 2 - man/condes.Rd |only man/coord.ellipse.Rd | 2 - man/dimdesc.Rd | 2 - man/graph.var.Rd | 5 +-- man/plot.AFDM.Rd | 5 +-- man/plot.CA.Rd | 2 - man/plot.DMFA.Rd | 2 - man/plot.GPA.Rd | 2 - man/plot.GPApartial.Rd | 2 - man/plot.HMFA.Rd | 2 - man/plot.MCA.Rd | 2 - man/plot.MFA.Rd | 2 - man/plot.MFApartial.Rd | 2 - man/plot.PCA.Rd | 2 - man/prefpls.Rd | 4 -- man/print.AFDM.Rd | 2 - man/print.CA.Rd | 2 - man/print.GPA.Rd | 2 - man/print.HMFA.Rd | 2 - man/print.MCA.Rd | 2 - man/print.MFA.Rd | 2 - man/print.PCA.Rd | 2 - man/simule.Rd | 2 - man/tea.Rd |only man/textual.Rd | 2 - man/write.infile.Rd | 2 - 46 files changed, 78 insertions(+), 121 deletions(-)
Author: Ken Beath
Diff between randomLCA versions 0.3-2 dated 2008-06-12 and 0.5-1 dated 2008-07-12
Title: Random Effects Latent Class Analysis
Description: Fits random effects latent class models, as well as standard latent class models.
DESCRIPTION | 6 -
R/fit.adapt.random2.randomLCA.R | 156 +++++++------------------------
R/fit.adapt.random2byclass.randomLCA.R | 165 +++++++--------------------------
R/randomLCA.R | 2
R/summary.randomLCA.R | 58 +++++++++--
data/myocardial.rda |only
data/symptoms.RData |only
inst/NEWS | 10 ++
inst/doc/.build.timestamp |only
inst/doc/randomLCA-example.Rnw | 91 ++++++++++++++++++
inst/doc/randomLCA-example.pdf |binary
man/myocardial.Rd |only
man/randomLCA.Rd | 3
man/symptoms.Rd |only
src/bernoulliprobrandom.c | 10 +-
src/bernoulliprobrandom2.c |only
16 files changed, 231 insertions(+), 270 deletions(-)
Author: William Revelle
Diff between psych versions 1.0-42 dated 2008-03-24 and 1.0-51 dated 2008-07-12
Title: Procedures for Personality and Psychological Research
Description: A number of routines for personality, psychometrics and experimental
psychology. Functions are primarily for scale construction using factor analysis, cluster analysis and
reliability analysis, although others provide basic descriptive
statistics. For more information, see the personality-project.org/r.
DESCRIPTION | 8
NAMESPACE | 22
R/ICC.R |only
R/ICLUST.R | 11
R/ICLUST.cluster.R | 69
R/ICLUST.graph.R | 2
R/ICLUST.rgraph.R | 14
R/ICLUST.sort.R | 2
R/SD.R |only
R/VSS.R | 30
R/VSS.simulate.R | 15
R/bartlett.cortest.R |only
R/cluster.cor.R | 6
R/cluster.fit.R | 23
R/cluster.loadings.R | 13
R/cluster.plot.R | 8
R/cluster2keys.R |only
R/comorbidity.R |only
R/congeneric.sim.R | 3
R/describe.R | 8
R/fa.graph.R | 31
R/fa.parallel.R | 48
R/factor.pa.R | 38
R/jennrich.cortest.R |only
R/kappa.R |only
R/kurtosi.R | 6
R/make.keys.R |only
R/mat.cortest.R |only
R/mat.regress.R | 45
R/matrix.addition.R | 7
R/multi.hist.R | 3
R/normal.cortest.R |only
R/omega.R | 13
R/omega.graph.R | 77
R/pairs.panels.R | 38
R/phi.R | 4
R/principal.R | 41
R/read.clipboard.R | 9
R/read.clipboard.lower.R |only
R/rescale.R | 6
R/scaling.fits.R |only
R/schmid.R | 21
R/skew.R | 6
R/smc.R |only
R/structure.graph.R |only
R/test.psych.r | 37
R/thurstone.R |only
R/winsor.R | 38
data/cities.rda |only
data/epi.bfi.rda |only
data/vegetables.rda |only
inst/doc/index.html | 4
inst/doc/psych-manual.pdf |51855 +++++++++++++++++++++++++---------------------
man/00.psych-package.Rd | 55
man/ICC.Rd |only
man/ICLUST.Rd | 27
man/ICLUST.graph.Rd | 2
man/ICLUST.rgraph.Rd | 9
man/SD.Rd |only
man/VSS.Rd | 51
man/VSS.simulate.Rd | 7
man/Yule.Rd | 5
man/bartlett.cortest.Rd |only
man/bfi.Rd | 11
man/circ.tests.Rd | 2
man/cities.Rd |only
man/cluster.plot.Rd | 9
man/cluster2keys.Rd |only
man/comorbidity.Rd |only
man/congeneric.sim.Rd | 10
man/cubits.Rd | 1
man/epi.bfi.Rd |only
man/error.bars.Rd | 1
man/error.crosses.Rd | 24
man/fa.graph.Rd | 6
man/fa.parallel.Rd | 7
man/factor.congruence.Rd | 2
man/factor.pa.Rd | 4
man/heights.Rd | 4
man/kappa.Rd |only
man/make.hierarchical.Rd | 9
man/make.keys.Rd |only
man/mat.cortest.Rd |only
man/mat.regress.Rd | 18
man/matrix.addition.Rd | 6
man/omega.Rd | 11
man/omega.graph.Rd | 18
man/pairs.panels.Rd | 3
man/read.clipboard.Rd | 14
man/rescale.Rd | 10
man/scaling.fits.Rd |only
man/schmid.Rd | 5
man/score.items.Rd | 26
man/smc.Rd |only
man/thurstone.Rd |only
man/tr.Rd |only
man/vegetables.Rd |only
man/winsor.Rd | 19
98 files changed, 29062 insertions(+), 23875 deletions(-)
Author: Sřren Hřjsgaard
Diff between gRbase versions 0.4.1 dated 2008-05-02 and 0.4.2 dated 2008-07-12
Title: A package for graphical modelling in R
Description: This package defines S3-classes gmData (graphical meta data), gModel (graphical model). Several other graphical modelling packages rely on these fundamental constructs. gRbase illustrates how hierarchical log-linear models (hllm) may be implemented.
ChangeLog | 8 ++++++-
DESCRIPTION | 4 +--
R/formulae.R | 53 +++++++++++++++++++++++++++++++++++++++++++------
R/ggm.R | 22 --------------------
R/setopsR.R | 2 -
R/utility.R |only
inst/doc/gRbase.pdf |binary
man/gRbase-internal.Rd | 6 +++++
8 files changed, 63 insertions(+), 32 deletions(-)
Author: Max Kuhn. Contributions from Jed Wing, Steve Weston and Andre Williams
Title: Classification and Regression Training
Description: Misc functions for training and plotting classification and regression models
Diff between caret versions 3.21 dated 2008-06-11 and 3.25 dated 2008-07-12
caret-3.21/caret/inst/doc/caretMisc.tex |only caret-3.21/caret/inst/doc/caretTrain.tex |only caret-3.21/caret/inst/doc/caretVarImp.tex |only caret-3.25/caret/DESCRIPTION | 6 +- caret-3.25/caret/NAMESPACE | 12 ++++ caret-3.25/caret/R/createGrid.R | 9 +-- caret-3.25/caret/R/createModel.R | 43 ++++++++++++++-- caret-3.25/caret/R/extractPrediction.R | 2 caret-3.25/caret/R/extractProb.R | 2 caret-3.25/caret/R/misc.R | 32 +++++++++--- caret-3.25/caret/R/pcaNNet.R |only caret-3.25/caret/R/predictionFunction.R | 11 +++- caret-3.25/caret/R/print.train.R | 4 - caret-3.25/caret/R/probFunction.R | 6 +- caret-3.25/caret/R/rfVarImp.R | 2 caret-3.25/caret/R/selection.R | 6 +- caret-3.25/caret/inst/doc/caretMisc.pdf | 79 ++++++++++++++---------------- caret-3.25/caret/inst/doc/caretTrain.pdf |binary caret-3.25/caret/inst/doc/caretVarImp.pdf |binary caret-3.25/caret/man/pcaNNet.Rd |only caret-3.25/caret/man/selection.Rd | 2 caret-3.25/caret/man/varImp.Rd | 9 +-- 22 files changed, 148 insertions(+), 77 deletions(-)
Author: Richard M. Heiberger, with contributions from Burt Holland.
Title: Rcmdr support for the HH package
Description: Rcmdr menu support for many of the functions in the HH package.
The focus is on menu items for functions we use in our introductory courses.
Diff between RcmdrPlugin.HH versions 1.1-12 dated 2008-03-21 and 1.1-14 dated 2008-07-12
DESCRIPTION | 6 +++--- R/PredictModel.R | 43 ++++++++++++++++++++++++++----------------- R/anovaTableII.R |only inst/etc/menus.txt | 2 +- man/anovaTableI.HH.Rd | 2 ++ 5 files changed, 32 insertions(+), 21 deletions(-)
More information about RcmdrPlugin.HH at CRAN
Permanent link
Author: Richard M. Heiberger
Title: Statistical Analysis and Data Display: Heiberger and Holland
Description: Support software for Statistical Analysis and Data
Display (Springer, ISBN 0-387-40270-5). This contemporary
presentation of statistical methods features extensive use of
graphical displays for exploring data and for displaying the
analysis. The authors demonstrate how to analyze data---showing
code, graphics, and accompanying computer listings---for all the
methods they cover. They emphasize how to construct and
interpret graphs, discuss principles of graphical design, and
show how accompanying traditional tabular results are used to
confirm the visual impressions derived directly from the
graphs. Many of the graphical formats are novel and appear
here for the first time in print. All chapters have exercises.
Diff between HH versions 2.1-12 dated 2008-04-18 and 2.1-13 dated 2008-07-12
DESCRIPTION | 6 +++--- R/norm.curve.R | 20 +++++++++++--------- R/resid.squares.R | 5 ++--- inst/doc |only inst/scripts |only man/resid.squares.Rd | 3 ++- 6 files changed, 18 insertions(+), 16 deletions(-)
Author: Tom Price
Diff between waveclock versions 1.0-0 dated 2008-06-16 and 1.0-1 dated 2008-07-11
Title: Time-frequency analysis of cycling cell luminescence data
Description: waveclock is an R function designed to assess the period and
amplitude of cycling cell luminescence data. The function reconstructs
the modal frequencies from a continuous wavelet decomposition of the
luminescence data using the 'crazy climbers' algorithm described in
"Practical Time-Frequency Analysis: Gabor and Wavelet Transforms with
an Implementation in S", by Rene Carmona, Wen L. Hwang and Bruno
Torresani, Academic Press, 1998.
CHANGES |only
DESCRIPTION | 6
R/my.crc.R |only
R/my.crcrec.R | 234 ++++++++--------
R/waveclock.R | 791 +++++++++++++++++++++++++++++--------------------------
data |only
man/U2OS.Rd |only
man/waveclock.Rd | 82 +++--
8 files changed, 596 insertions(+), 517 deletions(-)
Author: Bernhard Pfaff
Title: VAR Modelling
Description: Estimation, lag selection, diagnostic testing, forecasting, causality analysis, forecast error variance decomposition and impulse response functions of VAR models and estimation of SVAR/SVEC models.
Diff between vars versions 1.3-8 dated 2008-05-13 and 1.4-0 dated 2008-07-11
DESCRIPTION | 6 +++--- inst/CITATION |only inst/ChangeLog | 6 ++++++ inst/book-ex |only inst/doc |only 5 files changed, 9 insertions(+), 3 deletions(-)
Author: Bernhard Pfaff
Diff between urca versions 1.1-6 dated 2007-11-03 and 1.1-7 dated 2008-07-11
Title: Unit root and cointegration tests for time series data
Description: Unit root and cointegration tests encountered in applied
econometric analysis are implemented.
DESCRIPTION | 6 +++---
R/alrtest.R | 4 ++--
inst/CITATION | 12 +++++++-----
inst/ChangeLog | 6 ++++++
inst/book-ex |only
5 files changed, 18 insertions(+), 10 deletions(-)
Author: Gilles Pujol (this package was originally developped at Commissariat a
l'Energie Atomique CEA, Service d'Etudes et de Simulation du Comportement des
Combustibles CEA/DEN/CAD/DEC/SESC, France ; the author would like to thank :
Patrick Obry, Bertrand Iooss, Claire Cannamela and Frederic Michel).
Title: Sensitivity Analysis
Description: This package allows to perform sensitivity analyses within the R
environment. Implemented methods are : linear sensitivity analysis (SRC,
PCC, rank analysis), the screening method of Morris, the Sobol global
sensitivity indices (two methods of estimation), and the FAST method.
Diff between sensitivity versions 1.3-0 dated 2007-01-05 and 1.3-1 dated 2008-07-11
COPYRIGHT | 3 +-- DESCRIPTION | 8 ++++---- HISTORY | 1 + R/plot.R | 4 ++-- inst/doc/sensitivity_appendix.Rnw | 4 +++- inst/doc/sensitivity_appendix.pdf |binary inst/doc/stats.bib |only 7 files changed, 11 insertions(+), 9 deletions(-)
Author: David Firth with contributions from Heather Turner
Title: Relative Contribution of Effects in a Regression Model
Description: Functions to facilitate inference on the relative importance of predictors in a linear or generalized linear model, and a couple of useful Tcl/Tk widgets.
Diff between relimp versions 0.9-9 dated 2008-06-06 and 1.0-1 dated 2008-07-11
DESCRIPTION | 6 +++--- R/showData.R | 21 +++++++++++---------- 2 files changed, 14 insertions(+), 13 deletions(-)
Author: Douglas Bates
Diff between lme4 versions 0.999375-20 dated 2008-06-26 and 0.999375-21 dated 2008-07-11
Title: Linear mixed-effects models using S4 classes
Description: Fit linear and generalized linear mixed-effects models.
DESCRIPTION | 8 ++++----
inst/doc/Implementation.pdf |binary
inst/doc/PLSvGLS.pdf |binary
inst/doc/Theory.pdf |binary
4 files changed, 4 insertions(+), 4 deletions(-)
Author: Virasakdi Chongsuvivatwong
Diff between epicalc versions 2.7.1.1 dated 2008-07-08 and 2.7.1.2 dated 2008-07-11
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.
DESCRIPTION | 6 +++---
data/VCT.rdata |binary
2 files changed, 3 insertions(+), 3 deletions(-)
Author: Andrew Gelman
Diff between arm versions 1.1-9 dated 2008-07-09 and 1.1-10 dated 2008-07-11
Title: Data Analysis Using Regression and Multilevel/Hierarchical Models
Description: R functions for processing lm, glm, mer and polr outputs.
CHANGELOG | 5 +++++
DESCRIPTION | 6 +++---
R/rescale.R | 19 ++++++++++++++-----
man/rescale.Rd | 2 +-
4 files changed, 23 insertions(+), 9 deletions(-)
Author: Emmanuel Paradis, Ben Bolker, Julien Claude, Hoa Sien Cuong,
Richard Desper, Benoit Durand, Julien Dutheil, Olivier Gascuel,
Gangolf Jobb, Christoph Heibl, Vincent Lefort, Jim Lemon,
Yvonnick Noel, Johan Nylander, Rainer Opgen-Rhein, Korbinian Strimmer,
Damien de Vienne
Title: Analyses of Phylogenetics and Evolution
Description: ape provides functions for reading, writing, plotting,
and manipulating phylogenetic trees, analyses of comparative data
in a phylogenetic framework, analyses of diversification and
macroevolution, computing distances from allelic and nucleotide
data, reading nucleotide sequences, and several tools such as
Mantel's test, computation of minimum spanning tree, the population
parameter theta based on various approaches, nucleotide diversity,
generalized skyline plots, estimation of absolute evolutionary rates
and clock-like trees using mean path lengths, non-parametric rate
smoothing and penalized likelihood, classifying genes in trees using
the Klastorin-Misawa-Tajima approach. Phylogeny estimation can be done
with the NJ, BIONJ, ME, and ML methods.
Diff between ape versions 2.2 dated 2008-05-08 and 2.2-1 dated 2008-07-11
Changes | 53 ++++++++++++++++- DESCRIPTION | 6 - R/DNA.R | 23 +++++++ R/collapse.singles.R | 15 ++++ R/cophyloplot.R | 4 - R/dist.topo.R | 6 - R/makeLabel.R |only R/mlphylo.R | 10 +-- R/read.dna.R | 99 +++++++++++++++++--------------- R/read.nexus.R | 20 +++++- R/root.R | 32 +++++++++- R/sh.test.R | 8 +- R/unique.multiPhylo.R | 14 ++-- R/write.dna.R | 154 +++++++++++++++++++++----------------------------- Thanks | 4 - inst/doc/MoranI.pdf |binary man/bind.tree.Rd | 2 man/boot.phylo.Rd | 17 ++--- man/consensus.Rd | 2 man/cophyloplot.Rd | 2 man/corPagel.Rd | 2 man/del.gaps.Rd |only man/makeLabel.Rd |only man/read.dna.Rd | 27 ++++++-- man/write.dna.Rd | 30 +++++---- src/mlphylo.c | 123 ++++++++++++++------------------------- 26 files changed, 371 insertions(+), 282 deletions(-)
Author: Grant Izmirlian
Title: Power in a Group Sequential Design
Description: Tools to compute power in a group sequential design. SimPwrGSD C-kernel is a simulation routine that is similar in spirit to dssp2.f by Gu and Lai, but with major improvements. AsyPwrGSD has exactly the same range of application as SimPwrGSD but uses asymptotic methods and runs _much_ faster.
Diff between PwrGSD versions 1.1 dated 2008-05-14 and 1.15 dated 2008-07-11
DESCRIPTION | 4 R/PwrGSD.R | 37 inst/doc/GrpSeqBnds-vignette-1-incl-ex1-plot.eps |only inst/doc/GrpSeqBnds-vignette-1-incl-ex1-plot.pdf |only inst/doc/GrpSeqBnds-vignette-1-incl-ex2-plot.eps |only inst/doc/GrpSeqBnds-vignette-1-incl-ex2-plot.pdf |only inst/doc/GrpSeqBnds-vignette-1-incl-ex3-plot.eps |only inst/doc/GrpSeqBnds-vignette-1-incl-ex3-plot.pdf |only inst/doc/GrpSeqBnds-vignette-1-incl-ex4-plot.eps |only inst/doc/GrpSeqBnds-vignette-1-incl-ex4-plot.pdf |only inst/doc/GrpSeqBnds-vignette-1.Rnw | 1 inst/doc/GrpSeqBnds-vignette-1.log | 4 inst/doc/GrpSeqBnds-vignette-1.pdf |binary inst/doc/GrpSeqBnds-vignette-1.tex | 46 inst/doc/PwrGSD-vignette-1.Rnw | 2 inst/doc/PwrGSD-vignette-1.pdf |binary inst/doc/PwrGSD-vignette-1.tex |only inst/doc/Rplots.ps |42528 +++++++++++----------- inst/doc/cpd-PwrGSD-vignette-1-fig1-LanDemets.pdf | 4 inst/doc/cpd-PwrGSD-vignette-1-fig2-StochCurt.pdf | 4 inst/doc/cpd-PwrGSD-vignette-1.Rnw | 2 inst/doc/cpd-PwrGSD-vignette-1.log | 4 inst/doc/cpd-PwrGSD-vignette-1.pdf |binary inst/doc/cpd-PwrGSD-vignette-1.tex | 4 man/Ch1-PwrGSD.Rd | 10 man/Ch2-cpd.PwrGSD.Rd | 2 src/AsyPwrGSD.c | 10 27 files changed, 21336 insertions(+), 21326 deletions(-)
Author: Bjoern Bornkamp, Jose Pinheiro and Frank Bretz
Title: Design and Analysis of Dose-Finding Studies
Description: This package implements a methodology for the design and analysis of
dose-response studies that combines aspects of multiple comparison procedures
and modeling approaches (Bretz, Pinheiro and Branson, 2005, Biometrics 61, 738-748).
The package provides tools for the analysis of dose finding trials as well as a variety
of tools necessary to plan a trial to be conducted with the MCPMod methodology.
Diff between MCPMod versions 0.1-3 dated 2008-05-06 and 0.1-4 dated 2008-07-11
ChangeLog | 9 +++++++++ DESCRIPTION | 6 +++--- R/analysisMM.R | 31 ++++++++++++++++++++----------- man/MCPMod-package.Rd | 4 ++-- 4 files changed, 34 insertions(+), 16 deletions(-)
Author: Andreas Ruckstuhl, Thomas Unternaehrer, Rene Locher
Title: Utilities of Institute of Data Analyses and Process Design (www.idp.zhaw.ch)
Description: The IDPmisc package contains different high-level graphics functions for displaying large datasets, displaying circular data in a very flexible way, finding local maxima, brewing color ramps, drawing nice arrows, zooming 2D-plots, creating figures with differently colored margin and plot region. In addition, the package contains auxiliary functions for data manipulation like omitting observations with irregular values or selecting data by logical vectors, which include NAs. Other functions are especially useful in spectroscopy and analyses of environmental data: robust baseline fitting, finding peaks in spectra.
Diff between IDPmisc versions 0.9.5 dated 2007-10-03 and 0.9.7 dated 2008-07-11
IDPmisc-0.9.5/IDPmisc/man/ixyplot.Rd |only IDPmisc-0.9.5/IDPmisc/man/longts.plot.Rd |only IDPmisc-0.9.7/IDPmisc/ChangeLog | 32 +++ IDPmisc-0.9.7/IDPmisc/DESCRIPTION | 9 - IDPmisc-0.9.7/IDPmisc/NAMESPACE | 7 IDPmisc-0.9.7/IDPmisc/R/Image.R | 14 + IDPmisc-0.9.7/IDPmisc/R/iplot.R |only IDPmisc-0.9.7/IDPmisc/R/ixyplot.R | 165 +++----------------- IDPmisc-0.9.7/IDPmisc/R/longts.plot.R | 23 +- IDPmisc-0.9.7/IDPmisc/R/longtsPlot.R |only IDPmisc-0.9.7/IDPmisc/R/plot.onepage.R | 34 ++-- IDPmisc-0.9.7/IDPmisc/R/plot.page.R |only IDPmisc-0.9.7/IDPmisc/R/poster.plot.R | 8 IDPmisc-0.9.7/IDPmisc/R/showColors.R | 5 IDPmisc-0.9.7/IDPmisc/man/IDPmisc-package.Rd | 9 - IDPmisc-0.9.7/IDPmisc/man/Image.Rd | 11 - IDPmisc-0.9.7/IDPmisc/man/iplot.Rd |only IDPmisc-0.9.7/IDPmisc/man/ixyplot-deprecated.Rd |only IDPmisc-0.9.7/IDPmisc/man/longts.plot-deprecated.Rd |only IDPmisc-0.9.7/IDPmisc/man/longtsPlot.Rd |only IDPmisc-0.9.7/IDPmisc/man/pkg-internal.Rd | 18 +- IDPmisc-0.9.7/IDPmisc/man/rfbaseline.Rd | 2 22 files changed, 148 insertions(+), 189 deletions(-)
Author: Miika Ahdesmaki, Konstantinos Fokianos, and
Korbinian Strimmer.
Title: Identification of Periodically Expressed Genes
Description: The GeneCycle package implements the approaches of Wichert et al.
(2004), Ahdesmaki et al. (2005) and Ahdesmaki et al. (2007) for detecting periodically
expressed genes from gene expression time series data.
Diff between GeneCycle versions 1.0.4 dated 2008-06-03 and 1.1.0 dated 2008-07-11
GeneCycle-1.0.4/GeneCycle/COPYING |only GeneCycle-1.1.0/GeneCycle/CHANGES | 9 GeneCycle-1.1.0/GeneCycle/DESCRIPTION | 16 - GeneCycle-1.1.0/GeneCycle/LICENSE |only GeneCycle-1.1.0/GeneCycle/R/robust.g.test.R | 68 +++- GeneCycle-1.1.0/GeneCycle/R/robust.spectrum.R | 274 +++++++++++++++++--- GeneCycle-1.1.0/GeneCycle/man/GeneCycle-internal.Rd | 6 GeneCycle-1.1.0/GeneCycle/man/robust.g.test.Rd | 171 +++++++++--- 8 files changed, 442 insertions(+), 102 deletions(-)
Author: Ben Goodrich
Title: Factor Analysis in R
Description: This package estimates factor analysis models using a genetic algorithm, which permits a general mechanism for restricted optimization with arbitrary restrictions that are chosen at run time with the help of a GUI. Importantly, inequality restrictions can be imposed on functions of multiple parameters, which provides a new avenues for testing and generating theories with factor analysis models. This package also includes an entirely new estimator of the common factor analysis model called semi-exploratory factor analysis, which is a general alternative to exploratory and confirmatory factor analysis. Finally, this package integrates a lot of other packages that estimate sample covariance matrices and thus provides a lot of alternatives to the traditional sample covariance calculation. Note that you need to have the Gtk run time library installed on your system to use this package; see the URL below for detailed installation instructions. Most users would only need to understand the first twenty-four pages of the PDF manual.
Diff between FAiR versions 0.2-0 dated 2008-02-01 and 0.4-0 dated 2008-07-11
FAiR-0.2-0/FAiR/inst/doc/FAiR.aux |only FAiR-0.2-0/FAiR/inst/doc/FAiR.log |only FAiR-0.2-0/FAiR/inst/doc/FAiR.tex |only FAiR-0.2-0/FAiR/inst/doc/FAiR.toc |only FAiR-0.2-0/FAiR/inst/doc/screenshots |only FAiR-0.2-0/FAiR/man/FAiR-package.Rd |only FAiR-0.2-0/FAiR/man/Factanal.Rd |only FAiR-0.2-0/FAiR/man/Rotate.Rd |only FAiR-0.2-0/FAiR/man/classFA.Rd |only FAiR-0.2-0/FAiR/man/make_criteria.Rd |only FAiR-0.2-0/FAiR/man/make_restrictions.Rd |only FAiR-0.2-0/FAiR/tests/tests.R |only FAiR-0.4-0/FAiR/DESCRIPTION | 20 FAiR-0.4-0/FAiR/LICENSE |only FAiR-0.4-0/FAiR/NAMESPACE | 84 FAiR-0.4-0/FAiR/NEWS |only FAiR-0.4-0/FAiR/R/AllS4Generics.R |only FAiR-0.4-0/FAiR/R/Classes.R | 1629 ++ FAiR-0.4-0/FAiR/R/Criteria.R | 845 - FAiR-0.4-0/FAiR/R/FAiR.R | 723 - FAiR-0.4-0/FAiR/R/GPArotation.R |only FAiR-0.4-0/FAiR/R/GPLv3_or_later.R |only FAiR-0.4-0/FAiR/R/Menus.R | 2062 +-- FAiR-0.4-0/FAiR/R/S3methods.R | 258 FAiR-0.4-0/FAiR/R/S4methods.R | 5088 ++++--- FAiR-0.4-0/FAiR/R/TestStatistics.R |only FAiR-0.4-0/FAiR/R/Utils.R | 2915 +++- FAiR-0.4-0/FAiR/R/zzz.R | 61 FAiR-0.4-0/FAiR/inst/doc/FAiR.R |only FAiR-0.4-0/FAiR/inst/doc/FAiR.Rnw | 2257 ++- FAiR-0.4-0/FAiR/inst/doc/FAiR.dvi |binary FAiR-0.4-0/FAiR/inst/doc/FAiR.lyx | 8646 +++++++++---- FAiR-0.4-0/FAiR/inst/doc/FAiR.lyx.emergency |only FAiR-0.4-0/FAiR/inst/doc/FAiR.pdf |14617 +++++++++------------- FAiR-0.4-0/FAiR/inst/doc/FAiR.tex.backup | 1951 +- FAiR-0.4-0/FAiR/inst/doc/screenshots2 |only FAiR-0.4-0/FAiR/man/00FAiR-package.Rd |only FAiR-0.4-0/FAiR/man/01make_manifest.Rd |only FAiR-0.4-0/FAiR/man/02make_restrictions.Rd |only FAiR-0.4-0/FAiR/man/03Factanal.Rd |only FAiR-0.4-0/FAiR/man/04Rotate.Rd |only FAiR-0.4-0/FAiR/man/FAiR-internal.Rd |only FAiR-0.4-0/FAiR/man/GPA2FA.Rd |only FAiR-0.4-0/FAiR/man/S3methods.Rd | 159 FAiR-0.4-0/FAiR/man/S4methods.Rd | 216 FAiR-0.4-0/FAiR/man/create_FAobject.Rd |only FAiR-0.4-0/FAiR/man/equality_restriction-class.Rd |only FAiR-0.4-0/FAiR/man/loadings.Rd |only FAiR-0.4-0/FAiR/man/manifest-class.Rd |only FAiR-0.4-0/FAiR/man/mapping_rule.Rd |only FAiR-0.4-0/FAiR/man/model_comparison.Rd |only FAiR-0.4-0/FAiR/man/parameter-class.Rd |only FAiR-0.4-0/FAiR/man/read.cefa.Rd | 59 FAiR-0.4-0/FAiR/man/read.triangular.Rd |only FAiR-0.4-0/FAiR/man/restrictions-class.Rd | 306 FAiR-0.4-0/FAiR/man/restrictions2Mathomatic.Rd |only FAiR-0.4-0/FAiR/man/restrictions2RAM.Rd |only FAiR-0.4-0/FAiR/man/restrictions2draws.Rd |only FAiR-0.4-0/FAiR/man/restrictions2model.Rd |only FAiR-0.4-0/FAiR/man/summary.FA-class.Rd | 49 FAiR-0.4-0/FAiR/src |only FAiR-0.4-0/FAiR/tests/testsCFA.R |only FAiR-0.4-0/FAiR/tests/testsEFA.R |only FAiR-0.4-0/FAiR/tests/testsMANIFEST.R |only FAiR-0.4-0/FAiR/tests/testsMICRO.R |only FAiR-0.4-0/FAiR/tests/testsRESTRICTIONS.R |only FAiR-0.4-0/FAiR/tests/testsSEFA.R |only 67 files changed, 25364 insertions(+), 16581 deletions(-)
Author: David Firth
Title: Bradley-Terry models
Description: Specify and fit the Bradley-Terry model and structured versions
Diff between BradleyTerry versions 0.8-5 dated 2005-08-05 and 0.8-7 dated 2008-07-11
DESCRIPTION | 13 +++++++------ INDEX | 4 +++- R/BTm.R | 19 +++++++++---------- data/flatlizards.rda |only man/BTm.Rd | 13 ++++++------- man/flatlizards.Rd |only 6 files changed, 25 insertions(+), 24 deletions(-)
Author: David Meyer and Kurt Hornik (with contributions by Christian Buchta)
Title: Sets and Generalized Sets
Description: Data structures and basic operations for ordinary sets,
and generalizations such as fuzzy sets, multisets, and
fuzzy multisets.
Diff between sets versions 0.1-3 dated 2008-05-28 and 0.2 dated 2008-07-10
DESCRIPTION | 8 +- NAMESPACE | 50 +++++++++--- R/cardinality.R | 7 + R/cartesian.R | 10 +- R/closure.R |only R/combn.R | 4 - R/complement.R | 12 +-- R/converters.R | 147 +++++++++++++++++++++++++++++------- R/cut.R | 13 +-- R/element.R | 21 ++++- R/extractors.R | 25 +++++- R/gset.R | 167 ++++++++++++++++++++++-------------------- R/intersection.R | 8 +- R/labels.R | 46 +++++++---- R/memberships.R | 10 +- R/outer.R | 4 - R/power.R | 6 + R/predicates.R | 65 +++++++--------- R/reduction.R |only R/rep.R | 4 - R/set.R | 39 +++++++-- R/sumdiff.R | 68 ++++++----------- R/tuple.R | 37 --------- R/union.R | 7 + R/utilities.R | 19 ++++ inst/doc/set.Rnw | 10 ++ inst/doc/set.pdf |binary man/canonicalizeSetMapping.Rd |only man/closure.Rd |only man/fuzzy.Rd | 70 ++++++++--------- man/gset.Rd | 43 +++++----- man/labels.Rd | 5 - man/set.Rd | 25 ++++++ src |only 34 files changed, 559 insertions(+), 371 deletions(-)
Author: Achim Zeileis, Gabor Grothendieck
Title: Z's ordered observations
Description: An S3 class with methods for totally ordered indexed
observations. It is particularly aimed at irregular
time series of numeric vectors/matrices and factors.
zoo's key design goals are independence of a particular
index/date/time class and consistency with with ts and
base R by providing methods to extend standard generics.
Diff between zoo versions 1.5-3 dated 2008-04-22 and 1.5-4 dated 2008-07-09
zoo-1.5-3/zoo/inst/doc/plot-axes.pdf |only zoo-1.5-3/zoo/inst/doc/plot-axes.tex |only zoo-1.5-3/zoo/inst/doc/zoo-faq.tex |only zoo-1.5-3/zoo/inst/doc/zoo-quickref.tex |only zoo-1.5-3/zoo/inst/doc/zoo.tex |only zoo-1.5-4/zoo/DESCRIPTION | 6 zoo-1.5-4/zoo/NEWS | 18 zoo-1.5-4/zoo/R/aggregate.zoo.R | 2 zoo-1.5-4/zoo/R/plot.zoo.R | 20 zoo-1.5-4/zoo/R/read.zoo.R | 8 zoo-1.5-4/zoo/R/yearmon.R | 5 zoo-1.5-4/zoo/R/yearqtr.R | 1 zoo-1.5-4/zoo/WISHLIST | 4 zoo-1.5-4/zoo/inst/doc/zoo-faq.Rnw | 195 ++- zoo-1.5-4/zoo/inst/doc/zoo-faq.pdf | 1687 +++++++++++++++++--------------- zoo-1.5-4/zoo/inst/doc/zoo-quickref.Rnw | 54 + zoo-1.5-4/zoo/inst/doc/zoo-quickref.pdf | 1210 ++++++++++++---------- zoo-1.5-4/zoo/inst/doc/zoo.pdf | 548 +++++----- zoo-1.5-4/zoo/man/aggregate.zoo.Rd | 25 zoo-1.5-4/zoo/man/as.Date.ts.Rd | 4 zoo-1.5-4/zoo/man/plot.zoo.Rd | 38 zoo-1.5-4/zoo/man/read.zoo.Rd | 31 zoo-1.5-4/zoo/man/xyplot.zoo.Rd | 46 zoo-1.5-4/zoo/man/yearmon.Rd | 7 24 files changed, 2202 insertions(+), 1707 deletions(-)
Author: Brian J. Smith
Diff between ramps versions 0.6-4 dated 2008-06-01 and 0.6-5 dated 2008-07-09
Title: Bayesian Geostatistical Modeling with RAMPS
Description: Bayesian geostatistical modeling of Gaussian processes using a reparameterized and marginalized posterior sampling (RAMPS) algorithm designed to lower autocorrelation in MCMC samples. Package performance is tuned for large spatial datasets.
DESCRIPTION | 8 +--
R/DIC.R | 7 +--
R/control.R | 4 +
R/corStruct.R | 42 ++++++++-----------
R/engine.R | 21 +++++----
R/georamps.R | 51 +++++++++++------------
R/mpdensity.R | 110 ++++++++++++++++++++++++++++++++++++++++++++++++---
R/mpdpred.R | 87 +++++++++++++++++++++++++++++++++++++++-
R/predict.R | 87 ++++++++++++++++++++++++----------------
R/utils.R | 29 +++++++++----
man/predict.ramps.Rd | 3 -
11 files changed, 328 insertions(+), 121 deletions(-)
Author: Mark Stevenson
Diff between epiR versions 0.9-6 dated 2008-05-08 and 0.9-8 dated 2008-07-09
Title: Functions for analysing epidemiological data
Description: A package for analysing epidemiological data. Contains functions
for directly and indirectly adjusting measures of disease frequency,
quantifying measures of association on the basis of single or multiple
strata of count data presented in a contingency table, and computing
confidence intervals around incidence risk and incidence rate estimates.
Miscellaneous functions for use in meta-analysis, diagnostic test
interpretation, and sample size calculations.
DESCRIPTION | 6
R/epi.conf.R | 12
doc/epiR.pdf | 2204 ++++++++++++++++++++++++++------------------------------
man/epi.2by2.Rd | 15
4 files changed, 1080 insertions(+), 1157 deletions(-)
Author: Andrew Gelman
Diff between arm versions 1.1-8 dated 2008-06-24 and 1.1-9 dated 2008-07-09
Title: Data Analysis Using Regression and Multilevel/Hierarchical Models
Description: R functions for processing lm, glm, mer and polr outputs.
CHANGELOG | 11 +++++++-
DESCRIPTION | 6 ++--
R/bayesglm.R | 4 ++-
R/coefplot.R | 74 +++++++++++++++++++++++++++++++++++++-------------------
R/se.coef.R | 2 -
R/sim.R | 2 -
man/bayesglm.Rd | 2 -
man/coefplot.Rd | 4 ++-
8 files changed, 71 insertions(+), 34 deletions(-)
Author: Lester Yuan, Tom Stockton, Doug Bronson, Pasha Minallah, and Mark Fitzgerald
Title: Provides a GUI to several statistical methods useful for causal assessment.
Description: Using JGR, provides a GUI to several statistical methods -
scatterplot, boxplot, linear regression, generalized linear regression, quantile,
regression, conditional probability calculations,
and regression trees.
Diff between CADStat versions 2.1-06 dated 2008-07-07 and 2.1-07 dated 2008-07-09
.svn |only DESCRIPTION | 6 +++--- inst/java/cadstat-src.zip |binary inst/java/cadstat.jar |binary 4 files changed, 3 insertions(+), 3 deletions(-)
Author: Nicole Kr\"amer
Diff between ppls versions 1.01 dated 2008-04-15 and 1.02 dated 2008-07-08
Title: Penalized Partial Least Squares
Description: This package contains linear and nonlinear regression methods based on Partial Least Squares and Penalization Techniques.
DESCRIPTION | 10 +++++-----
R/penalized.pls.R | 7 +++++--
R/penalized.pls.cv.R | 20 ++++++++++++++++----
R/penalized.pls.default.R | 26 ++++++++++++--------------
R/penalized.pls.kernel.R | 36 ++++++++++++++++++++++--------------
R/penalized.pls.select.R | 28 +++++++++++++---------------
R/ppls.splines.cv.R | 2 +-
data |only
man/Penalty.matrix.Rd | 13 +++++--------
man/X2s.Rd | 15 ++++++---------
man/cookie.Rd |only
man/new.penalized.pls.Rd | 9 +++------
man/normalize.vector.Rd | 2 +-
man/penalized.pls.Rd | 13 +++++--------
man/penalized.pls.cv.Rd | 14 ++++++--------
man/penalized.pls.default.Rd | 19 ++++++++-----------
man/penalized.pls.kernel.Rd | 15 ++++++---------
man/penalized.pls.select.Rd | 17 +++++++----------
man/ppls-package.Rd | 15 ++++++++-------
man/ppls.splines.cv.Rd | 18 ++++++++----------
man/sim.data.ppls.Rd | 9 +++------
21 files changed, 140 insertions(+), 148 deletions(-)
Author: Alan Genz, Frank Bretz and Torsten Hothorn
with contributions by Tetsuhisa Miwa, Xuefei Mi, Friedrich Leisch
and Fabian Scheipl
Title: Multivariate Normal and t Distributions
Description: Computes multivariate normal and t probabilities, quantiles,
random deviates and densities.
Diff between mvtnorm versions 0.9-1 dated 2008-07-05 and 0.9-2 dated 2008-07-08
CHANGES | 11 +++++++++-- DESCRIPTION | 6 +++--- R/mvnorm.R | 6 +++--- R/mvt.R | 4 ++-- inst/CHANGES | 11 +++++++++-- inst/doc/MVT_Rnews.pdf |binary 6 files changed, 26 insertions(+), 12 deletions(-)
Author: Ben Bolker
Diff between mixstock versions 0.8.4.2 dated 2007-02-11 and 0.9 dated 2008-07-08
Title: functions for mixed stock analysis
Description: mixed stock analysis functions
mixstock-0.8.4.2/mixstock/ChangeLog |only
mixstock-0.8.4.2/mixstock/R/RCS |only
mixstock-0.8.4.2/mixstock/inst/doc/ChangeLog |only
mixstock-0.8.4.2/mixstock/src/RCS |only
mixstock-0.9/mixstock/DESCRIPTION | 6
mixstock-0.9/mixstock/NEWS |only
mixstock-0.9/mixstock/R/mixstock.R | 136 ++-
mixstock-0.9/mixstock/TODO | 3
mixstock-0.9/mixstock/inst/bugs/manymany.bug | 7
mixstock-0.9/mixstock/inst/bugs/manymany.txt | 6
mixstock-0.9/mixstock/inst/doc/Rplots.pdf |only
mixstock-0.9/mixstock/inst/doc/lineno.sty |only
mixstock-0.9/mixstock/inst/doc/mixstock-009.eps | 1072 +++++++++++-------------
mixstock-0.9/mixstock/inst/doc/mixstock-009.pdf | 587 ++++++-------
mixstock-0.9/mixstock/inst/doc/mixstock-013.eps | 658 ++++++--------
mixstock-0.9/mixstock/inst/doc/mixstock-013.pdf | 371 ++++----
mixstock-0.9/mixstock/inst/doc/mixstock-016.eps | 10
mixstock-0.9/mixstock/inst/doc/mixstock-016.pdf | 6
mixstock-0.9/mixstock/inst/doc/mixstock-022.eps | 93 +-
mixstock-0.9/mixstock/inst/doc/mixstock-022.pdf | 119 +-
mixstock-0.9/mixstock/inst/doc/mixstock-027.eps | 10
mixstock-0.9/mixstock/inst/doc/mixstock-027.pdf | 6
mixstock-0.9/mixstock/inst/doc/mixstock-034.eps | 232 ++---
mixstock-0.9/mixstock/inst/doc/mixstock-034.pdf | 152 +--
mixstock-0.9/mixstock/inst/doc/mixstock-041.eps | 389 ++++----
mixstock-0.9/mixstock/inst/doc/mixstock-041.pdf | 458 +++++-----
mixstock-0.9/mixstock/inst/doc/mixstock-042.eps | 482 ++++++----
mixstock-0.9/mixstock/inst/doc/mixstock-042.pdf | 578 +++++++-----
mixstock-0.9/mixstock/inst/doc/mixstock.Rnw | 201 ++--
mixstock-0.9/mixstock/inst/doc/mixstock.aux | 21
mixstock-0.9/mixstock/inst/doc/mixstock.dvi |only
mixstock-0.9/mixstock/inst/doc/mixstock.log | 342 +++----
mixstock-0.9/mixstock/inst/doc/mixstock.pdf |binary
mixstock-0.9/mixstock/inst/doc/mixstock.tex | 201 ++--
mixstock-0.9/mixstock/inst/doc/turtle.bib |only
mixstock-0.9/mixstock/inst/doc/umlboot.RData |binary
mixstock-0.9/mixstock/man/AIC.mixstock.est.Rd | 15
mixstock-0.9/mixstock/man/as.mcmc.bugs.Rd | 2
mixstock-0.9/mixstock/man/as.mixstock.data.Rd | 15
mixstock-0.9/mixstock/man/bolten98.Rd | 2
mixstock-0.9/mixstock/man/calc.GR.Rd | 2
mixstock-0.9/mixstock/man/coef.toptim.Rd | 4
mixstock-0.9/mixstock/man/gibbsC.Rd | 4
mixstock-0.9/mixstock/man/gibbsmat.Rd | 2
mixstock-0.9/mixstock/man/hwdiag.check.Rd | 2
mixstock-0.9/mixstock/man/marknames.Rd | 3
mixstock-0.9/mixstock/man/mm.wbugs.Rd | 12
mixstock-0.9/mixstock/man/plot.mixstock.est.Rd | 32
mixstock-0.9/mixstock/man/pm.wbugs.Rd | 7
mixstock-0.9/mixstock/man/sourcesize.wbugs.Rd | 7
mixstock-0.9/mixstock/man/tmcmc.Rd | 5
51 files changed, 3270 insertions(+), 2990 deletions(-)
Author: Wolfgang Breymann, David Luethi
Title: A package on the generalized hyperbolic distribution and its special cases
Description: This package provides detailed functionality for working with the univariate and multivariate Generalized Hyperbolic distribution and its special cases (Hyperbolic (hyp), Normal Inverse Gaussian (NIG), Variance Gamma (VG), skewed Student-t and Gaussian distribution). Especially, it contains fitting procedures, an AIC-based model selection routine, and functions for the computation of density, quantile, probability, random variates, expected shortfall and some portfolio optimization and plotting routines as well as the likelihood ratio test. In addition, it contains the Generalized Inverse Gaussian distribution.
Diff between ghyp versions 1.2.0 dated 2008-03-07 and 1.3.0 dated 2008-07-08
ghyp-1.2.0/ghyp/R/is.symmetric.t.r |only ghyp-1.2.0/ghyp/inst/doc/ghyp.bib |only ghyp-1.3.0/ghyp/ChangeLog | 26 ghyp-1.3.0/ghyp/DESCRIPTION | 7 ghyp-1.3.0/ghyp/NAMESPACE | 3 ghyp-1.3.0/ghyp/R/ESghyp.r | 4 ghyp-1.3.0/ghyp/R/classes.r | 8 ghyp-1.3.0/ghyp/R/coef.ghyp.r | 36 ghyp-1.3.0/ghyp/R/fit.ghyp.r | 6 ghyp-1.3.0/ghyp/R/fit.ghypmv.r | 61 ghyp-1.3.0/ghyp/R/fit.ghypuv.r | 9 ghyp-1.3.0/ghyp/R/ghyp.fit.info.r | 17 ghyp-1.3.0/ghyp/R/ghyp.omega.r |only ghyp-1.3.0/ghyp/R/ghyp.r | 8 ghyp-1.3.0/ghyp/R/ghypWrapper.r | 29 ghyp-1.3.0/ghyp/R/is.student.t.r |only ghyp-1.3.0/ghyp/R/mle.default.r | 63 ghyp-1.3.0/ghyp/R/pghyp.r | 56 ghyp-1.3.0/ghyp/R/qghyp.r | 6 ghyp-1.3.0/ghyp/R/qqghyp.r | 12 ghyp-1.3.0/ghyp/R/rghyp.r | 4 ghyp-1.3.0/ghyp/R/show.ghyp.r | 16 ghyp-1.3.0/ghyp/inst/doc/Generalized_Hyperbolic_Distribution.Snw | 277 ghyp-1.3.0/ghyp/inst/doc/Generalized_Hyperbolic_Distribution.pdf |40674 ++++------ ghyp-1.3.0/ghyp/inst/doc/ludabib.bib |only ghyp-1.3.0/ghyp/man/fit.ghypmv.Rd | 7 ghyp-1.3.0/ghyp/man/fit.ghypuv.Rd | 14 ghyp-1.3.0/ghyp/man/ghyp-constructors.Rd | 42 ghyp-1.3.0/ghyp/man/ghyp-distribution.Rd | 24 ghyp-1.3.0/ghyp/man/ghyp-get.Rd | 1 ghyp-1.3.0/ghyp/man/ghyp-internal.Rd | 9 ghyp-1.3.0/ghyp/man/ghyp-mle.ghyp-classes.Rd | 5 ghyp-1.3.0/ghyp/man/ghyp-package.Rd | 18 ghyp-1.3.0/ghyp/man/ghyp-risk-performance.Rd |only ghyp-1.3.0/ghyp/man/ghyp.moments.Rd | 2 ghyp-1.3.0/ghyp/man/lik.ratio.test.Rd | 4 ghyp-1.3.0/ghyp/man/qq-ghyp.Rd | 8 ghyp-1.3.0/ghyp/man/smi.stocks.Rd | 2 38 files changed, 20069 insertions(+), 21389 deletions(-)
Author: Virasakdi Chongsuvivatwong
Diff between epicalc versions 2.7.1.0 dated 2008-06-20 and 2.7.1.1 dated 2008-07-08
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.
DESCRIPTION | 6 +++---
R/epicalc.R | 57 ++++++++++++++++++++++++++++++++++++++++-----------------
2 files changed, 43 insertions(+), 20 deletions(-)
Author: Stephen Milborrow
derived from mda:mars by Trevor Hastie and Rob Tibshirani.
Title: Multivariate Adaptive Regression Spline Models
Description: Build regression models using the techniques in Friedman's
papers "Fast MARS" and "Multivariate Adaptive Regression Splines".
(The term "MARS" is copyrighted and thus not used in the name of the package.)
Diff between earth versions 2.0-3 dated 2008-07-05 and 2.0-4 dated 2008-07-08
DESCRIPTION | 4 ++-- NEWS | 3 +++ man/earth.Rd | 13 +++++++------ src/earth.c | 6 +++--- src/tests/test.all.bat | 6 +++--- 5 files changed, 18 insertions(+), 14 deletions(-)
Author: Thibaut Jombart
Diff between adegenet versions 1.1-2 dated 2008-06-02 and 1.2-0 dated 2008-07-08
Title: adegenet: a R package for the multivariate analysis of genetic markers.
Description: Classes and functions for genetic data analysis within the multivariate framework.
adegenet-1.1-2/adegenet/data/microbov.rda |only
adegenet-1.1-2/adegenet/data/nancycats.rda |only
adegenet-1.1-2/adegenet/data/sim2pop.rda |only
adegenet-1.1-2/adegenet/data/spcaIllus.rda |only
adegenet-1.2-0/adegenet/ChangeLog | 15
adegenet-1.2-0/adegenet/DEADJOE | 6
adegenet-1.2-0/adegenet/DESCRIPTION | 8
adegenet-1.2-0/adegenet/R/HWE.R | 3
adegenet-1.2-0/adegenet/R/auxil.R | 29 +
adegenet-1.2-0/adegenet/R/basicMethods.R |only
adegenet-1.2-0/adegenet/R/classes.R | 412 +-----------------------
adegenet-1.2-0/adegenet/R/export.R | 116 +++---
adegenet-1.2-0/adegenet/R/fstat.R | 26 +
adegenet-1.2-0/adegenet/R/genind2genpop.R |only
adegenet-1.2-0/adegenet/R/gstat.randtest.R | 2
adegenet-1.2-0/adegenet/R/hybridize.R | 3
adegenet-1.2-0/adegenet/R/import.R | 181 +++++++---
adegenet-1.2-0/adegenet/R/makefreq.R | 26 +
adegenet-1.2-0/adegenet/R/old2new.R |only
adegenet-1.2-0/adegenet/R/propShared.R | 72 ++--
adegenet-1.2-0/adegenet/R/propTyped.R |only
adegenet-1.2-0/adegenet/R/scale.R |only
adegenet-1.2-0/adegenet/R/setAs.R |only
adegenet-1.2-0/adegenet/R/spca.R | 6
adegenet-1.2-0/adegenet/TODO | 23 -
adegenet-1.2-0/adegenet/data/microbov.RData |only
adegenet-1.2-0/adegenet/data/nancycats.RData |only
adegenet-1.2-0/adegenet/data/sim2pop.RData |only
adegenet-1.2-0/adegenet/data/spcaIllus.RData |only
adegenet-1.2-0/adegenet/man/adegenet.package.Rd | 4
adegenet-1.2-0/adegenet/man/as-methods.Rd |only
adegenet-1.2-0/adegenet/man/as.genind.Rd | 6
adegenet-1.2-0/adegenet/man/df2genind.Rd | 35 +-
adegenet-1.2-0/adegenet/man/genind.Rd | 23 -
adegenet-1.2-0/adegenet/man/genpop.Rd | 14
adegenet-1.2-0/adegenet/man/makefreq.Rd | 5
adegenet-1.2-0/adegenet/man/propTyped.Rd |only
adegenet-1.2-0/adegenet/man/scale.Rd |only
38 files changed, 428 insertions(+), 587 deletions(-)
Author: Holger Froehlich
Diff between GOSim versions 1.1.4.0 dated 2008-07-05 and 1.1.4.1 dated 2008-07-08
Title: Computation of functional similarities between GO terms and gene products; GO enrichement analysis
Description: This package implements several functions useful for
computing similarities between GO terms and gene products based on their GO annotation. Moreover it allows for computing a GO enrichment analysis
DESCRIPTION | 6
R/GOenrichment.R | 5
R/clusterEvaluation.R | 5
R/geneSimilarity.R | 15
inst/doc/GOSim.log | 10
inst/doc/GOSim.pdf | 989 +++++++++++++++++++++++++-------------------------
inst/doc/GOSim.tex | 40 --
7 files changed, 541 insertions(+), 529 deletions(-)
Author: R. H. Baayen
Title: Data sets and functions with "Analyzing Linguistic Data: A practical introduction to statistics".
Description: Data sets exemplifying statistical methods, and some
facilitatory utility functions used in
"Analyzing Linguistic Data: A practical introduction to
statistics using R", Cambridge University Press, 2008.
Diff between languageR versions 0.92 dated 2008-04-29 and 0.94 dated 2008-07-08
languageR-0.92/languageR/languageR.Rcheck |only languageR-0.94/languageR/DESCRIPTION | 10 - languageR-0.94/languageR/NAMESPACE | 2 languageR-0.94/languageR/R/addMCMCci.fnc.R | 4 languageR-0.94/languageR/R/getMCMCintervals.fnc.R | 5 languageR-0.94/languageR/R/plotAll.fnc.R | 46 ++++++-- languageR-0.94/languageR/R/plotLMER.fnc.R | 31 +++-- languageR-0.94/languageR/R/preparePredictor.fnc.R | 15 +- languageR-0.94/languageR/R/pvals.fnc.R | 104 ++----------------- languageR-0.94/languageR/R/simulateLatinsquare.fnc.R | 1 languageR-0.94/languageR/R/simulateQuasif.fnc.R | 1 languageR-0.94/languageR/R/simulateRegression.fnc.R | 1 languageR-0.94/languageR/man/plotAll.fnc.Rd | 4 languageR-0.94/languageR/man/plotLMER.fnc.Rd | 59 ++++++---- languageR-0.94/languageR/man/pvals.fnc.Rd | 3 15 files changed, 124 insertions(+), 162 deletions(-)
Author: Reinhard Furrer, Douglas Nychka and Stephen Sain
Title: Tools for spatial data
Description: Fields is for curve, surface and function
fitting with an emphasis on splines, spatial data and spatial statistics. The
major methods include cubic, robust, and thin plate splines,
multivariate Kriging and Kriging for large data sets. One main feature is any
covariance function implemented in R can be used for spatial prediction.
There are also useful functions for plotting and working with
spatial data as images. This package also contains an implementation of a
sparse matrix methods for large data sets and currently requires the
sparse matrix (spam) package for testing (but not for the standard spatial
functions.) Use help(fields) to get started and for an overview.
Diff between fields versions 4.1 dated 2007-11-29 and 4.3 dated 2008-07-08
fields-4.1/fields/R/gcv.sreg.R |only fields-4.1/fields/R/sreg.R |only fields-4.1/fields/R/sreg.df.to.lambda.R |only fields-4.1/fields/R/sreg.fdf.R |only fields-4.1/fields/R/sreg.fgcv.R |only fields-4.1/fields/R/sreg.fgcv.model.R |only fields-4.1/fields/R/sreg.fgcv.one.R |only fields-4.1/fields/R/sreg.fit.R |only fields-4.1/fields/R/sreg.fs2hat.R |only fields-4.1/fields/R/sreg.trace.R |only fields-4.3/fields/DESCRIPTION | 10 - fields-4.3/fields/INDEX | 9 - fields-4.3/fields/R/BD.R | 5 fields-4.3/fields/R/COR.R | 5 fields-4.3/fields/R/D4transform.image.R | 5 fields-4.3/fields/R/Exponential.R | 5 fields-4.3/fields/R/Krig.Amatrix.R | 9 - fields-4.3/fields/R/Krig.R | 142 ++++++++++------ fields-4.3/fields/R/Krig.check.xY.R | 7 fields-4.3/fields/R/Krig.coef.R | 5 fields-4.3/fields/R/Krig.cor.Y.R | 5 fields-4.3/fields/R/Krig.df.to.lambda.R | 5 fields-4.3/fields/R/Krig.engine.default.R | 5 fields-4.3/fields/R/Krig.engine.fixed.R | 5 fields-4.3/fields/R/Krig.engine.knots.R | 5 fields-4.3/fields/R/Krig.fdf.R | 5 fields-4.3/fields/R/Krig.fgcv.R | 5 fields-4.3/fields/R/Krig.fgcv.model.R | 5 fields-4.3/fields/R/Krig.fgcv.one.R | 5 fields-4.3/fields/R/Krig.find.REML.R | 5 fields-4.3/fields/R/Krig.find.gcvmin.R | 5 fields-4.3/fields/R/Krig.flplike.R | 5 fields-4.3/fields/R/Krig.fs2hat.R | 5 fields-4.3/fields/R/Krig.ftrace.R | 5 fields-4.3/fields/R/Krig.make.W.R | 5 fields-4.3/fields/R/Krig.make.Wi.R | 5 fields-4.3/fields/R/Krig.null.function.R | 5 fields-4.3/fields/R/Krig.parameters.R | 5 fields-4.3/fields/R/Krig.replicates.R | 5 fields-4.3/fields/R/Krig.transform.xY.R | 8 fields-4.3/fields/R/Krig.updateY.R | 5 fields-4.3/fields/R/Krig.which.lambda.R |only fields-4.3/fields/R/Krig.ynew.R | 5 fields-4.3/fields/R/Matern.R | 5 fields-4.3/fields/R/RMprecip.R | 5 fields-4.3/fields/R/SUBSCRIPTING.spatial.design.R | 5 fields-4.3/fields/R/Tps.R | 11 - fields-4.3/fields/R/US.R | 5 fields-4.3/fields/R/W.family.R | 5 fields-4.3/fields/R/WD4.R | 5 fields-4.3/fields/R/WD42d.R | 5 fields-4.3/fields/R/WD42di.R | 5 fields-4.3/fields/R/WD4i.R | 5 fields-4.3/fields/R/WQS.R | 5 fields-4.3/fields/R/WQS.T.R | 5 fields-4.3/fields/R/WQS.basis.R | 5 fields-4.3/fields/R/WQS2d.R | 5 fields-4.3/fields/R/WQS2di.R | 5 fields-4.3/fields/R/WQSdi.R | 5 fields-4.3/fields/R/WQSi.R | 5 fields-4.3/fields/R/WQSi.T.R | 5 fields-4.3/fields/R/Wimage.cov.R | 5 fields-4.3/fields/R/Wimage.info.plot.R | 5 fields-4.3/fields/R/Wimage.sim.R | 5 fields-4.3/fields/R/Wtransform.R | 5 fields-4.3/fields/R/Wtransform.cylinder.family.R | 5 fields-4.3/fields/R/Wtransform.image.R | 5 fields-4.3/fields/R/Wtransform.image.cov.R | 5 fields-4.3/fields/R/add.image.R | 5 fields-4.3/fields/R/arrow.plot.R | 5 fields-4.3/fields/R/as.image.R | 5 fields-4.3/fields/R/as.surface.R | 5 fields-4.3/fields/R/bisection.search.R | 5 fields-4.3/fields/R/bplot.R | 5 fields-4.3/fields/R/bplot.obj.R | 5 fields-4.3/fields/R/bplot.xy.R | 5 fields-4.3/fields/R/cat.matrix.R | 5 fields-4.3/fields/R/cat.to.list.R | 5 fields-4.3/fields/R/ceiling2.R | 5 fields-4.3/fields/R/coef.Krig.R | 5 fields-4.3/fields/R/colorbar.plot.R | 5 fields-4.3/fields/R/conjugate.gradient.R | 5 fields-4.3/fields/R/cover.design.R | 5 fields-4.3/fields/R/describe.R | 5 fields-4.3/fields/R/describe.bplot.R | 5 fields-4.3/fields/R/diag.multiply.R | 5 fields-4.3/fields/R/discretize.image.R | 5 fields-4.3/fields/R/double.exp.R | 5 fields-4.3/fields/R/drape.color.R | 21 ++ fields-4.3/fields/R/drape.plot.R | 5 fields-4.3/fields/R/draw.bplot.R | 5 fields-4.3/fields/R/draw.bplot.obj.R | 5 fields-4.3/fields/R/dyadic.2check.R | 5 fields-4.3/fields/R/dyadic.check.R | 5 fields-4.3/fields/R/evlpoly.R | 5 fields-4.3/fields/R/evlpoly2.R | 5 fields-4.3/fields/R/exp.cov.R | 5 fields-4.3/fields/R/exp.earth.cov.R | 5 fields-4.3/fields/R/exp.image.cov.R | 5 fields-4.3/fields/R/exp.simple.cov.R | 5 fields-4.3/fields/R/fast.1way.R | 5 fields-4.3/fields/R/fields.color.picker.R | 5 fields-4.3/fields/R/fields.convert.grid.R | 5 fields-4.3/fields/R/fields.derivative.poly.R | 5 fields-4.3/fields/R/fields.diagonalize.R | 5 fields-4.3/fields/R/fields.duplicated.matrix.R | 5 fields-4.3/fields/R/fields.mkpoly.R | 5 fields-4.3/fields/R/fields.rdist.near.R | 5 fields-4.3/fields/R/fields.style.R | 5 fields-4.3/fields/R/fields.x.to.grid.R | 5 fields-4.3/fields/R/find.upcross.R | 5 fields-4.3/fields/R/fitted.Krig.R | 5 fields-4.3/fields/R/flame.R | 5 fields-4.3/fields/R/gauss.cov.R | 5 fields-4.3/fields/R/gcv.Krig.R | 5 fields-4.3/fields/R/golden.section.search.R | 5 fields-4.3/fields/R/grey.level.R | 5 fields-4.3/fields/R/image.plot.R | 17 +- fields-4.3/fields/R/image.plot.info.R | 42 ++++ fields-4.3/fields/R/image.plot.plt.R | 5 fields-4.3/fields/R/image.smooth.R | 5 fields-4.3/fields/R/image.smooth.setup.R | 5 fields-4.3/fields/R/image2lz.R | 53 ++++-- fields-4.3/fields/R/in.poly.R | 5 fields-4.3/fields/R/interp.surface.R | 5 fields-4.3/fields/R/interp.surface.grid.R | 5 fields-4.3/fields/R/krig.image.R | 5 fields-4.3/fields/R/krig.image.parameters.R | 5 fields-4.3/fields/R/lonlat2xy.R | 5 fields-4.3/fields/R/mKrig.family.R | 5 fields-4.3/fields/R/make.surface.grid.R | 5 fields-4.3/fields/R/matern.image.cov.R | 5 fields-4.3/fields/R/minimax.crit.R | 5 fields-4.3/fields/R/minitri.R | 5 fields-4.3/fields/R/ozone.R | 5 fields-4.3/fields/R/parse.grid.list.R | 5 fields-4.3/fields/R/periodic.cov.1d.R | 5 fields-4.3/fields/R/periodic.cov.cyl.R | 5 fields-4.3/fields/R/periodic.plane.3d.R | 5 fields-4.3/fields/R/plot.Krig.R | 5 fields-4.3/fields/R/plot.Wimage.R | 5 fields-4.3/fields/R/plot.krig.image.R | 5 fields-4.3/fields/R/plot.sim.krig.image.R | 5 fields-4.3/fields/R/plot.spatial.design.R | 5 fields-4.3/fields/R/plot.sreg.R | 7 fields-4.3/fields/R/plot.surface.R | 5 fields-4.3/fields/R/plot.vgram.matrix.R | 5 fields-4.3/fields/R/poisson.cov.R | 5 fields-4.3/fields/R/poly.image.R |only fields-4.3/fields/R/predict.Krig.R | 5 fields-4.3/fields/R/predict.interp.surface.R | 5 fields-4.3/fields/R/predict.krig.image.R | 5 fields-4.3/fields/R/predict.se.Krig.R | 7 fields-4.3/fields/R/predict.se.R | 5 fields-4.3/fields/R/predict.sreg.R | 7 fields-4.3/fields/R/predict.surface.R | 5 fields-4.3/fields/R/predict.surface.se.R | 5 fields-4.3/fields/R/print.Krig.R | 5 fields-4.3/fields/R/print.krig.image.R | 5 fields-4.3/fields/R/print.qsreg.R | 5 fields-4.3/fields/R/print.spatial.design.R | 5 fields-4.3/fields/R/print.sreg.R | 5 fields-4.3/fields/R/print.summary.Krig.R | 5 fields-4.3/fields/R/print.summary.krig.image.R | 5 fields-4.3/fields/R/print.summary.spatial.design.R | 5 fields-4.3/fields/R/print.summary.sreg.R | 5 fields-4.3/fields/R/qr.q2ty.R | 5 fields-4.3/fields/R/qr.yq2.R | 5 fields-4.3/fields/R/qsreg.family.R | 5 fields-4.3/fields/R/qsreg.trace.R | 5 fields-4.3/fields/R/quilt.plot.R | 7 fields-4.3/fields/R/rad.cov.R | 5 fields-4.3/fields/R/rad.image.cov.R | 5 fields-4.3/fields/R/rad.simple.cov.R | 5 fields-4.3/fields/R/radbas.constant.R | 5 fields-4.3/fields/R/rat.diet.R | 5 fields-4.3/fields/R/rdist.R | 5 fields-4.3/fields/R/rdist.earth.R | 5 fields-4.3/fields/R/replace.args.function.R | 5 fields-4.3/fields/R/residuals.Krig.R | 5 fields-4.3/fields/R/ribbon.plot.R | 5 fields-4.3/fields/R/set.panel.R | 5 fields-4.3/fields/R/sim.Krig.grid.R | 5 fields-4.3/fields/R/sim.Krig.standard.R | 5 fields-4.3/fields/R/sim.krig.image.R | 5 fields-4.3/fields/R/sim.rf.R | 5 fields-4.3/fields/R/smooth.2d.R | 5 fields-4.3/fields/R/spam_2lz.R | 5 fields-4.3/fields/R/splint.R | 5 fields-4.3/fields/R/sreg.family.R |only fields-4.3/fields/R/stationary.cov.R | 5 fields-4.3/fields/R/stationary.image.cov.R | 5 fields-4.3/fields/R/stationary.taper.cov.R | 5 fields-4.3/fields/R/stats.R | 5 fields-4.3/fields/R/stats.bin.R | 5 fields-4.3/fields/R/stats.bplot.R | 5 fields-4.3/fields/R/stats.sim.krig.image.R | 5 fields-4.3/fields/R/summary.Krig.R | 5 fields-4.3/fields/R/summary.gcv.Krig.R | 5 fields-4.3/fields/R/summary.gcv.sreg.R | 5 fields-4.3/fields/R/summary.krig.image.R | 5 fields-4.3/fields/R/summary.ncdf.R | 5 fields-4.3/fields/R/summary.qsreg.R | 5 fields-4.3/fields/R/summary.spatial.design.R | 5 fields-4.3/fields/R/summary.sreg.R | 13 + fields-4.3/fields/R/surface.Krig.R | 5 fields-4.3/fields/R/surface.R | 5 fields-4.3/fields/R/surface.default.R | 5 fields-4.3/fields/R/surface.krig.image.R | 5 fields-4.3/fields/R/surface.surface.R | 5 fields-4.3/fields/R/test.for.zero.R | 5 fields-4.3/fields/R/tim.colors.R | 5 fields-4.3/fields/R/transformx.R | 5 fields-4.3/fields/R/unscale.R | 5 fields-4.3/fields/R/vgram.R | 5 fields-4.3/fields/R/vgram.matrix.R | 5 fields-4.3/fields/R/wendland.family.R | 9 - fields-4.3/fields/R/world.R | 16 + fields-4.3/fields/R/xline.R | 5 fields-4.3/fields/R/yline.R | 5 fields-4.3/fields/R/zzz.R | 5 fields-4.3/fields/data/RCMexample.rda |only fields-4.3/fields/man/BD.Rd | 5 fields-4.3/fields/man/Exponential.Rd | 5 fields-4.3/fields/man/Krig.Amatrix.Rd | 16 + fields-4.3/fields/man/Krig.Rd | 24 ++ fields-4.3/fields/man/Krig.engine.default.Rd | 5 fields-4.3/fields/man/Krig.null.function.Rd | 5 fields-4.3/fields/man/RCMexample.Rd |only fields-4.3/fields/man/RMprecip.Rd | 5 fields-4.3/fields/man/Tps.Rd | 42 ++++ fields-4.3/fields/man/US.Rd | 5 fields-4.3/fields/man/US.dat.Rd | 5 fields-4.3/fields/man/W.info.Rd | 5 fields-4.3/fields/man/Wendland.Rd | 9 - fields-4.3/fields/man/Wimage.cov.Rd | 5 fields-4.3/fields/man/Wimage.info.Rd | 5 fields-4.3/fields/man/Wimage.info.plot.Rd | 5 fields-4.3/fields/man/Wtransform.Rd | 5 fields-4.3/fields/man/add.image.Rd | 5 fields-4.3/fields/man/arrow.plot.Rd | 5 fields-4.3/fields/man/as.image.Rd | 5 fields-4.3/fields/man/as.surface.Rd | 5 fields-4.3/fields/man/bplot.Rd | 5 fields-4.3/fields/man/bplot.xy.Rd | 5 fields-4.3/fields/man/colorbar.plot.Rd | 5 fields-4.3/fields/man/cover.design.Rd | 5 fields-4.3/fields/man/diag_mult.Rd | 5 fields-4.3/fields/man/drape.plot.Rd | 10 - fields-4.3/fields/man/exp.cov.Rd | 5 fields-4.3/fields/man/fields-internal.Rd | 26 +-- fields-4.3/fields/man/fields-stuff.Rd | 5 fields-4.3/fields/man/fields.Rd | 5 fields-4.3/fields/man/fields.hints.Rd | 5 fields-4.3/fields/man/fields.tests.Rd | 5 fields-4.3/fields/man/flame.Rd | 5 fields-4.3/fields/man/gcv.Krig.Rd | 41 +++- fields-4.3/fields/man/grid.list.Rd | 5 fields-4.3/fields/man/image.cov.Rd | 5 fields-4.3/fields/man/image.plot.Rd | 29 ++- fields-4.3/fields/man/image.smooth.Rd | 5 fields-4.3/fields/man/image2lz.Rd | 9 - fields-4.3/fields/man/interp.surface.Rd | 5 fields-4.3/fields/man/krig.image.Rd | 5 fields-4.3/fields/man/lennon.Rd | 5 fields-4.3/fields/man/mKrig.Rd | 5 fields-4.3/fields/man/minitri.Rd | 5 fields-4.3/fields/man/ozone.Rd | 5 fields-4.3/fields/man/ozone2.Rd | 5 fields-4.3/fields/man/plot.Krig.Rd | 5 fields-4.3/fields/man/plot.Wimage.Rd | 5 fields-4.3/fields/man/plot.surface.Rd | 5 fields-4.3/fields/man/poisson.cov.Rd | 5 fields-4.3/fields/man/poly.image.Rd |only fields-4.3/fields/man/predict.Krig.Rd | 5 fields-4.3/fields/man/predict.se.Krig.Rd | 5 fields-4.3/fields/man/predict.se.Rd | 5 fields-4.3/fields/man/predict.surface.Rd | 5 fields-4.3/fields/man/print.Krig.Rd | 5 fields-4.3/fields/man/pushpin.Rd | 17 +- fields-4.3/fields/man/qsreg.Rd | 5 fields-4.3/fields/man/quilt.plot.Rd | 5 fields-4.3/fields/man/rat.diet.Rd | 5 fields-4.3/fields/man/rdist.Rd | 5 fields-4.3/fields/man/rdist.earth.Rd | 5 fields-4.3/fields/man/ribbon.plot.Rd | 5 fields-4.3/fields/man/set.panel.Rd | 5 fields-4.3/fields/man/sim.Krig.Rd | 5 fields-4.3/fields/man/sim.rf.Rd | 5 fields-4.3/fields/man/smooth.2d.Rd | 5 fields-4.3/fields/man/spam2lz.Rd | 5 fields-4.3/fields/man/splint.Rd | 5 fields-4.3/fields/man/sreg.Rd | 160 +++++++++++-------- fields-4.3/fields/man/stats.Rd | 5 fields-4.3/fields/man/stats.bin.Rd | 5 fields-4.3/fields/man/summary.Krig.Rd | 5 fields-4.3/fields/man/summary.ncdf.Rd | 5 fields-4.3/fields/man/surface.Krig.Rd | 5 fields-4.3/fields/man/tim.colors.Rd | 43 ++++- fields-4.3/fields/man/transformx.Rd | 5 fields-4.3/fields/man/vgram.Rd | 5 fields-4.3/fields/man/vgram.matrix.Rd | 5 fields-4.3/fields/man/world.Rd | 27 ++- fields-4.3/fields/man/xline.Rd | 5 fields-4.3/fields/man/yline.Rd | 5 fields-4.3/fields/tests/Krig.Z.test.R | 110 ++++++++++++- fields-4.3/fields/tests/Krig.Z.test.Rout.save | 8 fields-4.3/fields/tests/Krig.se.W.R | 5 fields-4.3/fields/tests/Krig.se.W.Rout.save | 5 fields-4.3/fields/tests/Krig.se.grid.test.R | 5 fields-4.3/fields/tests/Krig.se.grid.test.Rout.save | 5 fields-4.3/fields/tests/Krig.se.test.R | 5 fields-4.3/fields/tests/Krig.se.test.Rout.save | 5 fields-4.3/fields/tests/Krig.test.R | 28 +++ fields-4.3/fields/tests/Krig.test.Rout.save | 5 fields-4.3/fields/tests/Krig.test.W.R | 5 fields-4.3/fields/tests/Krig.test.W.Rout.save | 5 fields-4.3/fields/tests/Wend.test.R | 5 fields-4.3/fields/tests/Wend.test.Rout.save | 5 fields-4.3/fields/tests/derivative.test.R | 5 fields-4.3/fields/tests/derivative.test.Rout.save | 5 fields-4.3/fields/tests/diag.multiply.test.R | 5 fields-4.3/fields/tests/diag.multiply.test.Rout.save | 5 fields-4.3/fields/tests/evlpoly.test.R | 5 fields-4.3/fields/tests/evlpoly.test.Rout.save | 5 fields-4.3/fields/tests/mKrig.test.R | 5 fields-4.3/fields/tests/mKrig.test.Rout.save | 5 fields-4.3/fields/tests/spam.test.R | 5 fields-4.3/fields/tests/spam.test.Rout.save | 5 fields-4.3/fields/tests/sreg.test.R |only fields-4.3/fields/tests/sreg.test.Rout.save |only 331 files changed, 2140 insertions(+), 249 deletions(-)
Author: Greg Snow
Title: Demonstrations for teaching and learning
Description: This package is a set of demonstration functions that can be used in a classroom to demonstrate statistical concepts, or on your own to better understand the concepts or the programming.
Diff between TeachingDemos versions 2.2 dated 2008-04-14 and 2.3 dated 2008-07-08
DESCRIPTION | 10 ++--- NAMESPACE | 6 +-- NEWS | 13 +++++++ R/R2txt.R | 14 ++++---- R/TkApprox.R | 2 + R/TkListView.R |only R/TkSpline.R | 2 + R/cnvrt.coords.R | 24 +++++++------- R/dynIdentify.R | 1 R/fagan.R | 20 +++++++---- R/pairs2.R | 89 ++++++++++++++++++++++++---------------------------- R/run.cor.examp.R | 3 + R/run.cor2.examp.R | 3 + R/run.power.examp.R | 2 + R/tkBrush.R | 1 R/tkexamp.R | 2 + R/updateusr.R |only R/vis.boxcox.R | 1 R/vis.boxcoxu.R | 4 ++ man/R2txt.Rd | 3 + man/TkListView.Rd |only man/col2grey.Rd | 2 - man/pairs2.Rd |only man/tkexamp.Rd | 2 - man/updateusr.Rd |only 25 files changed, 119 insertions(+), 85 deletions(-)
Author: Zahra Montazeri , David R. Bickel
Bundle: empiricalBayes
Contains: HighProbability localFDR
Diff between empiricalBayes versions 2.0 dated 2008-05-07 and 2.1 dated 2008-07-07
empiricalBayes-2.0/empiricalBayes/0402049v1.pdf |only empiricalBayes-2.1/empiricalBayes/DESCRIPTION | 9 +++++---- empiricalBayes-2.1/empiricalBayes/HighProbability/DESCRIPTION.in | 4 +--- empiricalBayes-2.1/empiricalBayes/HighProbability/man/HighProbability.Rd | 3 +-- empiricalBayes-2.1/empiricalBayes/HighProbability/man/HighProbability2.Rd | 3 +-- empiricalBayes-2.1/empiricalBayes/HighProbability/man/alternative.Rd | 5 ++--- empiricalBayes-2.1/empiricalBayes/HighProbability/man/marginal.probability.Rd | 3 +-- empiricalBayes-2.1/empiricalBayes/localFDR/man/empirical1.Rd | 4 ++-- empiricalBayes-2.1/empiricalBayes/localFDR/man/empirical2.Rd | 4 ++-- empiricalBayes-2.1/empiricalBayes/localFDR/man/find.alternative.prob.threshold.Rd | 6 +++--- empiricalBayes-2.1/empiricalBayes/localFDR/man/localFDR1.Rd | 6 +++--- empiricalBayes-2.1/empiricalBayes/localFDR/man/priorFDR.Rd | 6 +++--- 12 files changed, 24 insertions(+), 29 deletions(-)
More information about empiricalBayes at CRAN
Permanent link
Author: Jarek Tuszynski
Diff between caTools versions 1.8 dated 2007-10-09 and 1.9 dated 2008-07-07
Title: Tools: moving window statistics, GIF, Base64, ROC AUC, etc.
Description: Contains several basic utility functions including:
moving (rolling, running) window statistic functions, read/write for GIF
and ENVI binary files, fast calculation of AUC, LogitBoost classifier, base64
encoder/decoder, round-off error free sum and cumsum, etc.
CHANGES | 7 +++++--
DESCRIPTION | 8 ++++----
R/zzz.R | 6 +++---
3 files changed, 12 insertions(+), 9 deletions(-)
Author: Oscar Rueda
Diff between RJaCGH versions 1.5.3 dated 2008-07-05 and 1.5.4 dated 2008-07-07
Title: Reversible Jump MCMC for the analysis of CGH arrays.
Description: Bayesian analysis of CGH microarrays fitting Hidden Markov Chain models.
The selection of the number of states is made via their posterior probability
computed by Reversible Jump Markov Chain Monte Carlo Methods. Also
returns probabilistic common regions for gains/losses.
Changes | 3 +
DESCRIPTION | 6 +--
R/RJaCGH.R | 30 +++++++++---------
README.RJaCGH | 3 +
README.zlib |only
README.zlib.in.RJaCGH | 8 +++-
inst/doc/Implementing_pREC_in_C.pdf |binary
src/nnhl.c | 58 ++++++++++++++++++------------------
8 files changed, 57 insertions(+), 51 deletions(-)
Author: Alexander McNeil for S-Plus original; R port by Scott Ulman
Title: Provides R-language code to examine Quantitative Risk Management concepts
Description: This is a free R-language library designed to accompany the book
Quantitative Risk Management: Concepts, Techniques and Tools by Alexander
J. McNeil, Rudiger Frey and Paul Embrechts. A separate SPlus version can be
downloaded from Alexander McNeil's URL at
http://www.ma.hw.ac.uk/~mcneil/book/QRMlib.html
Diff between QRMlib versions 1.4.2 dated 2007-11-17 and 1.4.3 dated 2008-07-07
DESCRIPTION | 8 R/functionsEVT.R | 19 R/functionsUtility.R | 62 inst/Chap8/S3-Statistics.R | 18 inst/Docs/QRMlib.pdf | 6006 ++++++++++++++++++++---------------------- inst/README.txt | 29 man/0-QRMlib-package.Rd | 10 man/1-BldQRMBookWorkspace.Rd | 14 man/3-ProfileLoadLibrary.Rd | 5 src/gsl/gsl_math.h | 43 src/gsl/gsl_mode.h | 22 src/gsl/gsl_pow_int.h | 53 src/gsl/specfunc/gsl_sf_exp.h | 19 src/gsl/specfunc/gsl_sf_log.h | 22 14 files changed, 3225 insertions(+), 3105 deletions(-)
Author: Jiahui Wang,
Ruben Zamar
Diff between robust versions 0.3-2 dated 2008-07-05 and 0.3-3 dated 2008-07-07
Title: Insightful Robust Library
Description: A package of robust methods.
DESCRIPTION | 14
R/anova.glmRob.q | 2
R/anova.glmRoblist.q | 8
R/anova.lmRob.q | 3
R/covRob.q | 22
R/donostah.q | 52
R/fastcov.q | 5
R/glmRob.cubif.q | 6
R/glmRob.glmdev.q | 2
R/glmRob.mallows.q | 7
R/glmRob.q | 2
R/lmRob.effvy.q | 3
R/lmRob.fit.compute.q | 25
R/lmRob.q | 2
R/lmfmResQQPlot.q | 4
R/lmfmRespVsFittedPlot.q | 2
R/rb.q | 2
R/step.lmRob.q | 4
R/test.lmRob.q | 10
build/robust.build/robust.pbxindex/cdecls.pbxbtree |binary
build/robust.build/robust.pbxindex/decls.pbxbtree |binary
build/robust.build/robust.pbxindex/files.pbxbtree |binary
build/robust.build/robust.pbxindex/imports.pbxbtree |binary
build/robust.build/robust.pbxindex/pbxindex.header |binary
build/robust.build/robust.pbxindex/refs.pbxbtree |binary
build/robust.build/robust.pbxindex/strings.pbxstrings/control |binary
build/robust.build/robust.pbxindex/strings.pbxstrings/strings |binary
build/robust.build/robust.pbxindex/symbols0.pbxsymbols |binary
man/anova.glmRob.Rd | 12
man/donostah.Rd | 8
man/fastcov.Rd | 2
man/undocumented.glmRob.Rd | 2
robust.xcodeproj/konis.mode1v3 | 141 -
robust.xcodeproj/konis.pbxuser | 1213 ++++++----
robust.xcodeproj/project.pbxproj | 6
35 files changed, 1015 insertions(+), 544 deletions(-)
Author: Graham Williams
Diff between rattle versions 2.3.45 dated 2008-07-05 and 2.3.46 dated 2008-07-07
Title: A graphical user interface for data mining in R using GTK
Description: Rattle provides a Gnome (RGtk2) based interface to
R functionality for data mining. The aim is to provide
a simple and intuitive interface that allows a user to quickly
load data from a CSV file (or via ODBC), transform and explore the data,
and build and evaluate models, and export models as PMML (predictive
modelling markup language). All of this with knowing little about R.
All R commands are logged and available for the user, as a tool to
then begin interacting directly with R itself, if so desired. Rattle also
exports a number of utility functions and the graphical user interface does
not need to be run to deploy these.
DESCRIPTION | 6 +-
R/data.R | 23 +++++---
R/rattle.R | 133 +++++++++++++++++++++++++++++++++++++-------------
inst/etc/rattle.glade | 17 ++++--
man/RStat.Rd | 4 +
man/internal.Rd | 102 +++++++++++++++++++-------------------
man/rattle.Rd | 3 -
7 files changed, 187 insertions(+), 101 deletions(-)
Author: Gregoire Pau
Title: HTML Writer - Outputs R objects in HTML format
Description: Easy-to-use and versatile functions to output R objects in HTML format
Diff between hwriter versions 0.91 dated 2008-05-05 and 0.92 dated 2008-07-07
hwriter-0.91/hwriter/data |only hwriter-0.91/hwriter/man/irisimages.Rd |only hwriter-0.92/hwriter/DESCRIPTION | 6 - hwriter-0.92/hwriter/R/example.R | 74 ++++++------- hwriter-0.92/hwriter/R/hwriter.R | 26 ++-- hwriter-0.92/hwriter/R/page.R | 6 - hwriter-0.92/hwriter/R/table.R | 8 - hwriter-0.92/hwriter/build.sh | 9 - hwriter-0.92/hwriter/inst/doc/.nfs000000008f964cb400000104 |only hwriter-0.92/hwriter/inst/doc/hwriter.Rnw | 20 --- hwriter-0.92/hwriter/inst/doc/hwriter.pdf |binary hwriter-0.92/hwriter/inst/images |only hwriter-0.92/hwriter/man/hmakeTag.Rd | 2 hwriter-0.92/hwriter/man/hwrite.Rd | 11 + hwriter-0.92/hwriter/man/hwriteImage.Rd | 7 - hwriter-0.92/hwriter/man/hwriter-package.Rd | 2 hwriter-0.92/hwriter/man/openPage.Rd | 19 ++- 17 files changed, 95 insertions(+), 95 deletions(-)
Author: Korbinian Strimmer.
Title: Estimation and Control of (Local) False Discovery Rates
Description: This package allows to estimate both tail area-based false
discovery rates (Fdr) as well as local false discovery rates (fdr) for a
variety of null models (p-values, z-scores, correlation coefficients,
t-scores). The proportion of null values and the parameters of the null
distribution are adaptively estimated from the data. In addition, the package
contains functions for non-parametric density estimation (Grenander estimator),
for monotone regression (isotonic regression and antitonic regression with weights),
for computing the greatest convex minorant (GCM) and the least concave majorant (LCM),
and for the half-normal and correlation distributions.
Diff between fdrtool versions 1.2.4 dated 2008-03-05 and 1.2.5 dated 2008-07-07
CHANGES | 10 ++++++++++ DESCRIPTION | 8 ++++---- R/censored.fit.R | 13 ++++++++++--- R/nullmodel.R | 6 +++--- R/pval.estimate.eta0.R | 6 +++--- man/fdrtool.Rd | 3 ++- 6 files changed, 32 insertions(+), 14 deletions(-)
Author: Kung-Sik Chan
Title: Time Series Analysis
Description: Contains R functions and datasets detailed in the book
"Time Series Analysis with Applications in R (second edition)" by Jonathan Cryer and Kung-Sik Chan
Diff between TSA versions 0.94 dated 2008-02-12 and 0.96 dated 2008-07-07
DESCRIPTION | 8 +-- R/arima.R | 30 +++++++------- R/arimax.R | 30 +++++++------- R/armasubsets.R | 90 +++++++++++++------------------------------- R/periodogram.R | 20 +++++---- R/plot.Arima.R | 107 +++++++++++++++++++++++++---------------------------- R/season.R | 4 - R/tsdiag.Arima.R | 2 changes |only man/TSA-package.Rd | 4 - man/arima.Rd | 11 +++-- man/arimax.Rd | 9 ++-- man/armasubsets.Rd | 2 man/gBox.Rd | 2 man/plot.Arima.Rd | 42 +++++++++++++++++--- 15 files changed, 180 insertions(+), 181 deletions(-)
Author: Madeleine Cule, Robert Gramacy, Richard Samworth
Title: Maximum likelihood estimation of a log-concave density
Description: Computes the maximum likelihood estimator from an i.i.d. sample of data from a log-concave density in any number of dimensions. Plots are available for 1- and 2-d data.
Diff between LogConcDEAD versions 1.1-2 dated 2008-06-19 and 1.2-0 dated 2008-07-07
LogConcDEAD-1.1-2/LogConcDEAD/.cvsignore |only LogConcDEAD-1.2-0/LogConcDEAD/ChangeLog | 6 LogConcDEAD-1.2-0/LogConcDEAD/DESCRIPTION | 8 LogConcDEAD-1.2-0/LogConcDEAD/R/lcd.eval.R | 145 ++--------- LogConcDEAD-1.2-0/LogConcDEAD/R/lcd.getweights.R |only LogConcDEAD-1.2-0/LogConcDEAD/R/lcd.interp.R | 2 LogConcDEAD-1.2-0/LogConcDEAD/R/lcd.marg.R |only LogConcDEAD-1.2-0/LogConcDEAD/R/lcd.mle.R | 25 + LogConcDEAD-1.2-0/LogConcDEAD/R/lcd.sample.R | 2 LogConcDEAD-1.2-0/LogConcDEAD/R/plot.LogConcDEAD.R | 178 +++++++------- LogConcDEAD-1.2-0/LogConcDEAD/R/print.LogConcDEAD.R | 13 - LogConcDEAD-1.2-0/LogConcDEAD/man/LogConcDEAD-internal.Rd | 15 - LogConcDEAD-1.2-0/LogConcDEAD/man/lcd.eval.Rd | 8 LogConcDEAD-1.2-0/LogConcDEAD/man/lcd.getweights.Rd |only LogConcDEAD-1.2-0/LogConcDEAD/man/lcd.interp.Rd | 8 LogConcDEAD-1.2-0/LogConcDEAD/man/lcd.marg.Rd | 31 +- LogConcDEAD-1.2-0/LogConcDEAD/man/lcd.marg.eval.Rd |only LogConcDEAD-1.2-0/LogConcDEAD/man/lcd.mle.Rd | 5 LogConcDEAD-1.2-0/LogConcDEAD/man/plot.LogConcDEAD.Rd | 12 LogConcDEAD-1.2-0/LogConcDEAD/src/solvoptweights.c | 6 20 files changed, 203 insertions(+), 261 deletions(-)
Author: Felix Wittmann
Diff between HFWutils versions 0.9.2008.05.17 dated 2008-05-19 and 0.9.1.2008.05.28 dated 2008-07-06
Title: csv import, csv export, garbage collection,string matching and passing by reference
Description: package containing functions for convenient csv import and export with a view of using R as a calculation back end to spreadsheet-like programs such as scalc in open office; string matching and passing by reference
HFWutils-0.9.1.2008.05.28/HFWutils/DESCRIPTION | 6 ++--
HFWutils-0.9.1.2008.05.28/HFWutils/NAMESPACE | 4 +-
HFWutils-0.9.1.2008.05.28/HFWutils/R/doReplace.r | 2 -
HFWutils-0.9.1.2008.05.28/HFWutils/R/export.R2X.Files.r |only
HFWutils-0.9.1.2008.05.28/HFWutils/R/import.X2R.Files.r |only
HFWutils-0.9.1.2008.05.28/HFWutils/R/largeDataframe.r | 9 +++---
HFWutils-0.9.1.2008.05.28/HFWutils/R/read.write.csv.r | 18 ++++++-------
HFWutils-0.9.1.2008.05.28/HFWutils/man/Matches.Rd | 2 -
HFWutils-0.9.1.2008.05.28/HFWutils/man/doReplace.Rd | 5 ---
HFWutils-0.9.1.2008.05.28/HFWutils/man/export.R2X.Files.Rd |only
HFWutils-0.9.1.2008.05.28/HFWutils/man/extractFromList.Rd | 5 ---
HFWutils-0.9.1.2008.05.28/HFWutils/man/import.X2R.Files.Rd |only
HFWutils-0.9.2008.05.17/HFWutils/R/export_R2X_Files.r |only
HFWutils-0.9.2008.05.17/HFWutils/R/import_X2R_Files.r |only
HFWutils-0.9.2008.05.17/HFWutils/chm |only
HFWutils-0.9.2008.05.17/HFWutils/man/export_R2X_Files.Rd |only
HFWutils-0.9.2008.05.17/HFWutils/man/import_X2R_Files.Rd |only
17 files changed, 23 insertions(+), 28 deletions(-)
Author: Domingo Vargas
Title: Tools for the study of scale free and small world networks
Description: Provides a set of functions designed to help in the study of scale free and small world networks. This functions are high level abstractions of the functions provided by the Igraph package.
Diff between netmodels versions 0.1 dated 2008-03-30 and 0.2 dated 2008-07-05
._DESCRIPTION |only DESCRIPTION | 6 +++--- R/netmodels-internal.R |only R/node.removal.degree.R |only data/test.net.rda |binary man/._calc.alpha.Rd |only man/._calc.c.Rd |only man/._dist.power.law.Rd |only man/._do.base.description.Rd |only man/._do.degree.description.Rd |only man/._do.links.description.Rd |only man/._do.small.world.Rd |only man/._netmodels-package.Rd |only man/._node.removal.apl.l.Rd |only man/._node.removal.apl.n.Rd |only man/._node.removal.apl.r.Rd |only man/._node.removal.apl.s.Rd |only man/._node.removal.cls.0.Rd |only man/._node.removal.cls.l.Rd |only man/._node.removal.cls.n.Rd |only man/._node.removal.cls.r.Rd |only man/._node.removal.cls.s.Rd |only man/._node.removal.degree.Rd |only man/._node.trim.Rd |only man/._plot.c.degree.Rd |only man/._plot.degree.Rd |only man/._test.net.Rd |only man/netmodels-package.Rd | 2 +- man/node.removal.degree.Rd |only 29 files changed, 4 insertions(+), 4 deletions(-)
Author: Julian Taylor
Diff between wgaim versions 0.1-0 dated 2008-06-24 and 0.1-1 dated 2008-07-05
Title: Whole Genome Average Interval Mapping for QTL detection using mixed models
Description: This package integrates sophisticated mixed modelling methods with a whole genome approach to detecting significant QTL's in linkage maps.
DESCRIPTION | 4 ++--
R/wgaim.R | 31 +++++++++++++++++++------------
man/raccas.Rd | 4 ++--
man/read.interval.Rd | 14 +++++++-------
man/wgaim-package.Rd | 2 +-
man/wgaim.asreml.Rd | 1 -
man/wmerge.Rd | 5 +----
7 files changed, 32 insertions(+), 29 deletions(-)
Author: Nicholas Vinen
Title: Uncompress
Description: This R Add-On provides the function uncompress(raw) for
decompressing .Z files. It returns the decompressed data as a raw
(binary) string. The compressed data is passed in in the same format. It
returns NULL if the input data is invalid.
Diff between uncompress versions 1.21 dated 2008-06-09 and 1.3 dated 2008-07-05
DESCRIPTION | 4 +- R/zzz.R | 7 +++ man/rawToLines.Rd |only man/uncompress.Rd | 10 ++--- man/uncompressToLines.Rd |only src/uncompress.c | 90 +++++++++++++++++++++++++++++++++++++++++++---- 6 files changed, 97 insertions(+), 14 deletions(-)
Author: Roger Bivand
Title: Interface between GRASS 6 geographical information system and R
Description: Interpreted interface between GRASS 6 geographical
information system and R, based on starting R from within the GRASS
environment.
Diff between spgrass6 versions 0.5-9 dated 2008-06-08 and 0.5-10 dated 2008-07-05
ChangeLog | 18 +++++++++++++++ DESCRIPTION | 6 ++--- R/bin_link.R | 28 ++++++++++++++++++++++- R/vect_link.R | 2 - R/zzz.R | 66 +++++++++++++++++++++++++++---------------------------- inst/ChangeLog | 18 +++++++++++++++ man/readRAST6.Rd | 4 +-- man/readVECT6.Rd | 8 +++--- man/spgrass6.Rd | 6 ++--- 9 files changed, 109 insertions(+), 47 deletions(-)
Author: Roger Bivand
Diff between spdep versions 0.4-21 dated 2008-05-16 and 0.4-24 dated 2008-07-05
Title: Spatial dependence: weighting schemes, statistics and models
Description: A collection of functions to create spatial weights matrix
objects from polygon contiguities, from point patterns by distance and
tesselations, for summarising these objects, and for permitting their
use in spatial data analysis; a collection of tests for spatial
autocorrelation, including global Moran's I, Geary's C, Hubert/Mantel
general cross product statistic, Empirical Bayes estimates and Assunçăo/Reis
Index, Getis/Ord G and multicoloured join count statistics,
local Moran's I and Getis/Ord G, saddlepoint approximations and exact
tests for global and local Moran's I; and functions for estimating
spatial simultaneous autoregressive (SAR) lag and error models,
weighted and unweighted SAR and CAR spatial regression models,
semi-parametric and Moran eigenvector spatial filtering, GM SAR error
models, and generalized spatial two stage least squares models.
ChangeLog | 46 ++++++++++++++++++++++++++++
DESCRIPTION | 6 +--
R/EBI.R | 3 +
R/droplinks.R | 5 +--
R/edit.nb.R | 11 ++++--
R/error.spsarlm.R | 4 +-
R/kpgm_new.R | 4 +-
R/lag.spsarlm.R | 4 +-
R/listw2Matrix.R | 3 +
R/listw2sn.R | 2 +
R/localmoran.exact.R | 9 +++--
R/moran.exact.R | 49 +++++++++++++++++++++---------
R/moran.exact.alt.R | 13 ++++----
R/mtlocalmoran.R | 3 +
R/nb2listw.R | 74 +++++++++++++++++++++++++++++++++++++++++++++-
R/p.adjustSP.R | 3 +
R/read.gal.R | 3 +
R/spautolm.R | 4 +-
R/subset.nb.R | 5 +--
inst/ChangeLog | 46 ++++++++++++++++++++++++++++
inst/doc/sids.pdf |binary
log_notes |only
man/SpatialFiltering.Rd | 2 -
man/lm.morantest.exact.Rd | 6 +++
man/localmoran.exact.Rd | 9 ++++-
25 files changed, 265 insertions(+), 49 deletions(-)
Author: Edzer J. Pebesma
Diff between sp versions 0.9-25 dated 2008-04-08 and 0.9-26 dated 2008-07-05
Title: classes and methods for spatial data
Description: A package that provides classes and methods for spatial
data. The classes document where the spatial location information
resides, for 2D or 3D data. Utility functions are provided, e.g. for
plotting data as maps, spatial selection, as well as methods for
retrieving coordinates, for subsetting, print, summary, etc.
sp-0.9-25/sp/S |only
sp-0.9-26/sp/ChangeLog | 67
sp-0.9-26/sp/DESCRIPTION | 6
sp-0.9-26/sp/NAMESPACE | 3
sp-0.9-26/sp/R/GridTopology-methods.R | 37
sp-0.9-26/sp/R/image.R | 15
sp-0.9-26/sp/inst/ChangeLog | 67
sp-0.9-26/sp/inst/doc/sp.pdf | 3631 ++++++++++++++++------------------
sp-0.9-26/sp/man/SpatialGrid.Rd | 30
9 files changed, 2014 insertions(+), 1842 deletions(-)
Author: Jochen Knaus
Title: Easier cluster computing (based on snow).
Description: Toplevel wrapper around snow for easier development of
parallel R programs.
All functions work in sequential mode, too, if no cluster is present.
Package is also designed as connector to the cluster management tool
sfCluster, but can also used without it.
Diff between snowfall versions 1.51 dated 2008-06-19 and 1.52 dated 2008-07-05
DESCRIPTION | 8 ++++---- R/init.R | 15 +++++++++------ R/sysdata.rda |binary inst/doc/snowfall.pdf |binary man/snowfall-e-data.Rd | 2 ++ 5 files changed, 15 insertions(+), 10 deletions(-)
Author: Thomas Petzoldt
Title: Simulation of ecological (and other) dynamic systems
Description: Object oriented framework to simulate ecological (and other) dynamic systems
Diff between simecol versions 0.5-5 dated 2008-04-08 and 0.5-7 dated 2008-07-05
simecol-0.5-5/simecol/R/euler.R |only simecol-0.5-5/simecol/man/euler.Rd |only simecol-0.5-7/simecol/DESCRIPTION | 8 ++++---- simecol-0.5-7/simecol/NAMESPACE | 8 ++++---- simecol-0.5-7/simecol/R/aaa_classes.R | 3 ++- simecol-0.5-7/simecol/R/accessors.R | 10 ++++++++++ simecol-0.5-7/simecol/R/iteration.R | 5 ----- simecol-0.5-7/simecol/R/sim.R | 18 ------------------ simecol-0.5-7/simecol/data/lv.rda |binary simecol-0.5-7/simecol/data/lv3.rda |binary simecol-0.5-7/simecol/inst/NEWS | 12 ++++++++++++ simecol-0.5-7/simecol/inst/ToDo.txt |only simecol-0.5-7/simecol/inst/doc |only simecol-0.5-7/simecol/inst/examples/logist.R | 2 +- simecol-0.5-7/simecol/inst/examples/lv.R | 2 +- simecol-0.5-7/simecol/inst/examples/lv3.R | 2 +- simecol-0.5-7/simecol/man/fitOdeModel.Rd | 2 +- simecol-0.5-7/simecol/man/iteration.Rd | 2 +- simecol-0.5-7/simecol/man/listOrNULL.Rd | 5 +++-- simecol-0.5-7/simecol/man/lv3.Rd | 3 ++- simecol-0.5-7/simecol/man/parms.Rd | 2 +- simecol-0.5-7/simecol/man/simecol-package.Rd | 18 ++++++++++-------- simecol-0.5-7/simecol/man/ssqOdeModel.Rd | 2 +- simecol-0.5-7/simecol/work/compiledModel |only 24 files changed, 54 insertions(+), 50 deletions(-)
Author: Jeff Wang
Diff between robust versions 0.3-0 dated 2007-03-09 and 0.3-2 dated 2008-07-05
Title: Insightful Robust Library
Description: A package of robust methods.
robust-0.3-0/robust/R/fastmcd.q |only
robust-0.3-0/robust/R/rockem.q |only
robust-0.3-0/robust/man/fastmcd.Rd |only
robust-0.3-0/robust/man/rockem.Rd |only
robust-0.3-0/robust/src/fastmcd.f |only
robust-0.3-0/robust/src/regar.f |only
robust-0.3-0/robust/src/rocovm.f |only
robust-0.3-0/robust/src/sfastmcd.c |only
robust-0.3-2/robust/DESCRIPTION | 6 -
robust-0.3-2/robust/R/covRob.control.q | 77 ++++++++++----
robust-0.3-2/robust/R/covRob.q | 155 +++++++++++++++++-------------
robust-0.3-2/robust/R/glmRob.mallows.q | 3
robust-0.3-2/robust/README | 2
robust-0.3-2/robust/allfuns.SSC |only
robust-0.3-2/robust/build |only
robust-0.3-2/robust/man/anova.glmRob.Rd | 12 +-
robust-0.3-2/robust/man/anova.lmRob.Rd | 2
robust-0.3-2/robust/man/covRob.Rd | 79 +++++++++------
robust-0.3-2/robust/man/covRob.control.Rd | 2
robust-0.3-2/robust/man/plot.glmfm.Rd | 2
robust-0.3-2/robust/man/predict.glmRob.Rd | 2
robust-0.3-2/robust/robust.xcodeproj |only
22 files changed, 211 insertions(+), 131 deletions(-)
Author: Graham Williams
Diff between rattle versions 2.3.8 dated 2008-04-14 and 2.3.45 dated 2008-07-05
Title: A graphical user interface for data mining in R using GTK
Description: Rattle provides a Gnome (RGtk2) based interface to
R functionality for data mining. The aim is to provide
a simple and intuitive interface that allows a user to quickly
load data from a CSV file (or via ODBC), transform and explore the data,
and build and evaluate models, and export models as PMML (predictive
modelling markup language). All of this with knowing little about R.
All R commands are logged and available for the user, as a tool to
then begin interacting directly with R itself, if so desired. Rattle also
exports a number of utility functions and the graphical user interface does
not need to be run to deploy these.
rattle-2.3.45/rattle/DESCRIPTION | 6
rattle-2.3.45/rattle/NAMESPACE | 1
rattle-2.3.45/rattle/R/ada.R | 42
rattle-2.3.45/rattle/R/ada_gui.R | 54
rattle-2.3.45/rattle/R/associate.R | 222 -
rattle-2.3.45/rattle/R/cluster.R | 217 -
rattle-2.3.45/rattle/R/data.R |only
rattle-2.3.45/rattle/R/execute.R | 25
rattle-2.3.45/rattle/R/export.R | 23
rattle-2.3.45/rattle/R/log.R | 69
rattle-2.3.45/rattle/R/model.R | 344 +-
rattle-2.3.45/rattle/R/nnet.R | 197 -
rattle-2.3.45/rattle/R/projects.R | 91
rattle-2.3.45/rattle/R/random_forest.R | 107
rattle-2.3.45/rattle/R/rattle.R | 4659 ++++++++--------------------
rattle-2.3.45/rattle/R/rpart.R | 113
rattle-2.3.45/rattle/R/textview.R | 31
rattle-2.3.45/rattle/R/zzz.R | 27
rattle-2.3.45/rattle/data/audit.RData |binary
rattle-2.3.45/rattle/inst/csv/dvdtrans.csv | 2
rattle-2.3.45/rattle/inst/etc/rattle.glade | 1731 +++-------
rattle-2.3.45/rattle/man/RStat.Rd |only
rattle-2.3.45/rattle/man/genPlotTitleCmd.Rd | 8
rattle-2.3.45/rattle/man/internal.Rd | 11
rattle-2.3.45/rattle/man/rattle.Rd | 22
rattle-2.3.8/rattle/R/paradigm.R |only
26 files changed, 3134 insertions(+), 4868 deletions(-)
Author: Tarn Duong
Diff between prim versions 1.0.4 dated 2007-09-07 and 1.0.5 dated 2008-07-05
Title: Patient Rule Induction Method (PRIM)
Description: PRIM for bump hunting in high-dimensional data
prim-1.0.4/prim/R/prim.thresh.R |only
prim-1.0.4/prim/R/zzz.R |only
prim-1.0.5/prim/DESCRIPTION | 9 -
prim-1.0.5/prim/NAMESPACE | 24 ----
prim-1.0.5/prim/R/boxfun.R | 7 -
prim-1.0.5/prim/R/prim.R | 15 +-
prim-1.0.5/prim/inst/doc/Rplots.ps | 208 +++++++++++++++++------------------
prim-1.0.5/prim/inst/doc/prim-2d.Rnw | 2
prim-1.0.5/prim/inst/doc/prim-2d.log | 197 ++++++++++++++++++++++-----------
prim-1.0.5/prim/inst/doc/prim-2d.pdf |binary
prim-1.0.5/prim/inst/doc/prim-2d.tex | 4
prim-1.0.5/prim/inst/doc/prim-3d.Rnw | 2
prim-1.0.5/prim/inst/doc/prim-3d.log | 191 ++++++++++++++++++++++----------
prim-1.0.5/prim/inst/doc/prim-3d.pdf |binary
prim-1.0.5/prim/inst/doc/prim-3d.tex | 4
prim-1.0.5/prim/man/prim-internal.Rd | 5
16 files changed, 401 insertions(+), 267 deletions(-)
Author: Graham Williams, Michael Hahsler (arules), Zementis Inc,
Hemant Ishwaran, Udaya B. Kogalur, Rajarshi Guha
Title: Generate PMML for various models
Description: The Predictive Modelling Markup Language (PMML) is a language
for representing models, in an application independent way. Such models
can then be loaded into other applications supporting PMML, including
ADAPA from Zementis, Teradata Warehouse Miner and IBM's DB2.
The package provides a generic pmml function to generate pmml for an
object. Using a S3 generic function the approriate method for the
class of the supplied object is dispatched.
The package currently supports the export of PMML for linear
regression, SVMs, rpart classification trees,
randomSurvivalForest forest models, and kmeans clusters.
This package is part of the Rattle toolkit.
Diff between pmml versions 1.1.7 dated 2008-04-22 and 1.1.9 dated 2008-07-05
DESCRIPTION | 6 NAMESPACE | 1 R/pmml.R | 2714 +++----------------------------------------------- R/pmml.arules.R | 55 - R/pmml.kmeans.R |only R/pmml.ksvm.R |only R/pmml.lm.R |only R/pmml.nnet.R |only R/pmml.randomForest.R |only R/pmml.rpart.R |only R/pmml.rsf.R |only man/pmml.ksvm.Rd | 149 +- man/pmml.lm.Rd | 13 man/pmml.nnet.Rd | 2 man/pmml.rpart.Rd | 1 15 files changed, 344 insertions(+), 2597 deletions(-)
Author: Felix Andrews
Diff between playwith versions 0.8-56 dated 2008-06-23 and 0.9-3 dated 2008-07-05
Title: A GUI for interactive plots using GTK+
Description: A graphical user interface for viewing and interacting with R plots.
It tries to work out the structure of a plot, in order to interact with it.
The built-in features include: zooming the data space, identifying data points,
editing and annotating the plot, and saving to a file. New tools can be defined.
This package is based on RGtk2, and so requires the GTK+ libraries.
playwith-0.8-56/playwith/man/plotadd.Rd |only
playwith-0.9-3/playwith/DESCRIPTION | 13 -
playwith-0.9-3/playwith/NAMESPACE | 85 +++---
playwith-0.9-3/playwith/R/API.R | 159 +++++++++---
playwith-0.9-3/playwith/R/playTools.R | 43 ---
playwith-0.9-3/playwith/R/playTools_annotate.R | 54 ++--
playwith-0.9-3/playwith/R/playTools_arrow.R | 12
playwith-0.9-3/playwith/R/playTools_clear.R | 13 -
playwith-0.9-3/playwith/R/playTools_coords.R | 5
playwith-0.9-3/playwith/R/playTools_edit.annotations.R | 1
playwith-0.9-3/playwith/R/playTools_edit.call.R | 10
playwith-0.9-3/playwith/R/playTools_expand.R | 2
playwith-0.9-3/playwith/R/playTools_identify.R | 136 ++++++++--
playwith-0.9-3/playwith/R/playTools_options.R | 15 +
playwith-0.9-3/playwith/R/playTools_time.mode.R | 22 +
playwith-0.9-3/playwith/R/playTools_undo.annotation.R |only
playwith-0.9-3/playwith/R/playTools_zero.R | 12
playwith-0.9-3/playwith/R/playTools_zoom.R | 9
playwith-0.9-3/playwith/R/playwith.R | 212 ++++++++++-------
playwith-0.9-3/playwith/R/settings.R |only
playwith-0.9-3/playwith/R/zzz.R |only
playwith-0.9-3/playwith/inst/NEWS | 64 ++++-
playwith-0.9-3/playwith/man/autoplay.Rd | 26 +-
playwith-0.9-3/playwith/man/parameterControlTool.Rd | 4
playwith-0.9-3/playwith/man/playDev.Rd | 2
playwith-0.9-3/playwith/man/playGetIDs.Rd |only
playwith-0.9-3/playwith/man/playTools.Rd | 15 -
playwith-0.9-3/playwith/man/playwith.API.Rd | 2
playwith-0.9-3/playwith/man/playwith.Rd | 100 +++++---
playwith-0.9-3/playwith/man/playwith.options.Rd |only
30 files changed, 658 insertions(+), 358 deletions(-)
Author: Ben B. Hansen
Diff between optmatch versions 0.4-0 dated 2008-05-20 and 0.4-1 dated 2008-07-05
Title: Functions for optimal matching
Description: Functions to perform optimal matching, particularly full matching
DESCRIPTION | 6 +--
R/moremethods.optmatch.R | 4 +-
R/stratumStructure.R | 5 --
ToDo | 2 -
inst/doc/optmatch.pdf |binary
tests/moremethods.optmatch-tests.R | 10 +++++
tests/moremethods.optmatch-tests.Rout.save | 56 ++++++++++++++++++++---------
7 files changed, 55 insertions(+), 28 deletions(-)
Author: Alan Genz, Frank Bretz and Torsten Hothorn
with contributions by Tetsuhisa Miwa, Xuefei Mi, Friedrich Leisch
and Fabian Scheipl
Title: Multivariate Normal and t Distributions
Description: Computes multivariate normal and t probabilities, quantiles,
random deviates and densities.
Diff between mvtnorm versions 0.9-0 dated 2008-04-01 and 0.9-1 dated 2008-07-05
CHANGES | 8 +++++++- DESCRIPTION | 6 +++--- R/mvnorm.R | 10 +++++----- R/mvt.R | 6 +++--- inst/CHANGES |only inst/doc/MVT_Rnews.pdf |binary src/mvt.f | 2 +- src/randomF77.c | 2 +- 8 files changed, 20 insertions(+), 14 deletions(-)
Author: Torsten Hothorn, Frank Bretz and Peter Westfall with
contributions by Richard M. Heiberger
Title: Simultaneous Inference in General Parametric Models
Description: Simultaneous tests and confidence intervals
for general linear hypotheses in parametric models, including
linear, generalized linear, linear mixed effects, and survival models.
Diff between multcomp versions 1.0-0 dated 2008-04-01 and 1.0-2 dated 2008-07-05
multcomp-1.0-0/multcomp/inst/MCMT/Rplots.ps |only multcomp-1.0-0/multcomp/inst/deprecated/NAMESPACE |only multcomp-1.0-0/multcomp/tests/regtest-anova.Rout.save |only multcomp-1.0-0/multcomp/tests/regtest-lme.Rout.save |only multcomp-1.0-2/multcomp/CHANGES | 16 multcomp-1.0-2/multcomp/DESCRIPTION | 8 multcomp-1.0-2/multcomp/R/contrMat.R | 6 multcomp-1.0-2/multcomp/R/expressions.R | 2 multcomp-1.0-2/multcomp/R/glht.R | 2 multcomp-1.0-2/multcomp/R/helpers.R | 104 multcomp-1.0-2/multcomp/R/maxsets.R | 3 multcomp-1.0-2/multcomp/R/mcp.R | 2 multcomp-1.0-2/multcomp/R/methods.R | 2 multcomp-1.0-2/multcomp/R/parm.R | 2 multcomp-1.0-2/multcomp/R/plot.R | 2 multcomp-1.0-2/multcomp/R/pqfunctions.R | 16 multcomp-1.0-2/multcomp/R/print.R | 6 multcomp-1.0-2/multcomp/inst/CHANGES |only multcomp-1.0-2/multcomp/inst/CITATION |only multcomp-1.0-2/multcomp/inst/applications |only multcomp-1.0-2/multcomp/inst/doc/.build.timestamp |only multcomp-1.0-2/multcomp/inst/doc/Rplots.ps |only multcomp-1.0-2/multcomp/inst/doc/generalsiminf.Rnw | 2 multcomp-1.0-2/multcomp/inst/doc/generalsiminf.pdf | 1222 +++++------ multcomp-1.0-2/multcomp/inst/doc/multcomp-examples.pdf |binary multcomp-1.0-2/multcomp/inst/svn-commit.tmp |only multcomp-1.0-2/multcomp/tests/Examples/multcomp-Ex.Rout.save | 34 multcomp-1.0-2/multcomp/tests/codetools-checks.Rout.save | 4 multcomp-1.0-2/multcomp/tests/regtest-lme.R | 21 29 files changed, 680 insertions(+), 774 deletions(-)
Author: David Rossell
Diff between mombf versions 1.0.0 dated 2008-04-24 and 1.0.2 dated 2008-07-05
Title: Moment and Inverse Moment Bayes factors
Description: This package computes Moment and Inverse Moment Bayes factors for linear models, and approximate Bayes factors for GLM and situations having a statistic which is asymptotically normally distributed and sufficient. Routines to evaluate prior densities, distribution functions, quantiles and modes are included.
ChangeLog | 6 +
DESCRIPTION | 4
R/dmom.r | 20 ++--
R/momknown.r | 2
R/momunknown.r | 2
inst/doc/makefile | 2
inst/doc/mombf.pdf | 256 ++++++++++++++++++++++++++---------------------------
7 files changed, 148 insertions(+), 144 deletions(-)
Author: Patrick Mair, Marcus Hudec
Title: Mixtures of proportional hazard models.
Description: This package fits multiple variable mixtures of various parametric proportional hazard models using the EM-Algorithm. Proportionality restrictions can be imposed on the latent groups and/or on the variables. Several survival distributions can be specified. Missing values are allowed. Independence is assumed over the single variables.
Diff between mixPHM versions 0.6.0 dated 2008-05-26 and 0.6.2 dated 2008-07-05
DESCRIPTION | 6 +++--- R/Eclass.R | 14 ++++++++------ R/Mclass.R | 3 +-- R/phmclust.R | 6 ++++-- R/s.check.R | 15 +++++++++++---- man/mixPHM-package.Rd | 10 +++++----- man/phmclust.Rd | 11 +++++------ 7 files changed, 37 insertions(+), 28 deletions(-)
Author: Nicholas J. Lewin-Koh and Roger Bivand, contributions by Edzer J. Pebesma, Eric Archer, Stéphane Dray, David Forrest, Patrick Giraudoux, Duncan Golicher, Virgilio Gómez Rubio, Patrick Hausmann, Thomas Jagger, Sebastian P. Luque, Don MacQueen, Andrew Niccolai and Tom Short
Title: Tools for reading and handling spatial objects
Description: Set of tools for manipulating and reading geographic data, in particular ESRI shapefiles; C code used from shapelib. It includes binary access to GSHHS shoreline files. The package also provides interface wrappers for exchanging spatial objects with packages such as PBSmapping, spatstat, maps, RArcInfo, Stata tmap, WinBUGS, Mondrian, and others.
Diff between maptools versions 0.7-13 dated 2008-05-25 and 0.7-14 dated 2008-07-05
ChangeLog | 16 ++++++++++++++++ DESCRIPTION | 6 +++--- INDEX | 1 + NAMESPACE | 2 ++ R/Spatial-methods.R |only R/SpatialLines-methods.R | 8 +++++--- R/SpatialPoints-methods.R | 9 +++++---- R/SpatialPolys-methods.R | 6 ++++-- R/maptools.R | 5 +++++ R/pcent.R | 1 + R/readGPS.R | 7 ++++--- R/shapelib.R | 4 ++++ R/sp2pbs.R | 11 ++++++++--- R/subset.R | 1 + inst/ChangeLog | 16 ++++++++++++++++ inst/changes | 1 + man/readShapePoly.Rd | 2 +- man/readShapeSpatial.Rd |only 18 files changed, 77 insertions(+), 19 deletions(-)
Author: Tarn Duong
Diff between ks versions 1.5.5 dated 2008-03-13 and 1.5.6 dated 2008-07-05
Title: Kernel smoothing
Description: Kernel density estimators and kernel discriminant analysis for multivariate data
ks-1.5.5/ks/data/unicef.full.dat |only
ks-1.5.6/ks/DESCRIPTION | 9
ks-1.5.6/ks/NAMESPACE | 6
ks-1.5.6/ks/R/binning.R | 43 +++
ks-1.5.6/ks/R/kda.R | 187 ++++++++-------
ks-1.5.6/ks/R/kde.R | 409 ++++++++++++++++++---------------
ks-1.5.6/ks/R/normal.R | 41 ++-
ks-1.5.6/ks/R/prelim.R | 134 +++++++++-
ks-1.5.6/ks/R/selector.R | 480 ++++++++++++++++++++++++++++++---------
ks-1.5.6/ks/README | 13 +
ks-1.5.6/ks/data/Sd2.RData |only
ks-1.5.6/ks/data/Sd4.RData |only
ks-1.5.6/ks/data/Sd6.RData |only
ks-1.5.6/ks/inst/doc/kde.log | 4
ks-1.5.6/ks/inst/doc/kde.pdf |binary
ks-1.5.6/ks/man/Hpi.Rd | 58 +++-
ks-1.5.6/ks/man/binning.Rd |only
ks-1.5.6/ks/man/contourLevels.Rd | 2
ks-1.5.6/ks/man/dmvnorm.mixt.Rd | 3
ks-1.5.6/ks/man/dnorm.mixt.Rd | 3
ks-1.5.6/ks/man/kda.Rd | 8
ks-1.5.6/ks/man/kda.kde.Rd | 12
ks-1.5.6/ks/man/kde.Rd | 21 +
ks-1.5.6/ks/man/ks-internal.Rd |only
ks-1.5.6/ks/man/ks-package.Rd | 19 -
ks-1.5.6/ks/man/plot.kda.kde.Rd | 3
ks-1.5.6/ks/man/plot.kde.Rd | 12
ks-1.5.6/ks/man/vec.Rd | 11
28 files changed, 1031 insertions(+), 447 deletions(-)
Author: Laercio Junio da Silva
Diff between laercio versions 0.9-2 dated 2008-06-23 and 0.9-3 dated 2008-07-05
Title: Duncan test, Tukey test and Scott-Knott test.
Description: The package contains functions to compare and group means.
DESCRIPTION | 6 +--
R/LScottKnott.R | 2 -
R/LScottKnott.aov.r | 89 ++++++++++++++++++++++++++++++++++++++-----------
man/LScottKnott.Rd | 3 +
man/laercio-package.Rd | 4 +-
5 files changed, 78 insertions(+), 26 deletions(-)
Author: Portfolio & Risk Advisory Group, Commerzbank Securities
Title: Irregular Time Series
Description: The its package contains an S4 class for handling irregular time series
Diff between its versions 1.1.5 dated 2006-12-10 and 1.1.7 dated 2008-07-05
its-1.1.5/its/man/Extract.Rd |only its-1.1.5/its/man/itsAccessor.rd |only its-1.1.5/its/man/itsArith.rd |only its-1.1.5/its/man/itsConvert.Rd |only its-1.1.5/its/man/itsCumdif.rd |only its-1.1.5/its/man/itsDisp.rd |only its-1.1.5/its/man/itsInfo.rd |only its-1.1.5/its/man/itsReplace.Rd |only its-1.1.7/its/DESCRIPTION | 4 its-1.1.7/its/R/itspkg.R | 1007 ++++++++++++++++++++------------------- its-1.1.7/its/man/core.Rd |only its-1.1.7/its/man/dates.Rd |only its-1.1.7/its/man/its-class.Rd |only its-1.1.7/its/man/itsConvert.rd |only its-1.1.7/its/man/itsDef.rd | 9 its-1.1.7/its/man/itsFile.rd | 4 its-1.1.7/its/man/itsFin.rd | 4 its-1.1.7/its/man/itsInterp.rd | 4 its-1.1.7/its/man/itsJoin.rd | 26 - its-1.1.7/its/man/itsLags.rd | 4 its-1.1.7/its/man/itsSubset.rd | 16 its-1.1.7/its/man/itsTimes.rd | 4 22 files changed, 545 insertions(+), 537 deletions(-)
Author: Jan de Leeuw, Patrick Mair
Title: Homogeneity Analysis
Description: This package performs a homogeneity analysis and various extensions. Rank restrictions on the category quantifications can be imposed (nonlinear PCA). The categories are transformed by means of optimal scaling with options for nominal, ordinal, and numerical scale levels (for rank-1 restrictions). Variables can be grouped into sets, in order to emulate regression analysis and canonical correlation analysis.
Diff between homals versions 0.9-4 dated 2008-04-04 and 0.9-5 dated 2008-07-05
homals-0.9-4/homals/inst/doc/homalsR.aux |only homals-0.9-4/homals/inst/doc/homalsR.log |only homals-0.9-4/homals/inst/doc/homalsR.out |only homals-0.9-4/homals/inst/doc/homalsR.tex |only homals-0.9-5/homals/DESCRIPTION | 11 -- homals-0.9-5/homals/R/expandFrame.R |only homals-0.9-5/homals/R/homals.R | 47 ++++++--- homals-0.9-5/homals/R/plot.homals.R | 132 ++++++++++++++-------------- homals-0.9-5/homals/R/plot3d.homals.R | 16 +-- homals-0.9-5/homals/R/plot3dstatic.homals.R | 38 ++++---- homals-0.9-5/homals/R/predict.homals.R | 4 homals-0.9-5/homals/R/summary.homals.R | 4 homals-0.9-5/homals/inst/doc/homalsR.pdf |binary homals-0.9-5/homals/man/homals-package.Rd | 11 -- homals-0.9-5/homals/man/homals.Rd | 25 ++--- 15 files changed, 148 insertions(+), 140 deletions(-)
Author: Rolf Turner
Diff between hmm.discnp versions 0.0-7 dated 2006-08-25 and 0.0-8 dated 2008-07-05
Title: Hidden Markov models with discrete non-parametric
observation distributions.
Description: Fits hidden Markov models with discrete non-parametric
observation distributions to data sets. Simulates data
from such models.
DESCRIPTION | 10 +++++-----
R/revise.tpm.R | 2 +-
man/hmm.Rd | 9 +++++++++
3 files changed, 15 insertions(+), 6 deletions(-)
Author: Chong Gu
Diff between gss versions 1.0-0 dated 2007-08-09 and 1.0-1 dated 2008-07-05
Title: General Smoothing Splines
Description: A comprehensive package for structural multivariate
function estimation using smoothing splines.
ChangeLog | 13 +++++++++++++
DESCRIPTION | 4 ++--
R/family.proj.R | 2 +-
R/fitted.R | 2 +-
R/grkpk.R | 16 ++++------------
R/mkterm.R | 8 ++++----
R/predict.ssanova.R | 15 ++++++++++-----
R/rkpk.R | 16 ++++------------
man/fitted.ssanova.Rd | 8 ++++----
man/predict.ssanova.Rd | 4 ++--
man/print.Rd | 16 ++++++++--------
man/project.Rd | 8 ++++----
man/summary.gssanova.Rd | 2 +-
man/summary.gssanova0.Rd | 2 +-
man/summary.ssanova.Rd | 4 ++--
src/ratfor/reg.r | 2 +-
16 files changed, 62 insertions(+), 60 deletions(-)
Author: Mikis Stasinopoulos
Diff between gamlss versions 1.9-0 dated 2008-06-06 and 1.9-2 dated 2008-07-05
Title: Generalized Additive Models for Location Scale and Shape.
Description: The main GAMLSS library and datasets.
DESCRIPTION | 6 +++---
R/HistDist.R | 3 ++-
R/findhyper.R | 34 ++++++++++++++++++++--------------
R/profterm.R | 7 +++----
inst/doc/NEWS.txt | 5 +++++
man/findhyper.Rd | 8 ++++----
tests |only
7 files changed, 37 insertions(+), 26 deletions(-)
Author: J. O. Ramsay
Diff between fda versions 1.2.3 dated 2007-12-06 and 1.2.4 dated 2008-07-05
Title: Functional Data Analysis
Description: These functions were developed to support
functional data analysis as described in Ramsay, J. O.
and Silverman, B. W. (2005) Functional Data Analysis.
New York: Springer. They were ported from earlier
versions in Matlab and S-PLUS. A manual that describes
the use of these functions is available in this
library. The library also contains a number of the
data sets used in the book along with R code for the
analyses that produced many of the figures in the book.
fda-1.2.3/fda/R/nls.R |only
fda-1.2.3/fda/data/CanadianWeatherData.R |only
fda-1.2.3/fda/data/dateAccessories.R |only
fda-1.2.3/fda/man/nls.Rd |only
fda-1.2.4/fda/DESCRIPTION | 46 +-
fda-1.2.4/fda/R/CSTRfn.R | 2
fda-1.2.4/fda/R/Eigen.R |only
fda-1.2.4/fda/R/axisIntervals.R | 26 -
fda-1.2.4/fda/R/bsplinepen.R | 4
fda-1.2.4/fda/R/checkLogicalInteger.R |only
fda-1.2.4/fda/R/dirs.R |only
fda-1.2.4/fda/R/fd.R | 30 +
fda-1.2.4/fda/R/fdPar.R | 27 +
fda-1.2.4/fda/R/fdaMatlabPath.R |only
fda-1.2.4/fda/R/file.copy2.R |only
fda-1.2.4/fda/R/lambda2gcv.R | 5
fda-1.2.4/fda/R/lines.fd.R | 4
fda-1.2.4/fda/R/lmWinsor.R |only
fda-1.2.4/fda/R/norder.R |only
fda-1.2.4/fda/R/plot.fd.R | 83 +++--
fda-1.2.4/fda/R/plotfit.fd.R | 98 ++++-
fda-1.2.4/fda/R/predict.lmWnsor.R |only
fda-1.2.4/fda/R/smooth.basis.R | 348 +++++++++++----------
fda-1.2.4/fda/R/smooth.basisPar.R | 29 +
fda-1.2.4/fda/data/CanadianWeather.rda |only
fda-1.2.4/fda/data/dateAccessories.rda |only
fda-1.2.4/fda/data/lip.rda |binary
fda-1.2.4/fda/demo/growth.R | 73 +++-
fda-1.2.4/fda/demo/lip.R | 177 +++++++---
fda-1.2.4/fda/inst/Matlab |only
fda-1.2.4/fda/inst/scripts/CSTR/CSTR_demo.R | 23 +
fda-1.2.4/fda/inst/scripts/CSTR/CSTR_demo.asv |only
fda-1.2.4/fda/inst/scripts/CSTR/CSTR_demo.m | 40 ++
fda-1.2.4/fda/inst/scripts/CSTR/CSTRfn.asv |only
fda-1.2.4/fda/inst/scripts/CSTR/CSTRfn.m | 56 +--
fda-1.2.4/fda/inst/scripts/afda-ch06.R | 2
fda-1.2.4/fda/inst/scripts/fda-ch13.R |only
fda-1.2.4/fda/inst/scripts/fda-ch19.R |only
fda-1.2.4/fda/inst/scripts/fda-script-progress.xls |binary
fda-1.2.4/fda/man/CanadianWeather.Rd | 35 +-
fda-1.2.4/fda/man/Eigen.Rd |only
fda-1.2.4/fda/man/Lfd.Rd | 1
fda-1.2.4/fda/man/bsplineS.Rd | 14
fda-1.2.4/fda/man/bsplinepen.Rd | 1
fda-1.2.4/fda/man/checkLogicalInteger.Rd |only
fda-1.2.4/fda/man/create.bspline.basis.Rd | 2
fda-1.2.4/fda/man/dateAccessories.Rd | 13
fda-1.2.4/fda/man/dirs.Rd |only
fda-1.2.4/fda/man/fd.Rd | 33 +
fda-1.2.4/fda/man/fdPar.Rd | 39 +-
fda-1.2.4/fda/man/fdaMatlabPath.Rd |only
fda-1.2.4/fda/man/file.copy2.Rd |only
fda-1.2.4/fda/man/getbasisrange.Rd | 8
fda-1.2.4/fda/man/inprod.Bspline.Rd | 34 +-
fda-1.2.4/fda/man/lambda2gcv.Rd | 10
fda-1.2.4/fda/man/lines.fd.Rd | 32 +
fda-1.2.4/fda/man/lip.Rd | 45 ++
fda-1.2.4/fda/man/lmWinsor.Rd |only
fda-1.2.4/fda/man/norder.Rd |only
fda-1.2.4/fda/man/pinch.Rd | 17 -
fda-1.2.4/fda/man/plot.basisfd.Rd | 1
fda-1.2.4/fda/man/plot.fd.Rd | 56 ++-
fda-1.2.4/fda/man/plotfit.fd.Rd | 73 ++--
fda-1.2.4/fda/man/predict.lmWinsor.Rd |only
fda-1.2.4/fda/man/smooth.basis.Rd | 183 ++++++-----
fda-1.2.4/fda/man/smooth.basisPar.Rd | 157 ++++++---
fda-1.2.4/fda/man/var.fd.Rd | 8
fda-1.2.4/fda/man/vec2Lfd.Rd | 1
68 files changed, 1177 insertions(+), 659 deletions(-)
Author: Alec Stephenson and Mathieu Ribatet.
Title: Bayesian Analysis in Extreme Value Theory
Description: Provides functions for the bayesian analysis of
extreme value models, using MCMC methods.
Diff between evdbayes versions 1.0-6 dated 2006-10-19 and 1.0-7 dated 2008-07-05
evdbayes-1.0-6/evdbayes/inst/doc/guide.pdf |only evdbayes-1.0-6/evdbayes/inst/doc/guide.tex |only evdbayes-1.0-7/evdbayes/DESCRIPTION | 9 ++++----- evdbayes-1.0-7/evdbayes/R/inf.R |only evdbayes-1.0-7/evdbayes/R/lik.R |only evdbayes-1.0-7/evdbayes/R/mcmc.R |only evdbayes-1.0-7/evdbayes/R/prior.R |only evdbayes-1.0-7/evdbayes/R/utils.R |only evdbayes-1.0-7/evdbayes/inst/doc/evdbayesGuide.pdf |only evdbayes-1.0-7/evdbayes/man/ar.choice.Rd |only evdbayes-1.0-7/evdbayes/man/jumps.Rd |only 11 files changed, 4 insertions(+), 5 deletions(-)
Author: Stephen Milborrow
derived from mda:mars by Trevor Hastie and Rob Tibshirani.
Title: Multivariate Adaptive Regression Spline Models
Description: Build regression models using the techniques in Friedman's
papers "Fast MARS" and "Multivariate Adaptive Regression Splines".
(The term "MARS" is copyrighted and thus not used in the name of the package.)
Diff between earth versions 2.0-2 dated 2008-06-15 and 2.0-3 dated 2008-07-05
DESCRIPTION | 4 NEWS | 9 R/format.earth.R | 105 +-- man/earth.Rd | 26 man/evimp.Rd | 11 man/format.earth.Rd | 14 man/mars.to.earth.Rd | 44 - man/update.earth.Rd | 12 src/earth.c | 22 src/tests/test.earth.full.R | 11 src/tests/test.earth.full.Rout.save | 950 +++++++++++++++++++++++++++++++++++- src/tests/test.plotmo.Rout.save | 32 - 12 files changed, 1104 insertions(+), 136 deletions(-)
Author: Ingmar Visser
Diff between depmixS4 versions 0.1-1 dated 2008-06-18 and 0.2-0 dated 2008-07-05
Title: Dependent Mixture Models
Description: Fit latent (hidden) Markov models on mixed categorical and continuous (timeseries)
data, otherwise known as dependent mixture models
depmixS4-0.1-1/depmixS4/R/depmix.fitted.R |only
depmixS4-0.1-1/depmixS4/R/responses.R |only
depmixS4-0.2-0/depmixS4/DESCRIPTION | 26 -
depmixS4-0.2-0/depmixS4/NAMESPACE | 102 +++---
depmixS4-0.2-0/depmixS4/NEWS |only
depmixS4-0.2-0/depmixS4/R/EM.R | 113 ++++++
depmixS4-0.2-0/depmixS4/R/allGenerics.R | 12
depmixS4-0.2-0/depmixS4/R/depmix-class.R |only
depmixS4-0.2-0/depmixS4/R/depmix.R | 352 ++-------------------
depmixS4-0.2-0/depmixS4/R/depmixAIC.R |only
depmixS4-0.2-0/depmixS4/R/depmixBIC.R |only
depmixS4-0.2-0/depmixS4/R/depmixfit-class.R |only
depmixS4-0.2-0/depmixS4/R/depmixfit.R |only
depmixS4-0.2-0/depmixS4/R/depmixsim-class.R |only
depmixS4-0.2-0/depmixS4/R/fb.R | 2
depmixS4-0.2-0/depmixS4/R/forwardbackward.R |only
depmixS4-0.2-0/depmixS4/R/freepars.R |only
depmixS4-0.2-0/depmixS4/R/getpars.R |only
depmixS4-0.2-0/depmixS4/R/logLik.R |only
depmixS4-0.2-0/depmixS4/R/lystig.R | 2
depmixS4-0.2-0/depmixS4/R/makeDepmix.R |only
depmixS4-0.2-0/depmixS4/R/makePriorModel.R |only
depmixS4-0.2-0/depmixS4/R/makeResponseModels.R |only
depmixS4-0.2-0/depmixS4/R/makeTransModels.R |only
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depmixS4-0.2-0/depmixS4/R/responseMVN.R |only
depmixS4-0.2-0/depmixS4/R/responseNORM.R |only
depmixS4-0.2-0/depmixS4/R/setpars.R |only
depmixS4-0.2-0/depmixS4/R/transInit.R |only
depmixS4-0.2-0/depmixS4/R/viterbi.R | 198 +++--------
depmixS4-0.2-0/depmixS4/README | 8
depmixS4-0.2-0/depmixS4/man/AIC.Rd |only
depmixS4-0.2-0/depmixS4/man/balance.Rd | 23 +
depmixS4-0.2-0/depmixS4/man/depmix-class.Rd | 4
depmixS4-0.2-0/depmixS4/man/depmix-internal.Rd | 22 +
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depmixS4-0.2-0/depmixS4/man/depmix.Rd | 146 ++------
depmixS4-0.2-0/depmixS4/man/depmix.fit.Rd | 162 ++++++---
depmixS4-0.2-0/depmixS4/man/depmix.fitted-class.Rd | 7
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depmixS4-0.2-0/depmixS4/man/mix-class.Rd |only
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depmixS4-0.2-0/depmixS4/man/response-classes.Rd | 7
depmixS4-0.2-0/depmixS4/man/response.Rd | 39 +-
depmixS4-0.2-0/depmixS4/man/responses.Rd |only
depmixS4-0.2-0/depmixS4/man/simulate.Rd |only
depmixS4-0.2-0/depmixS4/man/speed.Rd | 14
depmixS4-0.2-0/depmixS4/tests |only
63 files changed, 514 insertions(+), 727 deletions(-)
Author: Martin Oliver Sailer
Diff between crossdes versions 1.0-8 dated 2008-03-31 and 1.0-9 dated 2008-07-05
Title: Design and Randomization in Crossover Studies
Description: Contains functions for the construction and randomization of balanced carryover balanced designs. Contains functions to check given designs for balance. Also contains functions for simulation studies on the validity of two randomization procedures.
DESCRIPTION | 8 ++++----
R/GF.R | 2 +-
R/balmin.RMD.R | 4 ++--
R/design.row.R | 2 +-
R/isCbalanced.R | 2 +-
5 files changed, 9 insertions(+), 9 deletions(-)
Author: Tim Keitt
Title: Builds color tables
Description: Builds gradient color maps
Diff between colorRamps versions 2.1 dated 2008-03-06 and 2.2 dated 2008-07-05
DESCRIPTION | 6 ++++-- R/colorRamps.R | 17 ++++++++++++++++- man/colorRamps-package.Rd | 4 ++-- man/primary.colors.Rd | 6 +++--- man/ramps.Rd |only 5 files changed, 25 insertions(+), 8 deletions(-)
Author: Venkatraman E. Seshan
Title: Clinical Trial Design and Data Analysis Functions
Description: Utilities to make your clinical collaborations easier if not fun.
Diff between clinfun versions 0.8.1 dated 2008-06-18 and 0.8.2 dated 2008-07-05
CHANGES | 5 +++++ DESCRIPTION | 4 ++-- R/toxbdry.R | 22 +++++++++++++++++----- R/toxbdry1.R |only R/toxbdry2.R |only man/toxbdry.Rd | 9 +++++++-- 6 files changed, 31 insertions(+), 9 deletions(-)
Author: Charles J. Geyer
Diff between aster versions 0.7-4 dated 2008-03-21 and 0.7-5 dated 2008-07-05
Title: Aster Models
Description: functions and datasets for Aster modeling (forest graph
exponential family conditional or unconditional canonical statistic models
for life history analysis)
CHANGES | 1 +
DESCRIPTION | 8 ++++----
R/predict.aster.R | 16 ++++++++++++----
inst/doc/.build.timestamp |only
inst/doc/Rplots.pdf |only
inst/doc/tutor.pdf |binary
man/predict.aster.Rd | 9 +++++++--
tests/debug.rda |only
tests/predict.R | 10 ++++++++++
tests/predict.Rout.save | 15 +++++++++++++--
10 files changed, 47 insertions(+), 12 deletions(-)
Author: Vinzenz Erhardt
Title: Zero Inflated Generalized Poisson (ZIGP) regression models
Description: Adapt and analyze and compare GP, ZIP and ZIGP regression models
Diff between ZIGP versions 2.1 dated 2008-03-24 and 2.3 dated 2008-07-05
ZIGP-2.1/ZIGP/R/FM.R |only ZIGP-2.1/ZIGP/R/dzigp.R |only ZIGP-2.1/ZIGP/R/fit.zigp.R |only ZIGP-2.1/ZIGP/R/fit.zigp1.R |only ZIGP-2.1/ZIGP/R/gradient.R |only ZIGP-2.1/ZIGP/R/gradient1.R |only ZIGP-2.1/ZIGP/R/loglikelihood.zigp.R |only ZIGP-2.1/ZIGP/R/loglikelihood.zigp.full.R |only ZIGP-2.1/ZIGP/R/mle.zigp.R |only ZIGP-2.1/ZIGP/R/mle.zigp.full.like.R |only ZIGP-2.1/ZIGP/R/optimized.run.R |only ZIGP-2.1/ZIGP/R/pzigp.R |only ZIGP-2.1/ZIGP/R/qzigp.R |only ZIGP-2.1/ZIGP/R/response.zigp.R |only ZIGP-2.1/ZIGP/R/rzigp.R |only ZIGP-2.1/ZIGP/R/summaryzigp1.R |only ZIGP-2.1/ZIGP/R/wald.test.R |only ZIGP-2.1/ZIGP/man/FM.Rd |only ZIGP-2.1/ZIGP/man/ZIGP-package.Rd |only ZIGP-2.1/ZIGP/namespace |only ZIGP-2.3/ZIGP/DESCRIPTION | 8 ++++---- ZIGP-2.3/ZIGP/NAMESPACE |only ZIGP-2.3/ZIGP/R/FM.r |only ZIGP-2.3/ZIGP/R/dzigp.r |only ZIGP-2.3/ZIGP/R/fit.zigp.r |only ZIGP-2.3/ZIGP/R/fit.zigp1.r |only ZIGP-2.3/ZIGP/R/gradient.r |only ZIGP-2.3/ZIGP/R/gradient1.r |only ZIGP-2.3/ZIGP/R/loglikelihood.zigp.full.r |only ZIGP-2.3/ZIGP/R/loglikelihood.zigp.r |only ZIGP-2.3/ZIGP/R/loglikelihood.zigp.vuong.r |only ZIGP-2.3/ZIGP/R/mle.zigp.full.like.r |only ZIGP-2.3/ZIGP/R/mle.zigp.r |only ZIGP-2.3/ZIGP/R/optimized.run.r |only ZIGP-2.3/ZIGP/R/pzigp.r |only ZIGP-2.3/ZIGP/R/qzigp.r |only ZIGP-2.3/ZIGP/R/response.zigp.r |only ZIGP-2.3/ZIGP/R/rzigp.r |only ZIGP-2.3/ZIGP/R/summaryzigp1.r |only ZIGP-2.3/ZIGP/R/vuong.r |only ZIGP-2.3/ZIGP/R/wald.test.r |only ZIGP-2.3/ZIGP/man/FM.rd |only ZIGP-2.3/ZIGP/man/ZIGP-package.rd |only ZIGP-2.3/ZIGP/man/loglikelihood.zigp.vuong.rd |only ZIGP-2.3/ZIGP/man/mle.zigp.rd | 2 +- ZIGP-2.3/ZIGP/man/vuong.rd |only 46 files changed, 5 insertions(+), 5 deletions(-)
Author: Oscar Rueda
Diff between RJaCGH versions 1.2.5 dated 2008-04-22 and 1.5.3 dated 2008-07-05
Title: Reversible Jump MCMC for the analysis of CGH arrays.
Description: Bayesian analysis of CGH microarrays fitting Hidden Markov Chain models.
The selection of the number of states is made via their posterior probability
computed by Reversible Jump Markov Chain Monte Carlo Methods. Also
returns probabilistic common regions for gains/losses.
RJaCGH-1.2.5/RJaCGH/inst/doc/.log |only
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RJaCGH-1.5.3/RJaCGH/Changes | 137
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RJaCGH-1.5.3/RJaCGH/NAMESPACE | 41
RJaCGH-1.5.3/RJaCGH/R/RJaCGH.R | 3719 +++++---------
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RJaCGH-1.5.3/RJaCGH/man/pREC_A.Rd | 113
RJaCGH-1.5.3/RJaCGH/man/pREC_S.Rd | 96
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RJaCGH-1.5.3/RJaCGH/man/relabelStates.Rd | 55
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RJaCGH-1.5.3/RJaCGH/man/smoothMeans.Rd | 10
RJaCGH-1.5.3/RJaCGH/man/states.Rd | 10
RJaCGH-1.5.3/RJaCGH/man/summary.RJaCGH.Rd | 10
RJaCGH-1.5.3/RJaCGH/man/trace.plot.Rd | 6
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59 files changed, 4864 insertions(+), 3744 deletions(-)
Author: Robin Nunkesser
Diff between RFreak versions 0.2-1 dated 2008-05-08 and 0.2-2 dated 2008-07-05
Title: R/FrEAK interface
Description: An R interface to a modified version of the Free Evolutionary Algorithm Kit FrEAK. FrEAK is a toolkit written in Java to design and analyze evolutionary algorithms. Both the R interface and an extended version of FrEAK are contained in the RFreak package. For more information on FrEAK see http://sourceforge.net/projects/freak427/.
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RFreak-0.2-2/RFreak/R/functions.r | 258 +++--
RFreak-0.2-2/RFreak/inst/java/README | 2
RFreak-0.2-2/RFreak/inst/java/build.xml | 2
RFreak-0.2-2/RFreak/inst/java/resource/freak/gui/help/footnode.html | 2
RFreak-0.2-2/RFreak/inst/java/resource/freak/gui/help/index.html | 482 +++++-----
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RFreak-0.2-2/RFreak/inst/java/resource/freak/gui/help/node4.html | 284 ++---
RFreak-0.2-2/RFreak/inst/java/resource/freak/gui/help/node5.html | 186 +--
RFreak-0.2-2/RFreak/inst/java/resource/freak/gui/help/node6.html | 374 +++----
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RFreak-0.2-2/RFreak/inst/java/run.sh | 2
RFreak-0.2-2/RFreak/inst/java/src/freak/Freak.java | 3
RFreak-0.2-2/RFreak/inst/java/src/freak/core/graph/Mutation.java | 4
RFreak-0.2-2/RFreak/inst/java/src/freak/core/graph/Recombination.java | 4
RFreak-0.2-2/RFreak/inst/java/src/freak/core/modulesupport/ClassCollector.java | 3
RFreak-0.2-2/RFreak/inst/java/src/freak/core/util/GraphViz.java | 2
RFreak-0.2-2/RFreak/inst/java/src/freak/gui/graph/EditorDialog.java | 1
RFreak-0.2-2/RFreak/inst/java/src/freak/gui/scheduleeditor/ScheduleEditor.java | 2
RFreak-0.2-2/RFreak/inst/java/src/freak/gui/scheduleeditor/ScheduleEditorPanel.java | 2
RFreak-0.2-2/RFreak/inst/java/src/freak/module/fitness/booleanfunction/GenericPareto.java | 58 +
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RFreak-0.2-2/RFreak/inst/java/src/freak/module/observer/ResultObserver.java | 32
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RFreak-0.2-2/RFreak/inst/java/src/freak/module/operator/mutation/common/LTSMutation.java | 7
RFreak-0.2-2/RFreak/inst/java/src/freak/module/searchspace/logictree/Data.java | 39
RFreak-0.2-2/RFreak/inst/java/src/freak/module/searchspace/logictree/RData.java | 9
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RFreak-0.2-2/RFreak/inst/java/src/freak/module/view/RReturn.java | 14
RFreak-0.2-2/RFreak/inst/java/src/freak/module/view/StdView.java | 5
RFreak-0.2-2/RFreak/inst/java/src/freak/rinterface/control/RFreak.java | 6
RFreak-0.2-2/RFreak/inst/java/src/freak/rinterface/model/IndividualSummary.java | 46
RFreak-0.2-2/RFreak/inst/java/src/freak/rinterface/model/RReturns.java | 39
RFreak-0.2-2/RFreak/inst/java/src/freak/rinterface/model/ScheduleConfigurator.java | 217 ++++
RFreak-0.2-2/RFreak/man/LTSevol.Rd | 5
RFreak-0.2-2/RFreak/man/RFreak-package.Rd | 4
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73 files changed, 1463 insertions(+), 1309 deletions(-)
Author: Mathieu Ribatet
Diff between RFA versions 0.0-7 dated 2007-04-11 and 0.0-8 dated 2008-07-05
Title: Regional Frequency Analysis
Description: Several function to perform a Regional Frequency Analysis
DESCRIPTION | 9 ++++-----
1 file changed, 4 insertions(+), 5 deletions(-)
Author: Henrik Bengtsson
Diff between R.oo versions 1.4.2 dated 2008-03-07 and 1.4.5 dated 2008-07-05
Title: R object-oriented programming with or without references
Description: Methods and classes for object-oriented programming in R with or without references. Large effort has been made on making definition of methods as simple as possible with a minimum of maintainance for package developers. The package has been developed since 2001 and is now considered very stable. This is a cross-platform package implemented in pure R that defines standard S3 classes without any tricks.
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R.oo-1.4.5/R.oo/R/999.NonDocumentedObjects.R | 5 +
R.oo-1.4.5/R.oo/R/ASCII.R | 15 ++++-
R.oo-1.4.5/R.oo/R/BasicObject.R | 20 ++++--
R.oo-1.4.5/R.oo/R/Package.R | 27 ++++++---
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R.oo-1.4.5/R.oo/man/InternalErrorException.Rd | 2
R.oo-1.4.5/R.oo/man/Non-documented_objects.Rd | 5 +
R.oo-1.4.5/R.oo/man/Object.Rd | 2
R.oo-1.4.5/R.oo/man/Package.Rd | 4 +
R.oo-1.4.5/R.oo/man/RccViolationException.Rd | 2
R.oo-1.4.5/R.oo/man/Rdoc.Rd | 2
R.oo-1.4.5/R.oo/man/RdocException.Rd | 2
R.oo-1.4.5/R.oo/man/charToInt.Rd | 1
R.oo-1.4.5/R.oo/man/getChangeLog.Package.Rd | 13 +++-
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R.oo-1.4.5/R.oo/man/intToChar.Rd | 1
R.oo-1.4.5/R.oo/man/setConstructorS3.Rd | 2
R.oo-1.4.5/R.oo/man/showChangeLog.Package.Rd | 6 +-
33 files changed, 119 insertions(+), 60 deletions(-)
Author: Henrik Bengtsson
Diff between R.methodsS3 versions 1.0.1 dated 2008-03-07 and 1.0.3 dated 2008-07-05
Title: Utility function for defining S3 methods
Description: Methods that simplify the setup of S3 generic functions and S3 methods. Major effort has been made in making definition of methods as simple as possible with a minimum of maintainance for package developers. For example, generic functions are created automatically, if missing, and name conflict are automatically solved, if possible. The method setMethodS3() is a good start for those who in the future want to migrate to S4. This is a cross-platform package implemented in pure R and is generating standard S3 methods.
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R.methodsS3-1.0.3/R.methodsS3/man/setMethodS3.Rd | 2 +-
14 files changed, 17 insertions(+), 19 deletions(-)
Author: Vladimir Vovk
Diff between PredictiveRegression versions 0.0-1 dated 2008-06-26 and 0.1-1 dated 2008-07-05
More information about PredictiveRegression at CRAN
Title: Prediction Intervals for Three Basic Statistical Models
Description: Three prediction algorithms described in the paper "On-line predictive linear regression"
(Annals of Statistics, 2008)
DESCRIPTION | 6 ++---
R/gausspred.R | 4 +--
R/iidpred.R | 4 +--
R/mvapred.R | 4 +--
demo/onlinepred.R | 27 +++++++-------------------
man/gausspred.Rd | 52 ++++++++++++++++++++++++--------------------------
man/iidpred.Rd | 56 ++++++++++++++++++++++++++----------------------------
man/mvapred.Rd | 54 +++++++++++++++++++++++++---------------------------
8 files changed, 95 insertions(+), 112 deletions(-)
Permanent link
Author: Mathieu Ribatet
Diff between POT versions 1.0-7 dated 2008-04-03 and 1.0-8 dated 2008-07-05
Title: Generalized Pareto Distribution and Peaks Over Threshold
Description: Some functions useful to perform a Peak Over Threshold analysis in univariate and bivariate cases. A user's guide is avalaible.
DESCRIPTION | 6
R/confGPD.R | 4
inst/CHANGES | 3096 -----------------
inst/doc/POT.pdf | 9502 +++++++++++++++++++++++++++----------------------------
4 files changed, 4840 insertions(+), 7768 deletions(-)
Author: Holger Froehlich
Diff between GOSim versions 1.1.3.2 dated 2008-05-27 and 1.1.4.0 dated 2008-07-05
Title: Computation of functional similarities between GO terms and gene products; GO enrichement analysis
Description: This package implements several functions useful for
computing similarities between GO terms and gene products based on their GO annotation. Moreover it allows for computing a GO enrichment analysis
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GOSim-1.1.4.0/GOSim/R/GOenrichment.R | 10
GOSim-1.1.4.0/GOSim/R/clusterEvaluation.R | 18
GOSim-1.1.4.0/GOSim/R/geneSimilarity.R | 82
GOSim-1.1.4.0/GOSim/R/general.R | 101
GOSim-1.1.4.0/GOSim/R/pca.R | 30
GOSim-1.1.4.0/GOSim/R/termSimilarity.R | 28
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GOSim-1.1.4.0/GOSim/inst/doc/GOSim.log | 357 +
GOSim-1.1.4.0/GOSim/inst/doc/GOSim.pdf | 3265 ++++++++----------
GOSim-1.1.4.0/GOSim/inst/doc/GOSim.tex | 259 -
GOSim-1.1.4.0/GOSim/man/IC.Rd | 58
GOSim-1.1.4.0/GOSim/man/calcICs.Rd | 2
GOSim-1.1.4.0/GOSim/man/filterGO.Rd | 2
GOSim-1.1.4.0/GOSim/man/getDisjCommAnc.Rd | 2
GOSim-1.1.4.0/GOSim/man/getMinimumSubsumer.Rd | 2
GOSim-1.1.4.0/GOSim/man/setEvidenceLevel.Rd | 77
GOSim-1.1.4.0/GOSim/man/setOntology.Rd | 3
44 files changed, 2171 insertions(+), 2181 deletions(-)
Author: Roger Bivand, Friedrich Leisch and Martin Maechler
Title: Bitmap Images (``Pixel Maps'')
Description: Functions for import, export, plotting and other
manipulations of bitmapped images.
Diff between pixmap versions 0.4-8 dated 2008-07-02 and 0.4-9 dated 2008-07-04
DESCRIPTION | 6 +++--- NEWS | 5 +++++ R/pnm.R | 2 +- inst/NEWS | 5 +++++ 4 files changed, 14 insertions(+), 4 deletions(-)
Author: Roger Bivand, Friedrich Leisch and Martin Maechler
Title: Bitmap Images (``Pixel Maps'')
Description: Functions for import, export, plotting and other
manipulations of bitmapped images.
Diff between pixmap versions 0.4-7 dated 2007-05-03 and 0.4-8 dated 2008-07-02
DESCRIPTION | 8 ++++---- NEWS | 6 ++++++ R/pixmap.R | 2 +- inst/NEWS | 6 ++++++ tests/bugs.R | 12 ++++++++++++ 5 files changed, 29 insertions(+), 5 deletions(-)
Author: Friedrich Leisch and Evgenia Dimitriadou.
Original data sets from various sources.
Title: Machine Learning Benchmark Problems
Description: A collection of artificial and real-world machine learning
benchmark problems, including, e.g., several
data sets from the UCI repository.
Diff between mlbench versions 1.1-3 dated 2007-06-01 and 1.1-4 dated 2008-07-02
DESCRIPTION | 6 +++--- NEWS | 5 +++++ inst/NEWS | 5 +++++ man/as.data.frame.mlbench.Rd | 2 +- man/plot.mlbench.Rd | 2 +- 5 files changed, 15 insertions(+), 5 deletions(-)
Author: Duncan Temple Lang (duncan@wald.ucdavis.edu)
Title: Tools for parsing and generating XML within R and S-Plus.
Description: Parsing facilities for arbitrary XML files, DTDs and HTML, offering both
event and tree based parsers which are customizable with R functions.
Diff between XML versions 1.95-2 dated 2008-05-13 and 1.95-3 dated 2008-06-27
Changes | 5 +++++ DESCRIPTION | 4 ++-- INSTALL | 2 +- configure | 54 ++++++++++++++++++++++++++++++++++++++++++++++++++++++ configure.in | 13 +++++++++++++ src/RUtils.c | 7 ++++++- 6 files changed, 81 insertions(+), 4 deletions(-)
Author: Jeff Gentry
Diff between Rgraphviz versions 1.18.0 dated 2008-05-05 and 1.18.1 dated 2008-06-27
Title: Provides plotting capabilities for R graph objects
Description: Interfaces R with the AT&T GraphViz library to provide
the ability for plotting R graph objects from the graph
package
DESCRIPTION | 4
R/graph.R | 2
inst/doc/Rgraphviz.pdf | 1201 ++++++++++++++++++-------------------
inst/doc/newRgraphvizInterface.pdf | 882 +++++++++++++--------------
4 files changed, 1046 insertions(+), 1043 deletions(-)
Author: Torsten Hothorn, Kurt Hornik and Achim Zeileis
Title: A Laboratory for Recursive Partytioning
Description: A computational toolbox for recursive partitioning.
The core of the package is ctree(), an implementation of
conditional inference trees which embed tree-structured
regression models into a well defined theory of conditional
inference procedures. This non-parametric class of regression
trees is applicable to all kinds of regression problems, including
nominal, ordinal, numeric, censored as well as multivariate response
variables and arbitrary measurement scales of the covariates.
Based on conditional inference trees, cforest() provides an
implementation of Breiman's random forests. The function mob()
implements an algorithm for recursive partitioning based on
parametric models (e.g. linear models, GLMs or survival
regression) employing parameter instability tests for split
selection. Extensible functionality for visualizing tree-structured
regression models is available.
Diff between party versions 0.9-96 dated 2008-06-08 and 0.9-97 dated 2008-06-27
party-0.9-96/party/inst/doc/MOB-BostonHousing-plot.eps |only party-0.9-96/party/inst/doc/MOB-BostonHousing-plot.pdf |only party-0.9-96/party/inst/doc/MOB.tex |only party-0.9-96/party/inst/doc/Rplots.pdf |only party-0.9-97/party/CHANGES | 9 party-0.9-97/party/DESCRIPTION | 6 party-0.9-97/party/inst/CITATION | 37 party-0.9-97/party/inst/doc/MOB.pdf |binary party-0.9-97/party/inst/doc/party.pdf |binary party-0.9-97/party/inst/documentation/html/Classes_8c-source.html | 2 party-0.9-97/party/inst/documentation/html/Classes_8c.html | 4 party-0.9-97/party/inst/documentation/html/Classes_8h-source.html | 2 party-0.9-97/party/inst/documentation/html/Classes_8h.html | 4 party-0.9-97/party/inst/documentation/html/Convenience_8c-source.html | 2 party-0.9-97/party/inst/documentation/html/Convenience_8c.html | 2 party-0.9-97/party/inst/documentation/html/Convenience_8h-source.html | 2 party-0.9-97/party/inst/documentation/html/Convenience_8h.html | 2 party-0.9-97/party/inst/documentation/html/Distributions_8c-source.html | 2 party-0.9-97/party/inst/documentation/html/Distributions_8c.html | 2 party-0.9-97/party/inst/documentation/html/Distributions_8h-source.html | 2 party-0.9-97/party/inst/documentation/html/Distributions_8h.html | 2 party-0.9-97/party/inst/documentation/html/IndependenceTest_8c-source.html | 2 party-0.9-97/party/inst/documentation/html/IndependenceTest_8c.html | 2 party-0.9-97/party/inst/documentation/html/IndependenceTest_8h-source.html | 2 party-0.9-97/party/inst/documentation/html/IndependenceTest_8h.html | 2 party-0.9-97/party/inst/documentation/html/LinearStatistic_8c-source.html | 2 party-0.9-97/party/inst/documentation/html/LinearStatistic_8c.html | 2 party-0.9-97/party/inst/documentation/html/LinearStatistic_8h-source.html | 2 party-0.9-97/party/inst/documentation/html/LinearStatistic_8h.html | 2 party-0.9-97/party/inst/documentation/html/Node_8c-source.html | 2 party-0.9-97/party/inst/documentation/html/Node_8c.html | 2 party-0.9-97/party/inst/documentation/html/Node_8h-source.html | 2 party-0.9-97/party/inst/documentation/html/Node_8h.html | 2 party-0.9-97/party/inst/documentation/html/Predict_8c-source.html | 557 +++++----- party-0.9-97/party/inst/documentation/html/Predict_8c.html | 56 - party-0.9-97/party/inst/documentation/html/Predict_8h-source.html | 2 party-0.9-97/party/inst/documentation/html/Predict_8h.html | 2 party-0.9-97/party/inst/documentation/html/RandomForest_8c-source.html | 2 party-0.9-97/party/inst/documentation/html/RandomForest_8c.html | 2 party-0.9-97/party/inst/documentation/html/S3Classes_8c-source.html | 2 party-0.9-97/party/inst/documentation/html/S3Classes_8c.html | 14 party-0.9-97/party/inst/documentation/html/S3Classes_8h-source.html | 2 party-0.9-97/party/inst/documentation/html/S3Classes_8h.html | 14 party-0.9-97/party/inst/documentation/html/Splits_8c-source.html | 2 party-0.9-97/party/inst/documentation/html/Splits_8c.html | 2 party-0.9-97/party/inst/documentation/html/Splits_8h-source.html | 2 party-0.9-97/party/inst/documentation/html/Splits_8h.html | 2 party-0.9-97/party/inst/documentation/html/SurrogateSplits_8c-source.html | 2 party-0.9-97/party/inst/documentation/html/SurrogateSplits_8c.html | 4 party-0.9-97/party/inst/documentation/html/SurrogateSplits_8h-source.html | 2 party-0.9-97/party/inst/documentation/html/SurrogateSplits_8h.html | 2 party-0.9-97/party/inst/documentation/html/TestStatistic_8c-source.html | 2 party-0.9-97/party/inst/documentation/html/TestStatistic_8c.html | 2 party-0.9-97/party/inst/documentation/html/TestStatistic_8h-source.html | 2 party-0.9-97/party/inst/documentation/html/TestStatistic_8h.html | 2 party-0.9-97/party/inst/documentation/html/TreeGrow_8c-source.html | 2 party-0.9-97/party/inst/documentation/html/TreeGrow_8c.html | 2 party-0.9-97/party/inst/documentation/html/TreeGrow_8h-source.html | 2 party-0.9-97/party/inst/documentation/html/TreeGrow_8h.html | 2 party-0.9-97/party/inst/documentation/html/Utils_8c-source.html | 2 party-0.9-97/party/inst/documentation/html/Utils_8c.html | 2 party-0.9-97/party/inst/documentation/html/Utils_8h-source.html | 2 party-0.9-97/party/inst/documentation/html/Utils_8h.html | 2 party-0.9-97/party/inst/documentation/html/dir_6c30642956b040afcd6ed9c9ec492c91.html | 2 party-0.9-97/party/inst/documentation/html/dirs.html | 2 party-0.9-97/party/inst/documentation/html/files.html | 2 party-0.9-97/party/inst/documentation/html/globals.html | 2 party-0.9-97/party/inst/documentation/html/globals_0x62.html | 2 party-0.9-97/party/inst/documentation/html/globals_0x63.html | 2 party-0.9-97/party/inst/documentation/html/globals_0x67.html | 2 party-0.9-97/party/inst/documentation/html/globals_0x68.html | 2 party-0.9-97/party/inst/documentation/html/globals_0x69.html | 2 party-0.9-97/party/inst/documentation/html/globals_0x6c.html | 2 party-0.9-97/party/inst/documentation/html/globals_0x6d.html | 2 party-0.9-97/party/inst/documentation/html/globals_0x6e.html | 2 party-0.9-97/party/inst/documentation/html/globals_0x70.html | 2 party-0.9-97/party/inst/documentation/html/globals_0x71.html | 2 party-0.9-97/party/inst/documentation/html/globals_0x72.html | 2 party-0.9-97/party/inst/documentation/html/globals_0x73.html | 2 party-0.9-97/party/inst/documentation/html/globals_0x74.html | 2 party-0.9-97/party/inst/documentation/html/globals_0x75.html | 2 party-0.9-97/party/inst/documentation/html/globals_defs.html | 2 party-0.9-97/party/inst/documentation/html/globals_func.html | 2 party-0.9-97/party/inst/documentation/html/globals_func_0x67.html | 2 party-0.9-97/party/inst/documentation/html/globals_func_0x68.html | 2 party-0.9-97/party/inst/documentation/html/globals_func_0x69.html | 2 party-0.9-97/party/inst/documentation/html/globals_func_0x6c.html | 2 party-0.9-97/party/inst/documentation/html/globals_func_0x6d.html | 2 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party-0.9-97/party/inst/documentation/html/todo.html | 2 party-0.9-97/party/inst/documentation/latex/Predict_8c.tex | 28 party-0.9-97/party/inst/documentation/latex/SurrogateSplits_8c.tex | 2 party-0.9-97/party/inst/documentation/latex/dir_6c30642956b040afcd6ed9c9ec492c91_dep.eps | 2 party-0.9-97/party/inst/documentation/latex/dir_6c30642956b040afcd6ed9c9ec492c91_dep.pdf | 14 party-0.9-97/party/inst/documentation/latex/doxygen.sty | 4 party-0.9-97/party/inst/documentation/latex/refman.tex | 2 party-0.9-97/party/inst/documentation/man/man3/Classes.c.3 | 2 party-0.9-97/party/inst/documentation/man/man3/Classes.h.3 | 2 party-0.9-97/party/inst/documentation/man/man3/Convenience.c.3 | 2 party-0.9-97/party/inst/documentation/man/man3/Convenience.h.3 | 2 party-0.9-97/party/inst/documentation/man/man3/Distributions.c.3 | 2 party-0.9-97/party/inst/documentation/man/man3/Distributions.h.3 | 2 party-0.9-97/party/inst/documentation/man/man3/IndependenceTest.c.3 | 2 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party-0.9-97/party/inst/documentation/man/man3/TestStatistic.h.3 | 2 party-0.9-97/party/inst/documentation/man/man3/TreeGrow.c.3 | 2 party-0.9-97/party/inst/documentation/man/man3/TreeGrow.h.3 | 2 party-0.9-97/party/inst/documentation/man/man3/Utils.c.3 | 2 party-0.9-97/party/inst/documentation/man/man3/Utils.h.3 | 2 party-0.9-97/party/inst/documentation/man/man3/_home_hothorn_projects_svn_Rpkgs_trunk_party_src_.3 | 2 party-0.9-97/party/inst/documentation/man/man3/mvt.f.3 | 2 party-0.9-97/party/inst/documentation/man/man3/mvt.h.3 | 2 party-0.9-97/party/inst/documentation/man/man3/party.h.3 | 2 party-0.9-97/party/inst/documentation/man/man3/todo.3 | 2 party-0.9-97/party/man/mob.Rd | 7 party-0.9-97/party/man/panelfunctions.Rd | 9 party-0.9-97/party/man/plot.BinaryTree.Rd | 9 party-0.9-97/party/src/Predict.c | 5 party-0.9-97/party/src/SurrogateSplits.c | 2 147 files changed, 551 insertions(+), 508 deletions(-)
Author: Trent McDonald
Title: Analysis of Mark-Recapture data
Description: Analysis of mark-recapture (capture-recapture) data using individual, time, and individual-time varying covariates. Version 1.X contains functions to estimate live-capture Cormack-Jolly-Seber open population models.
Diff between mra versions 1.2 dated 2008-05-20 and 1.3 dated 2008-06-27
DESCRIPTION | 10 +++++----- R/F.cr.gof.R | 13 +++++++------ R/print.cjs.R | 2 ++ R/residuals.cjs.R | 36 ++++++++++++++++++++++-------------- man/F.cjs.estim.Rd | 11 ++++++----- man/predict.cjs.Rd | 2 +- man/residuals.cjs.Rd | 2 +- src/mrawin.f95 | 8 ++++---- 8 files changed, 48 insertions(+), 36 deletions(-)
Author: Jerome Friedman, Trevor Hastie, Rob Tibshirani
Title: Lasso and elastic-net regularized generalized linear models
Description: Extremely efficient procedures for fitting the entire lasso or elastic-net regularization path for linear regression, logistic and multinomial regression models. The algorithm uses cyclical coordinate descent in a pathwise fashion, as described in the paper on the maintainer's website.
Diff between glmnet versions 1.1 dated 2008-06-02 and 1.1-1 dated 2008-06-27
DESCRIPTION | 6 R/glmnet.R | 43 R/lambda.interp.R | 28 R/zeromat.R |only configure | 2548 +++++++++++++++++++++++++++++-------------------- configure.in | 7 man/glmnet-internal.Rd | 3 man/glmnet.Rd | 15 8 files changed, 1621 insertions(+), 1029 deletions(-)
Author: Martin Maechler and many others.
Title: Utilities from Seminar fuer Statistik ETH Zurich
Description: Useful utilities ['goodies'] from Seminar fuer Statistik ETH
Zurich, many ported from S-plus times.
Diff between sfsmisc versions 1.0-2 dated 2008-05-05 and 1.0-3 dated 2008-06-26
ChangeLog | 7 +++++++ DESCRIPTION | 6 +++--- R/ps.goodies.R | 3 ++- inst/ChangeLog | 7 +++++++ man/ps.latex.Rd | 14 +++++++++----- 5 files changed, 28 insertions(+), 9 deletions(-)
Author: Ollivier TARAMASCO
Title: Hidden Markov Models simulations and estimations
Description: Discrete, univariate or multivariate gaussian,
mixture of univariate or multivariate gaussian HMM functions for simulation and estimation.
Diff between RHmm versions 1.0.1 dated 2007-11-23 and 1.0.3 dated 2008-06-26
DESCRIPTION | 6 +++--- R/RHmm-New.R | 2 +- README | 2 +- src/AllDistributions.h | 4 ++-- src/Hmm.h | 4 ++-- src/Makevars.win | 2 +- src/MultivariateNormalUtil.cpp | 4 ++-- src/MultivariateNormalUtil.h | 4 ++-- src/OTMathUtil.h | 4 ++-- src/RHmm.cpp | 4 ++-- src/RHmm.h | 4 ++-- src/R_Equivalents.h | 4 ++-- src/cBaumWelch.cpp | 4 ++-- src/cBaumWelch.h | 13 ++----------- src/cBaumWelchInParam.cpp | 4 ++-- src/cBaumWelchInParam.h | 4 ++-- src/cDiscrete.cpp | 4 ++-- src/cDiscrete.h | 4 ++-- src/cDistribution.h | 4 ++-- src/cHmm.cpp | 4 ++-- src/cHmm.h | 4 ++-- src/cHmmFit.cpp | 4 ++-- src/cHmmFit.h | 4 ++-- src/cInParam.cpp | 4 ++-- src/cInParam.h | 4 ++-- src/cMixtMultivariateNormal.cpp | 4 ++-- src/cMixtMultivariateNormal.h | 13 ++----------- src/cMixtUnivariateNormal.cpp | 4 ++-- src/cMixtUnivariateNormal.h | 4 ++-- src/cMultivariateNormal.h | 4 ++-- src/cMutivariateNormal.cpp | 4 ++-- src/cOTError.cpp | 12 ++++++++---- src/cOTError.h | 13 ++++++++++--- src/cOTMatrix.cpp | 13 ++++++++----- src/cOTMatrix.h | 15 +++++++++++---- src/cOTVector.cpp | 6 ++++-- src/cOTVector.h | 10 +++++++--- src/cRUtils.cpp | 4 ++-- src/cRUtils.h | 4 ++-- src/cRandomGenerator.h | 4 ++-- src/cUnivariateNormal.cpp | 4 ++-- src/cUnivariateNormal.h | 13 ++----------- src/cViterbi.cpp | 4 ++-- src/cViterbi.h | 4 ++-- src/kmeans.cpp | 4 ++-- src/kmeans.h | 13 ++----------- src/samplesUtil.cpp | 4 ++-- src/samplesUtil.h | 4 ++-- 48 files changed, 130 insertions(+), 139 deletions(-)
Author: Arnost Komarek
Diff between smoothSurv versions 0.3-11 dated 2007-10-27 and 0.3-12 dated 2008-06-26
Title: Survival Regression with Smoothed Error Distribution
Description: This package contains primarily a function to fit
a regression model with possibly right, left or interval
censored observations and with the error distrbution
expressed as a mixture of G-splines. Core part
of the computation is done in compiled C++ written
using the Scythe Statistical Libary Version 0.3.
CHANGES | 5 ++++
DESCRIPTION | 12 ++++-----
R/estimTdiff.R | 22 ++++++++++-------
R/minPenalty.R | 4 +--
man/MP.pseudoinv.Rd | 2 -
man/a2c.Rd | 2 -
man/c2a.Rd | 2 -
man/derivative.cc3.Rd | 2 -
man/derivative.expAD.Rd | 2 -
man/dextreme.Rd | 2 -
man/dstlogis.Rd | 2 -
man/estimTdiff.Rd | 2 -
man/eval.Gspline.Rd | 2 -
man/fdensity.smoothSurvReg.Rd | 2 -
man/find.c.Rd | 2 -
man/give.c.Rd | 2 -
man/hazard.smoothSurvReg.Rd | 2 -
man/minPenalty.Rd | 2 -
man/piece.Rd | 2 -
man/plot.smoothSurvReg.Rd | 2 -
man/print.estimTdiff.Rd | 2 -
man/print.smoothSurvReg.Rd | 2 -
man/residuals.smoothSurvReg.Rd | 2 -
man/smoothSurvReg.Rd | 51 ++++++++++++++++++++++++++++++++++++++++-
man/smoothSurvReg.control.Rd | 2 -
man/smoothSurvReg.fit.Rd | 2 -
man/smoothSurvReg.object.Rd | 2 -
man/std.data.Rd | 2 -
man/survfit.smoothSurvReg.Rd | 2 -
src/Scythe_Error.h | 1
30 files changed, 101 insertions(+), 42 deletions(-)
Author: Douglas Bates
Diff between lme4 versions 0.999375-19 dated 2008-06-26 and 0.999375-20 dated 2008-06-26
Title: Linear mixed-effects models using S4 classes
Description: Fit linear and generalized linear mixed-effects models.
ChangeLog | 64 ++++++++++---------
DESCRIPTION | 6 -
inst/doc/Implementation.pdf |binary
inst/doc/PLSvGLS.pdf |binary
inst/doc/Theory.pdf |binary
tests/nlmer.R | 20 +++---
tests/nlmer.Rout.save | 146 ++++++++++++++++++++++++--------------------
7 files changed, 130 insertions(+), 106 deletions(-)
Author: Arnost Komarek
Diff between glmmAK versions 1.1 dated 2007-10-27 and 1.2 dated 2008-06-26
Title: Generalized Linear Mixed Models
Description: Later
DESCRIPTION | 12 ++++++------
R/cumlogitRE.predict.R | 3 ++-
R/logpoissonRE.predict.R | 3 ++-
inst/doc/ex-Epileptic.R | 2 +-
inst/doc/ex-Epileptic.pdf |binary
inst/doc/ex-Toenail.R | 2 +-
inst/doc/ex-Toenail.pdf |binary
inst/doc/index.html | 2 +-
man/AKmiscel.Rd | 2 +-
man/BPvalue.Rd | 2 +-
man/GMRF.Rd | 2 +-
man/QuantileFun.Rd | 2 +-
man/copula.Rd | 2 +-
man/cumlogit.Rd | 2 +-
man/cumlogit.help.Rd | 2 +-
man/cumlogitRE.Rd | 6 +++---
man/cumlogitRE.predict.Rd | 6 +++---
man/densplotAK.Rd | 2 +-
man/glmmAK.files2coda.Rd | 2 +-
man/glmmAK.help.Rd | 2 +-
man/gspline1.Rd | 2 +-
man/gspline2.Rd | 2 +-
man/logpoisson.Rd | 2 +-
man/logpoisson.help.Rd | 2 +-
man/logpoissonRE.Rd | 6 +++---
man/logpoissonRE.predict.Rd | 6 +++---
man/maxPosterProb.Rd | 2 +-
man/scanFH.Rd | 2 +-
man/summaryGspline1.Rd | 2 +-
man/summaryGspline2.Rd | 2 +-
30 files changed, 43 insertions(+), 41 deletions(-)
Author: Arnost Komarek
Diff between bayesSurv versions 0.5-9 dated 2007-10-27 and 0.5-10 dated 2008-06-26
Title: Bayesian Survival Regression with Flexible Error and Random Effects Distributions
Description: Later
DESCRIPTION | 12 ++++++------
R/marginal.bayesGspline.R | 2 +-
R/sampled.kendall.tau.R | 2 +-
man/bayesBisurvreg.Rd | 2 +-
man/bayesBisurvreg.help.Rd | 2 +-
man/bayesDensity.Rd | 2 +-
man/bayesGspline.Rd | 2 +-
man/bayesHistogram.Rd | 2 +-
man/bayesHistogram.help.Rd | 2 +-
man/bayessurvreg.help.Rd | 2 +-
man/bayessurvreg1.Rd | 2 +-
man/bayessurvreg1.files2init.Rd | 2 +-
man/bayessurvreg1.help.Rd | 2 +-
man/bayessurvreg2.Rd | 2 +-
man/bayessurvreg2.help.Rd | 2 +-
man/bayessurvreg3.Rd | 2 +-
man/bayessurvreg3.help.Rd | 2 +-
man/credible.region.Rd | 2 +-
man/densplot2.Rd | 2 +-
man/files.Gspline.Rd | 2 +-
man/files2coda.Rd | 2 +-
man/give.init.Rd | 3 ++-
man/give.summary.Rd | 2 +-
man/marginal.bayesGspline.Rd | 2 +-
man/plot.bayesDensity.Rd | 2 +-
man/plot.bayesGspline.Rd | 2 +-
man/plot.marginal.bayesGspline.Rd | 2 +-
man/predictive.Rd | 2 +-
man/predictive2.Rd | 2 +-
man/print.bayesDensity.Rd | 2 +-
man/rMVNorm.Rd | 2 +-
man/rWishart.Rd | 2 +-
man/sampleCovMat.Rd | 2 +-
man/sampled.kendall.tau.Rd | 2 +-
man/scanFN.Rd | 2 +-
man/simult.pvalue.Rd | 2 +-
man/traceplot2.Rd | 2 +-
man/vecr2matr.Rd | 2 +-
38 files changed, 44 insertions(+), 43 deletions(-)
Author: Jonathan M. Lees
Title: Grades Setting and Exam Maker
Description: Programs to determine student grades and create
examinations from Question banks. Programs will create numerous
multiple choice exams, randomly shuffled, for different versions of same question list.
Diff between ProfessR versions 1.0-3 dated 2008-02-19 and 1.0-4 dated 2008-06-26
ProfessR-1.0-3/ProfessR/inst/doc/ExamMaker.aux |only ProfessR-1.0-3/ProfessR/inst/doc/ExamMaker.dvi |only ProfessR-1.0-3/ProfessR/inst/doc/ExamMaker.log |only ProfessR-1.0-3/ProfessR/inst/doc/ExamMaker.tex |only ProfessR-1.0-3/ProfessR/inst/doc/Grader.aux |only ProfessR-1.0-3/ProfessR/inst/doc/Grader.dvi |only ProfessR-1.0-3/ProfessR/inst/doc/Grader.log |only ProfessR-1.0-3/ProfessR/inst/doc/Grader.tex |only ProfessR-1.0-3/ProfessR/inst/doc/Rplots.ps |only ProfessR-1.0-3/ProfessR/inst/doc/exam2A.tex |only ProfessR-1.0-3/ProfessR/inst/doc/exam2A.tex.ANS |only ProfessR-1.0-3/ProfessR/inst/doc/exam2AMAST.tex |only ProfessR-1.0-3/ProfessR/inst/doc/exam2Asolutions.tex |only ProfessR-1.0-3/ProfessR/inst/doc/exam2B.tex |only ProfessR-1.0-3/ProfessR/inst/doc/exam2B.tex.ANS |only ProfessR-1.0-3/ProfessR/inst/doc/exam2BMAST.tex |only ProfessR-1.0-3/ProfessR/inst/doc/exam2Bsolutions.tex |only ProfessR-1.0-3/ProfessR/inst/doc/grades-004.eps |only ProfessR-1.0-3/ProfessR/inst/doc/grades-004.pdf |only ProfessR-1.0-3/ProfessR/inst/doc/grades-005.eps |only ProfessR-1.0-3/ProfessR/inst/doc/grades-005.pdf |only ProfessR-1.0-3/ProfessR/inst/doc/t.tex |only ProfessR-1.0-4/ProfessR/DESCRIPTION | 6 +-- ProfessR-1.0-4/ProfessR/inst/doc/ExamMaker.Rnw | 31 ++++++++++++++++++- ProfessR-1.0-4/ProfessR/inst/doc/ExamMaker.pdf |binary ProfessR-1.0-4/ProfessR/inst/doc/Grader.Rnw | 26 +++++++++++++++ ProfessR-1.0-4/ProfessR/inst/doc/Grader.pdf |binary ProfessR-1.0-4/ProfessR/man/DUMPgrades.Rd | 2 - ProfessR-1.0-4/ProfessR/man/E2grades.Rd | 4 +- ProfessR-1.0-4/ProfessR/man/ProfessR-package.Rd | 4 +- ProfessR-1.0-4/ProfessR/man/checkgrades.Rd | 2 - ProfessR-1.0-4/ProfessR/man/do.grades.Rd | 2 - 32 files changed, 66 insertions(+), 11 deletions(-)
Author: Jonathan M. Lees
Diff between zoeppritz versions 1.0 dated 2007-10-15 and 1.0-1 dated 2008-06-26
Title: Zoeppritz Equations
Description: Calculate and plot scattering matrix coefficients for plane waves at interface.
DESCRIPTION | 4 ++--
man/zoeppritz-package.Rd | 2 +-
2 files changed, 3 insertions(+), 3 deletions(-)
Author: Simon Jackman, with contributions from
Alex Tahk, Achim Zeileis, Christina Maimone and Jim Fearon
Title: Political Science Computational Laboratory, Stanford University
Description: Bayesian analysis of item-response theory (IRT) models, roll call analysis;
computing highest density regions; maximum likelihood estimation of
zero-inflated and hurdle models for count data; goodness-of-fit measures for
GLMs; data sets used in writing and teaching at the Political Science
Computational Laboratory; seats-votes curves.
Diff between pscl versions 0.95 dated 2008-03-20 and 0.96 dated 2008-06-26
DESCRIPTION | 10 HISTORY | 8 R/plot.ideal.r | 5 R/postProcess.r | 4 R/summary.ideal.r | 15 - R/zeroinfl.R | 13 - inst/CITATION | 17 - inst/doc/auto |only inst/doc/countreg.Rnw | 612 +++++++++++++++++++++++--------------------------- inst/doc/countreg.bib | 62 +++-- inst/doc/countreg.pdf |binary man/zeroinfl.Rd | 26 +- 12 files changed, 384 insertions(+), 388 deletions(-)
Author: Yves Croissant
Diff between plm versions 0.3-2 dated 2008-02-29 and 1.0-0 dated 2008-06-26
Title: Linear models for panel data
Description: A set of estimators and tests for panel data
plm-0.3-2/plm/inst/doc/plmEN.pdf |only
plm-0.3-2/plm/inst/doc/plmEN.rnw |only
plm-0.3-2/plm/inst/doc/plmEN.tex |only
plm-1.0-0/plm/DESCRIPTION | 6
plm-1.0-0/plm/NAMESPACE | 5
plm-1.0-0/plm/R/pcdtest.R |only
plm-1.0-0/plm/R/plm.formula.R | 16 +
plm-1.0-0/plm/R/plm.model.R | 17 +
plm-1.0-0/plm/R/ptest.R | 2
plm-1.0-0/plm/changelog | 113 +++++++++---
plm-1.0-0/plm/inst/CITATION |only
plm-1.0-0/plm/inst/doc/bibliojss.bib |only
plm-1.0-0/plm/inst/doc/plm.pdf |only
plm-1.0-0/plm/inst/doc/plm.rnw |only
plm-1.0-0/plm/man/pFtest.Rd | 108 ++++++------
plm-1.0-0/plm/man/pbgtest.Rd | 8
plm-1.0-0/plm/man/pbltest.Rd | 21 +-
plm-1.0-0/plm/man/pbsytest.Rd | 13 -
plm-1.0-0/plm/man/pcdtest.Rd |only
plm-1.0-0/plm/man/pdwtest.Rd | 20 +-
plm-1.0-0/plm/man/pggls.Rd | 5
plm-1.0-0/plm/man/pgmm.Rd | 306 +++++++++++++++++------------------
plm-1.0-0/plm/man/plm.Rd | 298 +++++++++++++++++-----------------
plm-1.0-0/plm/man/plm.data.Rd | 118 ++++++-------
plm-1.0-0/plm/man/plmtest.Rd | 158 +++++++++---------
plm-1.0-0/plm/man/pooltest.Rd | 114 ++++++-------
plm-1.0-0/plm/man/pvar.Rd | 124 +++++++-------
plm-1.0-0/plm/man/pvcm.Rd | 155 ++++++++---------
plm-1.0-0/plm/man/pvcovHC.Rd | 216 ++++++++++++------------
plm-1.0-0/plm/man/pwartest.Rd | 33 ++-
plm-1.0-0/plm/man/pwfdtest.Rd | 26 +-
plm-1.0-0/plm/man/pwtest.Rd | 18 +-
plm-1.0-0/plm/man/sargan.Rd | 89 +++++-----
33 files changed, 1057 insertions(+), 932 deletions(-)
Author: Douglas Bates
Diff between mlmRev versions 0.995-1 dated 2006-01-20 and 0.99875-1 dated 2008-06-26
Title: Examples from Multilevel Modelling Software Review
Description: Data and examples from a multilevel modelling software review
as well as other well-known data sets from the multilevel modelling
literature.
mlmRev-0.995-1/mlmRev/inst/doc/MlmSoftRev.tex |only
mlmRev-0.995-1/mlmRev/inst/doc/Rplots.ps |only
mlmRev-0.995-1/mlmRev/inst/doc/auto |only
mlmRev-0.995-1/mlmRev/inst/doc/figs/SoftRev-Contra1.pdf |only
mlmRev-0.995-1/mlmRev/inst/doc/figs/SoftRev-Contra2.pdf |only
mlmRev-0.995-1/mlmRev/inst/doc/figs/SoftRev-Contra3.pdf |only
mlmRev-0.995-1/mlmRev/inst/doc/figs/SoftRev-Examplot10.pdf |only
mlmRev-0.995-1/mlmRev/inst/doc/figs/SoftRev-Examplot7.pdf |only
mlmRev-0.995-1/mlmRev/inst/doc/figs/SoftRev-Examplot8.pdf |only
mlmRev-0.995-1/mlmRev/inst/doc/figs/SoftRev-Examplot9.pdf |only
mlmRev-0.99875-1/mlmRev/ChangeLog | 16
mlmRev-0.99875-1/mlmRev/DESCRIPTION | 13
mlmRev-0.99875-1/mlmRev/data/Chem97.rda |binary
mlmRev-0.99875-1/mlmRev/data/Hsb82.rda |binary
mlmRev-0.99875-1/mlmRev/data/bdf.rda |binary
mlmRev-0.99875-1/mlmRev/data/star.rda |binary
mlmRev-0.99875-1/mlmRev/inst/doc/MlmSoftRev.Rnw | 195
mlmRev-0.99875-1/mlmRev/inst/doc/MlmSoftRev.pdf |213542 -----------
mlmRev-0.99875-1/mlmRev/inst/doc/StarData.pdf |binary
mlmRev-0.99875-1/mlmRev/inst/doc/figs/SoftRev-ExamMosaic.pdf | 1434
mlmRev-0.99875-1/mlmRev/inst/doc/figs/SoftRev-Examplot1.pdf | 9148
mlmRev-0.99875-1/mlmRev/inst/doc/figs/SoftRev-Examplot2.pdf | 612
mlmRev-0.99875-1/mlmRev/inst/doc/figs/SoftRev-Examplot3.pdf | 4782
mlmRev-0.99875-1/mlmRev/inst/doc/figs/SoftRev-Examplot4.pdf | 4686
mlmRev-0.99875-1/mlmRev/inst/doc/figs/SoftRev-Examplot4a.pdf | 4690
mlmRev-0.99875-1/mlmRev/inst/doc/figs/SoftRev-Examplot4c.pdf | 772
mlmRev-0.99875-1/mlmRev/inst/doc/figs/SoftRev-Examplot5.pdf | 2334
mlmRev-0.99875-1/mlmRev/inst/doc/figs/SoftRev-Examplot5b.pdf | 478
mlmRev-0.99875-1/mlmRev/inst/doc/figs/SoftRev-Examplot6.pdf | 9560
mlmRev-0.99875-1/mlmRev/inst/doc/figs/SoftRev-Examplot6b.pdf | 1634
mlmRev-0.99875-1/mlmRev/inst/doc/orig.rda |binary
mlmRev-0.99875-1/mlmRev/man/Contraception.Rd | 6
mlmRev-0.99875-1/mlmRev/man/Mmmec.Rd | 6
mlmRev-0.99875-1/mlmRev/man/Oxboys.Rd | 7
mlmRev-0.99875-1/mlmRev/man/bdf.Rd | 13
mlmRev-0.99875-1/mlmRev/man/egsingle.Rd | 2
mlmRev-0.99875-1/mlmRev/man/s3bbx.Rd | 18
mlmRev-0.99875-1/mlmRev/man/s3bby.Rd | 14
mlmRev-0.99875-1/mlmRev/tests/Early.Rout.save | 47
mlmRev-0.99875-1/mlmRev/tests/Hsb82.Rout.save | 48
mlmRev-0.99875-1/mlmRev/tests/ScotsSec.R | 7
mlmRev-0.99875-1/mlmRev/tests/ScotsSec.Rout.save | 90
mlmRev-0.99875-1/mlmRev/tests/bdf.Rout.save | 44
mlmRev-0.99875-1/mlmRev/tests/egsingle.Rout.save | 98
mlmRev-0.99875-1/mlmRev/tests/guImmun.Rout.save | 111
mlmRev-0.99875-1/mlmRev/tests/lmerTest.R | 1
mlmRev-0.99875-1/mlmRev/tests/lmerTest.Rout.save | 242
47 files changed, 20649 insertions(+), 234001 deletions(-)
Author: original by Gareth Ambler
Diff between mfp versions 1.4.4 dated 2008-04-07 and 1.4.5 dated 2008-06-26
Title: Multivariable Fractional Polynomials
Description: Fractional polynomials are used to represent curvature in regression models. A key reference is Royston and Altman, 1994.
Changelog | 1 +
DESCRIPTION | 6 +++---
R/mfp.R | 17 ++++++++++++-----
inst/doc/mfp-FIG1.pdf | 6 +++---
inst/doc/mfp-FIG2.pdf | 6 +++---
inst/doc/mfp.pdf |binary
inst/doc/mfp.tex | 8 ++++----
7 files changed, 26 insertions(+), 18 deletions(-)
Author: Douglas Bates
Diff between lme4 versions 0.999375-18 dated 2008-06-25 and 0.999375-19 dated 2008-06-26
Title: Linear mixed-effects models using S4 classes
Description: Fit linear and generalized linear mixed-effects models.
ChangeLog | 24 ++++
DESCRIPTION | 8 -
R/lmer.R | 59 +++++------
inst/doc/Implementation.pdf |binary
inst/doc/PLSvGLS.pdf |binary
inst/doc/Theory.pdf |binary
src/init.c | 1
src/lmer.c | 179 +++++++++++++++++++++-------------
src/lmer.h | 1
tests/nlmer-conv.R |only
tests/nlmer.R | 62 ++++++++++-
tests/nlmer.Rout.save | 230 +++++++++++++-------------------------------
12 files changed, 295 insertions(+), 269 deletions(-)
Author: Original by Littel, Milliken, Stroup, and Wolfinger
modifications by Douglas Bates
Diff between SASmixed versions 0.4-2 dated 2006-10-20 and 0.4-4 dated 2008-06-26
Title: Data sets from "SAS System for Mixed Models"
Description: Data sets and sample lmer analyses corresponding
to the examples in Littel, Milliken, Stroup and Wolfinger
(1996), "SAS System for Mixed Models", SAS Institute.
SASmixed-0.4-2/SASmixed/INDEX |only
SASmixed-0.4-2/SASmixed/inst/doc/Usinglme.Rnw |only
SASmixed-0.4-2/SASmixed/inst/doc/Usinglme.bib |only
SASmixed-0.4-2/SASmixed/inst/doc/Usinglme.pdf |only
SASmixed-0.4-4/SASmixed/DESCRIPTION | 8
SASmixed-0.4-4/SASmixed/inst/doc/Rplots.ps |only
SASmixed-0.4-4/SASmixed/inst/doc/Usinglmer.Rnw |only
SASmixed-0.4-4/SASmixed/inst/doc/Usinglmer.bib |only
SASmixed-0.4-4/SASmixed/inst/doc/Usinglmer.pdf |only
SASmixed-0.4-4/SASmixed/inst/doc/Usinglmer.tex |only
SASmixed-0.4-4/SASmixed/inst/doc/figs/f-adg1.pdf | 684 +++++++++++++----------
SASmixed-0.4-4/SASmixed/inst/doc/figs/f-bib1.pdf | 636 ++++++++++++---------
SASmixed-0.4-4/SASmixed/man/Animal.Rd | 1
SASmixed-0.4-4/SASmixed/man/AvgDailyGain.Rd | 1
SASmixed-0.4-4/SASmixed/man/BIB.Rd | 1
SASmixed-0.4-4/SASmixed/man/Bond.Rd | 1
SASmixed-0.4-4/SASmixed/man/Cultivation.Rd | 1
SASmixed-0.4-4/SASmixed/man/Demand.Rd | 1
SASmixed-0.4-4/SASmixed/man/Genetics.Rd | 1
SASmixed-0.4-4/SASmixed/man/HR.Rd | 1
SASmixed-0.4-4/SASmixed/man/IncBlk.Rd | 1
SASmixed-0.4-4/SASmixed/man/Mississippi.Rd | 1
SASmixed-0.4-4/SASmixed/man/Multilocation.Rd | 1
SASmixed-0.4-4/SASmixed/man/PBIB.Rd | 1
SASmixed-0.4-4/SASmixed/man/SIMS.Rd | 4
SASmixed-0.4-4/SASmixed/man/Semi2.Rd | 1
SASmixed-0.4-4/SASmixed/man/Semiconductor.Rd | 4
SASmixed-0.4-4/SASmixed/man/TeachingI.Rd | 1
SASmixed-0.4-4/SASmixed/man/TeachingII.Rd | 1
SASmixed-0.4-4/SASmixed/man/WWheat.Rd | 2
SASmixed-0.4-4/SASmixed/man/WaferTypes.Rd | 1
SASmixed-0.4-4/SASmixed/man/Weights.Rd | 1
32 files changed, 786 insertions(+), 569 deletions(-)
Author: Reinhold Hatzinger, Patrick Mair, Norman Verhelst
Title: Rasch Sampler
Description: Sampling binary matrices with fixed margins
Diff between RaschSampler versions 0.8.0 dated 2006-11-09 and 0.8-1 dated 2008-06-26
DESCRIPTION | 6 +++--- man/RSctr.Rd | 3 +-- man/RSmpl.Rd | 3 +-- man/RaschSampler.package.Rd | 12 ++++++------ man/rsctrl.Rd | 6 +++--- man/rstats.Rd | 1 - src/RaschSampler.f90 | 19 +++++++++++++++---- 7 files changed, 29 insertions(+), 21 deletions(-)
Author: Jonathan M. Lees
Title: Visualization for seismic tomography
Description: Created mainly for use with seismic tomography, this program
plots tomographic images, and allows one to interact and query
three-dimensional tomographic models.
Vertical cross-sectional cuts can be extracted by mouse click.
Geographic information can be added easily.
Diff between RTOMO versions 1.0-3 dated 2008-02-16 and 1.0-4 dated 2008-06-26
DESCRIPTION | 6 +++--- R/TOMO3D.drive.R | 4 ++-- R/TOMOinfo.R | 7 +++++-- demo/tomo.R | 3 ++- man/RTOMO-package.Rd | 4 ++-- 5 files changed, 14 insertions(+), 10 deletions(-)
Author: Jonathan M. Lees
Title: Graphical User Interface (GUI) for interactive R analysis sessions
Description: Poor Man's Gui: create interactive R analysis sessions
Diff between RPMG versions 1.0-1 dated 2007-10-11 and 1.0-2 dated 2008-06-26
DESCRIPTION | 6 +++--- R/GETXprofile.R | 40 +++++++++++++++++++++++++++++++--------- man/GETXprofile.Rd | 3 ++- man/RPMG-package.Rd | 4 ++-- 4 files changed, 38 insertions(+), 15 deletions(-)
Author: Douglas Bates
Diff between Matrix versions 0.999375-9 dated 2008-03-30 and 0.999375-10 dated 2008-06-26
Title: A Matrix package for R
Description: Classes and methods for dense and sparse matrices and
operations on them using Lapack, CSparse and CHOLMOD
Matrix-0.999375-10/Matrix/ChangeLog | 243 +
Matrix-0.999375-10/Matrix/DESCRIPTION | 8
Matrix-0.999375-10/Matrix/Done | 25
Matrix-0.999375-10/Matrix/NAMESPACE | 12
Matrix-0.999375-10/Matrix/R/AllClass.R | 17
Matrix-0.999375-10/Matrix/R/AllGeneric.R | 52
Matrix-0.999375-10/Matrix/R/Auxiliaries.R | 371 +-
Matrix-0.999375-10/Matrix/R/Csparse.R | 10
Matrix-0.999375-10/Matrix/R/Matrix.R | 54
Matrix-0.999375-10/Matrix/R/Ops.R | 415 +-
Matrix-0.999375-10/Matrix/R/Rsparse.R | 11
Matrix-0.999375-10/Matrix/R/Tsparse.R | 98
Matrix-0.999375-10/Matrix/R/corMatrix.R | 15
Matrix-0.999375-10/Matrix/R/dMatrix.R | 116
Matrix-0.999375-10/Matrix/R/ddenseMatrix.R | 8
Matrix-0.999375-10/Matrix/R/denseMatrix.R | 12
Matrix-0.999375-10/Matrix/R/dgCMatrix.R | 3
Matrix-0.999375-10/Matrix/R/dgTMatrix.R | 78
Matrix-0.999375-10/Matrix/R/dgeMatrix.R | 5
Matrix-0.999375-10/Matrix/R/diagMatrix.R | 506 ++
Matrix-0.999375-10/Matrix/R/dpoMatrix.R | 33
Matrix-0.999375-10/Matrix/R/dppMatrix.R | 19
Matrix-0.999375-10/Matrix/R/dsCMatrix.R | 44
Matrix-0.999375-10/Matrix/R/dsTMatrix.R | 12
Matrix-0.999375-10/Matrix/R/dspMatrix.R | 6
Matrix-0.999375-10/Matrix/R/dsparseMatrix.R | 10
Matrix-0.999375-10/Matrix/R/dsyMatrix.R | 31
Matrix-0.999375-10/Matrix/R/dtCMatrix.R | 14
Matrix-0.999375-10/Matrix/R/dtTMatrix.R | 6
Matrix-0.999375-10/Matrix/R/dtpMatrix.R | 16
Matrix-0.999375-10/Matrix/R/dtrMatrix.R | 32
Matrix-0.999375-10/Matrix/R/expm.R |only
Matrix-0.999375-10/Matrix/R/lMatrix.R | 53
Matrix-0.999375-10/Matrix/R/lgCMatrix.R | 8
Matrix-0.999375-10/Matrix/R/lgTMatrix.R | 1
Matrix-0.999375-10/Matrix/R/lsCMatrix.R | 7
Matrix-0.999375-10/Matrix/R/lsTMatrix.R | 21
Matrix-0.999375-10/Matrix/R/lsparseMatrix.R | 28
Matrix-0.999375-10/Matrix/R/ltCMatrix.R | 9
Matrix-0.999375-10/Matrix/R/ltTMatrix.R | 18
Matrix-0.999375-10/Matrix/R/ndenseMatrix.R | 2
Matrix-0.999375-10/Matrix/R/ngCMatrix.R | 5
Matrix-0.999375-10/Matrix/R/ngTMatrix.R | 8
Matrix-0.999375-10/Matrix/R/not.R | 162
Matrix-0.999375-10/Matrix/R/nsCMatrix.R | 6
Matrix-0.999375-10/Matrix/R/nsTMatrix.R | 18
Matrix-0.999375-10/Matrix/R/nsparseMatrix.R | 52
Matrix-0.999375-10/Matrix/R/ntCMatrix.R | 17
Matrix-0.999375-10/Matrix/R/ntTMatrix.R | 19
Matrix-0.999375-10/Matrix/R/pMatrix.R | 6
Matrix-0.999375-10/Matrix/R/sparseMatrix.R | 162
Matrix-0.999375-10/Matrix/R/sparseVector.R | 2
Matrix-0.999375-10/Matrix/R/triangularMatrix.R | 10
Matrix-0.999375-10/Matrix/R/zzz.R | 2
Matrix-0.999375-10/Matrix/TODO | 29
Matrix-0.999375-10/Matrix/configure |only
Matrix-0.999375-10/Matrix/inst/doc/Comparisons.pdf |binary
Matrix-0.999375-10/Matrix/inst/doc/Design-issues.Rnw | 13
Matrix-0.999375-10/Matrix/inst/doc/Design-issues.pdf | 697 ++--
Matrix-0.999375-10/Matrix/inst/doc/Intro2Matrix.Rnw | 83
Matrix-0.999375-10/Matrix/inst/doc/Intro2Matrix.pdf | 2726 +++++++++-------
Matrix-0.999375-10/Matrix/inst/doc/Introduction.pdf |binary
Matrix-0.999375-10/Matrix/inst/test-tools.R | 276 +
Matrix-0.999375-10/Matrix/man/CsparseMatrix-class.Rd | 5
Matrix-0.999375-10/Matrix/man/Matrix-class.Rd | 11
Matrix-0.999375-10/Matrix/man/RsparseMatrix-class.Rd | 5
Matrix-0.999375-10/Matrix/man/TsparseMatrix-class.Rd | 5
Matrix-0.999375-10/Matrix/man/bdiag.Rd | 8
Matrix-0.999375-10/Matrix/man/dMatrix-class.Rd | 24
Matrix-0.999375-10/Matrix/man/ddiMatrix-class.Rd | 6
Matrix-0.999375-10/Matrix/man/diagonalMatrix-class.Rd | 66
Matrix-0.999375-10/Matrix/man/dpoMatrix-class.Rd | 8
Matrix-0.999375-10/Matrix/man/dsCMatrix-class.Rd | 4
Matrix-0.999375-10/Matrix/man/dsyMatrix-class.Rd | 16
Matrix-0.999375-10/Matrix/man/dtRMatrix-class-def.Rd | 2
Matrix-0.999375-10/Matrix/man/expm.Rd | 18
Matrix-0.999375-10/Matrix/man/image-methods.Rd | 57
Matrix-0.999375-10/Matrix/man/ldiMatrix-class.Rd | 10
Matrix-0.999375-10/Matrix/man/lgeMatrix-class.Rd | 4
Matrix-0.999375-10/Matrix/man/lsparseMatrix-classes.Rd | 23
Matrix-0.999375-10/Matrix/man/lu.Rd | 13
Matrix-0.999375-10/Matrix/man/nMatrix-class.Rd | 17
Matrix-0.999375-10/Matrix/man/ngeMatrix-class.Rd | 4
Matrix-0.999375-10/Matrix/man/nnzero.Rd | 5
Matrix-0.999375-10/Matrix/man/nsparseMatrix-classes.Rd | 56
Matrix-0.999375-10/Matrix/man/pMatrix-class.Rd | 19
Matrix-0.999375-10/Matrix/man/printSpMatrix.Rd | 32
Matrix-0.999375-10/Matrix/man/sparseLU-class.Rd | 10
Matrix-0.999375-10/Matrix/man/sparseMatrix-class.Rd | 21
Matrix-0.999375-10/Matrix/man/triangularMatrix-class.Rd | 2
Matrix-0.999375-10/Matrix/src/Csparse.c | 14
Matrix-0.999375-10/Matrix/src/Mutils.c | 73
Matrix-0.999375-10/Matrix/src/Mutils.h | 23
Matrix-0.999375-10/Matrix/src/chm_common.c | 5
Matrix-0.999375-10/Matrix/src/dense.c | 3
Matrix-0.999375-10/Matrix/src/dgCMatrix.c | 12
Matrix-0.999375-10/Matrix/src/dgTMatrix.c | 10
Matrix-0.999375-10/Matrix/src/dgeMatrix.c | 100
Matrix-0.999375-10/Matrix/src/dsCMatrix.c | 47
Matrix-0.999375-10/Matrix/src/init.c | 3
Matrix-0.999375-10/Matrix/tests/Class+Meth.R | 251 -
Matrix-0.999375-10/Matrix/tests/Simple.R |only
Matrix-0.999375-10/Matrix/tests/dpo-test.R |only
Matrix-0.999375-10/Matrix/tests/factorizing.R | 9
Matrix-0.999375-10/Matrix/tests/indexing.R | 84
Matrix-0.999375-10/Matrix/tests/indexing.Rout.save | 555 ++-
Matrix-0.999375-10/Matrix/tests/matprod.R | 4
Matrix-0.999375-10/Matrix/tests/matr-exp.R | 18
Matrix-0.999375-10/Matrix/tests/validObj.R | 27
Matrix-0.999375-9/Matrix/tests/dpoMatrix.R |only
Matrix-0.999375-9/Matrix/tests/simple.R |only
111 files changed, 5471 insertions(+), 2940 deletions(-)
More information about PredictiveRegression at CRAN
Permanent link
Author: Jasjeet Singh Sekhon
Diff between Matching versions 4.6-1 dated 2008-01-22 and 4.6-2 dated 2008-06-26
Title: Multivariate and Propensity Score Matching with Balance Optimization
Description: Provides functions for multivariate and propensity score matching
and for finding optimal balance based on a genetic search algorithm.
A variety of univariate and multivariate metrics to
determine if balance has been obtained are also provided.
DESCRIPTION | 6 +++---
R/Matching.R | 25 ++++++++++++++++---------
src/scythematrix.h | 8 +++++---
tests/AbadieImbens.Rout.save | 8 ++++----
tests/DehejiaWahba.Rout.save | 8 ++++----
tests/GenMatch.Rout.save | 12 ++++++------
tests/Matchby.Rout.save | 8 ++++----
7 files changed, 42 insertions(+), 33 deletions(-)
Author: Douglas Bates
Diff between MEMSS versions 0.2-4 dated 2006-10-03 and 0.3-4 dated 2008-06-26
Title: Data sets from Mixed-effects Models in S
Description: Data sets and sample analyses from Pinheiro and Bates,
"Mixed-effects Models in S and S-PLUS" (Springer, 2000).
DESCRIPTION | 10 ++---
data/Alfalfa.rda |binary
data/Assay.rda |binary
data/BodyWeight.rda |binary
data/CO2.rda |only
data/Cefamandole.rda |binary
data/Dialyzer.rda |binary
data/Earthquake.rda |binary
data/Fatigue.rda |binary
data/Gasoline.rda |binary
data/Glucose.rda |binary
data/Glucose2.rda |binary
data/Gun.rda |binary
data/IGF.rda |binary
data/Machines.rda |binary
data/MathAchSchool.rda |binary
data/MathAchieve.rda |binary
data/Meat.rda |binary
data/Milk.rda |binary
data/Muscle.rda |binary
data/Nitrendipene.rda |binary
data/Oats.rda |binary
data/Orange.rda |only
data/Orthodont.rda |binary
data/Ovary.rda |binary
data/Oxide.rda |binary
data/PBG.rda |binary
data/Phenobarb.rda |binary
data/Pixel.rda |binary
data/Quinidine.rda |binary
data/Rail.rda |binary
data/RatPupWeight.rda |binary
data/Relaxin.rda |binary
data/Remifentanil.rda |binary
data/Soybean.rda |binary
data/Spruce.rda |binary
data/Tetracycline1.rda |binary
data/Tetracycline2.rda |binary
data/Theoph.rda |only
data/Wafer.rda |binary
data/Wheat.rda |binary
data/Wheat2.rda |binary
data/ergoStool.rda |binary
man/Alfalfa.Rd | 10 +----
man/Assay.Rd | 28 ++++++++++------
man/BodyWeight.Rd | 10 +----
man/CO2.Rd |only
man/Cefamandole.Rd | 9 +++--
man/Dialyzer.Rd | 10 +----
man/Earthquake.Rd | 19 ++--------
man/Fatigue.Rd | 15 +++-----
man/Gasoline.Rd | 18 +++++++++-
man/Glucose.Rd | 5 +-
man/Glucose2.Rd | 8 ++--
man/Gun.Rd | 5 --
man/IGF.Rd | 1
man/Machines.Rd | 1
man/MathAchSchool.Rd | 3 -
man/MathAchieve.Rd | 3 -
man/Meat.Rd | 1
man/Milk.Rd | 1
man/Muscle.Rd | 1
man/Nitrendipene.Rd | 4 --
man/Oats.Rd | 1
man/Orange.Rd |only
man/Orthodont.Rd | 1
man/Ovary.Rd | 1
man/Oxide.Rd | 1
man/PBG.Rd | 1
man/Phenobarb.Rd | 1
man/Pixel.Rd | 8 ----
man/Quinidine.Rd | 1
man/Rail.Rd | 1
man/RatPupWeight.Rd | 12 +-----
man/Relaxin.Rd | 3 -
man/Remifentanil.Rd | 3 -
man/Soybean.Rd | 1
man/Spruce.Rd | 1
man/Tetracycline1.Rd | 3 -
man/Tetracycline2.Rd | 3 -
man/Theoph.Rd |only
man/Wafer.Rd | 3 -
man/Wheat.Rd | 3 -
man/Wheat2.Rd | 3 -
man/ergoStool.Rd | 12 ++----
tests/Pixel.R | 5 ++
tests/Pixel.Rout.save | 85 ++++++++++++++++++++++++++++++++++++++++---------
87 files changed, 153 insertions(+), 162 deletions(-)
Author: Jonathan M. Lees
Title: Topographic and Geologic Mapping
Description: Set of routines for making Map Projections (forward and inverse), Topographic Maps, Perspective plots, Geological Maps, geological map symbols, geological databases, interactive plotting and selection of focus regions.
Diff between GEOmap versions 1.0-8 dated 2008-04-16 and 1.0-9 dated 2008-06-26
DESCRIPTION | 4 +-- R/GEOTOPO.R | 2 - R/GETXprofile.R | 2 - R/XSECEQ.R | 8 ++++--- R/boundGEOmap.R | 27 +++++++++++++++++------- R/insertNA.R | 15 ++++++++----- R/insertvec.R |only R/plotGEOmapXY.R | 55 +++++++++++++++++++++++++++++++++++++------------- demo/weathermap.R | 3 +- inst/doc/GEOmap.pdf |binary man/BASICTOPOMAP.Rd | 5 +--- man/GEOTOPO.Rd | 23 ++++++++++++++++++-- man/GEOmap-package.Rd | 2 - man/Markup.Rd | 3 -- man/NSWath.Rd | 2 - man/OverTurned.Rd | 2 - man/SETPOLIMAP.Rd | 2 - man/XSECDEM.Rd | 2 - man/XSECwin.Rd | 3 +- man/bcars.Rd | 2 - man/geoLEGEND.Rd | 2 - man/getmem.Rd | 2 - man/insertNA.Rd | 3 -- man/insertvec.Rd |only man/inside.Rd | 3 -- man/lcgc.Rd | 3 -- man/utm.sphr.ll.Rd | 3 -- man/utm.sphr.xy.Rd | 3 -- 28 files changed, 115 insertions(+), 66 deletions(-)
Author: Guido Gay
Title: Read SPSS System files and produce valid DDI Version 3.0 documents
Description: Read SPSS System files and produce valid DDI Version 3.0 documents
Diff between spssDDI versions 0.1 dated 2008-06-09 and 0.1.1 dated 2008-06-25
DESCRIPTION | 4 R/writeDDI.R | 6 inst/doc/benchmark.xml | 68 inst/doc/benchmarkSpss16.pdf |binary inst/doc/benchmarkSpss16.sav |binary inst/doc/benchmarkSpss16pspp.pdf |binary inst/doc/benchmarkSpss16readSpssSav.pdf |binary inst/doc/essSample.sav |binary inst/doc/essSample.xml |80177 -------------------------------- man/readSpssSav.Rd | 41 man/spssDDI-package.Rd | 7 11 files changed, 798 insertions(+), 79505 deletions(-)
Author: Douglas Bates
Diff between lme4 versions 0.999375-17 dated 2008-06-23 and 0.999375-18 dated 2008-06-25
Title: Linear mixed-effects models using S4 classes
Description: Fit linear and generalized linear mixed-effects models.
lme4-0.999375-17/lme4/inst/doc/Notes.Rnw |only
lme4-0.999375-17/lme4/inst/doc/Notes.pdf |only
lme4-0.999375-17/lme4/tests/lmer.R |only
lme4-0.999375-17/lme4/tests/lmer.Rout.save |only
lme4-0.999375-18/lme4/ChangeLog | 17 +++++
lme4-0.999375-18/lme4/DESCRIPTION | 8 +-
lme4-0.999375-18/lme4/NAMESPACE | 10 +--
lme4-0.999375-18/lme4/inst/doc/Implementation.Rnw | 2
lme4-0.999375-18/lme4/inst/doc/Implementation.pdf |binary
lme4-0.999375-18/lme4/inst/doc/PLSvGLS.Rnw |only
lme4-0.999375-18/lme4/inst/doc/PLSvGLS.pdf |only
lme4-0.999375-18/lme4/inst/doc/Theory.pdf |binary
lme4-0.999375-18/lme4/man/mer-class.Rd | 73 +++++++++++++---------
lme4-0.999375-18/lme4/man/merMCMC-class.Rd | 9 ++
lme4-0.999375-18/lme4/man/refit.Rd | 22 +++---
lme4-0.999375-18/lme4/tests/lmer-1.R |only
lme4-0.999375-18/lme4/tests/lmer-1.Rout.save |only
lme4-0.999375-18/lme4/tests/lmer-conv.R |only
18 files changed, 91 insertions(+), 50 deletions(-)
Author: Kurt Hornik, with contributions from Christian Buchta,
Torsten Hothorn, Alexandros Karatzoglou, David Meyer, and
Achim Zeileis
Title: R/Weka interface
Description: An R interface to Weka (Version 3.5.7).
Weka is a collection of machine learning algorithms for data mining
tasks written in Java, containing tools for data pre-processing,
classification, regression, clustering, association rules, and
visualization. Both the R interface and Weka itself are contained
in the RWeka package. For more information on Weka see
http://www.cs.waikato.ac.nz/~ml/weka/.
Diff between RWeka versions 0.3-11 dated 2008-04-23 and 0.3-12 dated 2008-06-25
CHANGELOG | 81 +++++++++++++++++++++++++++++++++++++++++++++++++++++++--- DESCRIPTION | 6 ++-- R/evaluate.R | 20 ++++++++++---- inst/CITATION | 4 ++ 4 files changed, 97 insertions(+), 14 deletions(-)
Author: Aaron A. King
Title: Subplex optimization algorithm
Description: The subplex algorithm for unconstrained optimization, developed by Tom Rowan.
Diff between subplex versions 1.1-1 dated 2008-06-24 and 1.1-2 dated 2008-06-25
DESCRIPTION | 6 +++--- R/subplex.R | 1 - 2 files changed, 3 insertions(+), 4 deletions(-)
Author: Luke Tierney, A. J. Rossini, Na Li, H. Sevcikova
Title: Simple Network of Workstations
Description: Support for simple parallel computing in R.
Diff between snow versions 0.2-9 dated 2007-09-26 and 0.3-0 dated 2008-06-25
DESCRIPTION | 6 - R/nws.R |only R/snow.R | 152 ++++++++++++++++++++++++++++++-------------------- README | 45 ++++++++------ inst/RMPISNOW | 16 +++-- inst/RNWSnode.sh |only man/snow-cluster.Rd | 26 ++++---- man/snow-internal.Rd | 47 +++++++++------ man/snow-startstop.Rd | 14 ++-- 9 files changed, 184 insertions(+), 122 deletions(-)
Author: Ivailo Partchev
Title: Simple interface to the estimation and plotting of IRT models
Description: Provides a simple common interface to the estimation of item parameters
in IRT models for binary responses with three different programs (ICL,
BILOG-MG, and ltm, and a variety of functions useful with IRT models.
Diff between irtoys versions 0.1.0 dated 2007-05-08 and 0.1.1 dated 2008-06-25
DESCRIPTION | 6 +++--- R/irtoys.r | 19 +++++++++++++------ man/eap.Rd | 2 +- man/irtoys.package.Rd | 20 +++++++++++++++----- 4 files changed, 32 insertions(+), 15 deletions(-)
Author: Lester L. Yuan
Title: Compute biological inferences
Description: Imports benthic count data, reformats this data, and computes environmental inferences from this data.
Diff between bio.infer versions 1.1-2 dated 2007-07-13 and 1.1-3 dated 2008-06-25
bio.infer-1.1-2/bio.infer/R/load.revised.R |only bio.infer-1.1-2/bio.infer/man/load.revised.Rd |only bio.infer-1.1-3/bio.infer/DESCRIPTION | 8 ++++---- bio.infer-1.1-3/bio.infer/R/get.otu.R | 2 +- 4 files changed, 5 insertions(+), 5 deletions(-)
Author: A.I. McLeod and Ying Zhang
Title: Subset AR Model Fitting
Description: Complete functions are given for model identification, estimation and diagnostic checking for AR and subset AR models. Two types of subset AR models are supported. One family of subset AR models, denoted by ARp, is formed by taking subet of the original AR coefficients and in the other, denoted by ARz, subsets of the partial autocorrelations are used. The main advantage of the ARz model is its applicability to very large order models.
Diff between FitAR versions 1.6 dated 2008-06-19 and 1.7 dated 2008-06-25
DESCRIPTION | 6 +- index | 2 man/FitAR-package.Rd | 133 +++++++++++++++++++++++++-------------------------- 3 files changed, 71 insertions(+), 70 deletions(-)
Author: Hai Liu
Diff between COZIGAM versions 1.0-1 dated 2008-03-21 and 1.0-2 dated 2008-06-25
Title: Constrained Zero-Inflated Generalized Additive Model
Description: COnstrained Zero-Inflated Generalized Additive Model (COZIGAM) fitting with associated model plotting and prediction
COZIGAM-1.0-1/COZIGAM/data |only
COZIGAM-1.0-1/COZIGAM/man/COZIGAM.dis.rd |only
COZIGAM-1.0-1/COZIGAM/man/alaska.rd |only
COZIGAM-1.0-1/COZIGAM/man/eggdata.rd |only
COZIGAM-1.0-1/COZIGAM/man/testfn.rd |only
COZIGAM-1.0-2/COZIGAM/DESCRIPTION | 8 -
COZIGAM-1.0-2/COZIGAM/R/cozigam.R | 23 ++---
COZIGAM-1.0-2/COZIGAM/man/COZIGAM.cts.rd | 15 +--
COZIGAM-1.0-2/COZIGAM/man/cozigam.rd | 113 +++++++++++----------------
COZIGAM-1.0-2/COZIGAM/man/plot.cozigam.rd | 49 +++++------
COZIGAM-1.0-2/COZIGAM/man/predict.cozigam.rd | 42 +++++-----
COZIGAM-1.0-2/COZIGAM/man/print.cozigam.rd | 5 -
COZIGAM-1.0-2/COZIGAM/man/summary.cozigam.rd | 69 ++++++++--------
COZIGAM-1.0-2/COZIGAM/man/test.rd |only
14 files changed, 155 insertions(+), 169 deletions(-)
Author: Aaron A. King
Title: Subplex optimization algorithm
Description: The subplex algorithm for unconstrained optimization, developed by Tom Rowan.
Diff between subplex versions 1.0-11 dated 2008-05-19 and 1.1-1 dated 2008-06-24
DESCRIPTION | 8 ++-- R/subplex.R | 20 +++++++++--- man/subplex.Rd | 94 ++++++++++++++++++++++++++++++++++++++------------------- 3 files changed, 82 insertions(+), 40 deletions(-)
Author: Roger Bivand and Danlin Yu
Title: Geographically weighted regression
Description: Functions for computing geographically weighted
regressions based on work by Chris
Brunsdon, Martin Charlton and Stewart Fortheringham,
http://ncg.nuim.ie/ncg/GWR/index.htm
Diff between spgwr versions 0.5-2 dated 2008-06-15 and 0.5-3 dated 2008-06-24
ChangeLog | 20 +++++++++++++++++--- DESCRIPTION | 30 +++++++++++++++--------------- INDEX | 32 ++++++++++++++++---------------- R/gwr.R | 14 ++++++++------ R/gwr.cv.R | 41 ++++++++++++++++++++++++++++++----------- R/gwr1.R | 3 ++- R/zzz.R | 2 +- inst/ChangeLog | 24 +++++++++++++++++++++++- man/gwr.Rd | 2 +- man/gwr.cv.Rd | 3 ++- 10 files changed, 115 insertions(+), 56 deletions(-)
Author: Deepayan Sarkar
Diff between lattice versions 0.17-8 dated 2008-05-19 and 0.17-10 dated 2008-06-24
Title: Lattice Graphics
Description: Implementation of Trellis Graphics. See ?Lattice for a
brief introduction
DESCRIPTION | 6 ++---
R/bwplot.R | 4 +--
R/cloud.R | 11 +++++----
R/common.R | 37 ++++++++++++++++++++++++++++++++
R/densityplot.R | 2 -
R/histogram.R | 2 -
R/layout.R | 4 +--
R/levelplot.R | 21 +++++++++++-------
R/miscellaneous.R | 12 ++++++++--
R/qq.R | 4 +--
R/qqmath.R | 2 -
R/scales.R | 4 +--
R/xyplot.R | 4 +--
SvnLog | 62 ++++++++++++++++++++++++++++++++++++++++++++++++++++++
po/R-lattice.pot | 2 -
15 files changed, 145 insertions(+), 32 deletions(-)
Author: Chris Fraley, Adrian E. Raftery, J. McLean Sloughter,
Tilmann Gneiting, Michael Polakowski, University of Washington
Title: Probabilistic Forecasting using Ensembles and Bayesian Model Averaging
Description: Bayesian Model Averaging to create probabilistic
forecasts from ensemble forecasts and weather observations.
Diff between ensembleBMA versions 3.0-1 dated 2008-06-02 and 3.0-2 dated 2008-06-24
ensembleBMA-3.0-1/ensembleBMA/R/quantileForecast.ensembleBMAgamma.R |only ensembleBMA-3.0-2/ensembleBMA/DESCRIPTION | 4 ensembleBMA-3.0-2/ensembleBMA/R/ensembleBMAnormal.R | 4 ensembleBMA-3.0-2/ensembleBMA/R/fitBMAgamma0.R | 2 ensembleBMA-3.0-2/ensembleBMA/R/trainingData.R | 109 +++++++--- ensembleBMA-3.0-2/ensembleBMA/man/ensembleBMAnormal.Rd | 8 ensembleBMA-3.0-2/ensembleBMA/man/trainingData.Rd | 11 - 7 files changed, 102 insertions(+), 36 deletions(-)
Author: Andrew Gelman
Diff between arm versions 1.1-7 dated 2008-06-10 and 1.1-8 dated 2008-06-24
Title: Data Analysis Using Regression and Multilevel/Hierarchical Models
Description: R functions for processing lm, glm, mer and polr outputs.
arm-1.1-7/arm/R/mcsamp.R |only
arm-1.1-7/arm/man/mcsamp.Rd |only
arm-1.1-8/arm/CHANGELOG | 11 ++++
arm-1.1-8/arm/DESCRIPTION | 8 +--
arm-1.1-8/arm/NAMESPACE | 2
arm-1.1-8/arm/R/AllClass.R | 1
arm-1.1-8/arm/R/AllGeneric.R | 21 ++++---
arm-1.1-8/arm/R/AllInternal.R | 6 +-
arm-1.1-8/arm/R/bayesglm.R | 24 ++++-----
arm-1.1-8/arm/R/display.R | 85 ++++++++++++++++---------------
arm-1.1-8/arm/R/se.coef.R | 78 ++++++++++++++---------------
arm-1.1-8/arm/R/sigma.hat.R | 58 +++++++++++----------
arm-1.1-8/arm/R/sim.R | 96 ++++++++++++++++++------------------
arm-1.1-8/arm/man/coefplot.Rd | 13 ++--
arm-1.1-8/arm/man/display.Rd | 41 ++++++---------
arm-1.1-8/arm/man/multicomp.plot.Rd | 9 +--
arm-1.1-8/arm/man/se.coef.Rd | 11 ----
arm-1.1-8/arm/man/sigma.hat.Rd | 10 +--
arm-1.1-8/arm/man/sim.Rd | 12 +---
19 files changed, 239 insertions(+), 247 deletions(-)
Author: Adrian Baddeley
Diff between spatstat versions 1.13-2 dated 2008-05-16 and 1.13-3 dated 2008-06-23
Title: Spatial Point Pattern analysis, model-fitting, simulation, tests
Description: A package for analysing spatial data,
mainly Spatial Point Patterns, including multitype/marked points
and spatial covariates, in any two-dimensional spatial region.
Contains functions for plotting spatial data,
exploratory data analysis, model-fitting, simulation,
spatial sampling, model diagnostics,
and formal inference. Data types include point patterns,
line segment patterns, spatial windows, and
pixel images. Point process models can be
fitted to point pattern data. Cluster type models are fitted
by the method of minimum contrast. Very general Gibbs point
process models can be fitted to point pattern data
using a function ppm similar to lm or glm. Models may
include dependence on covariates, interpoint interaction
and dependence on marks. Fitted models can be simulated automatically.
Also provides facilities for formal inference (such as chi-squared
tests) and model diagnostics (including simulation
envelopes, residuals, residual plots and Q-Q plots).
DESCRIPTION | 6 +-
INDEX | 1
R/Kinhom.S | 40 +-----------------
R/Kmeasure.R | 6 ++
R/Kmulti.S | 23 +++++++---
R/Kmulti.inhom.R | 34 ++++++++--------
R/blur.R |only
R/closepairs.R | 106 +++++++++++++++++++++++++++++++++-----------------
R/rescue.rectangle.R | 5 +-
R/window.S | 14 +++++-
man/00spatstat.Rd | 1
man/Kcross.Rd | 5 +-
man/Kcross.inhom.Rd | 4 +
man/Kdot.Rd | 7 ++-
man/Kdot.inhom.Rd | 12 +++--
man/Kinhom.Rd | 9 ++--
man/blur.Rd |only
man/internal.Rd | 4 +
man/marktable.Rd | 4 -
src/closepair.c | 8 +--
tests/gcc323.R |only
tests/marcelino.R |only
tests/marcelinodata.R |only
23 files changed, 168 insertions(+), 121 deletions(-)
Author: Adrian Baddeley
Diff between scuba versions 1.1-9 dated 2007-10-27 and 1.2-1 dated 2008-06-23
Title: Scuba diving calculations and decompression models
Description: dive profiles, decompression models and gas calculations
for scuba diving
scuba-1.1-9/scuba/R/scuba.R |only
scuba-1.1-9/scuba/data/Halftimes.R |only
scuba-1.1-9/scuba/data/Mvalues.R |only
scuba-1.1-9/scuba/man/Halftimes.Rd |only
scuba-1.1-9/scuba/man/Mvalues.Rd |only
scuba-1.2-1/scuba/DESCRIPTION | 10 -
scuba-1.2-1/scuba/INDEX | 17 +-
scuba-1.2-1/scuba/R/dive.R |only
scuba-1.2-1/scuba/R/gas.R |only
scuba-1.2-1/scuba/R/haldane.R |only
scuba-1.2-1/scuba/R/hm.R |only
scuba-1.2-1/scuba/R/oxtox.R |only
scuba-1.2-1/scuba/data/Bookspan.R |only
scuba-1.2-1/scuba/man/00scuba.Rd | 257 ++++++++++++++++++++++++-------
scuba-1.2-1/scuba/man/Bookspan.Rd |only
scuba-1.2-1/scuba/man/Workman65.Rd | 7
scuba-1.2-1/scuba/man/chop.dive.Rd |only
scuba-1.2-1/scuba/man/depths.dive.Rd |only
scuba-1.2-1/scuba/man/dive.Rd | 86 ++++++++--
scuba-1.2-1/scuba/man/durations.dive.Rd |only
scuba-1.2-1/scuba/man/haldane.Rd | 142 +++++++++++++----
scuba-1.2-1/scuba/man/hm.Rd |only
scuba-1.2-1/scuba/man/internal.Rd | 30 ++-
scuba-1.2-1/scuba/man/is.nitrox.Rd |only
scuba-1.2-1/scuba/man/mod.Rd | 16 +
scuba-1.2-1/scuba/man/ndl.Rd |only
scuba-1.2-1/scuba/man/nitrox.Rd | 14 +
scuba-1.2-1/scuba/man/oxtox.Rd | 16 +
scuba-1.2-1/scuba/man/param.Rd |only
scuba-1.2-1/scuba/man/pickmodel.Rd |only
scuba-1.2-1/scuba/man/saturated.state.Rd |only
scuba-1.2-1/scuba/man/showstates.Rd | 19 --
scuba-1.2-1/scuba/man/tanklist.Rd |only
scuba-1.2-1/scuba/man/times.dive.Rd |only
scuba-1.2-1/scuba/man/trimix.Rd |only
35 files changed, 477 insertions(+), 137 deletions(-)
Author: Hans Peter Wolf
Diff between relax versions 1.081 dated 2007-10-08 and 1.083 dated 2008-06-23
Title: relax -- R Editor for Literate Analysis and lateX
Description: package relax contains some functions for report
writing, presentation, and programming: relax(), tangleR(),
weaveR(), slider(). "relax" is written in R and Tcl/Tk.
relax creates a new window (top level Tcl/Tk widget) that consists
of two text fields and some buttons and menus.
Text (chunks) and code (chunks) are inserted in the upper text field (report field).
Code chunks are evaluated by clicking on EvalRCode.
Results are shown in the lower text field (output field) and
will be transfered to the report field by pressing on Insert.
In this way you get correct reports. These reports can be
loaded again in cause of presentation, modification and result checking.
tangleR() and weaveR() implement a plain kind of tangling
and weaving. slider() is designed to define sliders for interactive
experiments in a simple way.
The syntax rules of code chunks and text chunks are defined by
the noweb system proposed by Norman Ramsey
(http://www.eecs.harvard.edu/~nr/noweb/intro.html).
For integrating jpeg graphics into the text field you need the
Tcl/Tk Img package of Jan Nijtmans
(see: http://members.chello.nl/~j.nijtmans/img.html or
http://tkimg.sourceforge.net/, the package is found on
http://sourceforge.net/projects/tkimg).
The license terms concerning the img package are found in
the source file of the package, see: relax/src/tkimg1.3.tar.gz.
The windows version of relax
contains the Tcl/Tk img package, so no further installations
have to be done.
relax-1.081/relax/inst/lib/img1.3 |only
relax-1.083/relax/DESCRIPTION | 29
relax-1.083/relax/R/relax.R | 965 ++++++++++++++++++++------
relax-1.083/relax/R/slider.R | 121 ++-
relax-1.083/relax/R/tangleR.R | 20
relax-1.083/relax/R/weaveR.R | 59 -
relax-1.083/relax/R/weaveRhtml.R | 24
relax-1.083/relax/inst/config/settings.init | 5
relax-1.083/relax/inst/config/settings.relax | 5
relax-1.083/relax/inst/lib/LaTeX-head.tex | 9
relax-1.083/relax/inst/src/relax.rev | 995 ++++++++++++++++++++-------
relax-1.083/relax/inst/src/tkimg1.3.tar.gz |only
relax-1.083/relax/inst/src/webR.rev | 96 +-
relax-1.083/relax/man/relax.Rd | 2
relax-1.083/relax/man/slider.Rd | 56 -
15 files changed, 1722 insertions(+), 664 deletions(-)
Author: Jim Lemon
Diff between prettyR versions 1.3-1 dated 2008-06-16 and 1.3-2 dated 2008-06-23
Title: Pretty descriptive stats.
Description: Functions for conventionally formatted descriptive stats, and
to format R output as HTML.
DESCRIPTION | 8 ++++----
R/describe.R | 7 +++++--
man/AddNav.Rd | 2 +-
man/HTMLgraph.Rd | 2 +-
man/R2html.Rd | 7 ++++++-
man/StartNav.Rd | 2 +-
man/createIndxFile.Rd | 2 +-
7 files changed, 19 insertions(+), 11 deletions(-)
Author: Felix Andrews
Diff between playwith versions 0.8-55 dated 2008-06-18 and 0.8-56 dated 2008-06-23
Title: A GUI for interactive plots using GTK+
Description: A graphical user interface for viewing and interacting with R plots.
It tries to work out the structure of a plot, in order to interact with it.
The built-in features include: navigating the data space, identifying data points,
editing and annotating the plot, and saving to a file. New tools can be defined.
This package is based on RGtk2, and so requires the GTK+ libraries.
DESCRIPTION | 6 +--
R/playTools.R | 12 ++++---
R/playwith.R | 89 +++++++++++++++++++++++++-------------------------------
inst/NEWS | 8 +++++
man/playwith.Rd | 8 ++---
5 files changed, 63 insertions(+), 60 deletions(-)
Author: Douglas Bates
Diff between lme4 versions 0.99875-9 dated 2007-10-14 and 0.999375-17 dated 2008-06-23
Title: Linear mixed-effects models using S4 classes
Description: Fit linear and generalized linear mixed-effects models.
lme4-0.99875-9/lme4/R/gsummary.R |only
lme4-0.99875-9/lme4/R/pedigree.R |only
lme4-0.99875-9/lme4/inst/doc/auto |only
lme4-0.99875-9/lme4/man/gsummary.Rd |only
lme4-0.99875-9/lme4/man/hatTrace.Rd |only
lme4-0.99875-9/lme4/man/lmer-class.Rd |only
lme4-0.99875-9/lme4/man/nlmer-class.Rd |only
lme4-0.99875-9/lme4/man/nlmer.Rd |only
lme4-0.99875-9/lme4/man/pedigree-class.Rd |only
lme4-0.99875-9/lme4/man/pedigree.Rd |only
lme4-0.99875-9/lme4/man/pooledSD.Rd |only
lme4-0.99875-9/lme4/src/Wishart.c |only
lme4-0.99875-9/lme4/src/Wishart.h |only
lme4-0.99875-9/lme4/src/glmer.c |only
lme4-0.99875-9/lme4/src/glmer.h |only
lme4-0.99875-9/lme4/src/lme4_utils.c |only
lme4-0.99875-9/lme4/src/lme4_utils.h |only
lme4-0.99875-9/lme4/src/lmer2.c |only
lme4-0.99875-9/lme4/src/lmer2.h |only
lme4-0.99875-9/lme4/src/pedigree.c |only
lme4-0.99875-9/lme4/src/pedigree.h |only
lme4-0.99875-9/lme4/src/unused |only
lme4-0.999375-17/lme4/ChangeLog | 605 +++-
lme4-0.999375-17/lme4/DESCRIPTION | 17
lme4-0.999375-17/lme4/Done | 29
lme4-0.999375-17/lme4/NAMESPACE | 65
lme4-0.999375-17/lme4/NEWS |only
lme4-0.999375-17/lme4/R/AllClass.R | 255 -
lme4-0.999375-17/lme4/R/AllGeneric.R | 29
lme4-0.999375-17/lme4/R/carryOver.R | 150
lme4-0.999375-17/lme4/R/jml.R |only
lme4-0.999375-17/lme4/R/lmList.R | 48
lme4-0.999375-17/lme4/R/lmer.R | 2883 +++++++++----------
lme4-0.999375-17/lme4/R/mlirt.R | 136
lme4-0.999375-17/lme4/ToDo | 26
lme4-0.999375-17/lme4/data/Dyestuff.rda |only
lme4-0.999375-17/lme4/data/Dyestuff2.rda |only
lme4-0.999375-17/lme4/data/Pastes.rda |only
lme4-0.999375-17/lme4/data/Penicillin.rda |only
lme4-0.999375-17/lme4/inst/doc/Doxyfile | 132
lme4-0.999375-17/lme4/inst/doc/Implementation.Rnw | 216 -
lme4-0.999375-17/lme4/inst/doc/Implementation.pdf |binary
lme4-0.999375-17/lme4/inst/doc/Notes.Rnw |only
lme4-0.999375-17/lme4/inst/doc/Notes.pdf |only
lme4-0.999375-17/lme4/inst/doc/Theory.Rnw | 412 +-
lme4-0.999375-17/lme4/inst/doc/Theory.pdf |binary
lme4-0.999375-17/lme4/man/Dyestuff.Rd |only
lme4-0.999375-17/lme4/man/HPDinterval.Rd |only
lme4-0.999375-17/lme4/man/Pastes.Rd |only
lme4-0.999375-17/lme4/man/Penicillin.Rd |only
lme4-0.999375-17/lme4/man/VarCorr.Rd | 34
lme4-0.999375-17/lme4/man/cake.Rd | 6
lme4-0.999375-17/lme4/man/cbpp.Rd | 11
lme4-0.999375-17/lme4/man/fixef.Rd | 8
lme4-0.999375-17/lme4/man/lmList-class.Rd | 6
lme4-0.999375-17/lme4/man/lmList.Rd | 7
lme4-0.999375-17/lme4/man/lmer.Rd | 166 -
lme4-0.999375-17/lme4/man/mcmcsamp.Rd | 69
lme4-0.999375-17/lme4/man/mer-class.Rd |only
lme4-0.999375-17/lme4/man/merMCMC-class.Rd |only
lme4-0.999375-17/lme4/man/ranef.Rd | 40
lme4-0.999375-17/lme4/man/refit.Rd |only
lme4-0.999375-17/lme4/src/Syms.h | 45
lme4-0.999375-17/lme4/src/init.c | 144
lme4-0.999375-17/lme4/src/lmer.c | 3310 ++++++++++++----------
lme4-0.999375-17/lme4/src/lmer.h | 48
lme4-0.999375-17/lme4/tests/lmer.R | 110
lme4-0.999375-17/lme4/tests/lmer.Rout.save |only
lme4-0.999375-17/lme4/tests/nlmer.R |only
lme4-0.999375-17/lme4/tests/nlmer.Rout.save |only
70 files changed, 5068 insertions(+), 3939 deletions(-)
Author: Laercio Junio da Silva
Diff between laercio versions 0.9-1 dated 2008-06-11 and 0.9-2 dated 2008-06-23
Title: Duncan test, Tukey test and Scott-Knott test.
Description: The package contains functions to compare and group means.
DESCRIPTION | 10 ++--
R/LScottKnott.R | 2
R/LScottKnott.aov.r | 103 +++++++++++++++++++++++++++++++------------------
R/ldata.R | 2
man/LDuncan.Rd | 7 +--
man/LScottKnott.Rd | 9 ++--
man/LTukey.Rd | 6 +-
man/laercio-package.Rd | 8 +--
man/ldata.Rd | 6 +-
9 files changed, 95 insertions(+), 58 deletions(-)
Author: Jonathan M. Lees
Title: Seismic Time Series Analysis Tools
Description: Multiple interactive codes to analyze seismic data, via, spectrum analysis, wavelet transforms, particle motion, hodograms.
Diff between RSEIS versions 1.1-0 dated 2008-04-27 and 1.1-1 dated 2008-06-23
DESCRIPTION | 4 +-- R/GLUE.GET.seis.R | 4 +-- R/PICK.GEN.R | 56 ++++++++++++++++++++++++++++++++++++++------------- R/SPECT.drive.R | 3 +- R/ZGET.sac.R |only R/butfilt.R | 13 +++++++++++ R/choosfilt.R | 4 ++- R/dogetsac.R |only R/recdate.R | 10 +++++++-- R/screens.R | 3 +- R/seisorder.R |only R/wlet.drive.R | 4 ++- inst/doc/hodo.pdf |binary inst/doc/hodo.tex |only inst/doc/rseis.pdf |binary man/Comp1Dvel.Rd | 3 -- man/GAZI.Rd | 3 -- man/MTMplot.Rd | 5 ---- man/Mmorlet.Rd | 2 - man/PLOT.TTCURVE.Rd | 2 - man/PSTLTcurve.Rd | 6 +---- man/RSEIS-package.Rd | 2 - man/ReadSet.Instr.Rd | 2 - man/SEARCHPIX.Rd | 2 - man/TTteles.Rd | 2 - man/ZGET.sac.Rd |only man/addtix.Rd | 3 -- man/brune.doom.Rd | 7 ++++-- man/brune.func.Rd | 6 ++++- man/butfilt.Rd | 2 - man/complex.hodo.Rd | 2 - man/dogetsac.Rd |only man/envelope.Rd | 2 - man/getphaselag2.Rd | 2 - man/gwpix2ypx.Rd | 1 man/hodogram.Rd | 2 - man/idpoints.hodo.Rd | 3 -- man/peaks.Rd | 2 - man/plotwlet.Rd | 2 - man/prep1wig.Rd | 45 ++++++++++++++++++++++++++++++++++++++++ man/prepSEIS.Rd | 56 ++++++++++++++++++++++++++++++++++++++++++++++++++- man/recdate.Rd | 11 +++++++++- man/seisorder.Rd |only man/selAPX.Rd | 2 - man/setwelch.Rd | 3 -- man/wlet.do.Rd | 2 - src/get_sacNhead.c |only 47 files changed, 216 insertions(+), 67 deletions(-)
Author: Hector Corrada Bravo
Title: R interface to CPLEX
Description: R interface to CPLEX solvers for linear, quadratic, and
(linear and quadratic) mixed integer programs. A working
installation of CPLEX is required for usage of the Rcplex
package. See the file "INSTALL" for details on how to install
the Rcplex package in Linux/Unix-like systems and Windows
systems. Support for sparse matrices is provided by an included
S3-style class "simple_triplet_matrix" and by objects from the
Matrix package class hierarchy.
Diff between Rcplex versions 0.1-2 dated 2008-06-09 and 0.1-3 dated 2008-06-23
DESCRIPTION | 13 ++++++------- configure | 55 +++++++++++++++++++++---------------------------------- configure.win |only inst/INSTALL | 33 ++++++++++++++++++++++++--------- inst/README | 3 +-- src/Makevars.win |only src/Rcplex.c | 9 ++++++++- 7 files changed, 60 insertions(+), 53 deletions(-)
Author: David Harte
Title: Hidden Markov Models
Description: Contains functions for the analysis of Discrete Time Hidden Markov Models, Markov Modulated GLMs and the Markov Modulated Poisson Process. It includes functions for simulation, parameter estimation, and the Viterbi algorithm. See the topic "HiddenMarkov" for an introduction to the package, and "Changes" for a list of recent changes. The algorithms are based of those of Walter Zucchini.
Diff between HiddenMarkov versions 1.2-4 dated 2008-02-18 and 1.2-5 dated 2008-06-23
HiddenMarkov-1.2-4/HiddenMarkov/man/Overview.Rd |only HiddenMarkov-1.2-4/HiddenMarkov/man/changes.Rd |only HiddenMarkov-1.2-5/HiddenMarkov/DESCRIPTION | 8 ++++---- HiddenMarkov-1.2-5/HiddenMarkov/R/dthmm.R | 2 +- HiddenMarkov-1.2-5/HiddenMarkov/man/Changes.Rd |only HiddenMarkov-1.2-5/HiddenMarkov/man/HiddenMarkov.Rd |only HiddenMarkov-1.2-5/HiddenMarkov/man/neglogLik.Rd | 2 +- HiddenMarkov-1.2-5/HiddenMarkov/man/simulate.Rd | 2 +- 8 files changed, 7 insertions(+), 7 deletions(-)
Author: Tom Kincaid
Diff between spsurvey versions 1.6.2 dated 2007-03-09 and 2.0 dated 2008-06-20
Title: Spatial Survey Design and Analysis
Description: This group of functions implements algorithms required for design
and analysis of probability surveys such as those utilized by the U.S.
Environmental Protection Agency's Environmental Monitoring and Assessment
Program (EMAP).
spsurvey-1.6.2/spsurvey/R/psurvey.analysis.s |only
spsurvey-1.6.2/spsurvey/R/relrisk.s |only
spsurvey-1.6.2/spsurvey/man/psurvey.analysis.Rd |only
spsurvey-1.6.2/spsurvey/man/relrisk.Rd |only
spsurvey-1.6.2/spsurvey/spsurvey.Rcheck |only
spsurvey-2.0/spsurvey/DESCRIPTION | 10
spsurvey-2.0/spsurvey/INDEX | 15
spsurvey-2.0/spsurvey/NAMESPACE | 2
spsurvey-2.0/spsurvey/R/cat.analysis.s | 418 +++---
spsurvey-2.0/spsurvey/R/category.est.s | 545 +++------
spsurvey-2.0/spsurvey/R/catvar.prop.s | 143 +-
spsurvey-2.0/spsurvey/R/catvar.size.s | 143 +-
spsurvey-2.0/spsurvey/R/cdf.decon.s | 802 +++++++------
spsurvey-2.0/spsurvey/R/cdf.est.s | 736 ++++++------
spsurvey-2.0/spsurvey/R/cdf.plot.s |only
spsurvey-2.0/spsurvey/R/cdf.prop.s | 144 +-
spsurvey-2.0/spsurvey/R/cdf.size.prop.s | 152 +-
spsurvey-2.0/spsurvey/R/cdf.size.total.s | 184 +--
spsurvey-2.0/spsurvey/R/cdf.test.prop.s |only
spsurvey-2.0/spsurvey/R/cdf.test.s | 1441 +++++++++++++++++++-----
spsurvey-2.0/spsurvey/R/cdf.test.size.prop.s |only
spsurvey-2.0/spsurvey/R/cdf.total.s | 177 +-
spsurvey-2.0/spsurvey/R/cdfvar.prop.s | 554 ++++-----
spsurvey-2.0/spsurvey/R/cdfvar.size.prop.s | 570 ++++-----
spsurvey-2.0/spsurvey/R/cdfvar.size.total.s | 648 +++++-----
spsurvey-2.0/spsurvey/R/cdfvar.test.s | 422 +++++--
spsurvey-2.0/spsurvey/R/cdfvar.total.s | 631 +++++-----
spsurvey-2.0/spsurvey/R/cont.analysis.s | 496 ++++----
spsurvey-2.0/spsurvey/R/cont.cdfplot.s |only
spsurvey-2.0/spsurvey/R/cont.cdftest.s |only
spsurvey-2.0/spsurvey/R/dcdf.prop.s | 132 +-
spsurvey-2.0/spsurvey/R/dcdf.size.prop.s | 43
spsurvey-2.0/spsurvey/R/dcdf.size.total.s | 62 -
spsurvey-2.0/spsurvey/R/dcdf.total.s | 165 +-
spsurvey-2.0/spsurvey/R/dcdfvar.prop.s | 170 +-
spsurvey-2.0/spsurvey/R/dcdfvar.size.prop.s | 177 +-
spsurvey-2.0/spsurvey/R/dcdfvar.size.total.s | 229 ++-
spsurvey-2.0/spsurvey/R/dcdfvar.total.s | 193 +--
spsurvey-2.0/spsurvey/R/dframe.check.s | 80 -
spsurvey-2.0/spsurvey/R/grts.r | 107 +
spsurvey-2.0/spsurvey/R/grtsarea.r | 2
spsurvey-2.0/spsurvey/R/grtslin.r | 2
spsurvey-2.0/spsurvey/R/grtspts.r | 24
spsurvey-2.0/spsurvey/R/input.check.s | 237 +--
spsurvey-2.0/spsurvey/R/interp.axis.s |only
spsurvey-2.0/spsurvey/R/interp.cdf.s |only
spsurvey-2.0/spsurvey/R/irs.r | 33
spsurvey-2.0/spsurvey/R/irsarea.r | 2
spsurvey-2.0/spsurvey/R/irslin.r | 2
spsurvey-2.0/spsurvey/R/marinus.s | 47
spsurvey-2.0/spsurvey/R/onLoad.r | 2
spsurvey-2.0/spsurvey/R/read.dbf.r | 8
spsurvey-2.0/spsurvey/R/read.sas.s |only
spsurvey-2.0/spsurvey/R/read.shape.r | 6
spsurvey-2.0/spsurvey/R/relrisk.analysis.s |only
spsurvey-2.0/spsurvey/R/relrisk.est.s |only
spsurvey-2.0/spsurvey/R/relrisk.var.s | 56
spsurvey-2.0/spsurvey/R/sp2shape.r | 23
spsurvey-2.0/spsurvey/R/spsurvey.analysis.s |only
spsurvey-2.0/spsurvey/R/total.est.s | 396 +++---
spsurvey-2.0/spsurvey/R/total.var.s | 152 +-
spsurvey-2.0/spsurvey/R/warnprnt.s | 2
spsurvey-2.0/spsurvey/inst/doc/CHANGES.pdf |binary
spsurvey-2.0/spsurvey/inst/doc/README.pdf |binary
spsurvey-2.0/spsurvey/inst/doc/UserGuide.pdf |binary
spsurvey-2.0/spsurvey/man/cat.analysis.Rd | 143 +-
spsurvey-2.0/spsurvey/man/category.est.Rd | 315 ++---
spsurvey-2.0/spsurvey/man/cdf.decon.Rd | 79 -
spsurvey-2.0/spsurvey/man/cdf.est.Rd | 364 +++---
spsurvey-2.0/spsurvey/man/cdf.plot.Rd |only
spsurvey-2.0/spsurvey/man/cdf.test.Rd | 312 +++--
spsurvey-2.0/spsurvey/man/cont.analysis.Rd | 151 +-
spsurvey-2.0/spsurvey/man/cont.cdfplot.Rd |only
spsurvey-2.0/spsurvey/man/cont.cdftest.Rd |only
spsurvey-2.0/spsurvey/man/grts.Rd | 21
spsurvey-2.0/spsurvey/man/grtsarea.Rd | 2
spsurvey-2.0/spsurvey/man/grtslin.Rd | 2
spsurvey-2.0/spsurvey/man/grtspts.Rd | 2
spsurvey-2.0/spsurvey/man/irs.Rd | 4
spsurvey-2.0/spsurvey/man/irsarea.Rd | 2
spsurvey-2.0/spsurvey/man/irslin.Rd | 2
spsurvey-2.0/spsurvey/man/marinus.Rd | 4
spsurvey-2.0/spsurvey/man/read.dbf.Rd | 4
spsurvey-2.0/spsurvey/man/read.sas.Rd |only
spsurvey-2.0/spsurvey/man/read.shape.Rd | 2
spsurvey-2.0/spsurvey/man/relrisk.analysis.Rd |only
spsurvey-2.0/spsurvey/man/relrisk.est.Rd |only
spsurvey-2.0/spsurvey/man/spsurvey-internal.Rd | 119 -
spsurvey-2.0/spsurvey/man/spsurvey.analysis.Rd |only
spsurvey-2.0/spsurvey/man/total.est.Rd | 72 -
spsurvey-2.0/spsurvey/spsurvey_2.0.zip |only
spsurvey-2.0/spsurvey/src/dbfFileParser.c | 110 +
spsurvey-2.0/spsurvey/src/grts.c | 19
spsurvey-2.0/spsurvey/src/grtsarea.c | 14
spsurvey-2.0/spsurvey/src/grtslin.c | 30
spsurvey-2.0/spsurvey/src/irslin.c | 8
spsurvey-2.0/spsurvey/src/shapeParser.c | 76 -
97 files changed, 7043 insertions(+), 5399 deletions(-)
Author: Yves Tillé
Diff between sampling versions 0.9 dated 2007-12-12 and 2.0 dated 2008-06-20
Title: Survey Sampling
Description: Functions for drawing and calibrating samples.
sampling-0.9/sampling/R/UPpivotal.R |only
sampling-2.0/sampling/DESCRIPTION | 8
sampling-2.0/sampling/R/HTstrata.r | 28 +
sampling-2.0/sampling/R/UPbrewer.R | 3
sampling-2.0/sampling/R/UPmaxentropy.R | 2
sampling-2.0/sampling/R/UPopips.r | 2
sampling-2.0/sampling/R/UPpivotal.r |only
sampling-2.0/sampling/R/UPpoisson.R | 12
sampling-2.0/sampling/R/UPrandompivotal.R | 2
sampling-2.0/sampling/R/UPsampford.R | 3
sampling-2.0/sampling/R/UPsystematic.R | 5
sampling-2.0/sampling/R/UPsystematicpi2.R | 4
sampling-2.0/sampling/R/UPtille.R | 3
sampling-2.0/sampling/R/UPtillepi2.R | 3
sampling-2.0/sampling/R/postest.r |only
sampling-2.0/sampling/R/poststrata.r |only
sampling-2.0/sampling/R/ratioest.r |only
sampling-2.0/sampling/R/ratioest_strata.r |only
sampling-2.0/sampling/R/regest.r |only
sampling-2.0/sampling/R/regest_strata.r |only
sampling-2.0/sampling/R/rmodel.r |only
sampling-2.0/sampling/inst/doc/Rplots.pdf |only
sampling-2.0/sampling/inst/doc/Rplots.ps | 386 ++++++++++++-------------
sampling-2.0/sampling/inst/doc/UPexamples.log | 56 +--
sampling-2.0/sampling/inst/doc/UPexamples.pdf |binary
sampling-2.0/sampling/inst/doc/calibration.log | 56 +--
sampling-2.0/sampling/inst/doc/calibration.pdf |binary
sampling-2.0/sampling/man/HTstrata.Rd | 14
sampling-2.0/sampling/man/UPpoisson.Rd | 5
sampling-2.0/sampling/man/cluster.Rd | 3
sampling-2.0/sampling/man/getdata.Rd | 3
sampling-2.0/sampling/man/mstage.Rd | 13
sampling-2.0/sampling/man/postest.Rd |only
sampling-2.0/sampling/man/poststrata.Rd |only
sampling-2.0/sampling/man/ratioest.Rd |only
sampling-2.0/sampling/man/ratioest_strata.Rd |only
sampling-2.0/sampling/man/regest.Rd |only
sampling-2.0/sampling/man/regest_strata.Rd |only
sampling-2.0/sampling/man/rhg.Rd | 2
sampling-2.0/sampling/man/rhg_strata.Rd | 5
sampling-2.0/sampling/man/rmodel.Rd |only
sampling-2.0/sampling/man/strata.Rd | 16 -
42 files changed, 334 insertions(+), 300 deletions(-)
Author: Virasakdi Chongsuvivatwong
Diff between epicalc versions 2.7.0.4 dated 2008-06-15 and 2.7.1.0 dated 2008-06-20
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.
DESCRIPTION | 6 +++---
R/epicalc.R | 39 +++++++++++++++++++++++++++------------
man/recode.rd | 29 +++++++++++++++++++++++++----
3 files changed, 55 insertions(+), 19 deletions(-)
Author: Toni Giorgino
Diff between dtw versions 1.6-2 dated 2008-05-30 and 1.9-1 dated 2008-06-20
Title: Dynamic Time Warping algorithms
Description: Comprehensive implementation of Dynamic Time Warping
algorithms in R. DTW finds the optimal (least cumulative distance)
mapping between two time series. All common DTW variants are
covered, including local and global constraints, arbitrary timeseries
lenghts, distance definitions, MVM, etc. Package computes cumulative
distance, warping functions, plots, normalizations, etc.
DESCRIPTION | 14 -
R/backtrack.R | 4
R/dtw.R | 63 ++++--
R/globalCostMatrix.R | 4
R/mvm.R |only
R/plot.dtw.R | 99 +++++++--
R/stepPattern.R | 440 ++++++++++++++++++++++++++++++++++++++++++-
inst/ChangeLog | 19 +
inst/TODO | 27 ++
inst/dtw.bib | 51 ++++
man/dtw-package.Rd | 3
man/dtw.Rd | 40 ++-
man/dtwPlot.Rd | 24 --
man/dtwPlotThreeWay.Rd | 46 ++--
man/dtwPlotTwoWay.Rd | 42 ++--
man/dtwWindowingFunctions.Rd | 8
man/mvm.Rd |only
man/stepPattern.Rd | 245 ++++++++++++++---------
18 files changed, 902 insertions(+), 227 deletions(-)
Author: Marco Scutari
Title: Bayesian network structure learning
Description: Bayesian network structure learning
via constraint-based (also known as 'conditional
independence') and score-based algorithms.
This package implements the Grow-Shrink (GS)
algorithm, the Incremental Association (IAMB)
algorithm, the Interleaved-IAMB (Inter-IAMB)
algorithm, the Fast-IAMB (Fast-IAMB) algorithm
and the Hill-Climbing (HC) greedy search
algorithm for both discrete and gaussian networks,
along with many score functions and conditional
independence tests.
Some utility functions (model comparison and
manipulation, random data generation, arc
orientation testing) are also included.
Diff between bnlearn versions 0.7 dated 2008-03-26 and 0.8 dated 2008-06-20
DESCRIPTION | 6 NAMESPACE | 1 R/arc.strength.R |only R/backend-indep.R | 4 R/backend-score.R | 442 +++++++++++++++++++++++++++---- R/choose.direction.R | 35 -- R/frontend.R | 347 +++++++++--------------- R/graph-generation.R | 10 R/grow-shrink.R | 1 R/hill-climbing.R | 632 +++++++++------------------------------------ R/methods.R | 31 +- R/scores.R | 98 +++--- R/simulation.R | 55 +-- R/test.R | 75 ++++- R/utils-amat.R | 2 R/utils-graph.R | 87 ++++++ R/utils-sanitization.R | 194 ++++++++++++- R/utils-tests.R | 18 - data/asia.rda |only man/00.bnlearn-package.Rd | 28 + man/10.gs.Rd | 4 man/11.iamb.Rd | 4 man/12.fast.iamb.Rd | 4 man/13.inter.iamb.Rd | 4 man/14.hc.Rd | 22 - man/20.mb.Rd | 14 man/21.arcops.Rd | 2 man/22.modelstring.Rd | 10 man/23.compare.Rd | 4 man/24.graphgen.Rd | 2 man/25.ordering.Rd | 2 man/30.score.Rd | 23 - man/31.choose.direction.Rd | 5 man/32.arc.strength.Rd |only man/40.rbn.Rd | 5 man/50.plot.bn.Rd | 2 man/A0.learning-test.Rd | 15 - man/A1.gaussian-test.Rd | 15 - man/A2.asia.Rd |only man/B0.bn.class.Rd | 24 + man/C0.snow.Rd | 7 man/C1.deal.Rd |only src/hc.cache.lookup.c |only src/is.dag.c |only src/is.row.equal.c | 8 45 files changed, 1217 insertions(+), 1025 deletions(-)
Author: Yihui Xie
Title: Demonstrate Animations in Statistics
Description: This package consists of various functions for animations in
statistics, covering many areas such as probability theory, mathematical
statistics, multivariate statistics, nonparametric statistics, sampling
survey, linear models, time series, computational statistics, data mining
and machine learning. These functions might be of help in teaching
statistics and data analysis.
Diff between animation versions 1.0-0 dated 2008-06-11 and 1.0-1 dated 2008-06-20
DESCRIPTION | 15 ++++++++++----- R/knn.ani.R | 2 +- R/saveMovie.R | 4 +++- R/saveSWF.r |only demo |only inst/NEWS | 24 ++++++++++++++++++++++++ man/animation-package.Rd | 41 +++++++++++++++++++++++++++++++++-------- man/brownian.motion.Rd | 2 +- man/clt.ani.Rd | 2 +- man/conf.int.Rd | 1 + man/cv.ani.Rd | 2 +- man/flip.coin.Rd | 2 +- man/grad.desc.Rd | 3 +-- man/kfcv.Rd | 1 - man/kmeans.ani.Rd | 3 +-- man/lln.ani.Rd | 2 +- man/mwar.ani.Rd | 2 +- man/newton.method.Rd | 2 +- man/sample.cluster.Rd | 2 +- man/sample.simple.Rd | 2 +- man/sample.strat.Rd | 2 +- man/sample.system.Rd | 2 +- man/saveMovie.Rd | 23 +++++++++++++---------- man/saveSWF.Rd |only man/tidy.source.Rd | 2 +- man/vi.grid.illusion.Rd | 4 ++-- man/vi.lilac.chaser.Rd | 4 ++-- 27 files changed, 103 insertions(+), 46 deletions(-)
Author: Matthias Burger
Diff between RUnit versions 0.4.17 dated 2007-05-22 and 0.4.19 dated 2008-06-20
Title: R Unit test framework
Description: R functions implementing a standard Unit Testing framework, with additional code inspection and report generation tools
RUnit-0.4.17/RUnit/inst/doc/design |only
RUnit-0.4.19/RUnit/ChangeLog | 535 +++++++++++++++++
RUnit-0.4.19/RUnit/DESCRIPTION | 8
RUnit-0.4.19/RUnit/R/00Init.r | 6
RUnit-0.4.19/RUnit/R/checkFuncs.r | 26
RUnit-0.4.19/RUnit/R/exportHTML.r | 14
RUnit-0.4.19/RUnit/R/html.r | 6
RUnit-0.4.19/RUnit/R/htmlProtocol.r | 45 -
RUnit-0.4.19/RUnit/R/runit.r | 11
RUnit-0.4.19/RUnit/R/testLogger.r | 31
RUnit-0.4.19/RUnit/R/textProtocol.r | 10
RUnit-0.4.19/RUnit/inst/doc/RUnit.dvi |binary
RUnit-0.4.19/RUnit/inst/doc/RUnit.pdf |binary
RUnit-0.4.19/RUnit/inst/doc/RUnit.ps | 242 ++-----
RUnit-0.4.19/RUnit/inst/doc/RUnit.tex | 2
RUnit-0.4.19/RUnit/inst/share/R/compareRUnitTestData.r | 27
RUnit-0.4.19/RUnit/man/runit.Rd | 6
RUnit-0.4.19/RUnit/man/textProtocol.Rd | 36 -
RUnit-0.4.19/RUnit/tests/runitInspect.r | 29
RUnit-0.4.19/RUnit/tests/runitRUnit.r | 50 +
20 files changed, 812 insertions(+), 272 deletions(-)
Author: Peter Dalgaard
Title: Introductory Statistics with R
Description: Data sets and scripts for text examples and exercises in
P. Dalgaard (2008), `Introductory Statistics with R', 2nd ed., Springer Verlag, ISBN 978-0387790534.
Diff between ISwR versions 2.0-1 dated 2008-04-24 and 2.0-2 dated 2008-06-20
DESCRIPTION | 8 ++++---- 1 file changed, 4 insertions(+), 4 deletions(-)
Author: Robert B. Gramacy
Diff between monomvn versions 1.3 dated 2008-06-10 and 1.3-1 dated 2008-06-20
Title: Estimation for multivariate normal data with monotone missingness
Description: Estimation of multivariate normal data of arbitrary dimension
where the pattern of missing data is monotone. Through the use of
parsimonious/shrinkage regressions (plsr, pcr, lasso, ridge, etc.),
where standard regressions fail, the package can handle an
(almost) arbitrary amount of missing data. The current version
supports maximum likelihood inference and an alpha implementation
of a Bayesian version employing a Bayesian lasso. A fully
functional standalone (beta) interface to the Bayesian lasso
(from Park & Casella) with model selection is also provided
monomvn-1.3-1/monomvn/ChangeLog | 25 +
monomvn-1.3-1/monomvn/DESCRIPTION | 6
monomvn-1.3-1/monomvn/R/addy.R | 3
monomvn-1.3-1/monomvn/R/blasso.R | 24 +
monomvn-1.3-1/monomvn/R/blasso.s3.R | 8
monomvn-1.3-1/monomvn/R/bmonomvn.R | 155 ++++++--
monomvn-1.3-1/monomvn/R/monomvn.R | 27 -
monomvn-1.3-1/monomvn/R/regress.R | 3
monomvn-1.3-1/monomvn/R/regress.lars.R | 74 +++-
monomvn-1.3-1/monomvn/R/regress.ridge.R | 2
monomvn-1.3-1/monomvn/R/util.R |only
monomvn-1.3-1/monomvn/man/blasso.Rd | 12
monomvn-1.3-1/monomvn/man/blasso.s3.Rd | 4
monomvn-1.3-1/monomvn/man/bmonomvn.Rd | 66 ++-
monomvn-1.3-1/monomvn/man/monomvn-internal.Rd | 10
monomvn-1.3-1/monomvn/man/monomvn-package.Rd | 2
monomvn-1.3-1/monomvn/man/monomvn.Rd | 36 +-
monomvn-1.3-1/monomvn/man/monomvn.s3.Rd | 2
monomvn-1.3-1/monomvn/man/posdef.approx.Rd | 4
monomvn-1.3-1/monomvn/man/regress.Rd | 5
monomvn-1.3-1/monomvn/src/blasso.cc | 234 +++++++++----
monomvn-1.3-1/monomvn/src/blasso.h | 34 +
monomvn-1.3-1/monomvn/src/bmonomvn.cc | 459 +++++++++++++++++++-------
monomvn-1.3-1/monomvn/src/bmonomvn.h | 33 +
monomvn-1.3-1/monomvn/src/linalg.c | 2
monomvn-1.3-1/monomvn/src/matrix.c | 17
monomvn-1.3-1/monomvn/src/matrix.h | 1
monomvn-1.3/monomvn/R/gamma.R |only
28 files changed, 935 insertions(+), 313 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Rmetrics - Financial Time Series Objects
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fSeries versions 260.72 dated 2007-10-08 and 260.73 dated 2008-06-20
DESCRIPTION | 8 - R/aggregate.R | 60 +++++------ R/apply.R | 74 ++++++------- R/timeSeries.R | 238 ++++++++++++++++++++++----------------------- inst/unitTests/runitOmit.R | 24 ++-- man/monthly.Rd | 2 man/order.Rd | 2 man/plot.Rd | 2 man/print.Rd | 2 man/summary.Rd | 2 10 files changed, 207 insertions(+), 207 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Rmetrics - Extreme Financial Market Data
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fExtremes versions 260.72 dated 2007-10-08 and 260.73 dated 2008-06-20
DESCRIPTION | 8 ++++---- 1 file changed, 4 insertions(+), 4 deletions(-)
Author: Corneliu Henegar
Diff between FunNet versions 1.00-1 dated 2008-05-05 and 1.00-2 dated 2008-06-20
Title: Integrative Functional Analysis of Transcriptional Networks
Description: FunNet is an integrative tool for analyzing gene co-expression networks built from
microarray expression data. The analytic model implemented in this library
involves two abstraction layers: transcriptional and functional (biological roles).
A functional profiling technique using Gene Ontology & KEGG annotations is
applied to extract a list of relevant biological themes from
microarray expression profiling data. Afterwards multiple-instance
representations are built to relate significant themes to their
transcriptional instances (i.e. the two layers of the model). An adapted
non-linear dynamical system model is used to quantify the proximity of relevant
genomic themes based on the similarity of the expression profiles of their gene instances.
Eventually an unsupervised multiple-instance clustering procedure, relying on
the two abstraction layers, is used to identify the structure of the co-expression
network composed from modules of functionally related transcripts. Functional
and transcriptional maps of the co-expression network are provided separately
together with detailed information on the network centrality of related transcripts
and genomic themes.
DESCRIPTION | 12 ++++----
R/FunNet.R | 2 -
R/sysdata.rda |binary
man/Annotations.Rd | 40 +++++++++++++++++------------
man/FunNet.R-package.Rd | 66 ++++++++++++++++++++++++------------------------
man/FunNet.Rd | 35 +++++++++++++------------
6 files changed, 83 insertions(+), 72 deletions(-)
Author: Corneliu Henegar
Diff between FunCluster versions 1.08 dated 2008-04-04 and 1.09 dated 2008-06-20
Title: Functional Profiling of Microarray Expression Data
Description: FunCluster performs a functional analysis of microarray expression
data based on Gene Ontology & KEGG functional annotations. From
expression data and functional annotations FunCluster builds classes
of putatively co-regulated biological processes through a specially
designed clustering procedure.
DESCRIPTION | 6 +++---
R/FunCluster.R | 2 +-
R/sysdata.rda |binary
copying | 2 +-
man/FunCluster.R-package.Rd | 2 +-
man/FunCluster.Rd | 2 +-
6 files changed, 7 insertions(+), 7 deletions(-)
Author: Carsten F. Dormann and Bernd Gruber, with additional code from Jochen Fruend, also based on C-code developed by Nils Bluethgen and by Miguel Rodriguez-Girones.
Title: Visualises bipartite networks and calculates some ecological indices.
Description: See bipartite-package for more details.
Diff between bipartite versions 0.72 dated 2008-05-25 and 0.73 dated 2008-06-19
bipartite-0.72/bipartite/Read-and-delete-me |only bipartite-0.73/bipartite/.hg |only bipartite-0.73/bipartite/.hgignore |only bipartite-0.73/bipartite/DESCRIPTION | 8 +- bipartite-0.73/bipartite/R/networklevel.R | 4 - bipartite-0.73/bipartite/R/visweb.R | 80 ++++++++++++---------- bipartite-0.73/bipartite/R/zzz.R | 3 bipartite-0.73/bipartite/Wishlist.txt | 3 bipartite-0.73/bipartite/man/bipartite-package.Rd | 4 - bipartite-0.73/bipartite/man/networklevel.Rd | 2 bipartite-0.73/bipartite/man/plotweb.Rd | 2 11 files changed, 59 insertions(+), 47 deletions(-)
Author: Simon Wood
Diff between mgcv versions 1.4-0 dated 2008-06-08 and 1.4-1 dated 2008-06-19
Title: GAMs with GCV smoothness estimation and GAMMs by REML/PQL
Description: Routines for GAMs and other generalized ridge regression
with multiple smoothing parameter selection by GCV or
UBRE/AIC. Also GAMMs by REML or PQL. Includes a gam()
function.
DESCRIPTION | 4 ++--
NAMESPACE | 2 +-
R/smooth.r | 21 +++++++++++++++++++--
changeLog | 9 +++++++++
man/smooth.construct.Rd | 6 +++---
5 files changed, 34 insertions(+), 8 deletions(-)
Author: Arne Henningsen
Diff between linprog versions 0.5-6 dated 2007-08-12 and 0.5-7 dated 2008-06-19
Title: Linear Programming / Optimization
Description: This package can be used to solve Linear Programming / Linear
Optimization problems by using the simplex algorithm.
DESCRIPTION | 10 +++++-----
man/solveLP.Rd | 2 +-
2 files changed, 6 insertions(+), 6 deletions(-)
Author: Jerome Friedman, Trevor Hastie and Rob Tibshirani
Title: Graphical lasso- estimation of Gaussian graphical models
Description: Graphical lasso
Diff between glasso versions 1.0 dated 2007-11-26 and 1.2 dated 2008-06-19
DESCRIPTION | 8 ++++---- R/glasso.R | 15 +++++++++++++-- man/glasso.Rd | 20 +++++++++++++++++++- 3 files changed, 36 insertions(+), 7 deletions(-)
Author: Erin Hodgess
Diff between RcmdrPlugin.epack versions 1.1-1 dated 2008-05-25 and 1.1-2 dated 2008-06-19
More information about RcmdrPlugin.epack at CRAN
Title: Rcmdr plugin for time series
Description: This package provides an Rcmdr "plug-in" based on the
time series functions. Contributors: G. Jay Kerns, John Fox, and Richard Heiberger.
DESCRIPTION | 8 -
R/RcmdrPlugin.epack.R | 275 +++++++++++++++++++++++++++++++++++++-
inst/etc/menus.txt | 10 -
man/RcmdrPlugin.epack-internal.Rd | 5
4 files changed, 289 insertions(+), 9 deletions(-)
Permanent link
Author: Stig Mortensen
Diff between PSM versions 0.8 dated 2008-06-12 and 0.8-1 dated 2008-06-19
Title: Non-Linear Mixed-Effects modelling using Stochastic Differential Equations.
Description: This package provides functions for estimation of linear and non-linear mixed-effects models using stochastic differential equations. Moreover it provides functions for finding smoothed estimates of model states and for simulation. The package allows for any multivariate non-linear time-variant model to be specified, and it also handels multidimentional input, co-variates, missing observations and specification of dosage regimen.
DESCRIPTION | 8 ++++----
R/PSM.template.R | 4 ++--
inst/doc/PSM.pdf |binary
3 files changed, 6 insertions(+), 6 deletions(-)
Author: Madeleine Cule, Robert Gramacy, Richard Samworth
Title: Maximum likelihood estimation of a log-concave density
Description: Computes the maximum likelihood estimator from an i.i.d. sample of data from a log-concave density in any number of dimensions. Plots are available for 1- and 2-d data.
Diff between LogConcDEAD versions 1.1-1 dated 2008-04-08 and 1.1-2 dated 2008-06-19
LogConcDEAD-1.1-1/LogConcDEAD/R/lcd.weights.R |only LogConcDEAD-1.1-1/LogConcDEAD/R/plot.LCDweights.R |only LogConcDEAD-1.1-1/LogConcDEAD/R/print.LCDweights.R |only LogConcDEAD-1.1-1/LogConcDEAD/man/lcd.weights.Rd |only LogConcDEAD-1.1-1/LogConcDEAD/man/plot.LCDweights.Rd |only LogConcDEAD-1.1-1/LogConcDEAD/src/logconeff.c |only LogConcDEAD-1.1-1/LogConcDEAD/src/sigmaeff.c |only LogConcDEAD-1.1-1/LogConcDEAD/src/solvopt2.c |only LogConcDEAD-1.1-1/LogConcDEAD/src/subgradeff.c |only LogConcDEAD-1.1-2/LogConcDEAD/.cvsignore |only LogConcDEAD-1.1-2/LogConcDEAD/ChangeLog | 4 LogConcDEAD-1.1-2/LogConcDEAD/DESCRIPTION | 4 LogConcDEAD-1.1-2/LogConcDEAD/R/lcd.mle.R | 150 +++++------ LogConcDEAD-1.1-2/LogConcDEAD/R/plot.LogConcDEAD.R | 188 ++++++-------- LogConcDEAD-1.1-2/LogConcDEAD/man/LogConcDEAD-internal.Rd | 1 LogConcDEAD-1.1-2/LogConcDEAD/man/lcd.mle.Rd | 29 +- LogConcDEAD-1.1-2/LogConcDEAD/src/convhullnew.c | 2 LogConcDEAD-1.1-2/LogConcDEAD/src/convhullnmlc.c | 2 LogConcDEAD-1.1-2/LogConcDEAD/src/logconweights.c | 16 - LogConcDEAD-1.1-2/LogConcDEAD/src/renormalise.c | 1 LogConcDEAD-1.1-2/LogConcDEAD/src/sigmaeffw.c | 14 - LogConcDEAD-1.1-2/LogConcDEAD/src/solvoptweights.c | 73 ++--- LogConcDEAD-1.1-2/LogConcDEAD/src/useful.c | 8 23 files changed, 241 insertions(+), 251 deletions(-)
Author: Dimitris Rizopoulos
Diff between JM versions 0.1-0 dated 2008-02-18 and 0.2-0 dated 2008-06-19
Title: Joint Modelling of Longitudinal and Survival Data
Description: Shared parameter models for the joint modelling of longitudinal and time-to-event data.
DESCRIPTION | 11 ++--
NAMESPACE | 8 ++-
R/MI.fixed.times.R |only
R/MI.random.times.R |only
R/chGH.fit.R | 8 +--
R/chLaplace.fit.R | 8 +--
R/coef.weibull.frailty.R |only
R/dmvt.R |only
R/logLik.weibull.frailty.R |only
R/onAttach.R | 2
R/posterior.b.R |only
R/print.summary.weibull.frailty.R |only
R/print.weibull.frailty.R |only
R/ranef.jointModel.R | 2
R/residuals.jointModel.R | 92 ++++++++++++++++++++++++++++++++++----
R/rmvt.R |only
R/summary.weibull.frailty.R |only
R/vcov.weibull.frailty.R |only
R/weibull.frailty.R |only
R/weibull.frailty.fit.R |only
R/weibullGH.fit.R | 6 +-
data/aids.id.rda |binary
data/aids.rda |binary
data/pbc2.id.rda |binary
data/pbc2.rda |binary
inst |only
man/JM.Rd | 6 +-
man/jointModel.Rd | 6 --
man/ranef.Rd | 5 +-
man/residuals.Rd | 64 +++++++++++++++++++++-----
man/summary.weibull.frailty.Rd |only
man/weibull.frailty.Rd |only
32 files changed, 170 insertions(+), 48 deletions(-)
Author: Markus Helbig
Diff between JGR versions 1.6-0 dated 2008-06-16 and 1.6-1 dated 2008-06-19
Title: JGR - Java Gui for R
Description: Java GUI for R - cross-platform, universal and unified Graphical User Interface for R. For full functionality on Windows and Mac OS X JGR requires a start application which depends on your OS. This can be downloaded from JGR's website: http://www.rosuda.org/JGR
DESCRIPTION | 2 +-
NEWS | 4 ++++
R/JGR.R | 4 ++--
inst/java/JGR.jar |binary
4 files changed, 7 insertions(+), 3 deletions(-)
Author: A.I. McLeod and Ying Zhang
Title: Subset AR Model Fitting
Description: Complete functions are given for model identification, estimation and diagnostic checking for AR and subset AR models. Two types of subset AR models are supported. One family of subset AR models, denoted by ARp, is formed by taking subet of the original AR coefficients and in the other, denoted by ARz, subsets of the partial autocorrelations are used. The main advantage of the ARz model is its applicability to very large order models.
Diff between FitAR versions 1.5 dated 2008-06-18 and 1.6 dated 2008-06-19
DESCRIPTION | 6 +++--- index | 3 ++- man/FitAR-package.Rd | 15 ++++++++++++--- 3 files changed, 17 insertions(+), 7 deletions(-)
Author: CSIRO Bioinformatics, Glenn Stone
Title: Stepwise Diagonal Discriminant Analysis
Description: Stepwsie Diagonal Discriminant Analysis - a fast algorithm for building multivariate classifiers
Diff between SDDA versions 1.0-1 dated 2008-06-02 and 1.0-3 dated 2008-06-18
DESCRIPTION | 6 +++--- LICENSE | 2 +- man/sdda.Rd | 8 +++++--- 3 files changed, 9 insertions(+), 7 deletions(-)
Author: Valentin Todorov
Diff between rrcov versions 0.4-05 dated 2008-02-26 and 0.4-06 dated 2008-06-18
Title: Scalable Robust Estimators with High Breakdown Point
Description: Robust Location and Scatter Estimation and Robust Multivariate Analysis with High Breakdown Point.
ChangeLog | 12
DESCRIPTION | 6
INDEX | 9
NAMESPACE | 14
R/AllClasses.R | 4
R/CovClassic.R | 4
R/CovControl.R | 14
R/CovMcd.R | 5
R/CovMest.R | 4
R/CovRobust.R | 4
R/CovSest.R | 10
R/Pca.R | 12
R/PcaClassic.R | 6
R/PcaCov.R |only
R/PcaHubert.R | 4
R/PcaLocantore.R |only
data/bus.rda |only
data/bushmiss.rda |only
man/Appalachia.Rd | 17
man/Cascades.Rd | 14
man/CovControlSest-class.Rd | 1
man/Pca-class.Rd | 3
man/PcaClassic.Rd | 2
man/PcaCov-class.Rd |only
man/PcaCov.Rd |only
man/PcaHubert.Rd | 11
man/PcaLocantore-class.Rd |only
man/PcaLocantore.Rd |only
man/bus.Rd |only
man/bushmiss.Rd |only
man/lmom32.Rd | 19
man/lmom33.Rd | 20
man/plot-methods.Rd | 2
tests/thubert.R | 36 -
tests/thubert.Rout.save | 1402 +++++++++++++++++++++++++++++++++++++++++++-
tests/tmcd4.Rout.save | 6
tests/tmest.Rout.save | 4
tests/tmest4.Rout.save | 4
tests/tmve4.Rout.save | 4
tests/togk4.Rout.save | 4
40 files changed, 1575 insertions(+), 82 deletions(-)
Author: Felix Andrews
Diff between playwith versions 0.8.51 dated 2008-02-05 and 0.8-55 dated 2008-06-18
Title: A GUI for interactive plots using GTK+
Description: A graphical user interface for viewing and interacting with R plots.
It tries to work out the structure of a plot, in order to interact with it.
The built-in features include: navigating the data space, identifying data points,
editing and annotating the plot, and saving to a file. New tools can be defined.
This package is based on RGtk2, and so requires the GTK+ libraries.
DESCRIPTION | 12
NAMESPACE | 3
R/API.R | 1634 +++++++++++++++++----------------
R/playTools.R | 2025 ++++-------------------------------------
R/playTools_annotate.R |only
R/playTools_arrow.R |only
R/playTools_brush.R |only
R/playTools_clear.R |only
R/playTools_coords.R |only
R/playTools_copy.R |only
R/playTools_data.R |only
R/playTools_edit.annotations.R |only
R/playTools_edit.call.R |only
R/playTools_expand.R |only
R/playTools_help.R |only
R/playTools_identify.R |only
R/playTools_keep.R |only
R/playTools_options.R |only
R/playTools_print.R |only
R/playTools_save.R |only
R/playTools_settings.R |only
R/playTools_stayontop.R |only
R/playTools_theme.R |only
R/playTools_time.mode.R |only
R/playTools_zero.R |only
R/playTools_zoom.R |only
R/playTools_zoom3d.R |only
R/playwith.R | 1907 ++++++++++++++++++++------------------
R/plotSettingsGui.R | 1035 ++++++++++----------
R/utilities.R |only
inst |only
man/callArg.Rd | 45
man/parameterControlTool.Rd |only
man/playState.Rd | 33
man/playTools.Rd | 16
man/playwith.API.Rd | 52 -
man/playwith.Rd | 392 ++++---
man/quickTool.Rd | 29
38 files changed, 2940 insertions(+), 4243 deletions(-)
Author: Steve Kembel
Diff between picante versions 0.1-2 dated 2008-06-03 and 0.2-0 dated 2008-06-18
Title: Tools for integrating phylogenies and ecology
Description: Phylocom integration, community analyses, null-models, traits and evolution in R
DESCRIPTION | 8 -
R/phylodiversity.R | 350 +++++++++++++++++++++++++++++++++++++++++++++++++
R/specaccum.psr.R |only
man/cor.table.Rd | 2
man/pd.Rd |only
man/picante-package.Rd | 6
man/psd.Rd |only
man/specaccum.psr.Rd |only
8 files changed, 358 insertions(+), 8 deletions(-)
Author: Achim Zeileis, fortune contributions from Torsten Hothorn, Peter
Dalgaard, Uwe Ligges, Kevin Wright, Martin Maechler, Kjetil
Brinchmann Halvorsen, Kurt Hornik, Duncan Murdoch, Andy Bunn,
Ray Brownrigg, Roger Bivand, Spencer Graves, Jim Lemon, Christian
Kleiber, David L. Reiner, Berton Gunter, Roger Koenker, Charles Berry,
Marc Schwartz, Michael Dewey, Ben Bolker, Peter Dunn
Title: R Fortunes
Description: R Fortunes
Diff between fortunes versions 1.3-4 dated 2007-12-19 and 1.3-5 dated 2008-06-18
DESCRIPTION | 10 +++++----- R/fortunes.R | 18 +++++++++++------- inst/fortunes/fortunes.csv | 19 ++++++++++++++++--- 3 files changed, 32 insertions(+), 15 deletions(-)
Author: A.I. McLeod and Ying Zhang
Title: Subset AR Model Fitting
Description: Complete functions are given for model identification, estimation and diagnostic checking for AR and subset AR models. Two types of subset AR models are supported. One family of subset AR models, denoted by ARp, is formed by taking subet of the original AR coefficients and in the other, denoted by ARz, subsets of the partial autocorrelations are used. The main advantage of the ARz model is its applicability to very large order models.
Diff between FitAR versions 1.4 dated 2008-04-14 and 1.5 dated 2008-06-18
DESCRIPTION | 6 R/plot.FitAR.R | 4 R/plot.Selectmodel.R | 5 man/FastLoglikelihoodAR.Rd | 4 man/FitAR-package.Rd | 295 +++++++++++++++++++++++++++++++++++++-- man/FromSymmetricStorageUpper.Rd | 3 man/Get1G.Rd | 4 man/GetFitAR.Rd | 2 man/coef.FitAR.Rd | 2 man/plot.FitAR.Rd | 7 10 files changed, 305 insertions(+), 27 deletions(-)
Author: Ingmar Visser
Diff between depmixS4 versions 0.1-0 dated 2008-03-26 and 0.1-1 dated 2008-06-18
Title: Dependent Mixture Models
Description: Fit latent (hidden) Markov models on mixed categorical and continuous (timeseries)
data, otherwise known as dependent mixture models
DESCRIPTION | 6 +++---
NAMESPACE | 1 -
man/depmix-internal.Rd | 2 +-
man/depmix.Rd | 28 ++++++++++++++++++++--------
man/depmix.fit.Rd | 4 ++--
man/depmix.fitted-class.Rd | 2 +-
man/response-class.Rd | 2 +-
man/response-classes.Rd | 2 +-
man/response.Rd | 2 +-
9 files changed, 30 insertions(+), 19 deletions(-)
Author: Venkatraman E. Seshan
Title: Clinical Trial Design and Data Analysis Functions
Description: Utilities to make your clinical collaborations easier if not fun.
Diff between clinfun versions 0.8.0 dated 2008-05-25 and 0.8.1 dated 2008-06-18
CHANGES | 4 + DESCRIPTION | 4 - R/gsdesign.R | 145 ++++++++++++++++++++++++++++++-------------------------- man/gsdesign.Rd | 9 ++- 4 files changed, 91 insertions(+), 71 deletions(-)
Author: Arthur Allignol
Title: Nelson-Aalen estimator of the cumulative hazard in multistate models
Description: This package computes the Nelson-Aalen estimator of the cumulative transition hazard for multistate models.
Diff between mvna versions 1.0-2 dated 2007-12-06 and 1.1-5 dated 2008-06-17
mvna-1.0-2/mvna/R/n.events.R |only mvna-1.0-2/mvna/R/n.events.mvna.R |only mvna-1.0-2/mvna/man/n.events.Rd |only mvna-1.0-2/mvna/src/pr.cc |only mvna-1.1-5/mvna/DESCRIPTION | 10 - mvna-1.1-5/mvna/NAMESPACE | 15 +- mvna-1.1-5/mvna/R/msmplot.mvna.R |only mvna-1.1-5/mvna/R/mvna.R | 227 ++++++++++++++++-------------------- mvna-1.1-5/mvna/R/plot.mvna.R |only mvna-1.1-5/mvna/R/predict.mvna.R | 34 +---- mvna-1.1-5/mvna/R/print.mvna.R | 9 - mvna-1.1-5/mvna/R/xyplot.mvna.R | 2 mvna-1.1-5/mvna/data/sir.adm.txt | 96 ++++++--------- mvna-1.1-5/mvna/data/sir.cont.txt | 20 --- mvna-1.1-5/mvna/man/msmplot.Rd |only mvna-1.1-5/mvna/man/mvna.Rd | 49 ++++--- mvna-1.1-5/mvna/man/plot.mvna.Rd |only mvna-1.1-5/mvna/man/predict.mvna.Rd | 18 ++ mvna-1.1-5/mvna/man/print.mvna.Rd | 2 mvna-1.1-5/mvna/man/sir.adm.Rd | 3 mvna-1.1-5/mvna/man/sir.cont.Rd | 41 ++---- mvna-1.1-5/mvna/man/xyplot.mvna.Rd | 6 mvna-1.1-5/mvna/src/risk_set.cc |only 23 files changed, 231 insertions(+), 301 deletions(-)
Author: Arne Henningsen
Diff between micEcon versions 0.5-1 dated 2008-03-03 and 0.5-2 dated 2008-06-17
Title: Microeconomics
Description: Tools for microeconomic analysis and microeconomic modelling
micEcon-0.5-1/micEcon/R/readFront41out.R |only
micEcon-0.5-1/micEcon/R/writeFront41in.R |only
micEcon-0.5-1/micEcon/man/readFront41out.Rd |only
micEcon-0.5-1/micEcon/man/writeFront41in.Rd |only
micEcon-0.5-2/micEcon/DESCRIPTION | 6
micEcon-0.5-2/micEcon/INDEX | 17
micEcon-0.5-2/micEcon/R/aidsConcav.R | 2
micEcon-0.5-2/micEcon/R/coef.front41Output.R |only
micEcon-0.5-2/micEcon/R/coef.quadFuncEst.R |only
micEcon-0.5-2/micEcon/R/coef.translogEst.R |only
micEcon-0.5-2/micEcon/R/front41ReadOutput.R |only
micEcon-0.5-2/micEcon/R/front41WriteInput.R |only
micEcon-0.5-2/micEcon/R/indices.R | 56 -
micEcon-0.5-2/micEcon/R/print.front41Output.R |only
micEcon-0.5-2/micEcon/R/print.summary.front41Output.R |only
micEcon-0.5-2/micEcon/R/print.translogCheckCurvature.R |only
micEcon-0.5-2/micEcon/R/print.translogCheckMono.R |only
micEcon-0.5-2/micEcon/R/quadFuncCalc.R | 10
micEcon-0.5-2/micEcon/R/quadFuncCoefNames.R |only
micEcon-0.5-2/micEcon/R/quadFuncDeriv.R | 16
micEcon-0.5-2/micEcon/R/quadFuncEst.R | 16
micEcon-0.5-2/micEcon/R/snqProfitEst.R | 2
micEcon-0.5-2/micEcon/R/snqProfitImposeConvexityStEr.R | 2
micEcon-0.5-2/micEcon/R/summary.front41Output.R |only
micEcon-0.5-2/micEcon/R/summary.translogCheckMono.R |only
micEcon-0.5-2/micEcon/R/translogCalc.R | 12
micEcon-0.5-2/micEcon/R/translogCheckCurvature.R |only
micEcon-0.5-2/micEcon/R/translogCheckMono.R |only
micEcon-0.5-2/micEcon/R/translogDeriv.R | 18
micEcon-0.5-2/micEcon/R/translogEst.R | 6
micEcon-0.5-2/micEcon/R/translogHessian.R | 22
micEcon-0.5-2/micEcon/R/translogMonoRestr.R | 14
micEcon-0.5-2/micEcon/R/utils.R | 62 +
micEcon-0.5-2/micEcon/data/riceProdPhil.rda |only
micEcon-0.5-2/micEcon/man/coef.front41Output.Rd |only
micEcon-0.5-2/micEcon/man/coef.quadFuncEst.Rd |only
micEcon-0.5-2/micEcon/man/coef.translogEst.Rd |only
micEcon-0.5-2/micEcon/man/front41ReadOutput.Rd |only
micEcon-0.5-2/micEcon/man/front41WriteInput.Rd |only
micEcon-0.5-2/micEcon/man/micEcon-deprecated.Rd |only
micEcon-0.5-2/micEcon/man/micEcon-internal.Rd | 1
micEcon-0.5-2/micEcon/man/priceIndex.Rd | 8
micEcon-0.5-2/micEcon/man/quadFuncCalc.Rd | 6
micEcon-0.5-2/micEcon/man/quadFuncDeriv.Rd | 12
micEcon-0.5-2/micEcon/man/quadFuncEst.Rd | 10
micEcon-0.5-2/micEcon/man/quantityIndex.Rd | 8
micEcon-0.5-2/micEcon/man/riceProdPhil.Rd |only
micEcon-0.5-2/micEcon/man/semidefiniteness.Rd | 31
micEcon-0.5-2/micEcon/man/summary.front41Output.Rd |only
micEcon-0.5-2/micEcon/man/translogCalc.Rd | 14
micEcon-0.5-2/micEcon/man/translogCheckCurvature.Rd |only
micEcon-0.5-2/micEcon/man/translogCheckMono.Rd |only
micEcon-0.5-2/micEcon/man/translogDeriv.Rd | 14
micEcon-0.5-2/micEcon/man/translogEst.Rd | 14
micEcon-0.5-2/micEcon/man/translogHessian.Rd | 14
micEcon-0.5-2/micEcon/man/translogMonoRestr.Rd |only
micEcon-0.5-2/micEcon/tests/frontier41.R | 25
micEcon-0.5-2/micEcon/tests/frontier41.Rout.save | 331 ++++++++
micEcon-0.5-2/micEcon/tests/indices.R | 59 +
micEcon-0.5-2/micEcon/tests/indices.Rout.save | 663 ++++++++++++++++-
micEcon-0.5-2/micEcon/tests/translog.R | 71 +
micEcon-0.5-2/micEcon/tests/translog.Rout.save | 408 ++++++++--
62 files changed, 1629 insertions(+), 321 deletions(-)
Author: Rob J Hyndman
Diff between forecasting versions 1.12 dated 2008-04-23 and 1.13 dated 2008-06-16
Bundle: forecasting
Contains: forecast fma Mcomp expsmooth
DESCRIPTION | 6 +++---
forecast/R/ets.R | 7 +++++--
forecast/R/forecast2.R | 2 +-
forecast/man/auto.arima.Rd | 6 +++---
forecast/man/ets.Rd | 5 +++--
forecast/man/ses.Rd | 5 +++--
6 files changed, 18 insertions(+), 13 deletions(-)
Author: Kosuke Imai
Diff between Zelig versions 3.1-0 dated 2007-12-02 and 3.3-1 dated 2008-06-16
Title: Everyone's Statistical Software
Description: Zelig is an easy-to-use program that can estimate, and
help interpret the results of, an enormous range of
statistical models. It literally is ``everyone's statistical
software'' because Zelig's simple unified framework
incorporates everyone else's (R) code. We also hope it will
become ``everyone's statistical software'' for applications
and teaching, and so have designed Zelig so that anyone can
easily use it or add their programs to it. Zelig also comes
with infrastructure that facilitates the use of any existing
method, such as by allowing multiply imputed data for any
model, and mimicking the program Clarify (for Stata) that
takes the raw output of existing statistical procedures and
translates them into quantities of direct interest.
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Zelig-3.3-1/Zelig/inst/doc/commandsRd/macro.pdf | 149
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Zelig-3.3-1/Zelig/inst/doc/vigpics/aov-ExamplesPlot1.eps | 743
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Zelig-3.3-1/Zelig/inst/doc/vigpics/aov-ExamplesPlot2.eps | 1346
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Zelig-3.3-1/Zelig/inst/doc/vigpics/aov-ExamplesPlot3.pdf | 1056
Zelig-3.3-1/Zelig/inst/doc/vigpics/arima-Example1Plot.eps | 250
Zelig-3.3-1/Zelig/inst/doc/vigpics/arima-Example1Plot.pdf | 254
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Zelig-3.3-1/Zelig/inst/doc/vigpics/arima-Example2Plot.pdf | 1182
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Zelig-3.3-1/Zelig/inst/doc/vigpics/arima-Example3Plot.pdf | 212
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342 files changed, 149631 insertions(+), 135084 deletions(-)
Author: Markus Helbig
Diff between JGR versions 1.5-18 dated 2008-04-15 and 1.6-0 dated 2008-06-16
Title: JGR - Java Gui for R
Description: Java GUI for R - cross-platform, universal and unified Graphical User Interface for R. For full functionality on Windows and Mac OS X JGR requires a start application which depends on your OS. This can be downloaded from JGR's website: http://www.rosuda.org/JGR
DESCRIPTION | 2 +-
NEWS | 4 ++++
R/JGR.R | 4 ++--
inst/java/JGR.jar |binary
launcher/macosx/English.lproj/InfoPlist.strings | 6 +++---
launcher/macosx/main.c | 6 +++---
launcher/windows/jgr.c | 19 +++++++++++++------
7 files changed, 26 insertions(+), 15 deletions(-)
Author: Jim Lemon
Diff between prettyR versions 1.3 dated 2008-03-25 and 1.3-1 dated 2008-06-16
Title: Pretty descriptive stats.
Description: Functions for conventionally formatted descriptive stats, and
to format R output as HTML.
DESCRIPTION | 6 +++---
R/freq.R | 17 ++++-------------
man/brkdn.Rd | 3 ++-
man/freq.Rd | 6 +++++-
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Author: Jan Bulla
Diff between hsmm versions 0.3-4 dated 2008-04-25 and 0.3-5 dated 2008-06-16
Title: Hidden Semi Markov Models
Description: A package for computation of hidden semi markov models
DESCRIPTION | 8 +-
R/hsmm.r | 19 +----
R/hsmm.sim.r | 5 -
R/rmt.r | 3
R/rvm.r |only
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demo/hsmm.est.r | 27 ++++---
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man/hsmm.viterbi.rd | 66 ++++++++++++-----
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Author: Jarrod Hadfield
Title: ML and MCMC Methods for Pedigree Reconstruction and Analysis
Description: The primary aim of MasterBayes is to use MCMC techniques to integrate over uncertainty in pedigree configurations estimated from molecular markers and phenotypic data. Emphasis is put on the marginal distribution of parameters that relate the phenotypic data to the pedigree. All simulation is done in compiled C++ for efficency.
Diff between MasterBayes versions 2.22 dated 2008-06-13 and 2.3 dated 2008-06-16
MasterBayes-2.22/MasterBayes/inst/doc/Tutorial.aux |only MasterBayes-2.22/MasterBayes/inst/doc/Tutorial.bbl |only MasterBayes-2.22/MasterBayes/inst/doc/Tutorial.blg |only MasterBayes-2.22/MasterBayes/inst/doc/Tutorial.log |only MasterBayes-2.22/MasterBayes/inst/doc/Tutorial.toc |only MasterBayes-2.3/MasterBayes/DESCRIPTION | 6 +++--- MasterBayes-2.3/MasterBayes/inst/doc/Sweave.sty |only MasterBayes-2.3/MasterBayes/inst/doc/Tutorial.pdf |binary MasterBayes-2.3/MasterBayes/inst/doc/Tutorial.tex | 3 ++- 9 files changed, 5 insertions(+), 4 deletions(-)
Author: lp_solve
Diff between lpSolveAPI versions 5.5.0.12-2 dated 2008-06-13 and 5.5.0.12-3 dated 2008-06-16
Title: Interface to lp_solve v. 5.5
Description: The lpSolveAPI package provides an R interface to the lp_solve
library API - lp_solve is a Mixed Integer Linear Programming (MILP) solver
with support for pure linear, (mixed) integer/binary, semi-continuous
and special ordered sets (SOS) models.
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lpSolveAPI-5.5.0.12-3/lpSolveAPI/DESCRIPTION | 4
lpSolveAPI-5.5.0.12-3/lpSolveAPI/build/lpSolveAPI.build/lpSolveAPI.pbxindex/cdecls.pbxbtree |binary
lpSolveAPI-5.5.0.12-3/lpSolveAPI/build/lpSolveAPI.build/lpSolveAPI.pbxindex/decls.pbxbtree |binary
lpSolveAPI-5.5.0.12-3/lpSolveAPI/build/lpSolveAPI.build/lpSolveAPI.pbxindex/files.pbxbtree |binary
lpSolveAPI-5.5.0.12-3/lpSolveAPI/build/lpSolveAPI.build/lpSolveAPI.pbxindex/imports.pbxbtree |binary
lpSolveAPI-5.5.0.12-3/lpSolveAPI/build/lpSolveAPI.build/lpSolveAPI.pbxindex/pbxindex.header |binary
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lpSolveAPI-5.5.0.12-3/lpSolveAPI/build/lpSolveAPI.build/lpSolveAPI.pbxindex/symbols0.pbxsymbols |binary
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lpSolveAPI-5.5.0.12-3/lpSolveAPI/lpSolveAPI.xcodeproj/konis.pbxuser | 381 ++++++----
lpSolveAPI-5.5.0.12-3/lpSolveAPI/lpSolveAPI.xcodeproj/project.pbxproj | 132 +--
lpSolveAPI-5.5.0.12-3/lpSolveAPI/src/Makevars | 4
lpSolveAPI-5.5.0.12-3/lpSolveAPI/src/Makevars.win | 5
47 files changed, 348 insertions(+), 229 deletions(-)
Author: Marcus G. Daniels mdaniels@lanl.gov
Title: HDF5
Description: Interface to the NCSA HDF5 library
Diff between hdf5 versions 1.6.6 dated 2007-04-16 and 1.6.7 dated 2008-06-16
ChangeLog | 4 ++++ DESCRIPTION | 2 +- src/ChangeLog | 5 +++++ src/hdf5.c | 4 ++++ 4 files changed, 14 insertions(+), 1 deletion(-)
Author: Martin Maechler, based on S original by Peter Rousseeuw
Diff between cluster versions 1.11.10 dated 2008-02-29 and 1.11.11 dated 2008-06-16
Title: Cluster Analysis Extended Rousseeuw et al.
Description: Cluster Analysis, extended original from
Peter Rousseeuw, Anja Struyf and Mia Hubert.
ChangeLog | 10 ++++++++++
DESCRIPTION | 6 +++---
R/pam.q | 2 +-
R/silhouette.R | 6 +++++-
R/zzz.R | 5 +++++
man/pam.Rd | 2 +-
tests/fanny-ex.R | 1 +
7 files changed, 26 insertions(+), 6 deletions(-)
Author: Christian Buchta and Michael Hahsler
Title: Mining frequent sequences
Description: Add-on for arules to handle and mine frequent sequences.
Provides interfaces to the C++ implementation of cSPADE by
Mohammed J. Zaki.
Diff between arulesSequences versions 0.1-3 dated 2008-04-29 and 0.1-4 dated 2008-06-16
CHANGELOG |only DESCRIPTION | 11 +-- NAMESPACE | 13 ++-- R/01matrix.R | 4 - R/02sequences.R | 116 +++++++++++++++++++++---------------- R/03rules.R | 70 +++++++++++++++------- R/04parameter.R | 10 +-- R/05read_write.R | 133 ++++++++++++++++++++++++++++--------------- R/10timed.R | 77 ++++++++++-------------- R/20support.R |only R/30similarity.R |only README | 2 configure | 4 - man/SPcontrol-class.Rd | 2 man/cspade.Rd | 44 +++++++++++--- man/info-methods.Rd | 36 ++++++----- man/itemFrequency-methods.Rd | 4 - man/match-methods.Rd | 4 - man/ruleInduction-methods.Rd | 1 man/sequencerules-class.Rd | 10 +-- man/sequences-class.Rd | 16 +++-- man/similarity-methods.Rd |only man/support-methods.Rd |only man/timedsequences-class.Rd | 6 - man/zaki.Rd | 2 src/makebin.c |only src/matrix.c | 82 ++++---------------------- src/similarity.c |only src_exec/TPOSE/Makefile | 22 +++---- src_exec/TPOSE/b2a.cc | 2 src_exec/TPOSE/exttpose.cc | 20 ++++-- src_exec/TPOSE/getconf.cc | 7 +- src_exec/cSPADE/Makefile | 12 +-- src_exec/cSPADE/sequence.cc | 10 +-- tests/makebin.R |only tests/makebin.Rout.save |only tests/similarity.R |only tests/similarity.Rout.save |only tests/zaki.R | 10 ++- tests/zaki.Rout.save | 43 ++++++++----- 40 files changed, 436 insertions(+), 337 deletions(-)
More information about arulesSequences at CRAN
Permanent link
Author: Roger Bivand and Danlin Yu
Title: Geographically weighted regression
Description: Functions for computing geographically weighted
regressions based on work by Chris
Brunsdon, Martin Charlton and Stewart Fortheringham,
http://ncg.nuim.ie/ncg/GWR/index.htm
Diff between spgwr versions 0.5-1 dated 2008-02-19 and 0.5-2 dated 2008-06-15
DESCRIPTION | 30 +++++++++++++++--------------- INDEX | 32 ++++++++++++++++---------------- R/gwr.whole.test.R | 3 ++- R/zzz.R | 2 +- inst/ChangeLog | 10 +--------- 5 files changed, 35 insertions(+), 42 deletions(-)
Author: Reinhard Furrer
Title: SPArse Matrix
Description: Set of function for sparse matrix algebra.
Differences with SparseM/Matrix are:
(1) we only support (essentially) one sparse matrix format,
(2) based on transparent and simple structure(s),
(3) tailored for MCMC calculations within GMRF.
(4) S3 and S4 like-"compatible" ... and it is fast.
Diff between spam versions 0.13-3 dated 2008-04-22 and 0.15-0 dated 2008-06-15
spam-0.13-3/spam/CHANGELOG |only spam-0.13-3/spam/R/AAA.R |only spam-0.13-3/spam/R/spam_operations.R |only spam-0.13-3/spam/src/cholesky.f |only spam-0.13-3/spam/src/cholmod.f |only spam-0.13-3/spam/src/extract.f |only spam-0.13-3/spam/src/spammodified.f |only spam-0.15-0/spam/ChangeLog |only spam-0.15-0/spam/DESCRIPTION | 18 spam-0.15-0/spam/NAMESPACE | 38 - spam-0.15-0/spam/R/definitions.R |only spam-0.15-0/spam/R/dist.R |only spam-0.15-0/spam/R/foreign.R |only spam-0.15-0/spam/R/kronecker.R |only spam-0.15-0/spam/R/plotting.R |only spam-0.15-0/spam/R/profile.R |only spam-0.15-0/spam/R/spam_solve.R | 807 +++++++++++++++-------- spam-0.15-0/spam/R/xybind.R |only spam-0.15-0/spam/data/UScounties.ndorder.rda |only spam-0.15-0/spam/data/UScounties.storder.rda |only spam-0.15-0/spam/demo/00Index | 2 spam-0.15-0/spam/demo/article-jss.R |only spam-0.15-0/spam/demo/cholesky.R |only spam-0.15-0/spam/demo/spam.R | 2 spam-0.15-0/spam/demo/timing.R | 15 spam-0.15-0/spam/inst |only spam-0.15-0/spam/man/SPAM.Rd | 31 spam-0.15-0/spam/man/UScounties.Rd |only spam-0.15-0/spam/man/USprecip.Rd | 7 spam-0.15-0/spam/man/chol.Rd | 101 ++ spam-0.15-0/spam/man/det.Rd | 8 spam-0.15-0/spam/man/diag.Rd | 3 spam-0.15-0/spam/man/dim.Rd |only spam-0.15-0/spam/man/display.Rd | 13 spam-0.15-0/spam/man/foreign.Rd |only spam-0.15-0/spam/man/history.spam.Rd | 23 spam-0.15-0/spam/man/image.Rd | 13 spam-0.15-0/spam/man/import.Rd |only spam-0.15-0/spam/man/kronecker.Rd |only spam-0.15-0/spam/man/lu.tri.Rd | 12 spam-0.15-0/spam/man/nearestdist.Rd |only spam-0.15-0/spam/man/operations.Rd | 39 - spam-0.15-0/spam/man/options.Rd | 82 +- spam-0.15-0/spam/man/ordering.Rd | 8 spam-0.15-0/spam/man/print.Rd | 31 spam-0.15-0/spam/man/solve.Rd | 17 spam-0.15-0/spam/man/spam-class.Rd | 24 spam-0.15-0/spam/man/spam.chol.NgPeyton-class.Rd | 26 spam-0.15-0/spam/man/spam.creation.Rd | 47 - spam-0.15-0/spam/man/spam.internal.Rd | 15 spam-0.15-0/spam/man/todo.Rd | 36 - spam-0.15-0/spam/man/triplet.Rd |only spam-0.15-0/spam/man/version.Rd |only spam-0.15-0/spam/man/xybind.Rd |only spam-0.15-0/spam/src/bckslvmodified.f | 74 -- spam-0.15-0/spam/src/cholmodified.f |only spam-0.15-0/spam/src/dist.f |only spam-0.15-0/spam/src/fromsparsekit.f | 1 spam-0.15-0/spam/src/kronecker.f |only spam-0.15-0/spam/src/spamown.f |only spam-0.15-0/spam/src/xybind.f |only spam-0.15-0/spam/tests/displays.R | 69 + spam-0.15-0/spam/tests/dist.R |only spam-0.15-0/spam/tests/foreign.R |only spam-0.15-0/spam/tests/kronecker.R |only spam-0.15-0/spam/tests/overall.R | 89 -- spam-0.15-0/spam/tests/solve.R |only spam-0.15-0/spam/tests/xybind.R |only 68 files changed, 1018 insertions(+), 633 deletions(-)
Author: Virasakdi Chongsuvivatwong
Diff between epicalc versions 2.7.0.3 dated 2008-05-06 and 2.7.0.4 dated 2008-06-15
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.
DESCRIPTION | 6 +-
R/epicalc.R | 146 ++++++++++++++++++++++++++++++++------------------------
man/keepData.rd | 14 ++++-
man/tab1.rd | 25 ++++++++-
4 files changed, 124 insertions(+), 67 deletions(-)
Author: Stephen Milborrow
derived from mda:mars by Trevor Hastie and Rob Tibshirani.
Title: Multivariate Adaptive Regression Spline Models
Description: Build regression models using the techniques in Friedman's
papers "Fast MARS" and "Multivariate Adaptive Regression Splines".
(The term "MARS" is copyrighted and thus not used in the name of the package.)
Diff between earth versions 2.0-1 dated 2008-06-11 and 2.0-2 dated 2008-06-15
DESCRIPTION | 4 ++-- NEWS | 5 +++++ R/evimp.R | 2 +- R/format.earth.R | 16 ++++++++++++---- R/mars.to.earth.R | 3 +-- man/format.earth.Rd | 22 +++++++++++++--------- src/tests/test.earth.full.R | 6 ++++++ src/tests/test.earth.full.Rout.save | 24 ++++++++++++++++++++++++ 8 files changed, 64 insertions(+), 18 deletions(-)
Author: Robin K. S. Hankin
Title: The hypergeometric function
Description: The hypergeometric function, hypergeo(), for complex numbers
Diff between hypergeo versions 1.1-3 dated 2008-05-13 and 1.1-6 dated 2008-06-13
DESCRIPTION | 6 +++--- INDEX | 2 +- R/hypergeo.R | 14 +++++++------- man/f15.3.10.Rd | 4 +++- man/hypergeo_A_nonpos_int.Rd | 4 +++- tests/aaa.R | 12 ++++++++++-- 6 files changed, 27 insertions(+), 15 deletions(-)
More information about diffractometry at CRAN
Permanent link
Author: Christiane Raemsch
Title: Estimation of partial attributable risks (PAR) from case-control data
Description: Functions to estimate partial attributable risks from case-control data with
corresponding percentile or BCa confidence intervals
Diff between PARccs versions 0.01 dated 2008-04-30 and 0.1-1 dated 2008-06-13
DESCRIPTION | 4 ++-- R/Boot_CI.R | 2 +- man/Boot_CI.Rd | 2 +- 3 files changed, 4 insertions(+), 4 deletions(-)
Author: Andrea Spano'
Title: Variables and Attributes Control Charts
Description: qAnalyst performs: control charts for variables and attributes according to Douglas C. Montgomery Introduction to Statistical Quality Control book, Capability analysis for normal and non - normal distributions and Distributions Identification
Diff between qAnalyst versions 0.5.3 dated 2008-06-03 and 0.5.4 dated 2008-06-13
DESCRIPTION | 6 - R/spc.R | 247 ++++++++++++++++++++++++++------------------------------ R/summary.spc.R | 126 ++++++++++++---------------- README | 11 ++ man/spc.Rd | 2 5 files changed, 190 insertions(+), 202 deletions(-)
Author: Patrick E. Meyer, Frederic Lafitte, Gianluca Bontempi
Title: Mutual Information Network Inference
Description: This package implements various algorithms for inferring mutual information networks from data.
All the algorithms compute the mutual information matrix in order to infer a network.
Several mutual information estimators are implemented.
Diff between minet versions 1.1.3 dated 2008-03-03 and 1.1.5 dated 2008-06-13
minet-1.1.3/minet/data/bcell.rda |only minet-1.1.3/minet/man/bcell.Rd |only minet-1.1.5/minet/CHANGES | 8 minet-1.1.5/minet/DESCRIPTION | 8 minet-1.1.5/minet/R/aracne.net.R | 2 minet-1.1.5/minet/R/build.mim.R | 74 minet-1.1.5/minet/R/clr.net.R | 2 minet-1.1.5/minet/R/disc.R | 10 minet-1.1.5/minet/R/minet.R | 28 minet-1.1.5/minet/R/mr.net.R | 2 minet-1.1.5/minet/R/validate.R | 2 minet-1.1.5/minet/R/vis.res.R | 14 minet-1.1.5/minet/demo/demo.R | 12 minet-1.1.5/minet/inst/doc/courbes.pdf |only minet-1.1.5/minet/inst/doc/graph.pdf |only minet-1.1.5/minet/inst/doc/minet.Rnw | 428 +++ minet-1.1.5/minet/inst/doc/minet.bib |only minet-1.1.5/minet/inst/doc/minet.pdf | 4031 ++++++++++++++++++++++++++------- minet-1.1.5/minet/inst/doc/minet.tex | 492 +++- minet-1.1.5/minet/man/aracne.net.Rd | 25 minet-1.1.5/minet/man/build.mim.Rd | 35 minet-1.1.5/minet/man/clr.net.Rd | 21 minet-1.1.5/minet/man/disc.Rd | 24 minet-1.1.5/minet/man/minet.Rd | 29 minet-1.1.5/minet/man/mr.net.Rd | 23 minet-1.1.5/minet/man/norm.Rd | 7 minet-1.1.5/minet/man/syn.data.Rd | 22 minet-1.1.5/minet/man/syn.net.Rd | 43 minet-1.1.5/minet/man/validate.Rd | 22 minet-1.1.5/minet/man/vis.res.Rd | 43 minet-1.1.5/minet/src/disc.cpp | 5 minet-1.1.5/minet/src/mim.cpp | 217 - minet-1.1.5/minet/src/minet.cpp | 1 minet-1.1.5/minet/src/minet.h | 5 minet-1.1.5/minet/src/symmetrize.cpp | 1 35 files changed, 4314 insertions(+), 1322 deletions(-)
Author: Peter Solymos
Title: Multivariate count data handling in ecology and biogeography
Description: R package for multivariate count data handling in ecology and biogeography. The name 'mefa' stands for the term 'metafaunistics' indicating that data handling is the most critical and sometimes most time consuming part of data analysis. The package contains object classes and functions to manipulate basic biotic (sample/species/count or crosstabulated) count data and relational attribute tables for samples and species. Functions can handle segments (eg. life stages, gender) within the count data and samples with zero count. Reports are generated in plain text or LaTeX format.
Diff between mefa versions 1.1-0 dated 2008-03-21 and 1.1-2 dated 2008-06-13
mefa-1.1-0/mefa/R/xytrend.R |only mefa-1.1-0/mefa/inst/doc/Rplots.ps |only mefa-1.1-0/mefa/man/report.mefa.Rd |only mefa-1.1-0/mefa/man/xytrend.Rd |only mefa-1.1-2/mefa/DESCRIPTION | 12 ++-- mefa-1.1-2/mefa/R/accumulate.R | 27 +++++---- mefa-1.1-2/mefa/R/as.xcount.R | 11 +++ mefa-1.1-2/mefa/R/mefa.R | 21 ++++++- mefa-1.1-2/mefa/R/report.mefa.R | 12 +++- mefa-1.1-2/mefa/R/zzz.R |only mefa-1.1-2/mefa/demo/dolina.R | 4 + mefa-1.1-2/mefa/inst/CITATION |only mefa-1.1-2/mefa/inst/ChangeLog | 18 ++++++ mefa-1.1-2/mefa/inst/doc/mefa-vignette.Rnw | 60 +++++++++++---------- mefa-1.1-2/mefa/inst/doc/mefa-vignette.pdf |binary mefa-1.1-2/mefa/man/accumulate.Rd | 23 +++++--- mefa-1.1-2/mefa/man/add.attrib.Rd | 24 ++++---- mefa-1.1-2/mefa/man/amf.Rd | 11 +-- mefa-1.1-2/mefa/man/as.xcount.Rd | 18 ++---- mefa-1.1-2/mefa/man/binmat.Rd | 4 - mefa-1.1-2/mefa/man/check.attrib.Rd | 6 +- mefa-1.1-2/mefa/man/dol.sample.Rd | 2 mefa-1.1-2/mefa/man/drtsscount.Rd | 6 -- mefa-1.1-2/mefa/man/exclmf.Rd | 16 +++-- mefa-1.1-2/mefa/man/fill.count.Rd | 5 - mefa-1.1-2/mefa/man/inflate.Rd | 6 +- mefa-1.1-2/mefa/man/ivgen.Rd | 13 ++-- mefa-1.1-2/mefa/man/landsnail.Rd | 2 mefa-1.1-2/mefa/man/mapmf.Rd | 1 mefa-1.1-2/mefa/man/marmat.Rd | 12 ++-- mefa-1.1-2/mefa/man/mefa-package.Rd | 12 ++-- mefa-1.1-2/mefa/man/mefa.Rd | 80 ++++++++++++++++++++++++----- mefa-1.1-2/mefa/man/mefadocs.Rd | 2 mefa-1.1-2/mefa/man/mefaweb.Rd | 4 - mefa-1.1-2/mefa/man/msscount.Rd | 4 - mefa-1.1-2/mefa/man/mxcount.Rd | 2 mefa-1.1-2/mefa/man/qdef.Rd | 2 mefa-1.1-2/mefa/man/sscount.Rd | 10 +-- mefa-1.1-2/mefa/man/strify.Rd | 7 +- mefa-1.1-2/mefa/man/ttsscount.Rd | 3 - mefa-1.1-2/mefa/man/vsample.Rd | 2 mefa-1.1-2/mefa/man/xcount.Rd | 8 +- mefa-1.1-2/mefa/man/xorder.Rd | 2 43 files changed, 287 insertions(+), 165 deletions(-)
Author: Sřren Hřjsgaard
Diff between gRain versions 0.3.2 dated 2008-05-07 and 0.3.3 dated 2008-06-13
Title: Graphical Independence Networks
Description: A package for probability propagation in graphical independence networks, also known as probabilistic expert systems (which includes Bayesian networks as a special case).
ChangeLog | 7 +++++++
DESCRIPTION | 4 ++--
R/Graphsh-mcs-moral-rip.R | 21 ++++++++++++---------
R/Graphsh-triangulate.R | 9 +++------
R/gmInstance.R | 12 ++++++++----
inst/doc/gRain-intro.pdf |binary
man/gmInstance.Rd | 11 +++++++++++
7 files changed, 43 insertions(+), 21 deletions(-)
Author: Sřren Hřjsgaard
Diff between doBy versions 3.0 dated 2008-05-21 and 3.1 dated 2008-06-13
Title: Groupwise computations of summary statistics and other utilities
Description: Facilities for groupwise computations of summary statistics and other facilities for working with grouped data (similar to what can be achieved by proc means or proc summary of the SAS system).
doBy-3.0/doBy/inst/doc/.build.timestamp |only
doBy-3.1/doBy/ChangeLog | 8
doBy-3.1/doBy/DESCRIPTION | 4
doBy-3.1/doBy/NAMESPACE | 3
doBy-3.1/doBy/R/splitBy.R | 3
doBy-3.1/doBy/R/summaryBy.R | 29 -
doBy-3.1/doBy/inst/doc/doBy.Rnw | 15
doBy-3.1/doBy/inst/doc/doBy.pdf | 730 ++++++++++++++++----------------
doBy-3.1/doBy/man/splitBy.Rd | 8
9 files changed, 425 insertions(+), 375 deletions(-)
Author: Sebastian P. Luque
Diff between diveMove versions 0.9.0 dated 2008-01-29 and 0.9.1 dated 2008-06-13
Title: Dive analysis and calibration
Description: Functions to filter and summarize time-depth recorder (TDR)
data, and miscellaneous functions for handling location data.
ChangeLog | 16
DESCRIPTION | 4
R/plotTD.R | 65 +-
R/readLocs.R | 4
R/speedStats.R | 3
README | 5
inst/doc/Rplots.pdf |only
inst/doc/diveMove.pdf | 1424 ++++++++++++++++++++++++--------------------------
man/diveStats.Rd | 8
man/dives.Rd | 12
man/sealLocs.Rd | 10
11 files changed, 787 insertions(+), 764 deletions(-)
Author: Paolo Uva
Diff between crosshybDetector versions 1.0.1 dated 2007-07-31 and 1.0.3 dated 2008-06-13
More information about crosshybDetector at CRAN
Title: Detection of cross-hybridization events in microarray experiments
Description: Functions for identification of probes potentially affected by cross-hybridizations in microarray experiments. Includes functions for diagnostic plots. The package contains code from the dismissed pairseqsim package (removed in BioConductor > 1.9 ), created by Witold Wolski
DESCRIPTION | 10 +++++-----
R/crosshyb2xls.R | 12 ++++++------
R/seqsim.R |only
R/zzz.R |only
README | 16 +++++++++++++---
data/EBLOSUM50.rda |only
data/EBLOSUM62.rda |only
data/EPAM110.rda |only
man/AAAlignment-class.Rd |only
man/AAAlphabet-class.Rd |only
man/AASequence-class.Rd |only
man/AASequence.Rd |only
man/AASequenceList-class.Rd |only
man/EPAM110.Rd |only
man/Submatrix-class.Rd |only
man/crosshybDetector.package.Rd | 10 ++++++----
man/crosshyb_func.Rd | 2 +-
man/listdist-methods.Rd |only
man/readFasta-methods.Rd |only
man/salign-methods.Rd |only
man/testalign-methods.Rd |only
src |only
22 files changed, 31 insertions(+), 19 deletions(-)
Permanent link
Author: Jarrod Hadfield
Title: ML and MCMC Methods for Pedigree Reconstruction and Analysis
Description: The primary aim of MasterBayes is to use MCMC techniques to integrate over uncertainty in pedigree configurations estimated from molecular markers and phenotypic data. Emphasis is put on the marginal distribution of parameters that relate the phenotypic data to the pedigree. All simulation is done in compiled C++ for efficency.
Diff between MasterBayes versions 2.21 dated 2008-04-14 and 2.22 dated 2008-06-13
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Author: Andrew Parnell
Title: Stable Isotope Analysis in R
Description: This package takes data on organism isotopes and fits a Bayesian model to their dietary habits based upon a Gaussian likelihood with a mixture dirichlet-distributed prior on the mean.
Diff between siar versions 3.1 dated 2008-05-19 and 3.2 dated 2008-06-12
DESCRIPTION | 6 +++--- NAMESPACE | 2 +- R/siarhdrs.R | 26 +++++++++++++++++--------- R/siarhistograms.R | 14 ++++++++++++-- R/siarmatrixplot.R | 12 +++++++++++- R/siarmcmcdirichlet.R | 18 ++++++++++++++++-- R/siarmenu.R | 2 +- R/siarsolomcmc.r |only R/siarsolomultigrouprun.r |only R/siarsolosinglegrouprun.r |only man/siar-package.Rd | 4 ++-- man/siarsolomcmc.Rd |only man/siarsolomultigrouprun.Rd |only man/siarsolosinglegrouprun.Rd |only src/siarsolomcmcv3.c |only 15 files changed, 63 insertions(+), 21 deletions(-)
Author: Ken Beath
Diff between randomLCA versions 0.1-4 dated 2008-05-27 and 0.3-2 dated 2008-06-12
Title: Random Effects Latent Class Analysis
Description: Fits random effects latent class models, as well as standard latent class models.
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Author: Reinhard Harter, Kurt Hornik and Stefan Theussl
Title: Symphony in R
Description: An R interface to the SYMPHONY MILP solver (version 5.1.8).
Diff between Rsymphony versions 0.1-4 dated 2008-03-06 and 0.1-5 dated 2008-06-12
DESCRIPTION | 8 R/sparse.R | 10 R/symphony.R | 161 configure | 4 man/Rsymphony_solve.Rd | 23 src/Makevars.in | 3 src/SYMPHONY/BuildTools/Makemain.inc | 25 src/SYMPHONY/BuildTools/coin.m4 | 332 src/SYMPHONY/BuildTools/commit_new_release | 4 src/SYMPHONY/BuildTools/compile_f2c/compile_f2c | 21 src/SYMPHONY/BuildTools/headers/configall_system_msc.h | 10 src/SYMPHONY/BuildTools/prepare_new_release | 10 src/SYMPHONY/Cgl/Makefile.am | 11 src/SYMPHONY/Cgl/Makefile.in | 42 src/SYMPHONY/Cgl/configure | 372 src/SYMPHONY/Cgl/configure.ac | 6 src/SYMPHONY/Cgl/examples/Makefile.in | 8 src/SYMPHONY/Cgl/src/CglAllDifferent/Makefile.am | 7 src/SYMPHONY/Cgl/src/CglAllDifferent/Makefile.in | 50 src/SYMPHONY/Cgl/src/CglClique/CglClique.cpp | 61 src/SYMPHONY/Cgl/src/CglClique/CglClique.hpp | 47 src/SYMPHONY/Cgl/src/CglClique/CglCliqueTest.cpp | 1 src/SYMPHONY/Cgl/src/CglClique/Makefile.am | 7 src/SYMPHONY/Cgl/src/CglClique/Makefile.in | 50 src/SYMPHONY/Cgl/src/CglCutGenerator.cpp | 6 src/SYMPHONY/Cgl/src/CglDuplicateRow/CglDuplicateRow.cpp | 28 src/SYMPHONY/Cgl/src/CglDuplicateRow/Makefile.am | 7 src/SYMPHONY/Cgl/src/CglDuplicateRow/Makefile.in | 50 src/SYMPHONY/Cgl/src/CglFlowCover/CglFlowCover.cpp | 26 src/SYMPHONY/Cgl/src/CglFlowCover/CglFlowCover.hpp | 4 src/SYMPHONY/Cgl/src/CglFlowCover/Makefile.am | 7 src/SYMPHONY/Cgl/src/CglFlowCover/Makefile.in | 50 src/SYMPHONY/Cgl/src/CglGomory/CglGomory.cpp | 60 src/SYMPHONY/Cgl/src/CglGomory/CglGomory.hpp | 12 src/SYMPHONY/Cgl/src/CglGomory/Makefile.am | 7 src/SYMPHONY/Cgl/src/CglGomory/Makefile.in | 50 src/SYMPHONY/Cgl/src/CglKnapsackCover/CglKnapsackCover.cpp | 37 src/SYMPHONY/Cgl/src/CglKnapsackCover/Makefile.am | 7 src/SYMPHONY/Cgl/src/CglKnapsackCover/Makefile.in | 50 src/SYMPHONY/Cgl/src/CglLandP/CglLandPSimplex.cpp | 2 src/SYMPHONY/Cgl/src/CglLandP/Makefile.am | 5 src/SYMPHONY/Cgl/src/CglLandP/Makefile.in | 50 src/SYMPHONY/Cgl/src/CglLiftAndProject/Makefile.am | 7 src/SYMPHONY/Cgl/src/CglLiftAndProject/Makefile.in | 50 src/SYMPHONY/Cgl/src/CglMixedIntegerRounding/Makefile.am | 7 src/SYMPHONY/Cgl/src/CglMixedIntegerRounding/Makefile.in | 50 src/SYMPHONY/Cgl/src/CglMixedIntegerRounding2/CglMixedIntegerRounding2.cpp | 32 src/SYMPHONY/Cgl/src/CglMixedIntegerRounding2/CglMixedIntegerRounding2.hpp | 6 src/SYMPHONY/Cgl/src/CglMixedIntegerRounding2/Makefile.am | 7 src/SYMPHONY/Cgl/src/CglMixedIntegerRounding2/Makefile.in | 50 src/SYMPHONY/Cgl/src/CglOddHole/CglOddHole.cpp | 18 src/SYMPHONY/Cgl/src/CglOddHole/CglOddHole.hpp | 2 src/SYMPHONY/Cgl/src/CglOddHole/CglOddHoleTest.cpp | 4 src/SYMPHONY/Cgl/src/CglOddHole/Makefile.am | 7 src/SYMPHONY/Cgl/src/CglOddHole/Makefile.in | 50 src/SYMPHONY/Cgl/src/CglPreProcess/CglPreProcess.cpp | 1192 ++ src/SYMPHONY/Cgl/src/CglPreProcess/CglPreProcess.hpp | 2 src/SYMPHONY/Cgl/src/CglPreProcess/Makefile.am | 7 src/SYMPHONY/Cgl/src/CglPreProcess/Makefile.in | 50 src/SYMPHONY/Cgl/src/CglProbing/CglProbing.cpp | 454 src/SYMPHONY/Cgl/src/CglProbing/CglProbing.hpp | 3 src/SYMPHONY/Cgl/src/CglProbing/Makefile.am | 7 src/SYMPHONY/Cgl/src/CglProbing/Makefile.in | 50 src/SYMPHONY/Cgl/src/CglRedSplit/CglRedSplitTest.cpp | 1 src/SYMPHONY/Cgl/src/CglRedSplit/Makefile.am | 7 src/SYMPHONY/Cgl/src/CglRedSplit/Makefile.in | 50 src/SYMPHONY/Cgl/src/CglResidualCapacity/Makefile.am | 7 src/SYMPHONY/Cgl/src/CglResidualCapacity/Makefile.in | 50 src/SYMPHONY/Cgl/src/CglSimpleRounding/Makefile.am | 7 src/SYMPHONY/Cgl/src/CglSimpleRounding/Makefile.in | 50 src/SYMPHONY/Cgl/src/CglStored.cpp | 175 src/SYMPHONY/Cgl/src/CglStored.hpp | 6 src/SYMPHONY/Cgl/src/CglTreeInfo.cpp | 1156 ++ src/SYMPHONY/Cgl/src/CglTreeInfo.hpp | 35 src/SYMPHONY/Cgl/src/CglTwomir/Makefile.am | 7 src/SYMPHONY/Cgl/src/CglTwomir/Makefile.in | 50 src/SYMPHONY/Cgl/src/Makefile.am | 11 src/SYMPHONY/Cgl/src/Makefile.in | 54 src/SYMPHONY/Cgl/test/Makefile.am | 2 src/SYMPHONY/Cgl/test/Makefile.in | 9 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src/SYMPHONY/SYMPHONY/src/Common/proccomm.c | 2 src/SYMPHONY/SYMPHONY/src/Common/sym_qsort.c | 2 src/SYMPHONY/SYMPHONY/src/Common/timemeas.c | 2 src/SYMPHONY/SYMPHONY/src/CutGen/cg_func.c | 2 src/SYMPHONY/SYMPHONY/src/CutGen/cg_proccomm.c | 2 src/SYMPHONY/SYMPHONY/src/CutGen/cg_wrapper.c | 2 src/SYMPHONY/SYMPHONY/src/CutGen/cut_gen.c | 2 src/SYMPHONY/SYMPHONY/src/CutPool/cp_func.c | 2 src/SYMPHONY/SYMPHONY/src/CutPool/cp_proccomm.c | 2 src/SYMPHONY/SYMPHONY/src/CutPool/cp_wrapper.c | 2 src/SYMPHONY/SYMPHONY/src/CutPool/cut_pool.c | 2 src/SYMPHONY/SYMPHONY/src/DrawGraph/draw_graph.c | 2 src/SYMPHONY/SYMPHONY/src/DrawGraph/tester.c | 2 src/SYMPHONY/SYMPHONY/src/LP/lp.c | 2 src/SYMPHONY/SYMPHONY/src/LP/lp_branch.c | 28 src/SYMPHONY/SYMPHONY/src/LP/lp_free.c | 11 src/SYMPHONY/SYMPHONY/src/LP/lp_genfunc.c | 3 src/SYMPHONY/SYMPHONY/src/LP/lp_proccomm.c | 2 src/SYMPHONY/SYMPHONY/src/LP/lp_pseudo_branch.c | 2 src/SYMPHONY/SYMPHONY/src/LP/lp_rowfunc.c | 2 src/SYMPHONY/SYMPHONY/src/LP/lp_solver.c | 765 + src/SYMPHONY/SYMPHONY/src/LP/lp_varfunc.c | 2 src/SYMPHONY/SYMPHONY/src/LP/lp_wrapper.c | 248 src/SYMPHONY/SYMPHONY/src/Makefile.am | 13 src/SYMPHONY/SYMPHONY/src/Makefile.in | 55 src/SYMPHONY/SYMPHONY/src/Master/main.c | 47 src/SYMPHONY/SYMPHONY/src/Master/master.c | 143 src/SYMPHONY/SYMPHONY/src/Master/master_func.c | 91 src/SYMPHONY/SYMPHONY/src/Master/master_io.c | 11 src/SYMPHONY/SYMPHONY/src/Master/master_wrapper.c | 90 src/SYMPHONY/SYMPHONY/src/TreeManager/tm_func.c | 81 src/SYMPHONY/SYMPHONY/src/TreeManager/tm_proccomm.c | 2 src/SYMPHONY/SYMPHONY/src/TreeManager/treemanager.c | 2 src/SYMPHONY/SYMPHONY/test/Makefile.in | 7 src/SYMPHONY/SYMPHONY/test/OsiSolverInterfaceTest.cpp | 647 + src/SYMPHONY/SYMPHONY/test/unitTestSym.cpp | 2 src/SYMPHONY/ThirdParty/Blas |only src/SYMPHONY/ThirdParty/Glpk/INSTALL.Glpk | 14 src/SYMPHONY/ThirdParty/Glpk/Makefile.am | 15 src/SYMPHONY/ThirdParty/Glpk/Makefile.in | 134 src/SYMPHONY/ThirdParty/Glpk/configure | 352 src/SYMPHONY/ThirdParty/Glpk/configure.ac | 18 src/SYMPHONY/ThirdParty/Glpk/get.Glpk | 6 src/SYMPHONY/ThirdParty/Glpk/glpk.patch |only src/SYMPHONY/ThirdParty/Lapack |only src/SYMPHONY/configure | 416 src/SYMPHONY/configure.ac | 8 458 files changed, 23073 insertions(+), 8301 deletions(-)
Author: Stig Mortensen
Diff between PSM versions 0.7 dated 2008-06-10 and 0.8 dated 2008-06-12
Title: Non-Linear Mixed-Effects modelling using Stochastic Differential Equations.
Description: This package provides functions for estimation of linear and non-linear mixed-effects models using stochastic differential equations. Moreover it provides functions for finding smoothed estimates of model states and for simulation. The package allows for any multivariate non-linear time-variant model to be specified, and it also handels multidimentional input, co-variates, missing observations and specification of dosage regimen.
DESCRIPTION | 6 +++---
inst/doc/PSM.Rnw | 40 ++++++++++++++++++++++++++++++++++++++--
inst/doc/PSM.pdf |binary
man/PSM.estimate.Rd | 1 -
man/PSM.simulate.Rd | 1 -
man/PSM.smooth.Rd | 1 -
6 files changed, 41 insertions(+), 8 deletions(-)
Author: Jae. H. Kim
Title: Bootstrap Prediction Intervals and Bias-Corrected Forecasting
Description: Bias-Corrected Forecasting and Bootstrap Prediction Intervals for Autoregressive Time Series
Diff between BootPR versions 0.55 dated 2008-04-20 and 0.56 dated 2008-06-12
DESCRIPTION | 6 +++--- R/Boot.PI.R | 2 +- R/BootAfterBoot.PI.R | 2 +- R/BootAfterBootT.PI.R | 2 +- R/BootT.PI.R | 2 +- R/LS.AR.R | 9 ++++----- R/OLS.AR.R | 15 ++++++++++++--- R/OLS.ART.R | 16 +++++++++++++--- R/adjust2.R | 3 +++ R/mainf.R |only man/LS.AR.Rd | 6 ++++-- 11 files changed, 43 insertions(+), 20 deletions(-)
Author: Andrew Balemi, James Curran, Brant Deppa, Mike Forster, Michael Maia, Chris Wild
Title: Stats 20x
Description: Stats 20x functions.
Diff between s20x versions 2.6.1.000 dated 2008-02-12 and 3.1-0 dated 2008-06-12
s20x-2.6.1.000/s20x/data/STATS20x.txt |only s20x-2.6.1.000/s20x/data/airpass.txt |only s20x-2.6.1.000/s20x/data/arousal.txt |only s20x-2.6.1.000/s20x/data/beer.txt |only s20x-2.6.1.000/s20x/data/bodim.txt |only s20x-2.6.1.000/s20x/data/bursary.01.txt |only s20x-2.6.1.000/s20x/data/camplake.txt |only s20x-2.6.1.000/s20x/data/computer.txt |only s20x-2.6.1.000/s20x/data/course.2way.txt |only s20x-2.6.1.000/s20x/data/crest.txt |only s20x-2.6.1.000/s20x/data/diamonds.txt |only s20x-2.6.1.000/s20x/data/fire.txt |only s20x-2.6.1.000/s20x/data/houseprices.txt |only s20x-2.6.1.000/s20x/data/incomes.txt |only s20x-2.6.1.000/s20x/data/la.rain.txt |only s20x-2.6.1.000/s20x/data/lakemary.txt |only s20x-2.6.1.000/s20x/data/mazda.txt |only s20x-2.6.1.000/s20x/data/mening.txt |only s20x-2.6.1.000/s20x/data/mergers.txt |only s20x-2.6.1.000/s20x/data/mozart.txt |only s20x-2.6.1.000/s20x/data/oyster.txt |only s20x-2.6.1.000/s20x/data/peru.txt |only s20x-2.6.1.000/s20x/data/soya.txt |only s20x-2.6.1.000/s20x/data/teach.methods.txt |only s20x-2.6.1.000/s20x/data/technitron.txt |only s20x-2.6.1.000/s20x/data/thyroid.txt |only s20x-2.6.1.000/s20x/data/zoo.txt |only s20x-2.6.1.000/s20x/man/STATS20x.Rd |only s20x-2.6.1.000/s20x/man/airpass.Rd |only s20x-2.6.1.000/s20x/man/arousal.Rd |only s20x-2.6.1.000/s20x/man/beer.Rd |only s20x-2.6.1.000/s20x/man/bodim.Rd |only s20x-2.6.1.000/s20x/man/bursary.01.Rd |only s20x-2.6.1.000/s20x/man/camplake.Rd |only s20x-2.6.1.000/s20x/man/computer.Rd |only s20x-2.6.1.000/s20x/man/course.2way.Rd |only s20x-2.6.1.000/s20x/man/crest.Rd |only s20x-2.6.1.000/s20x/man/diamonds.Rd |only s20x-2.6.1.000/s20x/man/fire.Rd |only s20x-2.6.1.000/s20x/man/houseprices.Rd |only s20x-2.6.1.000/s20x/man/incomes.Rd |only s20x-2.6.1.000/s20x/man/la.rain.Rd |only s20x-2.6.1.000/s20x/man/lakemary.Rd |only s20x-2.6.1.000/s20x/man/mazda.Rd |only s20x-2.6.1.000/s20x/man/mening.Rd |only s20x-2.6.1.000/s20x/man/mergers.Rd |only s20x-2.6.1.000/s20x/man/mozart.Rd |only s20x-2.6.1.000/s20x/man/oyster.Rd |only s20x-2.6.1.000/s20x/man/peru.Rd |only s20x-2.6.1.000/s20x/man/soya.Rd |only s20x-2.6.1.000/s20x/man/teach.methods.Rd |only s20x-2.6.1.000/s20x/man/technitron.Rd |only s20x-2.6.1.000/s20x/man/thyroid.Rd |only s20x-2.6.1.000/s20x/man/zoo.Rd |only s20x-3.1-0/s20x/DESCRIPTION | 10 - s20x-3.1-0/s20x/R/DEPRECATED.R | 21 ++- s20x-3.1-0/s20x/R/eovcheck.R |only s20x-3.1-0/s20x/R/levene.test.R | 19 ++- s20x-3.1-0/s20x/R/normcheck.R |only s20x-3.1-0/s20x/R/pairs20x.R | 5 s20x-3.1-0/s20x/R/predict20x.R | 26 ++-- s20x-3.1-0/s20x/R/rowdistr.r | 166 ++++++++++++++--------------- s20x-3.1-0/s20x/R/version.R |only s20x-3.1-0/s20x/data/airpass.df.txt |only s20x-3.1-0/s20x/data/arousal.df.txt |only s20x-3.1-0/s20x/data/beer.df.txt |only s20x-3.1-0/s20x/data/bodim.df.txt |only s20x-3.1-0/s20x/data/bursary.df.txt |only s20x-3.1-0/s20x/data/camplake.df.txt |only s20x-3.1-0/s20x/data/computer.df.txt |only s20x-3.1-0/s20x/data/course.df.txt |only s20x-3.1-0/s20x/data/diamonds.df.txt |only s20x-3.1-0/s20x/data/fire.df.txt |only s20x-3.1-0/s20x/data/houseprices.df.txt |only s20x-3.1-0/s20x/data/incomes.df.txt |only s20x-3.1-0/s20x/data/lakemary.df.txt |only s20x-3.1-0/s20x/data/larain.df.txt |only s20x-3.1-0/s20x/data/mazda.df.txt |only s20x-3.1-0/s20x/data/mening.df.txt |only s20x-3.1-0/s20x/data/mergers.df.txt |only s20x-3.1-0/s20x/data/mozart.df.txt |only s20x-3.1-0/s20x/data/oyster.df.txt |only s20x-3.1-0/s20x/data/peru.df.txt |only s20x-3.1-0/s20x/data/soya.df.txt |only s20x-3.1-0/s20x/data/teach.df.txt |only s20x-3.1-0/s20x/data/technitron.df.txt |only s20x-3.1-0/s20x/data/thyroid.df.txt |only s20x-3.1-0/s20x/data/toothpaste.df.txt |only s20x-3.1-0/s20x/data/zoo.df.txt |only s20x-3.1-0/s20x/demo/cs1.r | 27 ++-- s20x-3.1-0/s20x/demo/cs11.r | 9 - s20x-3.1-0/s20x/demo/cs12.r | 6 - s20x-3.1-0/s20x/demo/cs13.r | 8 - s20x-3.1-0/s20x/demo/cs14.r | 8 - s20x-3.1-0/s20x/demo/cs2.r | 7 - s20x-3.1-0/s20x/demo/cs21.r | 5 s20x-3.1-0/s20x/demo/cs22.r | 4 s20x-3.1-0/s20x/demo/cs23.r | 4 s20x-3.1-0/s20x/demo/cs24.r | 5 s20x-3.1-0/s20x/demo/cs25.r | 5 s20x-3.1-0/s20x/demo/cs28.r | 5 s20x-3.1-0/s20x/demo/cs29.r | 6 - s20x-3.1-0/s20x/demo/cs3.r | 4 s20x-3.1-0/s20x/demo/cs30.r | 5 s20x-3.1-0/s20x/demo/cs31.r | 5 s20x-3.1-0/s20x/demo/cs32.r | 7 - s20x-3.1-0/s20x/demo/cs33.r | 7 - s20x-3.1-0/s20x/demo/cs34.r | 4 s20x-3.1-0/s20x/demo/cs4.r | 8 - s20x-3.1-0/s20x/demo/cs5.r | 5 s20x-3.1-0/s20x/demo/cs8.r | 7 - s20x-3.1-0/s20x/man/airpass.df.Rd |only s20x-3.1-0/s20x/man/arousal.df.Rd |only s20x-3.1-0/s20x/man/autocor.plot.Rd | 6 - s20x-3.1-0/s20x/man/beer.df.Rd |only s20x-3.1-0/s20x/man/bodim.df.Rd |only s20x-3.1-0/s20x/man/boxqq.Rd | 6 - s20x-3.1-0/s20x/man/bursary.df.Rd |only s20x-3.1-0/s20x/man/camplake.df.Rd |only s20x-3.1-0/s20x/man/ci.reg.Rd | 8 - s20x-3.1-0/s20x/man/computer.df.Rd |only s20x-3.1-0/s20x/man/cooks.20x.Rd | 6 - s20x-3.1-0/s20x/man/course.df.Rd |only s20x-3.1-0/s20x/man/crosstabs.20x.Rd | 6 - s20x-3.1-0/s20x/man/diamonds.df.Rd |only s20x-3.1-0/s20x/man/eovcheck.Rd |only s20x-3.1-0/s20x/man/estimate.contrasts.Rd | 6 - s20x-3.1-0/s20x/man/fire.df.Rd |only s20x-3.1-0/s20x/man/freq1way.Rd | 8 - s20x-3.1-0/s20x/man/houseprices.df.Rd |only s20x-3.1-0/s20x/man/incomes.df.Rd |only s20x-3.1-0/s20x/man/interaction.20x.Rd | 6 - s20x-3.1-0/s20x/man/lakemary.df.Rd |only s20x-3.1-0/s20x/man/larain.df.Rd |only s20x-3.1-0/s20x/man/layout.20x.Rd | 6 - s20x-3.1-0/s20x/man/levene.test.Rd | 28 ++-- s20x-3.1-0/s20x/man/mazda.df.Rd |only s20x-3.1-0/s20x/man/mening.df.Rd |only s20x-3.1-0/s20x/man/mergers.df.Rd |only s20x-3.1-0/s20x/man/mozart.df.Rd |only s20x-3.1-0/s20x/man/multiple.comp.Rd | 6 - s20x-3.1-0/s20x/man/normcheck.Rd |only s20x-3.1-0/s20x/man/numerical.summary.Rd | 12 +- s20x-3.1-0/s20x/man/oneway.plot.Rd | 10 - s20x-3.1-0/s20x/man/oyster.df.Rd |only s20x-3.1-0/s20x/man/pairs20x.Rd | 15 +- s20x-3.1-0/s20x/man/peru.df.Rd |only s20x-3.1-0/s20x/man/predict20x.Rd | 17 +- s20x-3.1-0/s20x/man/resid.plot.Rd | 13 +- s20x-3.1-0/s20x/man/rowdistr.Rd | 7 - s20x-3.1-0/s20x/man/skewness.Rd | 6 - s20x-3.1-0/s20x/man/soya.df.Rd |only s20x-3.1-0/s20x/man/stripqq.Rd | 5 s20x-3.1-0/s20x/man/summary1way.Rd | 4 s20x-3.1-0/s20x/man/summary2way.Rd | 13 +- s20x-3.1-0/s20x/man/teach.df.Rd |only s20x-3.1-0/s20x/man/technitron.df.Rd |only s20x-3.1-0/s20x/man/thyroid.df.Rd |only s20x-3.1-0/s20x/man/toothpaste.df.Rd |only s20x-3.1-0/s20x/man/trendscatter.Rd | 12 +- s20x-3.1-0/s20x/man/version.Rd |only s20x-3.1-0/s20x/man/zoo.df.Rd |only 162 files changed, 314 insertions(+), 290 deletions(-)
Author: Rolf Turner
Diff between Iso versions 0.0-4 dated 2008-03-07 and 0.0-5 dated 2008-06-12
Title: Functions to perform isotonic regression.
Description: Does linear order and unimodal order isotonic regression.
DESCRIPTION | 6 +++---
R/pava.R | 15 ++++++++++++---
R/pava.sa.R | 13 +++++++++++--
man/pava.Rd | 23 +++++++++++++++++------
4 files changed, 43 insertions(+), 14 deletions(-)
Author: Michael Hahsler, Christian Buchta, Bettina Gruen and Kurt Hornik
Title: Mining Association Rules and Frequent Itemsets
Description: Provides the infrastructure for representing,
manipulating and analyzing transaction data and patterns (frequent
itemsets and association rules). Also provides interfaces to
C implementations of the association mining algorithms Apriori and Eclat
by C. Borgelt.
Diff between arules versions 0.6-5 dated 2008-04-27 and 0.6-6 dated 2008-06-11
DESCRIPTION | 8 NAMESPACE | 5 R/AllClasses.R | 26 R/AllGenerics.R | 10 R/Matrix.R | 11 R/apriori.R | 10 R/associations.R | 15 R/control.R | 2 R/coverage.R | 13 R/dissimilarity.R | 30 R/eclat.R | 10 R/image.R |only R/interestMeasures.R | 286 +- R/is.closed.R | 2 R/is.superset.R | 15 R/itemMatrix.R | 19 R/itemsets.R | 33 R/parameter.R | 2 R/ruleInduction.R | 10 R/rules.R | 43 R/subset.R | 15 R/support.R | 30 R/tidLists.R | 9 R/transactions.R | 10 inst/CITATION | 8 inst/doc/Rplots.pdf |only inst/doc/arules-019.pdf | 4 inst/doc/arules-035.eps |only inst/doc/arules-035.pdf |only inst/doc/arules-037.eps |only inst/doc/arules-037.pdf |only inst/doc/arules-epub.pdf | 4 inst/doc/arules.Rnw | 82 inst/doc/arules.aux | 157 - inst/doc/arules.bib | 27 inst/doc/arules.log | 89 inst/doc/arules.out | 7 inst/doc/arules.pdf | 5446 ++++++++++++++++++++++--------------------- inst/doc/arules.tex | 139 - man/AScontrol-class.Rd | 2 man/WRITE.Rd | 2 man/associations-class.Rd | 17 man/coverage.Rd | 8 man/dissimilarity.Rd | 1 man/interestMeasure.Rd | 81 man/random.transactions.Rd | 6 man/ruleInduction.Rd | 1 man/support.Rd | 24 man/tidLists-class.Rd | 4 src/matrix.c | 102 src/reclat.c | 3 tests/associations.Rout.save | 9 tests/extract.R | 2 tests/extract.Rout.save | 11 tests/interfaces.Rout.save | 15 tests/matrix.R |only tests/matrix.Rout.save |only tests/measures.R | 40 tests/measures.Rout.save | 324 ++ tests/sets.Rout.save | 3 tests/transactions.Rout.save | 3 61 files changed, 4044 insertions(+), 3191 deletions(-)
Author: Stephen Milborrow
derived from mda:mars by Trevor Hastie and Rob Tibshirani.
Title: Multivariate Adaptive Regression Spline Models
Description: Build regression models using the techniques in Friedman's
papers "Fast MARS" and "Multivariate Adaptive Regression Splines".
(The term "MARS" is copyrighted and thus not used in the name of the package.)
Diff between earth versions 2.0-0 dated 2008-06-08 and 2.0-1 dated 2008-06-11
DESCRIPTION | 4 NEWS | 5 R/earth.R | 48 +++-- R/evimp.R | 2 man/earth.Rd | 70 +++++-- man/evimp.Rd | 16 - src/allowed.c | 51 ++++- src/allowed.h | 3 src/earth.c | 3 src/earth.h | 3 src/tests/test.earth.full.R | 117 +++++++++--- src/tests/test.earth.full.Rout.save | 338 +++++++++++++++++------------------- src/tests/test.earth.glm.Rout.save | 18 - 13 files changed, 413 insertions(+), 265 deletions(-)
Author: Wei Dai, Robert Brown, Jim Paul
Title: Methylation Linear Discriminant Analysis (MLDA)
Description: MLDA is a method to identify the differentially methylated loci on CpG island array using Differential Methylation Hybridisation(DMH).
Diff between MLDA versions 1.0 dated 2008-06-11 and 1.0-1 dated 2008-06-11
MLDA-1.0-1/MLDA/DESCRIPTION | 10 +++++----- MLDA-1.0-1/MLDA/man/MLDA-package.Rd | 20 ++++++++++++-------- MLDA-1.0-1/MLDA/man/cutoff.Rd | 5 +++-- MLDA-1.0-1/MLDA/man/list.compare.Rd | 8 ++++---- MLDA-1.0-1/MLDA/man/mlda.Rd | 6 +++--- MLDA-1.0-1/MLDA/man/mlda.data.Rd | 16 +++++++++++----- MLDA-1.0-1/MLDA/man/mlda.sig.Rd | 4 ++-- MLDA-1.0-1/MLDA/man/mlda.sig.plot.Rd | 3 ++- MLDA-1.0-1/MLDA/man/score.cal.Rd | 20 ++++++++++---------- MLDA-1.0/MLDA/Read-and-delete-me |only 10 files changed, 52 insertions(+), 40 deletions(-)
Author: Jari Oksanen, Roeland Kindt, Pierre Legendre, Bob O'Hara, Gavin L. Simpson,
M. Henry H. Stevens, Helene Wagner
Title: Community Ecology Package
Description: Ordination methods, diversity analysis and other
functions for community and vegetation ecologists.
Diff between vegan versions 1.13-0 dated 2008-05-21 and 1.13-1 dated 2008-06-11
vegan-1.13-0/vegan/R/plot.mso.R |only vegan-1.13-1/vegan/DESCRIPTION | 8 vegan-1.13-1/vegan/R/adonis.R | 19 vegan-1.13-1/vegan/R/alias.cca.R | 2 vegan-1.13-1/vegan/R/calibrate.cca.R | 9 vegan-1.13-1/vegan/R/cca.default.R | 8 vegan-1.13-1/vegan/R/extractAIC.cca.R | 2 vegan-1.13-1/vegan/R/factorfit.R | 1 vegan-1.13-1/vegan/R/inertcomp.R | 2 vegan-1.13-1/vegan/R/intersetcor.R | 2 vegan-1.13-1/vegan/R/lines.spantree.R | 2 vegan-1.13-1/vegan/R/mso.R | 16 vegan-1.13-1/vegan/R/msoplot.R |only vegan-1.13-1/vegan/R/ordicluster.R | 1 vegan-1.13-1/vegan/R/ordiellipse.R | 1 vegan-1.13-1/vegan/R/ordispider.R | 4 vegan-1.13-1/vegan/R/ordisurf.R | 1 vegan-1.13-1/vegan/R/orglspider.R | 1 vegan-1.13-1/vegan/R/permutest.betadisper.R | 2 vegan-1.13-1/vegan/R/permutest.cca.R | 2 vegan-1.13-1/vegan/R/predict.cca.R | 3 vegan-1.13-1/vegan/R/predict.rda.R | 3 vegan-1.13-1/vegan/R/print.cca.R | 67 - vegan-1.13-1/vegan/R/print.mso.R |only vegan-1.13-1/vegan/R/rda.default.R | 8 vegan-1.13-1/vegan/R/taxa2dist.R | 1 vegan-1.13-1/vegan/R/vectorfit.R | 1 vegan-1.13-1/vegan/data/mite.xy.rda |only vegan-1.13-1/vegan/inst/ChangeLog | 29 vegan-1.13-1/vegan/inst/NEWS | 62 + vegan-1.13-1/vegan/inst/doc/FAQ-vegan.pdf |binary vegan-1.13-1/vegan/inst/doc/decision-vegan.pdf | 1426 ++++++++++++------------ vegan-1.13-1/vegan/inst/doc/decision-vegan.tex | 16 vegan-1.13-1/vegan/inst/doc/diversity-vegan.pdf |binary vegan-1.13-1/vegan/inst/doc/diversity-vegan.tex | 55 vegan-1.13-1/vegan/inst/doc/intro-vegan.pdf |binary vegan-1.13-1/vegan/inst/doc/intro-vegan.tex | 52 vegan-1.13-1/vegan/man/adonis.Rd | 37 vegan-1.13-1/vegan/man/cca.object.Rd | 5 vegan-1.13-1/vegan/man/mite.Rd | 5 vegan-1.13-1/vegan/man/mso.Rd | 27 41 files changed, 1027 insertions(+), 853 deletions(-)
Author: Jeffrey A. Ryan
Title: Quantitative Financial Modelling Framework
Description: Specify, build, trade, and analyse quantitative financial trading strategies
Diff between quantmod versions 0.3-4 dated 2008-04-14 and 0.3-6 dated 2008-06-11
quantmod-0.3-4/quantmod/man/addTA.Rd |only quantmod-0.3-4/quantmod/man/breakpoints.Rd |only quantmod-0.3-4/quantmod/man/minutes.Rd |only quantmod-0.3-4/quantmod/man/ndays.Rd |only quantmod-0.3-4/quantmod/man/weekdays.zoo.Rd |only quantmod-0.3-4/quantmod/man/weeks.Rd |only quantmod-0.3-6/quantmod/CHANGES | 14 quantmod-0.3-6/quantmod/DESCRIPTION | 9 quantmod-0.3-6/quantmod/NAMESPACE | 54 +- quantmod-0.3-6/quantmod/R/OHLC.transformations.R | 41 +- quantmod-0.3-6/quantmod/R/addTA.R | 336 +++++++++++++++-- quantmod-0.3-6/quantmod/R/chartSeries.R | 393 ++++++++++---------- quantmod-0.3-6/quantmod/R/chartSeries.chob.R | 134 ++++-- quantmod-0.3-6/quantmod/R/chob.R | 5 quantmod-0.3-6/quantmod/R/dropTA.R | 20 - quantmod-0.3-6/quantmod/R/getDividends.R | 2 quantmod-0.3-6/quantmod/R/getFinancials.R | 6 quantmod-0.3-6/quantmod/R/getQuote.R | 194 +++++++-- quantmod-0.3-6/quantmod/R/getSymbols.R | 52 ++ quantmod-0.3-6/quantmod/R/loadSymbols.R |only quantmod-0.3-6/quantmod/R/newTA.R |only quantmod-0.3-6/quantmod/R/periodReturn.R | 62 ++- quantmod-0.3-6/quantmod/R/reChart.R |only quantmod-0.3-6/quantmod/R/zoomChart.R |only quantmod-0.3-6/quantmod/R/zzz.R | 2 quantmod-0.3-6/quantmod/WISHLIST | 9 quantmod-0.3-6/quantmod/man/Delt.Rd | 4 quantmod-0.3-6/quantmod/man/OHLC.Transformations.Rd | 5 quantmod-0.3-6/quantmod/man/TA.Rd |only quantmod-0.3-6/quantmod/man/addBBands.Rd | 2 quantmod-0.3-6/quantmod/man/chartSeries.Rd | 37 + quantmod-0.3-6/quantmod/man/chob-class.Rd | 5 quantmod-0.3-6/quantmod/man/getQuote.Rd | 39 + quantmod-0.3-6/quantmod/man/internal-quantmod.Rd |only quantmod-0.3-6/quantmod/man/newTA.Rd |only quantmod-0.3-6/quantmod/man/periodReturn.Rd | 55 +- quantmod-0.3-6/quantmod/man/quantmod-class.Rd | 13 quantmod-0.3-6/quantmod/man/quantmod-package.Rd | 7 quantmod-0.3-6/quantmod/man/zoomChart.Rd | 11 39 files changed, 1091 insertions(+), 420 deletions(-)
Author: John Verzani
Title: Toolkit implementation of gWidgets for rJava
Description: Port of gWidgets API to the rJava interface between R and Java.
Diff between gWidgetsrJava versions 0.0-11 dated 2008-05-06 and 0.0-12 dated 2008-06-11
DESCRIPTION | 4 ++-- man/gWidgetsrJava-undocumented.Rd | 35 +++++++++++++++++++++++++++++++++++ 2 files changed, 37 insertions(+), 2 deletions(-)
Author: Michael Lawrence, John Verzani
Title: Toolkit implementation of gWidgets for RGtk2
Description: Port of gWidgets API to RGtk2
Diff between gWidgetsRGtk2 versions 0.0-34 dated 2008-05-19 and 0.0-35 dated 2008-06-11
ChangeLog | 5 DESCRIPTION | 6 - NAMESPACE | 30 +++-- NEWS | 5 R/aaaGenerics.R | 228 +++++++++++++++++++------------------- man/gWidgetsRGtk2-undocumented.Rd | 29 ++++ 6 files changed, 176 insertions(+), 127 deletions(-)
Author: John Verzani. Based on the iwidgets code of Simon Urbanek and suggestions by Simon Urbanek, Philippe Grosjean and Michael Lawrence
Title: gWidgets API for building toolkit-independent, interactive GUIs
Description: gWidgets provides a toolkit-independent API for building interactive GUIs. Atleast one of the gWidgetsXXX packages, such as gWidgetstcltk, needs to be installed. Some icons are on loan from the scigraphica project http://scigraphica.sourceforge.net.
Diff between gWidgets versions 0.0-27 dated 2008-04-24 and 0.0-28 dated 2008-06-11
ChangeLog | 13 DESCRIPTION | 4 R/aaaGenerics.R | 8 R/ghelp.R | 11 TODO.txt | 2 inst/doc/addingToolkit.log | 22 - inst/doc/addingToolkit.pdf |binary inst/doc/gWidgets.log | 22 - inst/doc/gWidgets.pdf | 685 ++++++++++++++++++++++----------------------- inst/tests |only man/gWidgets-handlers.Rd | 7 man/ghtml.Rd | 14 12 files changed, 404 insertions(+), 384 deletions(-)
Author: Max Kuhn, Steve Weston
Title: Classification and Regression Training in Parallel Using NetworkSpaces
Description: Augment some caret functions using parallel processing
Diff between caretNWS versions 0.16 dated 2008-01-14 and 0.19 dated 2008-06-11
DESCRIPTION | 8 +++---- R/trainNWS.R | 53 +++++++++++++++++++++++++++++++++++-------------- R/trainNWSControl.R | 34 ++++++++++++++++--------------- man/trainNWS.Rd | 3 +- man/trainNWSControl.Rd | 16 ++++++++------ 5 files changed, 71 insertions(+), 43 deletions(-)
Author: Max Kuhn, Nathan Coulter
Title: Classification and Regression Training LSF Style
Description: Augment some caret functions for parallel processing
Diff between caretLSF versions 1.14 dated 2008-03-28 and 1.16 dated 2008-06-11
caretLSF-1.14/caretLSF/inst |only caretLSF-1.16/caretLSF/DESCRIPTION | 10 ++-- caretLSF-1.16/caretLSF/R/trainLSF.R | 63 +++++++++++++++++--------- caretLSF-1.16/caretLSF/R/trainLSFControl.R | 46 +++++++++--------- caretLSF-1.16/caretLSF/man/trainLSF.Rd | 18 ++++--- caretLSF-1.16/caretLSF/man/trainLSFControl.Rd | 22 ++++----- 6 files changed, 96 insertions(+), 63 deletions(-)
Author: Max Kuhn. Contributions from Jed Wing, Steve Weston and Andre Williams
Title: Classification and Regression Training
Description: Misc functions for training and plotting classification and regression models
Diff between caret versions 3.16 dated 2008-03-28 and 3.21 dated 2008-06-11
DESCRIPTION | 12 NAMESPACE | 140 ++++---- R/confusionMatrix.R | 117 +++--- R/createGrid.R | 274 ++++++++------- R/createModel.R | 30 + R/earthVarImp.R | 73 ++-- R/misc.R | 33 + R/plot.train.R | 28 - R/predictionFunction.R | 810 +++++++++++++++++++++++------------------------ R/print.train.R | 270 ++++++++------- R/probFunction.R | 335 +++++++++---------- R/selection.R |only R/train.default.R | 392 ++++++++++++---------- R/trainControl.R | 29 - inst/doc/caretMisc.Rnw | 1 inst/doc/caretMisc.pdf | 644 ++++++++++++++++++------------------- inst/doc/caretMisc.tex |only inst/doc/caretTrain.Rnw | 33 + inst/doc/caretTrain.pdf |binary inst/doc/caretTrain.tex |only inst/doc/caretVarImp.Rnw | 16 inst/doc/caretVarImp.pdf |binary inst/doc/caretVarImp.tex |only man/createGrid.Rd | 17 man/filterVarImp.Rd | 2 man/selection.Rd |only man/train.Rd | 11 man/trainControl.Rd | 2 man/varImp.Rd | 51 +- 29 files changed, 1743 insertions(+), 1577 deletions(-)
Author: Yihui Xie
Title: Demonstrate Animations in Statistics
Description: This package consists of various functions for animations in statistics, covering many areas such as probability theory, mathematical statistics, multivariate statistics, nonparametric statistics, sampling survey, linear models, time series, computational statistics, data mining and machine learning. These functions might be of help in teaching statistics and data analysis.
Diff between animation versions 0.2-0 dated 2008-04-14 and 1.0-0 dated 2008-06-11
animation-0.2-0/animation/R/ani.control.R |only animation-0.2-0/animation/R/checkargs.r |only animation-0.2-0/animation/R/savePNG.R |only animation-0.2-0/animation/inst/doc/CLT.pdf |only animation-0.2-0/animation/inst/doc/Rplots.ps |only animation-0.2-0/animation/inst/doc/animation.Rnw |only animation-0.2-0/animation/inst/doc/animation.pdf |only animation-0.2-0/animation/inst/doc/bib.bib |only animation-0.2-0/animation/inst/doc/bisection.pdf |only animation-0.2-0/animation/inst/doc/bootiid.pdf |only animation-0.2-0/animation/inst/doc/brownian.pdf |only animation-0.2-0/animation/inst/doc/buffon.pdf |only animation-0.2-0/animation/inst/doc/buffonprob.pdf |only animation-0.2-0/animation/inst/doc/cluster.pdf |only animation-0.2-0/animation/inst/doc/coin.pdf |only animation-0.2-0/animation/inst/doc/confint.pdf |only animation-0.2-0/animation/inst/doc/crossvalidation.pdf |only animation-0.2-0/animation/inst/doc/graddesc.pdf |only animation-0.2-0/animation/inst/doc/gridillusion.pdf |only animation-0.2-0/animation/inst/doc/kmeans.pdf |only animation-0.2-0/animation/inst/doc/kmeansframe.pdf |only animation-0.2-0/animation/inst/doc/knn.pdf |only animation-0.2-0/animation/inst/doc/lln.pdf |only animation-0.2-0/animation/inst/doc/mwar.pdf |only animation-0.2-0/animation/inst/doc/newton.pdf |only animation-0.2-0/animation/inst/doc/srswor.pdf |only animation-0.2-0/animation/inst/doc/strat.pdf |only animation-0.2-0/animation/inst/doc/system.pdf |only animation-0.2-0/animation/man/ani.control.Rd |only animation-0.2-0/animation/man/savePNG.Rd |only animation-1.0-0/animation/DESCRIPTION | 8 animation-1.0-0/animation/R/ani.options.R |only animation-1.0-0/animation/R/ani.start.R | 34 -- animation-1.0-0/animation/R/ani.stop.R | 74 ++--- animation-1.0-0/animation/R/bisection.method.R | 41 +-- animation-1.0-0/animation/R/boot.iid.R | 47 +-- animation-1.0-0/animation/R/brownian.motion.R | 19 - animation-1.0-0/animation/R/buffon.needle.R | 65 ++--- animation-1.0-0/animation/R/clt.ani.R | 36 +- animation-1.0-0/animation/R/conf.int.R | 41 +-- animation-1.0-0/animation/R/cv.ani.R | 40 +-- animation-1.0-0/animation/R/cv.nfeaturesLDA.R | 59 ++-- animation-1.0-0/animation/R/flip.coin.R | 26 -- animation-1.0-0/animation/R/grad.desc.R | 13 - animation-1.0-0/animation/R/kmeans.ani.R | 64 ++--- animation-1.0-0/animation/R/knn.ani.R | 140 +++++----- animation-1.0-0/animation/R/lln.ani.R | 26 -- animation-1.0-0/animation/R/mwar.ani.R | 57 ++-- animation-1.0-0/animation/R/newton.method.R | 47 ++- animation-1.0-0/animation/R/sample.cluster.R | 40 +-- animation-1.0-0/animation/R/sample.simple.R | 28 -- animation-1.0-0/animation/R/sample.strat.R | 40 +-- animation-1.0-0/animation/R/sample.system.R | 28 -- animation-1.0-0/animation/R/vi.lilac.chaser.R | 23 - animation-1.0-0/animation/inst/NEWS | 60 +++- animation-1.0-0/animation/inst/doc/index.html |only animation-1.0-0/animation/inst/js/ANI.css | 83 ++++-- animation-1.0-0/animation/inst/js/FUN.js | 217 +++++++++++++---- animation-1.0-0/animation/man/ani.news.Rd | 4 animation-1.0-0/animation/man/ani.options.Rd |only animation-1.0-0/animation/man/ani.start.Rd | 28 -- animation-1.0-0/animation/man/ani.stop.Rd | 26 -- animation-1.0-0/animation/man/animation-package.Rd | 25 + animation-1.0-0/animation/man/bisection.method.Rd | 27 +- animation-1.0-0/animation/man/boot.iid.Rd | 55 +++- animation-1.0-0/animation/man/brownian.motion.Rd | 42 +-- animation-1.0-0/animation/man/buffon.needle.Rd | 46 ++- animation-1.0-0/animation/man/clt.ani.Rd | 35 +- animation-1.0-0/animation/man/conf.int.Rd | 28 +- animation-1.0-0/animation/man/cv.ani.Rd | 37 ++ animation-1.0-0/animation/man/cv.nfeaturesLDA.Rd | 57 +++- animation-1.0-0/animation/man/flip.coin.Rd | 31 +- animation-1.0-0/animation/man/grad.desc.Rd | 27 +- animation-1.0-0/animation/man/highlight.def.Rd | 2 animation-1.0-0/animation/man/kmeans.ani.Rd | 68 +++-- animation-1.0-0/animation/man/knn.ani.Rd | 62 ++-- animation-1.0-0/animation/man/lln.ani.Rd | 32 +- animation-1.0-0/animation/man/mwar.ani.Rd | 34 +- animation-1.0-0/animation/man/newton.method.Rd | 36 ++ animation-1.0-0/animation/man/sample.cluster.Rd | 27 +- animation-1.0-0/animation/man/sample.simple.Rd | 30 +- animation-1.0-0/animation/man/sample.strat.Rd | 30 +- animation-1.0-0/animation/man/sample.system.Rd | 27 +- animation-1.0-0/animation/man/tidy.source.Rd | 3 animation-1.0-0/animation/man/vi.grid.illusion.Rd | 6 animation-1.0-0/animation/man/vi.lilac.chaser.Rd | 31 +- 86 files changed, 1306 insertions(+), 906 deletions(-)
Author: David A. James
Title: SQLite interface for R
Description: Database Interface R driver for SQLite.
This package embeds the SQLite database engine in R and
provides an interface compliant with the DBI package.
The source for the SQLite engine (version 3.4.1) is included.
Diff between RSQLite versions 0.6-8 dated 2008-02-27 and 0.6-9 dated 2008-06-11
RSQLite-0.6-8/RSQLite/._DESCRIPTION |only RSQLite-0.6-8/RSQLite/._configure.in |only RSQLite-0.6-8/RSQLite/R/._SQLiteSupport.R |only RSQLite-0.6-8/RSQLite/inst/UnitTests/._result_set_closing_test.R |only RSQLite-0.6-8/RSQLite/src/._RS-DBI.h |only RSQLite-0.6-9/RSQLite/DESCRIPTION | 4 ++-- RSQLite-0.6-9/RSQLite/src/RS-DBI.h | 3 ++- 7 files changed, 4 insertions(+), 3 deletions(-)
Author: Jeffrey A. Ryan, Josh M. Ulrich
Title: Extensible Time Series
Description: Provide for uniform handling of R's different time-based data classes by extending zoo, maximizing native format information preservation and allowing for user level customization and extension, while simplifying cross-class interoperability.
Diff between xts versions 0.0-13 dated 2008-04-14 and 0.0-15 dated 2008-06-10
DESCRIPTION | 7 ++--- NAMESPACE | 19 ++++++++++++-- R/Date.R |only R/OHLC.R | 33 ++++++++++++++++++++++++ R/Ops.xts.R | 10 +++++-- R/coredata.xts.R | 2 - R/fillIndex.R |only R/lag.xts.R |only R/periodicity.R | 26 ++++++++++++++----- R/plot.R | 67 ++++++++++++++++++++++++++++++++++++-------------- R/sort.xts.R |only R/timeBasedSeq.R |only R/toperiod.R | 4 +- R/ts.R | 6 ++-- R/xts.R | 33 ++++++++++++++++++------ R/xts.methods.R | 8 ++--- R/xtsible.R | 24 +++++++++++++++++ WISHLIST | 14 ++++++++-- inst |only man/as.xts.Rd | 38 +++++++++++++++++++++++++--- man/as.xts.methods.Rd | 3 -- man/firstof.Rd |only man/plot.xts.Rd |only man/timeBased.Rd |only man/timeBasedSeq.Rd |only man/to.period.Rd | 8 +++++ man/xts-package.Rd | 5 ++- man/xts.Rd | 2 - 28 files changed, 246 insertions(+), 63 deletions(-)
Author: Matthias Templ
Title: Statistical Disclosure Control methods for the generation of public- and scientific-use files.
Description: Data from statistical agencies and other institutions are mostly confidential. This package can be used for the generation of save (micro)data, i.e. for the generation of public- and scientific-use files.
Diff between sdcMicro versions 2.4.1 dated 2008-02-29 and 2.5.0 dated 2008-06-10
DESCRIPTION | 6 R/addNoise.r | 142 +++++++++---------- R/dRisk.R | 20 +- R/dRiskRMD.R |only R/dUtility.R | 33 +++- R/microaggregation.R | 306 ++++++++++++++++++++--------------------- R/summary.micro.R | 20 +- R/valTable.R | 34 ++++ R/zzz.R | 3 inst/doc/sdcMicroPaper-001.pdf | 4 inst/doc/sdcMicroPaper.log | 2 man/addNoise.Rd | 2 man/dRisk.Rd | 8 - man/dRiskRMD.Rd |only man/dUtility.Rd | 22 ++ man/sdcMicro-package.Rd | 3 16 files changed, 341 insertions(+), 264 deletions(-)
Author: Gabriel Rodrigues Alves Margarido
Diff between onemap versions 0.1-0 dated 2008-06-08 and 0.1-1 dated 2008-06-10
Title: Software for constructing genetic maps in outcrossing species
Description: Analysis of molecular marker data from non-model systems to
simultaneously estimate linkage and linkage phases (genetic map construction)
DESCRIPTION | 6 +++---
inst/doc/Tutorial_OneMap.pdf |binary
man/onemap-package.Rd | 4 ++--
src/Makevars.win |only
src/threepts.c | 4 ++--
src/threepts.h | 2 +-
src/twopts.c | 6 +++---
src/twopts.h | 4 ++--
8 files changed, 13 insertions(+), 13 deletions(-)
Author: Gemechis Dilba, Mario Hasler, Frank Schaarschmidt
Title: Inferences for ratios of coefficients in the general linear model
Description: With this package, it is possible to perform (simultaneous) inferences for ratios of linear combinations of coefficients in the
general linear model. In particular, tests and confidence interval estimations for ratios of
treatment means in the normal one-way layout and confidence interval estimations like in (multiple) slope ratio
and parallel line assays can be carried out. Moreover, it is possible to calculate the sample sizes required in comparisons
with a control based on relative margins. For the simple two-sample problem, functions for a t-test for ratio-formatted
hypotheses and the corresponding Fieller confidence interval are provided assuming homogeneous or heterogeneous group variances.
Diff between mratios versions 1.3.7 dated 2008-04-14 and 1.3.8 dated 2008-06-10
DESCRIPTION | 6 +++--- R/ratioVH.R | 16 ++++++++-------- R/sci.ratio.gen.R | 10 +++++----- R/sci.ratioI.R | 12 ++++++------ R/t.test.ratio.default.R | 4 ++++ man/BW.Rd | 2 -- man/Mutagenicity.Rd | 2 -- man/SRAssay.rd | 4 +--- man/sci.ratio.gen.Rd | 4 +--- man/sci.ratioVH.Rd | 2 -- man/simtest.ratioVH.Rd | 2 -- man/summary.sci.ratio.Rd | 3 +-- 12 files changed, 29 insertions(+), 38 deletions(-)
Author: Robert B. Gramacy
Diff between monomvn versions 1.2 dated 2008-05-19 and 1.3 dated 2008-06-10
Title: Estimation for multivariate normal data with monotone missingness
Description: Estimation of multivariate normal data of arbitrary dimension
where the pattern of missing data is monotone. Through the use of
parsimonious/shrinkage regressions (plsr, pcr, lasso, ridge, etc.),
where standard regressions fail, the package can handle an
(almost) arbitrary amount of missing data. The current version
supports maximum likelihood inference and an alpha implementation
of a Bayesian version employing a Bayesian lasso. A fully
functional standalone (beta) interface to the Bayesian lasso
(from Park & Casella) with model selection is also provided
ChangeLog | 22 +
DESCRIPTION | 10
R/blasso.R | 120 ++++-
R/blasso.s3.R | 66 ++-
R/bmonomvn.R | 97 +++-
R/gamma.R | 16
R/monomvn.s3.R | 10
man/blasso.Rd | 149 ++++++-
man/blasso.s3.Rd | 12
man/bmonomvn.Rd | 60 +-
man/monomvn-internal.Rd | 1
src/blasso.cc | 999 +++++++++++++++++++++++++++++++++++++++++-------
src/blasso.h | 170 +++++---
src/bmonomvn.cc | 113 +++--
src/bmonomvn.h | 55 +-
src/matrix.c | 52 ++
src/matrix.h | 4
17 files changed, 1590 insertions(+), 366 deletions(-)
Author: Thomas Hoffmann
Title: Function GUI
Description: Rapidly create a GUI interface for a function you created by automatically creating widgets for arguments of the function. Automatically parses help routines for context-sensative help to these arguments. The interface essentially a wrapper to some tcltk routines to both simplify and facilitate GUI creation. More advanced tcltk routines/GUI objects can be incorporated into the interface for greater customization for the more experienced.
Diff between fgui versions 0.2 dated 2008-05-25 and 0.2.1 dated 2008-06-10
DESCRIPTION | 6 +++--- R/fguiWindow.R | 4 ++-- R/widgets.R | 47 ++++++++++++++++++++++++++++++++++++++++------- man/gui.Rd | 12 ++++-------- 4 files changed, 49 insertions(+), 20 deletions(-)
Author: Andrew Gelman
Diff between arm versions 1.1-6 dated 2008-06-04 and 1.1-7 dated 2008-06-10
Title: Data Analysis Using Regression and Multilevel/Hierarchical Models
Description: R functions for processing lm, glm, mer and polr outputs.
CHANGELOG | 5 +++++
DESCRIPTION | 6 +++---
R/AllClass.R | 1 +
R/AllGeneric.R | 9 +++++++--
R/traceplot.R | 27 ++++++++++++++++++++++++++-
man/traceplot.Rd | 1 +
6 files changed, 43 insertions(+), 6 deletions(-)
Author: Frank Schaarschmidt, Daniel Gerhard, Martin Sill
Title: Multiple comparisons using normal approximation
Description: Multiple contrast tests and simultaneous confidence
intervals based on normal approximation. With implementations for
binomial proportions in a 2xk setting (risk difference and odds ratio),
poly-3-adjusted tumour rates, and multiple comparisons of biodiversity indices.
Approximative power calculation for multiple contrast tests of binomial
proportions.
Diff between MCPAN versions 1.1-5 dated 2008-05-13 and 1.1-6 dated 2008-06-10
DESCRIPTION | 8 +++--- R/Shannon.R | 9 ++++--- R/Simpson.R | 11 +++++++-- man/MCPAN-package.Rd | 5 ---- man/Shannonci.Rd | 2 - man/Simpsonci.Rd | 2 - man/Waldtest.Rd | 2 - man/binomORci.Rd | 3 -- man/censsample.Rd | 3 -- man/censsamplef.Rd | 3 -- man/corrMatgen.Rd | 4 --- man/estShannon.Rd | 6 ----- man/estShannonf.Rd | 2 - man/estSimpsonf.Rd | 2 - man/plot.sci.Rd | 4 --- man/plotCII.Rd | 61 ++++++++++++++++++++++++++++++++++++++++++++++++++- man/poly3ci.Rd | 3 -- man/powermcp.Rd | 2 - man/scalechoice.Rd | 7 ++--- 19 files changed, 89 insertions(+), 50 deletions(-)
Author: Nicholas Vinen
Title: Uncompress
Description: This R Add-On provides the function uncompress(raw) for
decompressing .Z files. It returns the decompressed data as a raw
(binary) string. The compressed data is passed in in the same format. It
returns NULL if the input data is invalid.
Diff between uncompress versions 1.2 dated 2008-06-09 and 1.21 dated 2008-06-09
uncompress-1.2/uncompress/tests/test_uncompress.Rout.save |only uncompress-1.21/uncompress/DESCRIPTION | 4 - uncompress-1.21/uncompress/man/uncompress.Rd | 54 ++++++++++++++ 3 files changed, 56 insertions(+), 2 deletions(-)
Author: Saunak Sen, Jaya Satagopan, Karl Broman, Brian Yandell and Gary Churchill
Title: Design of QTL experiments
Description: Tools for the design of QTL experiments
Diff between qtlDesign versions 0.91 dated 2007-05-18 and 0.92 dated 2008-06-09
Changelog | 6 ++++++ DESCRIPTION | 8 ++++---- R/ci.length.R |only R/optspacing.R | 22 +++++++++++----------- R/selpheno.R |only R/version.qtlDesign.R | 2 +- man/K1.Rd |only man/ci.length.Rd |only man/mma.Rd |only man/mma.level.Rd |only man/optspacing.Rd | 2 +- 11 files changed, 23 insertions(+), 17 deletions(-)
Author: Andrej-Nikolai Spiess
Diff between qpcR versions 1.1-1 dated 2008-05-14 and 1.1-3 dated 2008-06-09
Title: Modelling and analysis of real-time PCR data
Description: Model fitting, optimal model selection and calculation of various features that are essential in the analysis of quantitative real-time polymerase chain reaction (qPCR).
DESCRIPTION | 7 --
NAMESPACE | 3
R/curvemean.R |only
R/modlist.R | 3
R/onAttach.R | 6 +
R/propagate.R | 68 +++++++++++++--------
R/ratiocalc.R | 7 +-
R/ratiocalc.modlist.R | 90 +++++++++++++++++++++-------
R/ratiocalc.pcrbatch.R | 154 +++++++++++++++++++++++++++++++++----------------
R/ratioplot.R |only
man/curvemean.Rd |only
man/modlist.Rd | 9 +-
man/propagate.Rd | 75 ++++++++++++++---------
man/qpcR.Rd | 11 +--
man/ratiocalc.Rd | 79 +++++++++++++++----------
man/ratioplot.Rd |only
16 files changed, 337 insertions(+), 175 deletions(-)
Author: Frank Schaarschmidt
Title: Confidence intervals for two sample comparisons
Description: Calculation of the parametric, nonparametric confidence intervals
for the difference or ratio of location parameters and for the difference, ratio
and odds-ratio of binomial proportions for comparison of independent samples.
CI are not adjusted for multiplicity. A by statement allows calculation of CI
separately for the levels of further factors. Please note that, when a (generalized)
linear model can be reasonably assumed, there are smarter methods for CI calculation
available than are implemented in this package!
Diff between pairwiseCI versions 0.1-12 dated 2008-05-13 and 0.1-13 dated 2008-06-09
DESCRIPTION | 8 ++++---- R/as.data.frame.pairwiseMEP.R |only R/pairwiseMEP.data.frame.R |only R/plotCI.pairwiseMEP.R |only R/subsetfl.R |only man/as.data.frame.pairwiseMEP.Rd |only man/pairwiseCImethodsCount.Rd | 2 +- man/pairwiseMEP.Rd |only man/plotCI.pairwiseMEP.Rd |only man/rooting.Rd | 3 +-- man/sodium.Rd | 2 -- man/subsetfl.Rd |only 12 files changed, 6 insertions(+), 9 deletions(-)
Author: Dan Kelley
Diff between oce versions 0.1.71 dated 2008-04-14 and 0.1.72 dated 2008-06-09
Title: Analysis of Oceanographic data
Description: Supports the analysis of Oceanographic data,
including CTD measurements, sea-level timeseries, coastline
files, etc. Also includes functions for calculating
seawater properties such as density, and derived properties
such as buoyancy frequency.
oce-0.1.71/oce/inst/doc/oce.R |only
oce-0.1.72/oce/DESCRIPTION | 6
oce-0.1.72/oce/NAMESPACE | 1
oce-0.1.72/oce/NEWS | 409
oce-0.1.72/oce/R/interp.barnes.R |only
oce-0.1.72/oce/data/wind.rda |only
oce-0.1.72/oce/inst/doc/Rplots.ps |57117 ++++++++++++++------------
oce-0.1.72/oce/inst/doc/ctd-object.graffle |only
oce-0.1.72/oce/inst/doc/ctd-object.pdf |only
oce-0.1.72/oce/inst/doc/oce-coastlinefig.pdf | 4
oce-0.1.72/oce/inst/doc/oce-ctdfig.eps | 12
oce-0.1.72/oce/inst/doc/oce-ctdfig.pdf | 22
oce-0.1.72/oce/inst/doc/oce-ctdrawfig.pdf | 6
oce-0.1.72/oce/inst/doc/oce-lobofig.eps | 12
oce-0.1.72/oce/inst/doc/oce-lobofig.pdf | 22
oce-0.1.72/oce/inst/doc/oce-sealevelfig.pdf | 6
oce-0.1.72/oce/inst/doc/oce-sectionfig.pdf | 4
oce-0.1.72/oce/inst/doc/oce-sectionfiga03.eps | 2990 -
oce-0.1.72/oce/inst/doc/oce-sectionfiga03.pdf | 885
oce-0.1.72/oce/inst/doc/oce-tidefig.pdf | 4
oce-0.1.72/oce/inst/doc/oce.Rnw | 202
oce-0.1.72/oce/inst/doc/oce.pdf |41068 ++++++++++--------
oce-0.1.72/oce/inst/doc/oce.tex | 194
oce-0.1.72/oce/man/as.coastline.Rd | 4
oce-0.1.72/oce/man/as.ctd.Rd | 4
oce-0.1.72/oce/man/as.sealevel.Rd | 4
oce-0.1.72/oce/man/as.windrose.Rd | 2
oce-0.1.72/oce/man/coastline.hal.Rd | 1
oce-0.1.72/oce/man/coriolis.Rd | 18
oce-0.1.72/oce/man/ctd.Rd | 4
oce-0.1.72/oce/man/ctd.add.column.Rd | 7
oce-0.1.72/oce/man/ctd.decimate.Rd | 26
oce-0.1.72/oce/man/ctd.raw.Rd | 16
oce-0.1.72/oce/man/ctd.trim.Rd | 27
oce-0.1.72/oce/man/ctd.update.header.Rd | 34
oce-0.1.72/oce/man/ctd.write.Rd | 27
oce-0.1.72/oce/man/gebco.colors.Rd | 46
oce-0.1.72/oce/man/geod.dist.Rd | 49
oce-0.1.72/oce/man/gravity.Rd | 22
oce-0.1.72/oce/man/interp.barnes.Rd |only
oce-0.1.72/oce/man/lat.format.Rd | 28
oce-0.1.72/oce/man/latlon.format.Rd | 28
oce-0.1.72/oce/man/lobo.Rd | 2
oce-0.1.72/oce/man/lon.format.Rd | 28
oce-0.1.72/oce/man/magic.Rd | 31
oce-0.1.72/oce/man/oce.as.POSIXlt.Rd | 34
oce-0.1.72/oce/man/plot.TS.Rd | 14
oce-0.1.72/oce/man/plot.coastline.Rd | 27
oce-0.1.72/oce/man/plot.ctd.Rd | 31
oce-0.1.72/oce/man/plot.ctd.scan.Rd | 24
oce-0.1.72/oce/man/plot.lobo.Rd | 30
oce-0.1.72/oce/man/plot.profile.Rd | 22
oce-0.1.72/oce/man/plot.section.Rd | 59
oce-0.1.72/oce/man/plot.tide.Rd | 10
oce-0.1.72/oce/man/processing.log.append.Rd | 25
oce-0.1.72/oce/man/processing.log.summary.Rd | 31
oce-0.1.72/oce/man/read.coastline.Rd | 41
oce-0.1.72/oce/man/read.ctd.Rd | 48
oce-0.1.72/oce/man/read.lobo.Rd | 46
oce-0.1.72/oce/man/read.oce.Rd | 20
oce-0.1.72/oce/man/read.sealevel.Rd | 47
oce-0.1.72/oce/man/read.section.Rd | 16
oce-0.1.72/oce/man/read.topo.Rd | 12
oce-0.1.72/oce/man/section.Rd | 39
oce-0.1.72/oce/man/section.grid.Rd | 8
oce-0.1.72/oce/man/section.subset.Rd | 18
oce-0.1.72/oce/man/summary.coastline.Rd | 28
oce-0.1.72/oce/man/summary.ctd.Rd | 28
oce-0.1.72/oce/man/summary.lobo.Rd | 26
oce-0.1.72/oce/man/summary.sealevel.Rd | 17
oce-0.1.72/oce/man/summary.section.Rd | 40
oce-0.1.72/oce/man/summary.tide.Rd | 22
oce-0.1.72/oce/man/summary.topo.Rd | 27
oce-0.1.72/oce/man/summary.windrose.Rd | 31
oce-0.1.72/oce/man/sw.N2.Rd | 33
oce-0.1.72/oce/man/sw.S.C.T.p.Rd | 50
oce-0.1.72/oce/man/sw.S.T.rho.Rd | 53
oce-0.1.72/oce/man/sw.T.S.rho.Rd | 44
oce-0.1.72/oce/man/sw.T.freeze.Rd | 38
oce-0.1.72/oce/man/sw.alpha.Rd | 40
oce-0.1.72/oce/man/sw.alpha.over.beta.Rd | 36
oce-0.1.72/oce/man/sw.beta.Rd | 39
oce-0.1.72/oce/man/sw.conductivity.Rd | 46
oce-0.1.72/oce/man/sw.depth.Rd | 55
oce-0.1.72/oce/man/sw.dynamic.height.Rd | 69
oce-0.1.72/oce/man/sw.lapse.rate.Rd | 39
oce-0.1.72/oce/man/sw.rho.Rd | 55
oce-0.1.72/oce/man/sw.sigma.Rd | 61
oce-0.1.72/oce/man/sw.sigma.t.Rd | 47
oce-0.1.72/oce/man/sw.sigma.theta.Rd | 47
oce-0.1.72/oce/man/sw.sound.speed.Rd | 43
oce-0.1.72/oce/man/sw.specific.heat.Rd | 39
oce-0.1.72/oce/man/sw.spice.Rd | 41
oce-0.1.72/oce/man/sw.theta.Rd | 80
oce-0.1.72/oce/man/sw.viscosity.Rd | 40
oce-0.1.72/oce/man/tidem.Rd | 9
oce-0.1.72/oce/man/tidem.astron.Rd | 11
oce-0.1.72/oce/man/tidem.vuf.Rd | 16
oce-0.1.72/oce/man/topo.maritimes.Rd | 13
oce-0.1.72/oce/man/wind.Rd |only
oce-0.1.72/oce/src/interp_barnes.c |only
oce-0.1.72/oce/svn-commit.2.tmp |only
oce-0.1.72/oce/svn-commit.3.tmp |only
oce-0.1.72/oce/svn-commit.4.tmp |only
104 files changed, 57550 insertions(+), 47687 deletions(-)
Author: Jose Pinheiro
Diff between nlme versions 3.1-88 dated 2008-03-30 and 3.1-89 dated 2008-06-09
Title: Linear and Nonlinear Mixed Effects Models
Description: Fit and compare Gaussian linear and nonlinear mixed-effects models.
ChangeLog | 12 +++
DESCRIPTION | 6 -
R/lme.R | 5 +
R/zzMethods.R | 4 +
inst/CITATION | 2
src/base.h | 8 +-
src/corStruct.c | 186 ++++++++++++++++++++++++++--------------------------
src/gnls.c | 15 +---
src/init.c | 26 +++----
src/matrix.c | 36 +++++-----
src/matrix.h | 4 -
src/nlme.c | 72 ++++++++++----------
src/nlmefit.c | 51 ++++++--------
src/nlmefit.h | 8 +-
src/nls.c | 7 -
src/pdMat.c | 11 +--
tests/lme.R | 4 +
tests/lme.Rout.save | 12 ++-
18 files changed, 248 insertions(+), 221 deletions(-)
Author: Dimitris Rizopoulos
Diff between ltm versions 0.8-4 dated 2008-04-14 and 0.8-5 dated 2008-06-09
Title: Latent Trait Models under IRT
Description: Analysis of multivariate dichotomous and polytomous data using latent trait models under the Item Response Theory approach. It includes the Rasch, the Two-Parameter Logistic, the Birnbaum's Three-Parameter, and the Graded Response Models.
DESCRIPTION | 6 +++---
R/fscores.l.R | 9 +++++----
R/fscores.r.R | 5 +++--
R/fscores.t.R | 5 +++--
R/onAttach.R | 2 +-
R/start.val.grm.R | 8 ++++++--
data/Abortion.rda |binary
data/Environment.rda |binary
data/LSAT.rda |binary
data/Mobility.rda |binary
data/Science.rda |binary
data/WIRS.rda |binary
inst/NEWS | 9 ++++++++-
man/ltm-package.Rd | 4 ++--
14 files changed, 31 insertions(+), 17 deletions(-)
Author: Guido van Steen
Title: dataframes2xls writes data frames to xls files
Description: dataframes2xls writes data frames to xls files. It supports multiple sheets and basic formatting.
Diff between dataframes2xls versions 0.4 dated 2008-06-08 and 0.4.1 dated 2008-06-09
DESCRIPTION | 9 +++++---- R/write.xls.R | 7 ++++++- 2 files changed, 11 insertions(+), 5 deletions(-)
More information about dataframes2xls at CRAN
Permanent link
Author: Stefan Theussl and Kurt Hornik
Title: R/GNU Linear Programming Kit Interface
Description: R interface to the GNU Linear Programing Kit (GLPK version 4.28).
GLPK is open source software for solving large-scale linear programming (LP),
mixed integer linear programming (MILP) and other related problems.
Diff between Rglpk versions 0.1-7 dated 2008-01-21 and 0.2-3 dated 2008-06-09
Rglpk-0.1-7/Rglpk/R/matrix.R |only Rglpk-0.1-7/Rglpk/src/R_glp_solve.c |only Rglpk-0.2-3/Rglpk/DESCRIPTION | 14 Rglpk-0.2-3/Rglpk/NAMESPACE | 12 Rglpk-0.2-3/Rglpk/R/Misc.R | 35 - Rglpk-0.2-3/Rglpk/R/Rglpk_solve.R | 38 - Rglpk-0.2-3/Rglpk/R/bounds.R | 22 Rglpk-0.2-3/Rglpk/R/filereader.R |only Rglpk-0.2-3/Rglpk/R/milp.R |only Rglpk-0.2-3/Rglpk/R/sparse.R |only Rglpk-0.2-3/Rglpk/man/Rglpk_read_file.Rd |only Rglpk-0.2-3/Rglpk/man/Rglpk_solve.Rd | 16 Rglpk-0.2-3/Rglpk/src/Rglpk_read_file.c |only Rglpk-0.2-3/Rglpk/src/Rglpk_solve.c |only Rglpk-0.2-3/Rglpk/src/glpapi.h | 2 Rglpk-0.2-3/Rglpk/src/glpapi01.c | 11 Rglpk-0.2-3/Rglpk/src/glpapi02.c | 3 Rglpk-0.2-3/Rglpk/src/glpapi03.c | 3 Rglpk-0.2-3/Rglpk/src/glpapi04.c | 3 Rglpk-0.2-3/Rglpk/src/glpapi05.c | 3 Rglpk-0.2-3/Rglpk/src/glpapi06.c | 5 Rglpk-0.2-3/Rglpk/src/glpapi07.c | 3 Rglpk-0.2-3/Rglpk/src/glpapi08.c | 3 Rglpk-0.2-3/Rglpk/src/glpapi09.c | 16 Rglpk-0.2-3/Rglpk/src/glpapi10.c | 3 Rglpk-0.2-3/Rglpk/src/glpapi11.c | 3 Rglpk-0.2-3/Rglpk/src/glpapi12.c | 21 Rglpk-0.2-3/Rglpk/src/glpapi13.c |only Rglpk-0.2-3/Rglpk/src/glpavl.c | 2 Rglpk-0.2-3/Rglpk/src/glpavl.h | 2 Rglpk-0.2-3/Rglpk/src/glpbfd.c | 3 Rglpk-0.2-3/Rglpk/src/glpbfd.h | 2 Rglpk-0.2-3/Rglpk/src/glpbfx.c | 2 Rglpk-0.2-3/Rglpk/src/glpbfx.h | 2 Rglpk-0.2-3/Rglpk/src/glpcli.c |only Rglpk-0.2-3/Rglpk/src/glpcli.h |only Rglpk-0.2-3/Rglpk/src/glpdmp.c | 13 Rglpk-0.2-3/Rglpk/src/glpdmp.h | 8 Rglpk-0.2-3/Rglpk/src/glpfhv.c | 3 Rglpk-0.2-3/Rglpk/src/glpfhv.h | 2 Rglpk-0.2-3/Rglpk/src/glpgmp.c | 62 - Rglpk-0.2-3/Rglpk/src/glpgmp.h | 8 Rglpk-0.2-3/Rglpk/src/glphbm.c | 237 +++--- Rglpk-0.2-3/Rglpk/src/glphbm.h | 9 Rglpk-0.2-3/Rglpk/src/glpios.h | 6 Rglpk-0.2-3/Rglpk/src/glpios01.c | 4 Rglpk-0.2-3/Rglpk/src/glpios02.c | 2 Rglpk-0.2-3/Rglpk/src/glpios03.c | 57 - Rglpk-0.2-3/Rglpk/src/glpios04.c | 2 Rglpk-0.2-3/Rglpk/src/glpios05.c | 2 Rglpk-0.2-3/Rglpk/src/glpios06.c | 2 Rglpk-0.2-3/Rglpk/src/glpipm.c | 34 Rglpk-0.2-3/Rglpk/src/glpipm.h | 2 Rglpk-0.2-3/Rglpk/src/glpipp.h | 2 Rglpk-0.2-3/Rglpk/src/glpipp01.c | 2 Rglpk-0.2-3/Rglpk/src/glpipp02.c | 29 Rglpk-0.2-3/Rglpk/src/glpk.h | 26 Rglpk-0.2-3/Rglpk/src/glplib.h | 273 +++++-- Rglpk-0.2-3/Rglpk/src/glplib01.c | 411 +++++------ Rglpk-0.2-3/Rglpk/src/glplib02.c | 311 ++------- Rglpk-0.2-3/Rglpk/src/glplib03.c | 178 ++--- Rglpk-0.2-3/Rglpk/src/glplib04.c | 254 +++---- Rglpk-0.2-3/Rglpk/src/glplib05.c | 420 ++++++------ Rglpk-0.2-3/Rglpk/src/glplib06.c | 357 ++++++---- Rglpk-0.2-3/Rglpk/src/glplib07.c | 217 ++++-- Rglpk-0.2-3/Rglpk/src/glplib08.c | 594 +++++++++++++++-- Rglpk-0.2-3/Rglpk/src/glplib09.c | 389 +---------- Rglpk-0.2-3/Rglpk/src/glplib10.c |only Rglpk-0.2-3/Rglpk/src/glplib11.c |only Rglpk-0.2-3/Rglpk/src/glplib12.c |only Rglpk-0.2-3/Rglpk/src/glplpf.c | 3 Rglpk-0.2-3/Rglpk/src/glplpf.h | 2 Rglpk-0.2-3/Rglpk/src/glplpp.h | 2 Rglpk-0.2-3/Rglpk/src/glplpp01.c | 2 Rglpk-0.2-3/Rglpk/src/glplpp02.c | 2 Rglpk-0.2-3/Rglpk/src/glplpx01.c | 3 Rglpk-0.2-3/Rglpk/src/glplpx02.c | 40 - Rglpk-0.2-3/Rglpk/src/glplpx03.c | 70 +- Rglpk-0.2-3/Rglpk/src/glplpx04.c | 45 - Rglpk-0.2-3/Rglpk/src/glplpx05.c | 15 Rglpk-0.2-3/Rglpk/src/glplpx06.c | 10 Rglpk-0.2-3/Rglpk/src/glplpx07.c | 21 Rglpk-0.2-3/Rglpk/src/glplpx08.c | 3 Rglpk-0.2-3/Rglpk/src/glplpx09.c | 59 - Rglpk-0.2-3/Rglpk/src/glplpx10.c | 24 Rglpk-0.2-3/Rglpk/src/glplpx11.c | 81 +- Rglpk-0.2-3/Rglpk/src/glplpx12.c | 37 - Rglpk-0.2-3/Rglpk/src/glplpx13.c | 13 Rglpk-0.2-3/Rglpk/src/glplpx14.c | 1071 +++++++++++++++---------------- Rglpk-0.2-3/Rglpk/src/glplpx15.c | 27 Rglpk-0.2-3/Rglpk/src/glplpx16.c | 63 - Rglpk-0.2-3/Rglpk/src/glplpx17.c | 7 Rglpk-0.2-3/Rglpk/src/glplpx18.c | 142 ++-- Rglpk-0.2-3/Rglpk/src/glplpx19.c | 18 Rglpk-0.2-3/Rglpk/src/glplpx20.c | 507 +++++++------- Rglpk-0.2-3/Rglpk/src/glpluf.c | 3 Rglpk-0.2-3/Rglpk/src/glpluf.h | 2 Rglpk-0.2-3/Rglpk/src/glplux.c | 24 Rglpk-0.2-3/Rglpk/src/glplux.h | 2 Rglpk-0.2-3/Rglpk/src/glpmat.c | 2 Rglpk-0.2-3/Rglpk/src/glpmat.h | 2 Rglpk-0.2-3/Rglpk/src/glpmpl.h | 354 +++++++--- Rglpk-0.2-3/Rglpk/src/glpmpl01.c | 335 +++++++++ Rglpk-0.2-3/Rglpk/src/glpmpl02.c | 3 Rglpk-0.2-3/Rglpk/src/glpmpl03.c | 435 ++++++++++++ Rglpk-0.2-3/Rglpk/src/glpmpl04.c | 130 ++- Rglpk-0.2-3/Rglpk/src/glpmpl05.c |only Rglpk-0.2-3/Rglpk/src/glppds.c | 16 Rglpk-0.2-3/Rglpk/src/glppds.h | 4 Rglpk-0.2-3/Rglpk/src/glpqmd.h | 2 Rglpk-0.2-3/Rglpk/src/glprgr.c |only Rglpk-0.2-3/Rglpk/src/glprgr.h |only Rglpk-0.2-3/Rglpk/src/glprng.h | 2 Rglpk-0.2-3/Rglpk/src/glprng02.c | 3 Rglpk-0.2-3/Rglpk/src/glpscf.c | 3 Rglpk-0.2-3/Rglpk/src/glpscf.h | 2 Rglpk-0.2-3/Rglpk/src/glpscg.c | 4 Rglpk-0.2-3/Rglpk/src/glpscg.h | 2 Rglpk-0.2-3/Rglpk/src/glpspm.c |only Rglpk-0.2-3/Rglpk/src/glpspm.h |only Rglpk-0.2-3/Rglpk/src/glpspx.h | 2 Rglpk-0.2-3/Rglpk/src/glpspx01.c | 12 Rglpk-0.2-3/Rglpk/src/glpspx02.c | 82 +- Rglpk-0.2-3/Rglpk/src/glpsql.c |only Rglpk-0.2-3/Rglpk/src/glpsql.h |only Rglpk-0.2-3/Rglpk/src/glpssx.h | 8 Rglpk-0.2-3/Rglpk/src/glpssx01.c | 12 Rglpk-0.2-3/Rglpk/src/glpssx02.c | 21 Rglpk-0.2-3/Rglpk/src/glpstd.h | 3 Rglpk-0.2-3/Rglpk/src/glptsp.c | 160 ++-- Rglpk-0.2-3/Rglpk/src/glptsp.h | 2 131 files changed, 4768 insertions(+), 3276 deletions(-)
Author: Hector Corrada Bravo
Title: R interface to CPLEX
Description: R interface to CPLEX solvers for linear, quadratic, and
(linear and quadratic) mixed integer programs. A working
installation of CPLEX is required for usage of the Rcplex
package. See the file "INSTALL" for details on how to install
the Rcplex package in Linux/Unix-like systems. No support for
Windows platforms is currently available. Support for sparse
matrices is provided by an included S3-style class
"simple_triplet_matrix" and by objects from the Matrix package
class hierarchy.
Diff between Rcplex versions 0.1-1 dated 2008-02-12 and 0.1-2 dated 2008-06-09
Rcplex-0.1-1/Rcplex/R/zzz.R |only Rcplex-0.1-1/Rcplex/configure.ac |only Rcplex-0.1-2/Rcplex/DESCRIPTION | 14 ++++--- Rcplex-0.1-2/Rcplex/NAMESPACE | 13 +++++-- Rcplex-0.1-2/Rcplex/R/Rcplex.R | 17 ++++++--- Rcplex-0.1-2/Rcplex/R/sparse.R |only Rcplex-0.1-2/Rcplex/cleanup |only Rcplex-0.1-2/Rcplex/man/Rcplex.Rd | 41 +++++++++-------------- Rcplex-0.1-2/Rcplex/man/simple_triplet_matrix.Rd |only 9 files changed, 47 insertions(+), 38 deletions(-)
Author: James Honaker
Diff between Amelia versions 1.1-29 dated 2008-05-30 and 1.1-30 dated 2008-06-09
Title: Amelia II: A Program for Missing Data
Description: Amelia II "multiply imputes" missing data in a single cross-section
(such as a survey), from a time series (like variables collected for
each year in a country), or from a time-series-cross-sectional data
set (such as collected by years for each of several countries).
Amelia II implements our bootstrapping-based algorithm that gives
essentially the same answers as the standard IP or EMis approaches,
is usually considerably faster than existing approaches and can
handle many more variables. Unlike Amelia I and other statistically
rigorous imputation software, it virtually never crashes (but please
let us know if you find to the contrary!). The program also
generalizes existing approaches by allowing for trends in time series
across observations within a cross-sectional unit, as well as priors
that allow experts to incorporate beliefs they have about the values
of missing cells in their data. Amelia II also includes useful
diagnostics of the fit of multiple imputation models. The program
works from the R command line or via a graphical user interface that
does not require users to know R.
DESCRIPTION | 10
R/ameliagui.r | 965 ++++++++++++++++++++++++++-------------------------
R/emb.r | 30 -
inst/doc/amelia.log | 4
inst/doc/amelia.pdf | 692 ++++++++++++++++++------------------
inst/doc/index.shtml | 8
6 files changed, 877 insertions(+), 832 deletions(-)
Author: Nicholas Vinen
Title: Uncompress
Description: This R Add-On provides the function uncompress(raw) for
decompressing .Z files. It returns the decompressed data as a raw
(binary) string. The compressed data is passed in in the same format. It
returns NULL if the input data is invalid.
Diff between uncompress versions 1.1 dated 2008-06-08 and 1.2 dated 2008-06-09
uncompress-1.1/uncompress/src/Makefile |only uncompress-1.2/uncompress/DESCRIPTION | 4 ++-- 2 files changed, 2 insertions(+), 2 deletions(-)
Author: Andrew O. Finley
Diff between spBayes versions 0.0-9 dated 2008-05-29 and 0.1-0 dated 2008-06-09
Title: Univariate and Multivariate Spatial Modeling
Description: spBayes fits Gaussian univariate and multivariate models with Markov chain Monte Carlo (MCMC).
DESCRIPTION | 6 +++---
R/dic.R | 8 ++++----
inst/doc/spBayes-vignette.log | 2 +-
inst/doc/spBayes-vignette.pdf |binary
man/sp.DIC.Rd | 9 +++++----
5 files changed, 13 insertions(+), 12 deletions(-)
Author: Timothy H. Keitt
Diff between rgdal versions 0.5-24 dated 2008-02-04 and 0.5-25 dated 2008-06-09
Title: Bindings for the Geospatial Data Abstraction Library
Description: Provides bindings to Frank Warmerdam's Geospatial Data Abstraction Library (GDAL) (>= 1.3.1) and access to projection/transformation operations from the PROJ.4 library. The GDAL and PROJ.4 libraries are external to the package, and, when installing the package from source, must be correctly installed first. Both GDAL raster and OGR vector map data can be imported into R, and GDAL raster data and OGR vector data exported. Use is made of classes defined in the sp package.
ChangeLog | 4 ++++
DESCRIPTION | 6 +++---
R/sp_gdal.R | 3 +++
inst/ChangeLog | 4 ++++
4 files changed, 14 insertions(+), 3 deletions(-)
Author: Peter Rossi
Diff between bayesm versions 2.2-1 dated 2008-03-12 and 2.2-2 dated 2008-06-09
Title: Bayesian Inference for Marketing/Micro-econometrics
Description: bayesm covers many important models used
in marketing and micro-econometrics applications.
The package includes:
Bayes Regression (univariate or multivariate dep var),
Bayes Seemingly Unrelated Regression (SUR),
Binary and Ordinal Probit,
Multinomial Logit (MNL) and Multinomial Probit (MNP),
Multivariate Probit,
Negative Binomial (Poisson) Regression,
Multivariate Mixtures of Normals (including clustering),
Dirichlet Process Prior Density Estimation with normal base,
Hierarchical Linear Models with normal prior and covariates,
Hierarchical Linear Models with a mixture of normals prior and covariates,
Hierarchical Multinomial Logits with a mixture of normals prior
and covariates,
Hierarchical Multinomial Logits with a Dirichlet Process prior and covariates,
Hierarchical Negative Binomial Regression Models,
Bayesian analysis of choice-based conjoint data,
Bayesian treatment of linear instrumental variables models,
and
Analyis of Multivariate Ordinal survey data with scale
usage heterogeneity (as in Rossi et al, JASA (01)).
For further reference, consult our book, Bayesian Statistics and
Marketing by Rossi, Allenby and McCulloch.
DESCRIPTION | 69 ++++++++++++++++++++++-----------------------
NAMESPACE | 3 +
R/rhierMnlDP.R |only
inst/doc/bayesm-manual.pdf |binary
man/rDPGibbs.Rd | 2 -
man/rhierMnlDP.Rd |only
6 files changed, 38 insertions(+), 36 deletions(-)
Author: Nicholas Vinen
Title: Uncompress
Description: This R Add-On provides the function uncompress(raw) for
decompressing .Z files. It returns the decompressed data as a raw
(binary) string. The compressed data is passed in in the same format. It
returns NULL if the input data is invalid.
Diff between uncompress versions 1.0 dated 2008-06-06 and 1.1 dated 2008-06-08
uncompress-1.0/uncompress/src/Makefile.win |only uncompress-1.1/uncompress/DESCRIPTION | 10 +++++----- uncompress-1.1/uncompress/man/uncompress.Rd | 10 +++++----- uncompress-1.1/uncompress/src/uncompress.c | 1 - uncompress-1.1/uncompress/tests |only 5 files changed, 10 insertions(+), 11 deletions(-)
Author: Roger Bivand
Title: Interface between GRASS 6 geographical information system and R
Description: Interpreted interface between GRASS 6 geographical
information system and R, based on starting R from within the GRASS
environment.
Diff between spgrass6 versions 0.5-7 dated 2008-04-16 and 0.5-9 dated 2008-06-08
ChangeLog | 27 +++++++++++++++++++++++++++ DESCRIPTION | 28 ++++++++++++++-------------- R/bin_link.R | 21 ++++++++++++++++++--- R/spgrass6.R | 2 +- R/vect_link.R | 18 ++++++++++++++++-- R/zzz.R |only inst/ChangeLog | 27 +++++++++++++++++++++++++++ man/readRAST6.Rd | 9 ++++++++- man/readVECT6.Rd | 12 ++++++++++-- 9 files changed, 121 insertions(+), 23 deletions(-)
Author: Na (Michael) Li
Diff between rsprng versions 0.3-4 dated 2007-05-10 and 0.4 dated 2008-06-08
Title: R interface to SPRNG (Scalable Parallel Random Number Generators)
Description: Provides interface to SPRNG 2.0 APIs, and examples and
documentation for its use.
._rsprng |only
rsprng/._NAMESPACE |only
rsprng/._R |only
rsprng/._README |only
rsprng/._cleanup |only
rsprng/._configure |only
rsprng/._configure.in |only
rsprng/._man |only
rsprng/._src |only
rsprng/ChangeLog | 4 ++++
rsprng/DESCRIPTION | 6 +++---
rsprng/R/sprng.R | 13 ++++---------
rsprng/man/free.sprng.Rd | 13 +++++--------
rsprng/man/init.sprng.Rd | 9 ++++-----
rsprng/man/pack.sprng.Rd | 2 +-
rsprng/man/spawn.new.sprng.Rd | 2 +-
rsprng/man/spawn.sprng.Rd | 2 +-
rsprng/man/type.sprng.Rd | 2 +-
rsprng/man/unpack.sprng.Rd | 2 +-
rsprng/src/._.cvsignore |only
rsprng/src/._Makevars.gnuwin32 |only
rsprng/src/._Makevars.in |only
22 files changed, 25 insertions(+), 30 deletions(-)
Author: Kenneth Knoblauch
Title: Functions for analyzing psychophysical data in R
Description: An assortment of functions that could be useful in analyzing data from pyschophysical experiments. It includes functions for calculating d' from several different experimental designs, links for mafc to be used with the binomial family in glm (and possibly other contexts) and self-Start functions for estimating gamma values for CRT screen calibrations.
Diff between psyphy versions 0.0-6 dated 2008-06-02 and 0.0-7 dated 2008-06-08
DESCRIPTION | 6 +++--- NAMESPACE | 3 ++- R/mafc.R | 25 +++++++++++++++++++++++++ doc/TODO | 2 +- inst/NEWS | 7 ++++++- man/mafc.Rd | 22 +++++++++++++++++----- 6 files changed, 54 insertions(+), 11 deletions(-)
Author: Torsten Hothorn, Kurt Hornik and Achim Zeileis
Title: A Laboratory for Recursive Partytioning
Description: A computational toolbox for recursive partitioning.
The core of the package is ctree(), an implementation of
conditional inference trees which embed tree-structured
regression models into a well defined theory of conditional
inference procedures. This non-parametric class of regression
trees is applicable to all kinds of regression problems, including
nominal, ordinal, numeric, censored as well as multivariate response
variables and arbitrary measurement scales of the covariates.
Based on conditional inference trees, cforest() provides an
implementation of Breiman's random forests. The function mob()
implements an algorithm for recursive partitioning based on
parametric models (e.g. linear models, GLMs or survival
regression) employing parameter instability tests for split
selection. Extensible functionality for visualizing tree-structured
regression models is available.
Diff between party versions 0.9-95 dated 2008-02-28 and 0.9-96 dated 2008-06-08
CHANGES | 7 DESCRIPTION | 4 NAMESPACE | 3 inst/doc/MOB-BostonHousing-plot.eps |only inst/doc/MOB-BostonHousing-plot.pdf |only inst/doc/MOB.pdf |binary inst/doc/MOB.tex |only inst/doc/Rplots.pdf |only inst/doc/party.pdf |binary inst/documentation/html/Classes_8c-source.html | 28 inst/documentation/html/Classes_8c.html | 174 inst/documentation/html/Classes_8c_0e317821da8f3bc0fb6da5006abb81f6_cgraph.map |only inst/documentation/html/Classes_8c_0e317821da8f3bc0fb6da5006abb81f6_cgraph.md5 |only inst/documentation/html/Classes_8c_0e317821da8f3bc0fb6da5006abb81f6_cgraph.png |only inst/documentation/html/Classes_8c__incl.map | 30 inst/documentation/html/Classes_8c__incl.md5 | 2 inst/documentation/html/Classes_8c__incl.png |binary inst/documentation/html/Classes_8c_a160107e2d687d3fa2411af7e25763ef_cgraph.map |only inst/documentation/html/Classes_8c_a160107e2d687d3fa2411af7e25763ef_cgraph.md5 |only inst/documentation/html/Classes_8c_a160107e2d687d3fa2411af7e25763ef_cgraph.png |only 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inst/documentation/man/man3/Utils.c.3 | 20 inst/documentation/man/man3/Utils.h.3 | 32 inst/documentation/man/man3/_home_hothorn_projects_svn_Rpkgs_trunk_party_src_.3 | 5 inst/documentation/man/man3/mvt.f.3 |only inst/documentation/man/man3/mvt.h.3 | 2 inst/documentation/man/man3/party.h.3 | 4 inst/documentation/man/man3/todo.3 | 4 src/SurrogateSplits.c | 39 tests/Distributions.Rout.save | 10 tests/Examples/party-Ex.Rout.save | 34 tests/IndependenceTest-regtest.Rout.save | 10 tests/LinearStatistic-regtest.Rout.save | 10 tests/Node-regtest.Rout.save | 10 tests/Predict-regtest.Rout.save | 10 tests/RandomForest-regtest.Rout.save | 10 tests/Splits-regtest.Rout.save | 10 tests/TestStatistic-regtest.Rout.save | 10 tests/TreeGrow-regtest.Rout.save | 10 tests/Utils-regtest.Rout.save | 10 tests/bugfixes.Rout.save | 10 tests/codetools-checks.Rout.save | 10 tests/mob.Rout.save | 10 971 files changed, 56887 insertions(+), 33573 deletions(-)
Author: Simon Wood
Diff between mgcv versions 1.3-31 dated 2008-04-29 and 1.4-0 dated 2008-06-08
Title: GAMs with GCV smoothness estimation and GAMMs by REML/PQL
Description: Routines for GAMs and other generalized ridge regression
with multiple smoothing parameter selection by GCV or
UBRE/AIC. Also GAMMs by REML or PQL. Includes a gam()
function.
mgcv-1.3-31/mgcv/R/gam.fit2.r |only
mgcv-1.3-31/mgcv/man/gam.fit2.Rd |only
mgcv-1.3-31/mgcv/man/gam.neg.bin.Rd |only
mgcv-1.4-0/mgcv/DESCRIPTION | 6
mgcv-1.4-0/mgcv/NAMESPACE | 20
mgcv-1.4-0/mgcv/R/gam.fit3.r | 500 +++++-
mgcv-1.4-0/mgcv/R/gam.sim.r |only
mgcv-1.4-0/mgcv/R/gamm.r | 204 ++
mgcv-1.4-0/mgcv/R/mgcv.r | 1363 ++++++++++-------
mgcv-1.4-0/mgcv/R/smooth.r | 1061 ++++++++++---
mgcv-1.4-0/mgcv/changeLog | 143 +
mgcv-1.4-0/mgcv/inst/CITATION | 4
mgcv-1.4-0/mgcv/man/Predict.matrix.Rd | 7
mgcv-1.4-0/mgcv/man/anova.gam.Rd | 44
mgcv-1.4-0/mgcv/man/cSplineDes.Rd |only
mgcv-1.4-0/mgcv/man/choose.k.Rd | 56
mgcv-1.4-0/mgcv/man/extract.lme.cov.Rd | 2
mgcv-1.4-0/mgcv/man/fix.family.link.Rd | 2
mgcv-1.4-0/mgcv/man/formula.gam.Rd | 62
mgcv-1.4-0/mgcv/man/full.score.Rd | 4
mgcv-1.4-0/mgcv/man/gam.Rd | 577 +++----
mgcv-1.4-0/mgcv/man/gam.check.Rd | 49
mgcv-1.4-0/mgcv/man/gam.control.Rd | 102 -
mgcv-1.4-0/mgcv/man/gam.convergence.Rd | 19
mgcv-1.4-0/mgcv/man/gam.fit.Rd | 5
mgcv-1.4-0/mgcv/man/gam.fit3.Rd |only
mgcv-1.4-0/mgcv/man/gam.method.Rd | 109 -
mgcv-1.4-0/mgcv/man/gam.models.Rd | 340 ++--
mgcv-1.4-0/mgcv/man/gam.outer.Rd | 26
mgcv-1.4-0/mgcv/man/gam.selection.Rd | 36
mgcv-1.4-0/mgcv/man/gam.side.Rd | 38
mgcv-1.4-0/mgcv/man/gam2objective.Rd | 28
mgcv-1.4-0/mgcv/man/gamObject.Rd | 64
mgcv-1.4-0/mgcv/man/gamSim.Rd |only
mgcv-1.4-0/mgcv/man/gamm.Rd | 151 -
mgcv-1.4-0/mgcv/man/gamm.setup.Rd | 5
mgcv-1.4-0/mgcv/man/get.var.Rd | 9
mgcv-1.4-0/mgcv/man/interpret.gam.Rd | 5
mgcv-1.4-0/mgcv/man/linear.functional.terms.Rd |only
mgcv-1.4-0/mgcv/man/logLik.gam.Rd | 10
mgcv-1.4-0/mgcv/man/magic.Rd | 58
mgcv-1.4-0/mgcv/man/magic.post.proc.Rd | 2
mgcv-1.4-0/mgcv/man/mgcv-package.Rd | 59
mgcv-1.4-0/mgcv/man/mgcv.Rd | 12
mgcv-1.4-0/mgcv/man/negbin.Rd |only
mgcv-1.4-0/mgcv/man/notExp2.Rd | 2
mgcv-1.4-0/mgcv/man/null.space.dimension.Rd | 2
mgcv-1.4-0/mgcv/man/pcls.Rd | 4
mgcv-1.4-0/mgcv/man/pdTens.Rd | 2
mgcv-1.4-0/mgcv/man/plot.gam.Rd | 17
mgcv-1.4-0/mgcv/man/predict.gam.Rd | 27
mgcv-1.4-0/mgcv/man/print.gam.Rd | 2
mgcv-1.4-0/mgcv/man/s.Rd | 78
mgcv-1.4-0/mgcv/man/smooth.construct.Rd | 258 +--
mgcv-1.4-0/mgcv/man/smooth.construct.ad.smooth.spec.Rd |only
mgcv-1.4-0/mgcv/man/smooth.construct.cr.smooth.spec.Rd |only
mgcv-1.4-0/mgcv/man/smooth.construct.ps.smooth.spec.Rd |only
mgcv-1.4-0/mgcv/man/smooth.construct.tp.smooth.spec.Rd |only
mgcv-1.4-0/mgcv/man/smooth.terms.Rd |only
mgcv-1.4-0/mgcv/man/smoothCon.Rd | 41
mgcv-1.4-0/mgcv/man/step.gam.Rd | 19
mgcv-1.4-0/mgcv/man/summary.gam.Rd | 108 -
mgcv-1.4-0/mgcv/man/te.Rd | 65
mgcv-1.4-0/mgcv/man/tensor.prod.model.matrix.Rd | 2
mgcv-1.4-0/mgcv/man/uniquecombs.Rd | 16
mgcv-1.4-0/mgcv/man/vis.gam.Rd | 2
mgcv-1.4-0/mgcv/po/R-mgcv.pot | 44
mgcv-1.4-0/mgcv/po/mgcv.pot | 4
mgcv-1.4-0/mgcv/src/gdi.c | 63
mgcv-1.4-0/mgcv/src/init.c | 4
mgcv-1.4-0/mgcv/src/magic.c | 200 +-
mgcv-1.4-0/mgcv/src/mgcv.c | 14
mgcv-1.4-0/mgcv/src/mgcv.h | 6
mgcv-1.4-0/mgcv/src/qp.c | 2
74 files changed, 3991 insertions(+), 2173 deletions(-)
Author: William H. Asquith
Title: L-moments, Trimmed L-moments, L-comoments, and Many Distributions
Description: The package implements the statistical theory of L-moments including
L-moment estimation, probability-weighted moment estimation, parameter estimation
for numerous familiar and not-so-familiar distributions, and L-moment estimation
for the same distributions from the parameters. L-moments are derived from the
expectations of order statistics and are linear with respect to the probability-
weighted moments. L-moments are directly analogous to the well-known product
moments; however, L-moments have many advantages including unbiasedness,
robustness, and consistency with respect to the product moments. This package
is oriented around the FORTRAN algorithms of J.R.M. Hosking, and the
nomenclature for many of the functions parallels that of the Hosking library.
However, numerous extensions are made to aid in expand of the breadth and ease
of L-moment application. Much theoretical extension of L-moment theory has
occurred in recent years. E.A.H. Elamir and A.H. Seheult have developed the
trimmed L-moments, which are implemented in this package. Further, recent
developments by Robert Serfling and Peng Xiao have extended L-moments into
multivariate space; the so-called sample L-comoments are implemented here. The
supported distributions with moment type shown as L (L-moments) or TL (trimmed
L-moments) and additional support for right-tail censoring ([RC]) include:
Cauchy(TL), Exponential(L), Gamma(L), Generalized Extreme Value(L),
Generalized Lambda(L & TL), Generalized Logistic (L), Generalized Normal(L),
Generalized Pareto(L[RC] & TL), Gumbel(L), Normal(L), Kappa(L),
Pearson Type III(L), Reverse Gumbel(L[RC]), Wakeby(L), and Weibull(L).
Diff between lmomco versions 0.93.4 dated 2008-05-04 and 0.94 dated 2008-06-08
ChangeLog | 11 +++++++++++ DESCRIPTION | 6 +++--- INDEX | 2 ++ R/gini.mean.diff.R |only R/harmonic.mean.R | 1 + R/sen.mean.R |only man/are.parrevgum.valid.Rd | 3 +++ man/check.pdf.Rd | 2 -- man/gini.mean.diff.Rd |only man/harmonic.mean.Rd | 2 +- man/lmomrevgum.Rd | 3 +++ man/pargpaRC.Rd | 2 +- man/sen.mean.Rd |only 13 files changed, 25 insertions(+), 7 deletions(-)
Author: Stephen Milborrow
derived from mda:mars by Trevor Hastie and Rob Tibshirani.
Title: Multivariate Adaptive Regression Spline Models
Description: Build regression models using the techniques in Friedman's
papers "Fast MARS" and "Multivariate Adaptive Regression Splines".
(The term "MARS" is copyrighted and thus not used in the name of the package.)
Diff between earth versions 1.3-4 dated 2008-04-27 and 2.0-0 dated 2008-06-08
earth-1.3-4/earth/src/tests/README |only earth-1.3-4/earth/tests/README |only earth-2.0-0/earth/DESCRIPTION | 5 earth-2.0-0/earth/NAMESPACE | 8 earth-2.0-0/earth/NEWS | 9 earth-2.0-0/earth/R/earth.R | 2004 +++---- earth-2.0-0/earth/R/earth.glm.R |only earth-2.0-0/earth/R/earth.regress.R |only earth-2.0-0/earth/R/earthlib.R | 185 earth-2.0-0/earth/R/evimp.R |only earth-2.0-0/earth/R/expand.arg.R |only earth-2.0-0/earth/R/format.earth.R |only earth-2.0-0/earth/R/mars.to.earth.R | 175 earth-2.0-0/earth/R/model.matrix.earth.R |only earth-2.0-0/earth/R/plot.earth.R | 92 earth-2.0-0/earth/R/plotmo.R | 215 earth-2.0-0/earth/R/print.earth.R |only earth-2.0-0/earth/data/etitanic.rda |only earth-2.0-0/earth/man/contr.earth.response.Rd |only earth-2.0-0/earth/man/earth.Rd | 966 ++- earth-2.0-0/earth/man/etitanic.Rd |only earth-2.0-0/earth/man/evimp.Rd |only earth-2.0-0/earth/man/format.earth.Rd | 60 earth-2.0-0/earth/man/mars.to.earth.Rd | 44 earth-2.0-0/earth/man/model.matrix.earth.Rd | 71 earth-2.0-0/earth/man/ozone1.Rd | 3 earth-2.0-0/earth/man/plot.earth.Rd | 32 earth-2.0-0/earth/man/plot.earth.models.Rd | 13 earth-2.0-0/earth/man/plotmo.Rd | 34 earth-2.0-0/earth/man/predict.earth.Rd | 35 earth-2.0-0/earth/man/residuals.earth.Rd |only earth-2.0-0/earth/man/summary.earth.Rd | 90 earth-2.0-0/earth/man/update.earth.Rd | 41 earth-2.0-0/earth/src/earth.c | 877 +-- earth-2.0-0/earth/src/earth.h | 56 earth-2.0-0/earth/src/tests/README.txt |only earth-2.0-0/earth/src/tests/check.models.equal.R |only earth-2.0-0/earth/src/tests/earth.memory.txt |only earth-2.0-0/earth/src/tests/earth.times.R | 2 earth-2.0-0/earth/src/tests/test.all.bat | 12 earth-2.0-0/earth/src/tests/test.earth.big.R | 1 earth-2.0-0/earth/src/tests/test.earth.big.Rout.save | 190 earth-2.0-0/earth/src/tests/test.earth.big.bat | 9 earth-2.0-0/earth/src/tests/test.earth.full.R | 883 ++- earth-2.0-0/earth/src/tests/test.earth.full.Rout.save | 4751 +++++++++++++----- earth-2.0-0/earth/src/tests/test.earth.full.bat | 9 earth-2.0-0/earth/src/tests/test.earth.glm.R |only earth-2.0-0/earth/src/tests/test.earth.glm.Rout.save |only earth-2.0-0/earth/src/tests/test.earth.glm.bat |only earth-2.0-0/earth/src/tests/test.earthc.bat | 4 earth-2.0-0/earth/src/tests/test.earthc.c | 7 earth-2.0-0/earth/src/tests/test.earthc.mak | 7 earth-2.0-0/earth/src/tests/test.earthc.out.save | 927 +-- earth-2.0-0/earth/src/tests/test.earthmain.bat | 5 earth-2.0-0/earth/src/tests/test.earthmain.gcc.bat | 7 earth-2.0-0/earth/src/tests/test.earthmain.out.save | 14 earth-2.0-0/earth/src/tests/test.plotmo.R | 5 earth-2.0-0/earth/src/tests/test.plotmo.Rout.save | 288 - earth-2.0-0/earth/src/tests/test.plotmo.bat | 9 earth-2.0-0/earth/tests/README.txt |only earth-2.0-0/earth/tests/test.earth.R | 4 earth-2.0-0/earth/tests/test.earth.Rout.save | 309 - 62 files changed, 8191 insertions(+), 4267 deletions(-)
More information about dataframes2xls at CRAN
Permanent link
Author: Kristin K. Nicodemus
Diff between catmap versions 1.4 dated 2008-01-21 and 1.5 dated 2008-06-08
Title: Case-control And Tdt Meta-Analysis Package
Description: catmap is an R package that conducts fixed-effects (inverse variance) and random-effects (DerSimonian and Laird, 1986) meta-analyses of case-control or family-based (TDT) genetic data; in addition, it performs meta-analyses combining these two types of study designs. The fixed-effects model was first described by Kazeem and Farrell (2005); the random-effects model is described in Nicodemus (submitted).
DESCRIPTION | 6 +++---
R/catmap.R | 22 +++++++++++-----------
man/.Rd2dvi |only
man/catmap.Rd | 5 +++--
man/catmap.cumulative.Rd | 7 +++----
man/catmap.forest.Rd | 3 ++-
man/catmap.funnel.Rd | 2 +-
man/catmap.sense.Rd | 6 +++---
man/catmapdata.Rd | 2 +-
9 files changed, 27 insertions(+), 26 deletions(-)
Author: John Fox
Diff between Rcmdr versions 1.3-14 dated 2008-04-10 and 1.3-15 dated 2008-06-08
Title: R Commander
Description:
A platform-independent basic-statistics GUI (graphical user interface) for R, based on the tcltk package.
.project |only
DESCRIPTION | 6
R/commander.R | 4
R/utilities.R | 8
inst/CHANGES | 8
inst/doc/Empezando-con-Rcmdr-es.pdf |only
inst/po/es/LC_MESSAGES/R-Rcmdr.mo |binary
man/Commander-es.Rd |only
man/Rcmdr-package.Rd | 8
po/R-Rcmdr.pot | 29
po/R-es.po | 6951 ++++++++++++++++++------------------
11 files changed, 3552 insertions(+), 3462 deletions(-)
Author: Arne Henningsen
Diff between sampleSelection versions 0.5-3 dated 2008-02-27 and 0.5-5 dated 2008-06-06
More information about sampleSelection at CRAN
Title: Sample Selection Models
Description: Estimation of Sample Selection Models
DESCRIPTION | 6
INDEX | 11
R/coef.probit.R |only
R/coef.selection.R | 2
R/fitted.probit.R |only
R/fitted.selection.R |only
R/heckit2fit.R | 7
R/heckit5fit.R | 17
R/model.frame.probit.R | 15
R/model.frame.selection.R |only
R/model.matrix.selection.R |only
R/print.coef.selection.R | 5
R/probit.R | 4
R/residuals.probit.R |only
R/residuals.selection.R |only
R/selection.R | 25
R/summary.selection.R | 12
R/tobit5fit.R | 10
man/coef.probit.Rd |only
man/fitted.probit.Rd |only
man/fitted.selection.Rd |only
man/model.frame.probit.Rd |only
man/model.frame.selection.Rd |only
man/model.matrix.probit.Rd |only
man/model.matrix.selection.Rd |only
man/residuals.probit.Rd |only
man/residuals.selection.Rd |only
man/sampleSelection-internal.Rd | 13
man/selection.Rd | 5
man/summary.probit.Rd |only
tests/heckit.R | 33
tests/heckit.Rout.save |11835 ++++++++++
tests/probit.R | 13
tests/probit.Rout.save | 1915 +
tests/selection.R | 93
tests/selection.Rout.save |45064 +++++++++++++++++++++++++++++++++++++++-
36 files changed, 58933 insertions(+), 152 deletions(-)
Permanent link
Author: David Firth with contributions from Heather Turner
Title: Relative Contribution of Effects in a Regression Model
Description: Functions to facilitate inference on the relative importance of predictors in a linear or generalized linear model, and a couple of useful Tcl/Tk widgets.
Diff between relimp versions 0.9-8 dated 2008-03-27 and 0.9-9 dated 2008-06-06
DESCRIPTION | 11 - NAMESPACE | 2 R/pickFrom.R | 479 +++++++++++++++++++++++++++++++------------------------- R/showData.R | 2 man/pickFrom.Rd | 38 ++-- 5 files changed, 301 insertions(+), 231 deletions(-)
Author: Jim Lemon
Diff between plotrix versions 2.4-2 dated 2008-05-21 and 2.4-3 dated 2008-06-06
Title: Various plotting functions
Description: Lots of plots, various labeling, axis and color scaling functions.
DESCRIPTION | 6 +++---
R/barhier.R | 5 +++--
R/gantt.R | 1 -
R/stackpoly.R | 3 ++-
R/vectorField.R | 6 ++++--
man/barhier.Rd | 6 ++++--
man/stackpoly.Rd | 15 +++++++++++----
man/vectorField.Rd | 34 +++++++++++++++++++++++++++++-----
8 files changed, 56 insertions(+), 20 deletions(-)
Author: Michel Berkelaar and others
Title: Interface to Lp_solve v. 5.5 to solve linear/integer programs
Description: Lp_solve is freely available (under LGPL 2) software for
solving linear, integer and mixed integer programs. In this implementation
we supply a "wrapper" function in C and some R functions that solve
general linear/integer problems, assignment problems, and transportation
problems. This version calls lp_solve version 5.5.
Diff between lpSolve versions 5.6.2 dated 2008-05-07 and 5.6.3 dated 2008-06-06
DESCRIPTION | 4 ++-- R/lp.R | 10 +++++----- 2 files changed, 7 insertions(+), 7 deletions(-)
Author: Mikis Stasinopoulos
Diff between gamlss.tr versions 1.7-0 dated 2007-10-03 and 1.9-0 dated 2008-06-06
Title: Generating and fitting truncated (gamlss.family) distributions
Description: This is an add on package to GAMLSS. The purpose of this package is to allow users to defined truncated distributions in GAMLSS models. The main function gen.trun() generates truncated version of an existing GAMLSS family distribution.
DESCRIPTION | 6 +--
R/gen.trun.R | 10 +++---
R/trun.R | 71 +++++++++++++++++++++++++++++++----------------
man/gamlss.tr.package.Rd | 2 -
man/gen.trun.Rd | 2 -
man/trun.Rd | 6 +--
man/trun.d.Rd | 2 -
man/trun.p.Rd | 2 -
man/trun.q.Rd | 2 -
man/trun.r.Rd | 2 -
10 files changed, 66 insertions(+), 39 deletions(-)
Author: Mikis Stasinopoulos
Diff between gamlss.nl versions 1.7-0 dated 2007-10-03 and 1.9-0 dated 2008-06-06
Title: Fitting non linear parametric GAMLSS models
Description: This is an add on package to GAMLSS. It allows one extra method for fitting
GAMLSS models. The main function nlgamlss() can fit any parametric
(up to four parameter) GAMLSS distribution.
DESCRIPTION | 6 +++---
R/finterp.default.R | 20 ++++++++++----------
R/fmobj.R | 14 +++++++-------
R/nlgamlss.R | 2 +-
4 files changed, 21 insertions(+), 21 deletions(-)
Author: Mikis Stasinopoulos
Diff between gamlss.mx versions 1.7-0 dated 2007-10-03 and 1.9-0 dated 2008-06-06
Title: A GAMLSS add on package for fitting mixture distributions
Description: The main purpose of this package is to allow fitting of mixture distributions with GAMLSS models.
gamlss.mx-1.7-0/gamlss.mx/R/gamlssMX-10-4-07.R |only
gamlss.mx-1.9-0/gamlss.mx/DESCRIPTION | 8 ++--
gamlss.mx-1.9-0/gamlss.mx/NAMESPACE | 18 +++++----
gamlss.mx-1.9-0/gamlss.mx/R/gamlssMX-10-11-07.R |only
gamlss.mx-1.9-0/gamlss.mx/R/gamlssNP.R | 44 +++++++++++++-----------
5 files changed, 39 insertions(+), 31 deletions(-)
Author: Mikis Stasinopoulos
Diff between gamlss.dist versions 1.8-0 dated 2008-01-16 and 1.9-0 dated 2008-06-06
Title: Extra distributions to be used for GAMLSS modelling.
Description: This package contains few extra distributions for GAMLSS modelling.
gamlss.dist-1.8-0/gamlss.dist/src/tofy.f |only
gamlss.dist-1.8-0/gamlss.dist/src/tofys.f |only
gamlss.dist-1.9-0/gamlss.dist/DESCRIPTION | 6
gamlss.dist-1.9-0/gamlss.dist/NAMESPACE | 2
gamlss.dist-1.9-0/gamlss.dist/R/BEOI.r | 130 +++++++----------
gamlss.dist-1.9-0/gamlss.dist/R/BEZI.r | 112 ++++++--------
gamlss.dist-1.9-0/gamlss.dist/R/DELAPORT.R | 191 +++++++++++++++----------
gamlss.dist-1.9-0/gamlss.dist/R/EGB2.R | 95 +++++++-----
gamlss.dist-1.9-0/gamlss.dist/R/EXP.R | 4
gamlss.dist-1.9-0/gamlss.dist/R/GB1.R | 154 ++++++++++----------
gamlss.dist-1.9-0/gamlss.dist/R/GB2.R | 144 ++++++++++--------
gamlss.dist-1.9-0/gamlss.dist/R/GG.R | 32 ++--
gamlss.dist-1.9-0/gamlss.dist/R/GIG.R | 47 +++---
gamlss.dist-1.9-0/gamlss.dist/R/GT.R | 44 +++--
gamlss.dist-1.9-0/gamlss.dist/R/NOF.R | 32 ++--
gamlss.dist-1.9-0/gamlss.dist/R/RGE.R | 21 +-
gamlss.dist-1.9-0/gamlss.dist/R/SEP1.R | 54 ++++---
gamlss.dist-1.9-0/gamlss.dist/R/SEP2.R | 47 +++---
gamlss.dist-1.9-0/gamlss.dist/R/SEP3.R | 42 +++--
gamlss.dist-1.9-0/gamlss.dist/R/SEP4.R | 43 +++--
gamlss.dist-1.9-0/gamlss.dist/R/SHASH.R | 46 +++---
gamlss.dist-1.9-0/gamlss.dist/R/SICHEL.R | 151 +++++++++++--------
gamlss.dist-1.9-0/gamlss.dist/R/ST1.R | 43 +++--
gamlss.dist-1.9-0/gamlss.dist/R/ST2.R | 44 +++--
gamlss.dist-1.9-0/gamlss.dist/R/ST3.R | 73 +++++----
gamlss.dist-1.9-0/gamlss.dist/R/ST4.R | 44 +++--
gamlss.dist-1.9-0/gamlss.dist/R/ST5.R | 40 +++--
gamlss.dist-1.9-0/gamlss.dist/R/WEI3.R | 10 -
gamlss.dist-1.9-0/gamlss.dist/R/ZIP2.R | 13 -
gamlss.dist-1.9-0/gamlss.dist/R/exGAUS.R | 47 +++---
gamlss.dist-1.9-0/gamlss.dist/data/stylo.r |only
gamlss.dist-1.9-0/gamlss.dist/man/CD4.Rd |only
gamlss.dist-1.9-0/gamlss.dist/man/LGAclaims.Rd |only
gamlss.dist-1.9-0/gamlss.dist/man/RGE.Rd | 9 -
gamlss.dist-1.9-0/gamlss.dist/man/SICHEL.Rd | 5
gamlss.dist-1.9-0/gamlss.dist/man/alveolar.Rd |only
gamlss.dist-1.9-0/gamlss.dist/man/computer.Rd |only
gamlss.dist-1.9-0/gamlss.dist/man/glass.Rd |only
gamlss.dist-1.9-0/gamlss.dist/man/lice.Rd |only
gamlss.dist-1.9-0/gamlss.dist/man/margolin.Rd |only
gamlss.dist-1.9-0/gamlss.dist/man/parzen.Rd | 144 ------------------
gamlss.dist-1.9-0/gamlss.dist/man/species.Rd |only
gamlss.dist-1.9-0/gamlss.dist/man/stylo.Rd |only
gamlss.dist-1.9-0/gamlss.dist/man/tensile.Rd |only
gamlss.dist-1.9-0/gamlss.dist/src/cdfSICHEL.f |only
gamlss.dist-1.9-0/gamlss.dist/src/tofydel.f |only
gamlss.dist-1.9-0/gamlss.dist/src/tofysin.f | 4
47 files changed, 978 insertions(+), 895 deletions(-)
Author: Mikis Stasinopoulos
Diff between gamlss.cens versions 1.7.0 dated 2007-10-03 and 1.9.0 dated 2008-06-06
Title: Fitting an interval response variable using gamlss.family distributions
Description: This is an add on package to GAMLSS. The purpose of this package is to allow users to fit interval response variables in
GAMLSS models. The main function gen.cens() generates a censored version of an existing GAMLSS family distribution.
DESCRIPTION | 12 ++---
NAMESPACE | 4 -
R/cens.R | 83 ++++++++++++++++++++++------------
R/cens.d.R | 5 --
R/cens.p.R | 3 -
R/gen.cens.R | 10 ++--
man/cens.Rd | 108 ++++++++++++++++++++++++++++++++++-----------
man/cens.d.Rd | 19 ++++---
man/cens.p.Rd | 16 ++++--
man/cens.q.Rd | 25 +++++++---
man/gamlss.cens-package.Rd | 30 +++++++-----
man/gen.cens.Rd | 26 +++++++---
man/lip.Rd | 53 +++++++++++-----------
13 files changed, 254 insertions(+), 140 deletions(-)
Author: Mikis Stasinopoulos
Diff between gamlss versions 1.8-0 dated 2008-01-16 and 1.9-0 dated 2008-06-06
Title: Generalized Additive Models for Location Scale and Shape.
Description: The main GAMLSS library and datasets.
gamlss-1.8-0/gamlss/tests |only
gamlss-1.9-0/gamlss/DESCRIPTION | 6
gamlss-1.9-0/gamlss/NAMESPACE | 9
gamlss-1.9-0/gamlss/R/BB.R | 17 -
gamlss-1.9-0/gamlss/R/BCCG.R | 36 +--
gamlss-1.9-0/gamlss/R/BCPE.R | 70 +++----
gamlss-1.9-0/gamlss/R/BCT.R | 65 +++---
gamlss-1.9-0/gamlss/R/BE.R | 14 -
gamlss-1.9-0/gamlss/R/BEINF.R | 41 ++--
gamlss-1.9-0/gamlss/R/BEo.R |only
gamlss-1.9-0/gamlss/R/BI.R | 7
gamlss-1.9-0/gamlss/R/GA.R | 10 -
gamlss-1.9-0/gamlss/R/GU.R | 10 -
gamlss-1.9-0/gamlss/R/HistDist.R | 8
gamlss-1.9-0/gamlss/R/IG.R | 12 -
gamlss-1.9-0/gamlss/R/JSU.R | 46 ++--
gamlss-1.9-0/gamlss/R/JSUo.R | 46 ++--
gamlss-1.9-0/gamlss/R/LNO.R | 10 -
gamlss-1.9-0/gamlss/R/Logistic.R | 10 -
gamlss-1.9-0/gamlss/R/NBI.R | 13 -
gamlss-1.9-0/gamlss/R/NBII.R | 17 +
gamlss-1.9-0/gamlss/R/NET.R | 22 +-
gamlss-1.9-0/gamlss/R/NO.r | 23 +-
gamlss-1.9-0/gamlss/R/PE.R | 26 +-
gamlss-1.9-0/gamlss/R/PE2.R | 28 +-
gamlss-1.9-0/gamlss/R/PIG.R | 10 -
gamlss-1.9-0/gamlss/R/PROFILE.R | 6
gamlss-1.9-0/gamlss/R/RG.R | 10 -
gamlss-1.9-0/gamlss/R/SEP.R | 52 +++--
gamlss-1.9-0/gamlss/R/SI.R | 26 +-
gamlss-1.9-0/gamlss/R/TF.R | 23 +-
gamlss-1.9-0/gamlss/R/VGD.R | 122 ++++++++++++
gamlss-1.9-0/gamlss/R/WEI.R | 10 -
gamlss-1.9-0/gamlss/R/WEI2.R | 10 -
gamlss-1.9-0/gamlss/R/ZAIG.R | 22 +-
gamlss-1.9-0/gamlss/R/ZIP.R | 15 -
gamlss-1.9-0/gamlss/R/cs.R | 73 ++++---
gamlss-1.9-0/gamlss/R/cubicSplinesNewS.R |only
gamlss-1.9-0/gamlss/R/extra.R | 128 ++++++++----
gamlss-1.9-0/gamlss/R/findhyper.R | 25 +-
gamlss-1.9-0/gamlss/R/gamlss.R | 2
gamlss-1.9-0/gamlss/R/logNO.R | 10 -
gamlss-1.9-0/gamlss/R/lpred.R | 4
gamlss-1.9-0/gamlss/R/make-link-gamlss-new.R | 143 ++++++++------
gamlss-1.9-0/gamlss/R/par_plot.R | 211 +++++++++++++--------
gamlss-1.9-0/gamlss/R/po.r | 4
gamlss-1.9-0/gamlss/R/predict-gamlss.R | 81 +++++++-
gamlss-1.9-0/gamlss/R/profterm.R | 20 +-
gamlss-1.9-0/gamlss/R/ra.R | 8
gamlss-1.9-0/gamlss/R/random.R | 2
gamlss-1.9-0/gamlss/R/rc.R | 2
gamlss-1.9-0/gamlss/R/rqresplot.R | 31 +--
gamlss-1.9-0/gamlss/R/term-plot.R | 2
gamlss-1.9-0/gamlss/R/vcov_gamlss.R | 267 ++++++++++++++++++++++++---
gamlss-1.9-0/gamlss/R/wp.R | 2
gamlss-1.9-0/gamlss/inst/doc/NEWS.txt | 33 +++
gamlss-1.9-0/gamlss/man/BE.Rd | 41 ++--
gamlss-1.9-0/gamlss/man/VGD.Rd | 55 ++++-
gamlss-1.9-0/gamlss/man/checklink.Rd | 5
gamlss-1.9-0/gamlss/man/cs.Rd | 35 ++-
gamlss-1.9-0/gamlss/man/findhyper.Rd | 8
gamlss-1.9-0/gamlss/man/gamlss.cs.Rd | 6
gamlss-1.9-0/gamlss/man/gamlss.ra.Rd | 2
gamlss-1.9-0/gamlss/man/gamlss.random.Rd | 2
gamlss-1.9-0/gamlss/man/gamlss.rc.Rd | 2
gamlss-1.9-0/gamlss/man/make.link.gamlss.Rd | 116 ++++++++---
gamlss-1.9-0/gamlss/man/predict.gamlss.Rd | 9
67 files changed, 1470 insertions(+), 711 deletions(-)
Author: Roger Koenker
Diff between SparseM versions 0.77 dated 2008-03-31 and 0.78 dated 2008-06-06
Title: Sparse Linear Algebra
Description: Basic linear algebra for sparse matrices
DESCRIPTION | 4 ++--
R/SparseM.R | 8 +++++---
REVISIONS | 4 ++++
inst/doc/SparseM.pdf |binary
4 files changed, 11 insertions(+), 5 deletions(-)
Author: Achim Zeileis, Kurt Hornik
Title: CRAN Task Views
Description: Server-side and client-side tools for task views
to CRAN-style repositories
Diff between ctv versions 0.4-2 dated 2008-04-03 and 0.4-3 dated 2008-06-05
DESCRIPTION | 6 NEWS | 15 + R/ctv-client.R | 2 R/ctv-server.R | 2 inst/ctv/Bayesian.ctv | 12 - inst/ctv/Cluster.ctv | 16 - inst/ctv/Econometrics.ctv | 90 ++++++---- inst/ctv/Environmetrics.ctv | 29 ++- inst/ctv/ExperimentalDesign.ctv | 26 ++- inst/ctv/Finance.ctv | 26 +-- inst/ctv/Genetics.ctv | 56 ++---- inst/ctv/Graphics.ctv | 10 - inst/ctv/MachineLearning.ctv | 38 ++-- inst/ctv/Multivariate.ctv | 149 ++++++++--------- inst/ctv/NaturalLanguageProcessing.ctv |only inst/ctv/Optimization.ctv |only inst/ctv/Pharmacokinetics.ctv | 261 ++++++++++++++++++------------ inst/ctv/Psychometrics.ctv | 26 +-- inst/ctv/SocialSciences.ctv | 50 +++-- inst/ctv/Spatial.ctv | 80 +++++++-- inst/ctv/Survival.ctv |only inst/ctv/gR.ctv | 282 ++++++++++++++++++++++++++++----- inst/doc/ctv-howto.Rnw | 26 ++- inst/doc/ctv-howto.pdf |binary inst/doc/ctv-howto.tex |only 25 files changed, 791 insertions(+), 411 deletions(-)
Author: Josef Leydold and Wolfgang H\"ormann
Title: R interface to the UNU.RAN random variate generators
Description: Interface to the UNU.RAN library for Universal Non-Uniform RANdom variate generators
Diff between Runuran versions 0.7 dated 2008-04-25 and 0.7.1 dated 2008-06-05
DESCRIPTION | 6 ++--- NEWS | 5 ++++ man/Runuran-package.Rd | 4 +-- src/Runuran.c | 11 +++------- src/unuran-src/methods/hinv.c | 3 +- src/unuran-src/methods/tdr_gw_init.ch | 8 +++++-- src/unuran-src/methods/tdr_gw_sample.ch | 2 - src/unuran-src/methods/tdr_ps_init.ch | 4 +++ src/unuran-src/methods/tdr_ps_sample.ch | 2 - src/unuran-src/methods/unur_methods_source.h | 3 +- src/unuran-src/parser/functparser_symbols.h | 6 ++--- src/unuran-src/unur_cookies.h | 6 +++-- tests/test_routines.R | 28 ++++++++++++++++----------- 13 files changed, 54 insertions(+), 34 deletions(-)
Author: Andrew Gelman
Diff between arm versions 1.1-5 dated 2008-05-05 and 1.1-6 dated 2008-06-04
Title: Data Analysis Using Regression and Multilevel/Hierarchical Models
Description: R functions for processing lm, glm, mer and polr outputs.
CHANGELOG | 6 ++++++
DESCRIPTION | 6 +++---
NAMESPACE | 4 ++--
R/AllGeneric.R | 2 ++
R/traceplot.R | 8 +++++++-
man/coefplot.Rd | 4 ++--
man/traceplot.Rd | 10 +++++++---
7 files changed, 29 insertions(+), 11 deletions(-)
Author: Jinko Graham
Diff between stepwise versions 0.2-1 dated 2007-10-28 and 0.2-2 dated 2008-06-03
Title: Stepwise detection of recombination breakpoints
Description: A stepwise approach to identifying recombination breakpoints in a sequence alignment.
DESCRIPTION | 4 ++--
src/stepwise.c | 2 +-
2 files changed, 3 insertions(+), 3 deletions(-)
Author: Miika Ahdesmaki, Konstantinos Fokianos, and
Korbinian Strimmer.
Title: Identification of Periodically Expressed Genes
Description: The GeneCycle package implements the approaches of Wichert et al.
(2004) and Ahdesmaki et al. (2005) for detecting periodically
expressed genes from gene expression time series data.
Diff between GeneCycle versions 1.0.3 dated 2008-02-06 and 1.0.4 dated 2008-06-03
CHANGES | 17 ++++++++++ DESCRIPTION | 8 ++--- R/fisher.g.test.R | 20 +++++++++--- R/robust.g.test.R | 13 +++++--- inst/doc/caulobacter.R | 7 +--- inst/doc/wichert-table2.R | 73 +++++++++++++++++++++++++--------------------- 6 files changed, 87 insertions(+), 51 deletions(-)
Author: Daniel Adler
Diff between rgl versions 0.78.671 dated 2008-05-13 and 0.79 dated 2008-06-03
Title: 3D visualization device system (OpenGL)
Description: 3D visualization device (OpenGL)
DESCRIPTION | 6 +++---
R/animate.R | 7 ++++---
R/device.R | 6 +++---
R/matrices.R | 2 ++
README | 5 +----
demo/00Index | 1 +
demo/mouseCallbacks.R |only
inst/NEWS | 8 +++++++-
man/par3dinterp.Rd | 12 +++++++-----
man/rgl-package.Rd | 3 ++-
src/DeviceManager.hpp | 4 ++--
src/api.cpp | 5 +++--
src/device.cpp | 8 ++++++--
src/devicemanager.cpp | 12 +++++++-----
14 files changed, 48 insertions(+), 31 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Rmetrics - Chronological and Calendarical Objects
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fCalendar versions 270.74 dated 2008-05-13 and 270.75 dated 2008-06-03
fCalendar-270.74/fCalendar/inst/unitTests/runi.Coercion.R |only fCalendar-270.75/fCalendar/DESCRIPTION | 6 fCalendar-270.75/fCalendar/R/DaylightSavingTime.R | 9069 +++++----- fCalendar-270.75/fCalendar/R/genDaylightSavingTime.R | 5 fCalendar-270.75/fCalendar/R/listFinCenter.R | 12 fCalendar-270.75/fCalendar/inst/unitTests/runit.Coercion.R |only fCalendar-270.75/fCalendar/inst/unitTests/runit.DaylightSavingTime.R | 32 7 files changed, 4685 insertions(+), 4439 deletions(-)
Author: Karsten Tabelow
Diff between adimpro versions 0.6.3 dated 2008-05-21 and 0.6.3.1 dated 2008-06-03
Title: Adaptive Smoothing of Digital Images
Description: This package implements tools for manipulationg digital images and the Propagation Separation approach
by Polzehl and Spokoiny (2006) for smoothing digital images.
DESCRIPTION | 6 +++---
R/io.R | 2 +-
README | 9 +++++++++
demo/io.r | 5 ++++-
4 files changed, 17 insertions(+), 5 deletions(-)
Author: Andrea Spano'
Title: Variables and Attributes Control Charts
Description: qAnalyst performs: control charts for variables and attributes according to Douglas C. Montgomery Introduction to Statistical Quality Control book, Capability analysis for normal and non - normal distributions and Distributions Identification
Diff between qAnalyst versions 0.5.2 dated 2008-05-07 and 0.5.3 dated 2008-06-03
DESCRIPTION | 8 ++++---- R/getParameterFun.R | 2 +- R/spc.R | 7 +++---- README | 3 +++ 4 files changed, 11 insertions(+), 9 deletions(-)
Author: Bill Venables
Title: Polynomials in R
Description: Implements univariate polynomial operations in R
Diff between PolynomF versions 0.92 dated 2008-06-01 and 0.93 dated 2008-06-03
DESCRIPTION | 4 ++-- man/integral.Rd | 2 +- man/plot.polynom.Rd | 2 +- man/poly.calc.Rd | 2 +- man/solve.polynom.Rd | 2 +- man/summary.polynom.Rd | 2 +- src/poly_mult.c | 2 +- 7 files changed, 8 insertions(+), 8 deletions(-)
Author: Original S functions by Stuart Coles, R port and R
documentation files by Alec Stephenson.
Title: An Introduction to Statistical Modeling of Extreme Values
Description: Functions to support the computations carried out in
`An Introduction to Statistical Modeling of Extreme Values' by
Stuart Coles. The functions may be divided into the following
groups; maxima/minima, order statistics, peaks over thresholds
and point processes.
Diff between ismev versions 1.2 dated 2006-03-09 and 1.3 dated 2008-06-02
DESCRIPTION | 8 ++++---- 1 file changed, 4 insertions(+), 4 deletions(-)
Author: Kenneth Knoblauch
Title: Functions for analyzing psychophysical data in R
Description: An assortment of functions that could be useful in analyzing data from pyschophysical experiments. It includes functions for calculating d' from several different experimental designs, links for mafc to be used with the binomial family in glm (and possibly other contexts) and self-Start functions for estimating gamma values for CRT screen calibrations.
Diff between psyphy versions 0.0-5 dated 2007-09-01 and 0.0-6 dated 2008-06-02
DESCRIPTION | 6 +++--- NAMESPACE | 2 +- R/mafc.R | 28 ++++++++++++++++++++++++++++ inst |only man/SS.RGBcalib.Rd | 2 +- man/mafc.Rd | 15 ++++++++++++++- man/probit.lambda.Rd | 2 +- 7 files changed, 48 insertions(+), 7 deletions(-)
Author: Lixin Gong, William Constantine, and Alex Chen
Title: Protein Mass Spectra Processing
Description: This package provides tools for protein mass spectra processing
including data preparation, denoising, noise estimation, baseline correction,
intensity normalization, peak detection, peak alignment, peak quantification,
and various functionalities for data ingestion/conversion, mass calibration,
data quality assessment, and protein mass spectra simulation.
It also provides auxiliary tools for data representation, data visualization,
and pipeline processing history recording and retrieval.
Diff between msProcess versions 1.0.2 dated 2008-05-02 and 1.0.3 dated 2008-06-02
msProcess-1.0.2/msProcess/inst |only msProcess-1.0.2/msProcess/swingui/R/loadMSGUIAll.q |only msProcess-1.0.2/msProcess/swingui/R/resetMSGUI.q |only msProcess-1.0.2/msProcess/swingui/guicreate/addMSGUI.q |only msProcess-1.0.3/msProcess/DESCRIPTION | 41 +- msProcess-1.0.3/msProcess/R/ms_base.q | 7 msProcess-1.0.3/msProcess/R/ms_gui.q | 61 +++ msProcess-1.0.3/msProcess/R/ms_noise.q | 16 - msProcess-1.0.3/msProcess/R/ms_norm.q | 4 msProcess-1.0.3/msProcess/R/ms_peak.q | 10 msProcess-1.0.3/msProcess/R/ms_qa.q | 6 msProcess-1.0.3/msProcess/R/ms_set.q | 28 - msProcess-1.0.3/msProcess/R/ms_smooth.q | 1 msProcess-1.0.3/msProcess/R/ms_util.q | 61 +++ msProcess-1.0.3/msProcess/demo/00Index | 12 msProcess-1.0.3/msProcess/demo/abc_spectra_processing.R | 13 msProcess-1.0.3/msProcess/demo/coombes_clinchem_2003.R | 6 msProcess-1.0.3/msProcess/demo/coombes_proteomics_2005.R | 11 msProcess-1.0.3/msProcess/demo/morris_bioinformatics_2005.R | 1 msProcess-1.0.3/msProcess/demo/randolph_biometrics_2006.R | 3 msProcess-1.0.3/msProcess/demo/yasui_biostatistics_2003.R | 4 msProcess-1.0.3/msProcess/man/dbcypherGenXML2Bin.Rd | 3 msProcess-1.0.3/msProcess/man/dbimportBin2Sqlite.Rd | 2 msProcess-1.0.3/msProcess/man/dbwriteBinDim.Rd | 2 msProcess-1.0.3/msProcess/man/msDenoise.Rd | 26 - msProcess-1.0.3/msProcess/man/msDetrend.Rd | 32 +- msProcess-1.0.3/msProcess/man/msLogic.Rd |only msProcess-1.0.3/msProcess/man/msNoise.Rd | 26 - msProcess-1.0.3/msProcess/man/msNormalize.Rd | 10 msProcess-1.0.3/msProcess/man/msPeak.Rd | 16 - msProcess-1.0.3/msProcess/man/msPeakCWT.Rd | 8 msProcess-1.0.3/msProcess/man/msProcess-package.Rd | 86 ++--- msProcess-1.0.3/msProcess/man/msSmoothApprox.Rd | 4 msProcess-1.0.3/msProcess/man/princomp2.Rd |only msProcess-1.0.3/msProcess/swingui/R/backMSAlign.q |only msProcess-1.0.3/msProcess/swingui/R/backMSDenoise.q | 61 +-- msProcess-1.0.3/msProcess/swingui/R/backMSDetrend.q | 160 ++++++++-- msProcess-1.0.3/msProcess/swingui/R/backMSNoise.q | 116 +++++++ msProcess-1.0.3/msProcess/swingui/R/backMSNormalize.q |only msProcess-1.0.3/msProcess/swingui/R/backMSPeak.q |only msProcess-1.0.3/msProcess/swingui/R/getMethodProps.q |only msProcess-1.0.3/msProcess/swingui/R/guiUtils.q |only msProcess-1.0.3/msProcess/swingui/R/loadMSMenu.q |only msProcess-1.0.3/msProcess/swingui/R/loadMSProps.q |only msProcess-1.0.3/msProcess/swingui/R/menuMSAlign.q |only msProcess-1.0.3/msProcess/swingui/R/menuMSDenoise.q | 87 +++-- msProcess-1.0.3/msProcess/swingui/R/menuMSDetrend.q | 149 ++++++++- msProcess-1.0.3/msProcess/swingui/R/menuMSNoise.q | 121 ++++++- msProcess-1.0.3/msProcess/swingui/R/menuMSNormalize.q |only msProcess-1.0.3/msProcess/swingui/R/menuMSPeak.q |only msProcess-1.0.3/msProcess/swingui/R/reloadMSGUI.q |only msProcess-1.0.3/msProcess/swingui/guicreate/MSDialogProps.ssc |only 52 files changed, 897 insertions(+), 297 deletions(-)
Author: Heather Turner and David Firth
Title: Generalized Nonlinear Models
Description: Functions to specify and fit generalized nonlinear models, including models with multiplicative interaction terms such as the UNIDIFF model from sociology and the AMMI model from crop science, and many others. Over-parameterized representations of models are used throughout; functions are provided for inference on estimable parameter combinations, as well as standard methods for diagnostics etc.
Diff between gnm versions 0.9-4 dated 2008-05-07 and 0.9-5 dated 2008-06-02
gnm-0.9-4/gnm/.directory |only gnm-0.9-4/gnm/inst/.directory |only gnm-0.9-4/gnm/inst/doc/.directory |only gnm-0.9-4/gnm/man/Nonlin.Rd |only gnm-0.9-5/gnm/DESCRIPTION | 6 gnm-0.9-5/gnm/NAMESPACE | 2 gnm-0.9-5/gnm/R/Const.R | 5 gnm-0.9-5/gnm/R/Nonlin.R | 40 gnm-0.9-5/gnm/R/checkEstimable.R | 2 gnm-0.9-5/gnm/R/getContrasts.R | 161 gnm-0.9-5/gnm/R/gnmTerms.R | 36 gnm-0.9-5/gnm/R/gnmTools.R | 48 gnm-0.9-5/gnm/R/nonlinTerms.R | 18 gnm-0.9-5/gnm/R/plot.gnm.R | 204 - gnm-0.9-5/gnm/data/barley.csv |only gnm-0.9-5/gnm/data/barleyHeights.R |only gnm-0.9-5/gnm/inst/NEWS | 29 gnm-0.9-5/gnm/inst/doc/gnmOverview.pdf | 6512 ++++++++++++++++----------------- gnm-0.9-5/gnm/man/Const.Rd | 14 gnm-0.9-5/gnm/man/barleyHeights.Rd |only gnm-0.9-5/gnm/man/checkEstimable.Rd | 2 gnm-0.9-5/gnm/man/getContrasts.Rd | 105 gnm-0.9-5/gnm/man/gnm-defunct.Rd |only gnm-0.9-5/gnm/man/gnm.Rd | 36 gnm-0.9-5/gnm/man/mentalHealth.Rd | 13 gnm-0.9-5/gnm/man/pickCoef.Rd | 2 gnm-0.9-5/gnm/man/plot.gnm.Rd | 4 gnm-0.9-5/gnm/tests/RC.R | 5 gnm-0.9-5/gnm/tests/RC.Rout.save | 15 29 files changed, 3687 insertions(+), 3572 deletions(-)
Author: Chris Fraley, Adrian E. Raftery, J. McLean Sloughter,
Tilmann Gneiting, Michael Polakowski, University of Washington
Title: Probabilistic Forecasting using Ensembles and Bayesian Model Averaging
Description: Bayesian Model Averaging to create probabilistic
forecasts from ensemble forecasts and weather observations.
Diff between ensembleBMA versions 3.0-0 dated 2008-05-19 and 3.0-1 dated 2008-06-02
ensembleBMA-3.0-0/ensembleBMA/R/cdf.ensembleBMAgamma.R |only ensembleBMA-3.0-1/ensembleBMA/DESCRIPTION | 4 +- ensembleBMA-3.0-1/ensembleBMA/R/cdf.ensembleBMAgamma0.R | 2 - ensembleBMA-3.0-1/ensembleBMA/R/cdf.fitBMAgamma0.R | 2 - ensembleBMA-3.0-1/ensembleBMA/R/dateCheck.R | 28 ++++++++++------ ensembleBMA-3.0-1/ensembleBMA/R/ensembleData.R | 2 - ensembleBMA-3.0-1/ensembleBMA/R/fitBMAgamma0.R | 6 +-- ensembleBMA-3.0-1/ensembleBMA/R/julTOymdh.R | 17 ++++++--- ensembleBMA-3.0-1/ensembleBMA/R/mae.ensembleBMAgamma0.R | 4 +- ensembleBMA-3.0-1/ensembleBMA/R/mae.fitBMAgamma0.R | 8 ++-- ensembleBMA-3.0-1/ensembleBMA/R/ymdhTOjul.R | 19 +++++----- ensembleBMA-3.0-1/ensembleBMA/man/brierScore.Rd | 4 +- ensembleBMA-3.0-1/ensembleBMA/man/cdf.Rd | 4 +- ensembleBMA-3.0-1/ensembleBMA/man/controlBMAgamma0.Rd | 4 +- ensembleBMA-3.0-1/ensembleBMA/man/controlBMAnormal.Rd | 4 +- ensembleBMA-3.0-1/ensembleBMA/man/crps.Rd | 4 +- ensembleBMA-3.0-1/ensembleBMA/man/ensembleBMA.Rd | 4 +- ensembleBMA-3.0-1/ensembleBMA/man/ensembleBMAgamma0.Rd | 4 +- ensembleBMA-3.0-1/ensembleBMA/man/ensembleBMAnormal.Rd | 4 +- ensembleBMA-3.0-1/ensembleBMA/man/ensembleData.Rd | 4 +- ensembleBMA-3.0-1/ensembleBMA/man/fitBMA.Rd | 4 +- ensembleBMA-3.0-1/ensembleBMA/man/fitBMAgamma0.Rd | 4 +- ensembleBMA-3.0-1/ensembleBMA/man/fitBMAnormal.Rd | 4 +- ensembleBMA-3.0-1/ensembleBMA/man/julTOymdh.Rd | 4 +- ensembleBMA-3.0-1/ensembleBMA/man/mae.Rd | 4 +- ensembleBMA-3.0-1/ensembleBMA/man/plotProbcast.Rd | 4 +- ensembleBMA-3.0-1/ensembleBMA/man/prcpDJdata.Rd | 4 +- ensembleBMA-3.0-1/ensembleBMA/man/prcpFit.Rd | 4 +- ensembleBMA-3.0-1/ensembleBMA/man/prcpGrid.Rd | 4 +- ensembleBMA-3.0-1/ensembleBMA/man/quantileForecast.Rd | 4 +- ensembleBMA-3.0-1/ensembleBMA/man/srft.Rd | 4 +- ensembleBMA-3.0-1/ensembleBMA/man/srftGrid.Rd | 4 +- ensembleBMA-3.0-1/ensembleBMA/man/trainingData.Rd | 4 +- ensembleBMA-3.0-1/ensembleBMA/man/ymdhTOjul.Rd | 4 +- 34 files changed, 99 insertions(+), 85 deletions(-)
Author: Andy Bunn
Title: Dendrochronology Program Library in R
Description: This package contains functions for performing some standard tree-ring analyses.
Diff between dplR versions 1.1.1 dated 2008-05-25 and 1.1.2 dated 2008-06-02
DESCRIPTION | 4 NAMESPACE | 4 R/skel.plot.R | 254 ++++++++++++++++++++++++++++++++++++------------------- man/skel.plot.Rd | 81 +++++++++++++---- 4 files changed, 233 insertions(+), 110 deletions(-)
Author: Thibaut Jombart
Diff between adegenet versions 1.1-1 dated 2008-04-18 and 1.1-2 dated 2008-06-02
Title: adegenet: a R package for the multivariate analysis of genetic markers.
Description: Classes and functions for genetic data analysis within the multivariate framework.
ChangeLog |only
DEADJOE |only
DESCRIPTION | 8 ++++----
R/auxil.R | 2 +-
R/classes.R | 42 ++++++++++++++++++++++++++++++++++--------
R/export.R | 38 ++++++++++++++++++++++++++++----------
R/hybridize.R | 8 ++++----
R/import.R | 3 +++
R/propShared.R |only
R/spca.R | 38 ++++++++++++++++++++++++++------------
TODO | 17 ++++++-----------
man/adegenet.package.Rd | 4 ++--
man/chooseCN.Rd | 1 -
man/df2genind.Rd | 6 ++++--
man/propShared.Rd |only
man/spca.Rd | 11 +++++++++--
man/spcaIllus.Rd | 3 ---
src/sharedAll.c |only
18 files changed, 121 insertions(+), 60 deletions(-)
Author: Brian J. Smith
Diff between ramps versions 0.6-3 dated 2008-05-19 and 0.6-4 dated 2008-06-01
Title: Bayesian Geostatistical Modeling with RAMPS
Description: Bayesian geostatistical modeling of Gaussian processes using a reparameterized and marginalized posterior sampling (RAMPS) algorithm designed to lower autocorrelation in MCMC samples. Package performance is tuned for large spatial datasets.
DESCRIPTION | 6 +++---
R/graphics.R | 2 +-
R/mpdensity.R | 7 ++++---
R/predict.R | 30 ++++++++++++++++--------------
R/utils.R | 4 ++--
man/georamps.Rd | 4 ++--
man/plot.Rd | 4 ++--
man/predict.ramps.Rd | 4 ++--
8 files changed, 32 insertions(+), 29 deletions(-)
Author: Stephen Milborrow
Title: Just-in-time compiler for the R language
Description:
Enable just-in-time (JIT) compilation.
The functions in this package are useful only under Ra and have no effect under R.
See \url{http://www.milbo.users.sonic.net/ra/index.html}.
This version of the jit package is for Ra 1.1.0 and higher.
Diff between jit versions 0.0-6 dated 2008-04-24 and 0.0-7 dated 2008-06-01
DESCRIPTION | 8 ++++---- NEWS | 3 +++ man/jit.Rd | 24 ++++++++++++++++++------ 3 files changed, 25 insertions(+), 10 deletions(-)
Author: Göran Broström
Title: Generalized linear models with clustering
Description: A Maximum Likelihood and bootstrap approach to mixed models
Diff between glmmML versions 0.81-1 dated 2008-05-26 and 0.81-2 dated 2008-06-01
DESCRIPTION | 6 +++--- man/glmmML.Rd | 14 +++++++------- man/glmmML.fit.Rd | 7 +++++-- 3 files changed, 15 insertions(+), 12 deletions(-)
Author: Giovanni Petris
Diff between dlm versions 0.8-1 dated 2007-11-20 and 0.9-1 dated 2008-06-01
Title: Bayesian and Likelihood Analysis of Dynamic Linear Models
Description: Maximum likelihood, Kalman filtering and smoothing, and Bayesian
analysis of Normal linear State Space models, also known as
Dynamic Linear Models
dlm-0.8-1/dlm/README |only
dlm-0.9-1/dlm/DESCRIPTION | 8 -
dlm-0.9-1/dlm/NAMESPACE | 28 ++++-
dlm-0.9-1/dlm/R/DLM.R | 210 ++++++++++++++++++++++++++++++++--------
dlm-0.9-1/dlm/inst/doc/dlm.Rnw | 2
dlm-0.9-1/dlm/inst/doc/dlm.pdf |binary
dlm-0.9-1/dlm/man/FF.Rd | 81 ++++++++++++---
dlm-0.9-1/dlm/man/NelPlo.Rd | 1
dlm-0.9-1/dlm/man/USecon.Rd | 1
dlm-0.9-1/dlm/man/bdiag.Rd | 2
dlm-0.9-1/dlm/man/dlmBSample.Rd | 1
dlm-0.9-1/dlm/man/dlmMLE.Rd | 1
dlm-0.9-1/dlm/man/dlmRandom.Rd | 2
dlm-0.9-1/dlm/man/rwishart.Rd | 2
14 files changed, 264 insertions(+), 75 deletions(-)
Author: David Firth
Title: Bias-reduced logistic regression
Description: Logistic regression models by maximum penalized likelihood. Now superseded by the brglm package.
Diff between brlr versions 0.8-9 dated 2007-10-09 and 0.9-1 dated 2008-06-01
DESCRIPTION | 9 +++++---- R/brlr.R | 2 ++ man/brlr.Rd | 17 +++++++++++++++-- 3 files changed, 22 insertions(+), 6 deletions(-)
Author: Chandra Erdman and John W. emerson
Title: A Package for Performing a Bayesian Analysis of Change Point Problems
Description: An implementation of the Barry and Hartigan (1993) product partition model for the standard change point problem using Markov Chain Monte Carlo.
Diff between bcp versions 1.8.5 dated 2008-05-16 and 2.0 dated 2008-06-01
DESCRIPTION | 6 R/bcp.R | 66 ++-- R/output.R | 15 - man/RealInt.Rd | 2 man/bcp.Rd | 7 man/fitted.bcp.Rd | 5 man/plot.bcp.Rd | 5 man/print.bcp.Rd | 5 man/residuals.bcp.Rd | 5 man/summary.bcp.Rd | 5 src/Cbcp.cpp | 749 ++++++++++++++++++++++++++++++++------------------- 11 files changed, 532 insertions(+), 338 deletions(-)
Author: Bill Venables
Title: Polynomials in R
Description: Implements univariate polynomial operations in R
Diff between PolynomF versions 0.9 dated 2008-05-13 and 0.92 dated 2008-06-01
DESCRIPTION | 6 ++-- NAMESPACE | 5 ++++ R/PolynomF.R | 65 ++++++++++++++++++++++++++++++++++++---------------- man/Math.polynom.Rd | 6 +++- man/plot.polynom.Rd | 7 ++++- src |only 6 files changed, 64 insertions(+), 25 deletions(-)
Author: Jonathan Harrington and others, IPS LMU Muenchen & IPDS CAU Kiel
Title: Interface to the Emu Speech Database System
Description: Provides an interface to the Emu speech database system and
many special purpose functions for display and analysis of speech
data.
Diff between emu versions 3.1 dated 2008-05-13 and 3.2 dated 2008-05-30
DESCRIPTION | 4 ++-- R/AAoptions.S | 2 +- R/emu.track.S | 6 ++++-- 3 files changed, 7 insertions(+), 5 deletions(-)
Author: Toni Giorgino
Diff between dtw versions 1.5-3 dated 2008-02-22 and 1.6-2 dated 2008-05-30
Title: Dynamic Time Warping algorithms
Description: Comprehensive implementation of Dynamic Time Warping
algorithms in R. DTW finds the optimal (least cumulative distance)
mapping between two time series. This package implements all common
DTW variants, including local and global constraints, arbitrary
timeseries lenghts, distance definitions, etc. Methods provides
cumulative distance, warping functions, plots, etc.
DESCRIPTION | 6 ++---
R/backtrack.R | 10 ++++----
R/dtw.R | 30 +++++++++++++++----------
R/plot.dtw.R | 62 +++++++++++++++++++++++++++++++++++------------------
inst/ChangeLog | 6 ++++-
man/dtw.Rd | 29 ++++++++++++++++++++----
man/stepPattern.Rd | 28 +++++++++++------------
7 files changed, 110 insertions(+), 61 deletions(-)
Author: Jon T. Schnute
Diff between PBSmodelling versions 1.61 dated 2007-10-10 and 1.63 dated 2008-05-30
Title: PBS Modelling
Description: PBS Modelling provides software to facilitate the design,
testing, and operation of computer models. It focuses particularly on
tools that make it easy to construct and edit a customized graphical
user interface (GUI). Although it depends heavily on the R interface
to the Tcl/Tk package, a user does not need to know Tcl/Tk. The
package contains examples that illustrate models built with other R
packages, including PBS Mapping, odesolve, ddesolvem, and BRugs.
It also serves as a convenient prototype for building new R packages,
along with instructions and batch files to facilitate that process.
The R directory '../library/PBSmodelling/doc' includes a complete user
guide PBSmodelling-UG.pdf. To use this package effectively,
please consult the guide.
PBSmodelling-1.61/PBSmodelling/ChangeLog.txt |only
PBSmodelling-1.61/PBSmodelling/inst/PBSmodelling-UG.pdf |only
PBSmodelling-1.61/PBSmodelling/inst/developers |only
PBSmodelling-1.63/PBSmodelling/DESCRIPTION | 16 -
PBSmodelling-1.63/PBSmodelling/R/supportFuns.r | 139 ++++++++-----
PBSmodelling-1.63/PBSmodelling/R/zzz.r | 10
PBSmodelling-1.63/PBSmodelling/inst/PBStools/00ReadMe.txt | 4
PBSmodelling-1.63/PBSmodelling/inst/PBStools/RmakePDF.bat | 2
PBSmodelling-1.63/PBSmodelling/inst/PBStools/RmakePDF2.bat | 2
PBSmodelling-1.63/PBSmodelling/inst/doc |only
PBSmodelling-1.63/PBSmodelling/man/PBSmodelling.Rd | 4
PBSmodelling-1.63/PBSmodelling/man/createWin.Rd | 4
PBSmodelling-1.63/PBSmodelling/man/openFile.Rd | 35 +--
PBSmodelling-1.63/PBSmodelling/man/showHelp.Rd |only
PBSmodelling-1.63/PBSmodelling/man/testWidgets.Rd | 3
PBSmodelling-1.63/PBSmodelling/man/view.Rd | 18 +
PBSmodelling-1.63/PBSmodelling/man/writeList.Rd | 4
17 files changed, 145 insertions(+), 96 deletions(-)
Author: James Honaker
Diff between Amelia versions 1.1-23 dated 2007-03-25 and 1.1-29 dated 2008-05-30
Title: Amelia II: A Program for Missing Data
Description: Amelia II "multiply imputes" missing data in a single cross-section
(such as a survey), from a time series (like variables collected for
each year in a country), or from a time-series-cross-sectional data
set (such as collected by years for each of several countries).
Amelia II implements our bootstrapping-based algorithm that gives
essentially the same answers as the standard IP or EMis approaches,
is usually considerably faster than existing approaches and can
handle many more variables. Unlike Amelia I and other statistically
rigorous imputation software, it virtually never crashes (but please
let us know if you find to the contrary!). The program also
generalizes existing approaches by allowing for trends in time series
across observations within a cross-sectional unit, as well as priors
that allow experts to incorporate beliefs they have about the values
of missing cells in their data. Amelia II also includes useful
diagnostics of the fit of multiple imputation models. The program
works from the R command line or via a graphical user interface that
does not require users to know R.
Amelia-1.1-23/Amelia/inst/tklibs/tkTable |only
Amelia-1.1-23/Amelia/windows |only
Amelia-1.1-29/Amelia/DESCRIPTION | 9
Amelia-1.1-29/Amelia/R/amcheck.r | 70
Amelia-1.1-29/Amelia/R/ameliagui.r | 5
Amelia-1.1-29/Amelia/R/diag.r | 189 +
Amelia-1.1-29/Amelia/R/emb.r | 198 +
Amelia-1.1-29/Amelia/R/prep.r | 181 +
Amelia-1.1-29/Amelia/inst/doc/amelia.aux | 9
Amelia-1.1-29/Amelia/inst/doc/amelia.bbl | 6
Amelia-1.1-29/Amelia/inst/doc/amelia.blg | 62
Amelia-1.1-29/Amelia/inst/doc/amelia.log | 108
Amelia-1.1-29/Amelia/inst/doc/amelia.pdf | 3239 ++++++++++++++---------------
Amelia-1.1-29/Amelia/inst/doc/index.shtml | 2
Amelia-1.1-29/Amelia/man/am-internal.Rd | 4
Amelia-1.1-29/Amelia/man/amelia.Rd | 22
Amelia-1.1-29/Amelia/man/combine.output.Rd |only
17 files changed, 2257 insertions(+), 1847 deletions(-)
Author: Andrew O. Finley
Diff between spBayes versions 0.0-8 dated 2008-05-26 and 0.0-9 dated 2008-05-29
Title: Univariate and Multivariate Spatial Modeling
Description: spBayes fits Gaussian univariate and multivariate models with Markov chain Monte Carlo (MCMC).
DESCRIPTION | 8 ++---
inst/doc/spBayes-vignette.log | 2 -
inst/doc/spBayes-vignette.pdf |binary
man/sp.DIC.Rd | 60 ++++++++++++++++++++++++++++++++++++++++++
man/sp.lm.Rd | 3 +-
src/splm.cpp | 3 --
6 files changed, 67 insertions(+), 9 deletions(-)
Author: Bernard Boulerice
Diff between moc versions 1.0.1 dated 2005-10-14 and 1.0.5 dated 2008-05-29
Title: GENERAL NONLINEAR MIXTURES OF CURVES
Description: Fits a variety of mixtures models for multivariate observations
with user-defined distributions and profiles.
moc-1.0.1/moc/inst/Examples/betablock.out |only
moc-1.0.5/moc/DESCRIPTION | 6
moc-1.0.5/moc/R/moc.R | 336 ++++++++++---------
moc-1.0.5/moc/data/moc.dat.RData |binary
moc-1.0.5/moc/inst/Changes | 46 ++
moc-1.0.5/moc/inst/Examples/README | 4
moc-1.0.5/moc/inst/Examples/acidity_enzyme.R | 170 +++++----
moc-1.0.5/moc/inst/Examples/betablock.R | 79 ++--
moc-1.0.5/moc/inst/Examples/breast_cancer.R | 141 ++++---
moc-1.0.5/moc/inst/Examples/epilepsy.R | 131 ++++---
moc-1.0.5/moc/inst/Examples/fabric.R | 20 -
moc-1.0.5/moc/inst/Examples/heart_valve_transplant.R | 76 ++--
moc-1.0.5/moc/inst/Examples/lca_model.R | 59 +--
moc-1.0.5/moc/inst/Examples/prostate.R | 111 +++---
moc-1.0.5/moc/inst/Examples/sids_smr.R | 62 +--
moc-1.0.5/moc/inst/Examples/wine_mvnorm_fac.R | 82 ++--
moc-1.0.5/moc/inst/GUI/moc-gui.R | 7
moc-1.0.5/moc/inst/GUI/moc-gui.Readme | 11
moc-1.0.5/moc/inst/Sweave/moc.Rnw | 76 ++--
moc-1.0.5/moc/inst/Sweave/moc_sweave.R | 14
moc-1.0.5/moc/inst/Utils/combine.moc.R | 4
moc-1.0.5/moc/inst/Utils/rasch.R | 8
moc-1.0.5/moc/man/AIC.moc.Rd | 10
moc-1.0.5/moc/man/confint.moc.Rd | 20 -
moc-1.0.5/moc/man/moc.Rd | 18 -
moc-1.0.5/moc/man/print.moc.Rd | 4
moc-1.0.5/moc/man/residuals.moc.Rd | 11
27 files changed, 875 insertions(+), 631 deletions(-)
Author: Trevor Hastie
Title: Generalized Additive Models
Description: Functions for fitting and working with generalized
additive models, as described in chapter 7 of "Statistical Models in
S" (Chambers and Hastie (eds), 1991), and "Generalized Additive
Models" (Hastie and Tibshirani, 1990).
Diff between gam versions 0.98 dated 2006-12-27 and 1.0 dated 2008-05-29
gam-0.98/gam/R/gamfuncs.R |only gam-0.98/gam/unable.NAMESPACE |only gam-1.0/gam/DESCRIPTION | 11 +++++------ gam-1.0/gam/NAMESPACE |only gam-1.0/gam/R/all.wam.R |only gam-1.0/gam/R/anova.gam.R |only gam-1.0/gam/R/anova.gamlist.R |only gam-1.0/gam/R/as.anova.R |only gam-1.0/gam/R/as.data.frame.lo.smooth.R |only gam-1.0/gam/R/assign.list.R |only gam-1.0/gam/R/deviance.default.R |only gam-1.0/gam/R/deviance.glm.R |only gam-1.0/gam/R/deviance.lm.R |only gam-1.0/gam/R/gam.R |only gam-1.0/gam/R/gam.control.R |only gam-1.0/gam/R/gam.exact.R |only gam-1.0/gam/R/gam.fit.R |only gam-1.0/gam/R/gam.lo.R |only gam-1.0/gam/R/gam.match.R |only gam-1.0/gam/R/gam.nlchisq.R |only gam-1.0/gam/R/gam.random.R |only gam-1.0/gam/R/gam.s.R |only gam-1.0/gam/R/gam.scope.R |only gam-1.0/gam/R/gam.slist.R |only gam-1.0/gam/R/gam.sp.R |only gam-1.0/gam/R/gam.wlist.R |only gam-1.0/gam/R/gamlist.R |only gam-1.0/gam/R/gplot.R |only gam-1.0/gam/R/gplot.default.R |only gam-1.0/gam/R/gplot.factor.R |only gam-1.0/gam/R/gplot.list.R |only gam-1.0/gam/R/gplot.matrix.R |only gam-1.0/gam/R/gplot.numeric.R |only gam-1.0/gam/R/labels.gam.R |only gam-1.0/gam/R/lo.R |only gam-1.0/gam/R/lo.wam.R |only gam-1.0/gam/R/na.gam.replace.R |only gam-1.0/gam/R/newdata.predict.gam.R |only gam-1.0/gam/R/plot.gam.R |only gam-1.0/gam/R/plot.preplot.gam.R |only gam-1.0/gam/R/polylo.R |only gam-1.0/gam/R/predict.gam.R |only gam-1.0/gam/R/preplot.gam.R |only gam-1.0/gam/R/print.gam.R |only gam-1.0/gam/R/print.gamex.R |only gam-1.0/gam/R/print.summary.gam.R |only gam-1.0/gam/R/random.R |only gam-1.0/gam/R/s.R |only gam-1.0/gam/R/s.wam.R |only gam-1.0/gam/R/step.gam.R |only gam-1.0/gam/R/subset.smooth.R |only gam-1.0/gam/R/summary.gam.R |only gam-1.0/gam/R/ylim.scale.R |only gam-1.0/gam/man/kyphosis.Rd | 2 -- gam-1.0/gam/man/plot.gam.Rd | 4 ++-- gam-1.0/gam/man/step.gam.Rd | 8 +++----- gam-1.0/gam/old.DESCRIPTION |only gam-1.0/gam/src/Makevars | 3 ++- 58 files changed, 12 insertions(+), 16 deletions(-)
Author: R-core members, Saikat DebRoy
Diff between foreign versions 0.8-25 dated 2008-04-10 and 0.8-26 dated 2008-05-29
Title: Read Data Stored by Minitab, S, SAS, SPSS, Stata, Systat, dBase, ...
Description: Functions for reading and writing data stored by statistical
packages such as Minitab, S, SAS, SPSS, Stata, Systat, ...,
and for reading and writing .dbf (dBase) files.
ChangeLog | 21 +
DESCRIPTION | 6
R/read.dta.R | 193 ++++++-------
man/read.dta.Rd | 48 +--
man/read.spss.Rd | 7
man/write.dta.Rd | 30 +-
src/stataread.c | 725 ++++++++++++++++++++++++--------------------------
tests/stata.Rout.save | 49 ---
8 files changed, 532 insertions(+), 547 deletions(-)
Author: Thomas Hoffmann
Title: Gene by Environment Interaction Tests
Description: Does family-based gene by environment interaction tests, and joint gene, gene-environment interaction test.
Diff between fbati versions 0.5.1 dated 2008-05-27 and 0.5.2 dated 2008-05-29
DESCRIPTION | 4 ++-- R/ibat.R | 3 ++- R/ibatGUI.R | 11 +++++++++++ R/jbatGUI.R | 8 ++++++++ R/joint.R | 4 ++-- man/fbati.Rd | 4 ++-- man/fbatj.Rd | 4 ++-- 7 files changed, 29 insertions(+), 9 deletions(-)
Author: David Meyer and Kurt Hornik
Title: Sets and Generalized Sets
Description: Data structures and basic operations for ordinary sets,
and generalizations such as fuzzy sets, multisets, and
fuzzy multisets.
Diff between sets versions 0.1-2 dated 2008-04-23 and 0.1-3 dated 2008-05-28
DESCRIPTION | 6 +++--- R/converters.R | 2 +- R/element.R | 8 ++++---- R/gset.R | 4 ++-- R/labels.R | 31 ++++++++++++++++++++----------- R/set.R | 6 +++--- R/tuple.R | 4 ++-- inst/doc/set.pdf |binary man/labels.Rd | 9 ++++++--- 9 files changed, 41 insertions(+), 29 deletions(-)
Author: Achim Zeileis, Christian Kleiber
Title: Applied Econometrics with R
Description: Functions, data sets, examples and vignettes for the book
Christian Kleiber and Achim Zeileis (2008),
Applied Econometrics with R, Springer-Verlag, New York.
(Table of contents: 1. Introduction, 2. Basics, 3. Linear Regression,
4. Diagnostics and Alternative Methods of Regression,
5. Models of Microeconometrics, 6. Time Series,
7. Programming Your Own Analysis)
Diff between AER versions 0.2-2 dated 2008-05-05 and 0.9-0 dated 2008-05-28
DESCRIPTION | 10 +++++++--- 1 file changed, 7 insertions(+), 3 deletions(-)
Author: Dai Feng and Luke Tierney
Title: Miscellaneous 3D Plots
Description: A collection of miscellaneous 3d plots, including
isosurfaces.
Diff between misc3d versions 0.5-2 dated 2008-05-06 and 0.6-1 dated 2008-05-28
DESCRIPTION | 6 ++-- NAMESPACE | 2 + R/contour3d.R | 4 +- R/kde3d.R |only R/render.R | 29 ++++++++++++++------ R/triangles.R | 68 ++++++++++++++++++++++++++++++++++++++++++++---- man/contour3d.Rd | 10 +++---- man/drawScene.Rd | 18 ++++++------ man/image3d.Rd | 8 ++--- man/kde3d.Rd |only man/parametric3d.Rd | 23 ++++++++-------- man/pointsTetrahedra.Rd |only man/slices3d.Rd | 2 - man/surfaceTriangles.Rd | 7 ++-- man/triangles.Rd | 7 ++-- 15 files changed, 130 insertions(+), 54 deletions(-)
Author: David Meyer and Christian Buchta
Title: Distance and Similarity Measures
Description: Provides an extensible framework for the effcient calculation of auto- and cross-proximities, along with implementations of the most popular ones.
Diff between proxy versions 0.3 dated 2007-10-08 and 0.4 dated 2008-05-28
DESCRIPTION | 6 +++--- R/registry.R | 52 +++++++++++++++++++++++++++------------------------- R/similarities.R | 4 ++-- man/dist.Rd | 6 +++++- 4 files changed, 37 insertions(+), 31 deletions(-)
Author: Nicolas Turenne
Diff between svcR versions 1.3 dated 2007-06-20 and 1.4 dated 2008-05-27
Title: svcR package
Description: svcR implements a support vector machine technique for clustering
svcR-1.3/svcR/svcR.Rcheck |only
svcR-1.4/svcR/DESCRIPTION | 6
svcR-1.4/svcR/Makedeps |only
svcR-1.4/svcR/NAMESPACE | 1
svcR-1.4/svcR/R/svcR.R | 445 ++++++++---
svcR-1.4/svcR/data/iris_att.txt | 3
svcR-1.4/svcR/data/iris_mat.txt | 1501 +++++++++++++++++++---------------------
svcR-1.4/svcR/data/iris_var.txt | 3
svcR-1.4/svcR/man/svcR.Rd | 4
svcR-1.4/svcR/src |only
10 files changed, 1092 insertions(+), 871 deletions(-)
Author: Holger Froehlich
Diff between GOSim versions 1.1.3.1 dated 2008-03-12 and 1.1.3.2 dated 2008-05-27
Title: Computation of functional similarities between GO terms and gene products; GO enrichement analysis
Description: This package implements several functions useful for
computing similarities between GO terms and gene products based on their GO annotation
DESCRIPTION | 8
R/clusterEvaluation.R | 4
R/geneSimilarity.R | 8
data/ICsBPIMP_IGI_IDA_IEP_IPI.rda |binary
data/ICsBPall.rda |binary
data/ICsCCIMP_IGI_IDA_IEP_IPI.rda |binary
data/ICsCCall.rda |binary
data/ICsMFIMP_IGI_IDA_IEP_IPI.rda |binary
data/ICsMFall.rda |binary
inst/doc/GOSim.aux | 8
inst/doc/GOSim.log | 314 +--
inst/doc/GOSim.pdf | 3230 +++++++++++++++++++-------------------
inst/doc/GOSim.tex | 158 +
man/IC.Rd | 6
man/evaluateClustering.Rd | 2
man/getGeneFeaturesPrototypes.Rd | 2
man/getGeneSim.Rd | 2
man/getTermSim.Rd | 2
man/selectPrototypes.Rd | 2
man/setEvidenceLevel.Rd | 2
man/setOntology.Rd | 2
21 files changed, 1884 insertions(+), 1866 deletions(-)
Author: Ken Beath
Diff between randomLCA versions 0.1-3 dated 2008-04-04 and 0.1-4 dated 2008-05-27
Title: Random Effects Latent Class Analysis
Description: Fits random effects latent class models, as well as standard latent class models.
._DESCRIPTION |only
._NAMESPACE |only
DESCRIPTION | 6 +++---
R/._bestlca.R |only
R/._calc.cond.prob.R |only
R/._calc.cond2.prob.R |only
R/._calc.marg.prob.R |only
R/._fit.adapt.random.randomLCA.R |only
R/._fit.adapt.random2.randomLCA.R |only
R/._fit.adapt.random2byclass.randomLCA.R |only
R/._fit.adapt.randombyclass.randomLCA.R |only
R/._fit.fixed.randomLCA.R |only
R/._fit.random.randomLCA.R |only
R/._fit.randombyclass.randomLCA.R |only
R/._fitted.randomLCA.R |only
R/._plot.randomLCA.R |only
R/._randomLCA.R |only
R/._ranef.randomLCA.R |only
R/._summary.randomLCA.R |only
R/fit.adapt.randombyclass.randomLCA.R | 2 +-
R/fit.fixed.randomLCA.R | 3 +++
inst/._NEWS |only
inst/NEWS | 8 ++++++++
inst/doc/._randomLCA-example.Rnw |only
inst/doc/._randomLCA-example.tex |only
inst/doc/randomLCA-example.Rnw | 1 +
inst/doc/randomLCA-example.aux |only
inst/doc/randomLCA-example.log |only
inst/doc/randomLCA-example.pdf |binary
inst/doc/randomLCA-example.tex |only
man/._calc.cond.prob.Rd |only
man/._calc.cond2.prob.Rd |only
man/._calc.marg.prob.Rd |only
man/._dentistry.Rd |only
man/._fitted.Rd |only
man/._hivtests.Rd |only
man/._plot.Rd |only
man/._randomLCA.Rd |only
man/._ranef.Rd |only
man/._summary.Rd |only
man/._uterinecarcinoma.Rd |only
41 files changed, 16 insertions(+), 4 deletions(-)
Author: Gregory R. Warnes. Includes R source code and/or documentation
contributed by Ben Bolker and Thomas Lumley
Title: Various R programming tools
Description: Various R programming tools
Diff between gtools versions 2.4.0 dated 2007-08-09 and 2.5.0 dated 2008-05-27
gtools-2.4.0/gtools/R/assert.R |only gtools-2.4.0/gtools/man/assert.Rd |only gtools-2.5.0/gtools/ChangeLog | 866 --------------------------- gtools-2.5.0/gtools/DESCRIPTION | 7 gtools-2.5.0/gtools/NAMESPACE | 1 gtools-2.5.0/gtools/NEWS | 24 gtools-2.5.0/gtools/R/checkRVersion.R |only gtools-2.5.0/gtools/R/deprecated.R |only gtools-2.5.0/gtools/R/oddeven.R | 6 gtools-2.5.0/gtools/man/checkRVersion.Rd |only gtools-2.5.0/gtools/man/defmacro.Rd | 14 gtools-2.5.0/gtools/man/gtools-deprecated.Rd |only 12 files changed, 38 insertions(+), 880 deletions(-)
Author: Thomas Hoffmann
Title: Gene by Environment Interaction Tests
Description: Does family-based gene by environment interaction tests, and joint gene, gene-environment interaction test.
Diff between fbati versions 0.5 dated 2008-05-25 and 0.5.1 dated 2008-05-27
DESCRIPTION | 4 ++-- R/ibat.R | 14 ++++++++++---- R/ibatGUI.R | 4 ++-- R/jbatGUI.R | 11 +++++++++-- R/joint.R | 3 +++ 5 files changed, 26 insertions(+), 10 deletions(-)
Author: Christian T. Brownlees
Title: Dynamic Models
Description: Routines for estimation, simulation, regularization and prediction of univariate dynamic models including: ARMA, ARMA-GARCH, ACD, MEM.
Diff between dynamo versions 0.1.2 dated 2008-05-26 and 0.1.3 dated 2008-05-26
DESCRIPTION | 5 +++-- man/dynamo-package.Rd | 2 +- src/Makevars.win | 5 ++--- 3 files changed, 6 insertions(+), 6 deletions(-)
Author: Andrew O. Finley
Diff between spBayes versions 0.0-7 dated 2008-04-15 and 0.0-8 dated 2008-05-26
Title: Univariate and Multivariate Spatial Modeling
Description: spBayes fits Gaussian univariate and multivariate models with Markov chain Monte Carlo (MCMC).
DESCRIPTION | 6
R/BayesianRegression.R | 45 +++++-
R/dic.R | 161 +++++++++++++++++++++-
R/sp.predict.R | 4
R/splm.R | 6
inst/doc/spBayes-vignette.log | 4
inst/doc/spBayes-vignette.pdf |binary
man/bayes.lm.conjugate.Rd | 8 -
man/bayes.lm.ref.Rd | 10 -
man/sp.DIC.Rd | 23 ++-
man/sp.lm.Rd | 8 -
src/splm.cpp | 211 ++++++++++++++++-------------
src/splmDIC.cpp | 300 ++++++++++++++++++++++++++----------------
src/splmPredict.cpp | 32 +++-
14 files changed, 561 insertions(+), 257 deletions(-)
Author: Patrick Mair, Marcus Hudec
Title: Mixtures of proportional hazard models.
Description: This package fits multiple variable mixtures of various parametric proportional hazard models using the EM-Algorithm. Proportionality restrictions can be imposed on the latent groups and/or on the variables. Several survival distributions can be specified. Missing values are allowed. Independence is assumed over the single variables.
Diff between mixPHM versions 0.5.1 dated 2007-08-04 and 0.6.0 dated 2008-05-26
DESCRIPTION | 6 ++-- NAMESPACE | 2 + R/Eclass.R | 44 ++++++++++++++++++++---------- R/Emax.R | 14 +++++---- R/WilcoxH.R |only R/msBIC.R | 6 ++-- R/phmclust.R | 72 ++++++++++++++++++++++++++++++++++++++++---------- R/print.mws.R | 4 +- R/print.wilcoxh.R |only R/screeBIC.R | 2 - R/stableEM.R | 4 +- data/webshop.rda |binary man/WilcoxH.Rd |only man/mixPHM-package.Rd | 6 ++-- man/msBIC.Rd | 3 +- man/phmclust.Rd | 18 +++++++----- man/stableEM.Rd | 5 ++- man/webshop.Rd | 9 +----- 18 files changed, 131 insertions(+), 64 deletions(-)
Author: Göran Broström
Title: Generalized linear models with clustering
Description: A Maximum Likelihood and bootstrap approach to mixed models
Diff between glmmML versions 0.72-0 dated 2008-01-04 and 0.81-1 dated 2008-05-26
DESCRIPTION | 6 R/glmmML.R | 5 R/glmmML.fit.R | 2 man/glmmML.fit.Rd | 8 src/fun.c | 1086 +++++++++++------------------------------------------- src/ghq.f | 2 src/glmmml.c | 21 - src/glmmml.h | 1 8 files changed, 260 insertions(+), 871 deletions(-)
Author: Tom Price
Diff between titan versions 1.0-13 dated 2006-11-23 and 1.0-14 dated 2008-05-25
Title: Titration analysis for mass spectrometry data
Description: GUI to analyze mass spectrometric data on the relative
abundance of two substances from a titration series.
Changes |only
DESCRIPTION | 14
R/titan.R | 6980 ++++++++++++++++++++++++++++++------------------------------
3 files changed, 3498 insertions(+), 3496 deletions(-)
Author: Gene Hunt
Diff between paleoTS versions 0.2-1 dated 2007-10-11 and 0.3-1 dated 2008-05-25
Title: Modeling evolution in paleontological time-series
Description: This package facilitates analysis of paleontological sequences of trait values from an evolving lineage. Functions are provided to fit, using maximum likelihood, evolutionary models including unbiased random walks, directional evolution, stasis, and Ornstein-Uhlenbeck models. Newly added to this version (0.3-1) are functions to analyze punctuations and models in which evolutionary dynamics change over the course of a time-series of trait values.
paleoTS-0.2-1/paleoTS/Read-and-delete-me |only
paleoTS-0.3-1/paleoTS/DESCRIPTION | 10 ++---
paleoTS-0.3-1/paleoTS/R/add.OU.curves.R |only
paleoTS-0.3-1/paleoTS/R/cat.paleoTS.R |only
paleoTS-0.3-1/paleoTS/R/fit.sgs.R |only
paleoTS-0.3-1/paleoTS/R/fit3models.joint.R |only
paleoTS-0.3-1/paleoTS/R/fitGpunc.R |only
paleoTS-0.3-1/paleoTS/R/logL.GRW.R | 3 +
paleoTS-0.3-1/paleoTS/R/logL.Stasis.R | 5 +-
paleoTS-0.3-1/paleoTS/R/logL.URW.R | 3 +
paleoTS-0.3-1/paleoTS/R/logL.joint.GRW.R |only
paleoTS-0.3-1/paleoTS/R/logL.joint.OU.R |only
paleoTS-0.3-1/paleoTS/R/logL.joint.Stasis.R |only
paleoTS-0.3-1/paleoTS/R/logL.joint.URW.R |only
paleoTS-0.3-1/paleoTS/R/logL.punc.R |only
paleoTS-0.3-1/paleoTS/R/logL.punc.omega.R |only
paleoTS-0.3-1/paleoTS/R/logL.sgs.R |only
paleoTS-0.3-1/paleoTS/R/logL.sgs.omega.R |only
paleoTS-0.3-1/paleoTS/R/opt.GRW.R | 2 -
paleoTS-0.3-1/paleoTS/R/opt.GRW.shift.R |only
paleoTS-0.3-1/paleoTS/R/opt.RW.Mult.R | 2 -
paleoTS-0.3-1/paleoTS/R/opt.RW.SameMs.R | 2 -
paleoTS-0.3-1/paleoTS/R/opt.RW.SameVs.R | 2 -
paleoTS-0.3-1/paleoTS/R/opt.Stasis.R | 2 -
paleoTS-0.3-1/paleoTS/R/opt.joint.GRW.R |only
paleoTS-0.3-1/paleoTS/R/opt.joint.OU.R |only
paleoTS-0.3-1/paleoTS/R/opt.joint.Stasis.R |only
paleoTS-0.3-1/paleoTS/R/opt.joint.URW.R |only
paleoTS-0.3-1/paleoTS/R/opt.punc.R |only
paleoTS-0.3-1/paleoTS/R/opt.sgs.R |only
paleoTS-0.3-1/paleoTS/R/ou.M.R |only
paleoTS-0.3-1/paleoTS/R/ou.V.R |only
paleoTS-0.3-1/paleoTS/R/plot.paleoTS.R | 9 +----
paleoTS-0.3-1/paleoTS/R/shift2gg.R |only
paleoTS-0.3-1/paleoTS/R/shifts.R |only
paleoTS-0.3-1/paleoTS/R/sim.GRW.shift.R |only
paleoTS-0.3-1/paleoTS/R/sim.OU.R |only
paleoTS-0.3-1/paleoTS/R/sim.punc.R |only
paleoTS-0.3-1/paleoTS/R/sim.sgs.R |only
paleoTS-0.3-1/paleoTS/R/split4punc.R |only
paleoTS-0.3-1/paleoTS/data |only
paleoTS-0.3-1/paleoTS/man/IC.Rd | 10 +++--
paleoTS-0.3-1/paleoTS/man/add.OU.curves.Rd |only
paleoTS-0.3-1/paleoTS/man/cat.paleoTS.Rd |only
paleoTS-0.3-1/paleoTS/man/dorsal.spines.Rd |only
paleoTS-0.3-1/paleoTS/man/fit.sgs.Rd |only
paleoTS-0.3-1/paleoTS/man/fit3models.Rd | 48 +++++++++++++++++++++------
paleoTS-0.3-1/paleoTS/man/fitGpunc.Rd |only
paleoTS-0.3-1/paleoTS/man/ln.paleoTS.Rd | 2 -
paleoTS-0.3-1/paleoTS/man/logL.joint.GRW.Rd |only
paleoTS-0.3-1/paleoTS/man/opt.GRW.Rd | 2 -
paleoTS-0.3-1/paleoTS/man/opt.GRW.shift.Rd |only
paleoTS-0.3-1/paleoTS/man/opt.joint.GRW.Rd |only
paleoTS-0.3-1/paleoTS/man/paleoTS-package.Rd | 15 ++++++--
paleoTS-0.3-1/paleoTS/man/pelvic.score.Rd |only
paleoTS-0.3-1/paleoTS/man/plot.paleoTS.Rd | 8 ++--
paleoTS-0.3-1/paleoTS/man/pterygiophores.Rd |only
paleoTS-0.3-1/paleoTS/man/sim.OU.Rd |only
paleoTS-0.3-1/paleoTS/man/sim.punc.Rd |only
paleoTS-0.3-1/paleoTS/man/sub.paleoTS.Rd | 2 -
60 files changed, 84 insertions(+), 43 deletions(-)
Author: Timur V. Elzhov, Katharine M. Mullen
Title: R interface to the Levenberg-Marquardt nonlinear least-squares algorithm found in MINPACK
Description: Provides R interface to lmder and lmdif from the MINPACK library, for solving nonlinear least-squares problems by a modification of the Levenberg-Marquardt algorithm.
Diff between minpack.lm versions 1.1-0 dated 2008-05-16 and 1.1-1 dated 2008-05-25
DESCRIPTION | 4 ++-- src/nls_lm.c | 2 +- 2 files changed, 3 insertions(+), 3 deletions(-)
Author: Nicholas J. Lewin-Koh and Roger Bivand, contributions by Edzer J. Pebesma, Eric Archer, Stéphane Dray, David Forrest, Patrick Giraudoux, Duncan Golicher, Virgilio Gómez Rubio, Patrick Hausmann, Thomas Jagger, Sebastian P. Luque, Don MacQueen, Andrew Niccolai and Tom Short
Title: Tools for reading and handling spatial objects
Description: Set of tools for manipulating and reading geographic data, in particular ESRI shapefiles; C code used from shapelib. It includes binary access to GSHHS shoreline files. The package also provides interface wrappers for exchanging spatial objects with packages such as PBSmapping, spatstat, maps, RArcInfo, Stata tmap, WinBUGS, Mondrian, and others.
Diff between maptools versions 0.7-12 dated 2008-04-15 and 0.7-13 dated 2008-05-25
ChangeLog | 14 +++++ DESCRIPTION | 24 +++++----- INDEX | 106 ++++++++++++++++++++++----------------------- R/Rgshhs.R | 55 ++++++++++++++--------- R/sp2pbs.R | 8 +-- inst/ChangeLog | 14 +++++ inst/share/gshhs_c.b |binary inst/share/wdb_borders_c.b |only man/Rgshhs.Rd | 19 +++++--- src/Rgshhs.c | 32 ++++++++----- src/Rgshhs.h | 16 +++++- 11 files changed, 176 insertions(+), 112 deletions(-)
Author: Dan Rabosky
Title: Likelihood Analysis of Speciation/Extinction Rates from Phylogenies
Description: laser implements maximum likelihood methods based on the birth-death
process to test whether diversification rates have changed over time and whether rates vary among lineages.
Diff between laser versions 1.0 dated 2006-07-10 and 2.1 dated 2008-05-25
laser-1.0/laser/R/DensityDependent.R |only laser-1.0/laser/R/fitdAICrc.batch.R |only laser-1.0/laser/R/gamStat.batch.R |only laser-1.0/laser/R/laser-internals.R |only laser-1.0/laser/R/yule-n-rate.R |only laser-1.0/laser/inst |only laser-1.0/laser/man/fitdAICrc.batch.Rd |only laser-1.0/laser/man/gamStat.batch.Rd |only laser-1.0/laser/man/laser.package.Rd |only laser-2.1/laser/DESCRIPTION | 28 +- laser-2.1/laser/NAMESPACE |only laser-2.1/laser/R/DDL.R |only laser-2.1/laser/R/DDX.R |only laser-2.1/laser/R/IDDL.R |only laser-2.1/laser/R/IDDX.R |only laser-2.1/laser/R/Ibd.R |only laser-2.1/laser/R/IpureBirth.R |only laser-2.1/laser/R/Irvbd.R |only laser-2.1/laser/R/Iyule2rate.R |only laser-2.1/laser/R/Iyule3rate.R |only laser-2.1/laser/R/bd.R | 94 ++++----- laser-2.1/laser/R/calcLHbd.R | 34 +-- laser-2.1/laser/R/checkbasal.R |only laser-2.1/laser/R/combinations.R |only laser-2.1/laser/R/fitBOTHVAR.R |only laser-2.1/laser/R/fitEXVAR.R |only laser-2.1/laser/R/fitNDR_1rate.R |only laser-2.1/laser/R/fitNDR_2rate.R |only laser-2.1/laser/R/fitSPVAR.R |only laser-2.1/laser/R/fitdAICrc.R | 223 +++++++++++----------- laser-2.1/laser/R/gamStat.R | 52 ++--- laser-2.1/laser/R/getBtimes.R | 34 +-- laser-2.1/laser/R/getBtimes.batch.R | 80 ++------ laser-2.1/laser/R/getLambda.internal.R |only laser-2.1/laser/R/getLikelihood.BOTHVAR.R |only laser-2.1/laser/R/getLikelihood.EXVAR.R |only laser-2.1/laser/R/getLikelihood.SPVAR.R |only laser-2.1/laser/R/getSpeciationtimes.R |only laser-2.1/laser/R/getTipdata.R |only laser-2.1/laser/R/gsr.R |only laser-2.1/laser/R/lambda.crown.ms01.R |only laser-2.1/laser/R/lambda.stem.ci.R |only laser-2.1/laser/R/lambda.stem.ms01.R |only laser-2.1/laser/R/lambdaFx.R |only laser-2.1/laser/R/lamda.stem.ml.R |only laser-2.1/laser/R/mccrTest.R |only laser-2.1/laser/R/muFx.R |only laser-2.1/laser/R/node.sons.R |only laser-2.1/laser/R/pTt.BOTHVAR.R |only laser-2.1/laser/R/pTt.EXVAR.R |only laser-2.1/laser/R/pTt.SPVAR.R |only laser-2.1/laser/R/plotLtt.R | 28 +- laser-2.1/laser/R/plotNodeNumbers.phylo.R |only laser-2.1/laser/R/plotRate.R |only laser-2.1/laser/R/pureBirth.R | 38 +-- laser-2.1/laser/R/rhoFxn.BOTHVAR.R |only laser-2.1/laser/R/rhoFxn.EXVAR.R |only laser-2.1/laser/R/rhoFxn.SPVAR.R |only laser-2.1/laser/R/rvbd.R | 181 ++++++++---------- laser-2.1/laser/R/scaleBranchingtimes.R | 25 -- laser-2.1/laser/R/splitEdgeMatrix.R |only laser-2.1/laser/R/truncateTree.R | 110 +++++------ laser-2.1/laser/R/yule2rate.R |only laser-2.1/laser/R/yule3rate.R |only laser-2.1/laser/R/yule4rate.R |only laser-2.1/laser/R/yule5rate.R |only laser-2.1/laser/R/yuleSim.R | 44 ++-- laser-2.1/laser/R/yuleWindow.R | 59 ++---- laser-2.1/laser/R/yuleint2.R |only laser-2.1/laser/data/skinkdiversity.R |only laser-2.1/laser/data/skinkdiversity.txt |only laser-2.1/laser/data/skinktree.R |only laser-2.1/laser/data/skinktree.tre |only laser-2.1/laser/data/warblers.R |only laser-2.1/laser/data/warblers.txt |only laser-2.1/laser/man/DensityDependent.Rd | 110 +++++------ laser-2.1/laser/man/RandomTrees.Rd | 45 ++-- laser-2.1/laser/man/agamids.Rd | 54 ++--- laser-2.1/laser/man/bd.Rd | 110 +++++------ laser-2.1/laser/man/calcLHbd.Rd | 126 ++++++------ laser-2.1/laser/man/fitContinuousBirthDeath.Rd |only laser-2.1/laser/man/fitNDR_1rate.Rd |only laser-2.1/laser/man/fitNDR_2rate.Rd |only laser-2.1/laser/man/fitdAICrc.Rd | 224 +++++++++------------- laser-2.1/laser/man/gamStat.Rd | 64 +++--- laser-2.1/laser/man/getBtimes.Rd | 105 +++++----- laser-2.1/laser/man/getBtimes.batch.Rd | 178 ++++++++---------- laser-2.1/laser/man/getTipData.Rd |only laser-2.1/laser/man/laser-internals.Rd | 72 ++++--- laser-2.1/laser/man/laser-package.Rd |only laser-2.1/laser/man/magsand.Rd |only laser-2.1/laser/man/mccrTest.Rd |only laser-2.1/laser/man/plotLtt.Rd | 58 ++--- laser-2.1/laser/man/plotNodeNumbers.phylo.Rd |only laser-2.1/laser/man/plotRate.Rd |only laser-2.1/laser/man/pureBirth.Rd | 76 +++---- laser-2.1/laser/man/rvbd.Rd | 194 +++++++++---------- laser-2.1/laser/man/scaleBranchingtimes.Rd | 80 ++++---- laser-2.1/laser/man/skinkdiversity.Rd |only laser-2.1/laser/man/skinktree.Rd |only laser-2.1/laser/man/truncateTree.Rd | 102 +++++----- laser-2.1/laser/man/warblers.Rd |only laser-2.1/laser/man/yule-n-rate.Rd | 244 ++++++++++++------------- laser-2.1/laser/man/yuleSim.Rd | 58 ++--- laser-2.1/laser/man/yuleWindow.Rd | 126 ++++++------ 105 files changed, 1462 insertions(+), 1594 deletions(-)
Author: Patrick Mair, Reinhold Hatzinger
Title: Extended Rasch Modeling.
Description: eRm fits Rasch models (RM), linear logistic test models (LLTM), rating scale model (RSM), linear rating scale models (LRSM), partial credit models (PCM), and linear partial credit models (LPCM). Missing values are allowed in the data matrix. Additional features are the estimation of the person parameters, LR-Model test, item-specific Wald test, itemfit and personfit statistics, various ICC plots. An eRm platform is provided at http://r-forge.r-project.org/projects/erm/.
Diff between eRm versions 0.9-7 dated 2008-04-02 and 0.9-8.2 dated 2008-05-25
eRm-0.9-7/eRm/inst/doc/Rplots.ps |only eRm-0.9-8.2/eRm/DESCRIPTION | 8 +-- eRm-0.9-8.2/eRm/R/LRtest.Rm.R | 31 ++++++++++- eRm-0.9-8.2/eRm/R/Waldtest.Rm.R | 22 +++++++- eRm-0.9-8.2/eRm/R/itemfit.ppar.R | 2 eRm-0.9-8.2/eRm/R/person.parameter.eRm.R | 82 ++++++++++++++++++++++--------- eRm-0.9-8.2/eRm/R/personfit.ppar.R | 5 + eRm-0.9-8.2/eRm/R/pifit.internal.r | 2 eRm-0.9-8.2/eRm/R/plot.ppar.r | 3 - eRm-0.9-8.2/eRm/R/plotGOF.LR.R | 6 +- eRm-0.9-8.2/eRm/R/plotICC.Rm.R | 12 +--- eRm-0.9-8.2/eRm/R/plotjointICC.dRm.R | 2 eRm-0.9-8.2/eRm/R/pmat.ppar.R | 35 ++++++++----- eRm-0.9-8.2/eRm/R/print.ICr.r | 10 +-- eRm-0.9-8.2/eRm/R/print.eRm.R | 1 eRm-0.9-8.2/eRm/R/print.ifit.R | 1 eRm-0.9-8.2/eRm/R/print.pfit.R | 1 eRm-0.9-8.2/eRm/R/print.ppar.R | 28 +++++----- eRm-0.9-8.2/eRm/R/print.threshold.r | 1 eRm-0.9-8.2/eRm/R/print.wald.R | 1 eRm-0.9-8.2/eRm/R/summary.LR.r | 10 +-- eRm-0.9-8.2/eRm/R/summary.eRm.R | 6 +- eRm-0.9-8.2/eRm/inst/doc/eRmvig.pdf |binary eRm-0.9-8.2/eRm/man/LRtest.Rd | 10 ++- eRm-0.9-8.2/eRm/man/Waldtest.Rd | 5 + eRm-0.9-8.2/eRm/man/eRm-package.Rd | 4 - eRm-0.9-8.2/eRm/man/person.parameter.Rd | 7 +- 27 files changed, 203 insertions(+), 92 deletions(-)
Author: Andy Bunn
Title: Dendrochronology Program Library in R
Description: This package contains functions for performing some standard tree-ring analyses.
Diff between dplR versions 1.1 dated 2008-04-22 and 1.1.1 dated 2008-05-25
DESCRIPTION | 6 ++- NAMESPACE |only R/skel.plot.R | 88 ++++++++++++++++++++++++++++++++++++++++++++-------- man/chron.Rd | 2 - man/dplR-package.Rd | 1 man/skel.plot.Rd | 15 +++++--- 6 files changed, 90 insertions(+), 22 deletions(-)
Author: Max Kuhn, contributions from Steve Weston, Jed Wing and James Forester
Title: A collection of contrast methods
Description: Contrast methods, in the style of the Design package,
for fit objects produced by the lm, glm, gls, and geese functions.
Diff between contrast versions 0.6 dated 2007-11-27 and 0.8 dated 2008-05-25
._contrast |only contrast/._DESCRIPTION |only contrast/._NAMESPACE |only contrast/._R |only contrast/._inst |only contrast/._man |only contrast/DESCRIPTION | 11 +- contrast/R/._contrast.lm.R |only contrast/R/._gets.R |only contrast/R/._misc.R |only contrast/R/._model.frames.R |only contrast/R/._print.contrast.R |only contrast/R/._testStatistic.R |only contrast/R/contrast.lm.R | 33 +++++++- contrast/R/print.contrast.R | 7 + contrast/inst/._doc |only contrast/inst/doc/._contrast.Rnw |only contrast/inst/doc/contrast-example1Plot.eps |only contrast/inst/doc/contrast-example1Plot.pdf |only contrast/inst/doc/contrast-example2Plot.eps |only contrast/inst/doc/contrast-example2Plot.pdf |only contrast/inst/doc/contrast.Rnw | 111 ++++++++++++++++------------ contrast/inst/doc/contrast.aux |only contrast/inst/doc/contrast.log |only contrast/inst/doc/contrast.out |only contrast/inst/doc/contrast.pdf |binary contrast/inst/doc/contrast.tex | 61 ++++++++++----- contrast/man/._contrast.Rd |only contrast/man/contrast.Rd | 5 + 29 files changed, 155 insertions(+), 73 deletions(-)
Author: Venkatraman E. Seshan
Title: Clinical Trial Design and Data Analysis Functions
Description: Utilities to make your clinical collaborations easier if not fun.
Diff between clinfun versions 0.7-5 dated 2008-05-13 and 0.8.0 dated 2008-05-25
CHANGES |only DESCRIPTION | 5 +++-- INDEX | 1 + NAMESPACE | 3 ++- R/lehmann.R |only R/permlogrank.R | 2 +- man/ph2simon.Rd | 2 ++ man/power.ladesign.Rd |only src/lehmann.f |only src/rshared.c |only 10 files changed, 9 insertions(+), 4 deletions(-)
Author: Tom Price
Diff between cgh versions 1.0-2 dated 2006-11-15 and 1.0-3 dated 2008-05-25
Title: Microarray CGH analysis using the Smith-Waterman algorithm
Description: Functions to analyze microarray comparative genome hybridization data using the Smith-Waterman algorithm
Changes | 25 +++++++++++++++----------
DESCRIPTION | 14 +++++++-------
2 files changed, 22 insertions(+), 17 deletions(-)
Author: Carsten F. Dormann and Bernd Gruber, with additional code from Jochen Fruend, based on the C-code developed by Nils Bluethgen.
Title: Visualises bipartite networks and calculates some ecological indices.
Description: See bipartite-package for more details.
Diff between bipartite versions 0.7 dated 2008-05-16 and 0.72 dated 2008-05-25
DESCRIPTION | 6 - R/visweb.R | 165 +++++++++++++++++++++++++---------------------- man/bipartite-package.Rd | 4 - man/visweb.Rd | 2 4 files changed, 94 insertions(+), 83 deletions(-)
Author: Sanford Weisberg
Diff between alr3 versions 1.1.6 dated 2007-10-27 and 1.1.7 dated 2008-05-25
Title: Methods and data to accompany Applied Linear Regression 3rd edition
Description: This library is a companion to the textbook S. Weisberg (2005),
"Applied Linear Regression," 3rd edition, Wiley. It includes all the
data sets discussed in the book (except one), and several few functions that
are tailored to the methods discussed in the book. Ver. 1.0.3 corrects bugs in (1) weights for POD models; (2) use of 'subset' arguments with boot.case. Ver. 1.0.4 corrects a few bugs with overparameterized models. Ver. 1.0.5 changes one default argument. Ver 1.0.6 replaces the pure.error.anova function so it prints nicer and works with interactions. Ver 1.0.7 fixes a bug in residual.plots and
adds an additional argument and adds a new function alrweb to access the
website for the book in a browser. Ver 1.0.8 fixed a bug in delta.method for
generalized linear models. Ver 1.0.9 fixes a bug with Yeo Johnson
transformations. Ver 1.1.0 drops the conf.intervals function in favor of
the confint function in stat, includes several minor bug fixes, and makes
the package fully compatible with version 2.6.0 of R. 1.1.2 corrects a bug
introduced in boot.case. Version 1.1.7 adds a namespace.
alr3-1.1.6/alr3/R/alr3.Rcheck |only
alr3-1.1.7/alr3/DESCRIPTION | 8 -
alr3-1.1.7/alr3/NAMESPACE |only
alr3-1.1.7/alr3/R/alr3.R | 243 +++++++++++++++++++--------------
alr3-1.1.7/alr3/Rwork |only
alr3-1.1.7/alr3/man/bctrans.Rd | 3
alr3-1.1.7/alr3/man/mmps.Rd | 50 ++++--
alr3-1.1.7/alr3/man/random.lin.comb.Rd | 8 -
alr3-1.1.7/alr3/man/residual.plots.Rd | 27 ++-
9 files changed, 208 insertions(+), 131 deletions(-)
Author: Daniel Chessel, Anne-Beatrice Dufour
Diff between ade4 versions 1.4-8 dated 2008-05-16 and 1.4-9 dated 2008-05-25
Title: Analysis of Ecological Data : Exploratory and Euclidean methods in Environmental sciences
Description: Multivariate data analysis and graphical display.
ChangeLog | 27 +++++++++++++++++++++++++++
DESCRIPTION | 6 +++---
R/krandtest.R | 16 +++++++++-------
R/mantel.randtest.R | 1 -
R/niche.R | 1 -
R/procuste.randtest.R | 1 -
R/randtest.amova.R | 2 +-
R/randtest.between.R | 3 +--
R/randtest.coinertia.R | 1 -
R/randtest.discrimin.R | 3 +--
man/krandtest.Rd | 8 +++++---
11 files changed, 47 insertions(+), 22 deletions(-)
Author: Erin Hodgess
Diff between RcmdrPlugin.epack versions 1.0-1 dated 2007-12-24 and 1.1-1 dated 2008-05-25
More information about RcmdrPlugin.epack at CRAN
Title: Rcmdr plugin for time series
Description: This package provides an Rcmdr "plug-in" based on the
time series functions. Contributors: G. Jay Kerns, John Fox, and Richard Heiberger.
DESCRIPTION | 14 +-
R/RcmdrPlugin.epack.R | 184 ++++++++++++++++++++++++++++++++++++++
R/decom6.R |only
decom6.R |only
inst/etc/menus.txt | 56 ++++++++---
man/RcmdrPlugin.epack-internal.Rd | 5 +
6 files changed, 238 insertions(+), 21 deletions(-)
Permanent link
Author: Eric Lecoutre
Diff between R2HTML versions 1.58 dated 2006-09-29 and 1.59 dated 2008-05-25
Title: HTML exportation for R objects
Description: Includes HTML function and methods to write in an HTML file. Thus, making HTML reports is easy. Includes a function that allows redirection on the fly, which appears to be very usefull for teaching purpose, as the student can keep a copy of the produced output to keep all that he did during the course. Package comes with a vignette describing how to write HTML reports for statistical analysis. Finally, a driver for Sweave allows to parse HTML flat files containing R code and to automatically write the corresponding outputs (tables and graphs).
DESCRIPTION | 6
NAMESPACE | 2
NEWS | 58 +++++
R/HTMLcore.R | 476 +++++++++++++++++++++++++++---------------------
R/HTMLlme.R | 8
R/LaTeX.R | 4
R/grid.R | 6
inst/CITATION |only
inst/samples/R2HTML.css | 36 ++-
man/HTML.cormat.Rd | 4
man/HTML.data.frame.Rd | 8
man/HTML.function.Rd | 5
man/HTML.latex.Rd | 4
man/HTML.title.Rd | 2
man/HTMLCSS.Rd | 2
man/HTMLInitFile.Rd | 2
man/HTMLInsertGraph.Rd | 2
man/HTMLbr.Rd | 6
man/HTMLgrid.Rd | 4
man/HTMLplot.Rd | 2
man/HTMLstem.Rd | 2
man/R2HTML-internal.Rd | 2
22 files changed, 379 insertions(+), 262 deletions(-)
Author: Spencer Graves
Title: Companion to Tsay (2005) Analysis of Financial
Time Series
Description: R companion to Tsay (2005)
Analysis of Financial Time Series, 2nd ed. (Wiley).
Includes data sets, functions and script files
required to work some of the examples. Version 0.2-x
includes R objects for all data files used in the text
and script files to recreate most of the analyses in
chapters 1 and 2 plus parts of chapters 3 and 11.
Diff between FinTS versions 0.3-1 dated 2008-03-21 and 0.3-3 dated 2008-05-25
DESCRIPTION | 10 +-- R/Acf.R | 30 +++------ R/FinTS.stats.R | 22 ++++++- R/Unitroot.R | 15 +++- R/package.dir.R |only R/plot.loadings.R |only R/runscript.R |only inst/scripts/TsayFiles.R | 6 - inst/scripts/ch01.R | 5 - inst/scripts/ch02.R | 5 - inst/scripts/ch03.R | 6 - inst/scripts/ch04.R | 27 +++++++- inst/scripts/ch09.R | 140 +++++++++++++++++++++++++++++++++++++++++++++ inst/scripts/ch11.R | 5 - inst/scripts/create-ch01.R | 6 - inst/scripts/create-ch02.R | 6 - inst/scripts/create-ch03.R | 6 - inst/scripts/create-ch04.R | 6 - inst/scripts/create-ch05.R | 6 - inst/scripts/create-ch06.R | 6 - inst/scripts/create-ch07.R | 6 - inst/scripts/create-ch08.R | 6 - inst/scripts/create-ch09.R | 6 - inst/scripts/create-ch10.R | 6 - inst/scripts/create-ch11.R | 6 - inst/scripts/create-ch12.R | 6 - man/Acf.Rd | 3 man/findConjugates.Rd | 8 +- man/package.dir.Rd |only man/plot.loadings.Rd |only man/runscript.Rd |only 31 files changed, 245 insertions(+), 109 deletions(-)
Author: Jari Oksanen, Roeland Kindt, Pierre Legendre, Bob O'Hara, Gavin L. Simpson,
M. Henry H. Stevens
Title: Community Ecology Package
Description: Ordination methods, diversity analysis and other
functions for community and vegetation ecologists.
Diff between vegan versions 1.11-4 dated 2008-04-24 and 1.13-0 dated 2008-05-21
vegan-1.11-4/vegan/R/ordispantree.R |only vegan-1.11-4/vegan/R/permDisper.R |only vegan-1.11-4/vegan/R/print.permDisper.R |only vegan-1.13-0/vegan/DESCRIPTION | 11 vegan-1.13-0/vegan/R/TukeyHSD.betadisper.R |only vegan-1.13-0/vegan/R/adonis.R | 21 + vegan-1.13-0/vegan/R/betadisper.R | 8 vegan-1.13-0/vegan/R/betadiver.R |only vegan-1.13-0/vegan/R/biplot.rda.R | 36 +- vegan-1.13-0/vegan/R/capscale.R | 24 + vegan-1.13-0/vegan/R/designdist.R | 14 vegan-1.13-0/vegan/R/lines.spantree.R | 6 vegan-1.13-0/vegan/R/metaMDS.R | 8 vegan-1.13-0/vegan/R/metaMDSdist.R | 2 vegan-1.13-0/vegan/R/mso.R |only vegan-1.13-0/vegan/R/nestedtemp.R |only vegan-1.13-0/vegan/R/ordiArgAbsorber.R |only vegan-1.13-0/vegan/R/ordiTerminfo.R | 6 vegan-1.13-0/vegan/R/ordiarrows.R | 14 vegan-1.13-0/vegan/R/ordicluster.R | 5 vegan-1.13-0/vegan/R/ordiellipse.R | 29 - vegan-1.13-0/vegan/R/ordihull.R | 10 vegan-1.13-0/vegan/R/ordisegments.R | 9 vegan-1.13-0/vegan/R/ordispider.R | 11 vegan-1.13-0/vegan/R/orditkplot.R | 106 ++++++ vegan-1.13-0/vegan/R/orditorp.R | 45 +- vegan-1.13-0/vegan/R/permute.R |only vegan-1.13-0/vegan/R/permutest.betadisper.R |only vegan-1.13-0/vegan/R/permutest.cca.R | 6 vegan-1.13-0/vegan/R/plot.betadiver.R |only vegan-1.13-0/vegan/R/plot.cca.R | 2 vegan-1.13-0/vegan/R/plot.mso.R |only vegan-1.13-0/vegan/R/plot.nestedtemp.R |only vegan-1.13-0/vegan/R/points.decorana.R | 5 vegan-1.13-0/vegan/R/print.capscale.R |only vegan-1.13-0/vegan/R/print.metaMDS.R | 9 vegan-1.13-0/vegan/R/print.nestedtemp.R |only vegan-1.13-0/vegan/R/print.permutest.betadisper.R |only vegan-1.13-0/vegan/R/print.summary.cca.R | 7 vegan-1.13-0/vegan/R/rarefy.R | 17 - vegan-1.13-0/vegan/R/rgl.isomap.R |only vegan-1.13-0/vegan/R/scores.betadiver.R |only vegan-1.13-0/vegan/R/screeplot.cca.R | 11 vegan-1.13-0/vegan/R/screeplot.decorana.R | 3 vegan-1.13-0/vegan/R/screeplot.prcomp.R | 11 vegan-1.13-0/vegan/R/screeplot.princomp.R | 11 vegan-1.13-0/vegan/R/specaccum.R | 9 vegan-1.13-0/vegan/R/summary.cca.R | 4 vegan-1.13-0/vegan/R/text.decorana.R | 12 vegan-1.13-0/vegan/R/zzz.R | 7 vegan-1.13-0/vegan/inst/ChangeLog | 341 +++++++++++++++++++--- vegan-1.13-0/vegan/inst/NEWS | 68 ++++ vegan-1.13-0/vegan/inst/doc/FAQ-vegan.pdf |binary vegan-1.13-0/vegan/inst/doc/FAQ-vegan.texi | 1 vegan-1.13-0/vegan/inst/doc/Makefile | 2 vegan-1.13-0/vegan/inst/doc/decision-vegan.Rnw | 152 +++++++++ vegan-1.13-0/vegan/inst/doc/decision-vegan.pdf |binary vegan-1.13-0/vegan/inst/doc/decision-vegan.tex | 170 +++++++++- vegan-1.13-0/vegan/inst/doc/diversity-vegan.Rnw | 32 +- vegan-1.13-0/vegan/inst/doc/diversity-vegan.pdf |binary vegan-1.13-0/vegan/inst/doc/diversity-vegan.tex | 138 +++++--- vegan-1.13-0/vegan/inst/doc/intro-vegan.Rnw | 2 vegan-1.13-0/vegan/inst/doc/intro-vegan.pdf |binary vegan-1.13-0/vegan/inst/doc/intro-vegan.tex | 67 ++-- vegan-1.13-0/vegan/inst/doc/vegan.bib | 43 ++ vegan-1.13-0/vegan/man/BCI.Rd | 10 vegan-1.13-0/vegan/man/anova.cca.Rd | 10 vegan-1.13-0/vegan/man/betadisper.Rd | 96 ++++-- vegan-1.13-0/vegan/man/betadiver.Rd |only vegan-1.13-0/vegan/man/biplot.rda.Rd | 8 vegan-1.13-0/vegan/man/capscale.Rd | 31 +- vegan-1.13-0/vegan/man/designdist.Rd | 20 - vegan-1.13-0/vegan/man/diversity.Rd | 15 vegan-1.13-0/vegan/man/isomap.Rd | 15 vegan-1.13-0/vegan/man/metaMDS.Rd | 17 - vegan-1.13-0/vegan/man/mso.Rd |only vegan-1.13-0/vegan/man/oecosimu.Rd | 56 ++- vegan-1.13-0/vegan/man/ordihull.Rd | 7 vegan-1.13-0/vegan/man/orditkplot.Rd | 19 + vegan-1.13-0/vegan/man/permuted.index2.Rd | 71 ++++ vegan-1.13-0/vegan/man/permutest.betadisper.Rd |only vegan-1.13-0/vegan/man/screeplot.cca.Rd | 7 vegan-1.13-0/vegan/man/specaccum.Rd | 5 vegan-1.13-0/vegan/man/taxondive.Rd | 2 vegan-1.13-0/vegan/man/vegan-internal.Rd | 4 vegan-1.13-0/vegan/man/vegandocs.Rd | 4 vegan-1.13-0/vegan/man/vegdist.Rd | 4 87 files changed, 1486 insertions(+), 410 deletions(-)
Author: Delphine Charif and Jean R. Lobry and Anamaria Necsulea and Leonor Palmeira and Simon Penel
Title: Biological Sequences Retrieval and Analysis
Description: Exploratory data analysis and data visualization
for biological sequence (DNA and protein) data. Include also
utilities for sequence data management under the ACNUC system.
Diff between seqinr versions 1.1-5 dated 2007-12-18 and 1.1-6 dated 2008-05-21
seqinr-1.1-5/seqinr/inst/doc/seqinr_1_1-5.pdf |only seqinr-1.1-6/seqinr/DESCRIPTION | 6 seqinr-1.1-6/seqinr/R/choosebank.R | 9 seqinr-1.1-6/seqinr/R/clientid.R | 8 seqinr-1.1-6/seqinr/R/count.R | 52 seqinr-1.1-6/seqinr/R/gb2fasta.R | 2 seqinr-1.1-6/seqinr/R/modifylist.R | 7 seqinr-1.1-6/seqinr/R/oriloc.R | 15 seqinr-1.1-6/seqinr/R/parser.socket.R | 25 seqinr-1.1-6/seqinr/R/prepgetannots.R |only seqinr-1.1-6/seqinr/R/reverse.align.R | 115 seqinr-1.1-6/seqinr/data/revaligntest.RData |only seqinr-1.1-6/seqinr/inst/doc/seqinr_1_1-6.pdf |only seqinr-1.1-6/seqinr/inst/doc/src/appendix/FAQ.rnw | 64 seqinr-1.1-6/seqinr/inst/doc/src/appendix/FAQ.tex | 97 seqinr-1.1-6/seqinr/inst/doc/src/appendix/fdl.tex | 6 seqinr-1.1-6/seqinr/inst/doc/src/appendix/gencodes.tex | 19 seqinr-1.1-6/seqinr/inst/doc/src/appendix/releasenotes.rnw | 83 seqinr-1.1-6/seqinr/inst/doc/src/appendix/releasenotes.tex | 112 seqinr-1.1-6/seqinr/inst/doc/src/appendix/rundontrun.rnw | 33 seqinr-1.1-6/seqinr/inst/doc/src/appendix/rundontrun.tex | 301 -- seqinr-1.1-6/seqinr/inst/doc/src/appendix/subsequences.tex | 975 ++++-- seqinr-1.1-6/seqinr/inst/doc/src/book/book.rnw | 73 seqinr-1.1-6/seqinr/inst/doc/src/config/book.bib | 41 seqinr-1.1-6/seqinr/inst/doc/src/config/commonrnw.rnw | 7 seqinr-1.1-6/seqinr/inst/doc/src/figs/cover.pdf | 8 seqinr-1.1-6/seqinr/inst/doc/src/figs/libraryBuilding.pdf |only seqinr-1.1-6/seqinr/inst/doc/src/figs/prochlo.png |only seqinr-1.1-6/seqinr/inst/doc/src/frontmatter/cover.tex | 14 seqinr-1.1-6/seqinr/inst/doc/src/mainmatter/acnucsocket.rnw | 21 seqinr-1.1-6/seqinr/inst/doc/src/mainmatter/acnucsocket.tex | 117 seqinr-1.1-6/seqinr/inst/doc/src/mainmatter/dealseq.rnw | 134 seqinr-1.1-6/seqinr/inst/doc/src/mainmatter/dealseq.tex | 255 + seqinr-1.1-6/seqinr/inst/doc/src/mainmatter/extractseqs.rnw |only seqinr-1.1-6/seqinr/inst/doc/src/mainmatter/extractseqs.tex |only seqinr-1.1-6/seqinr/inst/doc/src/mainmatter/getseqacnuc.rnw | 708 ---- seqinr-1.1-6/seqinr/inst/doc/src/mainmatter/getseqacnuc.tex | 1625 ----------- seqinr-1.1-6/seqinr/inst/doc/src/mainmatter/getseqflat.rnw | 42 seqinr-1.1-6/seqinr/inst/doc/src/mainmatter/getseqflat.tex | 152 - seqinr-1.1-6/seqinr/inst/doc/src/mainmatter/introduction.rnw | 16 seqinr-1.1-6/seqinr/inst/doc/src/mainmatter/introduction.tex | 57 seqinr-1.1-6/seqinr/inst/doc/src/mainmatter/multivariate.tex | 19 seqinr-1.1-6/seqinr/inst/doc/src/mainmatter/nonparastats.rnw | 109 seqinr-1.1-6/seqinr/inst/doc/src/mainmatter/nonparastats.tex | 162 - seqinr-1.1-6/seqinr/inst/doc/src/mainmatter/querylang.rnw |only seqinr-1.1-6/seqinr/inst/doc/src/mainmatter/querylang.tex |only seqinr-1.1-6/seqinr/inst/doc/src/misc/seqinRtodolist.txt | 2 seqinr-1.1-6/seqinr/inst/doc/src/tables/aacost.tex | 4 seqinr-1.1-6/seqinr/inst/doc/src/tables/dpqrtable.tex | 4 seqinr-1.1-6/seqinr/inst/doc/src/tables/toyaa.tex | 4 seqinr-1.1-6/seqinr/inst/doc/src/tables/toycodon.tex | 4 seqinr-1.1-6/seqinr/inst/sequences/humanMito.fasta |only seqinr-1.1-6/seqinr/man/acnucopen.Rd | 3 seqinr-1.1-6/seqinr/man/choosebank.Rd | 23 seqinr-1.1-6/seqinr/man/count.Rd | 71 seqinr-1.1-6/seqinr/man/draw.rearranged.oriloc.Rd | 13 seqinr-1.1-6/seqinr/man/getAnnot.Rd | 2 seqinr-1.1-6/seqinr/man/modifylist.Rd | 6 seqinr-1.1-6/seqinr/man/oriloc.Rd | 13 seqinr-1.1-6/seqinr/man/parser.socket.Rd | 6 seqinr-1.1-6/seqinr/man/prepgatannots.Rd |only seqinr-1.1-6/seqinr/man/prochlo.Rd | 99 seqinr-1.1-6/seqinr/man/revaligntest.Rd |only seqinr-1.1-6/seqinr/man/reverse.align.Rd | 41 64 files changed, 2501 insertions(+), 3283 deletions(-)
Author: Jim Lemon
Diff between plotrix versions 2.4-1 dated 2008-04-08 and 2.4-2 dated 2008-05-21
Title: Various plotting functions
Description: Lots of plots, various labeling, axis and color scaling functions.
DESCRIPTION | 6 +++---
INDEX | 2 ++
R/barhier.R |only
R/brkdn.plot.R | 13 +++++++++----
R/lengthKey.R |only
R/radial.plot.R | 2 +-
R/thigmophobe.R | 2 ++
R/vectorField.R |only
man/barhier.Rd |only
man/brkdn.plot.Rd | 4 ++--
man/color.scale.Rd | 5 +++++
man/color2D.matplot.Rd | 11 +++++++++--
man/lengthKey.Rd |only
man/std.error.Rd | 2 +-
man/twoord.plot.Rd | 26 ++++++++++++++++++++++++++
man/vectorField.Rd |only
16 files changed, 60 insertions(+), 13 deletions(-)
Author: Sřren Hřjsgaard
Diff between doBy versions 2.3 dated 2008-03-26 and 3.0 dated 2008-05-21
Title: Groupwise computations of summary statistics and other utilities
Description: Facilities for groupwise computations of summary statistics and other facilities for working with grouped data (similar to what can be achieved by proc means or proc summary of the SAS system).
doBy-2.3/doBy/inst/doc/doBy.tex |only
doBy-3.0/doBy/ChangeLog | 9
doBy-3.0/doBy/DESCRIPTION | 4
doBy-3.0/doBy/NAMESPACE | 2
doBy-3.0/doBy/R/summaryBy.R | 1019 +++++++++---
doBy-3.0/doBy/inst/doc/.build.timestamp |only
doBy-3.0/doBy/inst/doc/doBy.Rnw | 47
doBy-3.0/doBy/inst/doc/doBy.pdf | 2661 +++++++++++++++-----------------
doBy-3.0/doBy/man/summaryBy.Rd | 17
9 files changed, 2082 insertions(+), 1677 deletions(-)
Author: Jim Lemon
Diff between crank versions 0.9 dated 2008-01-15 and 1.0 dated 2008-05-21
Title: Completing ranks
Description: Functions for completing and recalculating rankings.
DESCRIPTION | 6 +++---
INDEX | 11 ++++++++++-
R/fillArows.R |only
R/getLWargs.R |only
R/listBuilder.R |only
R/listCrawler.R |only
R/lwscreen.R |only
R/muranks.R | 1 +
R/page.test.R |only
R/permute.R |only
man/fillArow.Rd |only
man/fillArows.Rd |only
man/getLWargs.Rd |only
man/listBuilder.Rd |only
man/listCrawler.Rd |only
man/lw.FriedmanTest.Rd |only
man/lwscreen.Rd |only
man/meanranks.Rd | 2 +-
man/muranks.Rd | 20 ++++++++++++++++++++
man/page.trend.test.Rd |only
man/permute.Rd |only
man/print.lwstat.Rd |only
man/print.page.trend.test.Rd |only
23 files changed, 35 insertions(+), 5 deletions(-)
Author: Karsten Tabelow
Diff between adimpro versions 0.6.2 dated 2008-05-20 and 0.6.3 dated 2008-05-21
Title: Adaptive Smoothing of Digital Images
Description: This package implements tools for manipulationg digital images and the Propagation Separation approach
by Polzehl and Spokoiny (2006) for smoothing digital images.
DESCRIPTION | 6 +++---
R/io.R | 33 +++++++++++++++++++++------------
R/misc.r | 4 ++++
README | 15 +++++++++++----
demo/awsimage.r | 4 ++++
demo/color.r | 4 ++++
demo/io.r | 5 ++++-
demo/manipulate.r | 5 ++++-
demo/raw.r | 4 ++++
man/adjust.image.Rd | 4 ++++
man/awsimage.Rd | 4 ++++
man/colorspace.Rd | 4 ++++
man/edges.Rd | 5 ++++-
man/imganiso2D.Rd | 4 ++++
man/plot.adimpro.Rd | 4 ++++
man/rotate.image.Rd | 4 ++++
man/show.image.Rd | 4 ++++
man/shrink.image.Rd | 4 ++++
18 files changed, 95 insertions(+), 22 deletions(-)
Author: S original by Rene Carmona
Diff between Rwave versions 1.24-1 dated 2008-05-02 and 1.24-2 dated 2008-05-21
Title: Time-Frequency analysis of 1-D signals
Description: Rwave is a library of R functions which provide an
environment for the Time-Frequency analysis of 1-D signals (and
especially for the wavelet and Gabor transforms of noisy signals).
It was originally written for Splus by Rene Carmona, Bruno Torresani,
and Wen L. Hwang, first at the University of California at Irvine and
then at Princeton University. Credit should also be given to Andrea
Wang whose functions on the dyadic wavelet transform are included.
Rwave is based on the book:
"Practical Time-Frequency Analysis: Gabor and Wavelet Transforms with
an Implementation in S", by Rene Carmona, Wen L. Hwang and Bruno
Torresani, Academic Press, 1998.
DESCRIPTION | 6 +++---
R/00util.R | 3 +--
R/Cwt_Morlet.R | 15 +++++----------
R/Cwt_Squeezing.R | 5 ++---
R/Cwt_Thierry.R | 9 +++------
R/Cwt_phase.R | 5 ++---
R/cwt_dog.R | 9 +++------
R/gRidge_Irregular.R | 2 +-
R/gRidge_Recons.R | 2 +-
R/gabor.R | 15 ++++-----------
R/mgabor.R | 5 ++---
R/radar.r | 7 +++----
R/recon2d.r | 7 +++----
R/skernel.r | 6 ++----
R/wv.R | 3 +--
src/Swave.h | 2 --
src/kernel.h | 1 -
17 files changed, 36 insertions(+), 66 deletions(-)
Author: Martyn Plummer
Title: Bayesian graphical models using MCMC
Description: Interface to the JAGS MCMC library
Diff between rjags versions 1.0.2-2 dated 2008-05-14 and 1.0.2-3 dated 2008-05-20
DESCRIPTION | 8 ++++---- R/windows/zzz.R.in | 51 ++++++++++++++++++++++++--------------------------- configure | 12 +++++++++++- configure.ac | 10 +++++++++- configure.ac.keep |only configure.ac.test |only configure.win | 3 --- 7 files changed, 48 insertions(+), 36 deletions(-)
Author: Karsten Tabelow
Diff between adimpro versions 0.6.1 dated 2008-05-19 and 0.6.2 dated 2008-05-20
Title: Adaptive Smoothing of Digital Images
Description: This package implements tools for manipulationg digital images and the Propagation Separation approach
by Polzehl and Spokoiny (2006) for smoothing digital images.
DESCRIPTION | 4 ++--
man/adimpro.Rd | 12 +-----------
man/develop.raw.Rd | 9 +--------
3 files changed, 4 insertions(+), 21 deletions(-)
Author: Josselin Noirel and Guido Sanguinetti
Title: Mixture Model on Graphs
Description: This package implements the Mixture Model on Graphs
developed in Sanguinetti et al., Bioinformatics 2008. The
graph structure is used to infer quantities that were not
measured, based on the neighbours' measurements. This approach
was developed to address problems typical of Quantitative
Proteomics but could be applicable to many other domains.
Diff between MMG versions 1.2.1 dated 2008-05-16 and 1.2.2 dated 2008-05-20
CHANGES | 6 DESCRIPTION | 5 R/MMG.compute.R | 2 R/MMG.cut.graph.R | 2 R/MMG.make.dot.R | 2 inst/.DS_Store |only inst/doc/MMG.Rnw | 22 +- inst/doc/MMG.pdf | 455 +++++++++++++++++++++++++--------------------------- inst/doc/nostoc.dot | 16 - inst/doc/test1.dot | 4 inst/doc/test2.dot | 8 man/MMG-package.Rd | 4 src/MMG_compute.c | 2 src/MMG_cut_graph.c | 2 src/MMG_make_dot.c | 2 15 files changed, 266 insertions(+), 266 deletions(-)
Author: Hsin-ya Lee
Diff between stab versions 0.0.1 dated 2008-05-02 and 0.0.2 dated 2008-05-20
Title: data analysis of drug stability
Description: A menu-driven package for data analysis of drug stability based on ICH guideline(such as estimation of shelf-life from a 3-batch profile.)
DESCRIPTION | 6 ++--
R/MultipleAnalyze.r | 63 +++++++++++++++++++++++-----------------------------
R/zzz.R | 2 -
3 files changed, 32 insertions(+), 39 deletions(-)
Author: Ben B. Hansen
Diff between optmatch versions 0.3-9 dated 2008-05-14 and 0.4-0 dated 2008-05-20
Title: Functions for optimal matching
Description: Functions to perform optimal matching, particularly full matching
ChangeLog | 5 +-
DESCRIPTION | 6 +-
NAMESPACE | 1
R/moremethods.optmatch.R |only
R/stratumStructure.R | 6 ++
inst/doc/optmatch.pdf |binary
man/stratumStructure.Rd | 63 +++++++++++++++++++++++++++--
tests/moremethods.optmatch-tests.R |only
tests/moremethods.optmatch-tests.Rout.save |only
tests/stratumStructure-tests.R |only
tests/stratumStructure-tests.Rout.save |only
11 files changed, 74 insertions(+), 7 deletions(-)
Author: Trent McDonald
Title: Analysis of Mark-Recapture data
Description: Analysis of mark-recapture (capture-recapture) data using individual, time, and individual-time varying covariates. Version 1.X contains functions to estimate live-capture Cormack-Jolly-Seber open population models.
Diff between mra versions 1.1 dated 2007-11-20 and 1.2 dated 2008-05-20
DESCRIPTION | 6 +++--- R/residuals.cjs.R | 2 +- man/F.cjs.covars.Rd | 13 +++++++------ man/F.cjs.estim.Rd | 13 +++++++------ 4 files changed, 18 insertions(+), 16 deletions(-)
Author: S original by David James
Diff between chron versions 2.3-22 dated 2008-03-04 and 2.3-23 dated 2008-05-20
Title: Chronological objects which can handle dates and times
Description: Chronological objects which can handle dates and times
ChangeLog | 11 +++++++++++
DESCRIPTION | 6 +++---
R/dates.R | 6 +++++-
inst/CITATION | 3 ++-
4 files changed, 21 insertions(+), 5 deletions(-)
Author: Bettina Gruen
Title: Bayesian Mixture Models with JAGS
Description: Bayesian mixture models of univariate Gaussian distributions using JAGS
Diff between bayesmix versions 0.5-4 dated 2007-04-11 and 0.6-0 dated 2008-05-20
DESCRIPTION | 16 ++++++++-------- NEWS | 8 ++++++-- R/AAA.R | 2 +- R/BMMmodel.R | 11 ++++++----- R/BMMpriors.R | 16 ++++++++-------- R/Inits.R | 8 ++++---- R/JAGScall.R | 35 ++++++++++------------------------- R/JAGScontrol.R | 18 +++++++++++------- R/JAGSrun.R | 12 ++++++------ R/Sort.R | 4 ++-- R/plots.R | 12 ++++++------ R/randomPermutation.R | 2 +- man/BMMpriors.Rd | 3 ++- man/JAGScontrol.Rd | 5 ++++- man/darwin.Rd | 2 +- man/priors.Rd | 5 +++-- 16 files changed, 79 insertions(+), 80 deletions(-)
Author: Aaron A. King, Rick Reeves
Title: Subplex optimization algorithm
Description: The subplex algorithm for unconstrained optimization, developed by Tom Rowan.
Diff between subplex versions 1.0-10 dated 2007-12-05 and 1.0-11 dated 2008-05-19
DESCRIPTION | 6 +++--- src/call_subplex.c | 5 ++--- 2 files changed, 5 insertions(+), 6 deletions(-)
Author: Andrew Parnell
Title: Stable Isotope Analysis in R
Description: This package takes data on organism isotopes and fits a Bayesian model to their dietary habits based upon a Gaussian likelihood with a mixture dirichlet-distributed prior on the mean.
Diff between siar versions 2.2 dated 2008-04-10 and 3.1 dated 2008-05-19
siar-2.2/siar/R/loadsiardata.R |only siar-2.2/siar/data/allgroups.rda |only siar-2.2/siar/data/correctionsdemo.rda |only siar-2.2/siar/data/geese1demo.rda |only siar-2.2/siar/data/geese2demo.rda |only siar-2.2/siar/data/sourcesdemo.rda |only siar-2.2/siar/man/loadsiardata.Rd |only siar-2.2/siar/src/siarmcmcmultigroupdirichlet.c |only siar-3.1/siar/DESCRIPTION | 6 siar-3.1/siar/NAMESPACE | 2 siar-3.1/siar/R/correctionsdemo.R | 6 siar-3.1/siar/R/siardemo.R | 2 siar-3.1/siar/R/siarelicit.r |only siar-3.1/siar/R/siarhdrs.R | 14 - siar-3.1/siar/R/siarloaddata.R |only siar-3.1/siar/R/siarmcmcdirichlet.R | 6 siar-3.1/siar/R/siarmenu.R | 19 - siar-3.1/siar/R/siarplotdata.r | 270 +++++++++++++++++++----- siar-3.1/siar/R/siarproportionbysourceplot.R | 5 siar-3.1/siar/R/siarsaveoutput.R | 2 siar-3.1/siar/data/correctionsdemo.txt | 8 siar-3.1/siar/man/correctionsdemo.Rd | 14 - siar-3.1/siar/man/siar-package.Rd | 4 siar-3.1/siar/man/siarelicit.Rd |only siar-3.1/siar/man/siarloaddata.Rd |only siar-3.1/siar/man/siarmcmcdirichlet.Rd | 5 siar-3.1/siar/man/siarplotdata.Rd | 17 + siar-3.1/siar/src/siarmcmcv3.c |only siar-3.1/siar/src/use.c | 187 ++++++++++++++++ siar-3.1/siar/src/use.h | 5 30 files changed, 475 insertions(+), 97 deletions(-)
Author: Brian J. Smith
Diff between ramps versions 0.6-2 dated 2008-03-25 and 0.6-3 dated 2008-05-19
Title: Bayesian Geostatistical Modeling with RAMPS
Description: Bayesian geostatistical modeling of Gaussian processes using a reparameterized and marginalized posterior sampling (RAMPS) algorithm designed to lower autocorrelation in MCMC samples. Package performance is tuned for large spatial datasets.
ramps-0.6-2/ramps/man/corRRatio.Rd |only
ramps-0.6-3/ramps/DESCRIPTION | 8 -
ramps-0.6-3/ramps/NAMESPACE | 10 -
ramps-0.6-3/ramps/R/corStruct.R | 251 +++++++++-------------------------
ramps-0.6-3/ramps/R/engine.R | 2
ramps-0.6-3/ramps/R/predict.R | 2
ramps-0.6-3/ramps/R/utils.R | 27 +++
ramps-0.6-3/ramps/inst/CITATION | 6
ramps-0.6-3/ramps/man/DIC.Rd | 3
ramps-0.6-3/ramps/man/corClasses.Rd | 4
ramps-0.6-3/ramps/man/corRCauchy.Rd |only
ramps-0.6-3/ramps/man/corRExp2.Rd | 2
ramps-0.6-3/ramps/man/corRExpwr.Rd | 2
ramps-0.6-3/ramps/man/corRExpwr2.Rd | 4
ramps-0.6-3/ramps/man/corRExpwr2Dt.Rd | 2
ramps-0.6-3/ramps/man/corRMatern.Rd | 4
ramps-0.6-3/ramps/man/georamps.Rd | 2
ramps-0.6-3/ramps/man/simJSS.Rd | 2
18 files changed, 121 insertions(+), 210 deletions(-)
Author: Robert B. Gramacy
Diff between monomvn versions 1.1-4 dated 2007-11-11 and 1.2 dated 2008-05-19
Title: Estimation for multivariate normal data with monotone missingness
Description: Estimation of multivariate normal data of arbitrary dimension
where the pattern of missing data is monotone. Through the use of
parsimonious/shrinkage regressions (plsr, pcr, lasso, ridge, etc.),
where standard regressions fail, the package can handle an
(almost) arbitrary amount of missing data. The current version
supports maximum likelihood inference and an alpha implementation
of a Bayesian version employing a Bayesian lasso. A fully
functional standalone (alpha) interface to the Bayesian lasso
(from Park & Casella) is also provided
monomvn-1.1-4/monomvn/CHANGES |only
monomvn-1.1-4/monomvn/R/print.monomvn.R |only
monomvn-1.1-4/monomvn/R/summary.monomvn.R |only
monomvn-1.1-4/monomvn/man/summary.monomvn.Rd |only
monomvn-1.2/monomvn/ChangeLog |only
monomvn-1.2/monomvn/DESCRIPTION | 16 ++--
monomvn-1.2/monomvn/INDEX | 21 ++++-
monomvn-1.2/monomvn/R/addy.R | 24 ++++++
monomvn-1.2/monomvn/R/blasso.R |only
monomvn-1.2/monomvn/R/blasso.s3.R |only
monomvn-1.2/monomvn/R/bmonomvn.R |only
monomvn-1.2/monomvn/R/gamma.R |only
monomvn-1.2/monomvn/R/kl.norm.R | 30 +++++++-
monomvn-1.2/monomvn/R/monomvn.R | 28 +++++++
monomvn-1.2/monomvn/R/monomvn.s3.R |only
monomvn-1.2/monomvn/R/posdef.approx.R | 24 ++++++
monomvn-1.2/monomvn/R/randmvn.R | 26 +++++++
monomvn-1.2/monomvn/R/regress.R | 95 ++++++++++++++++++++++-----
monomvn-1.2/monomvn/R/regress.lars.R | 24 ++++++
monomvn-1.2/monomvn/R/regress.ls.R | 24 ++++++
monomvn-1.2/monomvn/R/regress.pls.R | 24 ++++++
monomvn-1.2/monomvn/R/regress.ridge.R | 24 ++++++
monomvn-1.2/monomvn/R/rmono.R | 24 ++++++
monomvn-1.2/monomvn/R/zzz.R |only
monomvn-1.2/monomvn/man/blasso.Rd |only
monomvn-1.2/monomvn/man/blasso.s3.Rd |only
monomvn-1.2/monomvn/man/bmonomvn.Rd |only
monomvn-1.2/monomvn/man/kl.norm.Rd | 6 +
monomvn-1.2/monomvn/man/monomvn-internal.Rd | 3
monomvn-1.2/monomvn/man/monomvn-package.Rd | 9 +-
monomvn-1.2/monomvn/man/monomvn.Rd | 36 ++++++----
monomvn-1.2/monomvn/man/monomvn.s3.Rd |only
monomvn-1.2/monomvn/man/posdef.approx.Rd | 2
monomvn-1.2/monomvn/man/regress.Rd |only
monomvn-1.2/monomvn/src |only
35 files changed, 387 insertions(+), 53 deletions(-)
Author: Karsten Tabelow
Diff between fmri versions 1.2-5 dated 2008-03-28 and 1.2-6 dated 2008-05-19
Title: Analysis of fMRI experiments
Description: The library contains R-functions to perform an fmri analysis
as described in
Tabelow, K., Polzehl, J., Voss, H.U., and Spokoiny, V.
Analysing fMRI experiments with structure adaptive smoothing procedures,
NeuroImage, 33:55-62 (2006).
BUGS | 5
DESCRIPTION | 6
HISTORY | 7 +
NAMESPACE | 4
R/fmri.R | 338 ++++++++++++++++++++++++++++++++++++++++++++++-----
R/io.R | 239 ++++++++++++++++++++++++++++++------
R/lm.R | 11 +
man/cutroi.Rd |only
man/extract.data.Rd | 4
man/fmriica.Rd | 3
man/plot.fmridata.Rd | 9 +
11 files changed, 543 insertions(+), 83 deletions(-)
Author: Robin K. S. Hankin
Title: Continued fractions
Description: Various utilities for evaluating continued fractions
Diff between contfrac versions 1.1-2 dated 2008-04-24 and 1.1-4 dated 2008-05-19
DESCRIPTION | 4 ++-- man/CF.Rd | 4 ++-- 2 files changed, 4 insertions(+), 4 deletions(-)
Author: Karsten Tabelow
Diff between adimpro versions 0.4.4 dated 2007-11-23 and 0.6.1 dated 2008-05-19
Title: Adaptive Smoothing of Digital Images
Description: This package implements tools for manipulationg digital images and the Propagation Separation approach
by Polzehl and Spokoiny (2006) for smoothing digital images.
BUGS |only
DESCRIPTION | 11
NAMESPACE | 7
R/aniso.r |only
R/awsimage.r | 398 +++++--
R/camera.R |only
R/color.R | 432 ++++++--
R/edges.R | 53 -
R/io.R | 599 ++++++++---
R/misc.r | 39
README | 80 +
demo |only
inst/img/rawimage.png |only
inst/img/wias-noise.ppm |binary
inst/img/wias.ppm | 2511 ------------------------------------------------
man/adimpro.Rd | 57 -
man/adjust.image.Rd | 38
man/awsimage.Rd | 44
man/clip.image.Rd | 6
man/colorspace.Rd | 19
man/develop.raw.Rd |only
man/edges.Rd | 19
man/extract.image.Rd | 4
man/extract.info.Rd |only
man/extract.ni.Rd | 4
man/imganiso2D.Rd |only
man/mask.create.Rd | 2
man/plot.adimpro.Rd | 25
man/rotate.image.Rd | 8
man/show.image.Rd | 53 -
man/shrink.image.Rd | 2
man/summary.adimpro.Rd | 2
man/write.image.Rd | 57 -
man/write.raw.Rd |only
src/aniso.f |only
src/awsimage.f | 284 +++--
src/awspimage.f | 47
src/demosaic.f |only
38 files changed, 1681 insertions(+), 3120 deletions(-)
Author: Robin K. S. Hankin
Title: electrical properties of resistor networks
Description: electrical properties of resistor networks.
Diff between ResistorArray versions 1.0-18 dated 2007-10-04 and 1.0-20 dated 2008-05-19
DESCRIPTION | 6 +++--- R/ResistorArray.R | 9 +++++---- man/Wu.Rd | 2 +- man/array.resistance.Rd | 10 +++++----- man/cube.Rd | 15 +++++++-------- man/currents.Rd | 2 +- man/ladder.Rd | 28 +++++++++++++++++++--------- man/platonic.Rd | 2 +- man/resistance.Rd | 34 +++++++++++++++++++--------------- man/series.Rd | 7 +++---- 10 files changed, 64 insertions(+), 51 deletions(-)
Author: Markus Gesmann
Title: Mack- and Munich-chain-ladder methods for insurance claims reserving
Description: The package contains the Mack- and Munich-chain-ladder methods which are used in insurance claims reserving exercise.
Diff between ChainLadder versions 0.1.1-4 dated 2008-05-16 and 0.1.1-5 dated 2008-05-19
ChangeLog | 14 ++++++++++---- DESCRIPTION | 6 +++--- R/MackChainLadderFunctions.R | 25 ++++++++++++++++--------- inst/Excel/ChainLadder_in_Excel.xls |binary 4 files changed, 29 insertions(+), 16 deletions(-)
Author: Aaron A. King, Edward L. Ionides, Carles Martinez Breto
Title: Partially-observed Markov processes
Description: Inference methods for partially-observed Markov processes
Diff between pomp versions 0.18-3 dated 2008-05-14 and 0.19-1 dated 2008-05-19
pomp-0.18-3/pomp/inst/doc/random_walk.Rnw |only pomp-0.18-3/pomp/inst/doc/random_walk.pdf |only pomp-0.19-1/pomp/DESCRIPTION | 6 pomp-0.19-1/pomp/NAMESPACE | 7 pomp-0.19-1/pomp/R/dmeasure-pomp.R | 42 -- pomp-0.19-1/pomp/R/dprocess-pomp.R | 36 - pomp-0.19-1/pomp/R/init.state-pomp.R | 34 - pomp-0.19-1/pomp/R/mif.R | 376 ++++++++++---------- pomp-0.19-1/pomp/R/pfilter.R | 8 pomp-0.19-1/pomp/R/pomp-methods.R | 8 pomp-0.19-1/pomp/R/pomp.R | 2 pomp-0.19-1/pomp/R/rmeasure-pomp.R | 34 - pomp-0.19-1/pomp/R/rprocess-pomp.R | 24 - pomp-0.19-1/pomp/R/simulate-pomp.R | 2 pomp-0.19-1/pomp/data/ou2.rda |binary pomp-0.19-1/pomp/inst/doc/Makefile | 4 pomp-0.19-1/pomp/inst/doc/compiled_code_in_pomp.Rnw | 36 + pomp-0.19-1/pomp/inst/doc/compiled_code_in_pomp.pdf |binary pomp-0.19-1/pomp/inst/doc/intro_to_pomp.Rnw |only pomp-0.19-1/pomp/inst/doc/intro_to_pomp.pdf |only pomp-0.19-1/pomp/man/dmeasure-pomp.Rd | 2 pomp-0.19-1/pomp/man/dprocess-pomp.Rd | 2 pomp-0.19-1/pomp/man/euler.Rd | 1 pomp-0.19-1/pomp/man/eulermultinom.Rd | 5 pomp-0.19-1/pomp/man/init.state-pomp.Rd | 11 pomp-0.19-1/pomp/man/mif-class.Rd | 2 pomp-0.19-1/pomp/man/mif-methods.Rd | 12 pomp-0.19-1/pomp/man/mif.Rd | 110 ++--- pomp-0.19-1/pomp/man/pomp-class.Rd | 7 pomp-0.19-1/pomp/man/pomp-package.Rd | 39 -- pomp-0.19-1/pomp/man/pomp.Rd | 250 ++++++++++--- pomp-0.19-1/pomp/man/rmeasure-pomp.Rd | 2 pomp-0.19-1/pomp/man/rprocess-pomp.Rd | 2 pomp-0.19-1/pomp/man/simulate-pomp.Rd | 2 pomp-0.19-1/pomp/src/dmeasure.c |only pomp-0.19-1/pomp/src/dprocess.c |only pomp-0.19-1/pomp/src/initstate.c |only pomp-0.19-1/pomp/src/rmeasure.c |only pomp-0.19-1/pomp/src/rprocess.c |only 39 files changed, 537 insertions(+), 529 deletions(-)
Author: Chris Fraley and Adrian Raftery
Title: Model-Based Clustering / Normal Mixture Modeling
Description: Model-based clustering and normal mixture modeling
including Bayesian regularization
Diff between mclust versions 3.1-4 dated 2008-05-16 and 3.1-5 dated 2008-05-19
DESCRIPTION | 4 ++-- R/mclust.R | 8 ++++---- 2 files changed, 6 insertions(+), 6 deletions(-)
Author: Deepayan Sarkar
Diff between latticeExtra versions 0.3-1 dated 2007-10-21 and 0.4-1 dated 2008-05-19
Title: Extra Graphical Utilities Based on Lattice
Description: Extra graphical utilities based on lattice
DESCRIPTION | 6 +++---
NAMESPACE | 2 ++
R/mapplot.R | 2 +-
R/segplot.R |only
man/mapplot.Rd | 2 +-
man/panel.segplot.Rd |only
man/segplot.Rd |only
7 files changed, 7 insertions(+), 5 deletions(-)
Author: Deepayan Sarkar
Diff between lattice versions 0.17-7 dated 2008-05-03 and 0.17-8 dated 2008-05-19
Title: Lattice Graphics
Description: Implementation of Trellis Graphics. See ?Lattice for a
brief introduction
DESCRIPTION | 6 +++---
R/histogram.R | 2 +-
man/xyplot.Rd | 21 ++++++++++++++++-----
3 files changed, 20 insertions(+), 9 deletions(-)
Author: Michael Lawrence, John Verzani
Title: Toolkit implementation of gWidgets for RGtk2
Description: Port of gWidgets API to RGtk2
Diff between gWidgetsRGtk2 versions 0.0-33 dated 2008-05-04 and 0.0-34 dated 2008-05-19
ChangeLog | 8 ++++ DESCRIPTION | 4 +- NEWS | 6 +++ R/aaaGenerics.R | 39 +++++++++++---------- R/gcheckboxgroup.R | 68 +++++++++++++++++++++++++++++++++++--- man/gWidgetsRGtk2-undocumented.Rd | 3 + 6 files changed, 103 insertions(+), 25 deletions(-)
Author: Chris Fraley, Adrian E. Raftery, J. McLean Sloughter,
Tilmann Gneiting, Michael Polakowski, University of Washington
Title: Probabilistic Forecasting using Ensembles and Bayesian Model Averaging
Description: Bayesian Model Averaging to create probabilistic
forecasts from ensemble forecasts and weather observations.
Diff between ensembleBMA versions 2.1 dated 2007-08-25 and 3.0-0 dated 2008-05-19
ensembleBMA-2.1/ensembleBMA/R/bmaModelParameters.R |only ensembleBMA-2.1/ensembleBMA/R/bmaModelParameters.ensembleBMAgamma0.R |only ensembleBMA-2.1/ensembleBMA/R/bmaModelParameters.ensembleBMAnormal.R |only ensembleBMA-2.1/ensembleBMA/R/bmaModelParameters.fitBMAgamma0.R |only ensembleBMA-2.1/ensembleBMA/R/bmaModelParameters.fitBMAnormal.R |only ensembleBMA-2.1/ensembleBMA/R/cdfBMA.R |only ensembleBMA-2.1/ensembleBMA/R/cdfBMA.ensembleBMAgamma0.R |only ensembleBMA-2.1/ensembleBMA/R/cdfBMA.ensembleBMAnormal.R |only ensembleBMA-2.1/ensembleBMA/R/cdfBMA.fitBMAgamma0.R |only ensembleBMA-2.1/ensembleBMA/R/cdfBMA.fitBMAnormal.R |only ensembleBMA-2.1/ensembleBMA/R/gamma0BMAcdf.R |only ensembleBMA-2.1/ensembleBMA/R/gamma0BMAquant.R |only ensembleBMA-2.1/ensembleBMA/R/normalBMAcdf.R |only ensembleBMA-2.1/ensembleBMA/R/normalBMAquant.R |only ensembleBMA-2.1/ensembleBMA/R/plotBMAforecast.R |only ensembleBMA-2.1/ensembleBMA/R/precipitationData.R |only ensembleBMA-2.1/ensembleBMA/R/pressureData.R |only ensembleBMA-2.1/ensembleBMA/R/quantileForecastBMA.R |only ensembleBMA-2.1/ensembleBMA/R/quantileForecastBMA.ensembleBMAgamma0.R |only ensembleBMA-2.1/ensembleBMA/R/quantileForecastBMA.ensembleBMAnormal.R |only ensembleBMA-2.1/ensembleBMA/R/quantileForecastBMA.fitBMAgamma0.R |only ensembleBMA-2.1/ensembleBMA/R/quantileForecastBMA.fitBMAnormal.R |only ensembleBMA-2.1/ensembleBMA/R/temperatureData.R |only ensembleBMA-2.1/ensembleBMA/man/bmaModelParameters.Rd |only ensembleBMA-2.1/ensembleBMA/man/cdfBMA.Rd |only ensembleBMA-2.1/ensembleBMA/man/plotBMAforecast.Rd |only ensembleBMA-2.1/ensembleBMA/man/quantileForecastBMA.Rd |only ensembleBMA-3.0-0/ensembleBMA/DESCRIPTION | 12 ensembleBMA-3.0-0/ensembleBMA/R/brierScore.R | 2 ensembleBMA-3.0-0/ensembleBMA/R/brierScore.ensembleBMAgamma0.R | 169 ++--- ensembleBMA-3.0-0/ensembleBMA/R/brierScore.ensembleBMAnormal.R | 138 ++-- ensembleBMA-3.0-0/ensembleBMA/R/brierScore.fitBMAgamma0.R | 117 +--- ensembleBMA-3.0-0/ensembleBMA/R/brierScore.fitBMAnormal.R | 99 ++- ensembleBMA-3.0-0/ensembleBMA/R/cdf.R |only ensembleBMA-3.0-0/ensembleBMA/R/cdf.ensembleBMAgamma.R |only ensembleBMA-3.0-0/ensembleBMA/R/cdf.ensembleBMAgamma0.R |only ensembleBMA-3.0-0/ensembleBMA/R/cdf.ensembleBMAnormal.R |only ensembleBMA-3.0-0/ensembleBMA/R/cdf.fitBMAgamma0.R |only ensembleBMA-3.0-0/ensembleBMA/R/cdf.fitBMAnormal.R |only ensembleBMA-3.0-0/ensembleBMA/R/cdfBMAgamma0.R |only ensembleBMA-3.0-0/ensembleBMA/R/cdfBMAnormal.R |only ensembleBMA-3.0-0/ensembleBMA/R/crps.R | 5 ensembleBMA-3.0-0/ensembleBMA/R/crps.ensembleBMAgamma0.R | 240 +++----- ensembleBMA-3.0-0/ensembleBMA/R/crps.ensembleBMAnormal.R | 191 +++--- ensembleBMA-3.0-0/ensembleBMA/R/crps.fitBMAgamma0.R | 158 +---- ensembleBMA-3.0-0/ensembleBMA/R/crps.fitBMAnormal.R | 108 +-- ensembleBMA-3.0-0/ensembleBMA/R/crpsNormal.R | 33 - ensembleBMA-3.0-0/ensembleBMA/R/dateCheck.R |only ensembleBMA-3.0-0/ensembleBMA/R/ensembleBMA.R | 39 - ensembleBMA-3.0-0/ensembleBMA/R/ensembleBMAgamma0.R | 172 +++--- ensembleBMA-3.0-0/ensembleBMA/R/ensembleBMAnormal.R | 201 ++++--- ensembleBMA-3.0-0/ensembleBMA/R/ensembleData.R | 8 ensembleBMA-3.0-0/ensembleBMA/R/fitBMA.R | 28 ensembleBMA-3.0-0/ensembleBMA/R/fitBMAgamma0.R | 282 ++++------ ensembleBMA-3.0-0/ensembleBMA/R/fitBMAnormal.R | 113 ++-- ensembleBMA-3.0-0/ensembleBMA/R/inverseLogit.R |only ensembleBMA-3.0-0/ensembleBMA/R/julTOymdh.R |only ensembleBMA-3.0-0/ensembleBMA/R/mae.R | 5 ensembleBMA-3.0-0/ensembleBMA/R/mae.ensembleBMAgamma0.R | 251 +++----- ensembleBMA-3.0-0/ensembleBMA/R/mae.ensembleBMAnormal.R | 223 +++---- ensembleBMA-3.0-0/ensembleBMA/R/mae.fitBMAgamma0.R | 171 +----- ensembleBMA-3.0-0/ensembleBMA/R/mae.fitBMAnormal.R | 169 +---- ensembleBMA-3.0-0/ensembleBMA/R/matchEnsembleMembers.R | 35 - ensembleBMA-3.0-0/ensembleBMA/R/matchEnsembleMembers.ensembleBMAgamma0.R |only ensembleBMA-3.0-0/ensembleBMA/R/matchEnsembleMembers.ensembleBMAnormal.R |only ensembleBMA-3.0-0/ensembleBMA/R/matchEnsembleMembers.fitBMAgamma0.R |only ensembleBMA-3.0-0/ensembleBMA/R/matchEnsembleMembers.fitBMAnormal.R |only ensembleBMA-3.0-0/ensembleBMA/R/modelParameters.R |only ensembleBMA-3.0-0/ensembleBMA/R/modelParameters.ensembleBMAgamma0.R |only ensembleBMA-3.0-0/ensembleBMA/R/modelParameters.ensembleBMAnormal.R |only ensembleBMA-3.0-0/ensembleBMA/R/modelParameters.fitBMAgamma0.R |only ensembleBMA-3.0-0/ensembleBMA/R/modelParameters.fitBMAnormal.R |only ensembleBMA-3.0-0/ensembleBMA/R/plotProbcast.R |only ensembleBMA-3.0-0/ensembleBMA/R/quantBMAgamma0.R |only ensembleBMA-3.0-0/ensembleBMA/R/quantBMAnormal.R |only ensembleBMA-3.0-0/ensembleBMA/R/quantileForecast.R |only ensembleBMA-3.0-0/ensembleBMA/R/quantileForecast.ensembleBMAgamma.R |only ensembleBMA-3.0-0/ensembleBMA/R/quantileForecast.ensembleBMAgamma0.R |only ensembleBMA-3.0-0/ensembleBMA/R/quantileForecast.ensembleBMAnormal.R |only ensembleBMA-3.0-0/ensembleBMA/R/quantileForecast.fitBMAgamma0.R |only ensembleBMA-3.0-0/ensembleBMA/R/quantileForecast.fitBMAnormal.R |only ensembleBMA-3.0-0/ensembleBMA/R/subset.ensembleData.R | 55 + ensembleBMA-3.0-0/ensembleBMA/R/trainingControl.R |only ensembleBMA-3.0-0/ensembleBMA/R/trainingData.R | 21 ensembleBMA-3.0-0/ensembleBMA/R/ymdhTOjul.R |only ensembleBMA-3.0-0/ensembleBMA/data/prcpTest.rda |binary ensembleBMA-3.0-0/ensembleBMA/man/brierScore.Rd | 43 - ensembleBMA-3.0-0/ensembleBMA/man/cdf.Rd |only ensembleBMA-3.0-0/ensembleBMA/man/controlBMAgamma0.Rd | 5 ensembleBMA-3.0-0/ensembleBMA/man/controlBMAnormal.Rd | 3 ensembleBMA-3.0-0/ensembleBMA/man/crps.Rd | 47 - ensembleBMA-3.0-0/ensembleBMA/man/dateCheck.Rd |only ensembleBMA-3.0-0/ensembleBMA/man/ensembleBMA.Rd | 70 -- ensembleBMA-3.0-0/ensembleBMA/man/ensembleBMAgamma0.Rd | 60 -- ensembleBMA-3.0-0/ensembleBMA/man/ensembleBMAnormal.Rd | 39 - ensembleBMA-3.0-0/ensembleBMA/man/ensembleData.Rd | 29 - ensembleBMA-3.0-0/ensembleBMA/man/fitBMA.Rd | 45 - ensembleBMA-3.0-0/ensembleBMA/man/fitBMAgamma0.Rd | 51 - ensembleBMA-3.0-0/ensembleBMA/man/fitBMAnormal.Rd | 19 ensembleBMA-3.0-0/ensembleBMA/man/julTOymdh.Rd |only ensembleBMA-3.0-0/ensembleBMA/man/mae.Rd | 66 +- ensembleBMA-3.0-0/ensembleBMA/man/modelParameters.Rd |only ensembleBMA-3.0-0/ensembleBMA/man/plotProbcast.Rd |only ensembleBMA-3.0-0/ensembleBMA/man/prcpDJdata.Rd | 2 ensembleBMA-3.0-0/ensembleBMA/man/prcpFit.Rd | 6 ensembleBMA-3.0-0/ensembleBMA/man/prcpGrid.Rd | 2 ensembleBMA-3.0-0/ensembleBMA/man/prcpTest.Rd | 3 ensembleBMA-3.0-0/ensembleBMA/man/quantileForecast.Rd |only ensembleBMA-3.0-0/ensembleBMA/man/slpTest.Rd | 5 ensembleBMA-3.0-0/ensembleBMA/man/srft.Rd | 3 ensembleBMA-3.0-0/ensembleBMA/man/trainingControl.Rd |only ensembleBMA-3.0-0/ensembleBMA/man/trainingData.Rd | 25 ensembleBMA-3.0-0/ensembleBMA/man/ymdhTOjul.Rd |only 113 files changed, 1631 insertions(+), 1937 deletions(-)
Author: Carla Freitas
Title: Argos locations filter
Description: Functions to filters animal satellite tracking data obtained from Argos. It is especially indicated for telemetry studies of marine animals, where Argos locations are predominantly of low-quality.
Diff between argosfilter versions 0.5 dated 2007-12-07 and 0.6 dated 2008-05-19
DESCRIPTION | 8 +++--- R/dist.next.R | 1 R/dist.prev.R | 1 R/sdafilter.R | 54 ++++++++++++++++++++++----------------------- R/vmask.R | 30 ++++++++++++------------- man/argosfilter-package.Rd | 8 +++--- man/sdafilter.Rd | 10 ++++---- 7 files changed, 55 insertions(+), 57 deletions(-)
Author: Felix Wittmann
Diff between HFWutils versions 0.8.2007.09.16 dated 2007-09-21 and 0.9.2008.05.17 dated 2008-05-19
Title: csv import, csv export, garbage collection,string matching and passing by reference
Description: package containing functions for convenient csv import and export with a view of using R as a calculation back end to spreadsheet-like programs such as scalc in open office; string matching and passing by reference
DESCRIPTION | 25 ++++++++++++-------------
NAMESPACE | 6 ++++++
R/export_R2X_Files.r |only
R/import_X2R_Files.r |only
R/inst.r | 10 ++++++----
R/read.write.csv.r |only
chm |only
man/export_R2X_Files.Rd |only
man/import_X2R_Files.Rd |only
9 files changed, 24 insertions(+), 17 deletions(-)
Author: Roger Bivand
Diff between spdep versions 0.4-20 dated 2008-03-25 and 0.4-21 dated 2008-05-16
Title: Spatial dependence: weighting schemes, statistics and models
Description: A collection of functions to create spatial weights matrix
objects from polygon contiguities, from point patterns by distance and
tesselations, for summarising these objects, and for permitting their
use in spatial data analysis; a collection of tests for spatial
autocorrelation, including global Moran's I, Geary's C, Hubert/Mantel
general cross product statistic, Empirical Bayes estimates and Assunçăo/Reis
Index, Getis/Ord G and multicoloured join count statistics,
local Moran's I and Getis/Ord G, saddlepoint approximations and exact
tests for global and local Moran's I; and functions for estimating
spatial simultaneous autoregressive (SAR) lag and error models,
weighted and unweighted SAR and CAR spatial regression models,
semi-parametric and Moran eigenvector spatial filtering, GM SAR error
models, and generalized spatial two stage least squares models.
spdep-0.4-20/spdep/inst/doc/Fig-bitmap-1.pdf |only
spdep-0.4-20/spdep/inst/doc/Rplots.ps |only
spdep-0.4-20/spdep/inst/doc/sids-010.eps |only
spdep-0.4-20/spdep/inst/doc/sids-010.pdf |only
spdep-0.4-20/spdep/inst/doc/sids.tex |only
spdep-0.4-21/spdep/ChangeLog | 102 +++++++++++++++++++++++++++
spdep-0.4-21/spdep/DESCRIPTION | 8 +-
spdep-0.4-21/spdep/R/localmoran.R | 9 +-
spdep-0.4-21/spdep/R/spautolm.R | 50 ++++++-------
spdep-0.4-21/spdep/inst/ChangeLog | 102 +++++++++++++++++++++++++++
spdep-0.4-21/spdep/inst/doc/sids.pdf |binary
spdep-0.4-21/spdep/man/errorsarlm.Rd | 2
spdep-0.4-21/spdep/man/globalG.test.Rd | 4 -
spdep-0.4-21/spdep/man/lagsarlm.Rd | 3
spdep-0.4-21/spdep/man/localmoran.Rd | 8 +-
spdep-0.4-21/spdep/man/spautolm.Rd | 11 +-
spdep-0.4-21/spdep/oChangelog |only
spdep-0.4-21/spdep/svn2cl.xsl |only
18 files changed, 255 insertions(+), 44 deletions(-)
Author: Adrian Baddeley
Diff between spatstat versions 1.13-1 dated 2008-04-24 and 1.13-2 dated 2008-05-16
Title: Spatial Point Pattern analysis, model-fitting, simulation, tests
Description: A package for analysing spatial data,
mainly Spatial Point Patterns, including multitype/marked points
and spatial covariates, in any two-dimensional spatial region.
Contains functions for plotting spatial data,
exploratory data analysis, model-fitting, simulation,
spatial sampling, model diagnostics,
and formal inference. Data types include point patterns,
line segment patterns, spatial windows, and
pixel images. Point process models can be
fitted to point pattern data. Cluster type models are fitted
by the method of minimum contrast. Very general Gibbs point
process models can be fitted to point pattern data
using a function ppm similar to lm or glm. Models may
include dependence on covariates, interpoint interaction
and dependence on marks. Fitted models can be simulated automatically.
Also provides facilities for formal inference (such as chi-squared
tests) and model diagnostics (including simulation
envelopes, residuals, residual plots and Q-Q plots).
DESCRIPTION | 6 -
INDEX | 8 +
R/Gmulti.S | 20 ++--
R/Jmulti.S | 24 ++++-
R/Kmulti.S | 95 +++++++++++++++++++---
R/alltypes.R | 209 ++++++++++++++++++++++++++-----------------------
R/envelope.R | 79 +++++++++++++-----
R/eval.fasp.R |only
R/eval.fv.R | 9 +-
R/fasp.R | 12 +-
R/fv.R | 114 ++++++++++++++++++++++++++
R/random.S | 40 ++++++++-
demo/spatstat.R | 7 +
man/00spatstat.Rd | 6 +
man/Lcross.Rd |only
man/Ldot.Rd |only
man/alltypes.Rd | 147 +++++++++++++++++++---------------
man/compatible.fasp.Rd |only
man/envelope.Rd | 14 ++-
man/eval.fasp.Rd |only
man/eval.fv.Rd | 3
man/fasp.object.Rd | 35 +++++---
man/internal.Rd | 2
man/rjitter.Rd |only
man/subset.fasp.Rd | 15 +++
man/with.fv.Rd |only
26 files changed, 606 insertions(+), 239 deletions(-)
Author: Timur V. Elzhov, Katharine M. Mullen
Title: R interface to the Levenberg-Marquardt nonlinear least-squares algorithm found in MINPACK
Description: Provides R interface to lmder and lmdif from the MINPACK library, for solving nonlinear least-squares problems by a modification of the Levenberg-Marquardt algorithm.
Diff between minpack.lm versions 1.0-9 dated 2008-03-14 and 1.1-0 dated 2008-05-16
minpack.lm-1.0-9/minpack.lm/src/getsse.f |only minpack.lm-1.0-9/minpack.lm/src/ss.f |only minpack.lm-1.1-0/minpack.lm/DESCRIPTION | 4 minpack.lm-1.1-0/minpack.lm/INDEX | 6 - minpack.lm-1.1-0/minpack.lm/R/nls.lm.R | 8 - minpack.lm-1.1-0/minpack.lm/man/nls.lm.Rd | 118 ++++++++++++++++------ minpack.lm-1.1-0/minpack.lm/man/nls.lm.control.Rd | 9 - minpack.lm-1.1-0/minpack.lm/src/fcn_lmder.c | 93 +++++++++-------- minpack.lm-1.1-0/minpack.lm/src/fcn_lmdif.c | 59 ++++++----- minpack.lm-1.1-0/minpack.lm/src/fcn_message.c | 5 minpack.lm-1.1-0/minpack.lm/src/lmder.f | 54 +++------- minpack.lm-1.1-0/minpack.lm/src/lmdif.f | 57 +++------- minpack.lm-1.1-0/minpack.lm/src/minpack_lm.h | 39 +++---- minpack.lm-1.1-0/minpack.lm/src/nls_lm.c | 92 +++++++++-------- 14 files changed, 296 insertions(+), 248 deletions(-)
Author: C. Fraley and A.E. Raftery, Dept. of Statistics,
University of Washington.
R port by Ron Wehrens.
Title: Model-based cluster analysis (older version)
Description: Model-based cluster analysis: the 2002 version of MCLUST
Diff between mclust02 versions 2.1-16 dated 2007-11-17 and 2.1-17 dated 2008-05-16
CITATION | 93 +++++++++++++++++++++++++++++++++++++++++++----------- DESCRIPTION | 8 ++-- LICENSE |only man/cv1EMtrain.Rd | 2 - man/diabetes.Rd | 1 src/mclust02.f | 7 ++-- 6 files changed, 84 insertions(+), 27 deletions(-)
Author: Chris Fraley and Adrian Raftery
Title: Model-Based Clustering / Normal Mixture Modeling
Description: Model-based clustering and normal mixture modeling
including Bayesian regularization
Diff between mclust versions 3.1-3 dated 2008-02-14 and 3.1-4 dated 2008-05-16
CITATION | 133 ++++++++++++++++++++++++++++++------------------------------ DESCRIPTION | 5 -- LICENSE | 27 ++++++------ R/mclust.R | 94 ++++++++++++++---------------------------- 4 files changed, 118 insertions(+), 141 deletions(-)
Author: Edzer J. Pebesma
Diff between gstat versions 0.9-46 dated 2008-05-06 and 0.9-47 dated 2008-05-16
Title: geostatistical modelling, prediction and simulation
Description: variogram modelling; simple, ordinary and universal point
or block (co)kriging, sequential Gaussian or indicator (co)simulation;
variogram and variogram map plotting utility functions.
DESCRIPTION | 6
INDEX | 2
configure | 2
data/sic97.rda |only
inst/doc/gstat.pdf |30213 ++++++++++++++++++++++++++---------------------------
man/sic97.Rd |only
man/tull.Rd | 1
src/machine.hin | 10
src/spbkp.c | 4
src/spchfctr.c | 7
10 files changed, 15188 insertions(+), 15057 deletions(-)
Author: Martyn Plummer, Nicky Best, Kate Cowles, Karen Vines
Title: Output analysis and diagnostics for MCMC
Description: Output analysis and diagnostics for Markov Chain Monte
Carlo simulations.
Diff between coda versions 0.13-1 dated 2007-12-12 and 0.13-2 dated 2008-05-16
DESCRIPTION | 6 +++--- R/output.R | 2 +- 2 files changed, 4 insertions(+), 4 deletions(-)
Author: Lukasz Nieweglowski.
Diff between clv versions 0.1-2 dated 2008-04-07 and 0.2 dated 2008-05-16
Title: Cluster Validation Techniques
Description:
Package contains most of the popular internal and external cluster validation methods ready to use for the most of the outputs
produced by functions coming from package "cluster". Package contains also functions and examples of usage for cluster
stability approach applied to algorithms implemented in "cluster" package.
DESCRIPTION | 6 ++--
NAMESPACE | 4 ++-
R/01_wrappers.R |only
R/02_constants.R |only
R/cluster_stability.R |only
R/internals.R | 31 ++++++++++++++++++++++---
man/cls_set_section.Rd | 2 -
man/cluster_stability.Rd |only
man/confusion_matrix.Rd | 2 -
man/dot_product.Rd | 6 ++--
src/cluster_stability.c | 47 +++++++++++++++++++++++++++++++++++++++
src/standard_external_measures.c | 1
12 files changed, 85 insertions(+), 14 deletions(-)
Author: Carsten F. Dormann and Bernd Gruber, with additional code from Jochen Fruend, based on the C-code developed by Nils Bluethgen.
Title: Visualises bipartite networks and calculates some ecological indices.
Description: See bipartite-package for more details.
Diff between bipartite versions 0.6 dated 2008-05-05 and 0.7 dated 2008-05-16
bipartite-0.6/bipartite/man/nestedness.rd |only bipartite-0.7/bipartite/DESCRIPTION | 6 ++-- bipartite-0.7/bipartite/R/as.one.mode.r | 1 bipartite-0.7/bipartite/R/functspec.r | 17 ++++++------- bipartite-0.7/bipartite/R/plotweb.R | 1 bipartite-0.7/bipartite/Read-and-delete-me |only bipartite-0.7/bipartite/data/memmott1999.rda |binary bipartite-0.7/bipartite/man/bipartite-package.Rd | 4 +-- bipartite-0.7/bipartite/man/functspec.Rd | 30 ++++++----------------- bipartite-0.7/bipartite/man/nestedness.Rd |only bipartite-0.7/bipartite/man/networklevel.Rd | 4 +-- 11 files changed, 24 insertions(+), 39 deletions(-)
Author:
Grace Chiu
Diff between bentcableAR versions 0.1.1 dated 2008-05-04 and 0.1.2 dated 2008-05-16
Title: Bent-Cable Regression for Independent Data or Autoregressive Time Series
Description:
This package contains two main interfaces for fitting
and diagnosing bent-cable regressions for autoregressive
time-series data or independent data (time series or
otherwise). The interfaces are 'bentcable.ar()' and
'bentcable.dev.plot()'. Some components in the package can
also be used as stand-alone functions. The bent cable
(linear-quadratic-linear) generalizes the broken stick
(linear-linear), which is also handled by this package.
DESCRIPTION | 6 +++---
R/code.r | 22 ++++++++++++++++------
man/bentcableAR-internal.Rd | 1 +
man/bentcableAR.Rd | 4 ++--
4 files changed, 22 insertions(+), 11 deletions(-)
Author: Chandra Erdman and John W. emerson
Title: A Package for Performing a Bayesian Analysis of Change Point Problems
Description: An implementation of the Barry and Hartigan (1993) product partition model for the standard change point problem using Markov Chain Monte Carlo.
Diff between bcp versions 1.8.4 dated 2007-12-05 and 1.8.5 dated 2008-05-16
bcp-1.8.4/bcp/src/Cbcp.c |only bcp-1.8.5/bcp/DESCRIPTION | 6 +++--- bcp-1.8.5/bcp/R/bcp.R | 2 -- bcp-1.8.5/bcp/src/Cbcp.cpp |only 4 files changed, 3 insertions(+), 5 deletions(-)
Author: Daniel Chessel, Anne-Beatrice Dufour
Diff between ade4 versions 1.4-7 dated 2008-04-18 and 1.4-8 dated 2008-05-16
Title: Analysis of Ecological Data : Exploratory and Euclidean methods in Environmental sciences
Description: Multivariate data analysis and graphical display.
ChangeLog | 22 ++++++++++++++++++++++
DESCRIPTION | 6 +++---
R/dudi.R | 4 ++--
R/dudi.acm.R | 4 ++--
4 files changed, 29 insertions(+), 7 deletions(-)
Author: Markus Gesmann
Title: Mack- and Munich-chain-ladder methods for insurance claims reserving
Description: The package contains the Mack- and Munich-chain-ladder methods which are used in insurance claims reserving exercise.
Diff between ChainLadder versions 0.1.1-3 dated 2008-02-20 and 0.1.1-4 dated 2008-05-16
ChangeLog | 12 +++++++++--- DESCRIPTION | 10 ++++++---- R/MackChainLadderFunctions.R | 20 ++++++++++---------- inst/Excel/ChainLadder_in_Excel.xls |binary inst/Experimental |only man/ChainLadder-package.Rd | 5 +---- man/GenIns.Rd | 1 - man/MCLpaid.Rd | 4 ++-- man/MackChainLadder.Rd | 10 ++-------- man/Mortgage.Rd | 2 +- man/MunichChainLadder.Rd | 2 -- man/RAA.Rd | 3 +-- man/predict.TriangleModel.Rd | 4 ++-- man/residuals.MackChainLadder.Rd | 2 +- 14 files changed, 35 insertions(+), 40 deletions(-)
Author: Andreas Kiermeier
Diff between AcceptanceSampling versions 0.1-1 dated 2007-07-07 and 0.1-4 dated 2008-05-16
More information about AcceptanceSampling at CRAN
Title: Creation and evaluation of Acceptance Sampling Plans
Description: This package provides functionality for creating and
evaluating acceptance sampling plans. Plans can be single,
double or multiple sampling plans
AcceptanceSampling-0.1-1/AcceptanceSampling/OC Class S4.mm |only
AcceptanceSampling-0.1-1/AcceptanceSampling/R/AcceptanceSampling.R |only
AcceptanceSampling-0.1-4/AcceptanceSampling/DESCRIPTION | 8 ++++----
AcceptanceSampling-0.1-4/AcceptanceSampling/NAMESPACE | 7 ++++++-
AcceptanceSampling-0.1-4/AcceptanceSampling/R/code_generic.R |only
AcceptanceSampling-0.1-4/AcceptanceSampling/R/code_twoclass.R |only
AcceptanceSampling-0.1-4/AcceptanceSampling/R/code_var.R |only
AcceptanceSampling-0.1-4/AcceptanceSampling/man/OC2c.Rd | 2 +-
AcceptanceSampling-0.1-4/AcceptanceSampling/man/OCvar-class.Rd |only
AcceptanceSampling-0.1-4/AcceptanceSampling/man/OCvar.Rd |only
AcceptanceSampling-0.1-4/AcceptanceSampling/man/assess-methods.Rd | 9 +++++----
AcceptanceSampling-0.1-4/AcceptanceSampling/man/find.plan.Rd |only
12 files changed, 16 insertions(+), 10 deletions(-)
Permanent link
Author: Andrej-Nikolai Spiess
Diff between qpcR versions 1.0-6 dated 2008-02-11 and 1.1-1 dated 2008-05-14
Title: Modelling and analysis of real-time PCR data
Description: Model fitting, optimal model selection and calculation of various features that are essential in the analysis of quantitative real-time polymerase chain reaction (qPCR).
qpcR-1.0-6/qpcR/R/expfit2.R |only
qpcR-1.0-6/qpcR/man/expfit2.Rd |only
qpcR-1.1-1/qpcR/DESCRIPTION | 12 +-
qpcR-1.1-1/qpcR/NAMESPACE | 9 +
qpcR-1.1-1/qpcR/R/AICc.R | 9 -
qpcR-1.1-1/qpcR/R/ERBCP.R |only
qpcR-1.1-1/qpcR/R/RMSE.R | 5 -
qpcR-1.1-1/qpcR/R/Rsq.R | 25 +----
qpcR-1.1-1/qpcR/R/efficiency.R | 14 ++
qpcR-1.1-1/qpcR/R/expcomp.R | 6 -
qpcR-1.1-1/qpcR/R/expfit.R | 126 +++++++++++++-------------
qpcR-1.1-1/qpcR/R/midpoint.R |only
qpcR-1.1-1/qpcR/R/modlist.R | 40 ++++----
qpcR-1.1-1/qpcR/R/onAttach.R | 5 -
qpcR-1.1-1/qpcR/R/outlier.R | 40 ++++----
qpcR-1.1-1/qpcR/R/pcrbatch.R | 159 ++++++++++++++++-----------------
qpcR-1.1-1/qpcR/R/pcrpred.R | 2
qpcR-1.1-1/qpcR/R/propagate.R |only
qpcR-1.1-1/qpcR/R/ratiocalc.R |only
qpcR-1.1-1/qpcR/R/ratiocalc.modlist.R |only
qpcR-1.1-1/qpcR/R/ratiocalc.pcrbatch.R |only
qpcR-1.1-1/qpcR/R/resVar.R | 5 -
qpcR-1.1-1/qpcR/R/sliwin.R | 5 -
qpcR-1.1-1/qpcR/man/AICc.Rd | 15 +--
qpcR-1.1-1/qpcR/man/RMSE.Rd | 11 +-
qpcR-1.1-1/qpcR/man/Rsq.Rd | 11 +-
qpcR-1.1-1/qpcR/man/confband.Rd | 2
qpcR-1.1-1/qpcR/man/evidence.Rd | 2
qpcR-1.1-1/qpcR/man/expcomp.Rd | 6 -
qpcR-1.1-1/qpcR/man/expfit.Rd | 67 ++++++++-----
qpcR-1.1-1/qpcR/man/modlist.Rd | 9 +
qpcR-1.1-1/qpcR/man/pcrbatch.Rd | 10 +-
qpcR-1.1-1/qpcR/man/pcropt1.Rd | 2
qpcR-1.1-1/qpcR/man/propagate.Rd |only
qpcR-1.1-1/qpcR/man/qpcR.Rd | 89 +++++++-----------
qpcR-1.1-1/qpcR/man/ratiocalc.Rd |only
qpcR-1.1-1/qpcR/man/resVar.Rd | 11 +-
qpcR-1.1-1/qpcR/man/sliwin.Rd | 4
38 files changed, 362 insertions(+), 339 deletions(-)
Author: Aaron A. King, Edward L. Ionides, Carles Martinez Breto
Title: Partially-observed Markov processes
Description: Inference methods for partially-observed Markov processes
Diff between pomp versions 0.18-2 dated 2008-05-05 and 0.18-3 dated 2008-05-14
pomp-0.18-2/pomp/inst/include/interp.h |only pomp-0.18-2/pomp/man/simulate-mif.Rd |only pomp-0.18-2/pomp/src/interp.c |only pomp-0.18-2/pomp/src/interp.h |only pomp-0.18-3/pomp/DESCRIPTION | 6 pomp-0.18-3/pomp/NAMESPACE | 6 pomp-0.18-3/pomp/R/bsplines.R | 2 pomp-0.18-3/pomp/R/dmeasure-pomp.R | 25 +- pomp-0.18-3/pomp/R/dprocess-pomp.R | 17 - pomp-0.18-3/pomp/R/euler.R | 28 ++ pomp-0.18-3/pomp/R/eulermultinom.R | 52 ---- pomp-0.18-3/pomp/R/init.state-pomp.R | 4 pomp-0.18-3/pomp/R/mif.R | 30 +- pomp-0.18-3/pomp/R/particles-mif.R | 8 pomp-0.18-3/pomp/R/pfilter.R | 26 +- pomp-0.18-3/pomp/R/plot-pomp.R | 194 ++++++++-------- pomp-0.18-3/pomp/R/pomp-methods.R | 76 +++--- pomp-0.18-3/pomp/R/pomp.R | 32 +- pomp-0.18-3/pomp/R/rmeasure-pomp.R | 20 - pomp-0.18-3/pomp/R/rprocess-pomp.R | 18 - pomp-0.18-3/pomp/R/simulate-pomp.R | 143 ++++++------ pomp-0.18-3/pomp/R/sobol.R | 4 pomp-0.18-3/pomp/data/ou2.rda |binary pomp-0.18-3/pomp/inst/doc/Makefile | 2 pomp-0.18-3/pomp/inst/doc/compiled_code_in_pomp.Rnw |only pomp-0.18-3/pomp/inst/doc/compiled_code_in_pomp.pdf |only pomp-0.18-3/pomp/inst/doc/random_walk.Rnw | 196 +++------------- pomp-0.18-3/pomp/inst/doc/random_walk.pdf |binary pomp-0.18-3/pomp/inst/examples/sir.R | 81 ++++-- pomp-0.18-3/pomp/inst/examples/sir.c | 133 +++++++++-- pomp-0.18-3/pomp/inst/include/euler.h | 18 + pomp-0.18-3/pomp/inst/include/lookup_table.h |only pomp-0.18-3/pomp/man/euler.Rd | 173 +++++++++++++- pomp-0.18-3/pomp/man/eulermultinom.Rd | 2 pomp-0.18-3/pomp/man/mif-methods.Rd | 6 pomp-0.18-3/pomp/man/mif.Rd | 2 pomp-0.18-3/pomp/man/pfilter.Rd | 2 pomp-0.18-3/pomp/man/pomp-class.Rd | 15 - pomp-0.18-3/pomp/man/pomp-package.Rd | 6 pomp-0.18-3/pomp/man/pomp.Rd | 13 - pomp-0.18-3/pomp/src/euler.c | 234 +++++++++++--------- pomp-0.18-3/pomp/src/euler.h | 19 + pomp-0.18-3/pomp/src/eulermultinom.c | 71 ++++-- pomp-0.18-3/pomp/src/lookup_table.c |only pomp-0.18-3/pomp/src/lookup_table.h |only pomp-0.18-3/pomp/src/ou2.c | 77 +----- pomp-0.18-3/pomp/src/pomp.h | 48 ++++ pomp-0.18-3/pomp/src/resample.c | 12 - pomp-0.18-3/pomp/src/sir.c |only pomp-0.18-3/pomp/tests/ou2-simulate.R | 4 50 files changed, 1037 insertions(+), 768 deletions(-)
Author: Ben B. Hansen
Diff between optmatch versions 0.3-8 dated 2008-05-13 and 0.3-9 dated 2008-05-14
Title: Functions for optimal matching
Description: Functions to perform optimal matching, particularly full matching
ChangeLog | 2 ++
DESCRIPTION | 6 +++---
R/mahal.dist.R | 7 +++++--
inst/doc/optmatch.pdf |binary
tests/mahal-dist.R | 2 ++
tests/mahal-dist.Rout.save | 9 +++++++--
6 files changed, 19 insertions(+), 7 deletions(-)
Author: Grant Izmirlian
Title: Power in a Group Sequential Design
Description: Tools to compute power in a group sequential design. SimPwrGSD C-kernel is a simulation routine that is similar in spirit to dssp2.f by Gu and Lai, but with major improvements. AsyPwrGSD has exactly the same range of application as SimPwrGSD but uses asymptotic methods and runs _much_ faster.
Diff between PwrGSD versions 1.0 dated 2008-01-07 and 1.1 dated 2008-05-14
PwrGSD-1.0/PwrGSD/inst/doc/PwrGSD.pdf |only PwrGSD-1.0/PwrGSD/inst/doc/notes.tex |only PwrGSD-1.1/PwrGSD/DESCRIPTION | 6 +++--- PwrGSD-1.1/PwrGSD/INDEX | 4 +++- PwrGSD-1.1/PwrGSD/R/PwrGSD.R | 2 +- PwrGSD-1.1/PwrGSD/inst/doc/Ch6-GrpSeqBnds.Rd |only PwrGSD-1.1/PwrGSD/inst/doc/GrpSeqBnds-vignette-1-fig1-LanDemets.eps |only PwrGSD-1.1/PwrGSD/inst/doc/GrpSeqBnds-vignette-1-fig1-LanDemets.pdf |only PwrGSD-1.1/PwrGSD/inst/doc/GrpSeqBnds-vignette-1-fig2-StochCurt.eps |only PwrGSD-1.1/PwrGSD/inst/doc/GrpSeqBnds-vignette-1-fig2-StochCurt.pdf |only PwrGSD-1.1/PwrGSD/inst/doc/GrpSeqBnds-vignette-1.Rnw |only PwrGSD-1.1/PwrGSD/inst/doc/GrpSeqBnds-vignette-1.aux |only PwrGSD-1.1/PwrGSD/inst/doc/GrpSeqBnds-vignette-1.dvi |only PwrGSD-1.1/PwrGSD/inst/doc/GrpSeqBnds-vignette-1.log |only PwrGSD-1.1/PwrGSD/inst/doc/GrpSeqBnds-vignette-1.out |only PwrGSD-1.1/PwrGSD/inst/doc/GrpSeqBnds-vignette-1.pdf |only PwrGSD-1.1/PwrGSD/inst/doc/GrpSeqBnds-vignette-1.tex |only PwrGSD-1.1/PwrGSD/inst/doc/PwrGSD-manual.pdf |binary PwrGSD-1.1/PwrGSD/inst/doc/PwrGSD-vignette-1.Rnw |only PwrGSD-1.1/PwrGSD/inst/doc/PwrGSD-vignette-1.pdf |only PwrGSD-1.1/PwrGSD/inst/doc/Rplots.ps |only PwrGSD-1.1/PwrGSD/inst/doc/clearance.jpg |only PwrGSD-1.1/PwrGSD/inst/doc/cpd-PwrGSD-vignette-1-fig1-LanDemets.eps |only PwrGSD-1.1/PwrGSD/inst/doc/cpd-PwrGSD-vignette-1-fig1-LanDemets.pdf |only PwrGSD-1.1/PwrGSD/inst/doc/cpd-PwrGSD-vignette-1-fig2-StochCurt.eps |only PwrGSD-1.1/PwrGSD/inst/doc/cpd-PwrGSD-vignette-1-fig2-StochCurt.pdf |only PwrGSD-1.1/PwrGSD/inst/doc/cpd-PwrGSD-vignette-1.Rnw |only PwrGSD-1.1/PwrGSD/inst/doc/cpd-PwrGSD-vignette-1.aux |only PwrGSD-1.1/PwrGSD/inst/doc/cpd-PwrGSD-vignette-1.log |only PwrGSD-1.1/PwrGSD/inst/doc/cpd-PwrGSD-vignette-1.out |only PwrGSD-1.1/PwrGSD/inst/doc/cpd-PwrGSD-vignette-1.pdf |only PwrGSD-1.1/PwrGSD/inst/doc/cpd-PwrGSD-vignette-1.tex |only PwrGSD-1.1/PwrGSD/man/Ch2-cpd.PwrGSD.Rd | 3 +-- 33 files changed, 8 insertions(+), 7 deletions(-)
Author: Original by Joseph L. Schafer
Diff between pan versions 0.2-4 dated 2007-10-02 and 0.2-6 dated 2008-05-14
Title: Multiple imputation for multivariate panel or clustered data
Description: Multiple imputation for multivariate panel or clustered data
DESCRIPTION | 11 ++++-------
LICENSE |only
R/pan.R | 2 +-
3 files changed, 5 insertions(+), 8 deletions(-)
Author: Thomas W. Yee
Diff between VGAM versions 0.7-6 dated 2008-03-21 and 0.7-7 dated 2008-05-14
Title: Vector Generalized Linear and Additive Models
Description: Vector generalized linear and additive models, and
associated models (Reduced-Rank VGLMs, Quadratic RR-VGLMs,
Reduced-Rank VGAMs). This package fits many models and
distribution by maximum likelihood estimation (MLE) or
penalized MLE. Also fits constrained ordination models in
ecology.
DESCRIPTION | 6
NAMESPACE | 6
NEWS | 27 ++
R/aamethods.q | 4
R/cao.fit.q | 17 -
R/coef.vlm.q | 2
R/cqo.fit.q | 12 -
R/family.binomial.q | 452 ++++++++++++++++++++++++++++++++++++++----------
R/family.categorical.q | 6
R/family.extremes.q | 4
R/family.functions.q | 8
R/family.genetic.q | 2
R/family.glmgam.q | 2
R/family.normal.q | 4
R/family.qreg.q | 7
R/family.rcqo.q | 129 ++++++++-----
R/family.rrr.q | 155 +++++++++++-----
R/family.univariate.q | 25 +-
R/family.zeroinf.q | 26 +-
R/model.matrix.vglm.q | 2
R/mux.q | 18 +
R/plot.vglm.q | 2
R/predict.vgam.q | 4
R/residuals.vlm.q | 6
R/rrvglm.fit.q | 18 -
R/summary.vglm.q | 2
R/vgam.R | 2
R/vgam.fit.q | 19 --
R/vglm.fit.q | 29 +--
R/vlm.wfit.q | 2
man/acat.Rd | 2
man/alaplace3.Rd | 47 ++++
man/alsqreg.Rd | 13 -
man/amlbinomial.Rd | 5
man/amlexponential.Rd | 5
man/amlpoisson.Rd | 5
man/binom2.or.Rd | 51 +++--
man/binom2.orUC.Rd |only
man/cqo.Rd | 4
man/fisherz.Rd | 13 -
man/gamma1.Rd | 3
man/lgammaff.Rd | 1
man/lms.bcn.Rd | 1
man/mbinomial.Rd | 5
man/notdocumentedyet.Rd | 2
man/predict.qrrvglm.Rd |only
man/rcqo.Rd | 20 +-
man/zinbUC.Rd | 8
man/zipebcom.Rd |only
man/zipoisson.Rd | 17 +
src/testf90.f90 | 66 +++++--
51 files changed, 905 insertions(+), 361 deletions(-)
Author: Bernhard Pfaff
Title: VAR Modelling
Description: Estimation, lag selection, diagnostic testing, forecasting, causality analysis, forecast error variance decomposition and impulse response functions of VAR models and estimation of SVAR/SVEC models.
Diff between vars versions 1.3-7 dated 2008-02-12 and 1.3-8 dated 2008-05-13
DESCRIPTION | 6 +++--- R/internal.R | 4 ++-- inst/ChangeLog | 5 +++++ 3 files changed, 10 insertions(+), 5 deletions(-)
Author: Daniel Adler
Diff between rgl versions 0.77 dated 2008-03-12 and 0.78.671 dated 2008-05-13
Title: 3D visualization device system (OpenGL)
Description: 3D visualization device (OpenGL)
DESCRIPTION | 8 +-
NAMESPACE | 2
R/fonts.R |only
R/par3d.R | 5 -
R/r3d.rgl.R | 5 -
R/scene.R | 27 ++++++-
README | 22 ++++-
configure | 67 +++++++++++++++++-
configure.ac | 23 +++++-
configure.win | 42 ++++++++---
inst/NEWS | 12 ++-
inst/fonts |only
man/par3d.Rd | 5 +
man/persp3d.Rd | 4 -
man/texts.Rd | 103 +++++++++++++++++++++++++--
src/BBoxDeco.cpp | 12 +--
src/Device.hpp | 5 +
src/RenderContext.cpp | 2
src/RenderContext.hpp | 12 ++-
src/TextSet.cpp | 37 ++++++----
src/TextSet.hpp | 20 ++++-
src/Viewpoint.cpp | 3
src/api.cpp | 123 +++++++++++++++++++++++++++++++--
src/api.h | 15 +++-
src/device.cpp | 9 +-
src/ext/ftgl |only
src/fps.cpp | 7 +
src/ftgl.cpp |only
src/glgui.cpp | 164 +++++++++++++++++++++++++++++++++++++-------
src/glgui.hpp | 127 ++++++++++++++++++++++++++++++----
src/gui.cpp | 22 +++++
src/gui.hpp | 12 ++-
src/math.h | 6 -
src/osxgui.cpp | 57 +++++++++++----
src/par3d.cpp | 67 +++++++++++++++++-
src/rglview.cpp | 62 ++++++++++++++++
src/rglview.h | 12 ++-
src/scene.cpp | 27 +++----
src/win32gui.cpp | 185 +++++++++++++++++++++++++++++++++++++++++---------
src/x11gui.cpp | 76 +++++++++++++-------
src/x11gui.hpp | 4 -
41 files changed, 1170 insertions(+), 221 deletions(-)
Author: Frank Schaarschmidt
Title: Confidence intervals for two sample comparisons
Description: Calculation of the parametric, nonparametric confidence intervals
for the difference or ratio of location parameters and for the difference, ratio
and odds-ratio of binomial proportions for comparison of independent samples.
CI are not adjusted for multiplicity. A by statement allows calculation of CI
separately for the levels of further factors. Please note that, when a (generalized)
linear model can be reasonably assumed, there are smarter methods for CI calculation
available than are implemented in this package!
Diff between pairwiseCI versions 0.1-11 dated 2008-04-14 and 0.1-12 dated 2008-05-13
DESCRIPTION | 8 +-- R/Prop.diff.R | 12 ++-- R/Prop.or.R | 39 ++++++++++++++- R/Prop.ratio.R | 4 - man/pairwiseCImethodsProp.Rd | 110 +++++++++++++++++++++++++++++++++++++++++-- 5 files changed, 156 insertions(+), 17 deletions(-)
Author: Ben B. Hansen
Diff between optmatch versions 0.3-4 dated 2008-02-27 and 0.3-8 dated 2008-05-13
Title: Functions for optimal matching
Description: Functions to perform optimal matching, particularly full matching
optmatch-0.3-4/optmatch/R/fullmatch200706.R |only
optmatch-0.3-4/optmatch/inst/doc/optmatch.aux |only
optmatch-0.3-4/optmatch/inst/doc/optmatch.bbl |only
optmatch-0.3-4/optmatch/inst/doc/optmatch.blg |only
optmatch-0.3-4/optmatch/inst/doc/optmatch.log |only
optmatch-0.3-4/optmatch/inst/doc/optmatch.out |only
optmatch-0.3-8/optmatch/ChangeLog | 10
optmatch-0.3-8/optmatch/DESCRIPTION | 6
optmatch-0.3-8/optmatch/R/fullmatch.R |only
optmatch-0.3-8/optmatch/R/mahal.dist.R | 9
optmatch-0.3-8/optmatch/ToDo | 4
optmatch-0.3-8/optmatch/data/nuclearplants.rda |only
optmatch-0.3-8/optmatch/inst/doc/optmatch.Rnw | 1735 ++++++++++-----------
optmatch-0.3-8/optmatch/inst/doc/optmatch.pdf |binary
optmatch-0.3-8/optmatch/man/fullmatch.Rd | 34
optmatch-0.3-8/optmatch/man/mahal.dist.Rd | 13
optmatch-0.3-8/optmatch/man/makedist.Rd | 22
optmatch-0.3-8/optmatch/man/matched.distances.Rd | 2
optmatch-0.3-8/optmatch/man/nuclearplants.Rd |only
optmatch-0.3-8/optmatch/man/pscore.dist.Rd | 4
optmatch-0.3-8/optmatch/tests/fullmatch.R |only
optmatch-0.3-8/optmatch/tests/fullmatch.Rout.save |only
optmatch-0.3-8/optmatch/tests/mahal-dist.R | 7
optmatch-0.3-8/optmatch/tests/mahal-dist.Rout.save | 111 +
24 files changed, 1021 insertions(+), 936 deletions(-)
Author: Peter Langfelder
Diff between moduleColor versions 1.05-3 dated 2008-04-10 and 1.06 dated 2008-05-13
Title: Basic module functions
Description: Methods for color labeling, calculation of eigengenes, merging of closely related modules.
moduleColor-1.05-3/moduleColor/Changelog.txt |only
moduleColor-1.06/moduleColor/Changelog |only
moduleColor-1.06/moduleColor/DESCRIPTION | 24 +++---
moduleColor-1.06/moduleColor/R/Functions.R | 58 ++++++++++++----
moduleColor-1.06/moduleColor/man/mergeCloseModules.Rd | 18 ++++
moduleColor-1.06/moduleColor/man/moduleColor-package.Rd | 8 +-
6 files changed, 78 insertions(+), 30 deletions(-)
Author: Robin K. S. Hankin
Title: create and investigate magic squares
Description: a collection of efficient, vectorized algorithms for the
creation and investigation of magic squares and hypercubes, including
a variety of functions for the manipulation and analysis of
arbitrarily dimensioned arrays. The package includes methods for
creating normal magic squares of any order greater than 2. The
ultimate intention is for the package to be a computerized embodiment
all magic square knowledge, including direct numerical verification
of properties of magic squares (such as recent results on the
determinant of odd-ordered semimagic squares). The package also
serves as a rebuttal to the often-heard comment "I thought R
was just for statistics".
Diff between magic versions 1.3-31 dated 2007-12-24 and 1.3-33 dated 2008-05-13
DESCRIPTION | 6 +- inst |only man/adiag.Rd | 21 +++++---- man/as.standard.Rd | 4 - man/hudson.Rd | 4 - man/is.magic.Rd | 72 +++++++++++++++---------------- man/is.magichypercube.Rd | 108 +++++++++++++++++++++++------------------------ man/magic.4n.Rd | 5 +- man/magic.4np2.Rd | 8 +-- man/notmagic.2n.Rd | 4 - man/shift.Rd | 5 -- man/strachey.Rd | 2 12 files changed, 122 insertions(+), 117 deletions(-)
Author: Robin K. S. Hankin
Title: The hypergeometric function
Description: The hypergeometric function, hypergeo(), for complex numbers
Diff between hypergeo versions 1.1-2 dated 2008-04-24 and 1.1-3 dated 2008-05-13
DESCRIPTION | 4 ++-- INDEX | 4 ++-- R/hypergeo.R | 2 +- man/f15.3.1.Rd | 1 - man/genhypergeo.Rd | 9 ++++----- man/wolfram.Rd | 6 ++---- 6 files changed, 11 insertions(+), 15 deletions(-)
Author: Sinnwell JP, Schaid DJ, Yu Z
Title: Statistical Analysis of Haplotypes with Traits and Covariates when Linkage Phase is Ambiguous
Description: A suite of S-PLUS/R routines for the analysis of indirectly measured haplotypes. The statistical methods assume that all subjects are unrelated and that haplotypes are ambiguous (due to unknown linkage phase of the genetic markers). The main functions are: haplo.em, haplo.glm, haplo.score, haplo.power, and seqhap. Copyright: 2003 Mayo Foundation for Medical Education and Research.
Diff between haplo.stats versions 1.3.1 dated 2007-06-14 and 1.3.8 dated 2008-05-13
haplo.stats-1.3.1/haplo.stats/R/sr.strsplit.q |only haplo.stats-1.3.1/haplo.stats/inst/doc/LICENSE |only haplo.stats-1.3.1/haplo.stats/man/allele.recode.Rd |only haplo.stats-1.3.1/haplo.stats/man/dglm.fit.Rd |only haplo.stats-1.3.1/haplo.stats/man/geno.recode.Rd |only haplo.stats-1.3.1/haplo.stats/man/haplo.chistat.Rd |only haplo.stats-1.3.1/haplo.stats/man/haplo.enum.Rd |only haplo.stats-1.3.1/haplo.stats/man/haplo.scan.obs.Rd |only haplo.stats-1.3.1/haplo.stats/man/haplo.scan.sim.Rd |only haplo.stats-1.3.1/haplo.stats/man/haplo.score.glm.Rd |only haplo.stats-1.3.1/haplo.stats/man/haplo.score.podds.Rd |only haplo.stats-1.3.1/haplo.stats/man/mf.gindx.Rd |only haplo.stats-1.3.1/haplo.stats/man/residScaledGlmFit.Rd |only haplo.stats-1.3.1/haplo.stats/man/sr.class.Rd |only haplo.stats-1.3.1/haplo.stats/man/sr.strsplit.Rd |only haplo.stats-1.3.1/haplo.stats/man/varfunc.glm.fit.Rd |only haplo.stats-1.3.8/haplo.stats/DESCRIPTION | 14 - haplo.stats-1.3.8/haplo.stats/INDEX | 35 -- haplo.stats-1.3.8/haplo.stats/LICENSE |only haplo.stats-1.3.8/haplo.stats/NEWS | 135 ++++++++++- haplo.stats-1.3.8/haplo.stats/R/chisq.power.q |only haplo.stats-1.3.8/haplo.stats/R/f.power.q |only haplo.stats-1.3.8/haplo.stats/R/find.haplo.beta.qt.q |only haplo.stats-1.3.8/haplo.stats/R/get.hapPair.q |only haplo.stats-1.3.8/haplo.stats/R/haplo.cc.q | 37 +-- haplo.stats-1.3.8/haplo.stats/R/haplo.chistat.q | 9 haplo.stats-1.3.8/haplo.stats/R/haplo.em.control.q | 40 ++- haplo.stats-1.3.8/haplo.stats/R/haplo.em.q | 39 ++- haplo.stats-1.3.8/haplo.stats/R/haplo.glm.control.q | 49 ++- haplo.stats-1.3.8/haplo.stats/R/haplo.glm.q | 102 +++++--- haplo.stats-1.3.8/haplo.stats/R/haplo.model.frame.q | 55 ++-- haplo.stats-1.3.8/haplo.stats/R/haplo.power.cc.ncp.q |only haplo.stats-1.3.8/haplo.stats/R/haplo.power.cc.q |only haplo.stats-1.3.8/haplo.stats/R/haplo.power.qt.ncp.q |only haplo.stats-1.3.8/haplo.stats/R/haplo.power.qt.q |only haplo.stats-1.3.8/haplo.stats/R/haplo.score.q | 32 +- haplo.stats-1.3.8/haplo.stats/R/haplo.score.slide.q | 13 - haplo.stats-1.3.8/haplo.stats/R/na.geno.keep.q | 46 +++ haplo.stats-1.3.8/haplo.stats/R/plot.haplo.score.slide.q | 17 - haplo.stats-1.3.8/haplo.stats/R/plot.seqhap.q | 69 +++-- haplo.stats-1.3.8/haplo.stats/R/print.haplo.em.q | 29 +- haplo.stats-1.3.8/haplo.stats/R/print.haplo.glm.q | 25 +- haplo.stats-1.3.8/haplo.stats/R/print.haplo.score.q | 17 + haplo.stats-1.3.8/haplo.stats/R/print.haplo.score.slide.q | 16 - haplo.stats-1.3.8/haplo.stats/R/summary.haplo.em.q | 14 - haplo.stats-1.3.8/haplo.stats/R/summaryGeno.q | 12 haplo.stats-1.3.8/haplo.stats/data/hapPower.demo.tab |only haplo.stats-1.3.8/haplo.stats/man/Ginv.Rd | 44 +++ haplo.stats-1.3.8/haplo.stats/man/chisq.power.Rd |only haplo.stats-1.3.8/haplo.stats/man/f.power.Rd |only haplo.stats-1.3.8/haplo.stats/man/find.haplo.beta.qt.Rd |only haplo.stats-1.3.8/haplo.stats/man/geno.count.pairs.Rd | 32 ++ haplo.stats-1.3.8/haplo.stats/man/geno1to2.Rd | 27 ++ haplo.stats-1.3.8/haplo.stats/man/get.hapPair.Rd |only haplo.stats-1.3.8/haplo.stats/man/hapPower.demo.Rd |only haplo.stats-1.3.8/haplo.stats/man/haplo.cc.Rd | 49 +++ haplo.stats-1.3.8/haplo.stats/man/haplo.design.Rd | 6 haplo.stats-1.3.8/haplo.stats/man/haplo.em.Rd | 39 +++ haplo.stats-1.3.8/haplo.stats/man/haplo.em.control.Rd | 59 ++++ haplo.stats-1.3.8/haplo.stats/man/haplo.em.fitter.Rd | 13 + haplo.stats-1.3.8/haplo.stats/man/haplo.glm.Rd | 86 ++++--- haplo.stats-1.3.8/haplo.stats/man/haplo.glm.control.Rd | 28 ++ haplo.stats-1.3.8/haplo.stats/man/haplo.group.Rd | 41 +++ haplo.stats-1.3.8/haplo.stats/man/haplo.hash.Rd | 9 haplo.stats-1.3.8/haplo.stats/man/haplo.model.frame.Rd | 34 +- haplo.stats-1.3.8/haplo.stats/man/haplo.power.cc.Rd |only haplo.stats-1.3.8/haplo.stats/man/haplo.power.qt.Rd |only haplo.stats-1.3.8/haplo.stats/man/haplo.scan.Rd | 53 ++++ haplo.stats-1.3.8/haplo.stats/man/haplo.score.Rd | 98 ++++++- haplo.stats-1.3.8/haplo.stats/man/haplo.score.merge.Rd | 21 + haplo.stats-1.3.8/haplo.stats/man/haplo.score.slide.Rd | 67 ++++- haplo.stats-1.3.8/haplo.stats/man/internalHaploStats.Rd |only haplo.stats-1.3.8/haplo.stats/man/locator.haplo.Rd | 17 + haplo.stats-1.3.8/haplo.stats/man/loci.Rd | 12 haplo.stats-1.3.8/haplo.stats/man/locus.Rd | 9 haplo.stats-1.3.8/haplo.stats/man/louis.info.Rd | 9 haplo.stats-1.3.8/haplo.stats/man/na.geno.keep.Rd | 10 haplo.stats-1.3.8/haplo.stats/man/plot.haplo.score.Rd | 32 ++ haplo.stats-1.3.8/haplo.stats/man/plot.haplo.score.slide.Rd | 57 ++++ haplo.stats-1.3.8/haplo.stats/man/plot.seqhap.Rd | 28 ++ haplo.stats-1.3.8/haplo.stats/man/print.haplo.cc.Rd | 29 ++ haplo.stats-1.3.8/haplo.stats/man/print.haplo.em.Rd | 29 ++ haplo.stats-1.3.8/haplo.stats/man/print.haplo.glm.Rd | 30 ++ haplo.stats-1.3.8/haplo.stats/man/print.haplo.group.Rd | 29 ++ haplo.stats-1.3.8/haplo.stats/man/print.haplo.scan.Rd | 14 + haplo.stats-1.3.8/haplo.stats/man/print.haplo.score.Rd | 32 ++ haplo.stats-1.3.8/haplo.stats/man/print.haplo.score.merge.Rd | 53 ++++ haplo.stats-1.3.8/haplo.stats/man/print.haplo.score.slide.Rd | 12 haplo.stats-1.3.8/haplo.stats/man/print.seqhap.Rd | 19 + haplo.stats-1.3.8/haplo.stats/man/printBanner.Rd | 34 ++ haplo.stats-1.3.8/haplo.stats/man/score.sim.control.Rd | 24 + haplo.stats-1.3.8/haplo.stats/man/seqhap.Rd | 32 ++ haplo.stats-1.3.8/haplo.stats/man/setupData.Rd | 6 haplo.stats-1.3.8/haplo.stats/man/setupGeno.Rd | 14 + haplo.stats-1.3.8/haplo.stats/man/summary.haplo.em.Rd | 22 + haplo.stats-1.3.8/haplo.stats/man/summaryGeno.Rd | 18 + haplo.stats-1.3.8/haplo.stats/man/x.sexcheck.Rd | 9 97 files changed, 1767 insertions(+), 324 deletions(-)
Author: Raoul Grasman and Robert B. Gramacy
Diff between geometry versions 0.1-1 dated 2008-04-15 and 0.1-2 dated 2008-05-13
Title: Mesh generation and surface tesselation
Description: This package makes the qhull library (www.qhull.org) available in R,
in a similar manner as in Octave and MATLAB. Qhull computes convex hulls,
Delaunay triangulations, halfspace intersections about a point, Voronoi diagrams,
furthest-site Delaunay triangulations, and furthest-site Voronoi diagrams.
It runs in 2-d, 3-d, 4-d, and higher dimensions. It implements the Quickhull
algorithm for computing the convex hull. Qhull does not support constrained
Delaunay triangulations, or mesh generation of non-convex objects, but the
package does include some R functions that allow for this. Currently the package
only gives access to Delaunay triangulation and convex hull computation.
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117 files changed, 51 insertions(+), 11 deletions(-)
Author: Gregory R. Warnes and Gregor Gorjanc. Includes R source code
and/or documentation contributed by Ben Bolker and Thomas Lumley.
Title: Various R programming tools for data manipulation
Description: Various R programming tools for data manipulation
Diff between gdata versions 2.4.1 dated 2008-03-25 and 2.4.2 dated 2008-05-13
ChangeLog | 39 +++++++++++++ DESCRIPTION | 6 +- NEWS | 20 +++++++ R/read.xls.R | 80 +++++++++++++++++++++++----- inst/ChangeLog | 39 +++++++++++++ inst/NEWS | 20 +++++++ inst/doc/mapLevels.pdf |binary inst/doc/unknown.pdf |binary inst/perl/Spreadsheet/ParseExcel/Utility.pm | 4 + 9 files changed, 193 insertions(+), 15 deletions(-)
Author: Jeff Hallman
Diff between fame versions 1.11 dated 2008-05-02 and 1.13 dated 2008-05-13
Title: Interface for FAME time series database
Description: Includes FAME storage and retrieval function, as well as functions and S3 classes for time indexes and time indexed series, which are compatible with FAME frequencies.
fame-1.11/fame/R/firstLast.R |only
fame-1.13/fame/DESCRIPTION | 18 +++++++++---------
fame-1.13/fame/NAMESPACE | 10 +++++-----
fame-1.13/fame/R/addLast.R |only
fame-1.13/fame/R/clientServer.R | 1 -
fame-1.13/fame/R/is.scalar.R | 8 ++++++++
fame-1.13/fame/R/unix/fame.R | 6 ++++++
fame-1.13/fame/R/unix/fameLast.R |only
fame-1.13/fame/R/windows/alarmc.R |only
fame-1.13/fame/R/windows/fame.R | 4 ++--
fame-1.13/fame/R/windows/fameLast.R |only
fame-1.13/fame/man/windows/alarmc.Rd |only
12 files changed, 30 insertions(+), 17 deletions(-)
Author: Diethelm Wuertz and many others. See the SOURCE file
Title: Rmetrics - Rmetrics Function Utilities
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fUtilities versions 260.72 dated 2007-10-08 and 270.73 dated 2008-05-13
fUtilities-260.72/fUtilities/R/BasicExtensions.R |only fUtilities-260.72/fUtilities/R/BivariateInterpolation.R |only fUtilities-260.72/fUtilities/R/ChronFunctions.R |only fUtilities-260.72/fUtilities/R/CodeTables.R |only fUtilities-260.72/fUtilities/R/ColorPalettes.R |only fUtilities-260.72/fUtilities/R/ColumnStatistics.R |only fUtilities-260.72/fUtilities/R/GeneralS4Extractors.R |only fUtilities-260.72/fUtilities/R/GeneralUtilities.R |only fUtilities-260.72/fUtilities/R/HeavisideFunction.R |only fUtilities-260.72/fUtilities/R/HypothesisTesting.R |only fUtilities-260.72/fUtilities/R/InteractivePlots.R |only fUtilities-260.72/fUtilities/R/PlotFunctions.R |only fUtilities-260.72/fUtilities/R/PortableInnovations.R |only fUtilities-260.72/fUtilities/R/RowStatistics.R |only fUtilities-260.72/fUtilities/R/SkewnessKurtosis.R |only fUtilities-260.72/fUtilities/R/SliderMenus.R |only fUtilities-260.72/fUtilities/R/UnitTesting.R |only fUtilities-260.72/fUtilities/R/VectorMatrixAddon.R |only fUtilities-260.72/fUtilities/inst/doc |only fUtilities-260.72/fUtilities/inst/unitTests/runitBasicExtensions.R |only fUtilities-260.72/fUtilities/inst/unitTests/runitCodeTables.R |only fUtilities-260.72/fUtilities/inst/unitTests/runitColorPalettes.R |only fUtilities-260.72/fUtilities/inst/unitTests/runitColumnRowStatistics.R |only fUtilities-260.72/fUtilities/inst/unitTests/runitHeavisideFunction.R |only fUtilities-260.72/fUtilities/inst/unitTests/runitHypothesisTesting.R |only fUtilities-260.72/fUtilities/inst/unitTests/runitInteractivePlots.R |only fUtilities-260.72/fUtilities/inst/unitTests/runitPortableInnovations.R |only fUtilities-260.72/fUtilities/inst/unitTests/runitSkewnessKurtosis.R |only fUtilities-260.72/fUtilities/inst/unitTests/runitVectorMatrixAddon.R |only fUtilities-260.72/fUtilities/man/BasicExtensions.Rd |only fUtilities-260.72/fUtilities/man/BivariateInterpolation.Rd |only fUtilities-260.72/fUtilities/man/CodeTables.Rd |only fUtilities-260.72/fUtilities/man/ColorPalettes.Rd |only fUtilities-260.72/fUtilities/man/ColumnStatistics.Rd |only fUtilities-260.72/fUtilities/man/GeneralS4Extractors.Rd |only fUtilities-260.72/fUtilities/man/HeavisideFunction.Rd |only fUtilities-260.72/fUtilities/man/HypothesisTesting.Rd |only fUtilities-260.72/fUtilities/man/InteractivePlots.Rd |only fUtilities-260.72/fUtilities/man/PortableInnovations.Rd |only fUtilities-260.72/fUtilities/man/RowStatistics.Rd |only fUtilities-260.72/fUtilities/man/SkewnessKurtosis.Rd |only fUtilities-260.72/fUtilities/man/VectorMatrixAddon.Rd |only fUtilities-270.73/fUtilities/DESCRIPTION | 33 +++++----- fUtilities-270.73/fUtilities/R/Heaviside.R |only fUtilities-270.73/fUtilities/R/HeavisideSlider.R |only fUtilities-270.73/fUtilities/R/Sys.putenv.R |only fUtilities-270.73/fUtilities/R/akimaInterp.R |only fUtilities-270.73/fUtilities/R/as.POSIXlt.R |only fUtilities-270.73/fUtilities/R/as.matrix.ts.R |only fUtilities-270.73/fUtilities/R/baseMethods.R |only fUtilities-270.73/fUtilities/R/characterTable.R |only fUtilities-270.73/fUtilities/R/colIds.R |only fUtilities-270.73/fUtilities/R/colStats.R |only fUtilities-270.73/fUtilities/R/colVec.R |only fUtilities-270.73/fUtilities/R/colorLocator.R |only fUtilities-270.73/fUtilities/R/colorPalette.R |only fUtilities-270.73/fUtilities/R/colorTable.R |only fUtilities-270.73/fUtilities/R/decor.R |only fUtilities-270.73/fUtilities/R/description.R |only fUtilities-270.73/fUtilities/R/distCheck.R |only fUtilities-270.73/fUtilities/R/fHTEST.R |only fUtilities-270.73/fUtilities/R/getS4.R |only fUtilities-270.73/fUtilities/R/gridVector.R |only fUtilities-270.73/fUtilities/R/hilbert.R |only fUtilities-270.73/fUtilities/R/interactivePlot.R |only fUtilities-270.73/fUtilities/R/inv.R |only fUtilities-270.73/fUtilities/R/julian.R |only fUtilities-270.73/fUtilities/R/krigeInterp.R |only fUtilities-270.73/fUtilities/R/kron.R |only fUtilities-270.73/fUtilities/R/kurtosis.R |only fUtilities-270.73/fUtilities/R/lcg.R |only fUtilities-270.73/fUtilities/R/linearInterp.R |only fUtilities-270.73/fUtilities/R/listDescription.R |only fUtilities-270.73/fUtilities/R/listFunctions.R |only fUtilities-270.73/fUtilities/R/listIndex.R |only fUtilities-270.73/fUtilities/R/norm.R |only fUtilities-270.73/fUtilities/R/pascal.R |only fUtilities-270.73/fUtilities/R/pdl.R |only fUtilities-270.73/fUtilities/R/plot.R |only fUtilities-270.73/fUtilities/R/positiveDefinite.R |only fUtilities-270.73/fUtilities/R/print.R |only fUtilities-270.73/fUtilities/R/rgb.R |only fUtilities-270.73/fUtilities/R/rk.R |only fUtilities-270.73/fUtilities/R/rowStats.R |only fUtilities-270.73/fUtilities/R/skewness.R |only fUtilities-270.73/fUtilities/R/sliderMenu.R |only fUtilities-270.73/fUtilities/R/subPlot.R |only fUtilities-270.73/fUtilities/R/subStars.R |only fUtilities-270.73/fUtilities/R/symbolTable.R |only fUtilities-270.73/fUtilities/R/tr.R |only fUtilities-270.73/fUtilities/R/triang.R |only fUtilities-270.73/fUtilities/R/tslag.R |only fUtilities-270.73/fUtilities/R/unitTest.R |only fUtilities-270.73/fUtilities/R/unitrootNA.R |only fUtilities-270.73/fUtilities/R/vec.R |only fUtilities-270.73/fUtilities/R/zzz.R | 9 -- fUtilities-270.73/fUtilities/inst/unitTests/HeavisideSlider.R |only fUtilities-270.73/fUtilities/inst/unitTests/runTests.R | 1 fUtilities-270.73/fUtilities/inst/unitTests/runit.Heaviside.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.Sys.putenv.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.akimaInterp.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.as.matrix.ts.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.asPOSIXlt.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.baseMethods.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.characterTable.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.colStats.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.colorLocator.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.colorPalette.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.colorTable.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.decor.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.description.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.distCheck.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.fHTEST.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.getS4.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.gridVector.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.interactivePlot.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.julian.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.krigeInterp.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.kurtosis.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.lcg.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.linearInterp.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.listDescription.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.listFunctions.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.listIndex.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.matrixAddon.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.plot.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.print.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.rgb.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.rowStats.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.skewness.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.sliderMenu.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.subPlot.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.subStars.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.symbolTable.R |only fUtilities-270.73/fUtilities/inst/unitTests/runit.unitrootNA.R |only fUtilities-270.73/fUtilities/man/00fUtilities-package.Rd |only fUtilities-270.73/fUtilities/man/Heaviside.Rd |only fUtilities-270.73/fUtilities/man/akimaInterp.Rd |only fUtilities-270.73/fUtilities/man/as.POSIXlt.Rd |only fUtilities-270.73/fUtilities/man/as.matrix.ts.Rd |only fUtilities-270.73/fUtilities/man/baseMethods.Rd |only fUtilities-270.73/fUtilities/man/characterTable.Rd |only fUtilities-270.73/fUtilities/man/colIds.Rd |only fUtilities-270.73/fUtilities/man/colStats.Rd |only fUtilities-270.73/fUtilities/man/colVec.Rd |only fUtilities-270.73/fUtilities/man/colorLocator.Rd |only fUtilities-270.73/fUtilities/man/colorPalette.Rd |only fUtilities-270.73/fUtilities/man/colorTable.Rd |only fUtilities-270.73/fUtilities/man/decor.Rd |only fUtilities-270.73/fUtilities/man/description.Rd |only fUtilities-270.73/fUtilities/man/distCheck.Rd |only fUtilities-270.73/fUtilities/man/fHTEST.Rd |only fUtilities-270.73/fUtilities/man/getS4.Rd |only fUtilities-270.73/fUtilities/man/gridVector.Rd |only fUtilities-270.73/fUtilities/man/hilbert.Rd |only fUtilities-270.73/fUtilities/man/interactivePlot.Rd |only fUtilities-270.73/fUtilities/man/inv.Rd |only fUtilities-270.73/fUtilities/man/krigeInterp.Rd |only fUtilities-270.73/fUtilities/man/kron.Rd |only fUtilities-270.73/fUtilities/man/kurtosis.Rd |only fUtilities-270.73/fUtilities/man/lcg.Rd |only fUtilities-270.73/fUtilities/man/linearInterp.Rd |only fUtilities-270.73/fUtilities/man/listDescription.Rd |only fUtilities-270.73/fUtilities/man/listFunctions.Rd |only fUtilities-270.73/fUtilities/man/listIndex.Rd |only fUtilities-270.73/fUtilities/man/norm.Rd |only fUtilities-270.73/fUtilities/man/pascal.Rd |only fUtilities-270.73/fUtilities/man/pdl.Rd |only fUtilities-270.73/fUtilities/man/positiveDefinite.Rd |only fUtilities-270.73/fUtilities/man/print.Rd |only fUtilities-270.73/fUtilities/man/rk.Rd |only fUtilities-270.73/fUtilities/man/rowStats.Rd |only fUtilities-270.73/fUtilities/man/skewness.Rd |only fUtilities-270.73/fUtilities/man/symbolTable.Rd |only fUtilities-270.73/fUtilities/man/tr.Rd |only fUtilities-270.73/fUtilities/man/triang.Rd |only fUtilities-270.73/fUtilities/man/tslag.Rd |only fUtilities-270.73/fUtilities/man/vec.Rd |only 178 files changed, 21 insertions(+), 22 deletions(-)
Author: Diethelm Wuertz and many others. See the SOURCE file
Title: Rmetrics - Economic and Financial Data Sets
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fEcofin versions 260.72 dated 2007-10-08 and 270.73 dated 2008-05-13
fEcofin-260.72/fEcofin/data/edhec.csv |only fEcofin-260.72/fEcofin/data/managers.csv |only fEcofin-260.72/fEcofin/inst/unitTests/runitCIAFactbook.R |only fEcofin-260.72/fEcofin/inst/unitTests/runitWFEStatistics.R |only fEcofin-270.73/fEcofin/DESCRIPTION | 32 fEcofin-270.73/fEcofin/R/BondsData.R |only fEcofin-270.73/fEcofin/R/CIAFactbook.R | 3 fEcofin-270.73/fEcofin/R/PerformanceAnalyticsData.R |only fEcofin-270.73/fEcofin/R/PortfolioData.R |only fEcofin-270.73/fEcofin/R/TimeSeriesData.R | 50 - fEcofin-270.73/fEcofin/R/WFEStatistics.R | 4 fEcofin-270.73/fEcofin/R/zzz.R | 6 fEcofin-270.73/fEcofin/data/DEM98NYC.CSV |only fEcofin-270.73/fEcofin/data/DEM98ZRH.CSV |only fEcofin-270.73/fEcofin/data/edhec.tS.csv |only fEcofin-270.73/fEcofin/data/managers.tS.csv |only fEcofin-270.73/fEcofin/inst/unitTests/Makefile | 2 fEcofin-270.73/fEcofin/inst/unitTests/runit.BondsData.R |only fEcofin-270.73/fEcofin/inst/unitTests/runit.CIAFactbook.R |only fEcofin-270.73/fEcofin/inst/unitTests/runit.PerformanceAnalyticsData.R |only fEcofin-270.73/fEcofin/inst/unitTests/runit.PortfolioData.R |only fEcofin-270.73/fEcofin/inst/unitTests/runit.TimeSeriesData.R |only fEcofin-270.73/fEcofin/inst/unitTests/runit.WFEStatistics.R |only fEcofin-270.73/fEcofin/man/00fEcofin-package.Rd |only fEcofin-270.73/fEcofin/man/BondsData.Rd | 50 - fEcofin-270.73/fEcofin/man/PerformanceAnalyticsData.Rd | 30 fEcofin-270.73/fEcofin/man/PortfolioData.Rd | 199 ++++ fEcofin-270.73/fEcofin/man/TimeSeriesData.Rd | 446 ++++++---- fEcofin-270.73/fEcofin/man/WFEStatistics.Rd | 8 29 files changed, 586 insertions(+), 244 deletions(-)
Author: Diethelm Wuertz and many others, see the SOURCE file
Title: Rmetrics - Chronological and Calendarical Objects
Description: Environment for teaching "Financial Engineering and Computational Finance"
Diff between fCalendar versions 262.73 dated 2008-02-07 and 270.74 dated 2008-05-13
fCalendar-262.73/fCalendar/R/DaylightSavingTimeOld.R |only fCalendar-262.73/fCalendar/R/HolidayCalendars.R |only fCalendar-262.73/fCalendar/R/format.R |only fCalendar-262.73/fCalendar/R/getDayOfWeek.R |only fCalendar-262.73/fCalendar/R/holidays.R |only fCalendar-262.73/fCalendar/R/is.timeDate.R |only fCalendar-262.73/fCalendar/R/lastDay.R |only fCalendar-262.73/fCalendar/R/nthDay.R |only fCalendar-262.73/fCalendar/R/show.R |only fCalendar-262.73/fCalendar/inst/unitTests/runitDaylightSavingTime.R |only fCalendar-262.73/fCalendar/inst/unitTests/runitFinCenter.R |only fCalendar-262.73/fCalendar/inst/unitTests/runitHolidayCalendars.R |only fCalendar-262.73/fCalendar/inst/unitTests/runitHolidayDates.R |only fCalendar-262.73/fCalendar/inst/unitTests/runitSpecialDates.R |only fCalendar-262.73/fCalendar/inst/unitTests/runitTimeDataMathOps.R |only fCalendar-262.73/fCalendar/inst/unitTests/runitTimeDateClass.R |only fCalendar-262.73/fCalendar/inst/unitTests/runitTimeDateCoercion.R |only fCalendar-262.73/fCalendar/inst/unitTests/runitTimeDateSubsets.R |only fCalendar-262.73/fCalendar/man/FinCenter.Rd |only fCalendar-262.73/fCalendar/man/HolidayDates.Rd |only fCalendar-262.73/fCalendar/man/TimeDateClass.Rd |only fCalendar-262.73/fCalendar/man/TimeDateCoercion.Rd |only fCalendar-262.73/fCalendar/man/TimeDateMathOps.Rd |only fCalendar-262.73/fCalendar/man/TimeDateSpecDates.Rd |only fCalendar-262.73/fCalendar/man/getDayOfWeek.Rd |only fCalendar-262.73/fCalendar/man/holidayCalendar.Rd |only fCalendar-262.73/fCalendar/man/timeDateOrdering.Rd |only fCalendar-270.74/fCalendar/DESCRIPTION | 8 fCalendar-270.74/fCalendar/R/DaylightSavingTime.R | 15 fCalendar-270.74/fCalendar/R/Easter.R |only fCalendar-270.74/fCalendar/R/Ops.R | 250 -- fCalendar-270.74/fCalendar/R/as.R | 6 fCalendar-270.74/fCalendar/R/as.timeDate.R | 113 - fCalendar-270.74/fCalendar/R/blockStart.R |only fCalendar-270.74/fCalendar/R/c.R | 184 - fCalendar-270.74/fCalendar/R/class-timeDate.R |only fCalendar-270.74/fCalendar/R/currentYear.R | 15 fCalendar-270.74/fCalendar/R/dayOfWeek.R |only fCalendar-270.74/fCalendar/R/dayOfYear.R |only fCalendar-270.74/fCalendar/R/diff.R |only fCalendar-270.74/fCalendar/R/difftimeDate.R |only fCalendar-270.74/fCalendar/R/firstDay.R |only fCalendar-270.74/fCalendar/R/holiday.R |only fCalendar-270.74/fCalendar/R/holidayDate.R |only fCalendar-270.74/fCalendar/R/holidayNYSE.R | 31 fCalendar-270.74/fCalendar/R/holidayTSX.R | 13 fCalendar-270.74/fCalendar/R/holidayZURICH.R | 8 fCalendar-270.74/fCalendar/R/isBizday.R |only fCalendar-270.74/fCalendar/R/isWeekday.R | 10 fCalendar-270.74/fCalendar/R/julian.R | 6 fCalendar-270.74/fCalendar/R/length.R |only fCalendar-270.74/fCalendar/R/listFinCenter.R | 996 ++++------ fCalendar-270.74/fCalendar/R/listHolidays.R | 115 - fCalendar-270.74/fCalendar/R/methods-format.R |only fCalendar-270.74/fCalendar/R/methods-plot.R |only fCalendar-270.74/fCalendar/R/methods-show.R |only fCalendar-270.74/fCalendar/R/methods-summary.R |only fCalendar-270.74/fCalendar/R/midnightStandard.R |only fCalendar-270.74/fCalendar/R/myFinCenter.R |only fCalendar-270.74/fCalendar/R/myUnits.R |only fCalendar-270.74/fCalendar/R/nDay.R |only fCalendar-270.74/fCalendar/R/onOrAfter.R | 399 ---- fCalendar-270.74/fCalendar/R/periods.R |only fCalendar-270.74/fCalendar/R/rep.R |only fCalendar-270.74/fCalendar/R/rev.R |only fCalendar-270.74/fCalendar/R/round.R |only fCalendar-270.74/fCalendar/R/rulesFinCenter.R |only fCalendar-270.74/fCalendar/R/sample.R |only fCalendar-270.74/fCalendar/R/sort.R |only fCalendar-270.74/fCalendar/R/start.R |only fCalendar-270.74/fCalendar/R/subset.R | 278 -- fCalendar-270.74/fCalendar/R/timeDate.R | 324 --- fCalendar-270.74/fCalendar/R/timeSequence.R | 22 fCalendar-270.74/fCalendar/R/unique.R |only fCalendar-270.74/fCalendar/R/whichFormat.R |only fCalendar-270.74/fCalendar/R/window.R |only fCalendar-270.74/fCalendar/inst/todo.txt |only fCalendar-270.74/fCalendar/inst/unitTests/runi.Coercion.R |only fCalendar-270.74/fCalendar/inst/unitTests/runit.Class.R |only fCalendar-270.74/fCalendar/inst/unitTests/runit.DaylightSavingTime.R |only fCalendar-270.74/fCalendar/inst/unitTests/runit.FinCenter.R |only fCalendar-270.74/fCalendar/inst/unitTests/runit.HolidayCalendars.R |only fCalendar-270.74/fCalendar/inst/unitTests/runit.HolidayDates.R |only fCalendar-270.74/fCalendar/inst/unitTests/runit.MathOps.R |only fCalendar-270.74/fCalendar/inst/unitTests/runit.SpecialDates.R |only fCalendar-270.74/fCalendar/inst/unitTests/runit.Subsets.R |only fCalendar-270.74/fCalendar/man/00fCalendar-package.Rd |only fCalendar-270.74/fCalendar/man/DaylightSavingTime.Rd | 64 fCalendar-270.74/fCalendar/man/Easter.Rd |only fCalendar-270.74/fCalendar/man/Ops.Rd |only fCalendar-270.74/fCalendar/man/Sys.timeDate.Rd |only fCalendar-270.74/fCalendar/man/as.Rd |only fCalendar-270.74/fCalendar/man/as.timeDate.Rd |only fCalendar-270.74/fCalendar/man/blockStart.Rd |only fCalendar-270.74/fCalendar/man/c.Rd |only fCalendar-270.74/fCalendar/man/class-timeDate.Rd |only fCalendar-270.74/fCalendar/man/currentYear.Rd |only fCalendar-270.74/fCalendar/man/dayOfWeek.Rd |only fCalendar-270.74/fCalendar/man/dayOfYear.Rd |only fCalendar-270.74/fCalendar/man/diff.Rd |only fCalendar-270.74/fCalendar/man/difftimeDate.Rd |only fCalendar-270.74/fCalendar/man/firstDay.Rd |only fCalendar-270.74/fCalendar/man/holiday.Rd | 89 fCalendar-270.74/fCalendar/man/holidayDate.Rd |only fCalendar-270.74/fCalendar/man/holidayNYSE.Rd |only fCalendar-270.74/fCalendar/man/holidayTSX.Rd |only fCalendar-270.74/fCalendar/man/holidayZURICH.Rd |only fCalendar-270.74/fCalendar/man/isBizday.Rd |only fCalendar-270.74/fCalendar/man/isWeekday.Rd | 39 fCalendar-270.74/fCalendar/man/julian.Rd |only fCalendar-270.74/fCalendar/man/length.Rd |only fCalendar-270.74/fCalendar/man/listFinCenter.Rd |only fCalendar-270.74/fCalendar/man/listHolidays.Rd |only fCalendar-270.74/fCalendar/man/methods-format.Rd |only fCalendar-270.74/fCalendar/man/methods-plot.Rd |only fCalendar-270.74/fCalendar/man/methods-show.Rd |only fCalendar-270.74/fCalendar/man/methods-summary.Rd |only fCalendar-270.74/fCalendar/man/midnightStandard.Rd |only fCalendar-270.74/fCalendar/man/myFinCenter.Rd |only fCalendar-270.74/fCalendar/man/myUnits.Rd |only fCalendar-270.74/fCalendar/man/nDay.Rd |only fCalendar-270.74/fCalendar/man/onOrAfter.Rd |only fCalendar-270.74/fCalendar/man/rep.Rd |only fCalendar-270.74/fCalendar/man/rev.Rd |only fCalendar-270.74/fCalendar/man/round.Rd |only fCalendar-270.74/fCalendar/man/rulesFinCenter.Rd |only fCalendar-270.74/fCalendar/man/sample.Rd |only fCalendar-270.74/fCalendar/man/sort.Rd |only fCalendar-270.74/fCalendar/man/start.Rd |only fCalendar-270.74/fCalendar/man/subset.Rd | 91 fCalendar-270.74/fCalendar/man/timeCalendar.Rd |only fCalendar-270.74/fCalendar/man/timeDate.Rd |only fCalendar-270.74/fCalendar/man/timeSequence.Rd |only fCalendar-270.74/fCalendar/man/unique.Rd |only fCalendar-270.74/fCalendar/man/whichFormat.Rd |only fCalendar-270.74/fCalendar/man/window.Rd |only 136 files changed, 911 insertions(+), 2165 deletions(-)
Author: Jonathan Harrington and others, IPS LMU Muenchen & IPDS CAU Kiel
Title: Interface to the Emu Speech Database System
Description: Provides an interface to the Emu speech database system and
many special purpose functions for display and analysis of speech
data.
Diff between emu versions 3.0 dated 2008-02-16 and 3.1 dated 2008-05-13
DESCRIPTION | 32 +-- R/AAoptions.S | 149 ++++++++-------- R/MethodEPG.S | 16 - R/bark.S | 52 ++--- R/buildtrack.S | 90 ++++----- R/dct.S | 82 ++++---- R/dimtrackdata.S | 30 +-- R/emu.track.S | 481 +++++++++++++++++++++++++++++----------------------- R/end.emusegs.S | 12 - R/locus.S | 70 +++---- R/makelab.S | 122 ++++++------- R/palate.S | 100 +++++----- R/plafit.S | 72 +++---- R/start.trackdata.S | 24 +- R/trackapply.S | 40 ++-- R/tracktimes.S | 42 ++-- man/dbnorm.Rd | 94 +++++----- man/dorfric.vl.Rd | 42 ++-- man/emu.query.Rd | 2 man/emu.track.Rd | 2 man/freqtoint.Rd | 98 +++++----- man/is.spectral.Rd | 76 ++++---- man/rad.Rd | 70 +++---- man/shift.Rd | 80 ++++---- man/trackfreq.Rd | 82 ++++---- 25 files changed, 1022 insertions(+), 938 deletions(-)
Author: Venkatraman E. Seshan
Title: Clinical Trial Design and Data Analysis Functions
Description: Utilities to make your clinical collaborations easier if not fun.
Diff between clinfun versions 0.7-4 dated 2007-10-07 and 0.7-5 dated 2008-05-13
DESCRIPTION | 6 +++--- R/calogrank.R | 2 +- R/jonkheere.R | 2 +- man/calogrank.Rd | 1 + man/coxphQuantile.Rd | 8 +++++--- man/oc.twostage.bdry.Rd | 2 +- 6 files changed, 12 insertions(+), 9 deletions(-)
Author: Gavin L. Simpson, Jari Oksanen
Title: Analogue and weighted averaging methods for palaeoecology
Description: Fits Modern Analogue Technique and Weighted Averaging transfer
function models for prediction of environmental data from species
data, and related methods used in palaeoecology.
Diff between analogue versions 0.5-1 dated 2008-04-24 and 0.5-2 dated 2008-05-13
DESCRIPTION | 6 +++--- R/internal.R | 7 ++++++- R/join.R | 9 +++++++-- R/predict.wa.R | 4 +++- R/wa.R | 6 ++++-- R/wa.formula.R | 2 +- inst/ChangeLog | 42 +++++++++++++++++++++++++++++------------- inst/doc/analogue_methods.pdf |binary man/analogue-internal.Rd | 1 + man/wa.Rd | 10 ++++++---- 10 files changed, 60 insertions(+), 27 deletions(-)
Author: Duncan Temple Lang (duncan@wald.ucdavis.edu)
Title: Tools for parsing and generating XML within R and S-Plus.
Description: Parsing facilities for arbitrary XML files, DTDs and HTML, offering both
event and tree based parsers which are customizable with R functions.
Diff between XML versions 1.95-1 dated 2008-05-07 and 1.95-2 dated 2008-05-13
Changes | 5 +++++ DESCRIPTION | 4 ++-- INSTALL | 2 +- R/XMLClasses.R | 2 ++ src/DocParse.c | 6 ++---- src/EventParse.c | 4 ++-- src/RUtils.c | 2 +- src/Utils.c | 22 +++++++++++----------- src/Utils.h | 2 +- src/XMLEventParse.c | 4 ++-- src/XMLTree.c | 5 ++--- src/catalog.c | 3 ++- 12 files changed, 33 insertions(+), 28 deletions(-)
Author: Duncan Temple Lang
Title: HTTP request interface
Description: The package allows one to compose HTTP requests to fetch URIs, post forms,
etc. and process the results returned by the Web server.
This provides a great deal of control over the HTTP connection and the form
of the request while providing a higher-level interface than is available just
using R socket connections. Additionally, the underlying implementation is robust
and extensive, supporting SSL/HTTPS, cookies, redirects, authentication, etc.
Diff between RCurl versions 0.9-2 dated 2008-05-08 and 0.9-3 dated 2008-05-13
RCurl-0.9-2/RCurl/base64.R |only RCurl-0.9-2/RCurl/inst/examples/concurrent.html |only RCurl-0.9-2/RCurl/src/curl.E |only RCurl-0.9-2/RCurl/testForm1.pl |only RCurl-0.9-3/RCurl/Changes.html | 10 +++++++++- RCurl-0.9-3/RCurl/DESCRIPTION | 4 ++-- RCurl-0.9-3/RCurl/man/MultiCURLHandle-class.Rd | 1 - RCurl-0.9-3/RCurl/src/Rcurl.h | 3 +++ RCurl-0.9-3/RCurl/src/base64.c | 2 +- RCurl-0.9-3/RCurl/src/curl.c | 6 ++---- RCurl-0.9-3/RCurl/src/memoryManagement.c | 2 +- 11 files changed, 18 insertions(+), 10 deletions(-)
Author: Thomas D. Fletcher
Title: Quantitative Psychology Tools
Description: Contains functions useful for data screening,
testing moderation, mediation and estimating power.
Diff between QuantPsyc versions 1.0 dated 2007-12-31 and 1.1 dated 2008-05-13
DESCRIPTION | 6 +++--- R/sim.slopes.R | 6 +++--- man/QuantPsyc-package.Rd | 4 ++-- 3 files changed, 8 insertions(+), 8 deletions(-)
Author: Frank Schaarschmidt, Daniel Gerhard, Martin Sill
Title: Multiple comparisons using normal approximation
Description: Multiple contrast tests and simultaneous confidence
intervals based on normal approximation. With implementations for
binomial proportions in a 2xk setting (risk difference and odds ratio),
poly-3-adjusted tumour rates, and multiple comparisons of biodiversity indices.
Approximative power calculation for multiple contrast tests of binomial
proportions.
Diff between MCPAN versions 1.1-4 dated 2008-04-14 and 1.1-5 dated 2008-05-13
DESCRIPTION | 6 +++--- R/binomORci.R | 2 +- R/poly3ci.R | 2 +- R/poly3test.R | 2 +- man/MCPAN-package.Rd | 2 +- 5 files changed, 7 insertions(+), 7 deletions(-)
Author: Robin K. S. Hankin
Title: The Davies quantile function
Description: The Davies quantile function and the Generalized Lambda distribution
Diff between Davies versions 1.0-2 dated 2007-10-11 and 1.1-2 dated 2008-05-13
DESCRIPTION | 4 ++-- R/parzfns.R | 21 ++++++++++++++++++--- man/hypergeo.Rd | 22 ++++++++++++++++------ 3 files changed, 36 insertions(+), 11 deletions(-)
Author: Roeland Kindt
Title: GUI for biodiversity and community ecology analysis
Description: This package provides a GUI (Graphical User Interface, via the R-Commander) and some utility functions (often based on the vegan package) for statistical analysis of biodiversity and ecological communities, including species accumulation curves, diversity indices, Renyi profiles, GLMs for analysis of species abundance and presence-absence, distance matrices, Mantel tests, and cluster, constrained and unconstrained ordination analysis. A book on biodiversity and community ecology analysis is available for free download from the website.
Diff between BiodiversityR versions 1.1 dated 2008-01-14 and 1.2 dated 2008-05-13
DESCRIPTION | 10 NAMESPACE | 2 R/caprescale.R |only R/nested.anova.dbrda.R | 244 ++- inst/etc/BiodiversityGUI.R | 9 inst/etc/Rcmdr-menus.txt | 17 man/BCI.env.Rd | 82 - man/BiodiversityR-package.Rd | 219 +-- man/BiodiversityRGUI.Rd | 3002 +++++++++++++++++++++---------------------- man/CAPdiscrim.Rd | 168 +- man/NMSrandom.Rd | 108 - man/PCAsignificance.Rd | 120 - man/accumresult.Rd | 180 +- man/add.spec.scores.Rd | 102 - man/balanced.specaccum.Rd | 120 - man/caprescale.Rd |only man/crosstabanalysis.Rd | 84 - man/deviancepercentage.Rd | 112 - man/dist.eval.Rd | 102 - man/dist.zeroes.Rd | 110 - man/distdisplayed.Rd | 126 - man/disttransform.Rd | 108 - man/diversityresult.Rd | 146 +- man/import.from.Excel.Rd | 138 - man/loaded.citations.Rd | 52 man/makecommunitydataset.Rd | 106 - man/multiconstrained.Rd | 132 - man/nested.anova.dbrda.Rd | 126 - man/nnetrandom.Rd | 118 - man/ordicoeno.Rd | 100 - man/ordisymbol.Rd | 204 +- man/radfitresult.Rd | 108 - man/rankabundance.Rd | 172 +- man/removeNAcomm.Rd | 174 +- man/renyiresult.Rd | 192 +- man/residualssurface.Rd | 124 - man/spatialsample.Rd | 150 +- 37 files changed, 3585 insertions(+), 3482 deletions(-)
Author: Andrew Parnell
Title: Create chronologies based on radiocarbon and non-radiocarbon dated depths
Description: This package follows the work of Parnell and Haslett (2007; JRSSC). It runs MCMC, predictions and plots for radiocarbon (and non radiocarbon) dated sediment cores.
Diff between Bchron versions 2.0 dated 2008-04-27 and 2.1 dated 2008-05-13
DESCRIPTION | 4 ++-- NAMESPACE | 2 +- R/BchronMCMC.R | 2 +- R/Bchroncalibrate.R | 26 +++++++++++++++++++++++++- R/Bchronconvergecheck.R | 4 ++++ R/Bchronmenu.R | 27 +++++++++++++++++++++++++-- R/Bchronplotevent.R | 6 +++--- R/Bchronplotterdatesonly.r |only R/Bchronpredictevent.R | 2 +- R/Bchronquickload.R | 1 + R/BchronreadEPD.r |only man/Bchroncalibrate.Rd | 2 +- man/Bchronplotterdatesonly.Rd |only man/BchronreadEPD.Rd |only src/calibrate.c | 2 +- 15 files changed, 65 insertions(+), 13 deletions(-)
Author: Ki-Yeol Kim and Gwan-Su Yi, CSBio lab., Information and
Communications University
Title: Sequential KNN imputation method
Description: This function estimates missing values sequentially from
the gene that had least missing rate in microarray data
Diff between SeqKnn versions 1.0.0 dated 2006-02-08 and 1.0.1 dated 2008-05-09
SeqKnn-1.0.0/SeqKnn/R/SeqKNN.R |only SeqKnn-1.0.0/SeqKnn/R/nnmiss.R |only SeqKnn-1.0.0/SeqKnn/README |only SeqKnn-1.0.0/SeqKnn/man/SeqKNN.Rd |only SeqKnn-1.0.1/SeqKnn/CONTENTS |only SeqKnn-1.0.1/SeqKnn/DESCRIPTION | 20 ++++++++++---------- SeqKnn-1.0.1/SeqKnn/INDEX |only SeqKnn-1.0.1/SeqKnn/MD5 |only SeqKnn-1.0.1/SeqKnn/R/SeqKnn.R |only SeqKnn-1.0.1/SeqKnn/man/SeqKnn.Rd |only SeqKnn-1.0.1/SeqKnn/man/khan05.Rd | 17 +++-------------- SeqKnn-1.0.1/SeqKnn/man/nnmiss.Rd | 19 ------------------- 12 files changed, 13 insertions(+), 43 deletions(-)
Author: PBAT: Christoph Lange, pbatR: Thomas Hoffmann
Title: P2BAT
Description: This package provides data analysis via the pbat program, and an alternative internal implementation of the power calculations via simulation only. For analysis, this package provides a frontend to the PBAT software, automatically reading in the output from the pbat program and displaying the corresponding figure when appropriate (i.e. PBAT-logrank). It includes support for multiple processes and clusters. For analysis, users must download PBAT and accept it's license, available on the PBAT webpage. Both the data analysis and power calculations have command line and graphical interfaces using tcltk.
Diff between pbatR versions 2.0.2 dated 2007-09-27 and 2.1.1 dated 2008-05-09
DESCRIPTION | 6 +- NAMESPACE | 21 ++++--- R/cped.R |only R/createCommandfile.R | 30 +++++++--- R/pbat.R | 30 +++++++--- R/pbat.dir.R | 42 +++++++------- R/pbat.m.R | 32 ++++++---- R/pbatGUI.R | 61 ++++++++++++++++---- R/ped.R | 23 +++++-- R/phe.R | 18 ++++-- R/power.R | 58 +++++++++++++------ R/powerConversions.R | 4 - R/powerGUI.R | 66 +++++++++++++++------- R/version.R | 15 +++-- man/cped.Rd |only man/pbat.Rd | 149 ++++++++++++++++++++++++++------------------------ man/ped.Rd | 25 ++++---- man/phe.Rd | 14 ++-- man/power.Rd | 14 ++-- src/data.cpp | 29 +++++++++ src/kludge.cpp | 16 +++-- src/powerSim.cpp | 54 +++++++++++++----- src/wait.cpp | 20 +++--- 23 files changed, 469 insertions(+), 258 deletions(-)
Author: Max Kuhn, Steve Weaston
Title: Sweave processing of Open Document Format (ODF) files
Description: Sweave processing of Open Document Format (ODF) files
Diff between odfWeave versions 0.7.4 dated 2008-05-05 and 0.7.5 dated 2008-05-09
._odfWeave |only odfWeave/._DESCRIPTION |only odfWeave/._NAMESPACE |only odfWeave/._R |only odfWeave/._ToDo |only odfWeave/._inst |only odfWeave/._man |only odfWeave/DESCRIPTION | 6 +++--- odfWeave/R/._RweaveOdf.R |only odfWeave/R/._addFontDecs.R |only odfWeave/R/._addStyleDefs.R |only odfWeave/R/._adjustImageSize.R |only odfWeave/R/._figGen.R |only odfWeave/R/._getExt.R |only odfWeave/R/._getStyles.R |only odfWeave/R/._listString.R |only odfWeave/R/._matrixPaste.R |only odfWeave/R/._odfCat.R |only odfWeave/R/._odfDataType.R |only odfWeave/R/._odfEnv.R |only odfWeave/R/._odfFigureCaption.R |only odfWeave/R/._odfInsertPlot.R |only odfWeave/R/._odfItemize.R |only odfWeave/R/._odfPageBreak.R |only odfWeave/R/._odfSetPageStyle.R |only odfWeave/R/._odfStyleGen.R |only odfWeave/R/._odfTable.R |only odfWeave/R/._odfTable.character.R |only odfWeave/R/._odfTable.data.frame.R |only odfWeave/R/._odfTable.matrix.R |only odfWeave/R/._odfTable.numeric.R |only odfWeave/R/._odfTableCaption.R |only odfWeave/R/._odfTableGen.R |only odfWeave/R/._odfTmpDir.R |only odfWeave/R/._odfTranslate.R |only odfWeave/R/._odfWeave.R |only odfWeave/R/._odfWeaveControl.R |only odfWeave/R/._pkgVersions.R |only odfWeave/R/._postproc.R |only odfWeave/R/._preproc.R |only odfWeave/R/._procstyles.R |only odfWeave/R/._tableStyles.R |only odfWeave/R/._xmlUtils.R |only odfWeave/R/odfWeave.R | 22 +++++++++++----------- odfWeave/inst/._doc |only odfWeave/inst/._examples |only odfWeave/inst/doc/._RnewsExample.pdf |only odfWeave/inst/doc/._RnewsOut.pdf |only odfWeave/inst/doc/._odfWeave.Rnw |only odfWeave/inst/doc/._odfWeave.pdf |only odfWeave/inst/doc/._odfWeave.tex |only odfWeave/inst/doc/odfWeave.pdf |binary odfWeave/inst/doc/odfWeave.tex | 8 ++++---- odfWeave/inst/examples/._Frink.png |only odfWeave/inst/examples/._RunFormatting.R |only odfWeave/inst/examples/._examples.odt |only odfWeave/inst/examples/._formatting.odt |only odfWeave/inst/examples/._formattingOut.odt |only odfWeave/inst/examples/._simple.odt |only odfWeave/inst/examples/._testCases.odt |only odfWeave/man/._PreProc.Rd |only odfWeave/man/._RweaveOdf.Rd |only odfWeave/man/._adjustImageSize.Rd |only odfWeave/man/._announce.Rd |only odfWeave/man/._listString.Rd |only odfWeave/man/._matrixPaste.Rd |only odfWeave/man/._odfCat.Rd |only odfWeave/man/._odfFigureCaption.Rd |only odfWeave/man/._odfInsertPlot.Rd |only odfWeave/man/._odfItemize.Rd |only odfWeave/man/._odfPageBreak.Rd |only odfWeave/man/._odfSetPageStyle.Rd |only odfWeave/man/._odfTable.Rd |only odfWeave/man/._odfTableCaption.Rd |only odfWeave/man/._odfTmpDir.Rd |only odfWeave/man/._odfWeave.Rd |only odfWeave/man/._odfWeaveControl.Rd |only odfWeave/man/._pkgVersions.Rd |only odfWeave/man/._styles.Rd |only odfWeave/man/._tableStyles.Rd |only 80 files changed, 18 insertions(+), 18 deletions(-)
Author: Jonathan Rougier
Diff between Oarray versions 1.4 dated 2007-10-03 and 1.4-2 dated 2008-05-09
Title: Arrays with arbitrary offsets
Description: Generalise the starting point of the array index
DESCRIPTION | 4 ++--
R/Oarray.R | 52 ++++++++++++++++++++++++++++++++++++++++++----------
man/Oarray.Rd | 28 +++++++++++++++++++++++-----
man/internal.Rd | 10 ++++------
4 files changed, 71 insertions(+), 23 deletions(-)
Author: Robin K. S. Hankin
Title: multivariate polynomials
Description: Various utilities to manipulate multivariate polynomials
Diff between multipol versions 1.0-1 dated 2008-04-22 and 1.0-2 dated 2008-05-09
DESCRIPTION | 4 ++-- R/multipol.R | 11 +++++------ man/Ops.multipol.Rd | 18 ++++++++++++------ man/as.array.Rd | 3 ++- man/trim.Rd | 9 ++++----- 5 files changed, 25 insertions(+), 20 deletions(-)
Author: Torsten Hothorn, Friedrich Leisch, Achim Zeileis
Title: Tools and Classes for Statistical Models
Description: A collection of tools to deal with statistical models.
The functionality is experimental and the user interface is likely to
change in the future. The documentation is rather terse, but packages `coin'
and `party' have some working examples. However, if you find the
implemented ideas interesting we would be very interested in a discussion
of this proposal. Contributions are more than welcome!
Diff between modeltools versions 0.2-14 dated 2007-09-26 and 0.2-15 dated 2008-05-09
CHANGES | 12 ++++++++++++ DESCRIPTION | 6 +++--- NAMESPACE | 4 ++-- R/Generics.R | 4 ++-- R/Methods.R | 27 ++++++++++++++++++++++----- R/NAhandling.R | 6 +++--- inst/CHANGES | 12 ++++++++++++ man/Generics.Rd | 6 +++--- man/ModelEnv-class.Rd | 16 +++++++++++++--- tests/regtest.R | 6 ++++++ 10 files changed, 78 insertions(+), 21 deletions(-)
Author: Friedrich Leisch and Bettina Gruen
Title: Flexible Mixture Modeling
Description: FlexMix implements a general framework for finite
mixtures of regression models using the EM algorithm.
FlexMix provides the E-step and all data handling, while the M-step can be
supplied by the user to easily define new models. Existing drivers
implement mixtures of standard linear models, generalized linear
models and model-based clustering.
Diff between flexmix versions 2.0-2 dated 2008-03-26 and 2.1-0 dated 2008-05-09
DESCRIPTION | 8 NAMESPACE | 2 NEWS | 10 R/allGenerics.R | 6 R/flexmix.R | 6 R/infocrit.R | 4 R/plot-flexmix.R | 4 R/plot.R | 4 R/refit.R | 9 inst/NEWS | 10 inst/doc/flexmix-intro.Rnw | 4 inst/doc/flexmix-intro.pdf | 1619 +++---- inst/doc/regression-examples.Rnw | 14 inst/doc/regression-examples.pdf | 8007 +++++++++++++++++++-------------------- man/FLXmclust.Rd | 6 man/flexmix.Rd | 6 man/patent.Rd | 4 man/plot-methods.Rd | 2 man/posterior.Rd | 10 man/salmonellaTA98.Rd | 4 tests/binomial.R | 4 tests/binomial.Rout.save | 4 tests/restart.R | 4 23 files changed, 4886 insertions(+), 4865 deletions(-)
Author: Friedrich Leisch
Title: Flexible Cluster Algorithms
Description: The main function kcca implements a general framework for
k-centroids cluster analysis supporting arbitrary
distance/similarity measures and centroid computation. Further
cluster methods include hard competitive learning, neural gas and QT
clustering.
Diff between flexclust versions 0.9-1 dated 2007-05-03 and 0.99-0 dated 2008-05-09
DESCRIPTION | 10 ++--- NAMESPACE | 11 ++++-- NEWS | 43 +++++++++++++++++++++++++ R/barplot.R | 55 +++++++++++++++++++++++++------- R/cclust.R | 22 ++++++++----- R/info.R | 7 ++-- R/kcca.R | 53 +++++++++++++++++++++++-------- R/plot.R | 79 ++++++++++++++++++++++++++++++++++++++--------- R/predict.R | 6 +-- R/projAxes.R | 14 ++++---- R/qtclust.R | 56 ++++++++++++++++++++++++--------- R/tour.R |only R/utils.R | 82 ++++++++++++++++++++++++++++++++++++++----------- data/dentitio.txt | 4 +- inst/CITATION | 68 ++++++++++++++++++++++++++++++++++++++-- inst/NEWS | 43 +++++++++++++++++++++++++ man/barplot-methods.Rd | 16 ++++----- man/cclust.Rd | 10 +++-- man/conversion.Rd | 6 +-- man/flxColors.Rd |only man/info.Rd | 2 - man/kcca.Rd | 47 +++++++++++++++++++++++----- man/plot-methods.Rd | 35 +++++++++++--------- man/predict-methods.Rd | 16 ++++----- man/projAxes.Rd | 4 +- man/qtclust.Rd | 39 ++++++++++++++++++----- man/randomTour.Rd |only man/stepFlexclust.Rd | 6 ++- tests/randomTour.R |only 29 files changed, 570 insertions(+), 164 deletions(-)
Author: David Meyer, Achim Zeileis, Kurt Hornik
Title: Visualizing Categorical Data
Description: Visualization techniques, data sets, summary and inference
procedures aimed particularly at categorical data. Special
emphasis is given to highly extensible grid graphics. The
package was inspired by the book "Visualizing Categorical Data"
by Michael Friendly.
Diff between vcd versions 1.0-6 dated 2007-10-16 and 1.0-8 dated 2008-05-08
DESCRIPTION | 6 R/Ord_plot.R | 2 R/assoc.R | 2 R/cd_plot.R | 2 R/cotabplot.R | 58 R/distplot.R | 8 R/doubledeckerplot.R | 2 R/fourfold.R | 26 R/goodfit.R | 21 R/labeling.R | 50 R/legends.R | 26 R/mosaic.R | 2 R/rootogram.R | 2 R/sieve.R | 2 R/spacings.R | 2 R/spine.R | 2 R/strucplot.R | 34 R/structable.R | 14 R/ternaryplot.R | 14 demo/mondrian.R | 3 inst/CITATION | 3 inst/doc/Rplots.ps |39208 +++++++++++----------- inst/doc/Z.cls |only inst/doc/bkde.png |binary inst/doc/bkde2.png |binary inst/doc/class.png |binary inst/doc/hcl-colors-arthritis1.pdf | 96 inst/doc/hcl-colors-pal-d1.pdf | 6 inst/doc/hcl-colors-pal-q1.pdf | 6 inst/doc/hcl-colors-pal-s1.pdf | 6 inst/doc/hcl-colors-seats1.pdf | 6 inst/doc/hcl-colors-votes1.pdf | 6 inst/doc/hcl-colors.aux | 18 inst/doc/hcl-colors.log | 282 inst/doc/hcl-colors.pdf | 3684 +- inst/doc/jss.bst |only inst/doc/residual-shadings-Arthritis-classic1.pdf | 6 inst/doc/residual-shadings-Punishment-assoc1.pdf | 346 inst/doc/residual-shadings-Punishment-mosaic1.pdf | 202 inst/doc/residual-shadings-alzheimer-plot1.pdf | 106 inst/doc/residual-shadings-shadings.pdf | 6 inst/doc/residual-shadings.aux | 10 inst/doc/residual-shadings.blg | 2 inst/doc/residual-shadings.log | 277 inst/doc/residual-shadings.pdf | 3609 +- inst/doc/strucplot-Arthritis.eps | 72 inst/doc/strucplot-Arthritis.pdf | 94 inst/doc/strucplot-Conditioningfig.eps | 74 inst/doc/strucplot-Conditioningfig.pdf | 100 inst/doc/strucplot-Expectedfig.eps | 98 inst/doc/strucplot-Expectedfig.pdf | 120 inst/doc/strucplot-Observedfig.eps | 98 inst/doc/strucplot-Observedfig.pdf | 104 inst/doc/strucplot-PreSex.eps | 104 inst/doc/strucplot-PreSex.pdf | 126 inst/doc/strucplot-Residualsfig.eps | 226 inst/doc/strucplot-Residualsfig.pdf | 248 inst/doc/strucplot-Titanic.pdf | 6 inst/doc/strucplot-UCBAdmissions.eps | 216 inst/doc/strucplot-UCBAdmissions.pdf | 238 inst/doc/strucplot-Variablesfig.pdf | 6 inst/doc/strucplot-arthritisfig.eps | 74 inst/doc/strucplot-arthritisfig.pdf | 96 inst/doc/strucplot-artspinefig.eps | 26 inst/doc/strucplot-artspinefig.pdf | 32 inst/doc/strucplot-bundesligafig.pdf | 6 inst/doc/strucplot-changeplotfig.eps | 116 inst/doc/strucplot-changeplotfig.pdf | 122 inst/doc/strucplot-cotabplotfig.eps | 76 inst/doc/strucplot-cotabplotfig.pdf | 86 inst/doc/strucplot-haireyefig1.pdf | 6 inst/doc/strucplot-haireyefig2.pdf | 6 inst/doc/strucplot-haireyefig3.pdf | 6 inst/doc/strucplot-interpolatefig.pdf | 6 inst/doc/strucplot-label1fig.pdf | 6 inst/doc/strucplot-label2fig.eps | 348 inst/doc/strucplot-label2fig.pdf | 394 inst/doc/strucplot-label3fig.eps | 352 inst/doc/strucplot-label3fig.pdf | 386 inst/doc/strucplot-listfig.pdf | 6 inst/doc/strucplot-ocdoubledecker.pdf | 6 inst/doc/strucplot-ocmosaicnull.eps | 119 inst/doc/strucplot-ocmosaicnull.pdf | 141 inst/doc/strucplot-ocmosaicstage.eps | 95 inst/doc/strucplot-ocmosaicstage.pdf | 117 inst/doc/strucplot-ocpairs.pdf | 6 inst/doc/strucplot-pairsfig.pdf | 6 inst/doc/strucplot-recyclingfig.eps | 136 inst/doc/strucplot-recyclingfig.pdf | 166 inst/doc/strucplot-shading1fig.eps | 20 inst/doc/strucplot-shading1fig.pdf | 26 inst/doc/strucplot-sievefig.eps | 1330 inst/doc/strucplot-sievefig.pdf | 736 inst/doc/strucplot-spacingfig.eps | 104 inst/doc/strucplot-spacingfig.pdf | 126 inst/doc/strucplot-splitfig.eps | 98 inst/doc/strucplot-splitfig.pdf | 120 inst/doc/strucplot-ucbfig.eps | 20 inst/doc/strucplot-ucbfig.pdf | 26 inst/doc/strucplot-vcdlayout.pdf | 6 inst/doc/strucplot-viewportnamesfig.eps | 56 inst/doc/strucplot-viewportnamesfig.pdf | 70 inst/doc/strucplot.aux | 74 inst/doc/strucplot.log | 346 inst/doc/strucplot.pdf |binary inst/doc/vcd.bib |only man/MSPatients.Rd | 3 man/agreementplot.Rd | 3 man/assocstats.Rd | 2 man/labeling_border.Rd | 3 man/oddsratio.Rd | 2 man/strucplot.Rd | 2 112 files changed, 28106 insertions(+), 28102 deletions(-)
Author: Compiled by Adrian Trapletti
Diff between tseries versions 0.10-14 dated 2008-02-26 and 0.10-15 dated 2008-05-08
Title: Time series analysis and computational finance
Description: Package for time series analysis and computational finance
ChangeLog | 7 +++++++
DESCRIPTION | 6 +++---
R/finance.R | 2 +-
inst/CITATION | 3 ++-
4 files changed, 13 insertions(+), 5 deletions(-)
Author: Uwe Ligges
Diff between scatterplot3d versions 0.3-26 dated 2008-05-02 and 0.3-27 dated 2008-05-08
Title: 3D Scatter Plot
Description: Plots a three dimensional (3D) point cloud.
CHANGES | 1 +
DESCRIPTION | 7 ++++---
inst/CITATION | 2 +-
inst/doc/s3d.pdf | 6 +++---
4 files changed, 9 insertions(+), 7 deletions(-)
Author: Robin Nunkesser
Diff between RFreak versions 0.2-0 dated 2007-12-24 and 0.2-1 dated 2008-05-08
Title: R/FrEAK interface
Description: An R interface to a modified version of the Free Evolutionary Algorithm Kit FrEAK. FrEAK is a toolkit written in Java to design and analyze evolutionary algorithms. Both the R interface and an extended version of FrEAK are contained in the RFreak package. For more information on FrEAK see http://sourceforge.net/projects/freak427/.
DESCRIPTION | 13
inst/java/resource/freak/gui/help/footnode.html | 2
inst/java/resource/freak/gui/help/index.html | 482 +++++++++++-----------
inst/java/resource/freak/gui/help/node1.html | 4
inst/java/resource/freak/gui/help/node3.html | 268 ++++++------
inst/java/resource/freak/gui/help/node4.html | 284 ++++++------
inst/java/resource/freak/gui/help/node5.html | 186 ++++----
inst/java/resource/freak/gui/help/node6.html | 375 ++++++++---------
inst/java/resource/freak/gui/help/node7.html | 3
inst/java/resource/freak/gui/help/node8.html | 3
inst/java/resource/freak/gui/help/usersguide.html | 38 -
inst/java/run.cmd | 2
man/RFreak-package.Rd | 9
13 files changed, 834 insertions(+), 835 deletions(-)
Author: Paul Gilbert
Diff between tframe versions 2007.5-3 dated 2007-07-13 and 2008.5-1 dated 2008-05-08
Title: Time Frame coding kernel
Description: Functions for writing code that is independent of the way time is represented. See ?tframe.Intro for more details.
tframe-2007.5-3/tframe/INDEX |only
tframe-2007.5-3/tframe/R/its.R |only
tframe-2007.5-3/tframe/R/zoo.R |only
tframe-2007.5-3/tframe/help |only
tframe-2007.5-3/tframe/tests/zoo.R |only
tframe-2007.5-3/tframe/tframe-manual.pdf |only
tframe-2008.5-1/tframe/DESCRIPTION | 8
tframe-2008.5-1/tframe/NAMESPACE | 21 -
tframe-2008.5-1/tframe/NEWS | 9
tframe-2008.5-1/tframe/R/tframe.R | 6
tframe-2008.5-1/tframe/inst/doc/tframe.pdf | 398 ++++++++++++++---------------
tframe-2008.5-1/tframe/man/tframe.Rd | 8
tframe-2008.5-1/tframe/man/tfstart.Rd | 24 -
tframe-2008.5-1/tframe/man/tfwindow.Rd | 4
tframe-2008.5-1/tframe/tests/utils.R | 24 +
15 files changed, 240 insertions(+), 262 deletions(-)
Author: Michal Czajkowski, Ryan Gill, Greg Rempala
Title: Logistic Joinpoint Regression
Description: Fits and tests logistic joinpoint models.
Diff between ljr versions 1.1-0 dated 2008-02-24 and 1.2-0 dated 2008-05-08
ljr-1.1-0/ljr/R/ljr02.R |only ljr-1.1-0/ljr/R/ljr12.R |only ljr-1.1-0/ljr/R/ljr2.R |only ljr-1.1-0/ljr/R/ljr22.R |only ljr-1.1-0/ljr/R/ljrb2.R |only ljr-1.1-0/ljr/R/ljrf2.R |only ljr-1.1-0/ljr/man/ljr02.rd |only ljr-1.1-0/ljr/man/ljr12.rd |only ljr-1.1-0/ljr/man/ljr2.rd |only ljr-1.1-0/ljr/man/ljr22.rd |only ljr-1.1-0/ljr/man/ljrb2.rd |only ljr-1.1-0/ljr/man/ljrf2.rd |only ljr-1.1-0/ljr/src/backward2.c |only ljr-1.1-0/ljr/src/fillfreeint.c |only ljr-1.1-0/ljr/src/forward2.c |only ljr-1.1-0/ljr/src/ljr2.c |only ljr-1.1-0/ljr/src/ljr22.c |only ljr-1.1-0/ljr/src/ljr2rmint.c |only ljr-1.1-0/ljr/src/ljr2rmtm.c |only ljr-1.1-0/ljr/src/test02.c |only ljr-1.1-0/ljr/src/test12.c |only ljr-1.2-0/ljr/DESCRIPTION | 18 +++++++++--------- ljr-1.2-0/ljr/R/firstlib.R | 2 +- ljr-1.2-0/ljr/R/ljr0.R | 3 ++- ljr-1.2-0/ljr/R/ljr01.R | 3 ++- ljr-1.2-0/ljr/R/ljr1.R | 14 +++++++------- ljr-1.2-0/ljr/R/ljr11.R | 3 ++- ljr-1.2-0/ljr/R/ljrb.R | 3 ++- ljr-1.2-0/ljr/R/ljrf.R | 3 ++- ljr-1.2-0/ljr/R/ljrjk.R | 5 +++-- ljr-1.2-0/ljr/R/ljrk.R | 3 ++- ljr-1.2-0/ljr/R/ljrkk.R | 3 ++- ljr-1.2-0/ljr/data |only ljr-1.2-0/ljr/man/kcm.rd |only ljr-1.2-0/ljr/man/ljr0.rd | 28 ++++++---------------------- ljr-1.2-0/ljr/man/ljr01.rd | 28 ++++++---------------------- ljr-1.2-0/ljr/man/ljr1.rd | 29 ++++++----------------------- ljr-1.2-0/ljr/man/ljr11.rd | 30 +++++++----------------------- ljr-1.2-0/ljr/man/ljrb.rd | 29 +++++++---------------------- ljr-1.2-0/ljr/man/ljrf.rd | 29 +++++++---------------------- ljr-1.2-0/ljr/man/ljrjk.rd | 27 ++++++--------------------- ljr-1.2-0/ljr/man/ljrk.rd | 27 +++++---------------------- ljr-1.2-0/ljr/man/ljrkk.rd | 28 ++++++---------------------- ljr-1.2-0/ljr/src/fillfixed.c | 2 ++ ljr-1.2-0/ljr/src/fillfixedrm.c | 2 ++ ljr-1.2-0/ljr/src/fillfreermint.c |only ljr-1.2-0/ljr/src/rgi.c | 3 ++- 47 files changed, 96 insertions(+), 226 deletions(-)
Author: Mark Stevenson
Diff between epiR versions 0.9-5 dated 2008-04-29 and 0.9-6 dated 2008-05-08
Title: Functions for analysing epidemiological data
Description: A package for analysing epidemiological data. Contains functions
for directly and indirectly adjusting measures of disease frequency,
quantifying measures of association on the basis of single or multiple
strata of count data presented in a contingency table, and computing
confidence intervals around incidence risk and incidence rate estimates.
Miscellaneous functions for use in meta-analysis, diagnostic test
interpretation, and sample size calculations.
DESCRIPTION | 6
R/epi.ccc.r | 2
doc/epiR.pdf | 5775 ++++++++++++++++++++++++++++-----------------------------
man/epi.ccc.Rd | 32
4 files changed, 2903 insertions(+), 2912 deletions(-)
Author: Emmanuel Paradis, Ben Bolker, Julien Claude, Hoa Sien Cuong,
Richard Desper, Benoit Durand, Julien Dutheil, Olivier Gascuel,
Gangolf Jobb, Christoph Heibl, Vincent Lefort, Jim Lemon,
Yvonnick Noel, Johan Nylander, Rainer Opgen-Rhein, Korbinian Strimmer,
Damien de Vienne
Title: Analyses of Phylogenetics and Evolution
Description: ape provides functions for reading, writing, plotting,
and manipulating phylogenetic trees, analyses of comparative data
in a phylogenetic framework, analyses of diversification and
macroevolution, computing distances from allelic and nucleotide
data, reading nucleotide sequences, and several tools such as
Mantel's test, computation of minimum spanning tree, the population
parameter theta based on various approaches, nucleotide diversity,
generalized skyline plots, estimation of absolute evolutionary rates
and clock-like trees using mean path lengths, non-parametric rate
smoothing and penalized likelihood, classifying genes in trees using
the Klastorin-Misawa-Tajima approach. Phylogeny estimation can be done
with the NJ, BIONJ, ME, and ML methods.
Diff between ape versions 2.1-3 dated 2008-03-21 and 2.2 dated 2008-05-08
Changes | 48 ++++++++ DESCRIPTION | 13 +- R/DNA.R | 9 - R/PGLS.R | 84 +++++++++++++++ R/chronopl.R | 265 ++++++++++++++++++++++++++++++++++--------------- R/cophyloplot.R |only R/dist.topo.R | 168 ++++++++++++++++++------------- R/drop.tip.R | 22 ++-- R/multi2di.R | 4 R/plot.phylo.R | 9 - R/plotPhyloCoor.R |only R/read.dna.R | 8 - R/rtree.R | 41 +++---- R/subtreeplot.R |only R/subtrees.R |only R/summary.phylo.R | 3 R/zoom.R | 8 - Thanks | 22 ++-- inst/doc/MoranI.pdf |binary man/ape-internal.Rd | 2 man/boot.phylo.Rd | 9 + man/chronopl.Rd | 57 ++++++++-- man/compar.cheverud.Rd | 2 man/consensus.Rd | 13 ++ man/cophyloplot.Rd |only man/corBlomberg.Rd |only man/corClasses.Rd | 29 +++-- man/corPagel.Rd |only man/plot.phylo.Rd | 10 + man/subtreeplot.Rd |only man/subtrees.Rd |only 31 files changed, 579 insertions(+), 247 deletions(-)
Author: Paul Gilbert
Diff between TSpadi versions 2007.10-1 dated 2007-11-03 and 2008.5-1 dated 2008-05-08
Title: TSdbi Interface to PADI Time Series Server (for e.g. Fame)
Description: Provides methods for generics in the TSdbi package to
connect through a protocol for application database interface (PADI)
to a time series database (e.g. Fame).
DESCRIPTION | 9 +++++----
NEWS | 5 +++++
inst/doc/TSpadiFame.pdf |binary
3 files changed, 10 insertions(+), 4 deletions(-)
Author: Paul Gilbert
Diff between TSdbi versions 2007.10-1 dated 2007-10-27 and 2008.5-1 dated 2008-05-08
Title: Time Series Database Interface
Description: TSdbi provides an common interface to time series databases.
DESCRIPTION | 8 ++++----
NAMESPACE | 3 ++-
NEWS | 10 +++++++++-
R/TSdbi.R | 14 ++++++++------
R/TSquery.R |only
S4checks.R.tex |only
inst/doc/TSdbi.pdf |binary
man/TSquery.Rd |only
tests/S4checks.R |only
9 files changed, 23 insertions(+), 12 deletions(-)
Author: Paul Gilbert
Diff between TSSQLite versions 2007.10-1 dated 2007-11-03 and 2008.5-1 dated 2008-05-08
Title: Time Series Database Interface extentions for SQLite
Description: TSSQLite provides a SQLite interface for TSdbi.
DESCRIPTION | 10 +++++-----
Rplots.pdf |only
inst/doc/TSSQLite.pdf |binary
test |binary
4 files changed, 5 insertions(+), 5 deletions(-)
Author: Paul Gilbert
Diff between TSMySQL versions 2007.10-1 dated 2007-11-05 and 2008.5-1 dated 2008-05-08
Title: Time Series Database Interface extensions for MySQL
Description: TSMySQL provides a MySQL interface for TSdbi.
DESCRIPTION | 10 +++++-----
Rplots.pdf |only
S4checks.R.tex |only
inst/doc/TSMySQL.pdf |binary
4 files changed, 5 insertions(+), 5 deletions(-)
Author: Coen Bernaards and Robert Jennrich
Title: GPA Factor Rotation
Description: Gradient Projection Algorithm Rotation for Factor Analysis. See ?GPArotation.Intro for more details.
Diff between GPArotation versions 2007.06-1 dated 2007-06-10 and 2008.05-1 dated 2008-05-08
GPArotation-2007.06-1/GPArotation/GPArotation-manual.pdf |only GPArotation-2007.06-1/GPArotation/INDEX |only GPArotation-2007.06-1/GPArotation/help |only GPArotation-2008.05-1/GPArotation/DESCRIPTION | 8 ++++---- GPArotation-2008.05-1/GPArotation/LICENSE | 2 +- GPArotation-2008.05-1/GPArotation/NAMESPACE | 9 ++++++--- GPArotation-2008.05-1/GPArotation/NEWS | 9 +++++++++ GPArotation-2008.05-1/GPArotation/R/GPArotation.R | 4 ++-- GPArotation-2008.05-1/GPArotation/R/echelon.R |only GPArotation-2008.05-1/GPArotation/R/eiv.R | 4 ++-- GPArotation-2008.05-1/GPArotation/Rplots.pdf |only GPArotation-2008.05-1/GPArotation/inst/doc/GPArotation.pdf |binary GPArotation-2008.05-1/GPArotation/man/GPA.Rd | 2 +- GPArotation-2008.05-1/GPArotation/man/echelon.Rd |only GPArotation-2008.05-1/GPArotation/man/eiv.Rd | 5 +++-- GPArotation-2008.05-1/GPArotation/man/rotations.Rd | 9 ++++++--- 16 files changed, 34 insertions(+), 18 deletions(-)
Author: Donghoh Kim
Diff between EMD versions 1.0.0 dated 2008-03-29 and 1.1.0 dated 2008-05-08
Title: Empirical Mode Decomposition and Hilbert Spectral Analysis
Description: This package carries out empirical mode decompostion and Hilbert spectral
analysis.
DESCRIPTION | 8 ++++----
R/EMD1d.R | 6 +++++-
man/emd2d.Rd | 2 +-
man/extrema.Rd | 6 +++---
4 files changed, 13 insertions(+), 9 deletions(-)
Author: Andrea Spano' and Giorgio Spedicato
Title: Variables and Attributes Control Charts
Description: qAnalyst performs: control charts for variables and attributes according to Douglas C. Montgomery Introduction to Statistical Quality Control book, Capability analysis for normal and non - normal distributions and Distributions Identification
Diff between qAnalyst versions 0.5.1 dated 2008-02-19 and 0.5.2 dated 2008-05-07
DESCRIPTION | 8 ++++---- R/capabilityNormal.R | 10 +++++----- R/getParameterFun.R | 4 ++-- R/spc.R | 2 +- README | 4 ++++ man/capabilityNormal.Rd | 34 +++++++++++++++++++--------------- man/spc.Rd | 5 ++--- 7 files changed, 37 insertions(+), 30 deletions(-)
Author: Stefan Fritsch
Diff between neuralnet versions 1.0 dated 2008-04-15 and 1.1 dated 2008-05-07
Title: Training of neural networks
Description: Training of neural networks using the Resilient Backpropagation with (Riedmiller, 1994) or without Weightbacktracking (Riedmiller, 1993) or the modified globally convergent version by Anastasiadis et. al. (2005). The package allows flexible settings through custom-choice of error- and activation-function. Furthermore the calculation of generalized weights (Intrator O & Intrator N, 1993) is implemented.
DESCRIPTION | 8 ++++----
R/plot.nn.r | 2 +-
man/neuralnet-package.Rd | 4 ++--
3 files changed, 7 insertions(+), 7 deletions(-)
Author: Heather Turner and David Firth
Title: Generalized Nonlinear Models
Description: Functions to specify and fit generalized nonlinear models, including models with multiplicative interaction terms such as the UNIDIFF model from sociology and the AMMI model from crop science, and many others. Over-parameterized representations of models are used throughout; functions are provided for inference on estimable parameter combinations, as well as standard methods for diagnostics etc.
Diff between gnm versions 0.9-3 dated 2007-09-10 and 0.9-4 dated 2008-05-07
gnm-0.9-3/gnm/R/DrefVariables.R |only gnm-0.9-3/gnm/inst/CHANGES |only gnm-0.9-3/gnm/inst/doc/gnmOverview.Rnw |only gnm-0.9-3/gnm/man/Log.Rd |only gnm-0.9-3/gnm/man/Logit.Rd |only gnm-0.9-3/gnm/man/Raise.Rd |only gnm-0.9-4/gnm/.directory |only gnm-0.9-4/gnm/DESCRIPTION | 28 gnm-0.9-4/gnm/NAMESPACE | 13 gnm-0.9-4/gnm/R/Const.R | 10 gnm-0.9-4/gnm/R/Diag.R | 11 gnm-0.9-4/gnm/R/Exp.R | 3 gnm-0.9-4/gnm/R/Inv.R | 17 gnm-0.9-4/gnm/R/Log.R | 17 gnm-0.9-4/gnm/R/Logit.R | 17 gnm-0.9-4/gnm/R/Mult.R | 6 gnm-0.9-4/gnm/R/MultHomog.R | 21 gnm-0.9-4/gnm/R/Nonlin.R | 6 gnm-0.9-4/gnm/R/Raise.R | 17 gnm-0.9-4/gnm/R/Symm.R | 17 gnm-0.9-4/gnm/R/anova.gnm.R | 40 gnm-0.9-4/gnm/R/asGnm.glm.R | 1 gnm-0.9-4/gnm/R/asGnm.lm.R | 1 gnm-0.9-4/gnm/R/checkCall.R | 12 gnm-0.9-4/gnm/R/cholInv.R | 156 - gnm-0.9-4/gnm/R/cholInv1.R | 68 gnm-0.9-4/gnm/R/confint.gnm.R | 26 gnm-0.9-4/gnm/R/confint.profile.gnm.R | 50 gnm-0.9-4/gnm/R/fitted.gnm.R |only gnm-0.9-4/gnm/R/getData.R | 12 gnm-0.9-4/gnm/R/gnm.R | 75 gnm-0.9-4/gnm/R/gnmStart.R | 8 gnm-0.9-4/gnm/R/gnmTerms.R | 25 gnm-0.9-4/gnm/R/gnmTools.R | 23 gnm-0.9-4/gnm/R/hashSplit.R | 42 gnm-0.9-4/gnm/R/hatvalues.gnm.R | 4 gnm-0.9-4/gnm/R/instances.R | 22 gnm-0.9-4/gnm/R/nonlinTerms.R | 421 +-- gnm-0.9-4/gnm/R/ofInterest.R | 6 gnm-0.9-4/gnm/R/ofInterestReplacement.R | 22 gnm-0.9-4/gnm/R/parameters.R | 4 gnm-0.9-4/gnm/R/pickCoef.R | 48 gnm-0.9-4/gnm/R/plot.gnm.R | 96 gnm-0.9-4/gnm/R/plot.profile.gnm.R | 42 gnm-0.9-4/gnm/R/predict.gnm.R | 94 gnm-0.9-4/gnm/R/print.gnm.R | 7 gnm-0.9-4/gnm/R/print.profile.gnm.R | 29 gnm-0.9-4/gnm/R/print.summary.gnm.R | 18 gnm-0.9-4/gnm/R/profile.gnm.R | 276 +- gnm-0.9-4/gnm/R/qrSolve.R | 78 gnm-0.9-4/gnm/R/residuals.gnm.R | 12 gnm-0.9-4/gnm/R/rstandard.gnm.R | 2 gnm-0.9-4/gnm/R/sumExpression.R | 14 gnm-0.9-4/gnm/R/termPredictors.gnm.R | 11 gnm-0.9-4/gnm/R/weighted.MM.R | 22 gnm-0.9-4/gnm/R/weights.gnm.R |only gnm-0.9-4/gnm/R/zzz.R | 6 gnm-0.9-4/gnm/demo/gnm.R | 64 gnm-0.9-4/gnm/inst/.directory |only gnm-0.9-4/gnm/inst/CITATION | 32 gnm-0.9-4/gnm/inst/NEWS |only gnm-0.9-4/gnm/inst/doc/.directory |only gnm-0.9-4/gnm/inst/doc/gnmOverview.pdf | 3630 ++++++++++++++---------------- gnm-0.9-4/gnm/man/Const.Rd | 78 gnm-0.9-4/gnm/man/Exp.Rd | 94 gnm-0.9-4/gnm/man/Inv.Rd | 100 gnm-0.9-4/gnm/man/confint.gnm.Rd | 212 - gnm-0.9-4/gnm/man/gnm.Rd | 20 gnm-0.9-4/gnm/man/instances.Rd | 90 gnm-0.9-4/gnm/man/model.matrix.gnm.Rd | 64 gnm-0.9-4/gnm/man/nonlin.function.Rd | 353 +- gnm-0.9-4/gnm/man/ofInterest.Rd | 130 - gnm-0.9-4/gnm/man/parameters.Rd | 66 gnm-0.9-4/gnm/man/pickCoef.Rd | 122 - gnm-0.9-4/gnm/man/predict.gnm.Rd |only gnm-0.9-4/gnm/man/profile.gnm.Rd | 362 +- gnm-0.9-4/gnm/man/qrSolve.Rd | 122 - gnm-0.9-4/gnm/tests/RC.Rout.save | 94 gnm-0.9-4/gnm/tests/RChomog.Rout.save | 96 gnm-0.9-4/gnm/tests/biplot.Rout.save | 70 gnm-0.9-4/gnm/tests/diagonalRef.Rout.save | 100 gnm-0.9-4/gnm/tests/gammi.Rout.save | 76 gnm-0.9-4/gnm/tests/nls.R | 18 gnm-0.9-4/gnm/tests/stereotype.Rout.save | 96 gnm-0.9-4/gnm/tests/unidiff.Rout.save | 84 85 files changed, 4118 insertions(+), 4011 deletions(-)
Author: Sřren Hřjsgaard
Diff between gRc versions 0.2.0 dated 2008-04-25 and 0.2.1 dated 2008-05-07
Title: Inference in Graphical Gaussian Models with Edge and Vertex Symmetries
Description: Estimation, model selection and other aspects of statistical inference in Graphical Gaussian models with edge and vertex symmetries (Graphical Gaussian models with colours)
gRc-0.2.0/gRc/src/rconipm.c |only
gRc-0.2.1/gRc/ChangeLog | 6 +
gRc-0.2.1/gRc/DESCRIPTION | 4
gRc-0.2.1/gRc/R/getScoreAndInformation4.R | 1
gRc-0.2.1/gRc/R/rcox-Scoring.R | 7 +
gRc-0.2.1/gRc/R/sets-SetOp-Lists.R | 44 -------
gRc-0.2.1/gRc/R/switchThetaK4.R | 84 +++++++++++++++
gRc-0.2.1/gRc/R/xxx2yyy.R | 20 +--
gRc-0.2.1/gRc/src/clevertrace.c | 118 ++++++++++-----------
gRc-0.2.1/gRc/src/rconipm2.c |only
gRc-0.2.1/gRc/src/shd_utils.c | 167 +++++++++++++++++++++++-------
gRc-0.2.1/gRc/src/shd_utils.h | 5
12 files changed, 304 insertions(+), 152 deletions(-)
Author: Sřren Hřjsgaard
Diff between gRain versions 0.3.1 dated 2008-05-02 and 0.3.2 dated 2008-05-07
Title: Graphical Independence Networks
Description: A package for probability propagation in graphical independence networks, also known as probabilistic expert systems (which includes Bayesian networks as a special case).
ChangeLog | 6 ++++++
DESCRIPTION | 4 ++--
inst/doc/gRain-intro.pdf |binary
3 files changed, 8 insertions(+), 2 deletions(-)
More information about empiricalBayes at CRAN
Permanent link
Author: Duncan Temple Lang (duncan@wald.ucdavis.edu)
Title: Tools for parsing and generating XML within R and S-Plus.
Description: Parsing facilities for arbitrary XML files, DTDs and HTML, offering both
event and tree based parsers which are customizable with R functions.
Diff between XML versions 1.93-2 dated 2007-10-03 and 1.95-1 dated 2008-05-07
XML-1.93-2/XML/inst/Docs/MathML.pdf |only XML-1.93-2/XML/inst/Docs/Outline.pdf |only XML-1.93-2/XML/inst/Docs/Tour.pdf |only XML-1.93-2/XML/inst/Docs/WritingXML.html |only XML-1.93-2/XML/inst/Docs/description.pdf |only XML-1.93-2/XML/inst/Docs/manual.pdf |only XML-1.93-2/XML/inst/examples/obis.R |only XML-1.95-1/XML/Changes | 101 XML-1.95-1/XML/DESCRIPTION | 4 XML-1.95-1/XML/INSTALL | 2 XML-1.95-1/XML/NAMESPACE | 39 XML-1.95-1/XML/R/XMLClasses.R | 232 + XML-1.95-1/XML/R/accessors.R | 123 XML-1.95-1/XML/R/catalog.R | 74 XML-1.95-1/XML/R/createNode.R | 11 XML-1.95-1/XML/R/error.R |only XML-1.95-1/XML/R/hashTree.R | 15 XML-1.95-1/XML/R/htmlParse.R | 11 XML-1.95-1/XML/R/parseDTD.R | 10 XML-1.95-1/XML/R/tree.R | 2 XML-1.95-1/XML/R/xmlErrorEnums.R |only XML-1.95-1/XML/R/xmlEventParse.R | 24 XML-1.95-1/XML/R/xmlInternalSource.R | 104 XML-1.95-1/XML/R/xmlNodes.R | 337 + XML-1.95-1/XML/R/xmlTree.R | 44 XML-1.95-1/XML/R/xmlTreeParse.R | 94 XML-1.95-1/XML/R/zzz.R | 2 XML-1.95-1/XML/configure | 4956 ++++++++++---------------- XML-1.95-1/XML/configure.in | 12 XML-1.95-1/XML/inst/exampleData/Rsource.xml | 7 XML-1.95-1/XML/inst/exampleData/entity.xml- |only XML-1.95-1/XML/inst/exampleData/iTunes.plist |only XML-1.95-1/XML/inst/exampleData/largeText.xml |only XML-1.95-1/XML/inst/exampleData/same.xml |only XML-1.95-1/XML/inst/exampleData/utf.xml |only XML-1.95-1/XML/inst/examples/CIS.R |only XML-1.95-1/XML/inst/examples/DiGIR.R |only XML-1.95-1/XML/inst/examples/catalog.R |only XML-1.95-1/XML/inst/examples/event.R | 6 XML-1.95-1/XML/inst/examples/itunesSax.R |only XML-1.95-1/XML/inst/examples/mi1.R |only XML-1.95-1/XML/man/XMLInternalDocument.Rd | 2 XML-1.95-1/XML/man/addChildren.Rd | 49 XML-1.95-1/XML/man/addSibling.Rd |only XML-1.95-1/XML/man/catalogResolve.Rd | 24 XML-1.95-1/XML/man/catalogs.Rd |only XML-1.95-1/XML/man/docName.Rd |only XML-1.95-1/XML/man/dtdIsAttribute.Rd | 4 XML-1.95-1/XML/man/free.Rd | 4 XML-1.95-1/XML/man/getNodeSet.Rd | 59 XML-1.95-1/XML/man/getXMLErrors.Rd |only XML-1.95-1/XML/man/newXMLDoc.Rd | 63 XML-1.95-1/XML/man/parseDTD.Rd | 5 XML-1.95-1/XML/man/processXInclude.Rd |only XML-1.95-1/XML/man/saveXML.Rd | 10 XML-1.95-1/XML/man/xmlAttributeType.Rd | 2 XML-1.95-1/XML/man/xmlAttrs.Rd | 5 XML-1.95-1/XML/man/xmlChildren.Rd | 8 XML-1.95-1/XML/man/xmlEventParse.Rd | 58 XML-1.95-1/XML/man/xmlFlatListTree.Rd | 2 XML-1.95-1/XML/man/xmlGetAttr.Rd | 15 XML-1.95-1/XML/man/xmlNamespace.Rd | 10 XML-1.95-1/XML/man/xmlNamespaceDefinitions.Rd | 16 XML-1.95-1/XML/man/xmlNode.Rd | 7 XML-1.95-1/XML/man/xmlSource.Rd | 53 XML-1.95-1/XML/man/xmlStopParser.Rd |only XML-1.95-1/XML/man/xmlStructuredStop.Rd |only XML-1.95-1/XML/man/xmlTreeParse.Rd | 165 XML-1.95-1/XML/src/DocParse.c | 373 + XML-1.95-1/XML/src/DocParse.h | 2 XML-1.95-1/XML/src/EventParse.c | 98 XML-1.95-1/XML/src/EventParse.h | 7 XML-1.95-1/XML/src/HTMLParse.c | 3 XML-1.95-1/XML/src/RSDTD.c | 17 XML-1.95-1/XML/src/RSDTD.h | 2 XML-1.95-1/XML/src/RS_XML.h | 1 XML-1.95-1/XML/src/RUtils.c | 139 XML-1.95-1/XML/src/Utils.c | 168 XML-1.95-1/XML/src/Utils.h | 63 XML-1.95-1/XML/src/XMLEventParse.c | 161 XML-1.95-1/XML/src/XMLTree.c | 244 + XML-1.95-1/XML/src/catalog.c | 97 XML-1.95-1/XML/src/xpath.c | 37 83 files changed, 4612 insertions(+), 3571 deletions(-)
Author: Yurii Aulchenko, Maksim Struchalin, with contributions from
Stephan Ripke and Toby Johnson
Title: genome-wide SNP association analysis
Description: a package for genome-wide association analysis between
quantitative or binary traits and single-nucleiotide
polymorphisms (SNPs).
Diff between GenABEL versions 1.3-7 dated 2008-04-17 and 1.3-9 dated 2008-05-07
CHANGES.LOG | 8 DESCRIPTION | 10 NAMESPACE | 4 R/GASurv.R |only R/convert.snp.affymetrix.R |only R/merge.snp.data.R | 20 R/mlreg.R |only TODO | 25 inst/doc/GenABEL-tutorial.pdf | 3453 +++++++++++++++++++------------------- man/GASurv.Rd |only man/GenABEL-package.Rd | 22 man/HWE.show.Rd | 3 man/Xfix.Rd | 2 man/add.plot.Rd | 1 man/as.character.gwaa.data.Rd | 10 man/as.character.snp.coding.Rd | 10 man/as.character.snp.data.Rd | 10 man/as.character.snp.strand.Rd | 10 man/as.data.frame.gwaa.data.Rd | 6 man/as.double.gwaa.data.Rd | 10 man/as.double.snp.data.Rd | 10 man/as.genotype.Rd | 10 man/as.genotype.gwaa.data.Rd | 10 man/as.genotype.snp.data.Rd | 10 man/as.hsgeno.Rd | 10 man/as.hsgeno.gwaa.data.Rd | 10 man/as.hsgeno.snp.data.Rd | 10 man/catable.Rd | 10 man/convert.snp.affymetrix.Rd |only man/crnames.Rd | 12 man/descriptives.marker.Rd | 14 man/descriptives.scan.Rd | 14 man/descriptives.trait.Rd | 14 man/emp.ccfast.Rd | 5 man/emp.qtscore.Rd | 7 man/formetascore.Rd | 1 man/gwaa.data-class.Rd | 4 man/hom.Rd | 6 man/merge.snp.data.Rd | 2 man/mlreg.Rd |only man/qtscore.Rd | 3 man/qvaluebh95.Rd | 8 man/scan.glm.2D.Rd | 4 man/scan.glm.Rd | 4 man/show.ncbi.Rd | 18 man/snp.names.Rd | 2 man/srdta.Rd | 18 man/sset.Rd | 12 src/Chip.cpp |only src/Chip.h |only src/chinv2.cpp |only src/cholesky2.cpp |only src/chsolve2.cpp |only src/convert.snp.affymetrix.cpp |only src/convert_snp_merlin.cpp | 2 src/convert_snp_merlin_wslash.cpp | 6 src/coxfit2.cpp |only src/dmatrix.cpp |only src/gtps_container.cpp | 37 src/gtps_container.h | 16 src/gwaa.c | 1 src/lm_gwaa.cpp |only src/mematri1.h |only src/mematriR.h |only src/mematrix.h |only src/merge.snp.data.cpp | 96 - src/reg1.h |only src/reg1data.h |only src/survS.h |only src/survproto.h |only 70 files changed, 2013 insertions(+), 1977 deletions(-)
Author: Michel Berkelaar and others
Title: Interface to Lp_solve v. 5.5 to solve linear/integer programs
Description: Lp_solve is freely available (under LGPL 2) software for
solving linear, integer and mixed integer programs. In this implementation
we supply a "wrapper" function in C and some R functions that solve
general linear/integer problems, assignment problems, and transportation
problems. This version calls lp_solve version 5.5.
Diff between lpSolve versions 5.6.1 dated 2008-04-28 and 5.6.2 dated 2008-05-07
DESCRIPTION | 6 +++--- src/lpslink56.c | 1 - 2 files changed, 3 insertions(+), 4 deletions(-)
Author: Sam Buttrey
Title: Nearest-neighbor classification with categorical variables
Description: This program scales categorical variables in such a way as to
make NN classification as accurate as possible. It also handles continuous
variables and prior probabilities, and does intelligent variable selection
and estimation of error rates and the right number of NN's.
Diff between knncat versions 1.1.10 dated 2006-05-29 and 1.1.11 dated 2008-05-07
DESCRIPTION | 24 ++++++++++++------------ src/matrix.c | 2 +- src/utilsR.c | 1 - 3 files changed, 13 insertions(+), 14 deletions(-)
Author: Sam Buttrey
Diff between knnTree versions 1.2.3 dated 2004-11-16 and 1.2.4 dated 2008-05-07
Title: k-nn classification with variable selection inside leaves of a tree
Description: Construct or predict with k-nearest-neighbor classifiers,
using cross-validation to select k, choose variables (by forward
or backwards selection), and choose scaling (from among no scaling,
scaling each column by its SD, or scaling each column by its MAD).
The finished classifier will consist of a classification tree with
one such k-nn classifier in each leaf.
DESCRIPTION | 27 ++++++++++++++-------------
src/knnTree.c | 1 -
src/matrix.c | 2 +-
src/utils.c | 1 -
4 files changed, 15 insertions(+), 16 deletions(-)
Author: Eric M. Thompson
Diff between Rsac versions 0.1-5 dated 2007-10-14 and 0.1-6 dated 2008-05-07
Title: Seismic analysis tools in R
Description: The functions in this package are mostly designed to
reproduce the most commonly used functions in the LLNL software
Seismic Analysis Code (SAC, http://www.llnl.gov/sac/). This includes
reading standard binary SAC (and also SEGY) files, plotting
arrays of seismic recordings (the "SAC" plotting style), filtering
(highpass, lowpass, and bandpass IIR filters), integration, and
differentiation.
DESCRIPTION | 13 +++++++------
R/GET.seis.R | 2 +-
R/NumCalculus.R | 4 ++--
R/firstlib.r | 4 ++--
R/gcp.R | 4 ++--
R/getunits.R | 2 +-
R/iir.R | 16 ++++++++--------
R/mul.R | 6 +++---
R/plot.rsac.R | 22 +++++++++++++++-------
R/rotate.R | 2 +-
R/rsac.R | 2 +-
R/rtrend.R | 7 ++-----
R/section.R |only
R/spect.R | 2 +-
R/sync.R | 2 +-
R/taper.R | 4 ++--
data/sumatra.rda |binary
man/section.Rd |only
man/spect.Rd | 2 +-
man/sumatra.Rd | 4 ++--
src/LLNfilt.c | 3 ++-
src/get_seis.c | 2 +-
22 files changed, 55 insertions(+), 48 deletions(-)
Author: Dai Feng and Luke Tierney
Title: Miscellaneous 3D Plots
Description: A collection of miscellaneous 3d plots, including
isosurfaces.
Diff between misc3d versions 0.4-1 dated 2007-10-22 and 0.5-2 dated 2008-05-06
DESCRIPTION | 4 ++-- R/lighting.R | 12 +++++------- R/render.R | 45 ++++++++++++++++++++++++--------------------- R/triangles.R | 4 ++-- man/drawScene.Rd | 20 +++++++++++++++----- man/lighting.Rd | 1 - man/parametric3d.Rd | 1 - man/surfaceTriangles.Rd | 1 - man/triangles.Rd | 1 - 9 files changed, 48 insertions(+), 41 deletions(-)
Author: Edzer J. Pebesma
Diff between gstat versions 0.9-45 dated 2008-04-08 and 0.9-46 dated 2008-05-06
Title: geostatistical modelling, prediction and simulation
Description: variogram modelling; simple, ordinary and universal point
or block (co)kriging, sequential Gaussian or indicator (co)simulation;
variogram and variogram map plotting utility functions.
DESCRIPTION | 6
INDEX | 1
R/variogram.default.R | 2
data/Chlorid92.csv |only
data/tull.rda |only
demo/00Index | 2
demo/blue.R |only
demo/weight.R |only
inst/ChangeLog | 14
inst/doc/gstat.pdf |30276 +++++++++++++++++++++++++-------------------------
man/tull.Rd |only
src/machine.hin | 4
12 files changed, 15165 insertions(+), 15140 deletions(-)
Author: Christian Ritz
Diff between drc versions 1.3-0 dated 2007-09-24 and 1.4-2 dated 2008-05-06
Title: Analysis of dose-response curves
Description: Analysis of one or multiple curves with focus on concentration-response, dose-response and time-response curves used, for example in biology, environmental sciences, medicine, pharmacology, toxicology.
drc-1.3-0/drc/R/boltzmann.R |only
drc-1.3-0/drc/R/mdrcPNsplit.R |only
drc-1.3-0/drc/data/FA.rda |only
drc-1.3-0/drc/data/PestSci.rda |only
drc-1.3-0/drc/data/TM.rda |only
drc-1.3-0/drc/data/TerMet.rda |only
drc-1.3-0/drc/data/cabanne.rda |only
drc-1.3-0/drc/data/hormesis.rda |only
drc-1.3-0/drc/data/isomerization.rda |only
drc-1.3-0/drc/data/termec.rda |only
drc-1.3-0/drc/inst/doc |only
drc-1.3-0/drc/man/FA.Rd |only
drc-1.3-0/drc/man/PestSci.Rd |only
drc-1.3-0/drc/man/TM.Rd |only
drc-1.3-0/drc/man/TerMet.Rd |only
drc-1.3-0/drc/man/boltzmann.Rd |only
drc-1.3-0/drc/man/cabanne.Rd |only
drc-1.3-0/drc/man/drc.Rd |only
drc-1.3-0/drc/man/hormesis.Rd |only
drc-1.3-0/drc/man/isomerization.Rd |only
drc-1.3-0/drc/man/termec.Rd |only
drc-1.4-2/drc/DESCRIPTION | 14 +-
drc-1.4-2/drc/NAMESPACE | 16 ++-
drc-1.4-2/drc/R/CRS.6.R | 5
drc-1.4-2/drc/R/ED.R | 21 ++--
drc-1.4-2/drc/R/MAX.R | 73 ++++++++-----
drc-1.4-2/drc/R/MM.R | 147 +++++++++++++++++-----------
drc-1.4-2/drc/R/PR.R | 11 +-
drc-1.4-2/drc/R/SI.R | 89 +++++++++++------
drc-1.4-2/drc/R/anova.drclist.R | 30 ++++-
drc-1.4-2/drc/R/arandaordaz.R |only
drc-1.4-2/drc/R/asymreg.R |only
drc-1.4-2/drc/R/baro5.R | 9 +
drc-1.4-2/drc/R/braincousens.R | 51 +++++++--
drc-1.4-2/drc/R/cedergreen.R | 12 +-
drc-1.4-2/drc/R/compParm.R | 36 ++----
drc-1.4-2/drc/R/comped.R |only
drc-1.4-2/drc/R/drm.R | 164 ++++++++++++++++++++-----------
drc-1.4-2/drc/R/drmConvertParm.R | 1
drc-1.4-2/drc/R/drmEMls.R | 4
drc-1.4-2/drc/R/drmOpt.R | 16 ++-
drc-1.4-2/drc/R/expDecay.R | 116 +++++++++++++++-------
drc-1.4-2/drc/R/getMeanFunctions.R |only
drc-1.4-2/drc/R/gompGrowth.R |only
drc-1.4-2/drc/R/gompertzd.R | 5
drc-1.4-2/drc/R/hewlett.R | 8 +
drc-1.4-2/drc/R/idrm.R |only
drc-1.4-2/drc/R/isobole.R | 121 +++++++++++++++++------
drc-1.4-2/drc/R/llogistic.R | 80 ++++++++-------
drc-1.4-2/drc/R/llogistic2.R | 105 +++++++++++++++-----
drc-1.4-2/drc/R/logistic.R |only
drc-1.4-2/drc/R/mdrcParNames.R | 30 ++++-
drc-1.4-2/drc/R/mixdrc.R | 1
drc-1.4-2/drc/R/mixture.R | 51 +++++++--
drc-1.4-2/drc/R/multdrc.R | 7 -
drc-1.4-2/drc/R/pickParm.R |only
drc-1.4-2/drc/R/plot.drc.R | 178 +++++++++++++++++++---------------
drc-1.4-2/drc/R/predict.drc.R | 61 +++++------
drc-1.4-2/drc/R/print.summary.drc.R | 12 +-
drc-1.4-2/drc/R/rdrm.R | 8 -
drc-1.4-2/drc/R/relpot.R |only
drc-1.4-2/drc/R/richards.R | 5
drc-1.4-2/drc/R/sandwich.R |only
drc-1.4-2/drc/R/simDR.R |only
drc-1.4-2/drc/R/summary.drc.R | 135 ++++++-------------------
drc-1.4-2/drc/R/ucedergreen.R | 11 +-
drc-1.4-2/drc/R/voelund.R | 8 +
drc-1.4-2/drc/R/weibull1.R | 39 +++++--
drc-1.4-2/drc/R/weibull2.R | 53 +++++++---
drc-1.4-2/drc/R/xlogx.R |only
drc-1.4-2/drc/data/G.aparine.rda |only
drc-1.4-2/drc/data/acidiq.rda |binary
drc-1.4-2/drc/data/beetGrowth.rda |only
drc-1.4-2/drc/data/glymet.rda |binary
drc-1.4-2/drc/data/lettuce.rda |only
drc-1.4-2/drc/data/mecter.rda |only
drc-1.4-2/drc/data/methionine.rda |only
drc-1.4-2/drc/data/terbuthylazin.rda |only
drc-1.4-2/drc/man/BC.5.Rd | 16 +--
drc-1.4-2/drc/man/CRS.4a.Rd | 20 +--
drc-1.4-2/drc/man/CRS.5a.Rd | 20 +--
drc-1.4-2/drc/man/ED.Rd | 50 +++++----
drc-1.4-2/drc/man/G.aparine.Rd |only
drc-1.4-2/drc/man/LL.2.Rd | 7 -
drc-1.4-2/drc/man/LL.3.Rd | 12 +-
drc-1.4-2/drc/man/MAX.Rd | 12 +-
drc-1.4-2/drc/man/MM.Rd | 49 +++++----
drc-1.4-2/drc/man/PR.Rd | 45 ++++----
drc-1.4-2/drc/man/RScompetition.Rd | 16 +--
drc-1.4-2/drc/man/S.alba.Rd | 16 +--
drc-1.4-2/drc/man/SI.Rd | 55 ++++++----
drc-1.4-2/drc/man/W2.Rd | 5
drc-1.4-2/drc/man/W3.Rd | 20 +++
drc-1.4-2/drc/man/W4.Rd | 14 +-
drc-1.4-2/drc/man/acidiq.Rd | 63 ++++++------
drc-1.4-2/drc/man/asymreg.Rd |only
drc-1.4-2/drc/man/beetGrowth.Rd |only
drc-1.4-2/drc/man/boxcox.drc.Rd | 2
drc-1.4-2/drc/man/braincousens.Rd | 10 +
drc-1.4-2/drc/man/bread.drc.Rd |only
drc-1.4-2/drc/man/cedergreen.Rd | 12 +-
drc-1.4-2/drc/man/compParm.Rd | 10 -
drc-1.4-2/drc/man/comped.Rd |only
drc-1.4-2/drc/man/diagnostics.Rd | 23 ++--
drc-1.4-2/drc/man/drm.Rd | 52 +++++++--
drc-1.4-2/drc/man/expDecay.Rd | 46 +++++---
drc-1.4-2/drc/man/finney71.Rd | 32 ++++--
drc-1.4-2/drc/man/getMeanFunctions.Rd |only
drc-1.4-2/drc/man/glymet.Rd | 72 ++++++++-----
drc-1.4-2/drc/man/gompGrowth.Rd |only
drc-1.4-2/drc/man/heartrate.Rd | 18 +--
drc-1.4-2/drc/man/isobole.Rd | 57 +++-------
drc-1.4-2/drc/man/lettuce.Rd |only
drc-1.4-2/drc/man/llogistic.Rd | 12 +-
drc-1.4-2/drc/man/logistic.Rd |only
drc-1.4-2/drc/man/mdControl.Rd | 23 +---
drc-1.4-2/drc/man/mecter.Rd |only
drc-1.4-2/drc/man/methionine.Rd |only
drc-1.4-2/drc/man/mixdrc.Rd | 12 +-
drc-1.4-2/drc/man/plot.drc.Rd | 15 +-
drc-1.4-2/drc/man/predict.drc.Rd | 2
drc-1.4-2/drc/man/rdrm.Rd | 29 ++++-
drc-1.4-2/drc/man/richards.Rd | 2
drc-1.4-2/drc/man/ryegrass.Rd | 23 +++-
drc-1.4-2/drc/man/secalonic.Rd | 5
drc-1.4-2/drc/man/simDR.Rd |only
drc-1.4-2/drc/man/summary.drc.Rd | 6 -
drc-1.4-2/drc/man/terbuthylazin.Rd |only
drc-1.4-2/drc/man/weibull1.Rd | 27 ++---
129 files changed, 1618 insertions(+), 1025 deletions(-)
Author: Martin Maechler partly based on code from Robert Gentleman
Title: Construct Graphs of S4 Class Hierarchies
Description: Construct directed graphs of S4 class hierarchies and
visualize them. In general, these graphs typically are DAGs (directed acyclic
graphs), often simple trees in practice.
Diff between classGraph versions 0.7-0 dated 2007-06-28 and 0.7-1 dated 2008-05-06
classGraph-0.7-0/classGraph/man/leaves.Rd |only classGraph-0.7-1/classGraph/ChangeLog |only classGraph-0.7-1/classGraph/DESCRIPTION | 12 +++--- classGraph-0.7-1/classGraph/R/Class-hier-fn.R | 9 +++- classGraph-0.7-1/classGraph/R/S4classes-MM.R | 4 +- classGraph-0.7-1/classGraph/man/bGraph.Rd | 23 ++++++----- classGraph-0.7-1/classGraph/man/classGraph-package.Rd | 2 - classGraph-0.7-1/classGraph/man/numOutEdges.Rd | 10 ++++- classGraph-0.7-1/classGraph/man/subClasses.Rd | 36 ++++-------------- classGraph-0.7-1/classGraph/man/superClasses.Rd | 12 +++++- 10 files changed, 56 insertions(+), 52 deletions(-)
Author: Bjoern Bornkamp, Jose Pinheiro and Frank Bretz
Title: Design and Analysis of Dose-Finding Studies
Description: This package implements a methodology for the design and analysis of
dose-response studies that combines aspects of multiple comparison procedures
and modeling approaches (Bretz, Pinheiro and Branson, 2005, Biometrics 61, 738-748).
The package provides tools for the analysis of dose finding trials as well as a variety
of tools necessary to plan a trial to be conducted with the MCPMod methodology.
Diff between MCPMod versions 0.1-2 dated 2008-04-23 and 0.1-3 dated 2008-05-06
ChangeLog | 11 ++++++++++- DESCRIPTION | 14 +++++++------- R/analysisMM.R | 8 +++++--- R/planMCPMod.R | 4 ++-- ToDo | 1 + man/MCPMod-package.Rd | 4 ++-- 6 files changed, 27 insertions(+), 15 deletions(-)
Author: John Verzani
Title: Toolkit implementation of gWidgets for tcltk pacakge
Description: Port of gWidgets API to the tcltk package. Requires TK 8.5 or greater for the tile (ttk)widgets http://www.tcl.tk/software/tcltk/8.5.tml
Diff between gWidgetstcltk versions 0.0-8 dated 2008-04-24 and 0.0-9 dated 2008-05-06
DESCRIPTION | 4 +- NEWS | 7 ++++ man/gWidgetstcltk-undocumented.Rd | 63 +++++++++++++++++++++++++++++++++++--- tests |only 4 files changed, 68 insertions(+), 6 deletions(-)
Author: John Verzani
Title: Toolkit implementation of gWidgets for rJava
Description: Port of gWidgets API to the rJava interface between R and Java.
Diff between gWidgetsrJava versions 0.0-10 dated 2008-04-24 and 0.0-11 dated 2008-05-06
DESCRIPTION | 5 +--- man/gWidgetsrJava-undocumented.Rd | 47 ++++++++++++++++++++++++++++++++++++-- tests |only 3 files changed, 47 insertions(+), 5 deletions(-)
Author: Virasakdi Chongsuvivatwong
Diff between epicalc versions 2.7.0.2 dated 2008-05-02 and 2.7.0.3 dated 2008-05-06
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.
DESCRIPTION | 6 +-
R/epicalc.R | 136 ++++++++++++++++++++++++++++++++++++--------------
man/aggregate.plot.rd | 12 ++--
3 files changed, 109 insertions(+), 45 deletions(-)
Author: Hui Zou
Diff between elasticnet versions 1.0-4 dated 2007-10-21 and 1.0-5 dated 2008-05-06
Title: Elastic-Net for Sparse Estimation and Sparse PCA
Description: This package provides functions for fitting the entire solution path of the Elastic-Net and also provides functions for estimating sparse Principal Components. The Lasso solution paths can be computed by the same function. First version: 2005-10.
DESCRIPTION | 19 ++++++++++---------
R/enet_funcs.R | 2 --
2 files changed, 10 insertions(+), 11 deletions(-)
Author: Peter K Dunn
Diff between dglm versions 1.3 dated 2006-11-28 and 1.5 dated 2008-05-06
Title: Double generalized linear models
Description: Fitting double generalized linear models
CHANGE.log | 8 ++
DESCRIPTION | 6 -
R/dglmall.R | 9 +-
R/dglmall2.R |only
man/dglm.Rd | 198 ++++++++++++++++++++++++++++++-----------------------------
5 files changed, 117 insertions(+), 104 deletions(-)
Author: Jeffrey A. Ryan
Title: R API to Interactive Brokers Trader Workstation
Description: Provides native Raccess to Interactive Brokers Trader Workstation API.
Diff between IBrokers versions 0.0-1 dated 2008-02-22 and 0.1-0 dated 2008-05-06
DESCRIPTION | 6 - NAMESPACE | 12 ++- R/cancelHistoricalData.R |only R/errorHandler.R |only R/eventHandlers.R |only R/reqCurrentTime.R | 50 ++++-------- R/reqHistoricalData.R | 159 +++++++++++++++++++++++++++-------------- R/reqMktData.R |only R/reqMktDepth.R |only R/reqRealTimeBars.R |only R/serverVersion.R |only R/twsConnect.R | 108 +++++++++++++++++++++------ R/twsConnectionTime.R |only R/twsContract.R | 5 + R/twsEquity.R | 2 R/twsFuture.R |only R/twsIDs.R | 182 ++++++++++++++++++++++++++++++++++++++++++++--- R/twsMethods.R | 3 R/twsOption.R |only R/twsTickType.R |only R/zzz.R | 2 WISHLIST |only allibrokers.R |only man/IBrokers-package.Rd | 69 ++++++++++++++--- man/internal.Rd | 9 +- man/reqHistoricalData.Rd | 47 +++++++++++- man/reqMktData.Rd |only man/reqMktDepth.Rd |only man/reqRealTimeBars.Rd |only man/twsConnect.Rd | 16 +++- man/twsConnectionTime.Rd |only man/twsContract.Rd | 6 + man/twsFuture.Rd |only man/twsOption.Rd |only 34 files changed, 521 insertions(+), 155 deletions(-)
Author: Aaron A. King, Edward L. Ionides, Carles Martinez Breto
Title: Partially-observed Markov processes
Description: Inference methods for partially-observed Markov processes
Diff between pomp versions 0.18-1 dated 2008-05-02 and 0.18-2 dated 2008-05-05
pomp-0.18-1/pomp/R/simulate-mif.R |only pomp-0.18-2/pomp/DESCRIPTION | 6 - pomp-0.18-2/pomp/R/aaa.R | 8 - pomp-0.18-2/pomp/R/mif-methods.R | 55 ----------- pomp-0.18-2/pomp/R/mif.R | 15 ++- pomp-0.18-2/pomp/R/pfilter-mif.R | 14 +-- pomp-0.18-2/pomp/R/pfilter.R | 7 + pomp-0.18-2/pomp/R/plot-pomp.R | 28 ++++-- pomp-0.18-2/pomp/R/pomp-methods.R | 66 ++++++++++++++ pomp-0.18-2/pomp/R/pomp.R | 2 pomp-0.18-2/pomp/R/simulate-pomp.R | 34 +++---- pomp-0.18-2/pomp/data/ou2.rda |binary pomp-0.18-2/pomp/inst/doc/random_walk.Rnw | 14 ++- pomp-0.18-2/pomp/inst/doc/random_walk.pdf |binary pomp-0.18-2/pomp/inst/examples/sir.R | 6 - pomp-0.18-2/pomp/man/mif-class.Rd | 140 ++++++++++++++++++------------ pomp-0.18-2/pomp/man/mif-methods.Rd | 108 ++++++++++++----------- pomp-0.18-2/pomp/man/mif.Rd | 2 pomp-0.18-2/pomp/man/pfilter.Rd | 6 - pomp-0.18-2/pomp/man/pomp-class.Rd | 129 +++++++++++++++++---------- pomp-0.18-2/pomp/man/pomp-package.Rd | 43 +++++---- pomp-0.18-2/pomp/man/simulate-pomp.Rd | 11 +- pomp-0.18-2/pomp/tests/ou2-mif.R | 45 ++++----- pomp-0.18-2/pomp/tests/ou2-simulate.R | 7 + 24 files changed, 433 insertions(+), 313 deletions(-)
Author: Max Kuhn, Steve Weaston
Title: Sweave processing of Open Document Format (ODF) files
Description: Sweave processing of Open Document Format (ODF) files
Diff between odfWeave versions 0.7.3 dated 2008-02-13 and 0.7.4 dated 2008-05-05
DESCRIPTION | 6 +- R/adjustImageSize.R | 2 R/getExt.R | 50 +++++++++++------------ R/getStyles.R | 105 +++++++++++++++++++++++--------------------------- R/pkgVersions.R | 4 + inst/doc/odfWeave.pdf |binary inst/doc/odfWeave.tex | 10 ++-- man/announce.Rd | 2 man/odfCat.Rd | 2 9 files changed, 89 insertions(+), 92 deletions(-)
Author: Juan R González, Lluís Armengol, Elisabet Guinó, Xavier Solé, and Víctor Moreno
Title: SNPs-based whole genome association studies
Description: This package carries out most common analysis when performing whole genome association studies. These analyses include descriptive statistics and exploratory analysis of missing values, calculation of Hardy-Weinberg equilibrium, analysis of association based on generalized linear models (either for quantitative or binary traits), and analysis of multiple SNPs (haplotype and epistasis analysis). Permutation test and related tests (sum statistic and truncated product) are also implemented.
Diff between SNPassoc versions 1.5-2 dated 2008-04-22 and 1.5-3 dated 2008-05-05
DESCRIPTION | 10 +++---- NAMESPACE | 3 +- R/Bonferroni.sig.R | 4 +-- R/LD.R | 61 ++++++++++++++++++++++++++++++++++++++++++++++++ R/firstlib.R | 3 +- R/intervals.haplo.glm.R | 4 ++- inst/docs/changelog.txt | 7 +++++ 7 files changed, 82 insertions(+), 10 deletions(-)
Author: Corneliu Henegar
Diff between FunNet versions 1.00 dated 2008-04-03 and 1.00-1 dated 2008-05-05
Title: Functional Analysis of Gene Co-expression Networks
Description: FunNet is an integrative tool for analyzing gene co-expression networks from
microarray expression data. The analytic model implemented in this library
involves two abstraction layers: transcriptional and functional (biological roles).
A functional profiling technique using Gene Ontology & KEGG annotations is
applied to extract a list of relevant biological themes from
microarray expression profiling data. Afterwards multiple-instance
representations are built to relate significant themes to their
transcriptional instances (i.e. the two layers of the model). An adapted
non-linear dynamical system model is used to quantify the proximity of relevant
genomic themes based on the similarity of the expression profiles of their gene instances.
Eventually an unsupervised multiple-instance clustering procedure, relying on
the two abstraction layers, is used to identify the structure of the co-expression
network composed from modules of functionally related transcripts. Functional
and transcriptional maps of the co-expression network are provided separately
together with detailed information on the network centrality of related transcripts
and genomic themes.
DESCRIPTION | 9
R/Annotations.R | 35
R/FunNet.R |12660 ++++++++++++++++++++---------------------
R/sysdata.rda |binary
copying | 3
man/Annotations.Rd | 2
man/FunNet.R-package.Rd | 203
man/FunNet.Rd | 130
man/RN.GO.DIR.BP.file.annot.Rd |only
man/RN.GO.DIR.CC.file.annot.Rd |only
man/RN.GO.DIR.MF.file.annot.Rd |only
man/RN.KEGG.file.annot.Rd |only
man/RN.locus.name.Rd |only
13 files changed, 6545 insertions(+), 6497 deletions(-)
Author: Martin Maechler and many others.
Title: Utilities from Seminar fuer Statistik ETH Zurich
Description: Useful utilities ['goodies'] from Seminar fuer Statistik ETH
Zurich, many ported from S-plus times.
Diff between sfsmisc versions 1.0-1 dated 2008-02-11 and 1.0-2 dated 2008-05-05
ChangeLog | 4 ++++ DESCRIPTION | 7 ++++--- inst/ChangeLog | 4 ++++ 3 files changed, 12 insertions(+), 3 deletions(-)
Author: R. Gentleman, Elizabeth Whalen, W. Huber, S. Falcon
Title: graph: A package to handle graph data structures
Description: A package that implements some simple graph handling
capabilities.
Diff between graph versions 1.17.15 dated 2008-04-22 and 1.18.0 dated 2008-05-05
DESCRIPTION | 4 R/settings.R | 4 data/pancrCaIni.rda |only inst/doc/GraphClass.pdf | 423 ++++++++++++------------- inst/doc/clusterGraph.pdf |binary inst/doc/graph.pdf | 707 ++++++++++++++++++++----------------------- inst/doc/graphAttributes.pdf |binary man/pancrCaIni.Rd |only 8 files changed, 559 insertions(+), 579 deletions(-)
Author: S original
Diff between boot versions 1.2-32 dated 2008-03-30 and 1.2-33 dated 2008-05-05
Title: Bootstrap R (S-Plus) Functions (Canty)
Description: functions and datasets for bootstrapping from the
book "Bootstrap Methods and Their Applications" by A. C. Davison and
D. V. Hinkley (1997, CUP).
ChangeLog | 5 +++++
DESCRIPTION | 6 +++---
R/bootfuns.q | 2 +-
man/cv.glm.Rd | 2 +-
4 files changed, 10 insertions(+), 5 deletions(-)
Author: S original by Venables & Ripley.
R port by Brian Ripley
Diff between VR versions 7.2-41 dated 2008-02-18 and 7.2-42 dated 2008-05-05
Bundle: VR
Contains: MASS class nnet spatial
DESCRIPTION | 6 +++---
MASS/R/polr.R | 19 +++++++++++++------
MASS/R/stdres.R | 2 +-
MASS/inst/NEWS | 4 +++-
WHATS.NEW | 4 +++-
5 files changed, 23 insertions(+), 12 deletions(-)
Author: Jeff Gentry
Diff between Rgraphviz versions 1.16.0 dated 2008-01-24 and 1.18.0 dated 2008-05-05
Title: Provides plotting capabilities for R graph objects
Description: Interfaces R with the AT&T GraphViz library to provide
the ability for plotting R graph objects from the graph
package
Rgraphviz-1.16.0/Rgraphviz/.BBSoptions |only
Rgraphviz-1.16.0/Rgraphviz/graphviz-win32 |only
Rgraphviz-1.16.0/Rgraphviz/src/Makevars.win |only
Rgraphviz-1.18.0/Rgraphviz/DESCRIPTION | 9
Rgraphviz-1.18.0/Rgraphviz/NAMESPACE | 11
Rgraphviz-1.18.0/Rgraphviz/R/Ragraph.R | 2
Rgraphviz-1.18.0/Rgraphviz/R/Rgraphviz.R | 10
Rgraphviz-1.18.0/Rgraphviz/R/defaultAttrs.R | 150
Rgraphviz-1.18.0/Rgraphviz/R/graph.R | 8
Rgraphviz-1.18.0/Rgraphviz/R/layoutGraph.R |only
Rgraphviz-1.18.0/Rgraphviz/R/renderGraph.R |only
Rgraphviz-1.18.0/Rgraphviz/R/zzz.R | 27
Rgraphviz-1.18.0/Rgraphviz/README | 38
Rgraphviz-1.18.0/Rgraphviz/configure.win |only
Rgraphviz-1.18.0/Rgraphviz/inst/doc/Rgraphviz.Rnw | 48
Rgraphviz-1.18.0/Rgraphviz/inst/doc/Rgraphviz.pdf |12010 +++++-----
Rgraphviz-1.18.0/Rgraphviz/inst/doc/newRgraphvizInterface.Rnw |only
Rgraphviz-1.18.0/Rgraphviz/inst/doc/newRgraphvizInterface.pdf |only
Rgraphviz-1.18.0/Rgraphviz/man/agopen.Rd | 2
Rgraphviz-1.18.0/Rgraphviz/man/agopenSimple.Rd | 2
Rgraphviz-1.18.0/Rgraphviz/man/graphLayout.Rd |only
Rgraphviz-1.18.0/Rgraphviz/man/layoutGraph.Rd | 81
Rgraphviz-1.18.0/Rgraphviz/man/renderGraph.Rd |only
Rgraphviz-1.18.0/Rgraphviz/src/Makevars.win.in |only
Rgraphviz-1.18.0/Rgraphviz/src/graphvizVersion.c | 6
25 files changed, 6246 insertions(+), 6158 deletions(-)
Author: Vince Carey
Diff between RBGL versions 1.14.0 dated 2008-01-24 and 1.16.0 dated 2008-05-05
Title: An interface to the BOOST graph library
Description: A fairly extensive and comprehensive interface to the graph
algorithms contained in the BOOST library.
DESCRIPTION | 9
NAMESPACE | 4
R/interfaces.R | 101
inst/XML/dominator.gxl |only
inst/doc/RBGL.Rnw | 21
inst/doc/RBGL.pdf | 5159 +++++++++++++++++++++----------------------
man/dominatorTree.Rd |only
man/layout.Rd | 60
src/boostIncl.tar.gz |binary
src/dominatorTree.cpp |only
src/fruchterman_reingold.hpp |only
src/incrConnComp.cpp | 3
src/layout.cpp | 253 +-
13 files changed, 2865 insertions(+), 2745 deletions(-)
Author: Torsten Hothorn, Kurt Hornik, Mark A. van de Wiel and Achim Zeileis
Title: Conditional Inference Procedures in a Permutation Test Framework
Description: Conditional inference procedures for the general independence
problem including two-sample, K-sample, correlation, censored, ordered and
multivariate problems.
Diff between coin versions 0.6-7 dated 2007-10-09 and 0.6-9 dated 2008-05-05
coin-0.6-7/coin/inst/doc/Rplots.ps |only coin-0.6-7/coin/inst/doc/coin_implementation-js-plot.pdf |only coin-0.6-7/coin/inst/doc/coin_implementation.tex |only coin-0.6-7/coin/inst/doc/coin_implementation.tpt |only coin-0.6-7/coin/inst/documentation/html/dir_ffcd7fcaa547dc02c1b00308358d1322.html |only coin-0.6-7/coin/inst/documentation/html/dir_ffcd7fcaa547dc02c1b00308358d1322_dep.map |only coin-0.6-7/coin/inst/documentation/html/dir_ffcd7fcaa547dc02c1b00308358d1322_dep.png |only coin-0.6-7/coin/inst/documentation/html/globals_defs.html |only coin-0.6-7/coin/inst/documentation/html/hierarchy.html |only coin-0.6-7/coin/inst/documentation/html/inherit__graph__0.map |only coin-0.6-7/coin/inst/documentation/html/inherit__graph__0.md5 |only coin-0.6-7/coin/inst/documentation/html/inherit__graph__0.png |only coin-0.6-7/coin/inst/documentation/html/inherits.html |only coin-0.6-7/coin/inst/documentation/latex/Helvetica.ttf |only coin-0.6-7/coin/inst/documentation/latex/dir_ffcd7fcaa547dc02c1b00308358d1322.tex |only coin-0.6-7/coin/inst/documentation/latex/dir_ffcd7fcaa547dc02c1b00308358d1322_dep.eps |only coin-0.6-7/coin/inst/documentation/latex/dir_ffcd7fcaa547dc02c1b00308358d1322_dep.pdf |only coin-0.6-7/coin/inst/documentation/latex/hierarchy.tex |only coin-0.6-7/coin/inst/documentation/man/man3/_home_hothorn_projects_cvs_Rpkgs_coin_src_.3 |only coin-0.6-9/coin/CHANGES | 11 coin-0.6-9/coin/DESCRIPTION | 6 coin-0.6-9/coin/R/Confints.R | 4 coin-0.6-9/coin/R/ExactDistributions.R | 4 coin-0.6-9/coin/R/helpers.R | 8 coin-0.6-9/coin/ToDoList | 10 coin-0.6-9/coin/inst/doc/LegoCondInf.pdf |binary coin-0.6-9/coin/inst/doc/MAXtest.Rnw | 2 coin-0.6-9/coin/inst/doc/MAXtest.pdf |binary coin-0.6-9/coin/inst/doc/coin.bib | 34 coin-0.6-9/coin/inst/doc/coin.pdf |binary coin-0.6-9/coin/inst/doc/coin_implementation.pdf |binary coin-0.6-9/coin/inst/doc/head.tex | 2 coin-0.6-9/coin/inst/documentation/html/Classes_8c-source.html 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coin-0.6-9/coin/inst/documentation/man/man3/vandeWiel.c.3 | 26 coin-0.6-9/coin/tests/Examples/coin-Ex.Rout.save | 34 coin-0.6-9/coin/tests/bugfixes.R | 8 coin-0.6-9/coin/tests/bugfixes.Rout.save | 28 coin-0.6-9/coin/tests/codetools-checks.Rout.save | 13 coin-0.6-9/coin/tests/comparisons.Rout.save | 12 coin-0.6-9/coin/tests/regtest_2sample.Rout.save | 12 coin-0.6-9/coin/tests/regtest_Ksample.Rout.save | 12 coin-0.6-9/coin/tests/regtest_MTP.Rout.save | 12 coin-0.6-9/coin/tests/regtest_contingency.Rout.save | 12 coin-0.6-9/coin/tests/regtest_correlation.Rout.save | 12 251 files changed, 7557 insertions(+), 8674 deletions(-)
Author: Carsten F. Dormann and Bernd Gruber, with additional code from Jochen Fruend, based on the C-code developed by Nils Bluethgen.
Title: Visualises bipartite networks and calculates some ecological indices.
Description: See bipartite-package for more details.
Diff between bipartite versions 0.5 dated 2008-03-06 and 0.6 dated 2008-05-05
DESCRIPTION | 8 ++++---- R/as.one.mode.r |only R/dfun.R | 18 ++++++++++++------ R/functspec.r |only R/networklevel.R | 28 ++++++++++++++++------------ R/specieslevel.R | 10 +++++++++- R/swap.web.R |only Wishlist.txt |only data/barrett1987.rda |binary man/C.score.Rd | 6 ++++++ man/as.one.mode.Rd |only man/bipartite-package.Rd | 12 +++++++++--- man/functspec.Rd |only man/networklevel.Rd | 6 +++--- man/null.t.test.Rd | 2 +- man/shuffle.web.Rd | 10 +++++++--- man/specieslevel.Rd | 9 ++++++--- man/swap.web.Rd |only 18 files changed, 73 insertions(+), 36 deletions(-)
Author: Andrew Gelman
Diff between arm versions 1.1-4 dated 2008-04-14 and 1.1-5 dated 2008-05-05
Title: Data Analysis Using Regression and Multilevel/Hierarchical Models
Description: R functions for processing lm, glm, mer and polr outputs.
CHANGELOG | 9 +++++++++
DESCRIPTION | 6 +++---
R/bayesglm.h.R | 5 ++++-
R/coefplot.R | 8 ++++++++
man/bayesglm.Rd | 1 +
man/coefplot.Rd | 3 ++-
6 files changed, 27 insertions(+), 5 deletions(-)
Author: William H. Asquith
Title: L-moments, Trimmed L-moments, L-comoments, and Many Distributions
Description: The package implements the statistical theory of L-moments including
L-moment estimation, probability-weighted moment estimation, parameter estimation
for numerous familiar and not-so-familiar distributions, and L-moment estimation
for the same distributions from the parameters. L-moments are derived from the
expectations of order statistics and are linear with respect to the probability-
weighted moments. L-moments are directly analogous to the well-known product
moments; however, L-moments have many advantages including unbiasedness,
robustness, and consistency with respect to the product moments. This package
is oriented around the FORTRAN algorithms of J.R.M. Hosking, and the
nomenclature for many of the functions parallels that of the Hosking library.
However, numerous extensions are made to aid in expand of the breadth and ease
of L-moment application. Much theoretical extension of L-moment theory has
occurred in recent years. E.A.H. Elamir and A.H. Seheult have developed the
trimmed L-moments, which are implemented in this package. Further, recent
developments by Robert Serfling and Peng Xiao have extended L-moments into
multivariate space; the so-called sample L-comoments are implemented here. The
supported distributions with moment type shown as L (L-moments) or TL (trimmed
L-moments) and additional support for right-tail censoring ([RC]) include:
Cauchy(TL), Exponential(L), Gamma(L), Generalized Extreme Value(L),
Generalized Lambda(L & TL), Generalized Logistic (L), Generalized Normal(L),
Generalized Pareto(L[RC] & TL), Gumbel(L), Normal(L), Kappa(L),
Pearson Type III(L), Reverse Gumbel(L[RC]), Wakeby(L), and Weibull(L).
Diff between lmomco versions 0.93.3 dated 2008-02-03 and 0.93.4 dated 2008-05-04
ChangeLog | 18 ++++++++++++++++++ DESCRIPTION | 6 +++--- INDEX | 4 ++++ R/lmom2vec.R | 6 +++--- R/lmomrevgum.R | 4 ++-- R/par2cdf.R | 3 +++ R/par2pdf.R | 2 +- R/par2qua.R | 2 +- R/parrevgum.R | 3 ++- R/pdfpe3.R | 9 ++++++--- R/pmoms.R | 3 ++- R/prettydist.R |only R/pwm2vec.R |only data |only man/clearforkporosity.Rd |only man/prettydist.Rd |only man/pwm2vec.Rd |only 17 files changed, 45 insertions(+), 15 deletions(-)
Author: Patrick Giraudoux
Diff between pgirmess versions 1.3.6 dated 2008-03-24 and 1.3.7 dated 2008-05-04
Title: Data analysis in ecology
Description: Miscellaneous functions for analysis and display of ecological and spatial data
DESCRIPTION | 7 ++++---
R/dirProj.r |only
R/dirSeg.r |only
R/pclig.R | 5 +----
R/shannon.R | 5 +++--
man/dirProj.rd |only
man/dirSeg.rd |only
man/distSeg.rd | 7 ++++---
man/pclig.Rd | 13 ++++++-------
man/shannon.Rd | 21 ++++++++++++++-------
10 files changed, 32 insertions(+), 26 deletions(-)
Author: Michael Lawrence, John Verzani
Title: Toolkit implementation of gWidgets for RGtk2
Description: Port of gWidgets API to RGtk2
Diff between gWidgetsRGtk2 versions 0.0-31 dated 2008-04-27 and 0.0-33 dated 2008-05-04
ChangeLog | 11 ++++++++++ DESCRIPTION | 9 ++++---- NEWS | 10 +++++++++ R/gedit.R | 6 +++-- man/gWidgetsRGtk2-undocumented.Rd | 40 ++++++++++++++++++++++++++++++++------ tests/RunTests.R | 3 -- 6 files changed, 65 insertions(+), 14 deletions(-)
Author:
Grace Chiu
Diff between bentcableAR versions 0.1 dated 2008-04-29 and 0.1.1 dated 2008-05-04
Title: Bent-Cable Regression for Independent Data or Autoregressive Time Series
Description:
This package contains two main interfaces for fitting
and diagnosing bent-cable regressions for autoregressive
time-series data or independent data (time series or
otherwise). The interfaces are 'bentcable.ar()' and
'bentcable.dev.plot()'. Some components in the package can
also be used as stand-alone functions. The bent cable
(linear-quadratic-linear) generalizes the broken stick
(linear-linear), which is also handled by this package.
DESCRIPTION | 6 +-
R/code.r | 108 +++++++++++++++++++++++++++++-------------
man/bentcable.ar.Rd | 83 +++++++++++++++++++-------------
man/bentcableAR.Rd | 4 -
man/cable.ar.p.diag.Rd | 3 -
man/cable.ar.p.iter.Rd | 3 -
man/cable.change.conf.Rd | 36 ++++++++------
man/cable.fit.known.change.Rd | 6 +-
man/sockeye.Rd | 4 -
man/stagnant.Rd | 4 -
10 files changed, 165 insertions(+), 92 deletions(-)
I had taken one shortcut in relying on the assumption that I would get unique
package names from available.packages(), and that seemingly was
not the case. I added another lookup in the sql backend to the script: for
every possible new package, we explicitly test whether the package and
version combination exists or not. This will prevent the 'cairoDevice package
loop' from showing a few more iterations. Sorry for the useless entries, but
we should be back in good service now.
Permanent link
Author: Michael Lawrence
Title: Cairo-based cross-platform antialiased graphics device driver.
Description: Cairo/GTK graphics device driver with output to screen,
file (png, svg, pdf, and ps) or memory (GdkDrawable). The screen device
may be embedded into RGtk2 interfaces. Supports all interactive features
of other graphics devices, including getGraphicsEvent().
Diff between cairoDevice versions 2.6.1 dated 2008-05-03 and 2.8 dated 2008-05-04
DESCRIPTION | 11 ++++++----- src/Makevars |only src/cairoDevice.c | 39 ++++++++++++++------------------------- src/cairoDevice.h.orig |only src/cairoDevice.h.rej |only 5 files changed, 20 insertions(+), 30 deletions(-)
Author: Michael Lawrence
Title: Cairo-based cross-platform antialiased graphics device driver.
Description: Cairo/GTK graphics device driver with output to screen,
file (png, svg, pdf, and ps) or memory (GdkDrawable). The screen device
may be embedded into RGtk2 interfaces. Supports all interactive features
of other graphics devices, including getGraphicsEvent().
Diff between cairoDevice versions 2.8 dated 2008-05-03 and 2.6.1 dated 2008-05-03
cairoDevice-2.6.1/cairoDevice/DESCRIPTION | 11 ++--- cairoDevice-2.6.1/cairoDevice/src/cairoDevice.c | 39 +++++++++++++-------- cairoDevice-2.8/cairoDevice/src/Makevars |only cairoDevice-2.8/cairoDevice/src/cairoDevice.h.orig |only cairoDevice-2.8/cairoDevice/src/cairoDevice.h.rej |only 5 files changed, 30 insertions(+), 20 deletions(-)
Author: Marek Walesiak
Diff between clusterSim versions 0.34-3 dated 2008-04-04 and 0.36-1 dated 2008-05-03
Title: Searching for optimal clustering procedure for a data set
Description: GDM Distance,
Sokal-Michener Distance,
Bray-Curtis Distance,
Calinski-Harabasz Index,
G2 Index,
G3 Index,
Silhouette Index,
Krzanowski-Lai Index,
Hartigan Index,
Gap Index,
DB Index,
Data Normalization,
HINoV method,
Replication analysis for cluster validation,
Clustering with several algorithms, distances, normalizations and icq indices,
Symbolic interval distances,
Plot functions,
Random cluster generation
DESCRIPTION | 6
R/dist.Symbolic.r | 105 +
R/index.DB.r | 46
R/index.G1.r | 63
R/index.GAP.r | 29
R/index.H.r | 33
R/index.KL.r | 50
R/reszta.r | 151 --
inst/pdf/HINoVMod_details.pdf | 959 +++++---------
inst/pdf/HINoVSymbolic_details.pdf | 338 ++---
inst/pdf/IndexGap_details.pdf |binary
inst/pdf/clusterGen_details.pdf | 2124 +++++++--------------------------
inst/pdf/clusterSim_details.pdf |binary
inst/pdf/dataNormalization_details.pdf |binary
inst/pdf/distBC_details.pdf |binary
inst/pdf/distGDM_details.pdf |binary
inst/pdf/distSM_details.pdf |binary
inst/pdf/distSymbolic_details.pdf |binary
inst/pdf/indexDB_details.pdf | 1303 +++++---------------
inst/pdf/indexG1_details.pdf | 1019 ++++++++-------
inst/pdf/indexG2_details.pdf |binary
inst/pdf/indexG3_details.pdf |binary
inst/pdf/indexH_details.pdf |binary
inst/pdf/indexKL_details.pdf |binary
inst/pdf/indexS_details.pdf |binary
inst/pdf/replicationMod_details.pdf |binary
man/HINoV.Mod.rd | 19
man/HINoV.Symbolic.rd | 10
man/cluster.Description.rd | 8
man/cluster.Gen.rd | 7
man/cluster.Sim.rd | 8
man/data.Normalization.rd | 15
man/data_mixed.rd | 2
man/data_ratio.rd | 4
man/data_symbolic.rd | 3
man/dist.BC.rd | 9
man/dist.GDM.rd | 13
man/dist.SM.rd | 4
man/dist.Symbolic.rd | 12
man/index.DB.rd | 58
man/index.G1.rd | 56
man/index.G2.rd | 28
man/index.G3.rd | 29
man/index.GAP.rd | 85 -
man/index.H.rd | 92 +
man/index.KL.rd | 63
man/index.S.rd | 30
man/initial.Centers.rd | 5
man/plotCategorial.rd | 12
man/plotCategorial3d.rd | 18
man/plotInterval.rd | 15
man/replication.Mod.rd | 10
52 files changed, 2615 insertions(+), 4226 deletions(-)
Author: Allan Strand
Diff between rmetasim versions 1.1.02 dated 2007-11-24 and 1.1.05 dated 2008-05-03
Title: An individual-based population genetic simulation environment
Description: An interface between R and the metasim simulation engine.
Facilitates the use of the metasim engine to build and
run individual based population genetics simulations. The
simulation environment is documented in: Allan
Strand. Metasim 1.0: an individual-based environment for
simulating population genetics of complex population
dynamics. Mol. Ecol. Notes, 2:373-376, 2002. (Please
contact Allan Strand with comments, bug reports, etc).
This version represents a significant alteration of
function names that hopefully increases consistency and
reduces the chances of collisions with other packages
naming conventions. For a spatially-explicit, but slower, package
with a similar interface, see kernelPop
rmetasim-1.1.02/rmetasim/R/coal2rmet.R |only
rmetasim-1.1.05/rmetasim/CHANGELOG | 4
rmetasim-1.1.05/rmetasim/DESCRIPTION | 4
rmetasim-1.1.05/rmetasim/NAMESPACE | 3
rmetasim-1.1.05/rmetasim/R/amova.R |only
rmetasim-1.1.05/rmetasim/R/landscape.sample.R |only
rmetasim-1.1.05/rmetasim/R/simcoal.R | 211 +++++++--------
rmetasim-1.1.05/rmetasim/man/landscape.amova.Rd |only
rmetasim-1.1.05/rmetasim/man/landscape.amova.locus.Rd |only
rmetasim-1.1.05/rmetasim/man/landscape.amova.pairwise.Rd |only
rmetasim-1.1.05/rmetasim/man/landscape.sample.Rd |only
11 files changed, 113 insertions(+), 109 deletions(-)
Author: Manuel Morales
Diff between sciplot versions 1.0-1 dated 2008-02-16 and 1.0-2 dated 2008-05-03
Title: Scientific Graphing Functions for Factorial Designs
Description: A collection of functions that creates graphs with error
bars for data collected from one-way or higher factorial
designs.
CHANGELOG | 1 +
DESCRIPTION | 8 ++++----
R/lineplot.CI.R | 2 +-
man/bargraph.CI.Rd | 6 +++---
man/lineplot.CI.Rd | 4 ++--
5 files changed, 11 insertions(+), 10 deletions(-)
Author: Deepayan Sarkar
Diff between lattice versions 0.17-6 dated 2008-02-16 and 0.17-7 dated 2008-05-03
Title: Lattice Graphics
Description: Implementation of Trellis Graphics. See ?Lattice for a
brief introduction
lattice-0.17-6/lattice/inst |only
lattice-0.17-7/lattice/DESCRIPTION | 6 +-
lattice-0.17-7/lattice/NAMESPACE | 1
lattice-0.17-7/lattice/NEWS |only
lattice-0.17-7/lattice/R/bwplot.R | 25 +++++-----
lattice-0.17-7/lattice/R/interaction.R | 12 +++-
lattice-0.17-7/lattice/R/panels.R | 6 +-
lattice-0.17-7/lattice/SvnLog | 64 ++++++++++++++++++++++++++
lattice-0.17-7/lattice/man/Lattice.Rd | 45 +++++++++---------
lattice-0.17-7/lattice/man/cloud.Rd | 5 ++
lattice-0.17-7/lattice/man/histogram.Rd | 5 ++
lattice-0.17-7/lattice/man/interaction.Rd | 8 ++-
lattice-0.17-7/lattice/man/levelplot.Rd | 6 ++
lattice-0.17-7/lattice/man/make.groups.Rd | 2
lattice-0.17-7/lattice/man/panel.barchart.Rd | 6 ++
lattice-0.17-7/lattice/man/panel.bwplot.Rd | 7 ++
lattice-0.17-7/lattice/man/panel.functions.Rd | 11 ++--
lattice-0.17-7/lattice/man/panel.violin.Rd | 9 ++-
lattice-0.17-7/lattice/man/trellis.device.Rd | 5 ++
lattice-0.17-7/lattice/man/xyplot.Rd | 6 ++
lattice-0.17-7/lattice/po/R-lattice.pot | 2
21 files changed, 176 insertions(+), 55 deletions(-)
Author: Hadley Wickham
Diff between profr versions 0.1 dated 2008-05-02 and 0.1.1 dated 2008-05-02
Title: An alternative display for profiling information
Description: profr provides an alternative data structure and visual rendering for the profiling information generated by Rprof.
ANNOUNCE |only
DESCRIPTION | 6 +++---
R/profile.r | 3 ++-
3 files changed, 5 insertions(+), 4 deletions(-)
Author: Aaron A. King, Edward L. Ionides, Carles Martinez Breto
Title: Partially-observed Markov processes
Description: Inference methods for partially-observed Markov processes
Diff between pomp versions 0.17-3 dated 2007-07-24 and 0.18-1 dated 2008-05-02
pomp-0.17-3/pomp/GPL |only pomp-0.17-3/pomp/R/zzz.R |only pomp-0.18-1/pomp/DESCRIPTION | 12 pomp-0.18-1/pomp/NAMESPACE | 18 - pomp-0.18-1/pomp/R/aaa.R | 5 pomp-0.18-1/pomp/R/bsplines.R | 12 pomp-0.18-1/pomp/R/euler.R |only pomp-0.18-1/pomp/R/eulermultinom.R |only pomp-0.18-1/pomp/R/init.state-pomp.R |only pomp-0.18-1/pomp/R/mif.R | 52 ++-- pomp-0.18-1/pomp/R/particles-mif.R | 66 ++--- pomp-0.18-1/pomp/R/pfilter-mif.R | 47 ++- pomp-0.18-1/pomp/R/pfilter.R | 381 ++++++++++++++++-------------- pomp-0.18-1/pomp/R/pomp.R | 30 ++ pomp-0.18-1/pomp/R/simulate-mif.R | 5 pomp-0.18-1/pomp/R/simulate-pomp.R | 31 +- pomp-0.18-1/pomp/R/sobol.R |only pomp-0.18-1/pomp/data/ou2.rda |binary pomp-0.18-1/pomp/inst/GPL |only pomp-0.18-1/pomp/inst/LICENSE |only pomp-0.18-1/pomp/inst/doc/random_walk.Rnw | 238 ++++++++++-------- pomp-0.18-1/pomp/inst/doc/random_walk.pdf |binary pomp-0.18-1/pomp/inst/examples |only pomp-0.18-1/pomp/inst/include |only pomp-0.18-1/pomp/man/bsplines.Rd | 18 - pomp-0.18-1/pomp/man/dmeasure-pomp.Rd | 50 ++- pomp-0.18-1/pomp/man/dprocess-pomp.Rd | 45 +-- pomp-0.18-1/pomp/man/euler.Rd |only pomp-0.18-1/pomp/man/eulermultinom.Rd |only pomp-0.18-1/pomp/man/init.state-pomp.Rd |only pomp-0.18-1/pomp/man/mif-class.Rd | 1 pomp-0.18-1/pomp/man/mif.Rd | 142 +++++------ pomp-0.18-1/pomp/man/ou2.Rd | 27 -- pomp-0.18-1/pomp/man/pfilter.Rd | 124 +++++---- pomp-0.18-1/pomp/man/pomp-class.Rd | 6 pomp-0.18-1/pomp/man/pomp-package.Rd | 43 +-- pomp-0.18-1/pomp/man/pomp.Rd | 210 ++++++++-------- pomp-0.18-1/pomp/man/rmeasure-pomp.Rd | 9 pomp-0.18-1/pomp/man/rprocess-pomp.Rd | 45 ++- pomp-0.18-1/pomp/man/simulate-pomp.Rd | 55 +--- pomp-0.18-1/pomp/man/sobol.Rd |only pomp-0.18-1/pomp/src/dsobol.c |only pomp-0.18-1/pomp/src/euler.c |only pomp-0.18-1/pomp/src/euler.h |only pomp-0.18-1/pomp/src/eulermultinom.c |only pomp-0.18-1/pomp/src/interp.c |only pomp-0.18-1/pomp/src/interp.h |only pomp-0.18-1/pomp/src/ou2.c | 26 +- pomp-0.18-1/pomp/src/pomp.h | 16 - pomp-0.18-1/pomp/src/sobol.f |only pomp-0.18-1/pomp/tests |only 51 files changed, 936 insertions(+), 778 deletions(-)
Author: John Verzani with contributions by Yvonnick Noel
Title: Poor Man's GUI
Description: Simple GUI for R using gWidgets.
Diff between pmg versions 0.9-37 dated 2008-01-11 and 0.9-38 dated 2008-05-02
pmg-0.9-37/pmg/inst/doc/pmg-dataviewer.eps |only pmg-0.9-37/pmg/inst/doc/pmg-plotnotebook.eps |only pmg-0.9-37/pmg/inst/doc/pmg-sample-dialog.eps |only pmg-0.9-38/pmg/DESCRIPTION | 12 ++++++------ pmg-0.9-38/pmg/NAMESPACE | 1 + pmg-0.9-38/pmg/NEWS |only pmg-0.9-38/pmg/R/BasicWidgets.R | 3 ++- pmg-0.9-38/pmg/R/WindowCollector.R | 2 +- pmg-0.9-38/pmg/R/aaa.pmg.gw.R | 1 + pmg-0.9-38/pmg/R/dSummaryDialog.R | 6 +++--- pmg-0.9-38/pmg/R/pmg.R | 5 +++-- pmg-0.9-38/pmg/R/pmg.datamenu.R | 2 +- pmg-0.9-38/pmg/R/pmg.plotmenu.R | 3 +-- pmg-0.9-38/pmg/R/pmg.teachingDemos.R | 10 +++++----- pmg-0.9-38/pmg/R/pmg.viewDataSets.R | 2 +- pmg-0.9-38/pmg/inst/doc/pmg.pdf |binary pmg-0.9-38/pmg/man/pmg-undocumented.Rd | 1 + pmg-0.9-38/pmg/man/pmg.Rd | 7 ++++++- 18 files changed, 32 insertions(+), 23 deletions(-)
Author: Brian J. Smith
Title: Bayesian Output Analysis Program (BOA) for MCMC
Description: A menu-driven program and library of functions for carrying out
convergence diagnostics and statistical and graphical analysis of Markov
chain Monte Carlo sampling output.
Diff between boa versions 1.1.7-1 dated 2007-12-06 and 1.1.7-2 dated 2008-05-02
DESCRIPTION | 8 +- R/boa.core.R | 209 +++++++++++++++++++++++++----------------------------- R/boa.menu.file.R | 7 + R/boa.plot.open.R | 2 R/spectrum0.R | 2 man/boa.save.Rd | 4 - 6 files changed, 113 insertions(+), 119 deletions(-)
Author: S original by Rene Carmona
Diff between Rwave versions 1.24 dated 2006-12-05 and 1.24-1 dated 2008-05-02
Title: Time-Frequency analysis of 1-D signals
Description: Rwave is a library of R functions which provide an
environment for the Time-Frequency analysis of 1-D signals (and
especially for the wavelet and Gabor transforms of noisy signals).
It was originally written for Splus by Rene Carmona, Bruno Torresani,
and Wen L. Hwang, first at the University of California at Irvine and
then at Princeton University. Credit should also be given to Andrea
Wang whose functions on the dyadic wavelet transform are included.
Rwave is based on the book:
"Practical Time-Frequency Analysis: Gabor and Wavelet Transforms with
an Implementation in S", by Rene Carmona, Wen L. Hwang and Bruno
Torresani, Academic Press, 1998.
Rwave-1.24-1/Rwave/DESCRIPTION | 47 ++++++-------
Rwave-1.24-1/Rwave/R/Cwt_Morlet.R | 2
Rwave-1.24-1/Rwave/R/Hessian_Climbers.R | 4 -
Rwave-1.24-1/Rwave/R/Pca_Climbers.R | 2
Rwave-1.24-1/Rwave/R/Pca_Climbers1.R | 2
Rwave-1.24-1/Rwave/R/Snake_Annealing.R | 15 ++--
Rwave-1.24-1/Rwave/R/gRidge_Irregular.R | 2
Rwave-1.24-1/Rwave/R/gRidge_Recons.R | 2
Rwave-1.24-1/Rwave/R/pca_rec.r | 4 -
Rwave-1.24-1/Rwave/R/radar.r | 10 +-
Rwave-1.24-1/Rwave/R/recon2d.r | 14 ++--
Rwave-1.24-1/Rwave/R/robust.r | 5 +
Rwave-1.24-1/Rwave/data/Ekg.R |only
Rwave-1.24-1/Rwave/data/YN.R |only
Rwave-1.24-1/Rwave/data/YNdiff.R |only
Rwave-1.24-1/Rwave/man/Ekg.rd |only
Rwave-1.24-1/Rwave/man/YN.rd |only
Rwave-1.24-1/Rwave/man/YNdiff.rd |only
Rwave-1.24-1/Rwave/man/cwtp.rd | 112 ++++++++++++++++----------------
Rwave-1.24-1/Rwave/src/crazy_family.c | 35 +++++++---
Rwave-1.24/Rwave/data/ekg.R |only
Rwave-1.24/Rwave/data/yn.R |only
Rwave-1.24/Rwave/data/yndiff.R |only
Rwave-1.24/Rwave/man/ekg.rd |only
Rwave-1.24/Rwave/man/yn.rd |only
Rwave-1.24/Rwave/man/yndiff.rd |only
26 files changed, 138 insertions(+), 118 deletions(-)
Author: Uwe Ligges
Diff between RWinEdt versions 1.7-9 dated 2007-11-04 and 1.8-0 dated 2008-05-02
Title: R-WinEdt
Description: A plug in for using WinEdt as an editor for R
RWinEdt-1.7-9/RWinEdt/PasteToR |only
RWinEdt-1.7-9/RWinEdt/R/classes.S |only
RWinEdt-1.7-9/RWinEdt/R/path.S |only
RWinEdt-1.7-9/RWinEdt/R/registry.S |only
RWinEdt-1.7-9/RWinEdt/R/utilities.S |only
RWinEdt-1.7-9/RWinEdt/R/walk.S |only
RWinEdt-1.7-9/RWinEdt/man/createRegistryPath.Rd |only
RWinEdt-1.7-9/RWinEdt/src/RSCommon.h |only
RWinEdt-1.7-9/RWinEdt/src/getRegistry.c |only
RWinEdt-1.8-0/RWinEdt/DESCRIPTION | 15
RWinEdt-1.8-0/RWinEdt/NAMESPACE | 3
RWinEdt-1.8-0/RWinEdt/R/getWinEdt.R | 13
RWinEdt-1.8-0/RWinEdt/R/zzz.R | 2
RWinEdt-1.8-0/RWinEdt/inst/CHANGES | 29
RWinEdt-1.8-0/RWinEdt/inst/PlugIn/R.ini | 4787 ++++++++++++------------
RWinEdt-1.8-0/RWinEdt/inst/PlugIn/R.lst | 4619 ++++++++++++-----------
RWinEdt-1.8-0/RWinEdt/inst/PlugIn/R.ver | 2
RWinEdt-1.8-0/RWinEdt/inst/ReadMe.txt | 17
RWinEdt-1.8-0/RWinEdt/inst/doc/RWinEdt.pdf | 2503 ++++++------
RWinEdt-1.8-0/RWinEdt/man/WinEdt.Rd | 3
RWinEdt-1.8-0/RWinEdt/src/Makevars.win | 1
21 files changed, 6286 insertions(+), 5708 deletions(-)
Author: Uwe Ligges
Diff between scatterplot3d versions 0.3-25 dated 2007-09-14 and 0.3-26 dated 2008-05-02
Title: 3D Scatter Plot
Description: Plots a three dimensional (3D) point cloud.
CHANGES | 9
DESCRIPTION | 14
R/scatterplot3d.R | 14
inst/CITATION | 2
inst/doc/ligges.bib | 8
inst/doc/s3d.pdf | 2509 ++++++++++++++++++++--------------------
inst/doc/scatterplot3d-help.tex | 4
man/scatterplot3d.Rd | 8
po/R-de.po | 2
po/R-en.po | 2
10 files changed, 1326 insertions(+), 1246 deletions(-)
Author: Ingo Feinerer
Title: WordNet Interface
Description: An interface to WordNet using the Jawbone Java API to WordNet.
WordNet is an on-line lexical reference system developed by the Cognitive
Science Laboratory at Princeton University. Its design is inspired by current
psycholinguistic theories of human lexical memory. English nouns, verbs,
adjectives and adverbs are organized into synonym sets, each representing one
underlying lexical concept. Different relations link the synonym sets.
Diff between wordnet versions 0.1-2 dated 2008-02-07 and 0.1-3 dated 2008-05-02
wordnet-0.1-2/wordnet/inst/doc/wordnet.tex |only wordnet-0.1-3/wordnet/DESCRIPTION | 15 ++++++++---- wordnet-0.1-3/wordnet/R/dictionary.R | 15 +++++++----- wordnet-0.1-3/wordnet/R/onload.R | 2 - wordnet-0.1-3/wordnet/inst/CITATION | 8 +++++- wordnet-0.1-3/wordnet/inst/doc/wordnet.Rnw | 29 ++++++++++++++++++------- wordnet-0.1-3/wordnet/inst/doc/wordnet.pdf |binary wordnet-0.1-3/wordnet/man/getDict.Rd | 3 +- wordnet-0.1-3/wordnet/man/getDictInstance.Rd | 2 - wordnet-0.1-3/wordnet/man/getFilterTypes.Rd | 2 - wordnet-0.1-3/wordnet/man/getIndexTerms.Rd | 8 ++++-- wordnet-0.1-3/wordnet/man/getLemma.Rd | 10 +++++--- wordnet-0.1-3/wordnet/man/getRelatedSynsets.Rd | 14 ++++++------ wordnet-0.1-3/wordnet/man/getSynonyms.Rd | 10 +++++--- wordnet-0.1-3/wordnet/man/getSynsets.Rd | 10 +++++--- wordnet-0.1-3/wordnet/man/getTermFilter.Rd | 5 ++-- wordnet-0.1-3/wordnet/man/getWord.Rd | 14 ++++++------ wordnet-0.1-3/wordnet/man/initDict.Rd | 6 ++--- wordnet-0.1-3/wordnet/man/setDict.Rd | 2 - wordnet-0.1-3/wordnet/man/synonyms.Rd | 5 ++-- 20 files changed, 101 insertions(+), 59 deletions(-)
Author: Mark S. Handcock
Diff between statnet versions 2.0-7 dated 2008-04-18 and 2.1 dated 2008-05-02
Title: Software tools for the Statistical Modeling of Network Data
Description: An integrated set of tools for the representation, visualization, analysis and simulation of network data. This package For an introduction type: help(package='statnet')
statnet-2.0-7/statnet/R/install.statnet.R |only
statnet-2.0-7/statnet/man/install.statnet.Rd |only
statnet-2.1/statnet/DESCRIPTION | 8 ++---
statnet-2.1/statnet/R/zzz.R | 12 +++----
statnet-2.1/statnet/inst/CITATION | 43 +++++++++++++++------------
statnet-2.1/statnet/inst/CITATION.1 |only
statnet-2.1/statnet/inst/aaa |only
7 files changed, 34 insertions(+), 29 deletions(-)
Author: Sandy Eckel, Roger D. Peng
Title: A Set of Tools for Administering SHared Repositories
Description: A Set of Tools for Administering SHared Repositories
Diff between stashR versions 0.3-1 dated 2007-05-15 and 0.3-2 dated 2008-05-02
DESCRIPTION | 12 +++++--- NAMESPACE | 22 +++++++++++++-- R/init.R | 70 +++++++++++++++++++++++++------------------------- R/zzz.R | 42 +++++++++++++++--------------- tests/tests.Rout.save | 30 ++++++++++++--------- 5 files changed, 100 insertions(+), 76 deletions(-)
Author: Roger D. Peng
Diff between simpleboot versions 1.1-2 dated 2007-03-15 and 1.1-3 dated 2008-05-02
Title: Simple Bootstrap Routines
Description: Simple bootstrap routines
simpleboot-1.1-2/simpleboot/man/simpleboot-internal.Rd |only
simpleboot-1.1-3/simpleboot/DESCRIPTION | 12 +++++-------
simpleboot-1.1-3/simpleboot/R/zzz.R | 2 +-
simpleboot-1.1-3/simpleboot/tests/reg-tests.Rout.save | 6 +++---
4 files changed, 9 insertions(+), 11 deletions(-)
Author: Duncan Temple Lang
Diff between rggobi versions 2.1.8-4 dated 2008-04-04 and 2.1.9 dated 2008-05-02
Title: Interface between R and GGobi
Description: The rggobi package provides a command-line interface to GGobi, an interactive and dynamic graphics package. Rggobi complements GGobi's graphical user interface, providing a way to fluidly transition between analysis and exploration, as well as automating common tasks.
DESCRIPTION | 8 ++++----
R/data.r | 2 --
src/display.c | 5 +++--
3 files changed, 7 insertions(+), 8 deletions(-)
Author: Tristen Hayfield
Diff between np versions 0.14-2 dated 2008-01-11 and 0.14-3 dated 2008-05-02
Title: Nonparametric kernel smoothing methods for mixed datatypes
Description: This package provides a variety of nonparametric (and semiparametric) kernel methods that seamlessly handle a mix of continuous, unordered, and ordered factor datatypes. We would like to gratefully acknowledge support from the Natural Sciences and Engineering Research Council of Canada (NSERC:www.nserc.ca), the Social Sciences and Humanities Research Council of Canada (SSHRC:www.sshrc.ca), and the Shared Hierarchical Academic Research Computing Network (SHARCNET:www.sharcnet.ca).
CHANGELOG | 13 +++----------
DESCRIPTION | 6 +++---
R/zzz.R | 2 +-
man/np.cmstest.Rd | 8 ++++----
man/np.regression.Rd | 7 +++----
man/np.regression.bw.Rd | 7 +++----
man/np.smoothcoef.Rd | 6 +++---
man/np.smoothcoef.bw.Rd | 6 +++---
src/headers.h | 2 +-
src/kernelcv.c | 7 +++++++
src/statmods.c | 39 +++++++++++++++++++++++++++++++++++++++
11 files changed, 70 insertions(+), 33 deletions(-)
Author: Alexis Dinno
Diff between paran versions 1.3.5 dated 2008-04-09 and 1.3.6 dated 2008-05-02
Title: Horn's Test of Principal Components/Factors
Description: paran is an implementation of Horn's technique for numerically and graphically evaluating the components or factors retained in a principle components analysis (PCA) or common factor analysis (FA). Horn's method contrasts eigenvalues produced through a PCA or FA on a number of random data sets of uncorrelated variables with the same number of variables and observations as the experimental or observational data set to produce eigenvalues for components or factors that are adjusted for the sample error-induced inflation. Components with adjusted eigenvalues greater than one are retained. paran may also be used to conduct parallel analysis following Glorfeld's (1995) suggestions to reduce the likelihood of over-retention.
DESCRIPTION | 10 +++----
R/paran.R | 80 +++++++++++++++++++++++------------------------------------
man/paran.Rd | 10 ++-----
3 files changed, 41 insertions(+), 59 deletions(-)
Author: William Constantine (Insightful Corporation)
Title: Insightful Research Tools
Description: Insightful Research Tools.
Diff between ifultools versions 1.0-5 dated 2008-03-06 and 1.0-6 dated 2008-05-02
ifultools-1.0-5/ifultools/.Data |only ifultools-1.0-5/ifultools/Makefile.temp |only ifultools-1.0-5/ifultools/inst/bookexams |only ifultools-1.0-5/ifultools/inst/doc |only ifultools-1.0-6/ifultools/DESCRIPTION | 24 ++++++++++----------- ifultools-1.0-6/ifultools/R/it_util.q | 2 - ifultools-1.0-6/ifultools/inst/include/fra_dim.h | 2 - ifultools-1.0-6/ifultools/inst/include/fra_fdp.h | 2 - ifultools-1.0-6/ifultools/inst/include/fra_filt.h | 2 - ifultools-1.0-6/ifultools/inst/include/fra_kde.h | 2 - ifultools-1.0-6/ifultools/inst/include/fra_lyap.h | 2 - ifultools-1.0-6/ifultools/inst/include/fra_mac.h | 2 - ifultools-1.0-6/ifultools/inst/include/fra_modl.h | 2 - ifultools-1.0-6/ifultools/inst/include/fra_neig.h | 2 - ifultools-1.0-6/ifultools/inst/include/fra_scale.h | 2 - ifultools-1.0-6/ifultools/inst/include/fra_sdf.h | 2 - ifultools-1.0-6/ifultools/inst/include/fra_stat.h | 2 - ifultools-1.0-6/ifultools/inst/include/fra_surr.h | 2 - ifultools-1.0-6/ifultools/inst/include/fra_tdmi.h | 2 - ifultools-1.0-6/ifultools/inst/include/fra_type.h | 2 - ifultools-1.0-6/ifultools/inst/include/img_type.h | 2 - ifultools-1.0-6/ifultools/inst/include/mat_any.h | 2 - ifultools-1.0-6/ifultools/inst/include/mat_arit.h | 2 - ifultools-1.0-6/ifultools/inst/include/mat_assn.h | 2 - ifultools-1.0-6/ifultools/inst/include/mat_bits.h | 2 - ifultools-1.0-6/ifultools/inst/include/mat_cast.h | 2 - ifultools-1.0-6/ifultools/inst/include/mat_comp.h | 2 - ifultools-1.0-6/ifultools/inst/include/mat_intp.h | 2 - ifultools-1.0-6/ifultools/inst/include/mat_intr.h | 2 - ifultools-1.0-6/ifultools/inst/include/mat_io.h | 2 - ifultools-1.0-6/ifultools/inst/include/mat_iter.h | 2 - ifultools-1.0-6/ifultools/inst/include/mat_log.h | 2 - ifultools-1.0-6/ifultools/inst/include/mat_nnls.h | 2 - ifultools-1.0-6/ifultools/inst/include/mat_num.h | 2 - ifultools-1.0-6/ifultools/inst/include/mat_pca.h | 2 - ifultools-1.0-6/ifultools/inst/include/mat_rand.h | 2 - ifultools-1.0-6/ifultools/inst/include/mat_set.h | 2 - ifultools-1.0-6/ifultools/inst/include/mat_snr.h | 2 - ifultools-1.0-6/ifultools/inst/include/mat_sort.h | 2 - ifultools-1.0-6/ifultools/inst/include/mat_stat.h | 2 - ifultools-1.0-6/ifultools/inst/include/mat_summ.h | 2 - ifultools-1.0-6/ifultools/inst/include/mat_thr.h | 2 - ifultools-1.0-6/ifultools/inst/include/mat_tile.h | 2 - ifultools-1.0-6/ifultools/inst/include/mat_type.h | 2 - ifultools-1.0-6/ifultools/inst/include/mat_umat.h | 2 - ifultools-1.0-6/ifultools/inst/include/mat_univ.h | 2 - ifultools-1.0-6/ifultools/inst/include/mat_usca.h | 2 - ifultools-1.0-6/ifultools/inst/include/mth_dist.h | 2 - ifultools-1.0-6/ifultools/inst/include/mth_mac.h | 2 - ifultools-1.0-6/ifultools/inst/include/mth_stat.h | 2 - ifultools-1.0-6/ifultools/inst/include/mth_var.h | 2 - ifultools-1.0-6/ifultools/inst/include/sig_conv.h | 2 - ifultools-1.0-6/ifultools/inst/include/sig_tran.h | 2 - ifultools-1.0-6/ifultools/inst/include/sig_type.h | 2 - ifultools-1.0-6/ifultools/inst/include/sig_win.h | 2 - ifultools-1.0-6/ifultools/inst/include/str_type.h | 2 - ifultools-1.0-6/ifultools/inst/include/ut_RS.h | 2 - ifultools-1.0-6/ifultools/inst/include/ut_alloc.h | 2 - ifultools-1.0-6/ifultools/inst/include/ut_debug.h | 2 - ifultools-1.0-6/ifultools/inst/include/ut_err.h | 2 - ifultools-1.0-6/ifultools/inst/include/ut_intrn.h | 2 - ifultools-1.0-6/ifultools/inst/include/ut_intrp.h | 2 - ifultools-1.0-6/ifultools/inst/include/ut_io.h | 2 - ifultools-1.0-6/ifultools/inst/include/ut_kdtr.h | 2 - ifultools-1.0-6/ifultools/inst/include/ut_limit.h | 2 - ifultools-1.0-6/ifultools/inst/include/ut_math.h | 2 - ifultools-1.0-6/ifultools/inst/include/ut_mem.h | 2 - ifultools-1.0-6/ifultools/inst/include/ut_mtlb6.h | 2 - ifultools-1.0-6/ifultools/inst/include/ut_plat.h | 2 - ifultools-1.0-6/ifultools/inst/include/ut_rand.h | 2 - ifultools-1.0-6/ifultools/inst/include/ut_spls5.h | 2 - ifultools-1.0-6/ifultools/inst/include/ut_type.h | 2 - ifultools-1.0-6/ifultools/inst/include/wav_boot.h | 2 - ifultools-1.0-6/ifultools/inst/include/wav_cwt.h | 2 - ifultools-1.0-6/ifultools/inst/include/wav_dwt.h | 2 - ifultools-1.0-6/ifultools/inst/include/wav_dwtc.h | 2 - ifultools-1.0-6/ifultools/inst/include/wav_fdp.h | 2 - ifultools-1.0-6/ifultools/inst/include/wav_filt.h | 2 - ifultools-1.0-6/ifultools/inst/include/wav_gbr.h | 2 - ifultools-1.0-6/ifultools/inst/include/wav_hmt.h | 2 - ifultools-1.0-6/ifultools/inst/include/wav_mac.h | 2 - ifultools-1.0-6/ifultools/inst/include/wav_modw.h | 2 - ifultools-1.0-6/ifultools/inst/include/wav_shrk.h | 2 - ifultools-1.0-6/ifultools/inst/include/wav_type.h | 2 - ifultools-1.0-6/ifultools/inst/include/wav_var.h | 2 - ifultools-1.0-6/ifultools/inst/include/wav_wtmm.h | 2 - ifultools-1.0-6/ifultools/src/RS_fra_dim.c | 2 - ifultools-1.0-6/ifultools/src/RS_fra_fdp.c | 2 - ifultools-1.0-6/ifultools/src/RS_fra_filt.c | 2 - ifultools-1.0-6/ifultools/src/RS_fra_kde.c | 2 - ifultools-1.0-6/ifultools/src/RS_fra_lyap.c | 2 - ifultools-1.0-6/ifultools/src/RS_fra_modl.c | 2 - ifultools-1.0-6/ifultools/src/RS_fra_neig.c | 2 - ifultools-1.0-6/ifultools/src/RS_fra_scale.c | 2 - ifultools-1.0-6/ifultools/src/RS_fra_sdf.c | 2 - ifultools-1.0-6/ifultools/src/RS_fra_stat.c | 2 - ifultools-1.0-6/ifultools/src/RS_fra_surr.c | 2 - ifultools-1.0-6/ifultools/src/RS_fra_tdmi.c | 2 - ifultools-1.0-6/ifultools/src/RS_mac.h | 2 - ifultools-1.0-6/ifultools/src/RS_math_acvs.c | 2 - ifultools-1.0-6/ifultools/src/RS_sig_conv.c | 2 - ifultools-1.0-6/ifultools/src/RS_sig_win.c | 2 - ifultools-1.0-6/ifultools/src/RS_wav_boot.c | 2 - ifultools-1.0-6/ifultools/src/RS_wav_fdp.c | 2 - ifultools-1.0-6/ifultools/src/RS_wav_filt.c | 2 - ifultools-1.0-6/ifultools/src/RS_wav_mrd.c | 2 - ifultools-1.0-6/ifultools/src/RS_wav_shrk.c | 2 - ifultools-1.0-6/ifultools/src/RS_wav_var.c | 2 - ifultools-1.0-6/ifultools/src/RS_wav_wtmm.c | 2 - ifultools-1.0-6/ifultools/src/RS_wav_xform.c | 2 - ifultools-1.0-6/ifultools/src/fra_dim.c | 2 - ifultools-1.0-6/ifultools/src/fra_fdp.c | 2 - ifultools-1.0-6/ifultools/src/fra_filt.c | 2 - ifultools-1.0-6/ifultools/src/fra_kde.c | 2 - ifultools-1.0-6/ifultools/src/fra_lyap.c | 2 - ifultools-1.0-6/ifultools/src/fra_modl.c | 2 - ifultools-1.0-6/ifultools/src/fra_neig.c | 2 - ifultools-1.0-6/ifultools/src/fra_scale.c | 2 - ifultools-1.0-6/ifultools/src/fra_sdf.c | 2 - ifultools-1.0-6/ifultools/src/fra_stat.c | 2 - ifultools-1.0-6/ifultools/src/fra_surr.c | 2 - ifultools-1.0-6/ifultools/src/fra_tdmi.c | 2 - ifultools-1.0-6/ifultools/src/fra_util.c | 2 - ifultools-1.0-6/ifultools/src/fra_util.h | 2 - ifultools-1.0-6/ifultools/src/mat_arit.c | 2 - ifultools-1.0-6/ifultools/src/mat_assn.c | 2 - ifultools-1.0-6/ifultools/src/mat_cast.c | 2 - ifultools-1.0-6/ifultools/src/mat_comp.c | 2 - ifultools-1.0-6/ifultools/src/mat_num.c | 2 - ifultools-1.0-6/ifultools/src/mat_rand.c | 2 - ifultools-1.0-6/ifultools/src/mat_set.c | 2 - ifultools-1.0-6/ifultools/src/mat_sort.c | 2 - ifultools-1.0-6/ifultools/src/mat_stat.c | 2 - ifultools-1.0-6/ifultools/src/mat_summ.c | 2 - ifultools-1.0-6/ifultools/src/mat_tmpl.h | 2 - ifultools-1.0-6/ifultools/src/mat_univ.c | 2 - ifultools-1.0-6/ifultools/src/mth_dist.c | 2 - ifultools-1.0-6/ifultools/src/mth_stat.c | 2 - ifultools-1.0-6/ifultools/src/mth_var.c | 2 - ifultools-1.0-6/ifultools/src/sig_conv.c | 2 - ifultools-1.0-6/ifultools/src/sig_tran.c | 2 - ifultools-1.0-6/ifultools/src/sig_win.c | 2 - ifultools-1.0-6/ifultools/src/ut_RS.c | 2 - ifultools-1.0-6/ifultools/src/ut_alloc.c | 2 - ifultools-1.0-6/ifultools/src/ut_debug.c | 2 - ifultools-1.0-6/ifultools/src/ut_err.c | 2 - ifultools-1.0-6/ifultools/src/ut_intrp.c | 2 - ifultools-1.0-6/ifultools/src/ut_kdtr.c | 2 - ifultools-1.0-6/ifultools/src/ut_mem.c | 2 - ifultools-1.0-6/ifultools/src/ut_rand.c | 2 - ifultools-1.0-6/ifultools/src/wav_boot.c | 2 - ifultools-1.0-6/ifultools/src/wav_cwt.c | 2 - ifultools-1.0-6/ifultools/src/wav_dwtc.c | 2 - ifultools-1.0-6/ifultools/src/wav_fdp.c | 2 - ifultools-1.0-6/ifultools/src/wav_filt.c | 2 - ifultools-1.0-6/ifultools/src/wav_look.c | 2 - ifultools-1.0-6/ifultools/src/wav_look.h | 2 - ifultools-1.0-6/ifultools/src/wav_math.c | 2 - ifultools-1.0-6/ifultools/src/wav_math.h | 2 - ifultools-1.0-6/ifultools/src/wav_modw.c | 2 - ifultools-1.0-6/ifultools/src/wav_shrk.c | 2 - ifultools-1.0-6/ifultools/src/wav_var.c | 2 - ifultools-1.0-6/ifultools/src/wav_wtmm.c | 2 - 163 files changed, 170 insertions(+), 170 deletions(-)
Author: Roger D. Peng
Diff between gpclib versions 1.4-1 dated 2007-02-28 and 1.4-2 dated 2008-05-02
Title: General Polygon Clipping Library for R
Description: General polygon clipping routines for R based on Alan Murta's C library
DESCRIPTION | 8 ++++----
tests/reg-tests.Rout.save | 6 +++---
2 files changed, 7 insertions(+), 7 deletions(-)
Author: Sřren Hřjsgaard
Diff between gRbase versions 0.4.0 dated 2008-04-27 and 0.4.1 dated 2008-05-02
Title: A package for graphical modelling in R
Description: This package defines S3-classes gmData (graphical meta data), gModel (graphical model). Several other graphical modelling packages rely on these fundamental constructs. gRbase illustrates how hierarchical log-linear models (hllm) may be implemented.
gRbase-0.4.0/gRbase/inst/doc/gRbase.aux |only
gRbase-0.4.0/gRbase/inst/doc/gRbase.bbl |only
gRbase-0.4.0/gRbase/inst/doc/gRbase.blg |only
gRbase-0.4.0/gRbase/inst/doc/gRbase.log |only
gRbase-0.4.0/gRbase/inst/doc/gRbase.tex |only
gRbase-0.4.1/gRbase/ChangeLog | 7 +++++++
gRbase-0.4.1/gRbase/DESCRIPTION | 4 ++--
gRbase-0.4.1/gRbase/inst/doc/gRbase.pdf |binary
8 files changed, 9 insertions(+), 2 deletions(-)
Author: Sřren Hřjsgaard
Diff between gRain versions 0.3.0 dated 2008-03-28 and 0.3.1 dated 2008-05-02
Title: Graphical Independence Networks
Description: A package for probability propagation in graphical independence networks, also known as probabilistic expert systems (which includes Bayesian networks as a special case).
ChangeLog | 12 ++++++++
DESCRIPTION | 4 +-
NAMESPACE | 1
R/Graphsh-GraphConversion.R | 10 ++++---
R/Graphsh-mcs-moral-rip.R | 8 ++---
R/Graphsh-triangulate.R | 7 +++++
R/TabOpArray.R | 26 +++++++++++++++++++
R/allClasses-Graphsh.R | 11 ++++----
R/gmInstance.R | 3 +-
R/xxx2yyy.R | 60 ++++++++++++++++++++++----------------------
Wishlist.txt | 7 -----
inst/doc/fig |only
inst/doc/gRain-intro.R |only
inst/doc/gRain-intro.Rnw |only
inst/doc/gRain-intro.pdf |only
inst/doc/gRain.bib |only
inst/doc/gRain.pdf |binary
inst/doc/gRash.pdf |binary
inst/doc/gRpotential.pdf |binary
man/internal-gRain.Rd | 1
man/predict.Rd | 1
21 files changed, 96 insertions(+), 55 deletions(-)
Author: Roger D. Peng
Diff between filehash versions 1.0-1 dated 2007-08-13 and 1.1 dated 2008-05-02
Title: Simple key-value database
Description: Simple key-value database
DESCRIPTION | 11
R/filehash-DB1.R | 539 ++++++++++++++-------------
R/filehash-RDS.R | 148 ++++---
R/zzz.R | 2
inst/NEWS | 3
inst/doc/filehash.pdf |binary
man/filehash-class.Rd | 6
tests/reg-tests.R | 88 ----
tests/reg-tests.Rout.save | 892 +---------------------------------------------
9 files changed, 409 insertions(+), 1280 deletions(-)
Author: Jeff Hallman
Diff between fame versions 1.10 dated 2008-04-29 and 1.11 dated 2008-05-02
Title: Interface for FAME time series database
Description: Includes FAME storage and retrieval function, as well as functions and S3 classes for time indexes and time indexed series, which are compatible with FAME frequencies.
DESCRIPTION | 4 ++--
NAMESPACE | 6 +++---
2 files changed, 5 insertions(+), 5 deletions(-)
Author: Virasakdi Chongsuvivatwong
Diff between epicalc versions 2.7.0.1 dated 2008-04-27 and 2.7.0.2 dated 2008-05-02
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.
DESCRIPTION | 6
R/epicalc.R | 307 ++++++++++++++++++++++++++++----------------------
man/aggregate.plot.rd | 33 +++--
man/followup.plot.rd | 11 +
4 files changed, 211 insertions(+), 146 deletions(-)
Author: Micah Altman, Akio Sone
Title: utilities supporting the VDC system
Description: The VDC system is an open source digital library system for
quantitative data. This is a package to support on-line analysis using
VDC and Zelig, accuracy, and R2HTML
Diff between VDCutil versions 1.14 dated 2007-10-02 and 1.15 dated 2008-05-02
CHANGELOG | 2 +- DESCRIPTION | 8 ++++---- R/genAn.R | 8 ++++++-- inst/CITATION | 4 ++-- man/printVDCxtabs.Rd | 2 +- 5 files changed, 14 insertions(+), 10 deletions(-)
Author: Didier Leibovici
Diff between PTAk versions 1.1-16 dated 2007-09-21 and 1.1-17 dated 2008-05-02
Title: Principal Tensor Analysis on k modes
Description: A multiway method to decompose a tensor (array) of any order,
as a generalisation of SVD also supporting non-identity metrics and penalisations.
2-way SVD with these extensions is also available. The package includes also some other multiway
methods: PCAn (Tucker-n) and PARAFAC/CANDECOMP with these extensions.
DESCRIPTION | 12 +-
LICENSE | 56 ++++--------
R/PTAk.R | 224 +++++++++++++++++++++++++++++++++++----------------
data/crimerate.RData |binary
data/timage12.RData |binary
inst |only
man/CANDPARA.Rd | 2
man/CauRuimet.Rd | 30 ++++--
man/FCAk.Rd | 19 ++--
man/FCAmet.Rd | 3
man/PROJOT.Rd | 18 ++--
man/PTA3.Rd | 9 --
man/PTAk.Rd | 45 +++++++---
man/SINGVA.Rd | 18 ++--
man/SVDgen.Rd | 12 +-
man/howtoPTAk.Rd | 2
16 files changed, 280 insertions(+), 170 deletions(-)
Author: Bendix Carstensen, Martyn Plummer, Esa Laara, Michael Hills et. al.
Title: A package for statistical analysis in epidemiology.
Description: Functions for demographic and epidemiological
analysis in the Lexis diagram, i.e. register and cohort follow-up
data, including interval censored data and representation of
multistate data. Also some useful functions for tabulation and
plotting. Contains some epidemiological datasets.
Diff between Epi versions 1.0.7 dated 2008-01-11 and 1.0.8 dated 2008-05-02
Epi-1.0.7/Epi/R/tab.Lexis.r |only Epi-1.0.7/Epi/README |only Epi-1.0.7/Epi/man/tab.Lexis.Rd |only Epi-1.0.8/Epi/CHANGES | 12 ++++++ Epi-1.0.8/Epi/DESCRIPTION | 6 +-- Epi-1.0.8/Epi/NAMESPACE | 7 ++- Epi-1.0.8/Epi/R/ci.pd.R | 2 - Epi-1.0.8/Epi/R/lexis.R | 7 +++ Epi-1.0.8/Epi/R/stattable.R | 4 +- Epi-1.0.8/Epi/R/summary.Lexis.r |only Epi-1.0.8/Epi/man/Lexis.Rd | 14 +++---- Epi-1.0.8/Epi/man/ci.cum.Rd | 4 +- Epi-1.0.8/Epi/man/cutLexis.Rd | 4 +- Epi-1.0.8/Epi/man/float.Rd | 70 +++++++++++++++++++------------------ Epi-1.0.8/Epi/man/splitLexis.Rd | 4 +- Epi-1.0.8/Epi/man/summary.Lexis.rd |only 16 files changed, 79 insertions(+), 55 deletions(-)
Author: Ravi Varadhan
Title: Solving and optimizing large-scale nonlinear systems
Description: Barzilai-Borwein Spectral Methods for solving nonlinear system of
equations, and for optimizing nonlinear objective functions subject to simple
constraints.
Diff between BB versions 2008.4-1 dated 2008-04-22 and 2008.5-1 dated 2008-05-02
DESCRIPTION | 8 ++++---- NEWS |only R/spg.R | 9 +++++++-- inst/CITATION |only inst/doc/BB.pdf |binary man/dfsane.Rd | 10 ++++++++-- man/sane.Rd | 10 ++++++++-- man/spg.Rd | 26 ++++++++++++++++++-------- tests/sc2.R | 28 ++++++++++++++++++++++++++++ 9 files changed, 73 insertions(+), 18 deletions(-)
Author: Ramon Diaz-Uriarte
Diff between ADaCGH versions 1.3-4 dated 2007-10-04 and 1.3-7 dated 2008-05-02
Title: Analysis of data from aCGH experiments
Description: Analysis and plotting of array CGH data. Allows usage of
Circular Binary Segementation, wavelet-based smoothing, ACE
method (CGH Explorer), HMM, BioHMM, GLAD, CGHseg, and Price's modification of Smith &
Waterman's algorith. Most computations are
parallelized. Figures are imagemaps with links to IDClight
(http://idclight.bioinfo.cnio.es).
ADaCGH-1.3-4/ADaCGH/inst/Python/semantic.cache |only
ADaCGH-1.3-7/ADaCGH/Changes | 14 +
ADaCGH-1.3-7/ADaCGH/DESCRIPTION | 8 -
ADaCGH-1.3-7/ADaCGH/R/ADaCGH.R | 182 ++++++++++++++++---------
ADaCGH-1.3-7/ADaCGH/README.INSTALL | 11 -
ADaCGH-1.3-7/ADaCGH/man/mpiInit.Rd | 8 -
6 files changed, 148 insertions(+), 75 deletions(-)
Author: Allen Day
Diff between getopt versions 1.12 dated 2008-04-23 and 1.14 dated 2008-04-30
Title: C-like getopt behavior.
Description: Use this with Rscript to write ``#!'' shebang scripts that accept short and long flags/options.
DESCRIPTION | 6 +-
R/getopt.R | 101 ++++++++++++++++++++++++++++++++++++++++++--------
man/getopt.package.Rd | 28 ++++++++++++-
3 files changed, 114 insertions(+), 21 deletions(-)
Author: Gregory Warnes, with contributions from Gregor Gorjanc,
Friedrich Leisch, and Michael Man.
Title: Population Genetics
Description: Classes and methods for handling genetic data. Includes
classes to represent genotypes and haplotypes at single markers up
to multiple markers on multiple chromosomes. Function include
allele frequencies, flagging homo/heterozygotes, flagging carriers
of certain alleles, estimating and testing for Hardy-Weinberg
disequilibrium, estimating and testing for linkage disequilibrium,
...
Diff between genetics versions 1.3.2 dated 2007-11-21 and 1.3.3 dated 2008-04-30
genetics-1.3.2/genetics/man/power.casectl.Rd |only genetics-1.3.3/genetics/ChangeLog | 733 +++++++++++++-------------- genetics-1.3.3/genetics/DESCRIPTION | 6 genetics-1.3.3/genetics/NEWS | 10 genetics-1.3.3/genetics/R/genotype.R | 4 genetics-1.3.3/genetics/R/locus.R | 6 genetics-1.3.3/genetics/R/power.casectl.R | 62 +- genetics-1.3.3/genetics/inst/ChangeLog | 733 +++++++++++++-------------- genetics-1.3.3/genetics/inst/NEWS | 10 genetics-1.3.3/genetics/man/depreciated.Rd |only 10 files changed, 785 insertions(+), 779 deletions(-)
Author: Ingo Feinerer, with contributions from Christian Buchta, Kurt Hornik, David Meyer, and Fridolin Wild
Title: Text Mining Package
Description: A framework for text mining applications within R.
Diff between tm versions 0.3 dated 2008-02-07 and 0.3-1 dated 2008-04-29
tm-0.3-1/tm/DESCRIPTION | 10 tm-0.3-1/tm/NAMESPACE | 13 tm-0.3-1/tm/R/chunks.R |only tm-0.3-1/tm/R/meta.R | 88 ++++ tm-0.3-1/tm/R/plaintextdoc.R | 2 tm-0.3-1/tm/R/source.R | 37 ++ tm-0.3-1/tm/R/termdocmatrix.R | 12 tm-0.3-1/tm/R/textdoccol.R | 108 +++++- tm-0.3-1/tm/R/transform.R | 11 tm-0.3-1/tm/inst/CITATION |only tm-0.3-1/tm/inst/doc/tm.Rnw | 430 +++++++++--------------- tm-0.3-1/tm/inst/doc/tm.pdf |binary tm-0.3-1/tm/man/CSVSource-class.Rd | 8 tm-0.3-1/tm/man/DirSource-class.Rd | 8 tm-0.3-1/tm/man/DublinCore-methods.Rd |only tm-0.3-1/tm/man/GmaneSource-class.Rd | 10 tm-0.3-1/tm/man/NewsgroupDocument-class.Rd | 33 - tm-0.3-1/tm/man/PlainTextDocument-class.Rd | 29 - tm-0.3-1/tm/man/RCV1Document-class.Rd | 4 tm-0.3-1/tm/man/Reuters21578Document-class.Rd | 4 tm-0.3-1/tm/man/ReutersSource-class.Rd | 12 tm-0.3-1/tm/man/ReutersSource.Rd | 4 tm-0.3-1/tm/man/Source-class.Rd | 8 tm-0.3-1/tm/man/StructuredTextDocument-class.Rd | 29 - tm-0.3-1/tm/man/TermDocMatrix-class.Rd | 23 - tm-0.3-1/tm/man/TermDocMatrix.Rd | 7 tm-0.3-1/tm/man/TextDocCol-class.Rd | 8 tm-0.3-1/tm/man/TextDocCol.Rd | 14 tm-0.3-1/tm/man/TextDocument-class.Rd | 79 ++-- tm-0.3-1/tm/man/TextRepository-class.Rd | 10 tm-0.3-1/tm/man/TextRepository.Rd | 8 tm-0.3-1/tm/man/VectorSource-class.Rd |only tm-0.3-1/tm/man/VectorSource.Rd |only tm-0.3-1/tm/man/WeightFunction.Rd | 4 tm-0.3-1/tm/man/XMLTextDocument-class.Rd | 27 - tm-0.3-1/tm/man/acq.Rd | 4 tm-0.3-1/tm/man/appendMeta.Rd | 3 tm-0.3-1/tm/man/c-methods.Rd | 4 tm-0.3-1/tm/man/convertRCV1Plain.Rd | 2 tm-0.3-1/tm/man/convertReut21578XMLPlain.Rd | 2 tm-0.3-1/tm/man/createDictionary.Rd | 2 tm-0.3-1/tm/man/crude.Rd | 4 tm-0.3-1/tm/man/eoi-methods.Rd | 3 tm-0.3-1/tm/man/findAssocs.Rd | 8 tm-0.3-1/tm/man/findFreqTerms.Rd | 8 tm-0.3-1/tm/man/getElem-methods.Rd | 12 tm-0.3-1/tm/man/getFilters.Rd | 2 tm-0.3-1/tm/man/getReaders.Rd | 2 tm-0.3-1/tm/man/getSources.Rd |only tm-0.3-1/tm/man/getTransformations.Rd | 4 tm-0.3-1/tm/man/loadDoc.Rd | 2 tm-0.3-1/tm/man/makeChunks.Rd |only tm-0.3-1/tm/man/materialize.Rd |only tm-0.3-1/tm/man/meta.Rd | 12 tm-0.3-1/tm/man/plot.Rd | 4 tm-0.3-1/tm/man/preprocessReut21578XML.Rd | 6 tm-0.3-1/tm/man/prescindMeta.Rd | 2 tm-0.3-1/tm/man/readDOC.Rd | 6 tm-0.3-1/tm/man/readHTML.Rd | 6 tm-0.3-1/tm/man/readNewsgroup.Rd | 9 tm-0.3-1/tm/man/readPDF.Rd | 10 tm-0.3-1/tm/man/readPlain.Rd | 4 tm-0.3-1/tm/man/readRCV1.Rd | 9 tm-0.3-1/tm/man/readReut21578XML.Rd | 6 tm-0.3-1/tm/man/removeMeta.Rd | 5 tm-0.3-1/tm/man/replacePatterns.Rd |only tm-0.3-1/tm/man/rownames.Rd | 2 tm-0.3-1/tm/man/sFilter.Rd | 14 tm-0.3-1/tm/man/searchFullText.Rd | 6 tm-0.3-1/tm/man/stepNext-methods.Rd | 10 tm-0.3-1/tm/man/stopwords.Rd | 6 tm-0.3-1/tm/man/stripWhitespace.Rd | 2 tm-0.3-1/tm/man/subset-methods.Rd | 6 tm-0.3-1/tm/man/summary-methods.Rd | 4 tm-0.3-1/tm/man/termFreq.Rd | 22 - tm-0.3-1/tm/man/tm-internal.Rd | 2 tm-0.3-1/tm/man/tmFilter-methods.Rd | 7 tm-0.3-1/tm/man/tmIndex-methods.Rd | 8 tm-0.3-1/tm/man/tmIntersect.Rd | 2 tm-0.3-1/tm/man/tmMap-methods.Rd | 16 tm-0.3-1/tm/man/tmUpdate.Rd | 2 tm-0.3-1/tm/man/weightBin.Rd | 2 tm-0.3-1/tm/man/weightLogical.Rd | 2 tm-0.3-1/tm/man/weightTf.Rd | 2 tm-0.3-1/tm/man/weightTfIdf.Rd | 2 tm-0.3-1/tm/man/writeCorpus-methods.Rd | 2 tm-0.3-1/tm/src |only tm-0.3/tm/man/replaceWords.Rd |only 88 files changed, 715 insertions(+), 585 deletions(-)
Author: Vidar Grřtan and Steinar Engen
Title: Poisson lognormal and bivariate Poisson lognormal distribution
Description: Functions for obtaining the density, random deviates
and maximum likelihood estimates of the Poisson lognormal
distribution and the bivariate Poisson lognormal distribution.
Diff between poilog versions 0.3 dated 2007-12-04 and 0.4 dated 2008-04-29
DESCRIPTION | 6 +++--- R/bipoilog.R | 11 +++++------ man/2poilogMLE.Rd | 3 +++ man/4bipoilogMLE.Rd | 4 ++++ 4 files changed, 15 insertions(+), 9 deletions(-)
Author: Simon Wood
Diff between mgcv versions 1.3-30 dated 2008-04-03 and 1.3-31 dated 2008-04-29
Title: GAMs with GCV smoothness estimation and GAMMs by REML/PQL
Description: Routines for GAMs and other generalized ridge regression
with multiple smoothing parameter selection by GCV or
UBRE/AIC. Also GAMMs by REML or PQL. Includes a gam()
function.
DESCRIPTION | 4 ++--
R/mgcv.r | 2 +-
changeLog | 4 ++++
3 files changed, 7 insertions(+), 3 deletions(-)
Author: Jeff Hallman
Diff between fame versions 1.09 dated 2007-10-23 and 1.10 dated 2008-04-29
Title: Interface for FAME time series database
Description: Includes FAME storage and retrieval function, as well as functions and S3 classes for time indexes and time indexed series, which are compatible with FAME frequencies.
DESCRIPTION | 4
NAMESPACE | 17 +-
R/description.R | 2
R/fameSupport.R | 6
R/holidays.R | 4
R/is.scalar.R |only
R/ti.R | 55 +++++-
R/tis.R | 10 -
R/tisFromCsv.R | 12 -
R/unix/fame.R | 383 ++++++++++++++++++++++++++++++++++++++---------
R/unix/zzz.R | 5
R/unix/zzz.R.in | 5
man/cumsum.Rd | 2
man/getfame.Rd | 47 ++++-
man/is.scalar.Rd |only
man/today.Rd | 4
man/unix/lowLevelFame.Rd | 23 +-
src/fame.c | 95 ++++++++---
18 files changed, 521 insertions(+), 153 deletions(-)
Author: Roger D. Peng
Diff between cacher versions 0.1-2 dated 2008-04-04 and 0.2-1 dated 2008-04-29
Title: Tools for caching and distributing statistical analyses
Description: This package provides tools for caching statistical analyses in key-value databases which can subsequently be distributed over the web.
cacher-0.1-2/cacher/man/pkgupload.Rd |only
cacher-0.2-1/cacher/DESCRIPTION | 13 ++++-----
cacher-0.2-1/cacher/NAMESPACE | 4 --
cacher-0.2-1/cacher/R/compile.R | 7 +++--
cacher-0.2-1/cacher/R/hash.R |only
cacher-0.2-1/cacher/R/remote.R | 15 ++++++++++
cacher-0.2-1/cacher/R/utils.R | 49 +++++++++++++++++++++++------------
cacher-0.2-1/cacher/R/verify.R | 10 +++++--
cacher-0.2-1/cacher/R/vizcache.R | 31 +++++++++++++++-------
cacher-0.2-1/cacher/TODO | 2 +
cacher-0.2-1/cacher/man/package.Rd | 1
cacher-0.2-1/cacher/src |only
cacher-0.2-1/cacher/tests |only
13 files changed, 89 insertions(+), 43 deletions(-)
Author: Christian Roever
Title: Bayesian spectral inference
Description: Bayesian inference on the (discrete) power spectrum of time series.
Diff between bspec versions 1.0 dated 2008-04-23 and 1.1 dated 2008-04-29
DESCRIPTION | 6 +++--- inst/CITATION | 13 ++++++++----- man/acf.Rd | 4 +++- man/bspec.Rd | 18 ++++++++++++++++-- man/expectation.Rd | 4 +++- man/likelihood.Rd | 4 +++- man/temper.Rd | 4 +++- man/temperature.Rd | 4 +++- 8 files changed, 42 insertions(+), 15 deletions(-)
Author: David Scott
Diff between HyperbolicDist versions 0.5-1 dated 2007-02-11 and 0.5-2 dated 2008-04-29
More information about HyperbolicDist at CRAN
Title: The hyperbolic distribution
Description: This package provides functions for the hyperbolic and related
distributions. Density, distribution and quantile functions and
random number generation are provided for the hyperbolic distribution,
the generalized hyperbolic distribution, the generalized inverse
Gaussian distribution and the skew-Laplace distribution. Additional
functionality is provided for the hyperbolic distribution, including
fitting of the hyperbolic to data.
ChangeLog | 75 ---
DESCRIPTION | 6
NAMESPACE | 26 -
NEWS |only
R/dghyp.R | 118 ++---
R/dgig.R | 1080 +++++++++++++++++++++++------------------------
R/hyperbFit.R | 57 +-
R/safeIntegrate.R | 66 +-
R/sampleMoments.R | 30 -
R/summary.hyperbFit.R | 102 ++--
R/zzz.R | 6
data/hyperbWSqTable.R | 140 +++---
man/SandP500.Rd | 62 +-
man/dghyp.Rd | 4
man/hyperbCvMTest.Rd | 182 +++----
man/hyperbFit.Rd | 29 -
man/hyperbFitStart.Rd | 2
man/hyperbWSqTable.Rd | 54 +-
man/mamquam.Rd | 98 ++--
man/qqghyp.Rd | 126 ++---
man/qqhyperb.Rd | 126 ++---
man/qqskewlap.Rd | 130 ++---
man/safeIntegrate.Rd | 142 +++---
man/sampleMoments.Rd | 96 ++--
man/summary.hyperbFit.Rd | 131 ++---
25 files changed, 1434 insertions(+), 1454 deletions(-)
Permanent link
Author: R. H. Baayen
Title: Data sets and functions with "Analyzing Linguistic Data: A practical introduction to statistics".
Description: Data sets exemplifying statistical methods, and some
facilitatory utility functions used in my forthcoming book
"Analyzing Linguistic Data: A practical introduction to
statistics using R", Cambridge University Press, 2008.
Diff between languageR versions 0.4 dated 2007-09-21 and 0.92 dated 2008-04-29
DESCRIPTION | 12 - NAMESPACE | 10 - R/addMCMCci.fnc.R |only R/aovlmer.fnc.R | 4 R/degreesOrKnots.fnc.R |only R/getKnots.fnc.R |only R/getMCMCintervals.fnc.R |only R/getPos.fnc.R |only R/getRange.fnc.R |only R/getRoot.fnc.R |only R/implementInteractions.fnc.R |only R/lmerPlotInt.fnc.R | 3 R/makeDefaultMatrix.fnc.R |only R/makeSplineData.fnc.R |only R/parsePredName.fnc.R |only R/plot.logistic.fit.fnc.R | 22 ++- R/plotAll.fnc.R |only R/plotLMER.fnc.R |only R/preparePredictor.fnc.R |only R/pvals.fnc.R | 286 +++++++++++++++++++++++++++++++-------- R/simulateLatinsquare.fnc.R | 2 R/simulateQuasif.fnc.R | 2 R/simulateRegression.fnc.R | 2 R/transforming.fnc.R |only R/xylowess.fnc.R | 6 data/alice.rda |binary data/danish.rda |only data/moby.rda |binary data/oz.rda |binary data/through.rda |binary inst/scripts/examples.txt | 15 +- languageR.Rcheck |only man/addMCMCci.fnc.Rd |only man/alice.Rd | 4 man/aovlmer.fnc.Rd | 2 man/beginningReaders.Rd | 2 man/danish.Rd |only man/dative.Rd | 20 +- man/degreesOrKnots.fnc.Rd |only man/english.Rd | 3 man/getKnots.fnc.Rd |only man/getMCMCintervals.fnc.Rd |only man/getPos.fnc.Rd |only man/getRange.fnc.Rd |only man/getRoot.fnc.Rd |only man/implementInteractions.fnc.Rd |only man/makeDefaultMatrix.fnc.Rd |only man/makeSplineData.fnc.Rd |only man/moby.Rd | 2 man/oz.Rd | 2 man/parsePredName.fnc.Rd |only man/plot.logistic.fit.fnc.Rd | 8 - man/plotAll.fnc.Rd |only man/plotLMER.fnc.Rd |only man/preparePredictor.fnc.Rd |only man/pvals.fnc.Rd | 25 ++- man/through.Rd | 2 man/transforming.fnc.Rd |only man/xylowess.fnc.Rd | 3 59 files changed, 328 insertions(+), 109 deletions(-)
Author: Tobias Verbeke
Title: Hello Java World
Description: A dummy package to demonstrate how to interface
to a jar file that resides inside an R package.
Diff between helloJavaWorld versions 0.0-5 dated 2008-04-28 and 0.0-6 dated 2008-04-29
helloJavaWorld-0.0-5/helloJavaWorld/inst/helloJavaWorld.Rnw |only helloJavaWorld-0.0-5/helloJavaWorld/inst/helloJavaWorld.aux |only helloJavaWorld-0.0-5/helloJavaWorld/inst/helloJavaWorld.log |only helloJavaWorld-0.0-5/helloJavaWorld/inst/helloJavaWorld.pdf |only helloJavaWorld-0.0-5/helloJavaWorld/inst/helloJavaWorld.tex |only helloJavaWorld-0.0-5/helloJavaWorld/inst/helloJavaWorld.toc |only helloJavaWorld-0.0-6/helloJavaWorld/DESCRIPTION | 6 +++--- helloJavaWorld-0.0-6/helloJavaWorld/inst/doc |only 8 files changed, 3 insertions(+), 3 deletions(-)
More information about helloJavaWorld at CRAN
Permanent link
Author: Ole F. Christensen
Diff between geoRglm versions 0.8-23 dated 2008-04-24 and 0.8-24 dated 2008-04-29
Title: geoRglm - a package for generalised linear spatial models
Description: Functions for inference in generalised linear spatial models. The posterior and predictive inference is based on Markov chain Monte Carlo methods. Package geoRglm is an extension to the package geoR, which must be installed first.
DESCRIPTION | 6 +++---
R/binom.bayes.R | 6 ++----
R/binom.pred.R | 2 +-
R/general.R | 2 +-
R/mcmc.R | 2 +-
R/nonpar.R | 10 ++++------
R/pois.bayes.R | 6 ++----
R/pois.pred.R | 2 +-
inst/doc/geoRglmintro.pdf |binary
9 files changed, 15 insertions(+), 21 deletions(-)
Author: Mark Stevenson
Diff between epiR versions 0.9-4 dated 2008-04-07 and 0.9-5 dated 2008-04-29
Title: Functions for analysing epidemiological data
Description: A package for analysing epidemiological data. Contains functions
for directly and indirectly adjusting measures of disease frequency,
quantifying measures of association on the basis of single or multiple
strata of count data presented in a contingency table, and computing
confidence intervals around incidence risk and incidence rate estimates.
Miscellaneous functions for use in meta-analysis, diagnostic test
interpretation, and sample size calculations.
epiR-0.9-4/epiR/R/epi.ccc.R |only
epiR-0.9-5/epiR/DESCRIPTION | 6
epiR-0.9-5/epiR/R/epi.ccc.r |only
epiR-0.9-5/epiR/doc/epiR.pdf | 7749 ++++++++++++++++++-----------------------
epiR-0.9-5/epiR/man/epi.ccc.Rd | 2
5 files changed, 3475 insertions(+), 4282 deletions(-)
Author: Christian Buchta and Michael Hahsler
Title: Mining frequent sequences
Description: Add-on for arules to handle and mine frequent sequences.
Provides interfaces to the C++ implementation of cSPADE by
Mohammed J. Zaki.
Diff between arulesSequences versions 0.1-1 dated 2007-06-27 and 0.1-3 dated 2008-04-29
DESCRIPTION | 11 +++++------ NAMESPACE | 3 ++- R/01matrix.R | 7 ++----- R/02sequences.R | 12 ++++++------ R/03rules.R | 7 +++++-- R/05read_write.R | 4 +++- R/10timed.R | 20 ++++++++++++-------- man/info-methods.Rd | 10 +++++----- man/match-methods.Rd | 6 +++--- man/subset-methods.Rd | 4 ++-- src/ptree.c | 5 +++-- tests/zaki.Rout.save | 30 ++++++++++++++++++++++++------ 12 files changed, 72 insertions(+), 47 deletions(-)
More information about arulesSequences at CRAN
Permanent link
More information about helloJavaWorld at CRAN
Permanent link
Author: Michel Berkelaar and others
Title: Interface to Lp_solve v. 5.5 to solve linear/integer programs
Description: Lp_solve is freely available (under LGPL 2) software for
solving linear, integer and mixed integer programs. In this implementation
we supply a "wrapper" function in C and some R functions that solve
general linear/integer problems, assignment problems, and transportation
problems. This version calls lp_solve version 5.5.
Diff between lpSolve versions 5.5.8 dated 2007-09-21 and 5.6.1 dated 2008-04-28
lpSolve-5.5.8/lpSolve/src/lpslink55.c |only lpSolve-5.6.1/lpSolve/DESCRIPTION | 10 lpSolve-5.6.1/lpSolve/INDEX | 3 lpSolve-5.6.1/lpSolve/NAMESPACE | 2 lpSolve-5.6.1/lpSolve/R/lp.R | 406 +++++++++++++++++++----------- lpSolve-5.6.1/lpSolve/R/lp.assign.R | 2 lpSolve-5.6.1/lpSolve/R/make.q8.R |only lpSolve-5.6.1/lpSolve/R/print.lp.R | 19 - lpSolve-5.6.1/lpSolve/man/lp.Rd | 33 ++ lpSolve-5.6.1/lpSolve/man/lp.object.Rd | 1 lpSolve-5.6.1/lpSolve/man/lp.transport.Rd | 2 lpSolve-5.6.1/lpSolve/man/make.q8.Rd |only lpSolve-5.6.1/lpSolve/man/print.lp.Rd | 6 lpSolve-5.6.1/lpSolve/src/Makevars.win | 2 lpSolve-5.6.1/lpSolve/src/lp_lib.c | 25 + lpSolve-5.6.1/lpSolve/src/lpslink56.c |only 16 files changed, 353 insertions(+), 158 deletions(-)
Author: Mark S. Handcock
Diff between ergm versions 2.0-8 dated 2008-04-22 and 2.1 dated 2008-04-28
Title: Fit, Simulate and Diagnose Exponential-Family Models for Networks
Description: An integrated set of tools to analyze and simulate networks based on exponential-family random graph models (ERGM). "ergm" is a part of the "statnet" suite of packages for network analysis. For a list of functions type: help(package='ergm')
ergm-2.0-8/ergm/R/ergm.mcmcslave.R |only
ergm-2.1/ergm/.atexfile |only
ergm-2.1/ergm/DESCRIPTION | 6
ergm-2.1/ergm/LICENSE.122207 |only
ergm-2.1/ergm/LICENSE.2006 |only
ergm-2.1/ergm/R/control.ergm.R | 3
ergm-2.1/ergm/R/ergm.degeneracy.R | 8 -
ergm-2.1/ergm/R/ergm.estimate.R | 5
ergm-2.1/ergm/R/ergm.mainfitloop.R | 8 -
ergm-2.1/ergm/R/ergm.robmon.R | 1
ergm-2.1/ergm/R/ergm.stocapprox.R | 1
ergm-2.1/ergm/R/print.summary.ergm.R | 13 +
ergm-2.1/ergm/R/summary.ergm.R | 38 ++---
ergm-2.1/ergm/Rd2.pdf |only
ergm-2.1/ergm/ergm-internal.Rd |only
ergm-2.1/ergm/inst/license.statnet.R |only
ergm-2.1/ergm/man/control.ergm.Rd | 7 -
ergm-2.1/ergm/man/ergm-terms.Rd | 239 +++++++++++++++++------------------
ergm-2.1/ergm/src/MPLE.c | 6
ergm-2.1/ergm/src/edgetree.c | 4
20 files changed, 174 insertions(+), 165 deletions(-)
Author: Christophe Dutang, Thibault Marchal
Title: Torus algorithm and linear congruential generators
Description: Torus algorithm for quasi random number generation (for Van Der Corput low-discrepancy sequences, use Rmetrics - fOptions). Also implements a general linear congruential pseudo random generator (such as Park Miller) to make comparison with Mersenne Twister (default in R) and the Torus algorithm.
Diff between torus versions 1.0 dated 2008-03-03 and 1.01 dated 2008-04-27
DESCRIPTION | 14 - NAMESPACE | 1 R/torus.R | 98 +++++++++--- man/torus.Rd | 92 +++++++++-- src/init.c | 56 +++---- src/locale.h | 38 ++-- src/mt19937-64.c |only src/mt64.h |only src/torus.c | 427 ++++++++++++++++++++++++++++++++++++++++++++----------- src/torus.h | 48 +++--- 10 files changed, 576 insertions(+), 198 deletions(-)
Author: Jelle Goeman
Diff between penalized versions 0.9-20 dated 2008-02-17 and 0.9-21 dated 2008-04-27
Title: L1 (lasso) and L2 (ridge) penalized estimation in GLMs and in the Cox model
Description: A package for fitting possibly high dimensional penalized regression models. The penalty structure can be any combination of an L1 penalty (lasso), an L2 penalty (ridge) and a positivity constraint on the regression coefficients. The supported regression models are linear, logistic and poisson regression and the Cox Proportional Hazards model. Cross-validation routines allow optimization of the tuning parameters.
DESCRIPTION | 10
NAMESPACE | 6
R/breslow.R | 5
R/checkinput.R | 96
R/core.R | 30
R/cox.R | 112
R/cvl.R | 216
R/linear.R | 36
R/logit.R | 32
R/penalized.R | 10
R/penfit.R | 98
R/plotpath.R | 1
R/poisson.R |only
changelog.txt | 23
inst/doc/Rplots.ps |28442 +++++++++++++++---------------
inst/doc/penalized-breslowplot.eps |13774 +++++++-------
inst/doc/penalized-breslowplot.pdf |28656 +++++++++++++++----------------
inst/doc/penalized-positivestepsplot.pdf | 4
inst/doc/penalized-profpathplot.pdf | 4
inst/doc/penalized-profplot1.eps | 231
inst/doc/penalized-profplot1.pdf | 240
inst/doc/penalized-profplot2.eps | 162
inst/doc/penalized-profplot2.pdf | 184
inst/doc/penalized-stepsplot.pdf | 4
inst/doc/penalized.Rnw | 40
inst/doc/penalized.aux | 24
inst/doc/penalized.log | 41
inst/doc/penalized.pdf |binary
inst/doc/penalized.tex | 70
inst/doc/penalized.toc | 20
man/breslow.Rd | 13
man/cvl.Rd | 41
man/penalized.Rd | 6
man/penfit.Rd | 4
man/predict.Rd |only
35 files changed, 36464 insertions(+), 36171 deletions(-)
Author: Paulo J. Ribeiro Jr
Diff between geoR versions 1.6-20 dated 2007-11-28 and 1.6-21 dated 2008-04-27
Title: Analysis of geostatistical data
Description: Geostatistical analysis including traditional, likelihood-based and Bayesian methods.
DESCRIPTION | 6 ++--
R/bivar.R | 42 ++++++++++++++++++--------------
R/eyefit.R | 14 ++++++----
R/kriging.R | 4 +--
R/likGRF.R | 69 ++++++++++++++++++++++++++++++++++++++---------------
R/simul.R | 2 -
R/variofit.R | 13 ++++++++-
R/variogram.R | 16 ++++++------
R/xvalid.R | 2 -
inst/doc/CHANGES | 31 +++++++++++++++++++++++
man/cov.spatial.Rd | 12 ++++-----
man/likfit.Rd | 6 ++--
12 files changed, 147 insertions(+), 70 deletions(-)
Author: Michael Lawrence, John Verzani
Title: Toolkit implementation of gWidgets for RGtk2
Description: Port of gWidgets API to RGtk2
Diff between gWidgetsRGtk2 versions 0.0-30 dated 2008-04-24 and 0.0-31 dated 2008-04-27
DESCRIPTION | 4 ++-- NEWS | 14 +++++++++++++- R/gradio.R | 2 ++ tests |only 4 files changed, 17 insertions(+), 3 deletions(-)
Author: Sřren Hřjsgaard
Diff between gRbase versions 0.3.2 dated 2008-04-15 and 0.4.0 dated 2008-04-27
Title: A package for graphical modelling in R
Description: This package defines S3-classes gmData (graphical meta data), gModel (graphical model). Several other graphical modelling packages rely on these fundamental constructs. gRbase illustrates how hierarchical log-linear models (hllm) may be implemented.
ChangeLog | 9 ++++++
DESCRIPTION | 4 +-
INDEX | 1
R/setopsC.R | 32 +++++++++++++----------
R/setopsR.R | 15 +++++++---
inst/doc/gRbase.log | 18 ++++++-------
inst/doc/gRbase.pdf |binary
man/gRbase-internal.Rd | 5 ---
man/gRbase-utilities.Rd |only
src/setops.c | 66 ------------------------------------------------
10 files changed, 50 insertions(+), 100 deletions(-)
Author: Virasakdi Chongsuvivatwong
Diff between epicalc versions 2.7.0.0 dated 2008-04-25 and 2.7.0.1 dated 2008-04-27
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.
DESCRIPTION | 6 +++---
R/epicalc.R | 41 ++++++++++++++++++++++++++++++-----------
man/aggregate.plot.rd | 6 +++++-
3 files changed, 38 insertions(+), 15 deletions(-)
Author: Stephen Milborrow
derived from mda:mars by Trevor Hastie and Rob Tibshirani.
Title: Multivariate Adaptive Regression Spline Models
Description: Build regression models using the techniques in Friedman's
papers "Fast MARS" and "Multivariate Adaptive Regression Splines".
(The term "MARS" is copyrighted and thus not used in the name of the package.)
Diff between earth versions 1.3-2 dated 2008-03-29 and 1.3-4 dated 2008-04-27
DESCRIPTION | 6 +++--- NEWS | 4 ++++ R/earth.R | 2 +- R/earthlib.R | 2 ++ src/tests/earth.times.R | 2 ++ src/tests/test.earth.big.R | 8 ++++++-- src/tests/test.earth.big.Rout.save | 8 ++++++-- src/tests/test.earth.full.R | 8 ++++++-- src/tests/test.earth.full.Rout.save | 10 +++++++--- src/tests/test.earthc.bat | 5 +++-- src/tests/test.earthmain.bat | 5 +++-- src/tests/test.earthmain.gcc.bat | 5 +++-- src/tests/test.plotmo.R | 8 ++++++-- src/tests/test.plotmo.Rout.save | 26 ++++++++++++++++++++------ 14 files changed, 72 insertions(+), 27 deletions(-)
Author: Michael Hahsler, Christian Buchta, Bettina Gruen and Kurt Hornik
Title: Mining Association Rules and Frequent Itemsets
Description: Provides the infrastructure for representing,
manipulating and analyzing transaction data and patterns (frequent
itemsets and association rules). Also provides interfaces to
C implementations of the association mining algorithms Apriori and Eclat
by C. Borgelt.
Diff between arules versions 0.6-4 dated 2008-04-01 and 0.6-5 dated 2008-04-27
DESCRIPTION | 14 R/AllGenerics.R | 446 +--- R/associations.R | 11 R/inspect.R | 5 R/is.closed.R | 8 R/is.maximal.R | 6 R/itemMatrix.R | 6 R/itemsets.R | 2 R/read_write.R | 13 R/rules.R | 2 inst/doc/Rplots.ps |only inst/doc/arules-019.eps |only inst/doc/arules-019.pdf |only inst/doc/arules-034.eps |only inst/doc/arules-034.pdf |only inst/doc/arules-036.eps |only inst/doc/arules-036.pdf |only inst/doc/arules-epub.eps |only inst/doc/arules-epub.pdf |only inst/doc/arules.Rnw | 42 inst/doc/arules.aux |only inst/doc/arules.bib | 7 inst/doc/arules.log |only inst/doc/arules.out |only inst/doc/arules.pdf | 3885 +++++++++++++++++++++---------------------- inst/doc/arules.tex |only man/WRITE.Rd | 31 man/duplicated.Rd | 2 man/itemCoding.Rd | 2 man/itemsets-class.Rd | 2 man/match.Rd | 2 man/rules-class.Rd | 5 src/ptree.c | 32 tests/associations.R | 5 tests/associations.Rout.save | 696 +++---- tests/extract.R | 2 tests/extract.Rout.save | 42 tests/interfaces.R | 11 tests/interfaces.Rout.save | 128 - tests/measures.R | 5 tests/measures.Rout.save | 63 tests/sets.R | 2 tests/sets.Rout.save | 40 tests/transactions.R | 19 tests/transactions.Rout.save | 139 - 45 files changed, 2714 insertions(+), 2961 deletions(-)
Author: Jonathan M. Lees
Title: Read in WIN format data
Description: Reads in WIN pickfile and waveform file, prepares data for RSEIS
Diff between WINRPACK versions 1.0-6 dated 2008-04-16 and 1.0-7 dated 2008-04-27
WINRPACK-1.0-6/WINRPACK/inst/doc/060413.021851.231 |only WINRPACK-1.0-6/WINRPACK/inst/doc/060413.021852 |only WINRPACK-1.0-6/WINRPACK/inst/doc/060413.021852.ch |only WINRPACK-1.0-7/WINRPACK/DESCRIPTION | 6 - WINRPACK-1.0-7/WINRPACK/inst/doc/970723.235151.840 |only WINRPACK-1.0-7/WINRPACK/inst/doc/970723.235156 |only WINRPACK-1.0-7/WINRPACK/inst/doc/970723.235156.ch |only WINRPACK-1.0-7/WINRPACK/inst/doc/WIN2R.Rnw | 2 WINRPACK-1.0-7/WINRPACK/inst/doc/WIN2R.pdf |binary WINRPACK-1.0-7/WINRPACK/man/WINRPACK-package.Rd | 79 +++++++++++++++++---- WINRPACK-1.0-7/WINRPACK/man/XWINdata.Rd | 29 +++++++ WINRPACK-1.0-7/WINRPACK/man/XWINdataASK.Rd | 27 +++++++ WINRPACK-1.0-7/WINRPACK/man/get1WINPICK.Rd | 1 WINRPACK-1.0-7/WINRPACK/man/readwinch.Rd | 12 ++- WINRPACK-1.0-7/WINRPACK/src/win2R.c | 11 ++ 15 files changed, 147 insertions(+), 20 deletions(-)
Author: Katharine M. Mullen, Ivo H. M. van Stokkum
Title: a problem solving environment for fitting separable nonlinear models in physics and chemistry applications
Description: TIMP is a problem solving environment for fitting separable nonlinear models to measurements arising in physics and chemistry experiments, and has been extensively applied to time-resolved spectroscopy and FLIM-FRET data.
Diff between TIMP versions 1.5 dated 2008-01-29 and 1.6 dated 2008-04-27
TIMP-1.5/TIMP/CHANGES |only TIMP-1.5/TIMP/Rplots.ps |only TIMP-1.6/TIMP/DESCRIPTION | 6 TIMP-1.6/TIMP/NAMESPACE | 26 +- TIMP-1.6/TIMP/R/addPrel.R | 44 ++-- TIMP-1.6/TIMP/R/divergeZimage.R |only TIMP-1.6/TIMP/R/doSVD.R | 3 TIMP-1.6/TIMP/R/efit2file.R |only TIMP-1.6/TIMP/R/fillResult.R | 46 +--- TIMP-1.6/TIMP/R/fitModel.R | 67 +++--- TIMP-1.6/TIMP/R/getKinConcen.R | 1 TIMP-1.6/TIMP/R/getModel.R | 52 ++--- TIMP-1.6/TIMP/R/getPrel.R | 41 +--- TIMP-1.6/TIMP/R/getPrelBetweenDatasets.R | 54 ++--- TIMP-1.6/TIMP/R/getPrelTheta.R | 52 ++--- TIMP-1.6/TIMP/R/getResidRet.R | 95 ++++----- TIMP-1.6/TIMP/R/getResults.R | 59 ++--- TIMP-1.6/TIMP/R/getSelectedTracesMax.R | 33 +-- TIMP-1.6/TIMP/R/getSpecList.R | 62 +++--- TIMP-1.6/TIMP/R/getStdErrClp.R | 40 ++- TIMP-1.6/TIMP/R/getTheta.R | 102 ++++------ TIMP-1.6/TIMP/R/getXList.R | 10 TIMP-1.6/TIMP/R/init.dat.R | 5 TIMP-1.6/TIMP/R/init.multimodel.R | 10 TIMP-1.6/TIMP/R/init.opt.R | 130 +++++++----- TIMP-1.6/TIMP/R/multiLin.R | 40 ++- TIMP-1.6/TIMP/R/normdat.R | 15 - TIMP-1.6/TIMP/R/outlierCorr.R | 103 +++++++--- TIMP-1.6/TIMP/R/plotClp.R | 2 TIMP-1.6/TIMP/R/plotEst.R | 20 - TIMP-1.6/TIMP/R/plotFLIM.R | 4 TIMP-1.6/TIMP/R/plotFLIMresid.R | 2 TIMP-1.6/TIMP/R/plotKinBreakDown.R | 314 +++++++++++++++---------------- TIMP-1.6/TIMP/R/plotKinSpecEst.R | 42 ++-- TIMP-1.6/TIMP/R/plotMassSpec.R | 90 ++++---- TIMP-1.6/TIMP/R/plotResids.R | 69 ++---- TIMP-1.6/TIMP/R/plotSpectraSuper.R |only TIMP-1.6/TIMP/R/plotTracesResids.R |only TIMP-1.6/TIMP/R/plotTracesSuper.R | 81 +++++-- TIMP-1.6/TIMP/R/plotTri.R | 2 TIMP-1.6/TIMP/R/preProcess.R | 9 TIMP-1.6/TIMP/R/rescomp.R | 97 +++++---- TIMP-1.6/TIMP/R/sample_sel.R | 161 ++++++++------- TIMP-1.6/TIMP/R/set_getClpindepX_mass.R | 5 TIMP-1.6/TIMP/R/set_plotter_kin.R | 226 +++++++++------------- TIMP-1.6/TIMP/R/set_plotter_mass.R | 35 +-- TIMP-1.6/TIMP/R/set_plotter_spec.R | 20 + TIMP-1.6/TIMP/R/set_residPart_amp.R | 47 ++-- TIMP-1.6/TIMP/R/set_residPart_kin.R | 3 TIMP-1.6/TIMP/R/set_residPart_mass.R | 89 ++++---- TIMP-1.6/TIMP/R/set_residPart_spec.R | 99 ++++----- TIMP-1.6/TIMP/R/sumKinSpecEst.R | 2 TIMP-1.6/TIMP/R/summary.R |only TIMP-1.6/TIMP/R/writeAverage.R |only TIMP-1.6/TIMP/R/writeData.R |only TIMP-1.6/TIMP/R/writeEst.R | 4 TIMP-1.6/TIMP/R/zzz.R | 1 TIMP-1.6/TIMP/man/dat-class.Rd | 2 TIMP-1.6/TIMP/man/divergeZimage.Rd |only TIMP-1.6/TIMP/man/efit2file.Rd |only TIMP-1.6/TIMP/man/getResults.Rd | 71 +++---- TIMP-1.6/TIMP/man/internals.Rd | 1 TIMP-1.6/TIMP/man/opt-class.Rd | 77 ++++--- TIMP-1.6/TIMP/man/outlierCorr.Rd | 47 ++-- TIMP-1.6/TIMP/man/preProcess.Rd | 17 + TIMP-1.6/TIMP/man/sumKinSpecEst.Rd | 3 TIMP-1.6/TIMP/man/writeAverage.Rd |only TIMP-1.6/TIMP/src/ntr.c | 1 TIMP-1.6/TIMP/tests/nnls_example.R | 10 TIMP-1.6/TIMP/tests/spectral_script.R | 4 70 files changed, 1453 insertions(+), 1300 deletions(-)
Author: Jonathan M. Lees
Title: Seismic Time Series Analysis Tools
Description: Multiple interactive codes to analyze seismic data, via, spectrum analysis, wavelet transforms, particle motion, hodograms.
Diff between RSEIS versions 1.0-9 dated 2008-04-16 and 1.1-0 dated 2008-04-27
RSEIS-1.0-9/RSEIS/data/GH20060809204448R.RData |only RSEIS-1.0-9/RSEIS/man/GH20060809204448R.Rd |only RSEIS-1.1-0/RSEIS/DESCRIPTION | 4 RSEIS-1.1-0/RSEIS/R/PLOT.MATN.R | 48 ++++++ RSEIS-1.1-0/RSEIS/data/KH.RData |binary RSEIS-1.1-0/RSEIS/inst/doc/hodo.pdf |binary RSEIS-1.1-0/RSEIS/inst/doc/rseis.pdf |binary RSEIS-1.1-0/RSEIS/man/PLOT.MATN.Rd | 14 + RSEIS-1.1-0/RSEIS/man/RSEIS-package.Rd | 187 ++++++++++++++++++++++++- 9 files changed, 242 insertions(+), 11 deletions(-)
Author: Erich Neuwirth
Diff between RExcelInstaller versions 2.0-19 dated 2008-04-22 and 2.0-22 dated 2008-04-27
More information about RExcelInstaller at CRAN
Title: Integration of R and Excel, (use R in Excel, read/write XLS files)
Description: RExcel, an add-in for MS Excel on MS Windows,
allows to transfer data between R and Excel,
writing VBA macros using R as a library for Excel,
and calling R functions as worksheet function in Excel.
RExcel integrates nicely with R Commander (Rcmdr).
This R package installs the Excel add-in for Excel versions
from 2000 to 2007. It only works on MS Windows.
DESCRIPTION | 8 ++++----
inst/bin/RExcelInst20.exe |binary
inst/src/RExcelInst/xlsfiles/xls/RDemoDev.xls |binary
inst/src/RExcelInst/xlsfiles/xls/RDemoGraph.xls |binary
inst/src/RExcelInst/xlsfiles/xls/RDemoMacro.xls |binary
inst/src/RExcelInst/xlsfiles/xls/RDemoRecalc.xls |binary
inst/src/RExcelInst/xlsfiles/xls/RExcel.xla |binary
inst/src/RExcelInst/xlsfiles/xls/RExcel2007.xlam |binary
inst/src/RExcelInst/xlsfiles/xls/RExcelAddinAutoInstall.xls |binary
inst/src/RExcelInst/xlsfiles/xls/RExcelStartup.xls |binary
inst/src/RExcelInst/xlsfiles/xls/RexcelFuns.chm |only
inst/src/RExcelInst/xlsfiles/xls/demodens/RDemoDens.xls |binary
12 files changed, 4 insertions(+), 4 deletions(-)
Permanent link
Author: Christian Buchta and Kurt Hornik
Title: Selected ISO codes
Description: ISO language, territory, currency, script and character codes.
Provides ISO 639 language codes, ISO 3166 territory codes, ISO 4217
currency codes, ISO 15924 script codes, and the ISO 8859 and ISO 10646
character codes as well as the Unicode data table.
Diff between ISOcodes versions 0.1 dated 2008-04-23 and 0.1-1 dated 2008-04-27
DESCRIPTION | 6 +++--- data/ISO_15924.rda |binary data/ISO_3166_2.rda |binary data/ISO_639_2.rda |binary data/ISO_639_3.rda |binary data/ISO_639_3_Retirements.rda |binary data/ISO_8859.rda |binary 7 files changed, 3 insertions(+), 3 deletions(-)
Author: Andrew Parnell
Title: Create chronologies based on radiocarbon and non-radiocarbon dated depths
Description: This package follows the work of Parnell and Haslett (2007; JRSSC). It runs MCMC, predictions and plots for radiocarbon (and non radiocarbon) dated sediment cores.
Diff between Bchron versions 1.2 dated 2008-02-21 and 2.0 dated 2008-04-27
Bchron-1.2/Bchron/R/PlotBchron.R |only Bchron-1.2/Bchron/R/PlotDens.R |only Bchron-1.2/Bchron/R/calibrate.R |only Bchron-1.2/Bchron/R/predictBchron.R |only Bchron-1.2/Bchron/R/predictrandBchron.R |only Bchron-1.2/Bchron/Read-and-delete-me |only Bchron-1.2/Bchron/man/BigCal.Rd |only Bchron-1.2/Bchron/man/GlendaloughEventDepths.Rd |only Bchron-1.2/Bchron/man/PlotBchron.Rd |only Bchron-1.2/Bchron/man/PlotDens.Rd |only Bchron-1.2/Bchron/man/calibrate.Rd |only Bchron-1.2/Bchron/man/predictBchron.Rd |only Bchron-1.2/Bchron/man/predictrandBchron.Rd |only Bchron-1.2/Bchron/src/CPG.c |only Bchron-2.0/Bchron/DESCRIPTION | 10 Bchron-2.0/Bchron/NAMESPACE | 4 Bchron-2.0/Bchron/R/BchronMCMC.R | 123 ++- Bchron-2.0/Bchron/R/Bchroncalibrate.R |only Bchron-2.0/Bchron/R/Bchronchangecalcurve.R |only Bchron-2.0/Bchron/R/Bchroncheck.R |only Bchron-2.0/Bchron/R/Bchronconvergecheck.R |only Bchron-2.0/Bchron/R/Bchronloaddata.R |only Bchron-2.0/Bchron/R/Bchronmenu.R | 743 +++---------------- Bchron-2.0/Bchron/R/Bchronplotdens.R |only Bchron-2.0/Bchron/R/Bchronplotevent.R |only Bchron-2.0/Bchron/R/Bchronplotter.R |only Bchron-2.0/Bchron/R/Bchronpredict.R |only Bchron-2.0/Bchron/R/Bchronpredictevent.R |only Bchron-2.0/Bchron/R/Bchronquickload.R |only Bchron-2.0/Bchron/R/hdr2.den.R | 3 Bchron-2.0/Bchron/R/newgraphwindow.R |only Bchron-2.0/Bchron/data |only Bchron-2.0/Bchron/man/Bchron-package.Rd | 30 Bchron-2.0/Bchron/man/BchronMCMC.Rd | 70 - Bchron-2.0/Bchron/man/Bchroncalibrate.Rd |only Bchron-2.0/Bchron/man/Bchronchangecalcurve.Rd |only Bchron-2.0/Bchron/man/Bchroncheck.Rd |only Bchron-2.0/Bchron/man/Bchronconvergecheck.Rd |only Bchron-2.0/Bchron/man/Bchronloaddata.Rd |only Bchron-2.0/Bchron/man/Bchronmenu.Rd | 69 - Bchron-2.0/Bchron/man/Bchronplotdens.Rd |only Bchron-2.0/Bchron/man/Bchronplotevent.Rd |only Bchron-2.0/Bchron/man/Bchronplotter.Rd |only Bchron-2.0/Bchron/man/Bchronpredict.Rd |only Bchron-2.0/Bchron/man/Bchronpredictevent.Rd |only Bchron-2.0/Bchron/man/Bchronquickload.Rd |only Bchron-2.0/Bchron/man/GlendaloughEventDepthsAlnus.Rd |only Bchron-2.0/Bchron/man/Glendaloughddepths.Rd | 3 Bchron-2.0/Bchron/man/IntCal04.Rd |only Bchron-2.0/Bchron/man/hdr2.den.Rd | 7 Bchron-2.0/Bchron/man/newgraphwindow.Rd |only Bchron-2.0/Bchron/src/CPGv2.c |only Bchron-2.0/Bchron/src/calibrate.c | 27 Bchron-2.0/Bchron/src/predict.c | 3 Bchron-2.0/Bchron/src/predictrand.c | 3 Bchron-2.0/Bchron/src/use.c | 42 - 56 files changed, 366 insertions(+), 771 deletions(-)
Author: Jan Bulla
Diff between hsmm versions 0.3-2 dated 2008-04-14 and 0.3-4 dated 2008-04-25
Title: Hidden Semi Markov Models
Description: A package for computation of hidden semi markov models
DESCRIPTION | 6 +-
src/FBImpl.cpp | 17 +++--
src/InitData.cpp | 160 +++++++++++++++++++++++++++----------------------------
src/Main.h | 1
src/RInterface.h | 5 +
src/error.h | 10 +--
6 files changed, 100 insertions(+), 99 deletions(-)
Author: Josef Leydold and Wolfgang H\"ormann
Title: R interface to the UNU.RAN random variate generators
Description: Interface to the UNU.RAN library for Universal Non-Uniform RANdom variate generators
Diff between Runuran versions 0.6 dated 2007-12-10 and 0.7 dated 2008-04-25
Runuran-0.6/Runuran/src/unuran-src/methods/tdrgw.c |only Runuran-0.6/Runuran/src/unuran-src/methods/tdrgw.h |only Runuran-0.6/Runuran/src/unuran-src/methods/tdrgw_struct.h |only Runuran-0.6/Runuran/src/unuran-src/parser/functparser_codegen_C.ch |only Runuran-0.6/Runuran/src/unuran-src/parser/functparser_codegen_FORTRAN.ch |only Runuran-0.6/Runuran/src/unuran-src/parser/functparser_codegen_JAVA.ch |only Runuran-0.7/Runuran/DESCRIPTION | 8 Runuran-0.7/Runuran/NAMESPACE | 2 Runuran-0.7/Runuran/NEWS | 16 Runuran-0.7/Runuran/R/Runuran.R | 14 Runuran-0.7/Runuran/R/unuran_methods.R | 26 + Runuran-0.7/Runuran/configure | 38 +- Runuran-0.7/Runuran/configure.ac | 16 Runuran-0.7/Runuran/man/Runuran-package.Rd | 4 Runuran-0.7/Runuran/man/unuran.details.Rd |only Runuran-0.7/Runuran/man/uqhinv.Rd |only Runuran-0.7/Runuran/src/Makevars.in | 2 Runuran-0.7/Runuran/src/Runuran.c | 40 ++ Runuran-0.7/Runuran/src/Runuran.h | 20 + Runuran-0.7/Runuran/src/Runuran_special.c |only Runuran-0.7/Runuran/src/config.h.in | 4 Runuran-0.7/Runuran/src/config.w32 | 14 Runuran-0.7/Runuran/src/unuran-src/distr/cemp.c | 2 Runuran-0.7/Runuran/src/unuran-src/distr/cemp.h | 2 Runuran-0.7/Runuran/src/unuran-src/distr/condi.c | 2 Runuran-0.7/Runuran/src/unuran-src/distr/condi.h | 2 Runuran-0.7/Runuran/src/unuran-src/distr/cont.c | 34 +- Runuran-0.7/Runuran/src/unuran-src/distr/cont.h | 2 Runuran-0.7/Runuran/src/unuran-src/distr/corder.c | 2 Runuran-0.7/Runuran/src/unuran-src/distr/corder.h | 2 Runuran-0.7/Runuran/src/unuran-src/distr/cvec.c | 2 Runuran-0.7/Runuran/src/unuran-src/distr/cvec.h | 2 Runuran-0.7/Runuran/src/unuran-src/distr/cvemp.c | 2 Runuran-0.7/Runuran/src/unuran-src/distr/cvemp.h | 2 Runuran-0.7/Runuran/src/unuran-src/distr/cxtrans.c | 2 Runuran-0.7/Runuran/src/unuran-src/distr/cxtrans.h | 2 Runuran-0.7/Runuran/src/unuran-src/distr/deprecated_distr.h | 2 Runuran-0.7/Runuran/src/unuran-src/distr/discr.c | 14 Runuran-0.7/Runuran/src/unuran-src/distr/discr.h | 2 Runuran-0.7/Runuran/src/unuran-src/distr/distr.c | 2 Runuran-0.7/Runuran/src/unuran-src/distr/distr.h | 2 Runuran-0.7/Runuran/src/unuran-src/distr/distr_info.c |only Runuran-0.7/Runuran/src/unuran-src/distr/distr_source.h | 10 Runuran-0.7/Runuran/src/unuran-src/distr/distr_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/distr/matr.c | 2 Runuran-0.7/Runuran/src/unuran-src/distr/matr.h | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_F.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_beta.c | 5 Runuran-0.7/Runuran/src/unuran-src/distributions/c_beta_gen.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_burr.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_burr_gen.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_cauchy.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_cauchy_gen.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_chi.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_chi_gen.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_chisquare.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_exponential.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_exponential_gen.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_extremeI.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_extremeII.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_extremeII_gen.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_extremeI_gen.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_gamma.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_gamma_gen.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_gig.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_gig_gen.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_laplace.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_laplace_gen.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_logistic.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_logistic_gen.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_lognormal.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_lomax.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_lomax_gen.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_normal.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_normal_gen.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_pareto.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_pareto_gen.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_powerexponential.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_powerexponential_gen.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_rayleigh.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_slash.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_slash_gen.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_student.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_student_gen.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_triangular.c | 11 Runuran-0.7/Runuran/src/unuran-src/distributions/c_triangular_gen.c | 11 Runuran-0.7/Runuran/src/unuran-src/distributions/c_uniform.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_uniform_gen.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_weibull.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/c_weibull_gen.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/d_binomial.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/d_binomial_gen.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/d_geometric.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/d_geometric_gen.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/d_hypergeometric.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/d_hypergeometric_gen.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/d_logarithmic.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/d_logarithmic_gen.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/d_negativebinomial.c | 11 Runuran-0.7/Runuran/src/unuran-src/distributions/d_poisson.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/d_poisson_gen.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/d_zipf.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/d_zipf_gen.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/m_correlation.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/unur_distributions.h | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/unur_distributions_source.h | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/unur_stddistr.h | 113 +++--- Runuran-0.7/Runuran/src/unuran-src/distributions/vc_copula.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/vc_multicauchy.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/vc_multiexponential.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/vc_multinormal.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/vc_multinormal_gen.c | 2 Runuran-0.7/Runuran/src/unuran-src/distributions/vc_multistudent.c | 2 Runuran-0.7/Runuran/src/unuran-src/methods/arou.c | 74 ++++ Runuran-0.7/Runuran/src/unuran-src/methods/arou.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/arou_struct.h | 5 Runuran-0.7/Runuran/src/unuran-src/methods/ars.c |only Runuran-0.7/Runuran/src/unuran-src/methods/ars.h |only Runuran-0.7/Runuran/src/unuran-src/methods/ars_struct.h |only Runuran-0.7/Runuran/src/unuran-src/methods/auto.c | 2 Runuran-0.7/Runuran/src/unuran-src/methods/auto.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/auto_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/cext.c | 34 ++ Runuran-0.7/Runuran/src/unuran-src/methods/cext.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/cext_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/cstd.c | 40 ++ Runuran-0.7/Runuran/src/unuran-src/methods/cstd.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/cstd_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/dari.c | 70 ++++ Runuran-0.7/Runuran/src/unuran-src/methods/dari.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/dari_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/dau.c | 36 ++ Runuran-0.7/Runuran/src/unuran-src/methods/dau.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/dau_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/deprecated_methods.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/deprecated_tdrgw.h |only Runuran-0.7/Runuran/src/unuran-src/methods/deprecated_vmt.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/deprecated_vmt_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/dext.c | 34 ++ Runuran-0.7/Runuran/src/unuran-src/methods/dext.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/dext_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/dgt.c | 38 ++ Runuran-0.7/Runuran/src/unuran-src/methods/dgt.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/dgt_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/dsrou.c | 66 +++- Runuran-0.7/Runuran/src/unuran-src/methods/dsrou.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/dsrou_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/dss.c | 41 ++ Runuran-0.7/Runuran/src/unuran-src/methods/dss.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/dss_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/dstd.c | 40 ++ Runuran-0.7/Runuran/src/unuran-src/methods/dstd.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/dstd_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/empk.c | 80 +++- Runuran-0.7/Runuran/src/unuran-src/methods/empk.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/empk_struct.h | 4 Runuran-0.7/Runuran/src/unuran-src/methods/empl.c | 26 + Runuran-0.7/Runuran/src/unuran-src/methods/empl.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/empl_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/gibbs.c | 112 +++++- Runuran-0.7/Runuran/src/unuran-src/methods/gibbs.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/gibbs_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/hinv.c | 105 ++++++ Runuran-0.7/Runuran/src/unuran-src/methods/hinv.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/hinv_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/hist.c | 26 + Runuran-0.7/Runuran/src/unuran-src/methods/hist.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/hist_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/hitro.c | 110 ++++++ Runuran-0.7/Runuran/src/unuran-src/methods/hitro.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/hitro_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/hrb.c | 59 +++ Runuran-0.7/Runuran/src/unuran-src/methods/hrb.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/hrb_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/hrd.c | 39 ++ Runuran-0.7/Runuran/src/unuran-src/methods/hrd.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/hrd_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/hri.c | 73 ++++ Runuran-0.7/Runuran/src/unuran-src/methods/hri.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/hri_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/itdr.c | 53 +++ Runuran-0.7/Runuran/src/unuran-src/methods/itdr.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/itdr_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/mcorr.c | 39 ++ Runuran-0.7/Runuran/src/unuran-src/methods/mcorr.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/mcorr_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/mvstd.c | 38 ++ Runuran-0.7/Runuran/src/unuran-src/methods/mvstd.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/mvstd_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/mvtdr.c | 9 Runuran-0.7/Runuran/src/unuran-src/methods/mvtdr.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/mvtdr_debug.ch | 2 Runuran-0.7/Runuran/src/unuran-src/methods/mvtdr_info.ch |only Runuran-0.7/Runuran/src/unuran-src/methods/mvtdr_init.ch | 5 Runuran-0.7/Runuran/src/unuran-src/methods/mvtdr_newset.ch | 2 Runuran-0.7/Runuran/src/unuran-src/methods/mvtdr_sample.ch | 2 Runuran-0.7/Runuran/src/unuran-src/methods/mvtdr_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/ninv.c | 82 ++++- Runuran-0.7/Runuran/src/unuran-src/methods/ninv.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/ninv_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/norta.c | 32 + Runuran-0.7/Runuran/src/unuran-src/methods/norta.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/norta_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/nrou.c | 81 ++++ Runuran-0.7/Runuran/src/unuran-src/methods/nrou.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/nrou_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/srou.c | 92 +++++ Runuran-0.7/Runuran/src/unuran-src/methods/srou.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/srou_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/ssr.c | 77 ++++ Runuran-0.7/Runuran/src/unuran-src/methods/ssr.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/ssr_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/tabl.c | 6 Runuran-0.7/Runuran/src/unuran-src/methods/tabl.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/tabl_debug.ch | 2 Runuran-0.7/Runuran/src/unuran-src/methods/tabl_info.ch |only Runuran-0.7/Runuran/src/unuran-src/methods/tabl_init.ch | 8 Runuran-0.7/Runuran/src/unuran-src/methods/tabl_newset.ch | 2 Runuran-0.7/Runuran/src/unuran-src/methods/tabl_sample.ch | 2 Runuran-0.7/Runuran/src/unuran-src/methods/tabl_struct.h | 5 Runuran-0.7/Runuran/src/unuran-src/methods/tdr.c | 6 Runuran-0.7/Runuran/src/unuran-src/methods/tdr.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/tdr_debug.ch | 2 Runuran-0.7/Runuran/src/unuran-src/methods/tdr_gw_debug.ch | 2 Runuran-0.7/Runuran/src/unuran-src/methods/tdr_gw_init.ch | 6 Runuran-0.7/Runuran/src/unuran-src/methods/tdr_gw_sample.ch | 2 Runuran-0.7/Runuran/src/unuran-src/methods/tdr_ia_sample.ch | 2 Runuran-0.7/Runuran/src/unuran-src/methods/tdr_info.ch |only Runuran-0.7/Runuran/src/unuran-src/methods/tdr_init.ch | 9 Runuran-0.7/Runuran/src/unuran-src/methods/tdr_newset.ch | 2 Runuran-0.7/Runuran/src/unuran-src/methods/tdr_ps_debug.ch | 2 Runuran-0.7/Runuran/src/unuran-src/methods/tdr_ps_init.ch | 6 Runuran-0.7/Runuran/src/unuran-src/methods/tdr_ps_sample.ch | 2 Runuran-0.7/Runuran/src/unuran-src/methods/tdr_sample.ch | 2 Runuran-0.7/Runuran/src/unuran-src/methods/tdr_struct.h | 5 Runuran-0.7/Runuran/src/unuran-src/methods/unif.c | 21 + Runuran-0.7/Runuran/src/unuran-src/methods/unif.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/unif_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/unur_methods_source.h | 4 Runuran-0.7/Runuran/src/unuran-src/methods/utdr.c | 49 ++- Runuran-0.7/Runuran/src/unuran-src/methods/utdr.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/utdr_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/vempk.c | 38 ++ Runuran-0.7/Runuran/src/unuran-src/methods/vempk.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/vempk_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/vnrou.c | 82 ++++- Runuran-0.7/Runuran/src/unuran-src/methods/vnrou.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/vnrou_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/x_gen.c | 32 + Runuran-0.7/Runuran/src/unuran-src/methods/x_gen.h | 3 Runuran-0.7/Runuran/src/unuran-src/methods/x_gen_source.h | 2 Runuran-0.7/Runuran/src/unuran-src/methods/x_gen_struct.h | 6 Runuran-0.7/Runuran/src/unuran-src/parser/functparser.c | 15 Runuran-0.7/Runuran/src/unuran-src/parser/functparser_debug.ch | 2 Runuran-0.7/Runuran/src/unuran-src/parser/functparser_deriv.ch | 2 Runuran-0.7/Runuran/src/unuran-src/parser/functparser_eval.ch | 42 +- Runuran-0.7/Runuran/src/unuran-src/parser/functparser_init.ch | 2 Runuran-0.7/Runuran/src/unuran-src/parser/functparser_parser.ch | 7 Runuran-0.7/Runuran/src/unuran-src/parser/functparser_scanner.ch | 2 Runuran-0.7/Runuran/src/unuran-src/parser/functparser_source.h | 8 Runuran-0.7/Runuran/src/unuran-src/parser/functparser_stringgen.ch | 2 Runuran-0.7/Runuran/src/unuran-src/parser/functparser_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/parser/functparser_symbols.h | 112 ++++-- Runuran-0.7/Runuran/src/unuran-src/parser/parser.c | 2 Runuran-0.7/Runuran/src/unuran-src/parser/parser.h | 2 Runuran-0.7/Runuran/src/unuran-src/parser/parser_source.h | 2 Runuran-0.7/Runuran/src/unuran-src/parser/stringparser.c | 6 Runuran-0.7/Runuran/src/unuran-src/parser/stringparser_lists.ch | 88 ++--- Runuran-0.7/Runuran/src/unuran-src/specfunct/cephes_source.h | 2 Runuran-0.7/Runuran/src/unuran-src/specfunct/gamma.c | 2 Runuran-0.7/Runuran/src/unuran-src/specfunct/igam.c | 2 Runuran-0.7/Runuran/src/unuran-src/specfunct/incbet.c | 2 Runuran-0.7/Runuran/src/unuran-src/specfunct/log1p.c | 2 Runuran-0.7/Runuran/src/unuran-src/specfunct/ndtr.c | 2 Runuran-0.7/Runuran/src/unuran-src/specfunct/ndtri.c | 2 Runuran-0.7/Runuran/src/unuran-src/specfunct/polevl.c | 2 Runuran-0.7/Runuran/src/unuran-src/specfunct/unur_specfunct_source.h | 2 Runuran-0.7/Runuran/src/unuran-src/tests |only Runuran-0.7/Runuran/src/unuran-src/uniform/unuran_urng_gsl.h | 13 Runuran-0.7/Runuran/src/unuran-src/uniform/unuran_urng_prng.h | 13 Runuran-0.7/Runuran/src/unuran-src/uniform/unuran_urng_rngstreams.h | 13 Runuran-0.7/Runuran/src/unuran-src/uniform/urng_builtin.h | 2 Runuran-0.7/Runuran/src/unuran-src/uniform/urng_fvoid.h | 2 Runuran-0.7/Runuran/src/unuran-src/uniform/urng_gsl.h | 2 Runuran-0.7/Runuran/src/unuran-src/uniform/urng_gslqrng.h | 2 Runuran-0.7/Runuran/src/unuran-src/uniform/urng_prng.h | 2 Runuran-0.7/Runuran/src/unuran-src/uniform/urng_randomshift.h | 2 Runuran-0.7/Runuran/src/unuran-src/uniform/urng_rngstreams.h | 2 Runuran-0.7/Runuran/src/unuran-src/unur_cookies.h | 8 Runuran-0.7/Runuran/src/unuran-src/unur_source.h | 2 Runuran-0.7/Runuran/src/unuran-src/unur_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/unur_typedefs.h | 2 Runuran-0.7/Runuran/src/unuran-src/unuran.h | 163 +++++----- Runuran-0.7/Runuran/src/unuran-src/unuran.h.in | 3 Runuran-0.7/Runuran/src/unuran-src/urng/urng.c | 2 Runuran-0.7/Runuran/src/unuran-src/urng/urng.h | 2 Runuran-0.7/Runuran/src/unuran-src/urng/urng_default.c | 2 Runuran-0.7/Runuran/src/unuran-src/urng/urng_set.c | 2 Runuran-0.7/Runuran/src/unuran-src/urng/urng_source.h | 2 Runuran-0.7/Runuran/src/unuran-src/urng/urng_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/urng/urng_unuran.c | 2 Runuran-0.7/Runuran/src/unuran-src/utils/debug.c | 2 Runuran-0.7/Runuran/src/unuran-src/utils/debug.h | 2 Runuran-0.7/Runuran/src/unuran-src/utils/debug_source.h | 2 Runuran-0.7/Runuran/src/unuran-src/utils/eigensystem.c | 2 Runuran-0.7/Runuran/src/unuran-src/utils/error.c | 2 Runuran-0.7/Runuran/src/unuran-src/utils/error.h | 2 Runuran-0.7/Runuran/src/unuran-src/utils/error_source.h | 2 Runuran-0.7/Runuran/src/unuran-src/utils/fmax.c | 2 Runuran-0.7/Runuran/src/unuran-src/utils/fmax_source.h | 2 Runuran-0.7/Runuran/src/unuran-src/utils/hooke.c | 2 Runuran-0.7/Runuran/src/unuran-src/utils/hooke_source.h | 2 Runuran-0.7/Runuran/src/unuran-src/utils/matrix.c | 2 Runuran-0.7/Runuran/src/unuran-src/utils/matrix_source.h | 2 Runuran-0.7/Runuran/src/unuran-src/utils/mrou_rectangle.c | 2 Runuran-0.7/Runuran/src/unuran-src/utils/mrou_rectangle_source.h | 2 Runuran-0.7/Runuran/src/unuran-src/utils/mrou_rectangle_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/utils/slist.c | 2 Runuran-0.7/Runuran/src/unuran-src/utils/slist.h | 2 Runuran-0.7/Runuran/src/unuran-src/utils/slist_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/utils/stream.c | 7 Runuran-0.7/Runuran/src/unuran-src/utils/stream.h | 2 Runuran-0.7/Runuran/src/unuran-src/utils/stream_source.h | 2 Runuran-0.7/Runuran/src/unuran-src/utils/string.c | 2 Runuran-0.7/Runuran/src/unuran-src/utils/string_source.h | 2 Runuran-0.7/Runuran/src/unuran-src/utils/string_struct.h | 2 Runuran-0.7/Runuran/src/unuran-src/utils/umalloc.c | 2 Runuran-0.7/Runuran/src/unuran-src/utils/umalloc_source.h | 2 Runuran-0.7/Runuran/src/unuran-src/utils/umath.c | 2 Runuran-0.7/Runuran/src/unuran-src/utils/umath.h | 2 Runuran-0.7/Runuran/src/unuran-src/utils/umath_source.h | 2 Runuran-0.7/Runuran/src/unuran-src/utils/unur_errno.h | 2 Runuran-0.7/Runuran/src/unuran-src/utils/unur_fp.c | 2 Runuran-0.7/Runuran/src/unuran-src/utils/unur_fp_const_source.h | 2 Runuran-0.7/Runuran/src/unuran-src/utils/unur_fp_source.h | 2 Runuran-0.7/Runuran/src/unuran-src/utils/unur_math_source.h | 2 Runuran-0.7/Runuran/src/unuran-src/utils/vector.c | 2 Runuran-0.7/Runuran/src/unuran-src/utils/vector_source.h | 2 Runuran-0.7/Runuran/tests/test_special.R |only Runuran-0.7/Runuran/tests/test_unuran.R | 19 + 340 files changed, 2651 insertions(+), 661 deletions(-)
Author: Matthias Heymann
Diff between sound versions 1.1 dated 2007-04-24 and 1.2 dated 2008-04-25
Title: A Sound Interface for R
Description: Basic functions for dealing with wav files and sound samples.
DESCRIPTION | 6 +++---
R/sound.R | 48 +++++++++++++++++++++++++++++++-----------------
man/bits.Rd | 8 +++++---
man/rate.Rd | 4 ++--
4 files changed, 41 insertions(+), 25 deletions(-)
Author: Sřren Hřjsgaard
Diff between gRc versions 0.1.4 dated 2008-03-12 and 0.2.0 dated 2008-04-25
Title: Inference in Graphical Gaussian Models with Edge and Vertex Symmetries
Description: Estimation, model selection and other aspects of statistical inference in Graphical Gaussian models with edge and vertex symmetries (Graphical Gaussian models with colours)
gRc-0.1.4/gRc/R/sets-Generel-SetOp.R |only
gRc-0.1.4/gRc/src/eim.c |only
gRc-0.1.4/gRc/src/trawb.c |only
gRc-0.2.0/gRc/ChangeLog | 10 +
gRc-0.2.0/gRc/DESCRIPTION | 4
gRc-0.2.0/gRc/R/RCON-IPM5.R |only
gRc-0.2.0/gRc/R/cleverTraceMat.R | 192 +------------------
gRc-0.2.0/gRc/R/fitMain.R | 97 ++++-----
gRc-0.2.0/gRc/R/getScoreAndInformation4.R | 132 +++++++++----
gRc-0.2.0/gRc/R/rcon-IPM4.R | 293 ++++++++++++++++++++++--------
gRc-0.2.0/gRc/R/rcor-IPM4.R | 187 +++++++++++++++----
gRc-0.2.0/gRc/R/rcox-ScoreMatching4.R | 243 +++++++++++++-----------
gRc-0.2.0/gRc/R/rcox-Scoring.R | 48 +---
gRc-0.2.0/gRc/R/rcox4.R | 49 ++---
gRc-0.2.0/gRc/R/repairK.R | 102 ----------
gRc-0.2.0/gRc/R/sets-SetOp-Lists.R | 57 +++--
gRc-0.2.0/gRc/R/summary-vcov.R | 23 --
gRc-0.2.0/gRc/R/switchThetaK4.R | 59 ------
gRc-0.2.0/gRc/R/update4.R | 6
gRc-0.2.0/gRc/Wishlist.txt |only
gRc-0.2.0/gRc/man/fit.Rd | 3
gRc-0.2.0/gRc/man/fitInternal.Rd | 1
gRc-0.2.0/gRc/man/rcox.Rd | 4
gRc-0.2.0/gRc/src/Makevars |only
gRc-0.2.0/gRc/src/clevertrace.c |only
gRc-0.2.0/gRc/src/clevertrace.h |only
gRc-0.2.0/gRc/src/rconipm.c |only
gRc-0.2.0/gRc/src/shd_print.c |only
gRc-0.2.0/gRc/src/shd_print.h |only
gRc-0.2.0/gRc/src/shd_utils.c |only
gRc-0.2.0/gRc/src/shd_utils.h |only
31 files changed, 758 insertions(+), 752 deletions(-)
Author: Virasakdi Chongsuvivatwong
Diff between epicalc versions 2.6.2.11 dated 2008-04-20 and 2.7.0.0 dated 2008-04-25
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.
epicalc-2.6.2.11/epicalc/man/aggregatePlot.rd |only
epicalc-2.7.0.0/epicalc/DESCRIPTION | 8
epicalc-2.7.0.0/epicalc/R/epicalc.R | 614 +++++++++++++++--------
epicalc-2.7.0.0/epicalc/man/aggregate.numeric.rd | 2
epicalc-2.7.0.0/epicalc/man/aggregate.plot.rd |only
epicalc-2.7.0.0/epicalc/man/pyramid.rd | 25
6 files changed, 437 insertions(+), 212 deletions(-)
Author: Garrett M. Dancik
Title: Maximum Likelihood Estimates of Gaussian Processes
Description: Maximum likelihood Gaussian process modeling for univariate and multi-dimensional outputs with diagnostic plots and sensitivity analysis.
Diff between mlegp versions 2.2.3 dated 2008-02-28 and 2.2.4 dated 2008-04-24
CHANGES | 4 +++- DESCRIPTION | 6 +++--- R/loadCLibAndAdapt.R | 2 +- src/Makevars | 2 +- src/Makevars.win | 2 +- 5 files changed, 9 insertions(+), 7 deletions(-)
Author: Ole F. Christensen
Diff between geoRglm versions 0.8-22 dated 2007-12-17 and 0.8-23 dated 2008-04-24
Title: geoRglm - a package for generalised linear spatial models
Description: Functions for inference in generalised linear spatial models. The posterior and predictive inference is based on Markov chain Monte Carlo methods. Package geoRglm is an extension to the package geoR, which must be installed first.
DESCRIPTION | 6
R/bayes.R | 6
R/binom.bayes.R | 3
R/extensions.R | 1584 +++++++++++++++++++++++-----------------------
R/pois.bayes.R | 8
inst/doc/geoRglmintro.pdf |binary
6 files changed, 802 insertions(+), 805 deletions(-)
Author: Peter Dalgaard
Title: Introductory Statistics with R
Description: Data sets and scripts for text examples and exercises in
P. Dalgaard (2002), `Introductory Statistics with R', Springer Verlag.
Diff between ISwR versions 2.0-0 dated 2008-04-24 and 2.0-1 dated 2008-04-24
DESCRIPTION | 6 +++--- man/eba1977.Rd | 2 +- 2 files changed, 4 insertions(+), 4 deletions(-)
Author: David Rossell
Diff between mombf versions 0.0.1 dated 2008-04-14 and 1.0.0 dated 2008-04-24
Title: Moment and Inverse Moment Bayes factors
Description: This package computes Moment and Inverse Moment Bayes factors for linear models, and approximate Bayes factors for GLM and situations having a statistic which is asymptotically normally distributed and sufficient. Routines to evaluate prior densities, distribution functions, quantiles and modes are included.
mombf-0.0.1/mombf/R/g2mode.univ.r |only
mombf-0.0.1/mombf/R/mode2g.univ.r |only
mombf-0.0.1/mombf/inst/doc/mombf_manual.Rnw |only
mombf-0.0.1/mombf/inst/doc/mombf_manual.pdf |only
mombf-0.0.1/mombf/inst/doc/mombf_manual.rel |only
mombf-1.0.0/mombf/ChangeLog |only
mombf-1.0.0/mombf/DESCRIPTION | 8 +--
mombf-1.0.0/mombf/INDEX | 25 ++---------
mombf-1.0.0/mombf/NAMESPACE | 12 ++++-
mombf-1.0.0/mombf/R/dimom.r | 12 +----
mombf-1.0.0/mombf/R/dmom.r | 8 ---
mombf-1.0.0/mombf/R/g2mode.r | 7 ---
mombf-1.0.0/mombf/R/imombf.lm.r | 14 ------
mombf-1.0.0/mombf/R/imombf.r | 2
mombf-1.0.0/mombf/R/imomknown.r | 25 ++++++-----
mombf-1.0.0/mombf/R/imomunknown.r | 40 +++++++++++-------
mombf-1.0.0/mombf/R/mode2g.r | 9 +---
mombf-1.0.0/mombf/R/mombf.lm.r | 10 ----
mombf-1.0.0/mombf/R/momknown.r | 8 ---
mombf-1.0.0/mombf/R/momunknown.r | 8 ---
mombf-1.0.0/mombf/R/pimom.r |only
mombf-1.0.0/mombf/R/pmom.r |only
mombf-1.0.0/mombf/R/priorp2g.r |only
mombf-1.0.0/mombf/R/qimom.r |only
mombf-1.0.0/mombf/R/qmom.r |only
mombf-1.0.0/mombf/R/zbfknown.r | 11 -----
mombf-1.0.0/mombf/R/zbfunknown.r | 9 ----
mombf-1.0.0/mombf/R/zellnerbf.lm.r | 7 ---
mombf-1.0.0/mombf/inst/doc/makefile | 28 ++++++-------
mombf-1.0.0/mombf/inst/doc/mombf.Rnw |only
mombf-1.0.0/mombf/inst/doc/mombf.pdf |only
mombf-1.0.0/mombf/inst/doc/references.bib | 9 ++++
mombf-1.0.0/mombf/man/dmom.Rd | 33 +++++++++++----
mombf-1.0.0/mombf/man/mode2g.Rd | 59 ++++++++++++++++------------
mombf-1.0.0/mombf/man/mombf.Rd | 31 +++++++++++---
mombf-1.0.0/mombf/man/momknown.Rd | 32 +++++++++++----
36 files changed, 206 insertions(+), 201 deletions(-)
Author: Tarn Duong
Diff between feature versions 1.1-12 dated 2007-11-21 and 1.1-13 dated 2008-04-24
Title: Feature significance for multivariate kernel density estimation
Description: Feature significance for multivariate kernel density estimation
DESCRIPTION | 9
R/SignifFeatureRegion.R | 2
R/featureSignif.R | 26
R/plot.fs.R | 4
R/zzz.R |only
inst/doc/Rplots.ps |30999 +++++++++++++++++++++++-------------------------
inst/doc/feature.log | 97
inst/doc/feature.pdf |binary
inst/doc/feature.tex | 5
man/feature-package.Rd | 3
man/featureSignif.Rd | 16
11 files changed, 15485 insertions(+), 15676 deletions(-)
Author: Jari Oksanen, Roeland Kindt, Pierre Legendre, Bob O'Hara, Gavin L. Simpson,
M. Henry H. Stevens
Title: Community Ecology Package
Description: Ordination methods, diversity analysis and other
functions for community and vegetation ecologists.
Diff between vegan versions 1.11-3 dated 2008-04-10 and 1.11-4 dated 2008-04-24
DESCRIPTION | 6 ++-- R/adonis.R | 31 +++++++++++++--------- inst/ChangeLog | 8 +++++ inst/NEWS | 9 ++++++ inst/doc/decision-vegan.pdf |binary inst/doc/decision-vegan.tex | 16 +++++------ inst/doc/diversity-vegan.pdf |binary inst/doc/diversity-vegan.tex | 58 +++++++++++++++++++++---------------------- inst/doc/intro-vegan.pdf |binary inst/doc/intro-vegan.tex | 49 ++++++++++++++++++------------------ 10 files changed, 99 insertions(+), 78 deletions(-)
Author: Adrian Baddeley
Diff between spatstat versions 1.13-0 dated 2008-04-14 and 1.13-1 dated 2008-04-24
Title: Spatial Point Pattern analysis, model-fitting, simulation, tests
Description: A package for analysing spatial data,
mainly Spatial Point Patterns, including multitype/marked points
and spatial covariates, in any two-dimensional spatial region.
Contains functions for plotting spatial data,
exploratory data analysis, model-fitting, simulation,
spatial sampling, model diagnostics,
and formal inference. Data types include point patterns,
line segment patterns, spatial windows, and
pixel images. Point process models can be
fitted to point pattern data. Cluster type models are fitted
by the method of minimum contrast. Very general Gibbs point
process models can be fitted to point pattern data
using a function ppm similar to lm or glm. Models may
include dependence on covariates, interpoint interaction
and dependence on marks. Fitted models can be simulated automatically.
Also provides facilities for formal inference (such as chi-squared
tests) and model diagnostics (including simulation
envelopes, residuals, residual plots and Q-Q plots).
spatstat-1.13-0/spatstat/.Rbuildindex.7213 |only
spatstat-1.13-0/spatstat/.Rbuildindex.9741 |only
spatstat-1.13-1/spatstat/DESCRIPTION | 16 -
spatstat-1.13-1/spatstat/INDEX | 2
spatstat-1.13-1/spatstat/R/clarkevans.R | 32 ++
spatstat-1.13-1/spatstat/R/clip.psp.R | 10
spatstat-1.13-1/spatstat/R/fv.R | 29 ++
spatstat-1.13-1/spatstat/R/mpl.R | 14 -
spatstat-1.13-1/spatstat/R/ppmclass.R | 23 +-
spatstat-1.13-1/spatstat/R/rmh.default.R | 7
spatstat-1.13-1/spatstat/R/superimpose.R | 12 -
spatstat-1.13-1/spatstat/R/vcov.ppm.R | 40 +--
spatstat-1.13-1/spatstat/inst/ratfor/methas.template | 26 +-
spatstat-1.13-1/spatstat/inst/ratfor/mh1.r | 27 +-
spatstat-1.13-1/spatstat/inst/ratfor/mh10.r | 27 +-
spatstat-1.13-1/spatstat/inst/ratfor/mh2.r | 27 +-
spatstat-1.13-1/spatstat/inst/ratfor/mh3.r | 27 +-
spatstat-1.13-1/spatstat/inst/ratfor/mh4.r | 25 +-
spatstat-1.13-1/spatstat/inst/ratfor/mh5.r | 25 +-
spatstat-1.13-1/spatstat/inst/ratfor/mh6.r | 27 +-
spatstat-1.13-1/spatstat/inst/ratfor/mh7.r | 27 +-
spatstat-1.13-1/spatstat/inst/ratfor/mh8.r | 27 +-
spatstat-1.13-1/spatstat/inst/ratfor/mh9.r | 27 +-
spatstat-1.13-1/spatstat/man/00spatstat.Rd | 61 ++++-
spatstat-1.13-1/spatstat/man/Jest.Rd | 2
spatstat-1.13-1/spatstat/man/clarkevans.Rd | 23 +-
spatstat-1.13-1/spatstat/man/internal.Rd | 2
spatstat-1.13-1/spatstat/man/model.matrix.ppm.Rd | 18 +
spatstat-1.13-1/spatstat/man/stieltjes.Rd |only
spatstat-1.13-1/spatstat/src/PerfectStrauss.cc | 205 ++++++++++++-------
spatstat-1.13-1/spatstat/src/mh1.f | 14 -
spatstat-1.13-1/spatstat/src/mh10.f | 14 -
spatstat-1.13-1/spatstat/src/mh2.f | 14 -
spatstat-1.13-1/spatstat/src/mh3.f | 14 -
spatstat-1.13-1/spatstat/src/mh4.f | 14 -
spatstat-1.13-1/spatstat/src/mh5.f | 14 -
spatstat-1.13-1/spatstat/src/mh6.f | 14 -
spatstat-1.13-1/spatstat/src/mh7.f | 14 -
spatstat-1.13-1/spatstat/src/mh8.f | 14 -
spatstat-1.13-1/spatstat/src/mh9.f | 14 -
spatstat-1.13-1/spatstat/tests/NAinCov.R |only
spatstat-1.13-1/spatstat/tests/segments.R |only
42 files changed, 600 insertions(+), 328 deletions(-)
Author: Brian S. Yandell
Diff between qtlbim versions 1.7.6 dated 2008-04-14 and 1.7.7 dated 2008-04-24
Title: QTL Bayesian Interval Mapping
Description: Functions for model selection for genetic architecture.
qtlbim-1.7.6/qtlbim/tests |only
qtlbim-1.7.7/qtlbim/DESCRIPTION | 6
qtlbim-1.7.7/qtlbim/R/close.R | 38
qtlbim-1.7.7/qtlbim/R/condloci.R | 4
qtlbim-1.7.7/qtlbim/R/findloci.R | 8
qtlbim-1.7.7/qtlbim/R/io.R | 53
qtlbim-1.7.7/qtlbim/inst/doc/bayesian.genome.scan.tutorial.pdf |binary
qtlbim-1.7.7/qtlbim/inst/doc/bpPDF/slide-1-15.pdf | 138
qtlbim-1.7.7/qtlbim/inst/doc/bpPDF/slide-1-4.pdf | 130
qtlbim-1.7.7/qtlbim/inst/doc/bpPDF/slide-1-6.pdf | 154
qtlbim-1.7.7/qtlbim/inst/doc/bpPDF/slide-15-4.pdf | 130
qtlbim-1.7.7/qtlbim/inst/doc/bpPDF/slide-15-6.pdf | 146
qtlbim-1.7.7/qtlbim/inst/doc/bpPDF/slide-4-6.pdf | 130
qtlbim-1.7.7/qtlbim/inst/doc/bpPDF/slide1hpd.pdf | 6
qtlbim-1.7.7/qtlbim/inst/doc/bpPDF/slide2LOD-1.pdf | 6
qtlbim-1.7.7/qtlbim/inst/doc/model.selection.pdf |binary
qtlbim-1.7.7/qtlbim/inst/doc/prototype.qtl.hyper.slides.pdf | 3112
qtlbim-1.7.7/qtlbim/inst/doc/qtlbim.overview.pdf |binary
qtlbim-1.7.7/qtlbim/inst/doc/qtlbimPDF/FIG-QBBF.pdf | 1373
qtlbim-1.7.7/qtlbim/inst/doc/qtlbimPDF/FIG-QBCODA.pdf |31339 ++++------
qtlbim-1.7.7/qtlbim/inst/doc/qtlbimPDF/FIG-QBDIAG.pdf | 7860 +-
qtlbim-1.7.7/qtlbim/inst/doc/qtlbimPDF/FIG-QBEPI.pdf | 6380 +-
qtlbim-1.7.7/qtlbim/inst/doc/qtlbimPDF/FIG-QBHPD.pdf | 2092
qtlbim-1.7.7/qtlbim/inst/doc/qtlbimPDF/FIG-QBLOCI34.pdf | 7670 +-
qtlbim-1.7.7/qtlbim/inst/doc/scanPDF/FIG-Scanone-HyperPost.pdf | 6
qtlbim-1.7.7/qtlbim/inst/doc/scanPDF/FIG-Scanone-HyperSubset.pdf | 6
qtlbim-1.7.7/qtlbim/inst/doc/scanPDF/FIG-Scanone-SimMainLog10.pdf | 6
qtlbim-1.7.7/qtlbim/inst/doc/scanPDF/FIG-Scantwo-HyperData.pdf | 6
qtlbim-1.7.7/qtlbim/inst/doc/scanPDF/FIG-Scantwo-SimEpi.pdf | 6
qtlbim-1.7.7/qtlbim/inst/doc/scanPDF/FIG-Scantwo-SimMain.pdf | 6
qtlbim-1.7.7/qtlbim/inst/doc/selectPDF/besthc.pdf | 6
qtlbim-1.7.7/qtlbim/inst/doc/selectPDF/bestmds.pdf | 6
qtlbim-1.7.7/qtlbim/inst/doc/selectPDF/closenqtl.pdf | 6
qtlbim-1.7.7/qtlbim/inst/doc/selectPDF/closepat.pdf | 6
qtlbim-1.7.7/qtlbim/inst/doc/selectPDF/mult.pdf |28878 ++++-----
qtlbim-1.7.7/qtlbim/inst/doc/selectPDF/multmerge.pdf |15176 ++--
qtlbim-1.7.7/qtlbim/inst/doc/selectPDF/one.pdf | 6
37 files changed, 53003 insertions(+), 51892 deletions(-)
Author: Alberto Viglione
Title: Non-supervised Regional Frequency Analysis
Description: A collection of statistical tools for objective (non-supervised) applications
of the Regional Frequency Analysis methods in hydrology.
Diff between nsRFA versions 0.5-0 dated 2008-02-29 and 0.5-2 dated 2008-04-24
nsRFA-0.5-0/nsRFA/inst/doc/Fig1ElamirSeheult-017.eps |only nsRFA-0.5-0/nsRFA/inst/doc/Fig1ElamirSeheult-017.pdf |only nsRFA-0.5-0/nsRFA/inst/doc/Fig1ElamirSeheult.aux |only nsRFA-0.5-0/nsRFA/inst/doc/Fig1ElamirSeheult.log |only nsRFA-0.5-0/nsRFA/inst/doc/Fig1ElamirSeheult.tex |only nsRFA-0.5-0/nsRFA/inst/doc/Rplots.ps |only nsRFA-0.5-2/nsRFA/DESCRIPTION | 6 ++--- nsRFA-0.5-2/nsRFA/inst/doc/Fig1ElamirSeheult.Rnw | 20 +++++++++++++------ nsRFA-0.5-2/nsRFA/inst/doc/Fig1ElamirSeheult.pdf |binary nsRFA-0.5-2/nsRFA/man/MLlaio2004.Rd | 3 -- nsRFA-0.5-2/nsRFA/man/nsRFA-package.Rd |only 11 files changed, 18 insertions(+), 11 deletions(-)
Author: Stephen Milborrow
Title: Just-in-time compiler
Description:
Enable just-in-time (JIT) compilation.
The functions in this package are useful only under Ra and have no effect under R.
See \url{http://www.milbo.users.sonic.net/ra/index.html}.
This version of the jit package is for Ra 1.0.7 and higher.
Diff between jit versions 0.0-4 dated 2008-04-03 and 0.0-6 dated 2008-04-24
DESCRIPTION | 6 +++--- NEWS | 4 ++++ R/jit.R | 29 +++++++++++++++-------------- man/jit.Rd | 15 ++++++++++----- 4 files changed, 32 insertions(+), 22 deletions(-)
Author: John Verzani
Title: Toolkit implementation of gWidgets for tcltk pacakge
Description: Port of gWidgets API to the tcltk package. Requires TK 8.5 or greater for the tile (ttk)widgets http://www.tcl.tk/software/tcltk/8.5.tml
Diff between gWidgetstcltk versions 0.0-7 dated 2008-01-23 and 0.0-8 dated 2008-04-24
DESCRIPTION | 9 NAMESPACE | 36 +- NEWS |only R/aaaGenerics.R | 260 +++++++++++++------ R/aaaHandlers.R | 4 R/common.R | 60 ++-- R/dnd.R | 3 R/gbutton.R | 17 - R/gcheckbox.R | 13 R/gcheckboxgroup.R | 12 R/gdialogs.R | 41 ++- R/gdroplist.R | 211 +++++---------- R/gedit.R | 15 - R/gexpandgroup.R | 17 + R/gfile.R | 25 + R/gframe.R | 15 - R/ggraphics.R | 2 R/ggroup.R | 12 R/gimage.R | 32 +- R/glabel.R | 9 R/glayout.R | 14 - R/gmenu.R | 25 + R/gnotebook.R | 323 ++++++++---------------- R/gpanedgroup.R | 65 +++- R/gradio.R | 16 - R/gseparator.R | 41 +-- R/gslider.R | 6 R/gspinbutton.R | 4 R/gstatusbar.R | 46 ++- R/gtable.R | 509 ++++++++++++++++++++++++-------------- R/gtext.R | 41 ++- R/gtoolbar.R | 65 +++- R/gtree.R | 395 +++++++++++++++++++++++++++++ R/gvarbrowser.R | 338 ++++++++++++------------- R/gwindow.R | 113 +++++++- R/tcltkFuns.R | 20 + man/gWidgetstcltk-package.Rd | 91 ++---- man/gWidgetstcltk-undocumented.Rd | 18 + 38 files changed, 1855 insertions(+), 1068 deletions(-)
Author: John Verzani
Title: Toolkit implementation of gWidgets for rJava
Description: Port of gWidgets API to the rJava interface between R and Java.
Diff between gWidgetsrJava versions 0.0-9 dated 2007-11-07 and 0.0-10 dated 2008-04-24
DESCRIPTION | 8 - NAMESPACE | 29 +++--- R/aaaGenerics.R | 182 ++++++++++++++++++++++++++------------ R/gbutton.R | 7 - R/gcalendar.R | 2 R/gcheckbox.R | 2 R/gcheckboxgroup.R | 3 R/gcommandline.R | 1 R/gdf.R | 4 R/gdfnotebook.R | 2 R/gdialogs.R | 15 ++- R/gdroplist.R | 3 R/gedit.R | 4 R/gexpandgroup.R | 2 R/gfile.R | 3 R/gframe.R | 3 R/ggraphics.R | 2 R/ggraphicsnotebook.R | 2 R/ggroup.R | 8 + R/ghelp.R | 2 R/gimage.R | 8 - R/glabel.R | 2 R/glayout.R | 3 R/gmenu.R | 2 R/gnotebook.R | 2 R/gpanedgroup.R | 57 +++++++++++ R/gradio.R | 3 R/gseparator.R | 3 R/gslider.R | 2 R/gspinbutton.R | 2 R/gstatusbar.R | 3 R/gtable.R | 2 R/gtext.R | 3 R/gtoolbar.R | 3 R/gvarbrowser.R | 2 R/gvariables.R | 23 ++-- R/gwindow.R | 10 +- man/gWidgetsrJava-undocumented.Rd | 7 + 38 files changed, 299 insertions(+), 122 deletions(-)
Author: Michael Lawrence, John Verzani
Title: Toolkit implementation of gWidgets for RGtk2
Description: Port of gWidgets API to RGtk2
Diff between gWidgetsRGtk2 versions 0.0-29 dated 2008-01-24 and 0.0-30 dated 2008-04-24
ChangeLog | 81 ++++++++++++ DESCRIPTION | 9 - NAMESPACE | 100 ++++++++++++--- NEWS |only R/aaaGenerics.R | 251 ++++++++++++++++++++++++++++++++++---- R/dnd.R | 27 ++-- R/gbutton.R | 20 ++- R/gcalendar.R | 4 R/gcheckbox.R | 10 + R/gcommandline.R | 8 - R/gdfnotebook.R | 2 R/gdialogs.R | 62 ++++++++- R/gdroplist.R | 60 +++++++-- R/gedit.R | 68 +++++++--- R/gexpandgroup.R | 57 +++++++- R/gframe.R | 77 +++++++++-- R/ggraphics.R | 13 + R/ggraphicsnotebook.R | 2 R/ggrid.R | 13 + R/ggroup.R | 64 +++++++++ R/ghelp.R | 2 R/gimage.R | 48 ++++--- R/glabel.R | 47 +++++-- R/glayout.R | 181 ++++++++++++--------------- R/gnotebook.R | 11 + R/gpanedgroup.R | 74 ++++++++--- R/gradio.R | 187 ++++++++++++++++------------ R/gseparator.R | 9 - R/gslider.R | 9 + R/gspinbutton.R | 10 + R/gstatusbar.R | 9 + R/gtext.R | 198 ++++++++++++++++++----------- R/gtkStuff.R | 9 - R/gtoolbar.R | 4 R/gvarbrowser.R | 4 R/gwindow.R | 100 +++++++++++---- inst/examples |only man/as.gWidgetsRGtk2.Rd |only man/gWidgetsRGtk2-undocumented.Rd | 97 ++++++++++++++ 39 files changed, 1459 insertions(+), 468 deletions(-)
Author: John Verzani. Based on the iwidgets code of Simon Urbanek and suggestions by Simon Urbanek, Philippe Grosjean and Michael Lawrence
Title: gWidgets API for building toolkit-independent, interactive GUIs
Description: gWidgets provides a toolkit-independent API for building interactive GUIs. Atleast one of the gWidgetsXXX packages, such as gWidgetstcltk, needs to be installed. Some icons are on loan from the scigraphica project http://scigraphica.sourceforge.net.
Diff between gWidgets versions 0.0-26 dated 2008-01-23 and 0.0-27 dated 2008-04-24
ChangeLog | 33 + DESCRIPTION | 5 NAMESPACE | 21 R/aaaGenerics.R | 149 +++++- R/common.R | 5 R/gvariables.R | 2 R/icons.R | 16 TODO.txt | 10 inst/doc/addingToolkit.log | 4 inst/doc/addingToolkit.pdf |binary inst/doc/gWidgets.Rnw | 6 inst/doc/gWidgets.log | 28 - inst/doc/gWidgets.pdf | 973 +++++++++++++++++++++---------------------- inst/images/README | 9 inst/images/character.gif |only inst/images/curve.gif |binary inst/images/dataframe.gif |binary inst/images/date.gif |only inst/images/directory.gif |only inst/images/dismiss.gif |only inst/images/factor.gif |binary inst/images/file.gif |only inst/images/graph.gif |binary inst/images/logical.gif |binary inst/images/matrix.gif |binary inst/images/numeric.gif |binary inst/images/plot1.gif |binary inst/images/subset.gif |binary man/gWidgets-dialogs.Rd | 14 man/gWidgets-handlers.Rd | 40 + man/gWidgets-icons.Rd | 11 man/gWidgets-methods.Rd | 49 +- man/gWidgets-undocumented.Rd | 1 man/gcheckbox.Rd | 2 man/gdf.Rd | 4 man/gedit.Rd | 17 man/gfile.Rd | 6 man/ggenericwidget.Rd | 4 man/ggraphics.Rd | 5 man/ggroup.Rd | 91 ++-- man/ghelp.Rd | 4 man/ghtml.Rd | 2 man/glabel.Rd | 14 man/glayout.Rd | 52 +- man/gmenu.Rd | 41 - man/gnotebook.Rd | 19 man/gpanedgroup.Rd | 33 + man/gradio.Rd | 42 + man/gseparator.Rd | 9 man/gslider.Rd | 25 - man/gstatusbar.Rd | 21 man/gtable.Rd | 60 ++ man/gtree.Rd | 28 - man/guiWidget-class.Rd | 2 man/gwindow.Rd | 58 +- 55 files changed, 1153 insertions(+), 762 deletions(-)
Author: P. Filzmoser and K. Varmuza
Title: Multivariate Statistical Analysis in Chemometrics
Description: This package is the R companion to the book "Introduction to Multivariate Statistical Analysis in Chemometrics" written by K. Varmuza and P. Filzmoser, CRC Press
Diff between chemometrics versions 0.1 dated 2008-04-09 and 0.2 dated 2008-04-24
DESCRIPTION | 22 +++++++++++----------- R/clvalidity.R |only R/knnEval.R |only R/lassoCV.R |only R/lassocoef.R |only R/lmCV.R |only R/mvr_dcv.R |only R/nnetEval.R |only R/plotRidge.R |only R/plotSEPmvr.R |only R/plotcompmvr.R |only R/plotpredmvr.R |only R/plotprm.R |only R/plotresmvr.R |only R/plotsom.R |only R/pls1_nipals.R |only R/pls2_nipals.R |only R/pls_eigen.R |only R/prm.R |only R/prm_cv.R |only R/ridgeCV.R |only R/stepwise.R |only R/svmEval.R |only R/treeEval.R |only data/PAC.rda |only data/ash.rda |only data/cereal.rda |only data/hyptis.rda |only man/Moutlier.Rd | 2 +- man/PAC.Rd |only man/alr.Rd | 2 +- man/ash.Rd |only man/cereal.Rd |only man/chemometrics.Rd | 2 +- man/clr.Rd | 2 +- man/clvalidity.Rd |only man/drawMahal.Rd | 2 +- man/glass.Rd | 6 +----- man/hyptis.Rd |only man/ilr.Rd | 2 +- man/knnEval.Rd |only man/lassoCV.Rd |only man/lassocoef.Rd |only man/lmCV.Rd |only man/mvr_dcv.Rd |only man/nipals.Rd | 2 +- man/nnetEval.Rd |only man/pcaCV.Rd | 6 +++--- man/pcaDiagplot.Rd | 2 +- man/pcaVarexpl.Rd | 2 +- man/plotRidge.Rd |only man/plotSEPmvr.Rd |only man/plotcompmvr.Rd |only man/plotpredmvr.Rd |only man/plotprm.Rd |only man/plotresmvr.Rd |only man/plotsom.Rd |only man/pls1_nipals.Rd |only man/pls2_nipals.Rd |only man/pls_eigen.Rd |only man/prm.Rd |only man/prm_cv.Rd |only man/ridgeCV.Rd |only man/stepwise.Rd |only man/svmEval.Rd |only man/treeEval.Rd |only 66 files changed, 24 insertions(+), 28 deletions(-)
Author: Gavin L. Simpson, Jari Oksanen
Title: Analogue and weighted averaging methods for palaeoecology
Description: Fits Modern Analogue Technique and Weighted Averaging transfer
function models for prediction of environmental data from species
data, and related methods used in palaeoecology.
Diff between analogue versions 0.5-0 dated 2008-04-10 and 0.5-1 dated 2008-04-24
DESCRIPTION | 8 ++++---- R/bootstrap.R | 11 ++++++----- R/internal.R | 25 +++++++++++++++++-------- R/mat.R | 6 +++--- R/plot.mat.R | 27 +++++++++++++++------------ R/predict.wa.R | 21 +++++++++------------ R/wa.R | 4 ++-- inst/ChangeLog | 32 ++++++++++++++++++++++++++++++++ inst/doc/analogue_methods.pdf |binary man/analogue-internal.Rd | 1 + 10 files changed, 89 insertions(+), 46 deletions(-)
Author: Peter Dalgaard
Title: Introductory Statistics with R
Description: Data sets and scripts for text examples and exercises in
P. Dalgaard (2002), `Introductory Statistics with R', Springer Verlag.
Diff between ISwR versions 1.0-8 dated 2007-11-28 and 2.0-0 dated 2008-04-24
DESCRIPTION | 4 data/alkfos.R |only data/alkfos.csv |only data/bcmort.R |only data/eba1977.txt |only data/ewrates.R |only data/fake.trypsin.R | 24 ++-- data/nickel.R |only data/nickel.expand.R |only data/philion.txt |only data/stroke.R |only data/stroke.csv |only inst/rawdata |only inst/scripts/ch00.R |only inst/scripts/ch01.R | 162 ++++----------------------- inst/scripts/ch02.R | 124 ++++++++++++++------- inst/scripts/ch03.R | 167 +++++----------------------- inst/scripts/ch04.R | 163 ++++++++++++++++++++------- inst/scripts/ch05.R | 74 +++--------- inst/scripts/ch06.R | 106 +++++++----------- inst/scripts/ch07.R | 88 ++++++--------- inst/scripts/ch08.R | 54 +++++---- inst/scripts/ch09.R | 53 ++------- inst/scripts/ch10.R | 287 +++++++++++++++++++++++++------------------------ inst/scripts/ch11.R | 126 +++++---------------- inst/scripts/ch12.R | 139 ++++++++++++++++++----- inst/scripts/ch13.R |only inst/scripts/ch14.R |only inst/scripts/ch15.R |only inst/scripts/ch16.R |only inst/scripts/ex01.R |only inst/scripts/ex02.R |only inst/scripts/ex03.R |only inst/scripts/ex04.R |only inst/scripts/ex05.R |only inst/scripts/ex06.R |only inst/scripts/ex07.R |only inst/scripts/ex08.R |only inst/scripts/ex09.R |only inst/scripts/ex10.R |only inst/scripts/ex11.R |only inst/scripts/ex12.R |only inst/scripts/ex13.R |only inst/scripts/ex14.R |only inst/scripts/ex15.R |only inst/scripts/ex16.R |only man/alkfos.Rd |only man/ashina.Rd | 40 +++--- man/bcmort.Rd |only man/bp.obese.Rd | 15 +- man/caesarean.Rd | 4 man/coking.Rd | 6 - man/cystfibr.Rd | 26 ++-- man/eba1977.Rd |only man/energy.Rd | 6 - man/ewrates.Rd |only man/fake.trypsin.Rd | 10 - man/graft.vs.host.Rd | 30 ++--- man/heart.rate.Rd | 8 - man/hellung.Rd | 16 +- man/intake.Rd | 4 man/juul.Rd | 20 +-- man/juul2.Rd | 28 ++-- man/kfm.Rd | 32 ++--- man/lung.Rd | 8 - man/malaria.Rd | 10 - man/melanom.Rd | 30 ++--- man/nickel.Rd |only man/nickel.expand.Rd |only man/philion.Rd |only man/react.Rd | 6 - man/red.cell.folate.Rd | 10 - man/rmr.Rd | 12 +- man/secher.Rd | 24 ++-- man/secretin.Rd | 24 ++-- man/stroke.Rd |only man/tb.dilute.Rd | 8 - man/thuesen.Rd | 8 - man/tlc.Rd | 18 +-- man/vitcap.Rd | 14 +- man/vitcap2.Rd | 20 +-- man/wright.Rd | 11 + man/zelazo.Rd | 12 +- tests |only 84 files changed, 960 insertions(+), 1071 deletions(-)
Author: Achim Zeileis, Friedrich Leisch, Bruce Hansen,
Kurt Hornik, Christian Kleiber
Title: Testing, Monitoring and Dating Structural Changes
Description: Testing, monitoring and dating structural changes in (linear)
regression models. strucchange features tests/methods from
the generalized fluctuation test framework as well as from
the F test (Chow test) framework. This includes methods to
fit, plot and test fluctuation processes (e.g., CUSUM, MOSUM,
recursive/moving estimates) and F statistics, respectively.
It is possible to monitor incoming data online using
fluctuation processes.
Finally, the breakpoints in regression models with structural
changes can be estimated together with confidence intervals.
Emphasis is always given to methods for visualizing the data.
Diff between strucchange versions 1.3-2 dated 2007-04-14 and 1.3-3 dated 2008-04-23
DESCRIPTION | 8 NEWS | 8 R/efp.R | 6 R/simul-monitoring.R | 4 demo/tkmonitoring.R | 2 demo/tktesting.R | 2 inst/CITATION | 8 inst/doc/strucchange-intro.Rnw | 22 inst/doc/strucchange-intro.pdf | 5964 +++++++++++++++++++------------------- man/breakpoints.Rd | 2 man/efp.Rd | 22 man/efpFunctional.Rd | 13 man/gefp.Rd | 13 man/mefp.Rd | 1 man/plot.efp.Rd | 11 man/sctest.Rd | 8 man/sctest.efp.Rd | 11 tests/strucchange-tests.Rout.save | 34 18 files changed, 3120 insertions(+), 3019 deletions(-)
Author: R Development Core Team
Title: GNOME Console for R
Description: Provides a console for R under Unix-alikes based on GNOME
Diff between gnomeGUI versions 2.7.0-1 dated 2008-04-17 and 2.7.0-2 dated 2008-04-23
DESCRIPTION | 10 +++++----- configure | 18 +++++++++--------- configure.ac | 2 +- system.c | 12 +++--------- 4 files changed, 18 insertions(+), 24 deletions(-)
Author: Tony Plate
Diff between RSVGTipsDevice versions 0.7-4 dated 2008-04-17 and 0.7-4.2 dated 2008-04-23
More information about RSVGTipsDevice at CRAN
Title: An R SVG graphics device with dynamic tips and hyperlinks
Description: A graphics device for R that uses the w3.org xml standard
for Scalable Vector Graphics. This version supports
tooltips with 1 to 3 lines, hyperlinks, and line styles.
DESCRIPTION | 8 +--
src/devSVG.c | 145 +++++++++++++++++++++++++++++------------------------------
2 files changed, 76 insertions(+), 77 deletions(-)
Permanent link
Author: David Meyer and Kurt Hornik
Title: Sets and Generalized Sets
Description: Data structures and basic operations for ordinary sets,
and generalizations such as fuzzy sets, multisets, and
fuzzy multisets.
Diff between sets versions 0.1-1 dated 2007-10-16 and 0.1-2 dated 2008-04-23
sets-0.1-1/sets/R/AAA.R |only sets-0.1-2/sets/DESCRIPTION | 8 ++++---- sets-0.1-2/sets/R/converters.R | 4 ++-- sets-0.1-2/sets/R/gset.R | 2 +- sets-0.1-2/sets/R/tuple.R | 2 +- sets-0.1-2/sets/inst/doc/set.pdf |binary sets-0.1-2/sets/man/fuzzy.Rd | 10 +++++----- sets-0.1-2/sets/man/gset.Rd | 14 +++++++++----- sets-0.1-2/sets/man/set.Rd | 2 +- 9 files changed, 23 insertions(+), 19 deletions(-)
Author: Terry M Therneau and Beth Atkinson
Diff between rpart versions 3.1-39 dated 2008-02-19 and 3.1-41 dated 2008-04-23
Title: Recursive Partitioning
Description: Recursive partitioning and regression trees
ChangeLog | 4 ++++
DESCRIPTION | 13 +++++++------
inst/po/ru |only
man/labels.rpart.Rd | 2 --
man/meanvar.rpart.Rd | 2 --
man/na.rpart.Rd | 2 --
man/plot.rpart.Rd | 2 --
man/plotcp.Rd | 2 --
man/predict.rpart.Rd | 2 --
man/print.rpart.Rd | 1 -
man/printcp.Rd | 2 --
man/prune.rpart.Rd | 2 --
man/residuals.rpart.Rd | 2 --
man/rpart.control.Rd | 2 --
man/rpart.object.Rd | 2 --
man/rpconvert.Rd | 1 -
man/rsq.rpart.Rd | 2 --
man/summary.rpart.Rd | 2 --
man/text.rpart.Rd | 2 --
man/xpred.rpart.Rd | 2 --
po/R-ru.po |only
po/en@quot.po | 4 ++--
po/ru.po |only
23 files changed, 13 insertions(+), 40 deletions(-)
Author: Kurt Hornik and David Meyer
Title: Data Structures and Algorithms for Relations
Description: Data structures and algorithms for k-ary relations with
arbitrary domains, featuring relational algebra, predicate functions,
and fitters for consensus relations.
Diff between relations versions 0.3-2 dated 2008-02-05 and 0.3-3 dated 2008-04-23
relations-0.3-2/relations/R/AAA.R |only relations-0.3-3/relations/DESCRIPTION | 8 +- relations-0.3-3/relations/NAMESPACE | 3 + relations-0.3-3/relations/R/consensus.R | 10 +++ relations-0.3-3/relations/R/ensemble.R | 2 relations-0.3-3/relations/R/fitters.R | 65 +++++++++++------------ relations-0.3-3/relations/R/milp.R | 2 relations-0.3-3/relations/R/predicates.R | 10 +++ relations-0.3-3/relations/R/relation.R | 63 +++++++++++++++++++++- relations-0.3-3/relations/R/sparse.R | 2 relations-0.3-3/relations/R/violations.R | 2 relations-0.3-3/relations/inst/doc/relations.pdf |binary relations-0.3-3/relations/man/consensus.Rd | 1 relations-0.3-3/relations/man/predicates.Rd | 9 ++- relations-0.3-3/relations/man/relation.Rd | 12 ++++ 15 files changed, 146 insertions(+), 43 deletions(-)
Author: Allen Day
Diff between getopt versions 1.11 dated 2008-04-16 and 1.12 dated 2008-04-23
Title: C-like getopt behavior.
Description: Use this with Rscript to write ``#!'' shebang scripts that accept short and long flags/options.
DESCRIPTION | 6 +++---
R/getopt.R | 6 ++++++
man/getopt.package.Rd | 2 +-
3 files changed, 10 insertions(+), 4 deletions(-)
Author: Rob J Hyndman
Diff between forecasting versions 1.11 dated 2008-02-11 and 1.12 dated 2008-04-23
Bundle: forecasting
Contains: forecast fma Mcomp expsmooth
DESCRIPTION | 6 +++---
Mcomp/man/Mcomp-package.Rd |only
expsmooth/man/hospital.Rd | 2 +-
fma/man/fma-package.Rd |only
forecast/NAMESPACE | 2 +-
forecast/R/DM.R |only
forecast/R/arima.R | 2 +-
forecast/R/ets.R | 1 +
forecast/R/newarima2.R | 2 +-
forecast/man/diebold.mariano.test.Rd |only
10 files changed, 8 insertions(+), 7 deletions(-)
Author: Kurt Hornik, with contributions from Walter Boehm
Title: Cluster ensembles
Description: CLUster Ensembles
Diff between clue versions 0.3-22 dated 2008-03-12 and 0.3-23 dated 2008-04-23
DESCRIPTION | 8 ++++---- R/AAA.R | 2 -- R/partition.R | 2 +- inst/doc/clue.pdf |binary 4 files changed, 5 insertions(+), 7 deletions(-)
Author: Kurt Hornik, with contributions from Christian Buchta,
Torsten Hothorn, Alexandros Karatzoglou, David Meyer, and
Achim Zeileis
Title: R/Weka interface
Description: An R interface to Weka (Version 3.5.7).
Weka is a collection of machine learning algorithms for data mining
tasks written in Java, containing tools for data pre-processing,
classification, regression, clustering, association rules, and
visualization. Both the R interface and Weka itself are contained
in the RWeka package. For more information on Weka see
http://www.cs.waikato.ac.nz/~ml/weka/.
Diff between RWeka versions 0.3-10 dated 2008-03-12 and 0.3-11 dated 2008-04-23
CHANGELOG | 26 ++-- DESCRIPTION | 6 NAMESPACE | 4 R/arff.R | 28 +++- R/evaluate.R | 7 - R/interfaces.R | 10 - R/readers.R | 244 ++++++++++++++++++++++++---------------- inst/arff/test1.arff |only inst/arff/test2.arff |only inst/arff/test_sparse.arff |only inst/jar/RWeka.jar |binary java/RWekaInterfaces.class |binary java/RWekaInterfaces.java | 47 +++++++ man/evaluate_Weka_classifier.Rd | 5 man/read.arff.Rd | 1 man/write.arff.Rd | 1 tests |only 17 files changed, 257 insertions(+), 122 deletions(-)
Author: Bjoern Bornkamp, Jose Pinheiro and Frank Bretz
Title: Design and Analysis of Dose-Finding Studies
Description: This package implements a methodology for dose-response analysis
that combines aspects of multiple comparison procedures and modeling approaches
(Bretz, Pinheiro and Branson, 2005, Biometrics 61, 738-748). The package
provides tools for the analysis of dose finding trials as well as a variety
of tools necessary to plan a trial to be conducted with the MCPMod methodology.
Diff between MCPMod versions 0.1-1 dated 2008-04-10 and 0.1-2 dated 2008-04-23
ChangeLog | 3 +++ DESCRIPTION | 14 +++++++------- man/LP.Rd | 2 ++ man/MCPMod-package.Rd | 13 ++++++------- man/MCPMod.Rd | 7 +++---- man/powerMM.Rd | 2 ++ man/sampSize.Rd | 4 ++++ 7 files changed, 27 insertions(+), 18 deletions(-)
Author: Andy Bunn
Title: Dendrochronology Program Library in R
Description: This package contains functions for performing some standard tree-ring analyses.
Diff between dplR versions 1.0 dated 2007-09-02 and 1.1 dated 2008-04-22
DESCRIPTION | 6 +++--- R/detrend.series.R | 3 ++- R/hanning.R |only R/read.crn.R | 10 +++++----- R/read.rwl.R | 12 ++++++------ R/skel.plot.R | 7 ------- R/write.crn.R | 8 +++++--- R/write.rwl.R |only inst/CITATION | 10 +++++----- man/hanning.Rd |only man/write.crn.Rd | 4 ++-- man/write.rwl.Rd |only 12 files changed, 28 insertions(+), 32 deletions(-)
Author: Oscar Rueda
Diff between RJaCGH versions 1.2.4 dated 2008-04-02 and 1.2.5 dated 2008-04-22
Title: Reversible Jump MCMC for the analysis of CGH arrays.
Description: Bayesian analysis of CGH microarrays fitting Hidden Markov Chain models.
The selection of the number of states is made via their posterior probability
computed by Reversible Jump Markov Chain Monte Carlo Methods. Also
returns probabilistic minimal common regions for gains/losses.
Changes | 1 +
DESCRIPTION | 6 +++---
R/RJaCGH.R | 3 ++-
src/nnhl.c | 23 +++++++++++++++++++----
4 files changed, 25 insertions(+), 8 deletions(-)
Author: Reinhard Furrer
Title: SPArse Matrix
Description: Set of function for sparse matrix algebra.
The package 'fields' v4.1 uses spam as a required package.
Differences with SparseM/Matrix are: (1) we only support
one sparse matrix format, (2) based on transparent and
simple structure(s) (3) S3 and S4 compatible.
Diff between spam versions 0.13-2 dated 2008-01-05 and 0.13-3 dated 2008-04-22
CHANGELOG | 8 ++++++++ DESCRIPTION | 6 +++--- R/spam_operations.R | 14 ++++++++------ man/diag.Rd | 4 ++-- src/spammodified.f | 3 +-- 5 files changed, 22 insertions(+), 13 deletions(-)
Author: R. Gentleman, Elizabeth Whalen, W. Huber, S. Falcon
Title: graph: A package to handle graph data structures
Description: A package that implements some simple graph handling
capabilities.
Diff between graph versions 1.16.1 dated 2008-04-17 and 1.17.15 dated 2008-04-22
DESCRIPTION | 6 NAMESPACE | 9 R/AllClasses.R | 28 + R/AllGenerics.R | 3 R/clustergraph.R | 2 R/edgefunctions.R | 2 R/graphNEL.R | 4 R/methods-graph.R | 119 ++++++- R/methods-graphAM.R | 8 R/methods-multiGraph.R | 6 R/settings.R |only R/zzz.R | 12 data/MAPKsig.rda |binary data/apopGraph.rda |binary data/biocRepos.rda |binary data/graphExamples.rda |binary data/integrinMediatedCellAdhesion.rda |binary inst/doc/GraphClass.pdf |binary inst/doc/clusterGraph.pdf |binary inst/doc/graph.pdf | 510 ++++++++++++++++++---------------- inst/doc/graphAttributes.pdf |binary man/MAPKsig.Rd | 12 man/graph-class.Rd | 15 - man/graphRendering.Rd |only man/renderInfo-class.Rd |only man/settings.Rd |only man/validGraph.Rd | 2 27 files changed, 452 insertions(+), 286 deletions(-)
Author: Juan R González, Lluís Armengol, Elisabet Guinó, Xavier Solé, and Víctor Moreno
Title: SNPs-based whole genome association studies
Description: This package carries out most common analysis when performing whole genome association studies. These analyses include descriptive statistics and exploratory analysis of missing values, calculation of Hardy-Weinberg equilibrium, analysis of association based on generalized linear models (either for quantitative or binary traits), and analysis of multiple SNPs (haplotype and epistasis analysis). Permutation test and related tests (sum statistic and truncated product) are also implemented.
Diff between SNPassoc versions 1.5-1 dated 2008-03-27 and 1.5-2 dated 2008-04-22
DESCRIPTION | 6 +++--- NAMESPACE | 7 ++++++- R/LD.R |only inst/docs/changelog.txt | 4 ++++ man/LD.Rd |only 5 files changed, 13 insertions(+), 4 deletions(-)
Author: T Jake Luciani
Diff between RSvgDevice versions 0.6.3 dated 2008-04-17 and 0.6.4 dated 2008-04-22
Title: An R SVG graphics device.
Description: A graphics device for R that uses the w3.org xml
standard for Scalable Vector Graphics.
RSvgDevice-0.6.3/RSvgDevice/src/Makevars |only
RSvgDevice-0.6.4/RSvgDevice/DESCRIPTION | 8 -
RSvgDevice-0.6.4/RSvgDevice/src/devSVG.c | 216 ++++++++++++-------------------
3 files changed, 88 insertions(+), 136 deletions(-)
Author: Jan Graffelman
Diff between HardyWeinberg versions 1.1 dated 2007-10-03 and 1.2 dated 2008-04-22
Title: Graphical tests for Hardy-Weinberg equilibrium
Description: Package HardyWeinberg is a package for exploring
bi-allelic marker data. It focuses on the graphical
representation of the results of tests for Hardy-Weinberg equlibrium
in a ternary plot. Routines for several tests for Hardy-Weinberg equilibrium
are included in the package.
DESCRIPTION | 6
NAMESPACE | 2
R/HWData.R |only
R/HWTernaryPlot.R | 36 +--
inst/doc/HardyWeinberg-008.pdf | 6
inst/doc/HardyWeinberg.Snw | 277 ++++++++++++++++++++++--
inst/doc/HardyWeinberg.aux | 9
inst/doc/HardyWeinberg.dvi |only
inst/doc/HardyWeinberg.log | 461 +++++++++++++++++++++--------------------
inst/doc/HardyWeinberg.out | 5
inst/doc/HardyWeinberg.pdf |binary
inst/doc/HardyWeinberg.tex | 281 ++++++++++++++++++++++--
man/HWData.Rd |only
man/HWTernaryPlot.Rd | 24 --
man/HardyWeinberg-package.Rd | 22 -
15 files changed, 794 insertions(+), 335 deletions(-)
Author: Achim Zeileis, Gabor Grothendieck
Title: Z's ordered observations
Description: An S3 class with methods for totally ordered indexed
observations. It is particularly aimed at irregular
time series of numeric vectors/matrices and factors.
zoo's key design goals are independence of a particular
index/date/time class and consistency with with ts and
base R by providing methods to extend standard generics.
Diff between zoo versions 1.5-2 dated 2008-04-05 and 1.5-3 dated 2008-04-22
DESCRIPTION | 8 NAMESPACE | 10 NEWS | 20 R/MATCH.R | 4 R/ORDER.R | 4 R/as.zoo.R | 5 inst/doc/foo.rda |only inst/doc/plot-axes.pdf |only inst/doc/plot-axes.tex |only inst/doc/zoo-faq.Rnw | 19 inst/doc/zoo-faq.pdf |binary inst/doc/zoo-faq.tex |only inst/doc/zoo-quickref.Rnw | 20 inst/doc/zoo-quickref.pdf | 1783 +++++++++++++++++++++------------------------- inst/doc/zoo-quickref.tex |only inst/doc/zoo.Rnw | 79 +- inst/doc/zoo.bib | 69 - inst/doc/zoo.pdf |binary inst/doc/zoo.tex |only 19 files changed, 984 insertions(+), 1037 deletions(-)
Author: Erich Neuwirth
Diff between RExcelInstaller versions 2.0-16 dated 2008-04-18 and 2.0-19 dated 2008-04-22
More information about RExcelInstaller at CRAN
Title: Integration of R and Excel
Description: RExcel, an add-in for MS Excel on MS Windows,
allows to transfer data between R and Excel,
writing VBA macros using R as a library for Excel,
and calling R functions as worksheet function in Excel.
RExcel integrates nicely with R Commander (Rcmdr).
This R package installs the Excel add-in for Excel versions
from 2000 to 2007. It only works on MS Windows.
DESCRIPTION | 9 +++++----
inst/bin/RExcelInst20.exe |binary
inst/src/RExcelInst/MakeRExcelInstallExe.bat | 4 ++--
inst/src/RExcelInst/RExcelInstV20.iss | 6 +++---
inst/src/RExcelInst/xlsfiles/xls/RExcel.xla |binary
inst/src/RExcelInst/xlsfiles/xls/RExcel2007.xlam |binary
inst/src/RExcelInst/xlsfiles/xls/RExcelFuncInfo.dll |only
7 files changed, 10 insertions(+), 9 deletions(-)
Permanent link
Author: Fortran original by Leo Breiman and Adele Cutler, R port by Andy Liaw and Matthew Wiener.
Title: Breiman and Cutler's random forests for classification and regression
Description: Classification and regression based on a forest of trees using random inputs.
Diff between randomForest versions 4.5-24 dated 2008-04-18 and 4.5-25 dated 2008-04-22
DESCRIPTION | 6 +- inst/NEWS | 16 ++++++ src/regrf.c | 142 ++++++++++++++++++++++++++++++------------------------------ 3 files changed, 90 insertions(+), 74 deletions(-)
Author: Jeff Enos
Diff between portfolioSim versions 0.2-1 dated 2007-10-02 and 0.2-3 dated 2008-04-22
Title: Framework for simulating equity portfolio strategies
Description: Classes that serve as a framework for designing equity portfolio simulations.
portfolioSim-0.2-1/portfolioSim/inst/doc/portfolioSim.aux |only
portfolioSim-0.2-1/portfolioSim/inst/doc/portfolioSim.log |only
portfolioSim-0.2-1/portfolioSim/inst/doc/portfolioSim.tex |only
portfolioSim-0.2-3/portfolioSim/DESCRIPTION | 6 +++---
portfolioSim-0.2-3/portfolioSim/R/AllClasses.R | 2 +-
portfolioSim-0.2-3/portfolioSim/R/AllGenerics.R | 2 +-
portfolioSim-0.2-3/portfolioSim/R/instantData.R | 2 +-
portfolioSim-0.2-3/portfolioSim/R/periodData.R | 2 +-
portfolioSim-0.2-3/portfolioSim/R/portfolioSim.R | 2 +-
portfolioSim-0.2-3/portfolioSim/R/sdiDf.R | 2 +-
portfolioSim-0.2-3/portfolioSim/R/simResult.R | 2 +-
portfolioSim-0.2-3/portfolioSim/R/simResultSinglePeriod.R | 2 +-
portfolioSim-0.2-3/portfolioSim/R/stiFromSignal.R | 2 +-
portfolioSim-0.2-3/portfolioSim/R/stiPresetTrades.R | 2 +-
portfolioSim-0.2-3/portfolioSim/inst/doc/portfolioSim.pdf |binary
portfolioSim-0.2-3/portfolioSim/tests/portfolioSim.class.test.R | 2 +-
portfolioSim-0.2-3/portfolioSim/tests/portfolioSim.class.test.RData |binary
portfolioSim-0.2-3/portfolioSim/tests/portfolioSim.runSim.test.R | 2 +-
portfolioSim-0.2-3/portfolioSim/tests/portfolioSim.runSim.test.RData |binary
portfolioSim-0.2-3/portfolioSim/tests/portfolioSim.runSim.test/1/end.data.RData |binary
portfolioSim-0.2-3/portfolioSim/tests/portfolioSim.runSim.test/1/period.RData |binary
portfolioSim-0.2-3/portfolioSim/tests/portfolioSim.runSim.test/1/period.data.RData |binary
portfolioSim-0.2-3/portfolioSim/tests/portfolioSim.runSim.test/1/start.data.RData |binary
portfolioSim-0.2-3/portfolioSim/tests/portfolioSim.runSim.test/2/end.data.RData |binary
portfolioSim-0.2-3/portfolioSim/tests/portfolioSim.runSim.test/2/period.RData |binary
portfolioSim-0.2-3/portfolioSim/tests/portfolioSim.runSim.test/2/period.data.RData |binary
portfolioSim-0.2-3/portfolioSim/tests/portfolioSim.runSim.test/2/start.data.RData |binary
portfolioSim-0.2-3/portfolioSim/tests/portfolioSim.runSim.test/master.RData |binary
portfolioSim-0.2-3/portfolioSim/tests/sdiDf.getSimData.test.R | 2 +-
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portfolioSim-0.2-3/portfolioSim/tests/simData.class.test.R | 2 +-
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portfolioSim-0.2-3/portfolioSim/tests/stiFromSignal.getSimTrades.test.R | 2 +-
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35 files changed, 19 insertions(+), 19 deletions(-)
Author: Jeff Enos
Diff between portfolio versions 0.4-1 dated 2007-10-02 and 0.4-3 dated 2008-04-22
Title: Analysing equity portfolios
Description: Classes for analysing and implementing equity portfolios.
portfolio-0.4-1/portfolio/inst/doc/Rplots.ps |only
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portfolio-0.4-3/portfolio/DESCRIPTION | 6 +++---
portfolio-0.4-3/portfolio/R/AllClasses.R | 2 +-
portfolio-0.4-3/portfolio/R/AllGenerics.R | 2 +-
portfolio-0.4-3/portfolio/R/contribution.R | 2 +-
portfolio-0.4-3/portfolio/R/df.category.mean.R | 2 +-
portfolio-0.4-3/portfolio/R/exposure.R | 2 +-
portfolio-0.4-3/portfolio/R/map.market.R | 2 +-
portfolio-0.4-3/portfolio/R/matchedPortfolio.R | 2 +-
portfolio-0.4-3/portfolio/R/matchedPortfolioCollection.R | 2 +-
portfolio-0.4-3/portfolio/R/matchit.R | 2 +-
portfolio-0.4-3/portfolio/R/nearest.multiple.R | 2 +-
portfolio-0.4-3/portfolio/R/performance.R | 2 +-
portfolio-0.4-3/portfolio/R/portfolio.R | 2 +-
portfolio-0.4-3/portfolio/R/portfolioBasic.R | 2 +-
portfolio-0.4-3/portfolio/R/trellis.multiplot.R | 2 +-
portfolio-0.4-3/portfolio/R/weight.R | 2 +-
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portfolio-0.4-3/portfolio/tests/build.matches.test.R | 2 +-
portfolio-0.4-3/portfolio/tests/classes.test.R | 2 +-
portfolio-0.4-3/portfolio/tests/df.category.mean.test.R | 2 +-
portfolio-0.4-3/portfolio/tests/map.market.test.R | 2 +-
portfolio-0.4-3/portfolio/tests/matchit.test.R | 2 +-
portfolio-0.4-3/portfolio/tests/nearest.multiple.test.R | 2 +-
portfolio-0.4-3/portfolio/tests/next.treatment.test.R | 2 +-
portfolio-0.4-3/portfolio/tests/portfolio.Arith.test.R | 2 +-
portfolio-0.4-3/portfolio/tests/portfolio.all.equal.test.R | 2 +-
portfolio-0.4-3/portfolio/tests/portfolio.calcShares.test.R | 2 +-
portfolio-0.4-3/portfolio/tests/portfolio.calcWeights.test.R | 2 +-
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portfolio-0.4-3/portfolio/tests/portfolio.mvLong.test.R | 2 +-
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portfolio-0.4-3/portfolio/tests/portfolio.performance.test.R | 2 +-
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portfolio-0.4-3/portfolio/tests/tradelist.calcActual.test.R | 2 +-
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93 files changed, 54 insertions(+), 57 deletions(-)
Author: Graham Williams, Michael Hahsler (arules), Zementis Inc,
Hemant Ishwaran, Udaya B. Kogalur, Rajarshi Guha
Title: Generate PMML for various models
Description: The Predictive Modelling Markup Language (PMML) is a language
for representing models, in an application independent way. Such models
can then be loaded into other applications supporting PMML, including
ADAPA from Zementis, Teradata Warehouse Miner and IBM's DB2.
The package provides a generic pmml function to generate pmml for an
object. Using a S3 generic function the approriate method for the
class of the supplied object is dispatched.
The package currently supports the export of PMML for linear
regression, SVMs, rpart classification trees,
randomSurvivalForest forest models, and kmeans clusters.
This package is part of the Rattle toolkit.
Diff between pmml versions 1.1.6 dated 2008-04-16 and 1.1.7 dated 2008-04-22
DESCRIPTION | 12 ++++++------ NAMESPACE | 16 ++++++++-------- R/pmml.R | 8 +++++--- R/pmml.arules.R |only man/pmml.arules.Rd |only man/pmml.ksvm.Rd | 2 +- man/pmml.rpart.Rd | 2 +- 7 files changed, 21 insertions(+), 19 deletions(-)
Author: Mark S. Handcock
Diff between ergm versions 2.0-7 dated 2008-04-03 and 2.0-8 dated 2008-04-22
Title: Fit, Simulate and Diagnose Exponential-Family Models for Networks
Description: An integrated set of tools to analyze and simulate networks based on exponential-family random graph models (ERGM). "ergm" is a part of the "statnet" suite of packages for network analysis. For a list of functions type: help(package='ergm')
DESCRIPTION | 6
R/InitErgm.R | 238 ++++++++++++++++-----------------------
R/InitErgmTerm.R | 48 ++++++-
R/check.ErgmTerm.R | 3
R/ergm.MCMCse.R | 4
R/ergm.getglobalstats.R | 5
R/summary.ergm.R | 18 +-
inst/CITATION | 15 +-
man/ergm-internal.Rd | 1
man/ergm-terms.Rd | 1
src/MCMC.c | 137 ++--------------------
src/MCMC.h | 5
src/MPLE.c | 16 +-
src/changestats.c | 198 ++++++++++++++++----------------
src/changestats.h | 200 +++++++++++++++++---------------
src/edgetree.c | 163 +++++++++++++-------------
src/edgetree.h | 21 ++-
src/model.c | 17 ++
src/netstats.c |only
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tests/mixingmatrix_and_nodemix.R | 2
21 files changed, 511 insertions(+), 587 deletions(-)
Author: Arjun Ravi Narayan
Diff between tradeCosts versions 0.2-1 dated 2007-10-02 and 0.3-0 dated 2008-04-21
Title: Trade Cost Analysis
Description: Performs ex-post analysis of security transaction costs.
DESCRIPTION | 6 -
NAMESPACE | 6 +
R/AllGenerics.R | 8 +-
R/create.dynamic.data.R |only
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R/trade.costs.R | 6 -
R/tradeCosts.R | 6 -
R/tradeCostsResults.R | 36 +++++------
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Author: Jeff Enos
Diff between backtest versions 0.2-1 dated 2007-10-02 and 0.2-2 dated 2008-04-21
Title: Exploring portfolio-based conjectures about financial instruments
Description: The backtest package provides facilities for exploring portfolio-based conjectures about financial instruments (stocks, bonds, swaps, options, et cetera).
DESCRIPTION | 6 +++---
R/AllGenerics.R | 2 +-
R/backtest.R | 2 +-
R/backtest.compute.R | 2 +-
R/backtest.function.R | 2 +-
R/bt.mean.R | 2 +-
R/bt.sharpe.R | 2 +-
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tests/calc.turnover.test.R | 2 +-
tests/categorize.test.R | 2 +-
20 files changed, 20 insertions(+), 20 deletions(-)
Author: Jae H. Kim
Title: Variance Ratio tests for Weak-form Market Efficiency
Description: A collection of variance ratio tests
Diff between vrtest versions 0.8 dated 2008-02-24 and 0.86 dated 2008-04-20
DESCRIPTION | 4 ++-- R/Chen.Deo.R | 6 +++--- R/VR.plot.R | 14 ++++++++------ R/stat.plot.R | 18 +++++++++++------- man/Chen.Deo.Rd | 1 + man/VR.plot.Rd | 4 +++- man/vrtest-package.Rd | 6 ++---- 7 files changed, 30 insertions(+), 23 deletions(-)
Author: Víctor Leiva
Diff between ig versions 1.1 dated 2008-04-14 and 1.2 dated 2008-04-20
Title: Package for a General Class of Inverse Gaussian Distributions
Description: A collection of utilities for a general class of inverse Gaussian models known as inverse Gaussian type distribution (IGTD).
DESCRIPTION | 16 ++++++++--------
man/dlaplace.Rd | 2 +-
man/ig-package.Rd | 11 ++++++-----
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Author: Virasakdi Chongsuvivatwong
Diff between epicalc versions 2.6.2.10 dated 2008-04-06 and 2.6.2.11 dated 2008-04-20
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.
DESCRIPTION | 6 -
R/epicalc.R | 201 ++++++++++++++++++++++++++++++++++++++++++-----
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Author: John Fox
Diff between car versions 1.2-7 dated 2007-10-29 and 1.2-8 dated 2008-04-20
Title: Companion to Applied Regression
Description:
This package accompanies J. Fox, An R and S-PLUS Companion to Applied Regression,
Sage, 2002.
The package contains mostly functions for applied regression, linear models, and
generalized linear models, with an emphasis on regression diagnostics, particularly
graphical diagnostic methods. There are also some utility functions.
With some exceptions, I have tried not to duplicate capabilities in the basic distribution of R,
nor in widely used packages. Where relevant, the functions in car are consistent with
na.action = na.omit or na.exclude.
DESCRIPTION | 8 ++++----
NAMESPACE | 7 +++++--
R/Anova.R | 37 +++++++++++++++++++++----------------
R/levene.test.R | 36 ++++++++++++++++++++++++++++++------
inst/CHANGES | 12 +++++++++++-
man/Anova.Rd | 3 +--
man/car-package.Rd | 4 ++--
man/durbin.watson.Rd | 4 ++++
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Author: Thibaut Jombart
Diff between adegenet versions 1.1-0 dated 2008-02-12 and 1.1-1 dated 2008-04-18
Title: adegenet: a R package for the multivariate analysis of genetic markers.
Description: Classes and functions for genetic data analysis within the multivariate framework.
adegenet-1.1-0/adegenet/DEADJOE |only
adegenet-1.1-1/adegenet/DESCRIPTION | 12
adegenet-1.1-1/adegenet/R/auxil.R | 49 +
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adegenet-1.1-1/adegenet/R/import.R | 4
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adegenet-1.1-1/adegenet/R/zzz.R | 3
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adegenet-1.1-1/adegenet/man/genpop.Rd | 2
adegenet-1.1-1/adegenet/man/gstat.randtest.Rd | 1
adegenet-1.1-1/adegenet/man/monmonier.Rd | 64 +-
adegenet-1.1-1/adegenet/man/old2new.Rd | 8
adegenet-1.1-1/adegenet/man/seploc.Rd | 5
adegenet-1.1-1/adegenet/man/spca.Rd | 22
adegenet-1.1-1/adegenet/man/spcaIllus.Rd | 2
adegenet-1.1-1/adegenet/man/truenames.Rd | 6
adegenet-1.1-1/adegenet/src/monmonier-utils.c | 124 ++--
27 files changed, 851 insertions(+), 483 deletions(-)
Author: Daniel Chessel, Anne-Beatrice Dufour
Diff between ade4 versions 1.4-5 dated 2007-10-12 and 1.4-7 dated 2008-04-18
Title: Analysis of Ecological Data : Exploratory and Euclidean methods in Environmental sciences
Description: Multivariate data analysis and graphical display.
ChangeLog | 2527 +++++-------------------------------------------
DESCRIPTION | 8
R/newick2phylog.R | 2
R/nipals.R |only
R/phylog.R | 101 -
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R/scatter.R | 512 ---------
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src/testdim.c | 5
src/testrlq.c | 67 -
38 files changed, 480 insertions(+), 2946 deletions(-)
Author: Robert B. Gramacy
Diff between tgp versions 2.1-1 dated 2008-04-08 and 2.1-2 dated 2008-04-18
Title: Bayesian treed Gaussian process models
Description: Bayesian nonstationary, semiparametric nonlinear regression
and design by treed Gaussian processes with jumps to the limiting
linear model (LLM). Special cases also implemented include Bayesian
linear models, CART, treed linear models, stationary separable and
isotropic Gaussian processes. Provides 1-d and 2-d plotting functions
(with projection and slice capabilities) and tree drawing, designed for
visualization of tgp-class output. Sensitivity analysis and
multi-resolution models are supported, and a limited set of experimental
design and adaptive sampling functions are also provided, including ALM,
ALC, and expected improvement.
ChangeLog | 13 +++-
DESCRIPTION | 4 -
R/tgp.default.params.R | 48 ++++++++++-----
man/btgp.Rd | 18 ++++-
man/tgp.default.params.Rd | 14 ++--
src/gp.cc | 34 +++++++----
src/gp.h | 2
src/matrix.c | 140 +++++++++++++++++++++++++++++++++++++++++++---
src/matrix.h | 7 ++
src/model.cc | 4 -
10 files changed, 233 insertions(+), 51 deletions(-)
Author: Mark S. Handcock
Diff between statnet versions 2.0-6 dated 2008-03-21 and 2.0-7 dated 2008-04-18
Title: Software tools for the Statistical Modeling of Network Data
Description: An integrated set of tools for the representation, visualization, analysis and simulation of network data. This package For an introduction type: help(package='statnet')
DESCRIPTION | 8 ++++----
1 file changed, 4 insertions(+), 4 deletions(-)
Author: Fortran original by Leo Breiman and Adele Cutler, R port by Andy Liaw and Matthew Wiener.
Title: Breiman and Cutler's random forests for classification and regression
Description: Classification and regression based on a forest of trees using random inputs.
Diff between randomForest versions 4.5-23 dated 2008-01-23 and 4.5-24 dated 2008-04-18
DESCRIPTION | 8 +-- R/randomForest.formula.R | 9 +++ inst/NEWS | 109 ++++++++++++++++++++++++----------------------- 3 files changed, 68 insertions(+), 58 deletions(-)
Author: Erich Neuwirth
Diff between RExcelInstaller versions 2.0-15 dated 2008-04-17 and 2.0-16 dated 2008-04-18
More information about RExcelInstaller at CRAN
Title: Integration of R and Excel
Description: RExcel, an add-in for MS Excel on MS Windows,
allows to transfer data between R and Excel,
writing VBA macros using R as a library for Excel,
and calling R functions as worksheet function in Excel.
RExcel integrates nicely with R Commander (Rcmdr).
This R package installs the Excel add-in for Excel versions
from 2000 to 2007. It only works on MS Windows.
DESCRIPTION | 4 ++--
inst/bin/RExcelInst20.exe |binary
inst/src/RExcelInst/xlsfiles/xls/RExcel.xla |binary
inst/src/RExcelInst/xlsfiles/xls/RExcel2007.xlam |binary
4 files changed, 2 insertions(+), 2 deletions(-)
Permanent link
Author: Richard M. Heiberger
Title: Statistical Analysis and Data Display: Heiberger and Holland
Description: Support software for Statistical Analysis and Data
Display (Springer, ISBN 0-387-40270-5). This contemporary
presentation of statistical methods features extensive use of
graphical displays for exploring data and for displaying the
analysis. The authors demonstrate how to analyze data---showing
code, graphics, and accompanying computer listings---for all the
methods they cover. They emphasize how to construct and
interpret graphs, discuss principles of graphical design, and
show how accompanying traditional tabular results are used to
confirm the visual impressions derived directly from the
graphs. Many of the graphical formats are novel and appear
here for the first time in print. All chapters have exercises.
Diff between HH versions 2.1-9 dated 2008-03-21 and 2.1-12 dated 2008-04-18
DESCRIPTION | 6 +++--- R/ancova.R | 37 ++++++++++++++++++++++++++++--------- R/ci.plot.R | 6 +++--- R/mcp.993.R |only R/panel.pairs.hh.s | 2 +- R/plot.multicomp.R | 36 ++++++++++++++++++++---------------- man/ancova.Rd | 2 +- man/glht.mcp.993.Rd |only man/mmc.Rd | 17 +++++++++++------ 9 files changed, 67 insertions(+), 39 deletions(-)
Author: Tony Plate
Diff between RSVGTipsDevice versions 0.7-4.2 dated 2008-04-17 and 0.7-4 dated 2008-04-17
More information about RSVGTipsDevice at CRAN
Title: An R SVG graphics device with dynamic tips and hyperlinks
Description: A graphics device for R that uses the w3.org xml standard
for Scalable Vector Graphics. This version supports
tooltips with 1 to 3 lines, hyperlinks, and line styles.
DESCRIPTION | 8 +--
src/devSVG.c | 145 +++++++++++++++++++++++++++++------------------------------
2 files changed, 77 insertions(+), 76 deletions(-)
Permanent link
Author: Ramon Diaz-Uriarte
Diff between varSelRF versions 0.6-3 dated 2006-09-21 and 0.6-5 dated 2008-04-17
Title: Variable selection using random forests
Description: Variable selection from random forests
using both backwards variable elimination (for the selection of
small sets of non-redundant variables) and selection based on the
importance spectrum (somewhat similar to scree plots; for the
selection of large, potentially highly-correlated variables).
Main applications in high-dimensional data
(e.g., microarray data, and other genomics and proteomics
applications). You can use rpvm instead of Rmpi if you want
but I've only tested with Rmpi.
DESCRIPTION | 8 ++--
R/varSelRF.R | 99 +++++++----------------------------------------------------
2 files changed, 17 insertions(+), 90 deletions(-)
Author: Martin Elff
Title: Convenience Tools for Data Management,
Simulation, and Presentation of Estimates
Description: A couple of tools
for preparing (especially social science) survey data,
conducting simulation studies, and presentation
of results of statistical analyses.
Diff between memisc versions 0.11-9 dated 2008-01-11 and 0.11-10 dated 2008-04-17
DESCRIPTION | 6 +++--- R/Termplot.R | 30 ++++++++++++------------------ R/aggregateDB.R | 9 ++++++--- R/aggregateFormula.R | 4 ++-- 4 files changed, 23 insertions(+), 26 deletions(-)
Author: Original S code by Richard A. Becker and Allan R. Wilks.
R version by Ray Brownrigg
Diff between maps versions 2.0-39 dated 2007-10-14 and 2.0-40 dated 2008-04-17
Title: Draw Geographical Maps
Description: Display of maps. Projection code and larger maps are in
separate packages (mapproj and mapdata).
DESCRIPTION | 6 +++---
R/misc.r | 3 ++-
R/polygon.r | 1 +
3 files changed, 6 insertions(+), 4 deletions(-)
Author: Alex Couture-Beil
Diff between ddesolve versions 1.01 dated 2007-10-02 and 1.02 dated 2008-04-17
Title: Solver for Delay Differential Equations
Description: This package solves systems of delay differential equations.
by interfacing numerical routines written by Simon N. Wood
ddesolve-1.01/ddesolve/inst/ddesolve-UG.pdf |only
ddesolve-1.01/ddesolve/inst/solv95-Manual.pdf |only
ddesolve-1.02/ddesolve/DESCRIPTION | 4 +-
ddesolve-1.02/ddesolve/R/zzz.r | 6 +--
ddesolve-1.02/ddesolve/changelog.txt | 5 +++
ddesolve-1.02/ddesolve/inst/doc |only
ddesolve-1.02/ddesolve/man/ddesolve.Rd |only
ddesolve-1.02/ddesolve/src/ddesolve95.c | 42 +++++++++++++++++---------
ddesolve-1.02/ddesolve/src/r_model.c | 16 ++++++++-
9 files changed, 52 insertions(+), 21 deletions(-)
Author: Erich Neuwirth
Diff between RExcelInstaller versions 2.0-13 dated 2008-04-15 and 2.0-15 dated 2008-04-17
More information about RExcelInstaller at CRAN
Title: Integration of R and Excel
Description: RExcel, an add-in for MS Excel on MS Windows,
allows to transfer data between R and Excel,
writing VBA macros using R as a library for Excel,
and calling R functions as worksheet function in Excel.
RExcel integrates nicely with R Commander (Rcmdr).
This R package installs the Excel add-in for Excel versions
from 2000 to 2007. It only works on MS Windows.
DESCRIPTION | 6 +++---
inst/bin/RExcelInst20.exe |binary
inst/src/RExcelInst/MakeRExcelInstallExe.bat | 4 ++--
inst/src/RExcelInst/RExcelInstV20.iss | 6 +++---
inst/src/RExcelInst/xlsfiles/xls/RDemoGraph.xls |binary
inst/src/RExcelInst/xlsfiles/xls/RDemoMacro.xls |binary
inst/src/RExcelInst/xlsfiles/xls/RDemoMacro.xlsm |binary
inst/src/RExcelInst/xlsfiles/xls/RDemoRecalc.xls |binary
inst/src/RExcelInst/xlsfiles/xls/RDemoRecalc.xlsm |binary
inst/src/RExcelInst/xlsfiles/xls/RExcel.xla |binary
inst/src/RExcelInst/xlsfiles/xls/RExcel2007.xlam |binary
man/RExcelInstaller-package.Rd | 4 ++--
12 files changed, 10 insertions(+), 10 deletions(-)
Permanent link
Author: Jim Albert
Title: Functions for Learning Bayesian Inference
Description: LearnBayes contains a collection of functions helpful in learning the basic tenets of Bayesian statistical inference. It contains functions for summarizing basic one and two parameter posterior distributions and predictive distributions. It contains MCMC algorithms for summarizing posterior distributions defined by the user. It also contains functions for regression models, hierarchical models, Bayesian tests, and illustrations of Gibbs sampling.
Diff between LearnBayes versions 1.0 dated 2007-05-03 and 1.2 dated 2008-04-17
DESCRIPTION | 6 - R/bayes.model.selection.R |only R/bayes.probit.R | 43 ++++++------- R/betabinexch.R | 28 ++++---- R/betabinexch0.R | 26 ++++--- R/bfexch.R | 23 +++--- R/binomial.beta.mix.R |only R/cauchyerrorpost.R | 13 +-- R/groupeddatapost.R | 21 ++---- R/howardprior.R | 23 +++--- R/impsampling.R | 25 ++++--- R/indepmetrop.R | 59 ++++++++--------- R/laplace.R | 142 +++++++++++++++++++++---------------------- R/lbinorm.R | 19 ++--- R/logctablepost.R | 27 +++----- R/logisticpost.R | 26 ++++--- R/mycontour.R | 32 ++++++--- R/normal.normal.mix.R |only R/normchi2post.R | 19 ++--- R/normpostpred.R |only R/normpostsim.R |only R/poissgamexch.R | 30 ++++----- R/poisson.gamma.mix.R |only R/predplot.R |only R/rejectsampling.R | 21 +++--- R/rigamma.R |only R/rtruncated.R |only R/rwmetrop.R | 61 +++++++----------- R/simcontour.R | 50 ++++++++------- R/sir.R | 20 +++--- R/transplantpost.R | 58 +++++++++-------- R/triplot.R |only R/weibullregpost.R | 38 +++++------ inst |only man/bayes.influence.Rd | 2 man/bayes.model.selection.Rd |only man/bayes.probit.Rd | 12 ++- man/bayesresiduals.Rd | 2 man/betabinexch.Rd | 42 ++++++------ man/betabinexch0.Rd | 41 +++++------- man/bfexch.Rd | 38 +++++------ man/binomial.beta.mix.Rd |only man/blinreg.Rd | 2 man/bprobit.probs.Rd | 2 man/cauchyerrorpost.Rd | 42 ++++++------ man/discint.Rd | 2 man/footballscores.Rd | 2 man/gibbs.Rd | 2 man/groupeddatapost.Rd | 48 +++++++------- man/hiergibbs.Rd | 2 man/histprior.Rd | 2 man/howardprior.Rd | 46 ++++++------- man/impsampling.Rd | 33 ++++----- man/indepmetrop.Rd | 34 +++++----- man/laplace.Rd | 57 ++++++++--------- man/lbinorm.Rd | 44 ++++++------- man/logctablepost.Rd | 41 ++++++------ man/logisticpost.Rd | 42 ++++++------ man/logpoissgamma.Rd | 2 man/logpoissnormal.Rd | 2 man/mycontour.Rd | 55 ++++++---------- man/normal.normal.mix.Rd |only man/normchi2post.Rd | 37 +++++------ man/normpostpred.Rd |only man/normpostsim.Rd |only man/ordergibbs.Rd | 2 man/pbetap.Rd | 2 man/pbetat.Rd | 2 man/pdiscp.Rd | 2 man/poissgamexch.Rd | 42 ++++++------ man/poisson.gamma.mix.Rd |only man/predplot.Rd |only man/rdirichlet.Rd | 2 man/regroup.Rd | 2 man/rejectsampling.Rd | 30 ++++----- man/rigamma.Rd |only man/rtruncated.Rd |only man/rwmetrop.Rd | 40 ++++++------ man/simcontour.Rd | 55 ++++++---------- man/sir.Rd | 28 ++++---- man/studentdata.Rd | 2 man/transplantpost.Rd | 42 ++++++------ man/triplot.Rd |only man/weibullregpost.Rd | 42 ++++++------ 84 files changed, 848 insertions(+), 889 deletions(-)
Author: Yurii Aulchenko, with contributions from
Maksim Struchalin, Stephan Ripke and Toby Johnson
Title: genome-wide SNP association analysis
Description: a package for genome-wide association analysis between
quantitative or binary traits and single-nucleiotide
polymorphisms (SNPs).
Diff between GenABEL versions 1.3-5 dated 2008-02-17 and 1.3-7 dated 2008-04-17
GenABEL-1.3-5/GenABEL/src/fast.merge.cpp |only GenABEL-1.3-5/GenABEL/src/fast.merge.h |only GenABEL-1.3-5/GenABEL/test.merge.R |only GenABEL-1.3-7/GenABEL/CHANGES.LOG | 34 GenABEL-1.3-7/GenABEL/DESCRIPTION | 6 GenABEL-1.3-7/GenABEL/NAMESPACE | 2 GenABEL-1.3-7/GenABEL/R/HWE.show.R | 2 GenABEL-1.3-7/GenABEL/R/add.phdata.R | 70 GenABEL-1.3-7/GenABEL/R/add.plot.R | 33 GenABEL-1.3-7/GenABEL/R/ases.R | 1 GenABEL-1.3-7/GenABEL/R/autosomal.R | 30 GenABEL-1.3-7/GenABEL/R/ccfast.R | 6 GenABEL-1.3-7/GenABEL/R/check.marker.R | 312 GenABEL-1.3-7/GenABEL/R/check.marker.internal.R | 4 GenABEL-1.3-7/GenABEL/R/check.trait.R | 2 GenABEL-1.3-7/GenABEL/R/checkphengen.R |only GenABEL-1.3-7/GenABEL/R/convert.snp.mach.R | 6 GenABEL-1.3-7/GenABEL/R/descriptives.scan.R | 2 GenABEL-1.3-7/GenABEL/R/egscore.R | 43 GenABEL-1.3-7/GenABEL/R/estlambda.R | 38 GenABEL-1.3-7/GenABEL/R/export.merlin.R | 41 GenABEL-1.3-7/GenABEL/R/formetascore.R | 149 GenABEL-1.3-7/GenABEL/R/formetascore_engage.R | 68 GenABEL-1.3-7/GenABEL/R/grammar.R | 54 GenABEL-1.3-7/GenABEL/R/imphetcheck.R | 110 GenABEL-1.3-7/GenABEL/R/load.gwaa.data.R | 21 GenABEL-1.3-7/GenABEL/R/merge.gwaa.data.R |only GenABEL-1.3-7/GenABEL/R/merge.snp.data.R | 353 GenABEL-1.3-7/GenABEL/R/metascore.R | 126 GenABEL-1.3-7/GenABEL/R/mmscore.R | 50 GenABEL-1.3-7/GenABEL/R/npsubtreated.R | 67 GenABEL-1.3-7/GenABEL/R/plot.scan.gwaa.R | 74 GenABEL-1.3-7/GenABEL/R/polygenic.R | 13 GenABEL-1.3-7/GenABEL/R/qtscore.R | 105 GenABEL-1.3-7/GenABEL/R/show.ncbi.R | 3 GenABEL-1.3-7/GenABEL/R/snp.subset.R | 12 GenABEL-1.3-7/GenABEL/R/sortmap.internal.R |only GenABEL-1.3-7/GenABEL/R/summary.snp.data.R | 4 GenABEL-1.3-7/GenABEL/R/ztransform.R | 8 GenABEL-1.3-7/GenABEL/TODO | 1 GenABEL-1.3-7/GenABEL/data/ge03d2.RData |binary GenABEL-1.3-7/GenABEL/data/ge03d2.clean.RData |binary GenABEL-1.3-7/GenABEL/data/ge03d2c.RData |binary GenABEL-1.3-7/GenABEL/data/ge03d2ex.RData |binary GenABEL-1.3-7/GenABEL/data/ge03d2ex.clean.RData |binary GenABEL-1.3-7/GenABEL/data/srdta.RData |binary GenABEL-1.3-7/GenABEL/inst/doc/GenABEL-manual.pdf | 3745 +- GenABEL-1.3-7/GenABEL/inst/doc/GenABEL-tutorial.pdf |29908 +++++++++++++------- GenABEL-1.3-7/GenABEL/man/GenABEL-package.Rd | 6 GenABEL-1.3-7/GenABEL/man/add.phdata.Rd | 111 GenABEL-1.3-7/GenABEL/man/add.plot.Rd | 5 GenABEL-1.3-7/GenABEL/man/autosomal.Rd | 66 GenABEL-1.3-7/GenABEL/man/convert.snp.mach.Rd | 14 GenABEL-1.3-7/GenABEL/man/crnames.Rd | 54 GenABEL-1.3-7/GenABEL/man/descriptives.scan.Rd | 2 GenABEL-1.3-7/GenABEL/man/estlambda.Rd | 3 GenABEL-1.3-7/GenABEL/man/export.merlin.Rd | 1 GenABEL-1.3-7/GenABEL/man/formetascore.Rd | 136 GenABEL-1.3-7/GenABEL/man/grammar.Rd | 2 GenABEL-1.3-7/GenABEL/man/merge.gwaa.data.Rd |only GenABEL-1.3-7/GenABEL/man/merge.snp.data.Rd |only GenABEL-1.3-7/GenABEL/man/mmscore.Rd | 2 GenABEL-1.3-7/GenABEL/man/npsubtreated.Rd | 172 GenABEL-1.3-7/GenABEL/man/plot.scan.gwaa.Rd | 10 GenABEL-1.3-7/GenABEL/man/polygenic.Rd | 3 GenABEL-1.3-7/GenABEL/man/rntransform.Rd | 99 GenABEL-1.3-7/GenABEL/man/save.gwaa.data.Rd | 1 GenABEL-1.3-7/GenABEL/man/snp.subset.Rd | 2 GenABEL-1.3-7/GenABEL/man/ztransform.Rd | 94 GenABEL-1.3-7/GenABEL/src/gtps_container.cpp | 100 GenABEL-1.3-7/GenABEL/src/gtps_container.h | 34 GenABEL-1.3-7/GenABEL/src/merge.snp.data.cpp |only 72 files changed, 23862 insertions(+), 12558 deletions(-)
Author: T Jake Luciani
Diff between RSvgDevice versions 0.6.4 dated 2008-04-16 and 0.6.3 dated 2008-04-17
Title: An R SVG graphics device.
Description: A graphics device for R that uses the w3.org xml
standard for Scalable Vector Graphics.
RSvgDevice |only
1 file changed
Author: R. Gentleman, Elizabeth Whalen, W. Huber, S. Falcon
Title: graph: A package to handle graph data structures
Description: A package that implements some simple graph handling
capabilities.
Diff between graph versions 1.17.15 dated 2008-04-16 and 1.16.1 dated 2008-04-17
graph |only 1 file changed
Author: R Development Core Team
Title: GNOME Console for R
Description: Provides a console for R under Unix-alikes based on GNOME
Diff between gnomeGUI versions 2.7.0-2 dated 2008-04-16 and 2.7.0-1 dated 2008-04-17
gnomeGUI |only 1 file changed
Author: Michael Lawrence, Lyndon Drake
Title: Cairo-based cross-platform antialiased graphics device driver.
Description: Cairo/GTK graphics device driver with output to screen,
file (png, svg, pdf, and ps) or memory (GdkDrawable). The screen device
may be embedded into RGtk2 interfaces. Supports all interactive features
of other graphics devices, including getGraphicsEvent().
Diff between cairoDevice versions 2.6.1 dated 2008-04-16 and 2.6 dated 2008-04-17
cairoDevice |only 1 file changed
Author: Markus Kalisch, Martin Maechler
Title: Estimating the skeleton and equivalence class of a DAG
Description: Standard and robust estimation of the skeleton (ugraph)
and the equivalence class of a Directed Acyclic Graph (DAG) via the
PC-Algorithm. The equivalence class is represented by its (unique)
Completetd Partially Directed Acyclic Graph (CPDAG). Moreover, the
function pcSelect implements variable selection techniques.
Diff between pcalg versions 0.1-6 dated 2008-04-02 and 0.1-7 dated 2008-04-16
DESCRIPTION | 6 +- R/pcalg.R | 95 +++++++++++++++++++++++++--------------------- inst/doc/Sweave-pcalg.log | 20 ++++----- inst/doc/Sweave-pcalg.pdf |binary inst/doc/Sweave-pcalg.tex | 2 man/udag2pdag.Rd | 6 +- 6 files changed, 70 insertions(+), 59 deletions(-)
Author: Jonathan M. Lees
Title: Read in WIN format data
Description: Reads in WIN pickfile and waveform file, prepares data for RSEIS
Diff between WINRPACK versions 1.0-4 dated 2008-04-14 and 1.0-6 dated 2008-04-16
WINRPACK-1.0-4/WINRPACK/inst/doc/WIN2R-010.eps |only WINRPACK-1.0-4/WINRPACK/inst/doc/WIN2R-010.pdf |only WINRPACK-1.0-4/WINRPACK/inst/doc/WIN2R-011.eps |only WINRPACK-1.0-4/WINRPACK/inst/doc/WIN2R-011.pdf |only WINRPACK-1.0-4/WINRPACK/inst/doc/WIN2R-012.eps |only WINRPACK-1.0-4/WINRPACK/inst/doc/WIN2R-012.pdf |only WINRPACK-1.0-4/WINRPACK/inst/doc/WIN2R.tex |only WINRPACK-1.0-6/WINRPACK/DESCRIPTION | 8 ++++---- WINRPACK-1.0-6/WINRPACK/inst/doc/WIN2R.pdf |binary WINRPACK-1.0-6/WINRPACK/man/WINRPACK-package.Rd | 12 +++--------- WINRPACK-1.0-6/WINRPACK/man/XWINdata.Rd | 10 +++------- WINRPACK-1.0-6/WINRPACK/man/XWINdataASK.Rd | 14 +++++--------- WINRPACK-1.0-6/WINRPACK/man/get1WINPICK.Rd | 10 ++-------- WINRPACK-1.0-6/WINRPACK/man/readwinch.Rd | 12 +++--------- 14 files changed, 20 insertions(+), 46 deletions(-)
Author: Jonathan M. Lees
Title: Seismic Time Series Analysis Tools
Description: Multiple interactive codes to analyze seismic data, via, spectrum analysis, wavelet transforms, particle motion, hodograms.
Diff between RSEIS versions 1.0-6 dated 2008-03-28 and 1.0-9 dated 2008-04-16
RSEIS-1.0-6/RSEIS/inst/doc/Rplots.ps |only RSEIS-1.0-6/RSEIS/inst/doc/hodo-006.eps |only RSEIS-1.0-6/RSEIS/inst/doc/hodo-006.pdf |only RSEIS-1.0-6/RSEIS/inst/doc/hodo-007.eps |only RSEIS-1.0-6/RSEIS/inst/doc/hodo-007.pdf |only RSEIS-1.0-6/RSEIS/inst/doc/hodo-008.eps |only RSEIS-1.0-6/RSEIS/inst/doc/hodo-008.pdf |only RSEIS-1.0-6/RSEIS/inst/doc/hodo-009.eps |only RSEIS-1.0-6/RSEIS/inst/doc/hodo-009.pdf |only RSEIS-1.0-6/RSEIS/inst/doc/hodo-010.eps |only RSEIS-1.0-6/RSEIS/inst/doc/hodo-010.pdf |only RSEIS-1.0-6/RSEIS/inst/doc/hodo-011.eps |only RSEIS-1.0-6/RSEIS/inst/doc/hodo-011.pdf |only RSEIS-1.0-6/RSEIS/inst/doc/hodo-012.eps |only RSEIS-1.0-6/RSEIS/inst/doc/hodo-012.pdf |only RSEIS-1.0-6/RSEIS/inst/doc/hodo.aux |only RSEIS-1.0-6/RSEIS/inst/doc/hodo.dvi |only RSEIS-1.0-6/RSEIS/inst/doc/hodo.log |only RSEIS-1.0-6/RSEIS/inst/doc/hodo.tex |only RSEIS-1.0-6/RSEIS/inst/doc/rseis-004.eps |only RSEIS-1.0-6/RSEIS/inst/doc/rseis-004.pdf |only RSEIS-1.0-6/RSEIS/inst/doc/rseis-005.eps |only RSEIS-1.0-6/RSEIS/inst/doc/rseis-005.pdf |only RSEIS-1.0-6/RSEIS/inst/doc/rseis-006.eps |only RSEIS-1.0-6/RSEIS/inst/doc/rseis-006.pdf |only RSEIS-1.0-6/RSEIS/inst/doc/rseis-012.eps |only RSEIS-1.0-6/RSEIS/inst/doc/rseis-012.pdf |only RSEIS-1.0-6/RSEIS/inst/doc/rseis.aux |only RSEIS-1.0-6/RSEIS/inst/doc/rseis.log |only RSEIS-1.0-6/RSEIS/inst/doc/rseis.tex |only RSEIS-1.0-9/RSEIS/DESCRIPTION | 6 +++--- RSEIS-1.0-9/RSEIS/R/jpostscript.R | 2 +- RSEIS-1.0-9/RSEIS/inst/doc/hodo.pdf |binary RSEIS-1.0-9/RSEIS/inst/doc/rseis.pdf |binary RSEIS-1.0-9/RSEIS/man/BKpfile2ypx.Rd | 3 +-- RSEIS-1.0-9/RSEIS/man/FRWDft.Rd | 2 -- RSEIS-1.0-9/RSEIS/man/GAZI.Rd | 4 +--- RSEIS-1.0-9/RSEIS/man/GLUE.GET.seis.Rd | 4 +--- RSEIS-1.0-9/RSEIS/man/Gcols.Rd | 2 -- RSEIS-1.0-9/RSEIS/man/GreatDist.Rd | 4 +--- RSEIS-1.0-9/RSEIS/man/PLOT.TTCURVE.Rd | 4 +--- RSEIS-1.0-9/RSEIS/man/PSTLTcurve.Rd | 6 ++---- RSEIS-1.0-9/RSEIS/man/RSEIS-package.Rd | 4 ++-- RSEIS-1.0-9/RSEIS/man/YRsecdif.Rd | 4 ++-- RSEIS-1.0-9/RSEIS/man/addtix.Rd | 4 +--- RSEIS-1.0-9/RSEIS/man/autoreg.Rd | 6 ++---- RSEIS-1.0-9/RSEIS/man/brune.doom.Rd | 6 ++---- RSEIS-1.0-9/RSEIS/man/complex.hodo.Rd | 6 ++---- RSEIS-1.0-9/RSEIS/man/drive.MTM.Rd | 6 ++---- RSEIS-1.0-9/RSEIS/man/hodogram.Rd | 6 ++---- RSEIS-1.0-9/RSEIS/man/itoxyz.Rd | 4 +--- RSEIS-1.0-9/RSEIS/man/plt.MTM0.Rd | 4 +--- RSEIS-1.0-9/RSEIS/man/tomo.colors.Rd | 2 -- 53 files changed, 28 insertions(+), 61 deletions(-)
Author: Jonathan M. Lees
Title: Topographic and Geologic Mapping
Description: Set of routines for making Map Projections (forward and inverse), Topographic Maps, Perspective plots, Geological Maps, geological map symbols, geological databases, interactive plotting and selection of focus regions.
Diff between GEOmap versions 1.0-5 dated 2008-03-25 and 1.0-8 dated 2008-04-16
GEOmap-1.0-5/GEOmap/inst/doc/GEOmap.aux |only GEOmap-1.0-5/GEOmap/inst/doc/GEOmap.log |only GEOmap-1.0-5/GEOmap/inst/doc/GEOmap.tex |only GEOmap-1.0-5/GEOmap/inst/doc/Rplots.ps |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-001.eps |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-001.pdf |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-002.eps |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-002.pdf |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-003.eps |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-003.pdf |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-004.eps |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-004.pdf |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-005.eps |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-005.pdf |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-006.eps |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-006.pdf |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-007.eps |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-007.pdf |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-008.eps |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-008.pdf |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-011.eps |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-011.pdf |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-012.eps |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-012.pdf |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-013.eps |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-013.pdf |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-014.eps |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-014.pdf |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-017.eps |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-017.pdf |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-018.eps |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-018.pdf |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-019.eps |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-019.pdf |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-020.eps |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-020.pdf |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-022.eps |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-022.pdf |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-023.eps |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-023.pdf |only GEOmap-1.0-8/GEOmap/DESCRIPTION | 6 +++--- GEOmap-1.0-8/GEOmap/R/jpostscript.R | 2 +- GEOmap-1.0-8/GEOmap/inst/doc/GEOmap.pdf |binary GEOmap-1.0-8/GEOmap/man/GEOmap-package.Rd | 4 ++-- GEOmap-1.0-8/GEOmap/man/OverTurned.Rd | 4 +--- GEOmap-1.0-8/GEOmap/man/horseshoe.Rd | 4 +--- GEOmap-1.0-8/GEOmap/man/itoxyz.Rd | 4 +--- GEOmap-1.0-8/GEOmap/man/thrust.Rd | 4 +--- 48 files changed, 10 insertions(+), 18 deletions(-)
Author: Roger Bivand
Title: Interface between GRASS 6 geographical information system and R
Description: Interpreted interface between GRASS 6 geographical
information system and R, based on starting R from within the GRASS
environment.
Diff between spgrass6 versions 0.5-5 dated 2008-04-08 and 0.5-7 dated 2008-04-16
DESCRIPTION | 28 ++++++++++++++-------------- R/bin_link.R | 2 +- R/spgrass6.R | 2 ++ man/readRAST6.Rd | 20 ++++++++++++-------- man/readVECT6.Rd | 6 ++++-- 5 files changed, 33 insertions(+), 25 deletions(-)
Author: Graham Williams, Zementis Inc, Hemant Ishwaran, Udaya B. Kogalur,
Rajarshi Guha
Title: Generate PMML for various models
Description: The Predictive Modelling Markup Language (PMML) is a language
for representing models, in an application independent way. Such models
can then be loaded into other applications supporting PMML, including
ADAPA from Zementis, Teradata Warehouse Miner and IBM's DB2.
The package provides a generic pmml function to generate pmml for an
object. Using a S3 generic function the approriate method for the
class of the supplied object is dispatched.
The package currently supports the export of PMML for linear
regression, SVMs, rpart classification trees,
randomSurvivalForest forest models, and kmeans clusters.
This package is part of the Rattle toolkit.
Diff between pmml versions 1.1.5 dated 2008-03-12 and 1.1.6 dated 2008-04-16
DESCRIPTION | 13 R/pmml.R | 2003 ++++++++++++++++++++++++++++++------------------------------ 2 files changed, 1015 insertions(+), 1001 deletions(-)
Author: Allen Day
Diff between getopt versions 1.1 dated 2008-04-14 and 1.11 dated 2008-04-16
Title: C-like getopt behavior.
Description: Use this with Rscript to write ``#!'' shebang scripts that accept short and long flags/options.
DESCRIPTION | 6 +--
R/getopt.R | 88 ++++++++++++++++++++++++++++++++++++--------------
man/getopt.package.Rd | 57 +++++++++++++++++++++++++++++++-
3 files changed, 122 insertions(+), 29 deletions(-)
Author: Andrew Robinson
Diff between equivalence versions 0.5.1 dated 2008-01-08 and 0.5.3 dated 2008-04-16
Title: Provides tests and graphics for assessing tests of equivalence
Description: This package provides some statistical tests and graphics
for assessing tests of equivalence. Such tests have similarity
as the alternative hypothesis instead of the null. Sample
datasets are included.
equivalence-0.5.1/equivalence/man/equiv.boot.lm.Rd |only
equivalence-0.5.3/equivalence/ChangeLog | 32 ++++++++++++++--
equivalence-0.5.3/equivalence/DESCRIPTION | 6 +--
equivalence-0.5.3/equivalence/NAMESPACE | 2 -
equivalence-0.5.3/equivalence/R/equiv.boot.R | 15 +++++--
equivalence-0.5.3/equivalence/R/equiv.boot.lm.R | 26 +++++++------
equivalence-0.5.3/equivalence/man/equiv.boot.Rd | 15 +++++--
equivalence-0.5.3/equivalence/man/equivalence.xyplot.Rd | 2 -
8 files changed, 70 insertions(+), 28 deletions(-)
Author: M. Suzette Blanchard
Diff between PKtools versions 1.3-0 dated 2007-03-27 and 1.4-0 dated 2008-04-16
Title: unified computational interfaces for population PK
Description: computations for WinBUGS, NONMEM, NLME
DESCRIPTION | 10
R/PKtools.R | 5388 +++++++++++++++++++++----------------------
inst/doc/PKtools.pdf | 2887 +++++++++++------------
inst/doc/PKtoolsVignette.pdf |binary
man/AICcomp.Rd | 2
man/HTMLtools.Rd | 17
man/RunWB.Rd | 4
man/bugs.Rd | 16
man/indEst.Rd | 4
man/obvsprplot.Rd | 2
man/paramEst.Rd | 4
man/tex.Rd | 12
12 files changed, 4187 insertions(+), 4159 deletions(-)
Author: Ron Wehrens
Title: SOM networks for comparing patterns with peak shifts
Description: SOM networks for comparing patterns with peak shifts.
Diff between wccsom versions 1.2.0 dated 2006-09-19 and 1.2.2 dated 2008-04-15
DESCRIPTION | 6 +++--- R/plot.R | 8 +++++--- R/summary.R | 8 ++++++-- R/wccsom.R | 6 +++--- man/plot.wccsom.Rd | 2 +- man/predict.wccsom.Rd | 2 +- man/summary.wccsom.Rd | 2 +- 7 files changed, 20 insertions(+), 14 deletions(-)
Author: Ron Wehrens
Title: Supervised and unsupervised self-organising maps
Description: Supervised and unsupervised self-organising maps
Diff between kohonen versions 2.0.2 dated 2007-11-09 and 2.0.3 dated 2008-04-15
CHANGES | 8 ++++++++ DESCRIPTION | 6 +++--- R/plot.kohonen.R | 13 +++++++++---- R/supersom.R | 6 +++--- man/map.kohonen.Rd | 2 +- man/plot.kohonen.Rd | 14 +++++++------- man/predict.kohonen.Rd | 2 +- man/supersom.Rd | 6 ++++++ 8 files changed, 38 insertions(+), 19 deletions(-)
Author: Sřren Hřjsgaard
Diff between gRbase versions 0.3.1 dated 2008-03-26 and 0.3.2 dated 2008-04-15
Title: A package for graphical modelling in R
Description: This package defines S3-classes gmData (graphical meta data), gModel (graphical model). Several other graphical modelling packages rely on these fundamental constructs. gRbase illustrates how hierarchical log-linear models (hllm) may be implemented.
ChangeLog | 10 ++
DESCRIPTION | 4
R/dualRep.R |only
R/formulae.R | 36 +++----
R/setopsC.R | 21 +++-
R/setopsR.R | 18 +++
inst/doc/gRbase.log | 234 +++++++++++++++++++++++--------------------------
inst/doc/gRbase.pdf |binary
man/gRbase-internal.Rd | 4
9 files changed, 179 insertions(+), 148 deletions(-)
Author: Jukka Jokinen
Diff between drm versions 0.5-6 dated 2007-12-30 and 0.5-7 dated 2008-04-15
Title: Regression and association models for repeated categorical data
Description: Likelihood-based marginal regression and association modelling for repeated, or otherwise clustered, categorical responses using dependence ratio as a measure of the association
DESCRIPTION | 8 -
R/depratio.R | 232 ++++++++++++++++++++++++++++-----------------------------
R/drm.R | 160 ++++++++++++++++++++-------------------
man/cluster.Rd | 2
4 files changed, 204 insertions(+), 198 deletions(-)
Author: Markus Helbig
Diff between JGR versions 1.5-17 dated 2008-04-14 and 1.5-18 dated 2008-04-15
Title: JGR - Java Gui for R
Description: Java GUI for R - cross-platform, universal and unified Graphical User Interface for R. For full functionality on Windows and Mac OS X JGR requires a start application which depends on your OS. This can be downloaded from JGR's website: http://www.rosuda.org/JGR
DESCRIPTION | 2 +-
NEWS | 3 +++
R/JGR.R | 4 ++--
inst/java/JGR.jar |binary
launcher/macosx/main.c | 2 +-
launcher/windows/jgr.c | 2 +-
6 files changed, 8 insertions(+), 5 deletions(-)
Author: Andrew O. Finley
Diff between spBayes versions 0.0-6 dated 2007-04-16 and 0.0-7 dated 2008-04-15
Title: Univariate and Multivariate Spatial Modeling
Description: spBayes fits Gaussian univariate and multivariate models with Markov chain Monte Carlo (MCMC).
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spBayes-0.0-7/spBayes/DESCRIPTION | 12
spBayes-0.0-7/spBayes/NAMESPACE | 5
spBayes-0.0-7/spBayes/R/BayesianRegression.R |only
spBayes-0.0-7/spBayes/R/BayesianUtilities.R | 185 ++---
spBayes-0.0-7/spBayes/R/dic.R | 625 +++++++++++++-----
spBayes-0.0-7/spBayes/R/mkMatUtil.R | 16
spBayes-0.0-7/spBayes/R/sp.predict.R | 676 ++++++++++++++------
spBayes-0.0-7/spBayes/R/splm.R |only
spBayes-0.0-7/spBayes/data/BEF.dat.tab |only
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spBayes-0.0-7/spBayes/inst/doc/spBayes-vignette.Rnw | 26
spBayes-0.0-7/spBayes/inst/doc/spBayes-vignette.log | 281 +++-----
spBayes-0.0-7/spBayes/inst/doc/spBayes-vignette.pdf |binary
spBayes-0.0-7/spBayes/inst/doc/spBayes-vignette.tex | 26
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spBayes-0.0-7/spBayes/man/bayes.lm.ref.Rd | 26
spBayes-0.0-7/spBayes/man/ggt.sp.Rd | 14
spBayes-0.0-7/spBayes/man/mk.mv.X.Rd | 2
spBayes-0.0-7/spBayes/man/prior.Rd | 4
spBayes-0.0-7/spBayes/man/rf.n1000.dat.Rd |only
spBayes-0.0-7/spBayes/man/rf.n200.dat.Rd |only
spBayes-0.0-7/spBayes/man/rf.n500.dat.Rd |only
spBayes-0.0-7/spBayes/man/sp.DIC.Rd | 146 +++-
spBayes-0.0-7/spBayes/man/sp.lm.Rd |only
spBayes-0.0-7/spBayes/man/sp.predict.Rd | 209 +++++-
spBayes-0.0-7/spBayes/src/covmodel.cpp | 2
spBayes-0.0-7/spBayes/src/covmodel.h | 2
spBayes-0.0-7/spBayes/src/dic.cpp | 120 +--
spBayes-0.0-7/spBayes/src/ggtsp.cpp | 84 +-
spBayes-0.0-7/spBayes/src/spPredict.cpp | 92 +-
spBayes-0.0-7/spBayes/src/splm.cpp |only
spBayes-0.0-7/spBayes/src/splmDIC.cpp |only
spBayes-0.0-7/spBayes/src/splmPredict.cpp |only
spBayes-0.0-7/spBayes/src/util.cpp | 21
spBayes-0.0-7/spBayes/src/util.h | 6
spBayes-0.0-7/spBayes/src/vprior.cpp | 2
spBayes-0.0-7/spBayes/src/vprior.h | 2
83 files changed, 1714 insertions(+), 870 deletions(-)
Author: Nicole Kraemer
Diff between ppls versions 1.0 dated 2007-10-07 and 1.01 dated 2008-04-15
Title: Penalized Partial Least Squares
Description: This package contains linear and nonlinear regression methods based on Partial Least Squares and Penalization Techniques.
DESCRIPTION | 15 ++++++-----
R/X2s.R | 31 +++++++++++++++---------
R/penalized.pls.R | 10 ++++++-
R/penalized.pls.cv.R | 2 -
R/penalized.pls.default.R | 2 -
R/penalized.pls.select.R |only
R/ppls.splines.cv.R | 14 +++++++----
man/Penalty.matrix.Rd | 21 +++++++---------
man/X2s.Rd | 24 +++++++++----------
man/new.penalized.pls.Rd | 30 +++++++++--------------
man/normalize.vector.Rd | 4 +--
man/penalized.pls.Rd | 54 +++++++++++++++++++++++++++----------------
man/penalized.pls.cv.Rd | 42 ++++++++++++++++-----------------
man/penalized.pls.default.Rd | 12 ++++-----
man/penalized.pls.kernel.Rd | 16 ++++++------
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man/ppls-package.Rd | 2 -
man/ppls.splines.cv.Rd | 42 +++++++++++++++++++--------------
man/sim.data.ppls.Rd | 34 +++++++++++++--------------
19 files changed, 193 insertions(+), 162 deletions(-)
Author: Nicholas J. Lewin-Koh and Roger Bivand, contributions by Edzer J. Pebesma, Eric Archer, Stéphane Dray, David Forrest, Patrick Giraudoux, Duncan Golicher, Virgilio Gómez Rubio, Patrick Hausmann, Thomas Jagger, Sebastian P. Luque, Don MacQueen, Andrew Niccolai and Tom Short
Title: Tools for reading and handling spatial objects
Description: Set of tools for manipulating and reading geographic data, in particular ESRI shapefiles; C code used from shapelib. It includes binary access to GSHHS 1.5 shoreline files. The package also provides interface wrappers for exchanging spatial objects with packages such as PBSmapping, spatstat, maps, RArcInfo, Stata tmap, WinBUGS, Mondrian, and others.
Diff between maptools versions 0.7-9 dated 2008-04-10 and 0.7-12 dated 2008-04-15
ChangeLog | 8 ++++ DESCRIPTION | 6 +-- INDEX | 106 ++++++++++++++++++++++++++++----------------------------- R/sp2pbs.R | 26 +++++++++---- inst/ChangeLog | 8 ++++ 5 files changed, 89 insertions(+), 65 deletions(-)
Author: Raoul Grasman and Robert B. Gramacy
Diff between geometry versions 0.1 dated 2007-12-12 and 0.1-1 dated 2008-04-15
Title: Mesh generation and surface tesselation
Description: This package makes the qhull library (www.qhull.org) available in R,
in a similar manner as in Octave and MATLAB. Qhull computes convex hulls,
Delaunay triangulations, halfspace intersections about a point, Voronoi diagrams,
furthest-site Delaunay triangulations, and furthest-site Voronoi diagrams.
It runs in 2-d, 3-d, 4-d, and higher dimensions. It implements the Quickhull
algorithm for computing the convex hull. Qhull does not support constrained
Delaunay triangulations, or mesh generation of non-convex objects, but the
package does include some R functions that allow for this. Currently the package
only gives access to Delaunay triangulation and convex hull computation.
geometry-0.1-1/geometry/._COPYING |only
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geometry-0.1-1/geometry/man/delaunayn.Rd | 7 ++++++-
geometry-0.1-1/geometry/src/convhulln.c | 6 +++++-
geometry-0.1-1/geometry/src/delaunayn.c | 6 +++++-
geometry-0.1-1/geometry/src/global.c | 3 ++-
geometry-0.1/geometry/src/src/__voronoi__.c |only
63 files changed, 25 insertions(+), 13 deletions(-)
More information about RExcelInstaller at CRAN
Permanent link
Author: Jeffrey A. Ryan, Josh M. Ulrich
Title: Extensible Time Series
Description: Provide for uniform handling of R's different time-based data classes by extending zoo, maximizing native format information preservation and allowing for user level customization and extension, while simplifying cross-class interoperability.
Diff between xts versions 0.0-11 dated 2008-03-05 and 0.0-13 dated 2008-04-14
xts-0.0-11/xts/tests |only xts-0.0-13/xts/DESCRIPTION | 6 - xts-0.0-13/xts/NAMESPACE | 26 ++++++ xts-0.0-13/xts/R/Ops.xts.R |only xts-0.0-13/xts/R/axTicksByTime.R |only xts-0.0-13/xts/R/coredata.xts.R | 26 ++++++ xts-0.0-13/xts/R/data.frame.R | 2 xts-0.0-13/xts/R/endpoints.R | 9 -- xts-0.0-13/xts/R/matrix.R | 2 xts-0.0-13/xts/R/nperiods.R |only xts-0.0-13/xts/R/period.R | 78 ++++++++++++++----- xts-0.0-13/xts/R/periodicity.R | 38 ++++++--- xts-0.0-13/xts/R/plot.R | 34 ++------ xts-0.0-13/xts/R/toperiod.R | 3 xts-0.0-13/xts/R/xts.methods.R | 142 ++++++++++++++++++++++++------------ xts-0.0-13/xts/R/xtsible.R |only xts-0.0-13/xts/WISHLIST | 31 +++---- xts-0.0-13/xts/man/apply.monthly.Rd | 27 +++--- xts-0.0-13/xts/man/as.xts.Rd | 6 + xts-0.0-13/xts/man/axTicksByTime.Rd |only xts-0.0-13/xts/man/coredata.xts.Rd |only xts-0.0-13/xts/man/endpoints.Rd | 14 +++ xts-0.0-13/xts/man/ndays.Rd |only xts-0.0-13/xts/man/period.max.Rd |only xts-0.0-13/xts/man/period.min.Rd |only xts-0.0-13/xts/man/period.prod.Rd |only xts-0.0-13/xts/man/period.sum.Rd |only xts-0.0-13/xts/man/to.period.Rd | 31 +------ xts-0.0-13/xts/man/xts-package.Rd | 4 - 29 files changed, 304 insertions(+), 175 deletions(-)
Author: Jerome Sueur
Diff between seewave versions 1.4.7 dated 2008-02-25 and 1.4.8 dated 2008-04-14
Title: Time wave analysis and graphical representation
Description: seewave provides functions for analysing, manipulating, displaying, editing and synthesizing time waves (particularly sound). This package processes time analysis (oscillograms and envelopes), spectral content, resonance quality factor, cross correlation and autocorrelation, zero-crossing, dominant frequency, analytic signal, frequency coherence, 2D and 3D spectrograms and many other analyses.
seewave-1.4.7/seewave/man/zc.Rd |only
seewave-1.4.8/seewave/DESCRIPTION | 14
seewave-1.4.8/seewave/R/seewave.r | 984 ++++++++++++++++----------
seewave-1.4.8/seewave/demo/seewave.R | 18
seewave-1.4.8/seewave/inst/CITATION | 17
seewave-1.4.8/seewave/man/H.Rd | 19
seewave-1.4.8/seewave/man/Q.Rd | 2
seewave-1.4.8/seewave/man/addsilw.Rd | 6
seewave-1.4.8/seewave/man/afilter.Rd | 2
seewave-1.4.8/seewave/man/ama.Rd | 15
seewave-1.4.8/seewave/man/attenuation.Rd | 2
seewave-1.4.8/seewave/man/autoc.Rd | 10
seewave-1.4.8/seewave/man/ccoh.Rd | 4
seewave-1.4.8/seewave/man/ceps.Rd | 11
seewave-1.4.8/seewave/man/cepstro.Rd | 4
seewave-1.4.8/seewave/man/coh.Rd | 6
seewave-1.4.8/seewave/man/convSPL.Rd | 2
seewave-1.4.8/seewave/man/corenv.Rd | 20
seewave-1.4.8/seewave/man/corspec.Rd | 2
seewave-1.4.8/seewave/man/covspectro.Rd | 2
seewave-1.4.8/seewave/man/csh.Rd | 10
seewave-1.4.8/seewave/man/cutw.Rd | 8
seewave-1.4.8/seewave/man/dBscale.Rd | 2
seewave-1.4.8/seewave/man/deletew.Rd | 13
seewave-1.4.8/seewave/man/dfreq.Rd | 9
seewave-1.4.8/seewave/man/diffenv.Rd | 37
seewave-1.4.8/seewave/man/diffspec.Rd | 2
seewave-1.4.8/seewave/man/diffwave.Rd | 21
seewave-1.4.8/seewave/man/dynspec.rd | 22
seewave-1.4.8/seewave/man/echo.rd | 4
seewave-1.4.8/seewave/man/env.Rd |only
seewave-1.4.8/seewave/man/export.Rd | 2
seewave-1.4.8/seewave/man/fadew.rd | 2
seewave-1.4.8/seewave/man/fdoppler.rd | 2
seewave-1.4.8/seewave/man/ffilter.Rd | 2
seewave-1.4.8/seewave/man/field.rd | 2
seewave-1.4.8/seewave/man/fir.Rd | 2
seewave-1.4.8/seewave/man/ftwindow.Rd | 2
seewave-1.4.8/seewave/man/fund.Rd | 11
seewave-1.4.8/seewave/man/hilbert.Rd |only
seewave-1.4.8/seewave/man/ifreq.Rd |only
seewave-1.4.8/seewave/man/lfs.Rd | 2
seewave-1.4.8/seewave/man/listen.Rd | 6
seewave-1.4.8/seewave/man/meanspec.Rd | 4
seewave-1.4.8/seewave/man/mel.Rd | 2
seewave-1.4.8/seewave/man/moredB.Rd | 2
seewave-1.4.8/seewave/man/mutew.Rd | 8
seewave-1.4.8/seewave/man/noise.Rd | 2
seewave-1.4.8/seewave/man/orni.Rd | 2
seewave-1.4.8/seewave/man/oscillo.Rd | 36
seewave-1.4.8/seewave/man/oscilloST.Rd | 16
seewave-1.4.8/seewave/man/pastew.Rd | 6
seewave-1.4.8/seewave/man/pellucens.Rd | 2
seewave-1.4.8/seewave/man/pulse.Rd | 2
seewave-1.4.8/seewave/man/repw.rd | 2
seewave-1.4.8/seewave/man/resamp.Rd | 2
seewave-1.4.8/seewave/man/revw.Rd | 2
seewave-1.4.8/seewave/man/rmam.Rd |only
seewave-1.4.8/seewave/man/rmoffset.Rd | 2
seewave-1.4.8/seewave/man/savewav.Rd | 6
seewave-1.4.8/seewave/man/seewave.internal.rd | 1
seewave-1.4.8/seewave/man/seewave.package.Rd | 14
seewave-1.4.8/seewave/man/setenv.rd | 20
seewave-1.4.8/seewave/man/sfm.Rd | 2
seewave-1.4.8/seewave/man/sh.Rd | 2
seewave-1.4.8/seewave/man/sheep.Rd | 2
seewave-1.4.8/seewave/man/simspec.Rd | 4
seewave-1.4.8/seewave/man/spec.Rd | 4
seewave-1.4.8/seewave/man/specprop.Rd | 6
seewave-1.4.8/seewave/man/spectro.Rd | 13
seewave-1.4.8/seewave/man/spectro3D.Rd | 4
seewave-1.4.8/seewave/man/synth.Rd | 2
seewave-1.4.8/seewave/man/th.Rd | 17
seewave-1.4.8/seewave/man/timer.Rd | 2
seewave-1.4.8/seewave/man/wasp.rd | 14
seewave-1.4.8/seewave/man/zapsilw.rd | 13
seewave-1.4.8/seewave/man/zc.rd |only
77 files changed, 889 insertions(+), 628 deletions(-)
Author: Frank Schaarschmidt
Title: Confidence intervals for two sample comparisons
Description: Calculation of the parametric, nonparametric confidence intervals
for the difference or ratio of location parameters and for the difference, ratio
and odds-ratio of binomial proportion for comparison of independent samples.
CI are not adjusted for multiplicity. A by statement allows calculation of CI
separately for the levels of further factors. Please note that, when a (generalized)
linear model can be reasonably assumed, there are smarter methods for CI calculation
available than are implemented in this package!
Diff between pairwiseCI versions 0.1-10 dated 2008-01-28 and 0.1-11 dated 2008-04-14
DESCRIPTION | 12 ++++++----- R/ProfileGLMCountMethods.R |only R/Prop.or.R | 2 - R/Prop.ratio.R | 4 +-- R/pairwiseCI.R | 5 ++-- R/pairwiseCICont.R | 2 - man/pairwiseCI.Rd | 33 ++++++++++++++++++------------- man/pairwiseCImethodsCount.Rd |only man/pairwiseCImethodsProp.Rd | 44 +++++++++++++++++++++++++++++------------- man/profileDG.Rd |only 10 files changed, 64 insertions(+), 38 deletions(-)
Author: Edgar Acuna
Diff between dprep versions 1.0 dated 2005-07-11 and 2.0 dated 2008-04-14
Title: Data preprocessing and visualization functions for
classification
Description: Functions for normalization, handling of missing values,
discretization, outlier detection, feature selection, and
visualization
dprep-1.0/dprep/README |only
dprep-1.0/dprep/src/README |only
dprep-2.0/dprep/DESCRIPTION | 21 +++---
dprep-2.0/dprep/R/assig.R | 2
dprep-2.0/dprep/R/baysout.R | 2
dprep-2.0/dprep/R/ce.impute.R | 2
dprep-2.0/dprep/R/ce.knn.imp.R | 2
dprep-2.0/dprep/R/ce.mimp.R | 2
dprep-2.0/dprep/R/chiMerge.R | 2
dprep-2.0/dprep/R/circledraw.R |only
dprep-2.0/dprep/R/clean.R | 2
dprep-2.0/dprep/R/closest.R | 2
dprep-2.0/dprep/R/combinations.R | 2
dprep-2.0/dprep/R/crossval.R | 8 +-
dprep-2.0/dprep/R/cv10knn2.R | 2
dprep-2.0/dprep/R/cv10lda2.R | 2
dprep-2.0/dprep/R/cv10log.R | 2
dprep-2.0/dprep/R/cv10mlp.R | 2
dprep-2.0/dprep/R/cv10rpart2.R | 2
dprep-2.0/dprep/R/decscale.R | 2
dprep-2.0/dprep/R/disc.1r.R | 2
dprep-2.0/dprep/R/disc.ef.R | 2
dprep-2.0/dprep/R/disc.ew.R | 2
dprep-2.0/dprep/R/disc.mentr.R | 2
dprep-2.0/dprep/R/disc2.R | 2
dprep-2.0/dprep/R/discretevar.R | 2
dprep-2.0/dprep/R/dist.to.knn.R | 2
dprep-2.0/dprep/R/distan2.R | 2
dprep-2.0/dprep/R/distancia.R | 2
dprep-2.0/dprep/R/ec.knnimp.R | 2
dprep-2.0/dprep/R/finco.R | 2
dprep-2.0/dprep/R/imagmiss.R | 4 -
dprep-2.0/dprep/R/inconsist.R | 2
dprep-2.0/dprep/R/knneigh.vect.R | 2
dprep-2.0/dprep/R/lofactor.R | 2
dprep-2.0/dprep/R/lvf.R | 2
dprep-2.0/dprep/R/mahaout.R | 4 -
dprep-2.0/dprep/R/mardia.R | 2
dprep-2.0/dprep/R/maxdist.R | 2
dprep-2.0/dprep/R/maxlof.R | 2
dprep-2.0/dprep/R/midpoints.R | 2
dprep-2.0/dprep/R/mmnorm.R | 2
dprep-2.0/dprep/R/mo3.R | 2
dprep-2.0/dprep/R/mo4.R | 2
dprep-2.0/dprep/R/moda.R | 2
dprep-2.0/dprep/R/near1.R | 2
dprep-2.0/dprep/R/near2.R | 2
dprep-2.0/dprep/R/nnmiss.R | 2
dprep-2.0/dprep/R/outbox.R | 2
dprep-2.0/dprep/R/parallelplot.R | 30 ++++----
dprep-2.0/dprep/R/radviz2d.R |only
dprep-2.0/dprep/R/rangenorm.R | 3
dprep-2.0/dprep/R/reachability.R | 2
dprep-2.0/dprep/R/redundancy.R | 2
dprep-2.0/dprep/R/relief.R | 2
dprep-2.0/dprep/R/reliefcat.R | 2
dprep-2.0/dprep/R/reliefcont.R | 2
dprep-2.0/dprep/R/robout.R | 4 -
dprep-2.0/dprep/R/row.matches.R | 2
dprep-2.0/dprep/R/sbs1.R | 2
dprep-2.0/dprep/R/score.R | 2
dprep-2.0/dprep/R/sffs.R | 2
dprep-2.0/dprep/R/sfs.R | 2
dprep-2.0/dprep/R/sfs1.R | 2
dprep-2.0/dprep/R/signorm.R | 2
dprep-2.0/dprep/R/softmaxnorm.R | 2
dprep-2.0/dprep/R/starcoord.R | 120 +++++++++++++++++------------------
dprep-2.0/dprep/R/surveyplot.R | 2
dprep-2.0/dprep/R/tchisq.R | 2
dprep-2.0/dprep/R/top.R | 2
dprep-2.0/dprep/R/vvalen.R | 2
dprep-2.0/dprep/R/vvalen1.R | 2
dprep-2.0/dprep/R/znorm.R | 2
dprep-2.0/dprep/Read-and-delete-me |only
dprep-2.0/dprep/data/breastw.rda |binary
dprep-2.0/dprep/data/bupa.rda |binary
dprep-2.0/dprep/data/censusn.rda |binary
dprep-2.0/dprep/data/colon.rda |binary
dprep-2.0/dprep/data/diabetes.rda |binary
dprep-2.0/dprep/data/eje1dis.rda |binary
dprep-2.0/dprep/data/hawkins.rda |binary
dprep-2.0/dprep/data/heartc.rda |binary
dprep-2.0/dprep/data/hepatitis.rda |binary
dprep-2.0/dprep/data/ionosphere.rda |binary
dprep-2.0/dprep/data/my.iris.rda |binary
dprep-2.0/dprep/data/pp.golub.rda |binary
dprep-2.0/dprep/data/sonar.rda |binary
dprep-2.0/dprep/data/srbct.rda |binary
dprep-2.0/dprep/data/vehicle.rda |binary
dprep-2.0/dprep/man/assig.Rd | 1
dprep-2.0/dprep/man/baysout.Rd | 10 +-
dprep-2.0/dprep/man/bupa.Rd | 2
dprep-2.0/dprep/man/ce.impute.Rd | 9 +-
dprep-2.0/dprep/man/ce.knn.imp.Rd | 13 ++-
dprep-2.0/dprep/man/ce.mimp.Rd | 10 +-
dprep-2.0/dprep/man/censusn.Rd | 1
dprep-2.0/dprep/man/chiMerge.Rd | 15 ++--
dprep-2.0/dprep/man/circledraw.Rd |only
dprep-2.0/dprep/man/clean.Rd | 6 -
dprep-2.0/dprep/man/closest.Rd | 10 +-
dprep-2.0/dprep/man/colon.Rd | 10 +-
dprep-2.0/dprep/man/combinations.Rd | 4 -
dprep-2.0/dprep/man/crossval.Rd | 8 +-
dprep-2.0/dprep/man/cv10knn2.Rd | 8 +-
dprep-2.0/dprep/man/cv10lda2.Rd | 5 -
dprep-2.0/dprep/man/cv10log.Rd | 4 -
dprep-2.0/dprep/man/cv10mlp.Rd | 6 -
dprep-2.0/dprep/man/cv10rpart2.Rd | 11 +--
dprep-2.0/dprep/man/decscale.Rd | 4 -
dprep-2.0/dprep/man/diabetes.Rd | 6 -
dprep-2.0/dprep/man/disc.ef.Rd | 8 +-
dprep-2.0/dprep/man/disc.ew.Rd | 7 --
dprep-2.0/dprep/man/disc.mentr.Rd | 14 ++--
dprep-2.0/dprep/man/disc2.Rd | 9 +-
dprep-2.0/dprep/man/discretevar.Rd | 11 +--
dprep-2.0/dprep/man/dist.to.knn.Rd | 12 +--
dprep-2.0/dprep/man/distan2.Rd | 10 +-
dprep-2.0/dprep/man/distancia.Rd | 20 ++---
dprep-2.0/dprep/man/dprep-package.Rd |only
dprep-2.0/dprep/man/ec.knnimp.Rd | 13 ++-
dprep-2.0/dprep/man/eje1dis.Rd | 10 +-
dprep-2.0/dprep/man/finco.Rd | 21 +++---
dprep-2.0/dprep/man/hawkins.Rd | 16 ++--
dprep-2.0/dprep/man/heartc.Rd | 2
dprep-2.0/dprep/man/hepatitis.Rd | 4 -
dprep-2.0/dprep/man/imagmiss.Rd | 14 ++--
dprep-2.0/dprep/man/inconsist.Rd | 5 -
dprep-2.0/dprep/man/ionosphere.Rd | 2
dprep-2.0/dprep/man/knneigh.vect.Rd | 12 ++-
dprep-2.0/dprep/man/lofactor.Rd | 14 ++--
dprep-2.0/dprep/man/lvf.Rd | 19 ++---
dprep-2.0/dprep/man/mahaout.Rd | 17 ++--
dprep-2.0/dprep/man/mardia.Rd | 17 ++--
dprep-2.0/dprep/man/maxdist.Rd | 11 +--
dprep-2.0/dprep/man/maxlof.Rd | 22 +++---
dprep-2.0/dprep/man/midpoints.Rd | 11 +--
dprep-2.0/dprep/man/mmnorm.Rd | 14 ++--
dprep-2.0/dprep/man/mo3.Rd | 12 +--
dprep-2.0/dprep/man/mo4.Rd | 14 ++--
dprep-2.0/dprep/man/moda.Rd | 8 +-
dprep-2.0/dprep/man/my.iris.Rd | 6 -
dprep-2.0/dprep/man/near1.Rd | 10 +-
dprep-2.0/dprep/man/near2.Rd | 15 ++--
dprep-2.0/dprep/man/nnmiss.Rd | 18 ++---
dprep-2.0/dprep/man/outbox.Rd | 8 +-
dprep-2.0/dprep/man/parallelplot.Rd | 49 +++++++-------
dprep-2.0/dprep/man/pp.golub.Rd | 4 -
dprep-2.0/dprep/man/radviz2d.Rd |only
dprep-2.0/dprep/man/rangenorm.Rd | 18 ++---
dprep-2.0/dprep/man/reachability.Rd | 12 ++-
dprep-2.0/dprep/man/redundancy.Rd | 9 +-
dprep-2.0/dprep/man/relief.Rd | 20 +++--
dprep-2.0/dprep/man/reliefcat.Rd | 16 ++--
dprep-2.0/dprep/man/reliefcont.Rd | 13 +--
dprep-2.0/dprep/man/robout.Rd | 20 ++---
dprep-2.0/dprep/man/row.matches.Rd | 12 ++-
dprep-2.0/dprep/man/sbs1.Rd | 15 ++--
dprep-2.0/dprep/man/score.Rd | 10 +-
dprep-2.0/dprep/man/sffs.Rd | 21 ++----
dprep-2.0/dprep/man/sfs.Rd | 18 ++---
dprep-2.0/dprep/man/sfs1.Rd | 12 +--
dprep-2.0/dprep/man/signorm.Rd | 8 +-
dprep-2.0/dprep/man/softmaxnorm.Rd | 5 -
dprep-2.0/dprep/man/sonar.Rd | 2
dprep-2.0/dprep/man/srbct.Rd | 14 ++--
dprep-2.0/dprep/man/starcoord.Rd | 22 +++---
dprep-2.0/dprep/man/surveyplot.Rd | 14 ++--
dprep-2.0/dprep/man/tchisq.Rd | 3
dprep-2.0/dprep/man/top.Rd | 14 ++--
dprep-2.0/dprep/man/vehicle.Rd | 2
dprep-2.0/dprep/man/vvalen.Rd | 2
dprep-2.0/dprep/man/vvalen1.Rd | 6 -
dprep-2.0/dprep/man/znorm.Rd | 5 -
dprep-2.0/dprep/src/Discrete.cpp | 2
174 files changed, 609 insertions(+), 604 deletions(-)
Author: Jonathan M. Lees
Title: Read in WIN format data
Description: Read WIN (Japanese Seismic data) pickfile and waveform files and prepare data for RSEIS
Diff between WINRPACK versions 1.0-3 dated 2008-04-01 and 1.0-4 dated 2008-04-14
DESCRIPTION | 6 +++--- inst/doc/WIN2R-010.pdf | 4 ++-- inst/doc/WIN2R-011.pdf | 4 ++-- inst/doc/WIN2R-012.pdf | 4 ++-- inst/doc/WIN2R.pdf |binary man/WINRPACK-package.Rd | 4 ++-- src/win2R.c | 33 +++++++++++++++++++++++++++++++++ 7 files changed, 44 insertions(+), 11 deletions(-)
Author: Jeffrey A. Ryan
Title: Quantitative Financial Modelling Framework
Description: Specify, build, trade, and analyse quantitative financial trading strategies
Diff between quantmod versions 0.3-3 dated 2008-03-05 and 0.3-4 dated 2008-04-14
quantmod-0.3-3/quantmod/man/period.max.Rd |only quantmod-0.3-3/quantmod/man/period.min.Rd |only quantmod-0.3-3/quantmod/man/period.prod.Rd |only quantmod-0.3-3/quantmod/man/period.sum.Rd |only quantmod-0.3-3/quantmod/src |only quantmod-0.3-4/quantmod/DESCRIPTION | 8 quantmod-0.3-4/quantmod/NAMESPACE | 44 - quantmod-0.3-4/quantmod/R/OHLC.transformations.R | 235 +------- quantmod-0.3-4/quantmod/R/addTA.R | 96 +++ quantmod-0.3-4/quantmod/R/chartSeries.R | 543 +++----------------- quantmod-0.3-4/quantmod/R/chartSeries.chob.R | 8 quantmod-0.3-4/quantmod/R/getDividends.R |only quantmod-0.3-4/quantmod/R/getFinancials.R |only quantmod-0.3-4/quantmod/R/getSymbols.R | 48 + quantmod-0.3-4/quantmod/R/periodReturn.R | 166 +----- quantmod-0.3-4/quantmod/R/specifyModel.R | 12 quantmod-0.3-4/quantmod/R/symbols.R |only quantmod-0.3-4/quantmod/R/zzz.R | 2 quantmod-0.3-4/quantmod/WISHLIST | 7 quantmod-0.3-4/quantmod/man/OHLC.Transformations.Rd | 9 quantmod-0.3-4/quantmod/man/addTA.Rd | 2 quantmod-0.3-4/quantmod/man/chartSeries.Rd | 15 quantmod-0.3-4/quantmod/man/getDividends.Rd |only quantmod-0.3-4/quantmod/man/getFinancials.Rd |only quantmod-0.3-4/quantmod/man/getSymbols.FRED.Rd | 4 quantmod-0.3-4/quantmod/man/getSymbols.MySQL.Rd | 5 quantmod-0.3-4/quantmod/man/getSymbols.Rd | 4 quantmod-0.3-4/quantmod/man/getSymbols.SQLite.Rd | 2 quantmod-0.3-4/quantmod/man/getSymbols.csv.Rd | 4 quantmod-0.3-4/quantmod/man/getSymbols.google.Rd | 4 quantmod-0.3-4/quantmod/man/getSymbols.oanda.Rd | 4 quantmod-0.3-4/quantmod/man/getSymbols.rda.Rd | 4 quantmod-0.3-4/quantmod/man/getSymbols.yahoo.Rd | 4 quantmod-0.3-4/quantmod/man/has.Rd | 13 quantmod-0.3-4/quantmod/man/periodReturn.Rd | 53 - quantmod-0.3-4/quantmod/man/quantmod-package.Rd | 4 quantmod-0.3-4/quantmod/man/zoomChart.Rd | 25 37 files changed, 420 insertions(+), 905 deletions(-)
Author: Beth Atkinson (atkinson@mayo.edu) for pedigree
functions. Terry Therneau (therneau@mayo.edu) for all other functions.
Title: mixed-effects Cox models, sparse matrices, and modeling data from large pedigrees
Description: coxme: general mixed-effects Cox models; kinship: routines
to create and manipulate n by n matrices that describe the
genetic relationships between n persons; pedigree: create and
plot pedigrees; bdsmatrix: a class of objects for sparse
block-diagonal matrices (which is how kinship matrices are
stored); gchol: generalized cholesky decompositions
Diff between kinship versions 1.1.0-19 dated 2008-02-21 and 1.1.0-21 dated 2008-04-14
ChangeLog | 3 +++ DESCRIPTION | 10 +++++----- R/AAA.R | 2 +- R/coxme.fit.R | 2 +- R/plot.pedigree.R | 2 +- src/coxmeS.h | 2 +- 6 files changed, 12 insertions(+), 9 deletions(-)
Author: Yihui Xie
Title: Demonstrate Animations in Statistics
Description: This package consists of various functions for animations in statistics, covering many areas such as probability theory, mathematical statistics, multivariate statistics, nonparametric statistics, sampling survey, linear models, time series, computational statistics, data mining and machine learning. These functions might be of help in teaching statistics and data analysis.
Diff between animation versions 0.1-8 dated 2008-03-12 and 0.2-0 dated 2008-04-14
DESCRIPTION | 9 R/clt.ani.R | 18 R/cv.ani.R | 2 R/cv.nfeaturesLDA.R |only R/kmeans.ani.R | 4 R/tidy.source.R | 2 inst/NEWS | 47 inst/doc/animation.Rnw | 25 inst/doc/animation.pdf | 5100 ++++++++++++++++++++++++------------------------- man/clt.ani.Rd | 8 man/cv.nfeaturesLDA.Rd |only man/tidy.source.Rd | 2 12 files changed, 2640 insertions(+), 2577 deletions(-)
Author: Adrian Baddeley
Diff between spatstat versions 1.12-9 dated 2008-03-21 and 1.13-0 dated 2008-04-14
Title: Spatial Point Pattern analysis, model-fitting, simulation, tests
Description: A package for analysing spatial data,
mainly Spatial Point Patterns, including multitype/marked points
and spatial covariates, in any two-dimensional spatial region.
Contains functions for plotting spatial data,
exploratory data analysis, model-fitting, simulation,
spatial sampling, model diagnostics,
and formal inference. Data types include point patterns,
line segment patterns, spatial windows, and
pixel images. Point process models can be
fitted to point pattern data. Cluster type models are fitted
by the method of minimum contrast. Very general Gibbs point
process models can be fitted to point pattern data
using a function ppm similar to lm or glm. Models may
include dependence on covariates, interpoint interaction
and dependence on marks. Fitted models can be simulated automatically.
Also provides facilities for formal inference (such as chi-squared
tests) and model diagnostics (including simulation
envelopes, residuals, residual plots and Q-Q plots).
DESCRIPTION | 6 ++--
INDEX | 1
R/Kest.S | 6 +++-
R/areadiff.R | 4 ++-
R/badgey.R |only
R/clip.psp.R | 6 +++-
R/closepairs.R | 8 +++++-
R/distances.R | 12 ++++++++-
R/distmap.R | 6 +++-
R/edgeRipley.R | 6 +++-
R/exactPdt.S | 6 +++-
R/exactdt.S | 6 +++-
R/geyer.S | 4 +--
R/nncross.R | 6 +++-
R/options.R | 5 ++-
R/ordthresh.S | 4 +--
R/pairpiece.S | 8 +++---
R/pspcross.R | 18 ++++++++++---
R/random.S | 8 +++---
R/satpiece.R | 6 ++--
R/strausshard.S | 4 +--
R/wingeom.S | 6 ++--
R/xypolygon.S | 7 ++++-
man/00spatstat.Rd | 9 ++++--
man/BadGey.Rd |only
man/SatPiece.Rd | 5 +++
src/areadiff.c | 4 ++-
src/closepair.c | 15 ++++++++---
src/corrections.c | 8 ++++--
src/discarea.c | 4 ++-
src/distances.c | 70 +++++++++++++++++++++++++++++++++++++++++-------------
31 files changed, 187 insertions(+), 71 deletions(-)
Author: Charles J. Geyer
Diff between rcdd versions 1.0-1 dated 2008-03-06 and 1.1 dated 2008-04-14
Title: rcdd (C Double Description for R)
Description: R interface to (some of) cddlib,
see http://www.ifor.math.ethz.ch/~fukuda/cdd_home/cdd.html
converts back and forth between two representations of a convex polytope:
as solution of a set of linear equalities and inequalities and as
convex hull of set of points and rays,
also does linear programming with exact arithmetic
CHANGES | 10 ++++
DESCRIPTION | 6 +-
NAMESPACE | 4 +
R/linearity.R |only
R/qabs.R |only
R/qinv.R |only
R/qneg.R |only
inst/doc/vinny.Rnw | 4 -
inst/doc/vinny.pdf |binary
inst/doc/vinny.tex | 4 -
man/ArithmeticGMP.Rd | 10 ++++
man/linearity.Rd |only
src/init.c | 4 +
src/linearity.c |only
src/linearity_f.c |only
src/lpcdd.c | 110 ++++++++++++++++++++++++++++++++++++++++++++------
src/lpcdd_f.c | 90 ++++++++++++++++++++++++++++++++++++++--
src/qo.c |only
src/rcdd.h | 3 +
tests/bug.R |only
tests/bug.Rout.save |only
tests/lpcdd.R | 41 ++++++++++++++++++
tests/lpcdd.Rout.save | 53 +++++++++++++++++++++++-
23 files changed, 313 insertions(+), 26 deletions(-)
Author: Graham Williams
Diff between rattle versions 2.3.7 dated 2008-04-06 and 2.3.8 dated 2008-04-14
Title: A graphical user interface for data mining in R using GTK
Description: Rattle provides a Gnome (RGtk2) based interface to
R functionality for data mining. The aim is to provide
a simple and intuitive interface that allows a user to quickly
load data from a CSV file (or via ODBC), transform and explore the data,
and build and evaluate models, and export models as PMML (predictive
modelling markup language). All of this with knowing little about R.
All R commands are logged and available for the user, as a tool to
then begin interacting directly with R itself, if so desired. Rattle also
exports a number of utility functions and the graphical user interface does
not need to be run to deploy these.
DESCRIPTION | 6 +--
R/model.R | 8 +++-
R/rattle.R | 97 ++++++++++++++++++++++++++++++++----------------------------
3 files changed, 60 insertions(+), 51 deletions(-)
Author: Brian S. Yandell
Diff between qtlbim versions 1.6.5 dated 2006-12-12 and 1.7.6 dated 2008-04-14
Title: QTL Bayesian Interval Mapping
Description: Functions for model selection for genetic architecture.
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qtlbim-1.7.6/qtlbim/R/genoprob.R | 88
qtlbim-1.7.6/qtlbim/R/hpd.R | 88
qtlbim-1.7.6/qtlbim/R/io.R | 1614
qtlbim-1.7.6/qtlbim/R/mcmc.R | 682
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qtlbim-1.7.6/qtlbim/R/slice.R | 821
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qtlbim-1.7.6/qtlbim/demo/qb.mcmc.tour.R | 50
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qtlbim-1.7.6/qtlbim/demo/qb.scan.tour.R | 2
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169 files changed, 80317 insertions(+), 60483 deletions(-)
Author: Ingo Feinerer
Title: openNLP Interface
Description: An interface to openNLP (http://opennlp.sourceforge.net/),
a collection of natural language processing tools including a sentence
detector, tokenizer, pos-tagger, shallow and full syntactic parser, and
named-entity detector, using the Maxent Java package for training and
using maximum entropy models.
Diff between openNLP versions 0.0-5 dated 2008-02-07 and 0.0-6 dated 2008-04-14
DESCRIPTION | 17 +++++++++++------ inst/doc/openNLP.Rnw | 7 ++++++- inst/doc/openNLP.pdf |binary inst/doc/openNLP.tex | 5 ++++- 4 files changed, 21 insertions(+), 8 deletions(-)
Author: Dan Kelley
Diff between oce versions 0.1.70 dated 2008-03-31 and 0.1.71 dated 2008-04-14
Title: Analysis of Oceanographic data
Description: Supports the analysis of Oceanographic data,
including CTD measurements, sea-level timeseries, coastline
files, etc. Also includes functions for calculating
seawater properties such as density, and derived properties
such as buoyancy frequency.
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oce-0.1.71/oce/R/plot.coastline.R | 43
oce-0.1.71/oce/R/plot.lobo.R | 17
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oce-0.1.71/oce/inst/doc/oce-ctdrawfig.pdf | 4
oce-0.1.71/oce/inst/doc/oce-lobofig.eps | 8283 +++++------
oce-0.1.71/oce/inst/doc/oce-lobofig.pdf | 9994 ++++++-------
oce-0.1.71/oce/inst/doc/oce-sealevelfig.pdf | 4
oce-0.1.71/oce/inst/doc/oce-sectionfig.pdf | 4
oce-0.1.71/oce/inst/doc/oce-sectionfiga03.pdf | 4
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oce-0.1.71/oce/inst/doc/oce.pdf |12974 +++++++++--------
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41 files changed, 25363 insertions(+), 25044 deletions(-)
Author: Gemechis Dilba, Mario Hasler, Frank Schaarschmidt
Title: Inferences for ratios of coefficients in the general linear model
Description: With this package, it is possible to perform (simultaneous) inferences for ratios of linear combinations of coefficients in the
general linear model. In particular, tests and confidence interval estimations for ratios of
treatment means in the normal one-way layout and confidence interval estimations like in (multiple) slope ratio
and parallel line assays can be carried out. Moreover, it is possible to calculate the sample sizes required in comparisons
with a control based on relative margins. For the simple two-sample problem, functions for a t-test for ratio-formatted
hypotheses and the corresponding Fieller confidence interval are provided assuming homogeneous or heterogeneous group variances.
Diff between mratios versions 1.3.5 dated 2008-03-25 and 1.3.7 dated 2008-04-14
DESCRIPTION | 6 R/contrMatRatio.R | 72 ++++-- R/ratioVH.R | 44 ++-- R/sci.ratio.R | 4 R/sci.ratioI.R | 2 R/simtest.ratio.R | 5 R/simtest.ratioI.R | 2 R/t.test.ratio.default.R | 508 +++++++++++++++++++++++++++++++---------------- man/t.test.ratio.Rd | 10 9 files changed, 435 insertions(+), 218 deletions(-)
Author: David Rossell
Diff between mombf versions 0.0.0 dated 2008-04-03 and 0.0.1 dated 2008-04-14
Title: Moment and Inverse Moment Bayes factors
Description: This package computes Moment and Inverse Moment Bayes factors for linear models, and approximate Bayes factors for GLM and situations having a statistic which is asymptotically normally distributed and sufficient. Routines to evaluate prior densities, modes and do prior parameter elicitation are included.
DESCRIPTION | 6
inst/doc/mombf_manual.Rnw | 2
inst/doc/mombf_manual.pdf | 445 +++++++++++++++++++++++-----------------------
3 files changed, 229 insertions(+), 224 deletions(-)
Author: Dimitris Rizopoulos
Diff between ltm versions 0.8-3 dated 2008-03-03 and 0.8-4 dated 2008-04-14
Title: Latent Trait Models under IRT
Description: Analysis of multivariate dichotomous and polytomous data using latent trait models under the Item Response Theory approach. It includes the Rasch, the Two-Parameter Logistic, the Birnbaum's Three-Parameter, and the Graded Response Models.
DESCRIPTION | 8 ++++----
R/IRT.parm.grm.R | 2 +-
R/onAttach.R | 2 +-
R/print.tpm.R | 2 +-
R/summary.tpm.R | 10 +++++++---
R/vcov.tpm.R | 8 +++++---
inst/NEWS | 7 +++++++
man/ltm-package.Rd | 4 ++--
8 files changed, 28 insertions(+), 15 deletions(-)
Author: Simon Urbanek
Diff between iplots versions 1.1-1 dated 2007-09-07 and 1.1-2 dated 2008-04-14
Title: iPlots - interactive graphics for R
Description: Interactive plots for R
DESCRIPTION | 2 +-
NEWS | 4 ++++
R/iplots.R | 19 +++++++++++++++++--
inst/java/iplots.jar |binary
man/iplot.manip.Rd | 26 ++++++++++++++++++++++++++
5 files changed, 48 insertions(+), 3 deletions(-)
Author: Víctor Leiva
Diff between ig versions 1.0 dated 2007-10-02 and 1.1 dated 2008-04-14
Title: Package for the robust and classical versions of the inverse Gaussian distribution
Description: A collection of utilities for robust and classical versions of the inverse Gaussian distribution known as inverse Gaussian type distribution (IGTD).
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ig-1.0/ig/man/dig.PVII.Rd |only
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ig-1.0/ig/man/kappaII.Rd |only
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ig-1.0/ig/man/pig.Rd |only
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ig-1.0/ig/man/qig.Rd |only
ig-1.0/ig/man/qqig.Rd |only
ig-1.0/ig/man/rig.Rd |only
ig-1.0/ig/man/search.mode.Rd |only
ig-1.0/ig/man/sfig.Rd |only
ig-1.0/ig/man/sicig.Rd |only
ig-1.1/ig/DESCRIPTION | 8 +--
ig-1.1/ig/R/aciigt.R |only
ig-1.1/ig/R/descriptiveSummary.R |only
ig-1.1/ig/R/diagnosticsigt.R |only
ig-1.1/ig/R/digkotz.R |only
ig-1.1/ig/R/digpvii.R |only
ig-1.1/ig/R/digt.R |only
ig-1.1/ig/R/dlaplace.R |only
ig-1.1/ig/R/hfigt.R |only
ig-1.1/ig/R/histigt.R |only
ig-1.1/ig/R/kappaii.R |only
ig-1.1/ig/R/ksigt.R |only
ig-1.1/ig/R/ll.R | 29 ++++++-----
ig-1.1/ig/R/lll.R | 40 +++++++++------
ig-1.1/ig/R/lml.R | 46 +++++++++++------
ig-1.1/ig/R/lmm.R | 45 ++++++++++-------
ig-1.1/ig/R/lmu.R | 27 ++++++----
ig-1.1/ig/R/loglikigt.R |only
ig-1.1/ig/R/mleig.R | 92 ++---------------------------------
ig-1.1/ig/R/mleigSt.R |only
ig-1.1/ig/R/mleigStNuFixed.R |only
ig-1.1/ig/R/mleigt.R |only
ig-1.1/ig/R/pigt.R |only
ig-1.1/ig/R/ppigt.R |only
ig-1.1/ig/R/qigt.R |only
ig-1.1/ig/R/qqigt.R |only
ig-1.1/ig/R/rcigt.R |only
ig-1.1/ig/R/rigt.R |only
ig-1.1/ig/R/searchMode.R |only
ig-1.1/ig/R/sfigt.R |only
ig-1.1/ig/R/sicigt.R |only
ig-1.1/ig/R/wg.R | 26 +++------
ig-1.1/ig/R/wgp.R | 27 +++-------
ig-1.1/ig/data/fracture.rda |binary
ig-1.1/ig/data/precipitations.rda |binary
ig-1.1/ig/data/psi21.rda |binary
ig-1.1/ig/data/psi26.rda |binary
ig-1.1/ig/data/psi31.rda |binary
ig-1.1/ig/data/repairtimes.rda |binary
ig-1.1/ig/data/runoff.rda |binary
ig-1.1/ig/data/shelflife.rda |binary
ig-1.1/ig/man/aciigt.Rd |only
ig-1.1/ig/man/descriptiveSummary.Rd |only
ig-1.1/ig/man/diagnosticsigt.Rd |only
ig-1.1/ig/man/digkotz.Rd |only
ig-1.1/ig/man/digpvii.Rd |only
ig-1.1/ig/man/dlaplace.Rd |only
ig-1.1/ig/man/fracture.Rd | 41 ++++++++++-----
ig-1.1/ig/man/hfigt.Rd |only
ig-1.1/ig/man/histigt.Rd |only
ig-1.1/ig/man/ig-package.Rd | 21 ++++---
ig-1.1/ig/man/igt.Rd |only
ig-1.1/ig/man/kappaii.Rd |only
ig-1.1/ig/man/ksigt.Rd |only
ig-1.1/ig/man/ll.Rd | 34 +++++++++---
ig-1.1/ig/man/lll.Rd | 34 +++++++++---
ig-1.1/ig/man/lml.Rd | 35 +++++++++----
ig-1.1/ig/man/lmm.Rd | 36 +++++++++----
ig-1.1/ig/man/lmu.Rd | 36 +++++++++----
ig-1.1/ig/man/loglikigt.Rd |only
ig-1.1/ig/man/mleig.Rd | 48 +++++++++---------
ig-1.1/ig/man/mleigSt.Rd |only
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ig-1.1/ig/man/mleigt.Rd |only
ig-1.1/ig/man/ppigt.Rd |only
ig-1.1/ig/man/precipitations.Rd | 40 ++++++++++-----
ig-1.1/ig/man/psi21.Rd | 45 +++++++++++------
ig-1.1/ig/man/psi26.Rd | 43 +++++++++++-----
ig-1.1/ig/man/psi31.Rd | 42 +++++++++++----
ig-1.1/ig/man/qqigt.Rd |only
ig-1.1/ig/man/rcigt.Rd |only
ig-1.1/ig/man/repairtimes.Rd | 43 +++++++++++-----
ig-1.1/ig/man/runoff.Rd | 42 +++++++++++----
ig-1.1/ig/man/searchMode.Rd |only
ig-1.1/ig/man/sfigt.Rd |only
ig-1.1/ig/man/shelflife.Rd | 46 ++++++++++++-----
ig-1.1/ig/man/sicigt.Rd |only
ig-1.1/ig/man/wg.Rd | 39 +++++++++++---
ig-1.1/ig/man/wgp.Rd | 34 +++++++++---
125 files changed, 603 insertions(+), 396 deletions(-)
Author: Jan Bulla
Diff between hsmm versions 0.3-1 dated 2008-01-07 and 0.3-2 dated 2008-04-14
Title: Hidden Semi Markov Models
Description: A package for computation of hidden semi markov models
hsmm-0.3-1/hsmm/demo/hsmm.R |only
hsmm-0.3-2/hsmm/DESCRIPTION | 8 -
hsmm-0.3-2/hsmm/R/hsmm.sim.r | 8 +
hsmm-0.3-2/hsmm/demo/00Index | 5
hsmm-0.3-2/hsmm/demo/hsmm.dec.r |only
hsmm-0.3-2/hsmm/demo/hsmm.est.r |only
hsmm-0.3-2/hsmm/demo/hsmm.r |only
hsmm-0.3-2/hsmm/demo/hsmm.sim.r |only
hsmm-0.3-2/hsmm/src/FBImpl.cpp | 97 +---------------
hsmm-0.3-2/hsmm/src/InitData.cpp | 215 +++++++++++++-----------------------
hsmm-0.3-2/hsmm/src/InitData.h | 1
hsmm-0.3-2/hsmm/src/Main.h | 1
hsmm-0.3-2/hsmm/src/ViterbiImpl.cpp | 23 ---
13 files changed, 102 insertions(+), 256 deletions(-)
Author: Ryan T. Moore
Title: Block, assign, and diagnose potential interference in randomized experiments
Description: Blocks units into experimental blocks, with one unit per treatment condition, by creating a measure of multivariate distance between all possible pairs of units. Maximum, minimum, or an allowable range of differences between units on one variable can be set. Randomly assign units to treatment conditions. Diagnose potential interference between units assigned to different treatment conditions. Write outputs to .tex and .csv files.
Diff between blockTools versions 0.1 dated 2007-08-25 and 0.2 dated 2008-04-14
DESCRIPTION | 10 +++++----- LICENSE | 2 +- NAMESPACE | 6 ++++++ R/assignment.R | 6 +++++- R/block.R | 9 ++++++--- R/diagnose.R | 28 +++++++++++++++++----------- R/outCSV.R | 3 +++ R/outTeX.R | 3 +++ R/print.assg.R |only R/print.block.R |only R/print.blockSum.R |only R/print.diagnose.R |only R/summary.block.R |only man/assignment.Rd | 23 +++++++++++++---------- man/block.Rd | 14 ++++++++------ man/blockTools-package.Rd | 6 +++--- man/outTeX.Rd | 2 +- 17 files changed, 71 insertions(+), 41 deletions(-)
Author: Andrew Gelman
Diff between arm versions 1.1-3 dated 2008-02-20 and 1.1-4 dated 2008-04-14
Title: Data Analysis Using Regression and Multilevel/Hierarchical Models
Description: R functions for processing lm, glm, mer and polr outputs.
arm-1.1-3/arm/R/terms.R |only
arm-1.1-3/arm/man/terms.Rd |only
arm-1.1-4/arm/CHANGELOG | 17 +++++++++++++++++
arm-1.1-4/arm/DESCRIPTION | 6 +++---
arm-1.1-4/arm/NAMESPACE | 5 +++--
arm-1.1-4/arm/R/AllGeneric.R | 12 ++++++------
arm-1.1-4/arm/R/bayesglm.R | 3 ++-
arm-1.1-4/arm/R/bayesglm.h.R | 4 ++--
arm-1.1-4/arm/R/model.matrix.bayes.R | 16 ++++++++--------
arm-1.1-4/arm/R/rescale.R | 5 ++++-
arm-1.1-4/arm/R/sim.R | 6 +++---
arm-1.1-4/arm/R/traceplot.R |only
arm-1.1-4/arm/man/model.matrix.bayes.Rd | 12 ++++++------
arm-1.1-4/arm/man/traceplot.Rd |only
14 files changed, 54 insertions(+), 32 deletions(-)
Author: Greg Snow
Title: Demonstrations for teaching and learning
Description: This package is a set of demonstration functions that can be used in a classroom to demonstrate statistical concepts, or on your own to better understand the concepts or the programming.
Diff between TeachingDemos versions 2.1 dated 2008-04-01 and 2.2 dated 2008-04-14
TeachingDemos-2.1/TeachingDemos/R/tkprogress.R |only TeachingDemos-2.1/TeachingDemos/TeachingDemos.Rcheck |only TeachingDemos-2.1/TeachingDemos/man/tkprogress.Rd |only TeachingDemos-2.2/TeachingDemos/DESCRIPTION | 6 +++--- TeachingDemos-2.2/TeachingDemos/NAMESPACE | 2 +- TeachingDemos-2.2/TeachingDemos/NEWS | 8 ++++++++ TeachingDemos-2.2/TeachingDemos/R/char2seed.R | 1 + TeachingDemos-2.2/TeachingDemos/R/pairs2.R |only TeachingDemos-2.2/TeachingDemos/R/spread.labs.R |only TeachingDemos-2.2/TeachingDemos/R/tdspinner.R | 10 ++++++++++ TeachingDemos-2.2/TeachingDemos/man/TeachingDemos-package.Rd | 2 +- TeachingDemos-2.2/TeachingDemos/man/ccc.Rd | 2 +- TeachingDemos-2.2/TeachingDemos/man/spread.labs.Rd |only TeachingDemos-2.2/TeachingDemos/man/tkexamp.Rd | 4 ++-- 14 files changed, 27 insertions(+), 8 deletions(-)
Author: Jarrod Hadfield
Title: ML and MCMC Methods for Pedigree Reconstruction and Analysis
Description: The primary aim of MasterBayes is to use MCMC techniques to integrate over uncertainty in pedigree configurations estimated from molecular markers and phenotypic data. Emphasis is put on the marginal distribution of parameters that relate the phenotypic data to the pedigree. All simulation is done in compiled C++ for efficency.
Diff between MasterBayes versions 2.2 dated 2008-04-07 and 2.21 dated 2008-04-14
MasterBayes-2.2/MasterBayes/inst/doc/Figures/MasterBayes.Tutorial.Rnw |only MasterBayes-2.2/MasterBayes/inst/doc/Figures/MasterBayes.Tutorial.tex |only MasterBayes-2.2/MasterBayes/inst/doc/Figures/MasterBayes.bib |only MasterBayes-2.21/MasterBayes/DESCRIPTION | 6 +++--- MasterBayes-2.21/MasterBayes/NAMESPACE | 3 ++- MasterBayes-2.21/MasterBayes/R/autocorrP.R |only MasterBayes-2.21/MasterBayes/inst/doc/Figures/Tutorial.Rnw |only MasterBayes-2.21/MasterBayes/inst/doc/MasterBayes.Tutorial.aux |only MasterBayes-2.21/MasterBayes/inst/doc/MasterBayes.Tutorial.log |only MasterBayes-2.21/MasterBayes/inst/doc/MasterBayes.Tutorial.pdf |binary MasterBayes-2.21/MasterBayes/inst/doc/MasterBayes.Tutorial.toc |only MasterBayes-2.21/MasterBayes/inst/doc/MasterBayes.bib |only MasterBayes-2.21/MasterBayes/inst/doc/Rlogo.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-006.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-006.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-007.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-007.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-008.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-008.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-009.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-009.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-022.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-022.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-027.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-027.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-030.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-030.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-035.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-035.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-039.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-039.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-043.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-043.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-047.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-047.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-050.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-050.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-057.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-057.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-060.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-060.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-063.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-063.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-068.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-068.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-070.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-070.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-073.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-073.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-076.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-076.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-078.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-078.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-081.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-081.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-084.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-084.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-087.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-087.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-090.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-090.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-093.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-093.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-096.eps |only 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MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-model.INT.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-model.INT.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-model.ass.mat.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-model.ass.mat.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-model.config.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-model.config.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-model.dupEE2.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-model.dupEE2.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-model.miss.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-model.miss.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-model.miss2.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-model.miss2.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-model.miss2US.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-model.miss2US.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-model.missTest.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-model.missTest.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-model.missUS.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-model.missUS.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-model2beta.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-model2beta.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-model3beta.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-model3beta.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-model4US.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-model4US.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-model5.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-model5.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-model6US.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-model6US.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-mon1.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-mon1.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-mon2.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-mon2.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-ys.eps |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial-ys.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial.Rnw |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial.aux |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial.bbl |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial.blg |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial.log |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial.pdf |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial.tex |only MasterBayes-2.21/MasterBayes/inst/doc/Tutorial.toc |only MasterBayes-2.21/MasterBayes/inst/doc/x.log |only MasterBayes-2.21/MasterBayes/man/MasterBayes.Rd | 2 +- MasterBayes-2.21/MasterBayes/man/autocorrP.Rd |only 124 files changed, 6 insertions(+), 5 deletions(-)
Author: Frank Schaarschmidt, Daniel Gerhard, Martin Sill
Title: Multiple comparisons using normal approximation
Description: Multiple contrast tests and simultaneous confidence
intervals based on normal approximation. With implementations for
binomial proportions in a 2xk setting (risk difference and odds ratio),
poly-3-adjusted tumour rates, and multiple comparisons of biodiversity indices.
Approximative power calculation for multiple contrast tests of binomial
proportions.
Diff between MCPAN versions 1.1-3 dated 2008-03-25 and 1.1-4 dated 2008-04-14
DESCRIPTION | 6 +++--- R/Shannon.R | 2 +- R/Simpson.R | 2 +- R/Waldci.R | 9 ++++++--- R/binomORci.R | 2 +- R/binomRDci.R | 2 +- R/binomRRci.R | 2 +- R/plotCI.R | 36 +++++++++++++++++++++++++++++++++++- R/poly3ci.R | 2 +- R/poly3estf.R | 5 +++++ man/MCPAN-package.Rd | 4 ++-- man/Shannon.Rd | 3 --- man/plotCI.Rd | 17 ++++++++++++++--- man/summary.Shannonci.Rd | 24 ++++++++++++++++++++++++ man/summary.Simpsonci.Rd | 15 +++++++++++++++ 15 files changed, 110 insertions(+), 21 deletions(-)
Author: Markus Helbig
Diff between JGR versions 1.5-15 dated 2008-04-08 and 1.5-17 dated 2008-04-14
Title: JGR - Java Gui for R
Description: Java GUI for R - cross-platform, universal and unified Graphical User Interface for R. For full functionality on Windows and Mac OS X JGR requires a start application which depends on your OS. This can be downloaded from JGR's website: http://www.rosuda.org/JGR
DESCRIPTION | 4 ++--
NEWS | 7 +++++++
R/JGR.R | 4 ++--
inst/java/JGR.jar |binary
inst/scripts/run.in | 2 +-
launcher/macosx/English.lproj/InfoPlist.strings | 6 +++---
launcher/macosx/JGR_App.xcodeproj/project.pbxproj | 2 ++
launcher/macosx/main.c | 16 ++++++++--------
launcher/macosx/prefsp.c |only
launcher/macosx/prefsp.h |only
launcher/windows/Makefile | 4 ++--
launcher/windows/jgr.c | 18 +++++++++---------
run.in | 2 +-
13 files changed, 37 insertions(+), 28 deletions(-)
Author: A.I. McLeod and Ying Zhang
Title: Subset AR Model Fitting
Description: Complete functions are given for model identification, estimation and diagnostic checking for AR and subset AR models. Two types of subset AR models are supported. One family of subset AR models, denoted by ARp, is formed by taking subet of the original AR coefficients and in the other, denoted by ARz, subsets of the partial autocorrelations are used. The main advantage of the ARz model is its applicability to very large order models.
Diff between FitAR versions 1.3 dated 2008-03-02 and 1.4 dated 2008-04-14
DESCRIPTION | 6 +++--- R/FitARp.R | 2 +- R/FitARz.R | 2 +- R/PlotARSdf.R | 2 +- R/SelectModel.R | 3 +-- man/sdfplot.Rd | 13 ++++++++++++- 6 files changed, 19 insertions(+), 9 deletions(-)
Author: Longhai Li
Diff between predbayescor versions 1.1-3 dated 2008-02-22 and 1.1-4 dated 2008-04-10
Title: Classification rule based on Bayesian naive Bayes models with feature selection bias corrected
Description: This software is used to predict the binary response based on high dimensional features, for example gene expression data. The data are modelled with Bayesian naive Bayes models. When a large number of features are available, one may like to select only a subset of features to use, typically those features strongly correlated with the response in training cases. Such a feature selection procedure is however invalid since the relationship between the response and the features will appear stronger. This package provides a way to avoid this bias and yields well-calibrated prediction for the test cases.
DESCRIPTION | 4 ++--
R/evaluate.r | 30 +++++++++++-------------------
R/firstlib.r | 2 +-
R/pred.r | 2 +-
man/a-predbayescor.Rd | 2 +-
man/evaluate_loss.Rd | 10 ++++------
6 files changed, 20 insertions(+), 30 deletions(-)
Author: Nicholas J. Lewin-Koh and Roger Bivand, contributions by Edzer J. Pebesma, Eric Archer, Stéphane Dray, David Forrest, Patrick Giraudoux, Duncan Golicher, Virgilio Gómez Rubio, Patrick Hausmann, Thomas Jagger, Sebastian P. Luque, Don MacQueen, Andrew Niccolai and Tom Short
Title: Tools for reading and handling spatial objects
Description: Set of tools for manipulating and reading geographic data, in particular ESRI shapefiles; C code used from shapelib. It includes binary access to GSHHS 1.5 shoreline files. The package also provides interface wrappers for exchanging spatial objects with packages such as PBSmapping, spatstat, maps, RArcInfo, Stata tmap, WinBUGS, Mondrian, and others.
Diff between maptools versions 0.7-7 dated 2008-02-19 and 0.7-9 dated 2008-04-10
ChangeLog | 19 +++++++++++++++++++ DESCRIPTION | 6 +++--- R/GE_png.R | 6 +++++- R/Rgshhs.R | 6 +++--- R/SpatialPolys-methods.R | 26 +++++++++++++++++++++++--- inst/ChangeLog | 19 +++++++++++++++++++ man/GE_SpatialGrid.Rd | 8 ++++++-- man/Rgshhs.Rd | 3 ++- man/readShapePoly.Rd | 7 ++++++- 9 files changed, 86 insertions(+), 14 deletions(-)
Author: Jing Hua Zhao and colleagues with inputs
from Kurt Hornik and Brian Ripley
Title: Genetic analysis package
Description: It is designed as an integrated package for genetic data
analysis of both population and family data. Currently, it
contains functions for sample size calculations of both
population-based and family-based designs, classic twin models,
probability of familial disease aggregation, kinship calculation,
some statistics in linkage analysis, and association analysis
involving one or more genetic markers including haplotype
analysis with or without environmental covariates.
Diff between gap versions 1.0-14 dated 2008-03-02 and 1.0-15 dated 2008-04-10
gap-1.0-14/gap/inst/doc/gap.aux |only gap-1.0-14/gap/inst/doc/gap.bbl |only gap-1.0-14/gap/inst/doc/gap.blg |only gap-1.0-14/gap/inst/doc/gap.log |only gap-1.0-14/gap/inst/doc/gap.tex |only gap-1.0-14/gap/inst/doc/gap.toc |only gap-1.0-14/gap/man/kbyl.Rd |only gap-1.0-14/gap/man/tbyt.Rd |only gap-1.0-15/gap/ChangeLog | 32 +++--- gap-1.0-15/gap/DESCRIPTION | 12 +- gap-1.0-15/gap/NAMESPACE | 18 +-- gap-1.0-15/gap/R/2ld.R | 172 +++++++++++++++++----------------- gap-1.0-15/gap/R/ESplot.R |only gap-1.0-15/gap/R/KCC.R | 7 - gap-1.0-15/gap/R/SNP.R |only gap-1.0-15/gap/R/asplot.R |only gap-1.0-15/gap/R/gc.em.R | 6 - gap-1.0-15/gap/R/gcontrol2.R |only gap-1.0-15/gap/R/genecounting.R | 6 - gap-1.0-15/gap/R/hap.R | 11 +- gap-1.0-15/gap/R/hap.em.R | 7 - gap-1.0-15/gap/R/metap.R |only gap-1.0-15/gap/R/metareg.R |only gap-1.0-15/gap/R/mhtplot.R |only gap-1.0-15/gap/R/pbsize2.R | 4 gap-1.0-15/gap/R/pedtodot.R | 21 ++-- gap-1.0-15/gap/R/qqfun.R |only gap-1.0-15/gap/R/qqunif.R | 12 +- gap-1.0-15/gap/R/utils.R | 18 +-- gap-1.0-15/gap/data/CDKN.RData |only gap-1.0-15/gap/demo/00Index | 2 gap-1.0-15/gap/demo/gap.R | 146 +++++++--------------------- gap-1.0-15/gap/inst/doc/BFDP.xls |binary gap-1.0-15/gap/inst/doc/FPRP.xls |binary gap-1.0-15/gap/inst/doc/gap.Rnw | 17 ++- gap-1.0-15/gap/inst/doc/gap.pdf |binary gap-1.0-15/gap/inst/doc/index.html |only gap-1.0-15/gap/inst/tests/htr.R |only gap-1.0-15/gap/inst/tests/kbyl.dat |only gap-1.0-15/gap/inst/tests/ped.1.3.pre |only gap-1.0-15/gap/man/BFDP.Rd | 2 gap-1.0-15/gap/man/CDKN.Rd |only gap-1.0-15/gap/man/ESplot.Rd |only gap-1.0-15/gap/man/LD22.Rd |only gap-1.0-15/gap/man/LDkl.Rd |only gap-1.0-15/gap/man/SNP.Rd |only gap-1.0-15/gap/man/asplot.Rd |only gap-1.0-15/gap/man/gap-internal.Rd | 62 ++++++++++++ gap-1.0-15/gap/man/gap-package.Rd | 16 ++- gap-1.0-15/gap/man/gc.em.Rd | 2 gap-1.0-15/gap/man/gcontrol2.Rd |only gap-1.0-15/gap/man/genecounting.Rd | 5 gap-1.0-15/gap/man/hap.Rd | 4 gap-1.0-15/gap/man/metap.Rd |only gap-1.0-15/gap/man/metareg.Rd |only gap-1.0-15/gap/man/mhtplot.Rd |only gap-1.0-15/gap/man/pbsize2.Rd | 43 +++----- gap-1.0-15/gap/man/pedtodot.Rd | 23 ++-- gap-1.0-15/gap/man/qqfun.Rd |only gap-1.0-15/gap/man/qqunif.Rd | 19 ++- gap-1.0-15/gap/src/gcx.c | 10 - gap-1.0-15/gap/src/hap.c | 7 - 62 files changed, 357 insertions(+), 327 deletions(-)
Author: Jari Oksanen, Roeland Kindt, Pierre Legendre, Bob O'Hara, Gavin L. Simpson,
M. Henry H. Stevens
Title: Community Ecology Package
Description: Ordination methods, diversity analysis and other
functions for community and vegetation ecologists.
Diff between vegan versions 1.11-2 dated 2008-03-21 and 1.11-3 dated 2008-04-10
DESCRIPTION | 6 - R/allPerms.R |only R/anova.cca.R | 3 R/numPerms.R | 42 +++++-- R/ordiArrowMul.R |only R/ordiplot3d.R | 6 - R/permCheck.R | 42 ++++++- R/permControl.R | 5 R/permuplot.R |only R/permuted.index2.R | 47 +++++-- R/plot.cca.R | 11 - R/plot.envfit.R | 9 - R/plot.procrustes.R | 4 R/points.cca.R | 6 - R/print.allPerms.R |only R/print.summary.allPerms.R |only R/summary.allPerms.R |only R/text.cca.R | 7 - R/varpart4.R | 2 inst/ChangeLog | 20 +++ inst/NEWS | 30 ++++- inst/doc/FAQ-vegan.pdf |binary inst/doc/FAQ-vegan.texi | 4 inst/doc/decision-vegan.pdf |binary inst/doc/decision-vegan.tex | 16 +- inst/doc/diversity-vegan.Rnw | 12 +- inst/doc/diversity-vegan.pdf |binary inst/doc/diversity-vegan.tex | 76 ++++++------ inst/doc/intro-vegan.pdf |binary inst/doc/intro-vegan.tex | 51 ++++---- man/permCheck.Rd | 254 +++++++++++++++++++++++++++++++++++++++---- man/permuted.index2.Rd | 5 man/vegan-internal.Rd | 2 33 files changed, 497 insertions(+), 163 deletions(-)
Author: Rasmus E. Benestad
Diff between clim.pact versions 2.2-13 dated 2008-01-10 and 2.2-14 dated 2008-04-10
Title: Climate analysis and empirical-statistical downscaling (ESD) package for monthly and daily data.
Description: The package contains R functions for retrieving data, making climate analysis and downscaling of monthly mean and daily mean global climate scenarios. (Windows-users may need to obtain the 'ncdf' package from URL 'http://www.stats.ox.ac.uk/pub/RWin/' to get clim.pact to work).
DESCRIPTION | 6 +++---
R/EOF2field.R | 2 +-
R/mixFields.R | 13 +++++++++++--
R/objDS.R | 2 +-
R/plotStation.R | 10 ++++++----
R/retrieve.nc.R | 39 +++++++++++++++++++++++++++++----------
man/plot.station.Rd | 3 ++-
7 files changed, 53 insertions(+), 22 deletions(-)
Author: Gavin L. Simpson.
Title: Analogue and weighted averaging methods for palaeoecology
Description: Fits Modern Analogue Technique and Weighted Averaging transfer
function models for prediction of environmental data from species
data, and related methods used in palaeoecology.
Diff between analogue versions 0.4-3 dated 2007-10-14 and 0.5-0 dated 2008-04-10
DESCRIPTION | 15 ++++---- R/RMSEP.bootstrap.wa.R |only R/bootstrap.wa.R |only R/coef.wa.R |only R/distance.R | 29 ++++++++++++--- R/fitted.wa.R |only R/internal.R | 78 ++++++++++++++++++++++++++++++++++++++----- R/join.R | 8 +++- R/minDC.R | 2 - R/minDC.wa.R |only R/performance.R |only R/performance.bootstrap.wa.R |only R/performance.predict.wa.R |only R/performance.wa.R |only R/plot.wa.R |only R/predict.wa.R |only R/print.bootstrap.wa.R |only R/print.performance.R |only R/print.predict.wa.R |only R/print.wa.R |only R/reconPlot.predict.wa.R |only R/residuals.wa.R |only R/wa.R |only R/wa.formula.R |only R/zzz.R | 8 ++-- inst/ChangeLog | 73 +++++++++++++++++++++++++++++----------- inst/doc |only man/RMSEP.Rd | 10 +++-- man/analogue-internal.Rd | 6 +++ man/bootstrap.wa.Rd |only man/distance.Rd | 22 +++++++++--- man/join.Rd | 8 ++-- man/minDC.Rd | 24 +++++++++++-- man/performance.Rd |only man/plot.wa.Rd |only man/predict.wa.Rd |only man/reconPlot.Rd | 11 +++--- man/wa.Rd |only 38 files changed, 225 insertions(+), 69 deletions(-)
Author: Andrew Parnell
Title: Stable Isotope Analysis in R
Description: This package takes data on organism isotopes and fits a Bayesian model to their dietary habits based upon a Gaussian likelihood with a mixture dirichlet-distributed prior on the mean.
Diff between siar versions 2.1 dated 2008-04-04 and 2.2 dated 2008-04-10
DESCRIPTION | 6 - NAMESPACE | 2 R/loadsiardata.R | 63 ----------- R/panelcontour.R | 3 R/siarhdrs.R | 15 ++ R/siarhistograms.R | 6 - R/siarmenu.R | 7 - R/siarmultigrouprun.R | 2 R/siarplotdata.r |only R/siarproportionbysourceplot.R | 211 +++++++++++++++++++++++++------------- R/siarsinglegrouprun.R | 2 man/siarplotdata.Rd |only man/siarproportionbysourceplot.Rd | 12 +- 13 files changed, 182 insertions(+), 147 deletions(-)
Author: Peter Langfelder
Diff between moduleColor versions 1.05-2 dated 2008-04-04 and 1.05-3 dated 2008-04-10
Title: Basic module functions
Description: Methods for color labeling, calculation of eigengenes, merging of closely related modules.
Changelog.txt | 13 +++++++++++++
DESCRIPTION | 6 +++---
R/Functions.R | 36 ++++++++++++++++++++++++------------
man/mergeCloseModules.Rd | 5 +++++
man/moduleColor-package.Rd | 8 ++++----
man/moduleEigengenes.Rd | 11 ++++++-----
6 files changed, 55 insertions(+), 24 deletions(-)
Author: R-core members, Saikat DebRoy
Diff between foreign versions 0.8-24 dated 2008-03-28 and 0.8-25 dated 2008-04-10
Title: Read Data Stored by Minitab, S, SAS, SPSS, Stata, Systat, dBase, ...
Description: Functions for reading and writing data stored by statistical
packages such as Minitab, S, SAS, SPSS, Stata, Systat, ...,
and for reading and writing .dbf (dBase) files.
ChangeLog | 10 +
DESCRIPTION | 6
R/zzz.R | 3
src/R_systat.c | 8
src/Rdbfread.c | 12 -
src/Rdbfwrite.c | 35 ++--
src/SASxport.c | 54 +++---
src/SASxport.h | 10 -
src/avl.c | 77 ++++-----
src/avl.h | 4
src/dbfopen.c | 440 ++++++++++++++++++++++++++--------------------------
src/foreign.h | 2
src/format.c | 6
src/minitab.c | 64 +++----
src/pfm-read.c | 84 ++++-----
src/sfm-read.c | 60 +++----
src/shapefil.h | 54 +++---
src/spss.c | 74 ++++----
src/stataread.c | 220 +++++++++++++-------------
src/swap_bytes.h.in | 10 -
src/var.h.in | 4
tests/sas.R | 2
22 files changed, 625 insertions(+), 614 deletions(-)
Author: Ioannis Kosmidis
Diff between brglm versions 0.5-2 dated 2008-02-25 and 0.5-3 dated 2008-04-10
Title: Bias-reduction in binomial-response GLMs.
Description: Fit binomial-response GLMs using either a modified-score approach to bias-reduction or maximum penalized likelihood where penalization is by Jeffreys invariant prior. Fitting takes place by iteratively fitting a local GLM on a pseudo-data representation. The interface is essentially the same as 'glm'. More flexibility is provided by the fact that custom pseudo-data representations can be specified and used for model fitting. Functions are provided for the construction of confidence intervals for the bias-reduced estimates.
DESCRIPTION | 6 +++---
R/brglm.R | 10 +++++++---
inst/CHANGES | 6 ++++++
3 files changed, 16 insertions(+), 6 deletions(-)
Author: John Fox
Diff between Rcmdr versions 1.3-13 dated 2008-04-06 and 1.3-14 dated 2008-04-10
Title: R Commander
Description:
A platform-independent basic-statistics GUI (graphical user interface) for R, based on the tcltk package.
DESCRIPTION | 6 +++---
R/commander.R | 4 ++--
R/utilities.R | 4 ++--
inst/CHANGES | 4 ++++
man/Rcmdr-package.Rd | 4 ++--
5 files changed, 13 insertions(+), 9 deletions(-)
Author: Gordon Smyth with contributions from Yifang Hu
Title: Statistical Modeling
Description: Various statistical modeling functions including growth curve comparisons, limiting dilution analysis, mixed linear models, heteroscedastic regression, Tweedie family generalized linear models, the inverse-Gaussian distribution and Gauss quadrature.
Diff between statmod versions 1.3.5 dated 2008-03-26 and 1.3.6 dated 2008-04-09
DESCRIPTION | 6 R/limdil.R | 18 inst/doc/changelog.txt | 7 tests/statmod-Tests.Rout.save | 956 +++++++++++++++++++++--------------------- 4 files changed, 497 insertions(+), 490 deletions(-)
Author: Hemant Ishwaran
Diff between randomSurvivalForest versions 3.2.2 dated 2008-03-26 and 3.2.3 dated 2008-04-09
More information about randomSurvivalForest at CRAN
Title: Ishwaran and Kogalur's Random Survival Forest
Description: Ensemble survival analysis based on a random forest of trees using random inputs.
DESCRIPTION | 6 +--
R/find.interaction.R | 2 -
R/interaction.rsf.R | 2 -
R/plot.ensemble.R | 2 -
R/plot.error.R | 2 -
R/plot.proximity.R | 2 -
R/plot.rsf.R | 2 -
R/plot.variable.R | 2 -
R/pmml_to_rsf.R | 2 -
R/predict.rsf.R | 14 +++++---
R/print.rsf.R | 2 -
R/randomSurvivalForest.R | 2 -
R/rsf.R | 2 -
R/rsf.default.R | 2 -
R/rsf.formula.R | 2 -
R/rsf.news.R | 2 -
R/rsf_to_pmml.R | 2 -
R/zzz.R | 2 -
inst/NEWS | 23 +++++++++++--
src/extern.h | 2 -
src/global.h | 2 -
src/node.h | 2 -
src/node_ops.c | 2 -
src/node_ops.h | 2 -
src/nrutil.c | 2 -
src/nrutil.h | 2 -
src/rsf.c | 2 -
src/rsf.h | 2 -
src/rsfBootstrap.c | 2 -
src/rsfBootstrap.h | 2 -
src/rsfEntry.c | 2 -
src/rsfEntry.h | 2 -
src/rsfImpute.c | 81 ++++++++++++++++++++++++++---------------------
src/rsfImpute.h | 2 -
src/rsfSplit.c | 2 -
src/rsfSplit.h | 2 -
src/rsfStack.c | 2 -
src/rsfStack.h | 2 -
src/rsfUtil.c | 2 -
src/rsfUtil.h | 2 -
40 files changed, 112 insertions(+), 84 deletions(-)
Permanent link
Author: Karl W Broman
Diff between qtl versions 1.08-55 dated 2008-04-03 and 1.08-56 dated 2008-04-09
Title: Tools for analyzing QTL experiments
Description: Analysis of experimental crosses to identify genes (called quantitative trait loci, QTLs) contributing to variation in quantitative traits.
DESCRIPTION | 6 +++---
R/scanqtl.R | 4 ++--
inst/README.txt | 18 +++++++++---------
inst/STATUS.txt | 7 ++++++-
inst/TODO.txt | 2 ++
5 files changed, 22 insertions(+), 15 deletions(-)
Author: Alexis Dinno
Diff between paran versions 1.3.2 dated 2008-03-07 and 1.3.5 dated 2008-04-09
Title: Horn's Test of Principal Components/Factors
Description: paran is an implementation of Horn's technique for numerically and graphically evaluating the components or factors retained in a principle components analysis (PCA) or factor analysis (FA). Horn's method contrasts eigenvalues produced through a PCA or FA on a number of random data sets of uncorrelated variables with the same number of variables and observations as the experimental or observational data set to produce eigenvalues for components or factors that are adjusted for the sample error-induced inflation. Components with adjusted eigenvalues greater than one are retained. paran may also be used to conduct parallel analysis following Glorfeld's (1995) suggestions to reduce the likelihood of over-retention.
DESCRIPTION | 6 +-
R/paran.R | 127 ++++++++++++++++++++++++++++++++++++-----------------------
man/paran.Rd | 21 +++++++--
3 files changed, 99 insertions(+), 55 deletions(-)
Author: Gregory R. Warnes. Includes R source code and/or documentation
contributed by Ben Bolker and Thomas Lumley
Title: Various R programming tools for plotting data
Description: Various R programming tools for plotting data
Diff between gplots versions 2.3.2 dated 2006-11-15 and 2.6.0 dated 2008-04-09
ChangeLog | 910 ++++++++++++++++++++++++++----------------- DESCRIPTION | 6 NAMESPACE | 1 NEWS | 64 ++- R/bandplot.R | 19 R/boxplot.n.R | 2 R/col2hex.R |only R/heatmap.2.R | 61 ++ R/lowess.R | 2 R/overplot.R | 5 R/plot.lm.R | 6 R/plotCI.R | 2 R/plotmeans.R | 2 R/replaceTabs.R |only R/residplot.R | 2 R/textplot.R | 35 + R/wapply.R | 2 inst/ChangeLog |only inst/NEWS |only man/bandplot.Rd | 5 man/barplot2.Rd | 4 man/boxplot.n.Rd | 2 man/col2hex.Rd |only man/heatmap.2.Rd | 29 + man/hist2d.Rd | 4 man/ooplot.Rd | 4 man/overplot.Rd | 11 man/plotCI.Rd | 2 man/plotmeans.Rd | 2 man/textplot.Rd | 39 + tests/heatmap2Test.Rout.save | 40 + 31 files changed, 826 insertions(+), 435 deletions(-)
More information about RcmdrPlugin.Export at CRAN
Permanent link
Author: Jim Lemon
Diff between plotrix versions 2.4 dated 2008-03-25 and 2.4-1 dated 2008-04-08
Title: Various plotting functions
Description: Lots of plots, various labeling, axis and color scaling functions.
DESCRIPTION | 6 +--
R/color2D.matplot.R | 9 +++++
R/radial.plot.R | 8 +++--
R/soil.texture.R | 10 +++---
R/stackpoly.R | 40 ++++++++++++++++----------
R/textbox.R | 1
R/thigmophobe.R | 2 +
R/triax.R | 80 ++++++++++++++++++++++++++--------------------------
man/draw.arc.Rd | 2 -
man/radial.plot.Rd | 7 ++--
man/soil.texture.Rd | 3 +
man/stackpoly.Rd | 15 +++++----
man/triax.plot.Rd | 9 ++---
13 files changed, 110 insertions(+), 82 deletions(-)
Author: Edzer J. Pebesma
Diff between gstat versions 0.9-44 dated 2008-03-12 and 0.9-45 dated 2008-04-08
Title: geostatistical modelling, prediction and simulation
Description: variogram modelling; simple, ordinary and universal point
or block (co)kriging, sequential Gaussian or indicator (co)simulation;
variogram and variogram map plotting utility functions.
DESCRIPTION | 8
R/variogram.default.R | 1
inst/ChangeLog |only
inst/doc/gstat.pdf |30143 +++++++++++++++++++++++++-------------------------
4 files changed, 15254 insertions(+), 14898 deletions(-)
Author: Robert B. Gramacy
Diff between tgp versions 2.1 dated 2008-03-24 and 2.1-1 dated 2008-04-08
Title: Bayesian treed Gaussian process models
Description: Bayesian nonstationary, semiparametric nonlinear regression
and design by treed Gaussian processes with jumps to the limiting
linear model (LLM). Special cases also implemented include Bayesian
linear models, CART, treed linear models, stationary separable and
isotropic Gaussian processes. Provides 1-d and 2-d plotting functions
(with projection and slice capabilities) and tree drawing, designed for
visualization of tgp-class output. Sensitivity analysis and
multi-resolution models are supported, and a limited set of experimental
design and adaptive sampling functions are also provided, including ALM,
ALC, and expected improvement.
ChangeLog | 14 +++
DESCRIPTION | 4
R/default.itemps.R | 3
R/predict.tgp.R | 6 -
R/tgp.R | 2
R/tgp.postprocess.R | 9 ++
data/._exp2d.rda |only
demo/it.R | 31 +++----
inst/doc/it.iRnw | 97 +++++++++++++--------
inst/doc/tgp2.pdf |binary
man/default.itemps.Rd | 1
src/._all_draws.c |only
src/._all_draws.h |only
src/._base.cc |only
src/._base.h |only
src/._bessel_k.c |only
src/._bessel_k.h |only
src/._corr.cc |only
src/._corr.h |only
src/._dopt.c |only
src/._dopt.h |only
src/._exp.cc |only
src/._exp.h |only
src/._exp_sep.cc |only
src/._exp_sep.h |only
src/._gen_covar.c |only
src/._gen_covar.h |only
src/._gp.cc |only
src/._gp.h |only
src/._lh.c |only
src/._lh.h |only
src/._lik_post.c |only
src/._lik_post.h |only
src/._linalg.c |only
src/._linalg.h |only
src/._list.cc |only
src/._list.h |only
src/._matern.cc |only
src/._matern.h |only
src/._matrix.c |only
src/._matrix.h |only
src/._model.cc |only
src/._model.h |only
src/._mr_exp_sep.cc |only
src/._mr_exp_sep.h |only
src/._mstructs.cc |only
src/._mstructs.h |only
src/._params.cc |only
src/._params.h |only
src/._predict.c |only
src/._predict.h |only
src/._predict_linear.c |only
src/._predict_linear.h |only
src/._rand_draws.c |only
src/._rand_draws.h |only
src/._rand_pdf.c |only
src/._rand_pdf.h |only
src/._randomkit.c |only
src/._randomkit.h |only
src/._rhelp.c |only
src/._rhelp.h |only
src/._temper.cc |only
src/._temper.h |only
src/._tgp.cc |only
src/._tgp.h |only
src/._tree.cc |only
src/._tree.h |only
src/matrix.c | 38 ++++++++
src/matrix.h | 8 +
src/model.cc | 41 +++++----
src/model.h | 6 -
src/temper.cc | 165 ++++++++++++++++++++++++++++++++-----
src/temper.h | 16 ++-
src/tgp.cc | 217 +++++++++++++++++++++++++------------------------
src/tgp.h | 2
src/tree.h | 4
76 files changed, 447 insertions(+), 217 deletions(-)
Author: Roger Bivand
Title: Interface between GRASS 6 geographical information system and R
Description: Interpreted interface between GRASS 6 geographical
information system and R, based on starting R from within the GRASS
environment.
Diff between spgrass6 versions 0.5-3 dated 2008-03-12 and 0.5-5 dated 2008-04-08
ChangeLog | 13 +++++++++++++ DESCRIPTION | 6 +++--- R/vect_link.R | 29 ++++++++++++++++++++++++++--- inst/ChangeLog | 13 +++++++++++++ man/gmeta6.Rd | 2 +- man/readRAST6.Rd | 6 +++--- man/readVECT6.Rd | 18 +++++++++++++----- 7 files changed, 72 insertions(+), 15 deletions(-)
Author: Edzer J. Pebesma
Diff between sp versions 0.9-24 dated 2008-03-14 and 0.9-25 dated 2008-04-08
Title: classes and methods for spatial data
Description: A package that provides classes and methods for spatial
data. The classes document where the spatial location information
resides, for 2D or 3D data. Utility functions are provided, e.g. for
plotting data as maps, spatial selection, as well as methods for
retrieving coordinates, for subsetting, print, summary, etc.
DESCRIPTION | 10 ++++----
R/SpatialPolygons-displayMethods.R | 44 +++++++++----------------------------
R/image.R | 3 +-
R/overlay.R | 2 -
inst/doc/sp.pdf | 26 ++++++++++-----------
5 files changed, 32 insertions(+), 53 deletions(-)
Author: Thomas Petzoldt
Title: Simulation of ecological (and other) dynamic systems
Description: Object oriented framework to simulate ecological (and other) dynamic systems
Diff between simecol versions 0.5-3 dated 2007-12-09 and 0.5-5 dated 2008-04-08
simecol-0.5-3/simecol/R/rk4.R |only simecol-0.5-3/simecol/R/wraplsoda.R |only simecol-0.5-3/simecol/man/rk4.Rd |only simecol-0.5-5/simecol/DESCRIPTION | 8 +- simecol-0.5-5/simecol/NAMESPACE | 29 ++++++---- simecol-0.5-5/simecol/R/aaa_classes.R | 1 simecol-0.5-5/simecol/R/accessors.R | 9 +++ simecol-0.5-5/simecol/R/constructors.R | 9 ++- simecol-0.5-5/simecol/R/euler.R | 7 +- simecol-0.5-5/simecol/R/fitOdeModel.R |only simecol-0.5-5/simecol/R/iteration.R | 43 +++++++++++++-- simecol-0.5-5/simecol/R/p.constrain.R |only simecol-0.5-5/simecol/R/print.R | 2 simecol-0.5-5/simecol/R/sim.R | 32 +++++++++-- simecol-0.5-5/simecol/R/ssqOdeModel.R |only simecol-0.5-5/simecol/data/chemostat.rda |only simecol-0.5-5/simecol/demo/00Index | 2 simecol-0.5-5/simecol/inst/NEWS | 14 +++++ simecol-0.5-5/simecol/inst/WISHLIST | 5 + simecol-0.5-5/simecol/inst/examples/chemostat.R |only simecol-0.5-5/simecol/inst/examples/logist.R | 1 simecol-0.5-5/simecol/man/addtoenv.Rd | 2 simecol-0.5-5/simecol/man/chemostat.Rd |only simecol-0.5-5/simecol/man/euler.Rd | 29 +++++++--- simecol-0.5-5/simecol/man/fitOdeModel.Rd |only simecol-0.5-5/simecol/man/initialize-methods.Rd | 3 - simecol-0.5-5/simecol/man/iteration.Rd | 67 ++++++++++++++++++------ simecol-0.5-5/simecol/man/listOrNULL.Rd | 5 + simecol-0.5-5/simecol/man/p.constrain.Rd |only simecol-0.5-5/simecol/man/parms.Rd | 21 +++++++ simecol-0.5-5/simecol/man/simecol-package.Rd | 16 +++-- simecol-0.5-5/simecol/man/ssqOdeModel.Rd |only simecol-0.5-5/simecol/work |only 33 files changed, 234 insertions(+), 71 deletions(-)
Author: Rajarshi Guha
Diff between rcdk versions 2.8 dated 2008-04-04 and 2.8.1 dated 2008-04-08
Title: rcdk - Interface to the CDK Libraries
Description: This package allows the user to access functionality in the
CDK, a Java framework for cheminformatics. This allows the user to load
molecules, evaluate fingerprints, calculate molecular descriptors and so on.
In addition the CDK API allows the user to view structures in 2D.
DESCRIPTION | 6 +++---
NEWS | 2 ++
inst/cont/cdk.jar |binary
3 files changed, 5 insertions(+), 3 deletions(-)
Author: Hugh Chipman, Rob Tibshirani, with tsvq code originally from Trevor Hastie
Title: Hybrid hierarchical clustering
Description: hybrid hierarchical clustering via mutual clusters
Diff between hybridHclust versions 1.0-2 dated 2007-10-21 and 1.0-3 dated 2008-04-08
DESCRIPTION | 8 ++++---- R/eisencluster.R | 8 ++++---- R/tsvq.R | 6 +++--- man/sorlielabels.Rd | 4 ++-- 4 files changed, 13 insertions(+), 13 deletions(-)
Author: Madeleine Cule, Robert Gramacy, Richard Samworth
Title: Maximum likelihood estimation of a log-concave density
Description: Computes the maximum likelihood estimator from an i.i.d. sample of data from a log-concave density in any number of dimensions. Plots are available for 1- and 2-d data.
Diff between LogConcDEAD versions 1.0-11 dated 2007-12-05 and 1.1-1 dated 2008-04-08
ChangeLog | 6 + DESCRIPTION | 6 - R/convhullnew.R | 1 R/lcd.eval.R | 5 + R/lcd.mle.R | 23 ++++-- R/lcd.weights.R |only R/plot.LCDweights.R |only R/print.LCDweights.R |only R/zzz.R | 4 + configure | 18 ++--- configure.ac | 2 man/LogConcDEAD-internal.Rd | 3 man/LogConcDEAD-package.Rd | 8 +- man/lcd.mle.Rd | 14 +++ man/lcd.weights.Rd |only man/plot.LCDweights.Rd |only src/Makevars | 2 src/Makevars.win | 2 src/convhullnew.c | 4 + src/convhullnmlc.c | 6 + src/logconeff.c | 10 ++ src/logconweights.c |only src/renormalise.c | 39 +++-------- src/sigmaeff.c | 63 ++++++----------- src/sigmaeffw.c |only src/solvoptweights.c |only src/subgradeff.c | 117 ++++++++++++--------------------- src/subgradeffw.c |only src/useful.c | 156 +++++++++++++++++++++++++++++++++++++++----- 29 files changed, 302 insertions(+), 187 deletions(-)
Author: Markus Helbig
Diff between JGR versions 1.5-14 dated 2008-04-04 and 1.5-15 dated 2008-04-08
Title: JGR - Java Gui for R
Description: Java GUI for R - cross-platform, universal and unified Graphical User Interface for R. For full functionality on Windows and Mac OS X JGR requires a start application which depends on your OS. This can be downloaded from JGR's website: http://www.rosuda.org/JGR
DESCRIPTION | 2 +-
NEWS | 3 +++
R/JGR.R | 4 ++--
inst/java/JGR.jar |binary
4 files changed, 6 insertions(+), 3 deletions(-)
Author: Longhai Li
Diff between BPHO versions 1.2-4 dated 2008-04-02 and 1.2-5 dated 2008-04-08
Title: Bayesian Prediction with High-order Interactions
Description:
This software can be used in two situations. The first is to predict the next outcome based on the previous states of a discrete sequence. The second is to classify a discrete response based on a number of discreate covariates. In both situations, we use Bayesian logistic regression models that consider the high-order interactions. The models are trained with slice sampling method, a variant of Markov chain Monte Carlo. The time arising from using high-order interactions is reduced greatly by our compression technique that represents a group of original parameters as a single one in MCMC step.
BPHO-1.2-4/BPHO/man/compression.Rd |only
BPHO-1.2-4/BPHO/man/prediction.Rd |only
BPHO-1.2-5/BPHO/DESCRIPTION | 6 ++---
BPHO-1.2-5/BPHO/R/gendata.r | 24 +++++++++++++++++++++-
BPHO-1.2-5/BPHO/R/training.r | 38 ++++++++++++++++++-----------------
BPHO-1.2-5/BPHO/R/user.r | 5 +---
BPHO-1.2-5/BPHO/man/a-user.Rd | 8 +++----
BPHO-1.2-5/BPHO/man/b-compression.Rd |only
BPHO-1.2-5/BPHO/man/c-training.Rd | 13 ++++++-----
BPHO-1.2-5/BPHO/man/d-prediction.Rd |only
BPHO-1.2-5/BPHO/man/z-gendata.Rd | 5 +++-
11 files changed, 63 insertions(+), 36 deletions(-)
Author: Maria L. Rizzo and Gabor J. Szekely
Title: E-statistics (energy statistics)
Description: E-statistics (energy) tests and statistics for comparing distributions:
multivariate normality,
multivariate k-sample test for equal distributions,
hierarchical clustering by e-distances,
multivariate independence tests,
distance correlation,
goodness-of-fit tests.
Energy-statistics concept based on a generalization of
Newton's potential energy is due to Gabor J. Szekely.
Diff between energy versions 1.0-9 dated 2008-03-05 and 1.1-0 dated 2008-04-07
energy-1.0-9/energy/man/indep.etest.Rd |only energy-1.1-0/energy/DESCRIPTION | 23 +-- energy-1.1-0/energy/INDEX | 7 - energy-1.1-0/energy/R/Eindep.R | 90 +++++++++++++ energy-1.1-0/energy/R/dcov.R |only energy-1.1-0/energy/man/dcov.Rd |only energy-1.1-0/energy/man/dcov.test.Rd |only energy-1.1-0/energy/man/edist.Rd | 4 energy-1.1-0/energy/man/energy-deprecated.Rd |only energy-1.1-0/energy/man/energy.hclust.Rd | 4 energy-1.1-0/energy/man/indep.test.Rd |only energy-1.1-0/energy/man/ksample.e.Rd | 1 energy-1.1-0/energy/man/mvI.Rd |only energy-1.1-0/energy/man/mvI.test.Rd |only energy-1.1-0/energy/src/Eindep.c | 37 ----- energy-1.1-0/energy/src/dcov.c |only energy-1.1-0/energy/src/energy.c | 176 ++------------------------- energy-1.1-0/energy/src/utilities.c |only 18 files changed, 133 insertions(+), 209 deletions(-)
Author: Jarrod Hadfield
Title: ML and MCMC Methods for Pedigree Reconstruction and Analysis
Description: The primary aim of MasterBayes is to use MCMC techniques to integrate over uncertainty in pedigree configurations estimated from molecular markers and phenotypic data. Emphasis is put on the marginal distribution of parameters that relate the phenotypic data to the pedigree. All simulation is done in compiled C++ for efficency.
Diff between MasterBayes versions 2.1 dated 2007-11-26 and 2.2 dated 2008-04-07
MasterBayes-2.1/MasterBayes/inst/doc/MB.Tutorial.Grahics |only MasterBayes-2.1/MasterBayes/inst/doc/MasterBayes.Tutorial.Rnw |only MasterBayes-2.1/MasterBayes/inst/doc/MasterBayes.Tutorial.aux |only MasterBayes-2.1/MasterBayes/inst/doc/MasterBayes.Tutorial.bbl |only MasterBayes-2.1/MasterBayes/inst/doc/MasterBayes.Tutorial.blg |only MasterBayes-2.1/MasterBayes/inst/doc/MasterBayes.Tutorial.log |only MasterBayes-2.1/MasterBayes/inst/doc/MasterBayes.Tutorial.tex |only MasterBayes-2.1/MasterBayes/inst/doc/MasterBayes.Tutorial.toc |only MasterBayes-2.1/MasterBayes/inst/doc/MasterBayes.bib |only MasterBayes-2.1/MasterBayes/src/ide.cc |only MasterBayes-2.1/MasterBayes/src/la.cc |only MasterBayes-2.1/MasterBayes/src/matrix_iterator.h |only MasterBayes-2.1/MasterBayes/src/smath.cc |only MasterBayes-2.1/MasterBayes/src/stat.cc |only MasterBayes-2.1/MasterBayes/src/util.h |only MasterBayes-2.2/MasterBayes/DESCRIPTION | 6 MasterBayes-2.2/MasterBayes/NAMESPACE | 3 MasterBayes-2.2/MasterBayes/R/ErrorCheck.R | 2 MasterBayes-2.2/MasterBayes/R/MCMCped.R | 38 MasterBayes-2.2/MasterBayes/R/MLE.beta.R | 97 MasterBayes-2.2/MasterBayes/R/MLE.ped.R | 80 MasterBayes-2.2/MasterBayes/R/MLE.popsize.R | 2 MasterBayes-2.2/MasterBayes/R/getXlist.R | 53 MasterBayes-2.2/MasterBayes/R/getsPandtP.R | 11 MasterBayes-2.2/MasterBayes/R/modeP.R | 10 MasterBayes-2.2/MasterBayes/R/post.pairs.R |only MasterBayes-2.2/MasterBayes/R/simpedigree.R | 9 MasterBayes-2.2/MasterBayes/R/varPed.R | 29 MasterBayes-2.2/MasterBayes/inst/doc/Figures |only MasterBayes-2.2/MasterBayes/inst/doc/MasterBayes Active.Rnw~ |only MasterBayes-2.2/MasterBayes/inst/doc/MasterBayes.Tutorial.pdf |binary MasterBayes-2.2/MasterBayes/man/MCMCped.Rd | 7 MasterBayes-2.2/MasterBayes/man/MLE.beta.Rd | 2 MasterBayes-2.2/MasterBayes/man/MLE.ped.Rd | 7 MasterBayes-2.2/MasterBayes/man/MasterBayes.Rd | 7 MasterBayes-2.2/MasterBayes/man/beta.loglik.Rd | 2 MasterBayes-2.2/MasterBayes/man/modeG.Rd | 2 MasterBayes-2.2/MasterBayes/man/modeP.Rd | 4 MasterBayes-2.2/MasterBayes/man/popsize.loglik.Rd | 2 MasterBayes-2.2/MasterBayes/man/post.pairs.Rd |only MasterBayes-2.2/MasterBayes/man/startPed.Rd | 2 MasterBayes-2.2/MasterBayes/man/varPed.Rd | 21 MasterBayes-2.2/MasterBayes/src/ErrorMat.h | 14 MasterBayes-2.2/MasterBayes/src/General.h | 19 MasterBayes-2.2/MasterBayes/src/LikFunctions.cc | 13 MasterBayes-2.2/MasterBayes/src/MCMCped.cc | 85 MasterBayes-2.2/MasterBayes/src/MCMCped.h | 10 MasterBayes-2.2/MasterBayes/src/Makevars | 2 MasterBayes-2.2/MasterBayes/src/Makevars.in | 2 MasterBayes-2.2/MasterBayes/src/Read_in_data.cc | 2 MasterBayes-2.2/MasterBayes/src/SampD.cc |only MasterBayes-2.2/MasterBayes/src/SampD.h |only MasterBayes-2.2/MasterBayes/src/SampDomG.cc | 59 MasterBayes-2.2/MasterBayes/src/SampG.cc | 813 - MasterBayes-2.2/MasterBayes/src/SampP.cc | 105 MasterBayes-2.2/MasterBayes/src/SampP.h | 4 MasterBayes-2.2/MasterBayes/src/SampS.cc |only MasterBayes-2.2/MasterBayes/src/SampS.h |only MasterBayes-2.2/MasterBayes/src/SpecRand.cc | 39 MasterBayes-2.2/MasterBayes/src/algorithm.h |only MasterBayes-2.2/MasterBayes/src/calcX_G.cc | 13 MasterBayes-2.2/MasterBayes/src/calcX_G.h | 8 MasterBayes-2.2/MasterBayes/src/calcX_GD.cc |only MasterBayes-2.2/MasterBayes/src/calcX_GS.cc |only MasterBayes-2.2/MasterBayes/src/calcX_Gcervus.cc | 49 MasterBayes-2.2/MasterBayes/src/calcX_GcervusD.cc |only MasterBayes-2.2/MasterBayes/src/calcX_GcervusS.cc |only MasterBayes-2.2/MasterBayes/src/datablock.h |only MasterBayes-2.2/MasterBayes/src/defs.h |only MasterBayes-2.2/MasterBayes/src/error.h | 362 MasterBayes-2.2/MasterBayes/src/ide.h | 1791 ++ MasterBayes-2.2/MasterBayes/src/la.h | 1041 + MasterBayes-2.2/MasterBayes/src/lapack.h |only MasterBayes-2.2/MasterBayes/src/matrix.h | 6826 +++++++--- MasterBayes-2.2/MasterBayes/src/matrix_bidirectional_iterator.h |only MasterBayes-2.2/MasterBayes/src/matrix_forward_iterator.h |only MasterBayes-2.2/MasterBayes/src/matrix_random_access_iterator.h |only MasterBayes-2.2/MasterBayes/src/smath.h | 1139 + MasterBayes-2.2/MasterBayes/src/stat.h | 766 - 79 files changed, 10476 insertions(+), 3082 deletions(-)
Author: original by Gareth Ambler
Diff between mfp versions 1.4.3 dated 2007-12-12 and 1.4.4 dated 2008-04-07
Title: Multivariable Fractional Polynomials
Description: Fractional polynomials are used to represent curvature in regression models. A key reference is Royston and Altman, 1994.
Changelog | 1 +
DESCRIPTION | 6 +++---
NAMESPACE | 1 +
R/fp.fit.R | 28 +++++++++++-----------------
R/fp.sel.R | 18 +++++++++---------
R/predict.mfp.R |only
inst/doc/mfp-FIG1.pdf | 4 ++--
inst/doc/mfp-FIG2.pdf | 4 ++--
inst/doc/mfp.bib | 2 +-
inst/doc/mfp.pdf |binary
man/plot.mfp.Rd | 2 +-
11 files changed, 31 insertions(+), 35 deletions(-)
Author: Mark Stevenson
Diff between epiR versions 0.9-3 dated 2008-03-24 and 0.9-4 dated 2008-04-07
Title: Functions for analysing epidemiological data
Description: A package for analysing epidemiological data. Contains functions
for directly and indirectly adjusting measures of disease frequency,
quantifying measures of association on the basis of single or multiple
strata of count data presented in a contingency table, and computing
confidence intervals around incidence risk and incidence rate estimates.
Miscellaneous functions for use in meta-analysis, diagnostic test
interpretation, and sample size calculations.
DESCRIPTION | 8
R/epi.interaction.r |only
doc/epiR.pdf | 7416 +++++++++++++++++++++++++------------------------
man/epi.interaction.Rd |only
4 files changed, 3789 insertions(+), 3635 deletions(-)
Author: Lukasz Nieweglowski.
Diff between clv versions 0.1-1 dated 2007-07-16 and 0.1-2 dated 2008-04-07
Title: Cluster Validation Techniques
Description:
Package contains most of the popular internal and external cluster validation methods ready to use for the most of the outputs
produced by functions coming from package "cluster". Package contains also functions and examples of usage for cluster
stability approach applied to algorithms implemented in "cluster" package.
DESCRIPTION | 4 ++--
R/internals.R | 4 ++--
R/standard_external_measures.R | 2 +-
README | 8 ++++++--
src/cluster_stability.c | 3 ++-
src/standard_external_measures.c | 1 +
6 files changed, 14 insertions(+), 8 deletions(-)
Author: Graham Williams
Diff between rattle versions 2.3.1 dated 2008-03-24 and 2.3.7 dated 2008-04-06
Title: A graphical user interface for data mining in R using GTK
Description: Rattle provides a Gnome (RGtk2) based interface to
R functionality for data mining. The aim is to provide
a simple and intuitive interface that allows a user to quickly
load data from a CSV file (or via ODBC), transform and explore the data,
and build and evaluate models, and export models as PMML (predictive
modelling markup language). All of this with knowing little about R.
All R commands are logged and available for the user, as a tool to
then begin interacting directly with R itself, if so desired. Rattle also
exports a number of utility functions and the graphical user interface does
not need to be run to deploy these.
DESCRIPTION | 6
R/ada.R | 11 -
R/ada_gui.R | 11 -
R/associate.R | 52 ++---
R/cluster.R | 65 +++---
R/execute.R | 39 +--
R/export.R | 23 +-
R/log.R | 17 +
R/model.R | 31 +--
R/paradigm.R | 34 +--
R/projects.R | 28 +-
R/rattle.R | 541 ++++++++++++++++++++++++++++++-----------------------
inst/csv/audit.csv | 20 -
man/rattle.Rd | 2
14 files changed, 492 insertions(+), 388 deletions(-)
Author: John Fox
Diff between sem versions 0.9-11 dated 2007-10-09 and 0.9-12 dated 2008-04-06
Title: Structural Equation Models
Description: This package contains functions for fitting general linear structural
equation models (with observed and unobserved variables) by the method of
maximum likelihood using the RAM approach, and for fitting structural equations
in observed-variable models by two-stage least squares.
DESCRIPTION | 6 +++---
R/path.diagram.R | 5 ++---
R/raw.moments.R | 4 ++--
inst/CHANGES | 6 ++++++
man/residuals.Rd | 2 +-
5 files changed, 14 insertions(+), 9 deletions(-)
Author: Virasakdi Chongsuvivatwong
Diff between epicalc versions 2.6.2.8 dated 2008-03-29 and 2.6.2.10 dated 2008-04-06
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.
DESCRIPTION | 6
R/epicalc.R | 1106 +++++++++++++++++++++++++++++++++------------------------
data/VCT.rdata |only
man/VCT.rd |only
man/dotplot.rd | 19
man/roc.rd | 10
man/summ.rd | 31 +
man/tab1.rd | 33 +
man/tabpct.rd | 30 +
9 files changed, 739 insertions(+), 496 deletions(-)
Author: John Fox
Diff between effects versions 1.0-11 dated 2007-10-09 and 1.0-12 dated 2008-04-06
Title: Effect Displays for Linear and Generalized Linear Models
Description:
Graphical and tabular effect displays, e.g., of interactions, for linear
and generalised linear models.
DESCRIPTION | 6 +++---
R/effects-plots.R | 27 +++++++++++++++++----------
inst/CHANGES | 4 ++++
man/summary.effect.Rd | 6 ++++--
4 files changed, 28 insertions(+), 15 deletions(-)
Author: John Fox
Diff between Rcmdr versions 1.3-12 dated 2008-01-24 and 1.3-13 dated 2008-04-06
Title: R Commander
Description:
A platform-independent basic-statistics GUI (graphical user interface) for R, based on the tcltk package.
DESCRIPTION | 8
NAMESPACE | 12
R/Rexcel-specific.R | 162 -
R/cluster.R | 922 +++---
R/commander.R | 1540 +++++------
R/data-menu.R | 3364 ++++++++++++------------
R/distributions-menu.R | 4098 ++++++++++++++---------------
R/distributions-plotDistributions-menu.R | 1936 +++++++-------
R/distributions-sample.R | 4184 +++++++++++++++---------------
R/file-menu.R | 600 ++--
R/graphs-menu.R | 2388 ++++++++---------
R/model-menu.R | 1050 +++----
R/sciviews-specific.R | 577 ++--
R/startup.R | 263 -
R/statistics-dimensional-menu.R | 344 +-
R/statistics-means-menu.R | 464 +--
R/statistics-models-menu.R | 934 +++---
R/statistics-nonparametric-menu.R | 262 -
R/statistics-proportions-menu.R | 228 -
R/statistics-summaries-menu.R | 644 ++--
R/statistics-tables-menu.R | 550 ++--
R/statistics-variances-menu.R | 224 -
R/utilities.R | 4261 +++++++++++++++----------------
inst/CHANGES | 8
inst/etc/Rcmdr-menus.txt | 16
man/Commander.Rd | 2
man/Rcmdr-package.Rd | 6
man/Rcmdr.Utilities.Rd | 19
28 files changed, 14558 insertions(+), 14508 deletions(-)
Author: Michael Lawrence
Diff between RGtk2 versions 2.12.5-2 dated 2008-04-04 and 2.12.5-3 dated 2008-04-06
Title: R bindings for Gtk 2.8.0 and above
Description: Facilities in the R language for programming
graphical interfaces using Gtk, the Gimp Tool Kit.
DESCRIPTION | 6 +++---
src/conversion.c | 2 +-
2 files changed, 4 insertions(+), 4 deletions(-)
Author: Achim Zeileis, Gabor Grothendieck
Title: Z's ordered observations
Description: An S3 class with methods for totally ordered indexed
observations. It is particularly aimed at irregular
time series of numeric vectors/matrices and factors.
zoo's key design goals are independence of a particular
index/date/time class and consistency with with ts and
base R by providing methods to extend standard generics.
Diff between zoo versions 1.5-0 dated 2008-03-14 and 1.5-2 dated 2008-04-05
zoo-1.5-0/zoo/inst/doc/Rplots.ps |only zoo-1.5-0/zoo/inst/doc/plot-axes.pdf |only zoo-1.5-0/zoo/inst/doc/plot-axes.tex |only zoo-1.5-0/zoo/inst/doc/zoo-faq.aux |only zoo-1.5-0/zoo/inst/doc/zoo-faq.out |only zoo-1.5-0/zoo/inst/doc/zoo-faq.tex |only zoo-1.5-0/zoo/inst/doc/zoo-faq.tpt |only zoo-1.5-0/zoo/inst/doc/zoo-quickref.tex |only zoo-1.5-0/zoo/inst/doc/zoo.tex |only zoo-1.5-2/zoo/DESCRIPTION | 6 ++--- zoo-1.5-2/zoo/NAMESPACE | 1 zoo-1.5-2/zoo/NEWS | 7 ++++++ zoo-1.5-2/zoo/R/merge.zoo.R | 3 +- zoo-1.5-2/zoo/R/read.zoo.R | 24 +++++++++++++++++++-- zoo-1.5-2/zoo/R/zoo.R | 5 ++++ zoo-1.5-2/zoo/inst/doc/zoo-faq.Rnw | 35 +++++++++++++++++++++++++++++--- zoo-1.5-2/zoo/inst/doc/zoo-faq.pdf |binary zoo-1.5-2/zoo/inst/doc/zoo-quickref.pdf | 14 ++++++------ zoo-1.5-2/zoo/inst/doc/zoo.pdf |binary zoo-1.5-2/zoo/man/read.zoo.Rd | 11 +++++++++- zoo-1.5-2/zoo/man/zoo.Rd | 1 21 files changed, 89 insertions(+), 18 deletions(-)
Author: Duncan Temple Lang
Diff between rggobi versions 2.1.8-3 dated 2008-04-03 and 2.1.8-4 dated 2008-04-04
Title: Interface between R and GGobi
Description: The rggobi package provides a command-line interface to GGobi, an interactive and dynamic graphics package. Rggobi complements GGobi's graphical user interface, providing a way to fluidly transition between analysis and exploration, as well as automating common tasks.
DESCRIPTION | 8 ++++----
1 file changed, 4 insertions(+), 4 deletions(-)
Author: Mai Zhou. (Art Owen for el.test())
Title: Empirical likelihood ratio for censored/truncated data
Description: empirical likelihood ratio tests for means/quantiles/hazards
from possibly censored and/or truncated data. Now does regression too.
Diff between emplik versions 0.9-3-1 dated 2006-12-27 and 0.9-4 dated 2008-04-04
DESCRIPTION | 6 INDEX | 1 R/MMRtime.R |only R/ROCnp.R |only R/WRegEst.R | 2 R/WRegTest.R | 2 R/el.cen.EM.R | 236 ++++++++++++++-------------- R/el.cen.EM2.R | 262 ++++++++++++++++--------------- R/el.test.wt.R | 4 R/el.test.wt2.R | 405 ++++++++++++++++++++++++------------------------- R/el.test.wt3.R | 402 ++++++++++++++++++++++++------------------------ R/emplikH1.test.R | 6 README | 11 - man/ROCnp.Rd |only man/el.cen.EM.Rd | 1 man/el.cen.EM2.Rd | 29 ++- man/emplik-internal.Rd | 12 + man/emplikH.disc.Rd | 2 18 files changed, 718 insertions(+), 663 deletions(-)
Author: Mai Zhou, Li Lee, Kun Chen.
Title: Compute the NPMLE of distribution from doubly censored data
Description: Use EM algorithm to compute the NPMLE of CDF and also the two
censoring distributions. For doubly censored data
(as described in Chang and Yang (1987) Ann. Stat. 1536-47).
You can also specify a constraint, it will return
the constrained NPMLE and the -2 log empirical likelihood ratio.
This can be used to test the hypothesis about the constraint
and find confidence intervals for F(T) via empirical likelihood
ratio theorem.
Influence function of hat F may also be calculated
(but may be slow).
Diff between dblcens versions 1.1.3 dated 2005-08-07 and 1.1.4 dated 2008-04-04
dblcens-1.1.3/dblcens/src/README |only dblcens-1.1.4/dblcens/DESCRIPTION | 9 dblcens-1.1.4/dblcens/INDEX | 4 dblcens-1.1.4/dblcens/R/d011ch.R | 378 +++++++++++++++++++------------------- 4 files changed, 196 insertions(+), 195 deletions(-)
Author: Roger D. Peng
Diff between cacher versions 0.1-1 dated 2007-11-20 and 0.1-2 dated 2008-04-04
Title: Tools for caching and distributing statistical analyses
Description: This package provides tools for caching statistical analyses in key-value databases which can subsequently be distributed over the web.
DESCRIPTION | 6
R/cacheDB.R | 174 +++++++++---------
R/compile.R | 544 ++++++++++++++++++++++++++++++-----------------------------
R/meta.R | 8
R/remote.R | 198 ++++++++++++---------
R/utils.R | 74 ++++----
R/verify.R | 262 ++++++++++++++--------------
R/vizcache.R | 312 +++++++++++++++++----------------
R/zzz.R | 10 -
TODO | 2
10 files changed, 819 insertions(+), 771 deletions(-)
Author: Michael Lawrence
Diff between RGtk2 versions 2.12.5-1 dated 2008-04-04 and 2.12.5-2 dated 2008-04-04
Title: R bindings for Gtk 2.8.0 and above
Description: Facilities in the R language for programming
graphical interfaces using Gtk, the Gimp Tool Kit.
DESCRIPTION | 6 +++---
src/atkManuals.c | 2 +-
src/conversion.c | 4 ++++
3 files changed, 8 insertions(+), 4 deletions(-)
Author: Andrew Parnell
Title: Stable Isotope Analysis in R
Description: This package takes data on organism isotopes and fits a Bayesian model to their dietary habits based upon a Gaussian likelihood with a mixture dirichlet-distributed prior on the mean.
Diff between siar versions 2.0 dated 2008-03-21 and 2.1 dated 2008-04-04
DESCRIPTION | 6 +- R/loadsiardata.R | 83 ++++++++++++-------------------------- R/newgraphwindow.R | 4 - R/panelcontour.R | 4 - R/panelcor.R | 4 - R/panelhist.R | 6 -- R/siardemo.R | 13 ++--- R/siarhdrs.R | 6 -- R/siarhistograms.R | 9 +--- R/siarmatrixplot.R | 18 +++++--- R/siarmcmcdirichlet.R | 40 ++++++++++++------ R/siarmenu.R | 11 ++--- R/siarmultigrouprun.R | 30 ++++++++++--- R/siarproportionbysourceplot.R | 14 ++---- R/siarsaveoutput.R | 12 ++--- R/siarsinglegrouprun.R | 30 ++++++++++--- man/siar-package.Rd | 2 man/siarmatrixplot.Rd | 4 - man/siarmcmcdirichlet.Rd | 7 ++- man/siarproportionbysourceplot.Rd | 4 - 20 files changed, 156 insertions(+), 151 deletions(-)
Author: Ulrike Groemping, with contributions from Matthias Lehrkamp
Title: Relative importance of regressors in linear models
Description: relaimpo provides several metrics for assessing relative importance in linear models. These can be printed, plotted and bootstrapped. The recommended metric is lmg, which provides a decomposition of the model explained variance into non-negative contributions. There is a version of this package available that additionally provides a new and also recommended metric called pmvd. If you are a non-US user, you can download this extended version from Ulrike Groempings web site.
Diff between relaimpo versions 2.0-1 dated 2008-04-04 and 2.0-2 dated 2008-04-04
relaimpo-2.0-1/relaimpo/R/pmvdcalc.R |only relaimpo-2.0-2/relaimpo/DESCRIPTION | 4 ++-- relaimpo-2.0-2/relaimpo/inst/doc/News.pdf |binary 3 files changed, 2 insertions(+), 2 deletions(-)
Author: Michael Lawrence
Diff between RGtk2 versions 2.12.5 dated 2008-04-01 and 2.12.5-1 dated 2008-04-04
Title: R bindings for Gtk 2.8.0 and above
Description: Facilities in the R language for programming
graphical interfaces using Gtk, the Gimp Tool Kit.
DESCRIPTION | 4 ++--
src/Rgtk.c | 6 ++++--
src/conversion.c | 4 ++--
src/gdkManuals.c | 2 +-
src/glib.c | 8 ++++----
src/gobject.c | 16 ++++++++--------
src/gtkConversion.c | 16 ++++++++--------
src/gtkFuncs.c | 1 -
src/gtkManuals.c | 4 ++--
src/zcompat.c | 2 +-
10 files changed, 32 insertions(+), 31 deletions(-)
Author: Markus Helbig
Diff between JGR versions 1.5-13 dated 2008-03-31 and 1.5-14 dated 2008-04-04
Title: JGR - Java Gui for R
Description: Java GUI for R - cross-platform, universal and unified Graphical User Interface for R. For full functionality on Windows and Mac OS X JGR requires a start application which depends on your OS. This can be downloaded from JGR's website: http://www.rosuda.org/JGR
DESCRIPTION | 2 +-
NEWS | 6 ++++++
R/JGR.R | 4 ++--
inst/java/JGR.jar |binary
4 files changed, 9 insertions(+), 3 deletions(-)
Author: Michael Hahsler, Christian Buchta and Kurt Hornik
Title: Infrastructure for seriation
Description: Infrastructure for seriation with an implementation of several
seriation/sequencing techniques to reorder matrices, dissimilarity
matrices, and dendrograms. Also contains some visualizations techniques
based on seriation.
Diff between seriation versions 0.1-3 dated 2008-02-05 and 0.1-4 dated 2008-04-04
DESCRIPTION | 7 ++- inst/doc/seriation.Rnw | 32 ++++++++-------- inst/doc/seriation.bib | 94 +++++++++++++++++++++++++++++-------------------- inst/doc/seriation.pdf |binary man/criterion.Rd | 6 +-- 5 files changed, 79 insertions(+), 60 deletions(-)
Author: Rajarshi Guha
Diff between rcdk versions 2.7 dated 2008-02-27 and 2.8 dated 2008-04-04
Title: rcdk - Interface to the CDK Libraries
Description: This package allows the user to access functionality in the
CDK, a Java framework for cheminformatics. This allows the user to load
molecules, evaluate fingerprints, calculate molecular descriptors and so on.
In addition the CDK API allows the user to view structures in 2D.
DESCRIPTION | 6 ++--
NEWS |only
R/atoms.R |only
R/bonds.R |only
R/rcdk.R | 66 +++++++++++++++++++++++++++++++++++++++++++++------
inst/cont/cdk.jar |binary
man/atomcontainer.Rd |only
man/atoms.Rd |only
man/getatoms.Rd |only
man/getbonds.Rd |only
man/getconatom.Rd |only
11 files changed, 62 insertions(+), 10 deletions(-)
Author: Ken Beath
Diff between randomLCA versions 0.1-1 dated 2008-03-21 and 0.1-3 dated 2008-04-04
Title: Random Effects Latent Class Analysis
Description: Fits random effects latent class models, as well as standard latent class models.
DESCRIPTION | 6 +++---
R/calc.cond.prob.R | 2 +-
R/fit.adapt.random2byclass.randomLCA.R | 19 ++++++++++++-------
R/fit.adapt.randombyclass.randomLCA.R | 19 ++++++++++---------
inst |only
man/randomLCA.Rd | 17 ++++++++++-------
man/uterinecarcinoma.Rd | 11 +++++++++--
7 files changed, 45 insertions(+), 29 deletions(-)
Author: Jan de Leeuw, Patrick Mair
Title: Homogeneity Analysis
Description: This package performs a homogeneity analysis, aka a multiple correspondence
analysis, but with many additional options. Variables can be grouped into
sets, in order to emulate regression analysis and canonical analysis. For
each variable rank constraints on the category and quantifications (or transformations) and level constraints (which allows one to treat a variable as nominal, ordinal, or numerical) can be imposed.
Diff between homals versions 0.9-3 dated 2007-11-06 and 0.9-4 dated 2008-04-04
homals-0.9-3/homals/R.css |only homals-0.9-4/homals/DESCRIPTION | 6 +++--- homals-0.9-4/homals/inst |only homals-0.9-4/homals/man/homals-package.Rd | 4 ++-- 4 files changed, 5 insertions(+), 5 deletions(-)
Author: Jan de Leeuw, Patrick Mair
Title: Simple and Canonical Correspondence Analysis.
Description: This package performs simple correspondence analysis (CA) on a two-way frequency table (with missings) by means of SVD. Different scaling methods (standard, centroid, Benzecri, Goodman) as well as various plots including confidence ellipsoids are provided.
Diff between anacor versions 0.9-0 dated 2007-12-24 and 0.9-2 dated 2008-04-04
DESCRIPTION | 24 ++++++++++++------------ R/summary.anacor.R | 2 +- inst |only man/anacor-package.Rd | 4 ++-- 4 files changed, 15 insertions(+), 15 deletions(-)
Author: Simon Urbanek
Diff between JavaGD versions 0.5-0 dated 2008-03-24 and 0.5-1 dated 2008-04-04
Title: Java Graphics Device
Description: Graphics device routing all graphics commands to a Java
program. The actual functionality of the JavaGD depends
on the Java-side implementation. Simple AWT and Swing
implementations are included.
DESCRIPTION | 2 +-
NEWS | 3 +++
inst/java/javaGD.jar |binary
src/javaGD.c | 7 ++++---
src/javaGD.h | 4 ++--
5 files changed, 10 insertions(+), 6 deletions(-)
Author: Simon Urbanek
Diff between GDD versions 0.1-11 dated 2008-03-24 and 0.1-12 dated 2008-04-04
Title: GD device for creating bitmap graphics as jpeg, png or gif files using gd library
Description: Platform and X11 independent device for creating bitmaps (png, gif and jpeg).
DESCRIPTION | 2 +-
NEWS | 3 +++
src/GDD.c | 7 +++++--
src/GDD.h | 4 ++--
src/GDDtalk.c | 22 ++++++++++++++--------
5 files changed, 25 insertions(+), 13 deletions(-)
Author: Corneliu Henegar
Diff between FunCluster versions 1.07 dated 2007-10-23 and 1.08 dated 2008-04-04
Title: Functional Profiling of Microarray Expression Data
Description: FunCluster performs a functional analysis of microarray expression
data based on Gene Ontology & KEGG functional annotations. From
expression data and functional annotations FunCluster builds classes
of putatively co-regulated biological processes through a specially
designed clustering procedure.
DESCRIPTION | 8 ++++----
R/FunCluster.R | 6 +++---
R/sysdata.rda |binary
copying | 4 ++--
4 files changed, 9 insertions(+), 9 deletions(-)
Author: Simon Urbanek
Diff between Cairo versions 1.4-1 dated 2008-03-24 and 1.4-2 dated 2008-04-04
Title: R graphics device using cairo graphics library for creating high-quality bitmap (PNG, JPEG, TIFF), vector (PDF, SVG, PostScript) and display (X11 and Win32) output.
Description: This package provides a Cairo graphics device that can be use to create high-quality vector (PDF, PostScript and SVG) and bitmap output (PNG,JPEG,TIFF), and high-quality rendering in displays (X11 and Win32). Since it uses the same back-end for all output, copying across formats is WYSIWYG. Files are created without the dependence on X11 or other external programs. This device supports alpha channel (semi-transparent drawing) and resulting images can contain transparent and semi-transparent regions. It is ideal for use in server environemnts (file output) and as a replacement for other devices that don't have Cairo's capabilities such as alpha support or anti-aliasing. Backends are modular such that any subset of backends is supported.
DESCRIPTION | 2 +-
NEWS | 3 +++
src/backend.h | 1 +
src/cairogd.c | 10 +++++++++-
src/cairogd.h | 4 ++--
5 files changed, 16 insertions(+), 4 deletions(-)
Author: S. M. Barbosa
Title: Time series autoregressive decomposition
Description: Package ArDec implements the autoregressive decomposition of a time series based on the constructive approach in West (1997). Particular cases include the extraction of trend and seasonal components from a monthly time series. Uncertainty on the resulting components can be derived from sampling of the autoregressive model which is written as a linear regression model and handled on a Bayesian framework.
Diff between ArDec versions 1.1-3 dated 2007-11-23 and 1.1-4 dated 2008-04-04
ArDec-1.1-3/ArDec/ChangeLog |only ArDec-1.1-4/ArDec/DESCRIPTION | 6 - ArDec-1.1-4/ArDec/R/ardec.R | 111 ++++++++++++++++-------------- ArDec-1.1-4/ArDec/R/ardec.components.R | 22 ++--- ArDec-1.1-4/ArDec/R/ardec.lm.R | 30 ++++---- ArDec-1.1-4/ArDec/R/ardec.lm.bayes.R | 41 ++++++----- ArDec-1.1-4/ArDec/R/ardec.sampling.R | 26 ++++--- ArDec-1.1-4/ArDec/data/tempEng.rda |binary ArDec-1.1-4/ArDec/man/ardec.components.Rd | 2 9 files changed, 134 insertions(+), 104 deletions(-)
Author: Ulrike Groemping, with contributions from Matthias Lehrkamp
Title: Relative importance of regressors in linear models
Description: relaimpo provides several metrics for assessing relative importance in linear models. These can be printed, plotted and bootstrapped. The recommended metric is lmg, which provides a decomposition of the model explained variance into non-negative contributions. There is a version of this package available that additionally provides a new and also recommended metric called pmvd. If you are a non-US user, you can download this extended version from Ulrike Groempings web site.
Diff between relaimpo versions 2.0 dated 2007-11-23 and 2.0-1 dated 2008-04-04
relaimpo-2.0-1/relaimpo/DESCRIPTION | 12 +++---- relaimpo-2.0-1/relaimpo/LICENSE |only relaimpo-2.0-1/relaimpo/R/calc.relimp.default.intern.R | 2 - relaimpo-2.0-1/relaimpo/R/checkWW.R | 14 ++++----- relaimpo-2.0-1/relaimpo/R/factorWW.R | 26 ++++++++--------- relaimpo-2.0-1/relaimpo/R/mianalyze.relimp.R | 10 +++--- relaimpo-2.0-1/relaimpo/R/nchoosek.R | 2 - relaimpo-2.0-1/relaimpo/R/pmvdcalc.R |only relaimpo-2.0-1/relaimpo/R/varicalc.R | 4 +- relaimpo-2.0-1/relaimpo/R/zzz.R | 2 - relaimpo-2.0-1/relaimpo/inst/CITATION |only relaimpo-2.0-1/relaimpo/inst/doc/News.pdf |only relaimpo-2.0-1/relaimpo/man/booteval.relimp.Rd | 2 - relaimpo-2.0-1/relaimpo/man/calc.relimp.Rd | 2 - relaimpo-2.0-1/relaimpo/man/classesmethods.relaimpo.Rd | 2 - relaimpo-2.0-1/relaimpo/man/mianalyze.relimp.Rd | 2 - relaimpo-2.0-1/relaimpo/man/relaimpo-package.Rd | 2 - relaimpo-2.0/relaimpo/COPYING |only relaimpo-2.0/relaimpo/COPYRIGHT |only relaimpo-2.0/relaimpo/R/plot.R |only relaimpo-2.0/relaimpo/inst/doc/ChangeLog.pdf |only 21 files changed, 40 insertions(+), 42 deletions(-)
Author: Marek Walesiak
Diff between clusterSim versions 0.34-1 dated 2008-02-11 and 0.34-3 dated 2008-04-04
Title: Searching for optimal clustering procedure for a data set
Description: GDM Distance,
Sokal-Michener Distance,
Bray-Curtis Distance,
Calinski-Harabasz Index,
G2 Index,
G3 Index,
Silhouette Index,
Krzanowski-Lai Index,
Hartigan Index,
Gap Index,
DB Index,
Data Normalization,
HINoV method,
Replication analysis for cluster validation,
Clustering with several algorithms, distances, normalizations and icq indices,
Symbolic interval distances,
Plot functions,
Random cluster generation
clusterSim-0.34-1/clusterSim/Index |only
clusterSim-0.34-3/clusterSim/DESCRIPTION | 8 -
clusterSim-0.34-3/clusterSim/INDEX |only
clusterSim-0.34-3/clusterSim/R/HINoV.Mod.r | 118 +++----------------
clusterSim-0.34-3/clusterSim/R/HINoV.Symbolic.r | 35 +++--
clusterSim-0.34-3/clusterSim/R/cluster.Description.r | 4
clusterSim-0.34-3/clusterSim/R/cluster.Sim.r | 5
clusterSim-0.34-3/clusterSim/R/dist.BC.r | 5
clusterSim-0.34-3/clusterSim/R/dist.GDM.r | 3
clusterSim-0.34-3/clusterSim/R/dist.SM.r | 7 -
clusterSim-0.34-3/clusterSim/R/dist.Symbolic.r |only
clusterSim-0.34-3/clusterSim/R/index.DB.r | 7 -
clusterSim-0.34-3/clusterSim/R/index.G1.r | 5
clusterSim-0.34-3/clusterSim/R/index.G2.r | 5
clusterSim-0.34-3/clusterSim/R/index.G3.r | 1
clusterSim-0.34-3/clusterSim/R/index.GAP.r | 14 +-
clusterSim-0.34-3/clusterSim/R/index.H.r | 6
clusterSim-0.34-3/clusterSim/R/index.KL.r | 6
clusterSim-0.34-3/clusterSim/R/replication.Mod.r | 17 +-
clusterSim-0.34-3/clusterSim/man/cluster.Gen.rd | 2
clusterSim-0.34-3/clusterSim/man/index.GAP.rd | 45 +++++++
21 files changed, 150 insertions(+), 143 deletions(-)
More information about dynamicTreeCut at CRAN
Permanent link
Author: Duncan Temple Lang
Diff between rggobi versions 2.1.8-1 dated 2008-03-30 and 2.1.8-3 dated 2008-04-03
Title: Interface between R and GGobi
Description: The rggobi package provides a command-line interface to GGobi, an interactive and dynamic graphics package. Rggobi complements GGobi's graphical user interface, providing a way to fluidly transition between analysis and exploration, as well as automating common tasks.
DESCRIPTION | 4 ++--
NAMESPACE | 28 ++++++++++++++++++++++++++++
R/zzz.r | 8 +++++++-
src/ggobi.c | 2 +-
4 files changed, 38 insertions(+), 4 deletions(-)
Author: Karl W Broman
Diff between qtl versions 1.07-12 dated 2007-10-09 and 1.08-55 dated 2008-04-03
Title: Tools for analyzing QTL experiments
Description: Analysis of experimental crosses to identify genes (called quantitative trait loci, QTLs) contributing to variation in quantitative traits.
qtl-1.07-12/qtl/.Rbuildindex.15496 |only
qtl-1.07-12/qtl/.Rbuildindex.617 |only
qtl-1.08-55/qtl/DESCRIPTION | 6
qtl-1.08-55/qtl/INDEX | 28 +
qtl-1.08-55/qtl/R/add_threshold.R | 8
qtl-1.08-55/qtl/R/addqtl.R |only
qtl-1.08-55/qtl/R/arithscan.R | 13
qtl-1.08-55/qtl/R/calc.pairprob.R | 28 +
qtl-1.08-55/qtl/R/cim.R | 155 +++++--
qtl-1.08-55/qtl/R/compareorder.R |only
qtl-1.08-55/qtl/R/countXO.R |only
qtl-1.08-55/qtl/R/effectplot.R | 43 +
qtl-1.08-55/qtl/R/effectscan.R | 25 -
qtl-1.08-55/qtl/R/errorlod.R | 8
qtl-1.08-55/qtl/R/est.map.R | 15
qtl-1.08-55/qtl/R/est.rf.R | 23 -
qtl-1.08-55/qtl/R/fitqtl.R | 427 ++++++++++++++++---
qtl-1.08-55/qtl/R/fitstahl.R | 4
qtl-1.08-55/qtl/R/makeqtl.R | 478 ++++++++++++----------
qtl-1.08-55/qtl/R/plot.R | 71 ++-
qtl-1.08-55/qtl/R/plot.scanone.R | 7
qtl-1.08-55/qtl/R/plot.scantwo.R | 30 +
qtl-1.08-55/qtl/R/plotperm.R |only
qtl-1.08-55/qtl/R/qtlcart_io.R | 22 -
qtl-1.08-55/qtl/R/read.cross.R | 6
qtl-1.08-55/qtl/R/read.cross.csv.R | 30 +
qtl-1.08-55/qtl/R/read.cross.csvs.R | 79 +++
qtl-1.08-55/qtl/R/read.cross.karl.R | 6
qtl-1.08-55/qtl/R/read.cross.mm.R | 24 -
qtl-1.08-55/qtl/R/read.cross.qtx.R | 8
qtl-1.08-55/qtl/R/refineqtl.R |only
qtl-1.08-55/qtl/R/scanone.R | 25 -
qtl-1.08-55/qtl/R/scanoneboot.R | 25 +
qtl-1.08-55/qtl/R/scanqtl.R | 208 +++++++--
qtl-1.08-55/qtl/R/scantwo.R | 73 ++-
qtl-1.08-55/qtl/R/sim_ril.R | 2
qtl-1.08-55/qtl/R/summary.cross.R | 38 +
qtl-1.08-55/qtl/R/summary.scantwo.R | 198 +++++++--
qtl-1.08-55/qtl/R/tryallpositions.R |only
qtl-1.08-55/qtl/R/util.R | 296 +++++++++++--
qtl-1.08-55/qtl/R/xchr.R | 46 +-
qtl-1.08-55/qtl/inst/README.txt | 12
qtl-1.08-55/qtl/inst/STATUS.txt | 222 ++++++++++
qtl-1.08-55/qtl/inst/TODO.txt | 83 ++-
qtl-1.08-55/qtl/inst/docs/new_multiqtl.Rnw |only
qtl-1.08-55/qtl/inst/docs/new_multiqtl.pdf |only
qtl-1.08-55/qtl/inst/docs/new_summary_scanone.Rnw |only
qtl-1.08-55/qtl/inst/docs/new_summary_scantwo.Rnw |only
qtl-1.08-55/qtl/inst/docs/rqtltour.R | 88 +---
qtl-1.08-55/qtl/inst/docs/rqtltour.pdf |binary
qtl-1.08-55/qtl/inst/docs/rqtltour.tex |only
qtl-1.08-55/qtl/man/a.starting.point.Rd | 1
qtl-1.08-55/qtl/man/addint.Rd |only
qtl-1.08-55/qtl/man/addpair.Rd |only
qtl-1.08-55/qtl/man/addqtl.Rd |only
qtl-1.08-55/qtl/man/addtoqtl.Rd |only
qtl-1.08-55/qtl/man/bayesint.Rd | 5
qtl-1.08-55/qtl/man/cim.Rd | 3
qtl-1.08-55/qtl/man/compareorder.Rd |only
qtl-1.08-55/qtl/man/countXO.Rd |only
qtl-1.08-55/qtl/man/dropfromqtl.Rd |only
qtl-1.08-55/qtl/man/effectplot.Rd | 3
qtl-1.08-55/qtl/man/effectscan.Rd | 3
qtl-1.08-55/qtl/man/est.map.Rd | 7
qtl-1.08-55/qtl/man/est.rf.Rd | 2
qtl-1.08-55/qtl/man/find.marker.Rd | 22 -
qtl-1.08-55/qtl/man/fitqtl.Rd | 50 +-
qtl-1.08-55/qtl/man/geno.crosstab.Rd |only
qtl-1.08-55/qtl/man/lodint.Rd | 5
qtl-1.08-55/qtl/man/makeqtl.Rd | 20
qtl-1.08-55/qtl/man/max.scantwo.Rd | 22 +
qtl-1.08-55/qtl/man/plot.errorlod.Rd | 2
qtl-1.08-55/qtl/man/plot.geno.Rd | 2
qtl-1.08-55/qtl/man/plot.map.Rd | 4
qtl-1.08-55/qtl/man/plot.pxg.Rd | 3
qtl-1.08-55/qtl/man/plot.qtl.Rd |only
qtl-1.08-55/qtl/man/plot.rf.Rd | 4
qtl-1.08-55/qtl/man/plot.scanoneboot.Rd |only
qtl-1.08-55/qtl/man/plot.scanoneperm.Rd |only
qtl-1.08-55/qtl/man/plot.scantwo.Rd | 18
qtl-1.08-55/qtl/man/plot.scantwoperm.Rd |only
qtl-1.08-55/qtl/man/plotLodProfile.Rd |only
qtl-1.08-55/qtl/man/pull.geno.Rd | 2
qtl-1.08-55/qtl/man/pull.pheno.Rd |only
qtl-1.08-55/qtl/man/qtl-internal.Rd | 48 +-
qtl-1.08-55/qtl/man/read.cross.Rd | 13
qtl-1.08-55/qtl/man/refineqtl.Rd |only
qtl-1.08-55/qtl/man/reorderqtl.Rd |only
qtl-1.08-55/qtl/man/replaceqtl.Rd |only
qtl-1.08-55/qtl/man/scanone.Rd | 3
qtl-1.08-55/qtl/man/scanoneboot.Rd | 16
qtl-1.08-55/qtl/man/scanqtl.Rd | 20
qtl-1.08-55/qtl/man/scantwo.Rd | 9
qtl-1.08-55/qtl/man/summary.fitqtl.Rd | 2
qtl-1.08-55/qtl/man/summary.map.Rd | 7
qtl-1.08-55/qtl/man/summary.scanoneboot.Rd | 13
qtl-1.08-55/qtl/man/summary.scanoneperm.Rd | 4
qtl-1.08-55/qtl/man/summary.scantwo.Rd | 30 +
qtl-1.08-55/qtl/man/summary.scantwoperm.Rd | 4
qtl-1.08-55/qtl/man/tryallpositions.Rd |only
qtl-1.08-55/qtl/src/countXO.c |only
qtl-1.08-55/qtl/src/countXO.h |only
qtl-1.08-55/qtl/src/effectscan.c | 12
qtl-1.08-55/qtl/src/fitqtl_hk.c |only
qtl-1.08-55/qtl/src/fitqtl_hk.h |only
qtl-1.08-55/qtl/src/fitqtl_imp.c | 12
qtl-1.08-55/qtl/src/fitqtl_imp.h | 6
qtl-1.08-55/qtl/src/forwsel.c | 201 ++++++++-
qtl-1.08-55/qtl/src/forwsel.h | 29 +
qtl-1.08-55/qtl/src/hmm_4way.c | 164 ++++++-
qtl-1.08-55/qtl/src/hmm_4way.h | 9
qtl-1.08-55/qtl/src/hmm_bc.c | 14
qtl-1.08-55/qtl/src/hmm_bc.h | 10
qtl-1.08-55/qtl/src/hmm_f2.c | 12
qtl-1.08-55/qtl/src/hmm_f2.h | 9
qtl-1.08-55/qtl/src/hmm_main.c | 122 +++++
qtl-1.08-55/qtl/src/hmm_main.h | 68 ++-
qtl-1.08-55/qtl/src/ripple.c | 168 +++++++
qtl-1.08-55/qtl/src/simulate.h | 3
qtl-1.08-55/qtl/tests/test_io.Rout.save | 25 -
120 files changed, 3196 insertions(+), 875 deletions(-)
Author: Simon Wood
Diff between mgcv versions 1.3-29 dated 2007-11-17 and 1.3-30 dated 2008-04-03
Title: GAMs with GCV smoothness estimation and GAMMs by REML/PQL
Description: Routines for GAMs and other generalized ridge regression
with multiple smoothing parameter selection by GCV or
UBRE/AIC. Also GAMMs by REML or PQL. Includes a gam()
function.
DESCRIPTION | 6 +++---
changeLog | 4 ++++
2 files changed, 7 insertions(+), 3 deletions(-)
Author: Hadley Wickham
Diff between ggplot2 versions 0.5.7 dated 2008-01-11 and 0.6 dated 2008-04-03
Title: An implementation of the Grammar of Graphics
Description: An implementation of the grammar of graphics in R. It combines the advantages of both base and lattice graphics: conditioning and shared axes are handled automatically, and you can still build up a plot step by step from multiple data sources. It also implements a sophisticated multidimensional conditioning system and a consistent interface to map data to aesthetic attributes. See the ggplot2 website for more information, documentation and examples.
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ggplot2-0.6/ggplot2/CHANGELOG | 72 +++
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ggplot2-0.6/ggplot2/R/coordinates-cartesian-equal.r | 31 +
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ggplot2-0.6/ggplot2/R/coordinates-map.r | 4
ggplot2-0.6/ggplot2/R/coordinates-polar.r | 43 +-
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ggplot2-0.6/ggplot2/R/geom-segment.r | 13
ggplot2-0.6/ggplot2/R/geom-smooth.r | 37 +
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ggplot2-0.6/ggplot2/R/geom-vline.r | 54 +-
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ggplot2-0.6/ggplot2/R/layer.r | 69 ++-
ggplot2-0.6/ggplot2/R/options.r | 15
ggplot2-0.6/ggplot2/R/plot-construction.r | 25 +
ggplot2-0.6/ggplot2/R/plot-internal.r | 1
ggplot2-0.6/ggplot2/R/plot-surrounds.r | 28 +
ggplot2-0.6/ggplot2/R/plot.r | 8
ggplot2-0.6/ggplot2/R/position-.r | 10
ggplot2-0.6/ggplot2/R/position-dodge.r | 3
ggplot2-0.6/ggplot2/R/position-stack.r | 3
ggplot2-0.6/ggplot2/R/quick-plot.r | 7
ggplot2-0.6/ggplot2/R/save.r | 14
ggplot2-0.6/ggplot2/R/scale-.r | 148 +------
ggplot2-0.6/ggplot2/R/scale-continuous-.r | 51 ++
ggplot2-0.6/ggplot2/R/scale-continuous-colour.r | 8
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ggplot2-0.6/ggplot2/R/scale-discrete-colour.r | 57 +-
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ggplot2-0.6/ggplot2/R/scales-.r | 7
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ggplot2-0.6/ggplot2/R/stat-summary.r | 153 +++++--
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Author: Klaus Nordhausen, Hannu Oja, David E. Tyler
Title: Tools for Exploring Multivariate Data via ICS/ICA
Description: The package implements Tyler et al.'s and Oja et al.'s method of two different scatter
matrices to obtain an invariant coordinate system or independent
components, depending on the underlying assumptions.
Diff between ICS versions 1.1-1 dated 2008-02-18 and 1.1-2 dated 2008-04-03
DESCRIPTION | 6 +++--- R/internals.R | 3 ++- inst/CHANGES | 4 ++++ man/ICS-package.Rd | 4 ++-- 4 files changed, 11 insertions(+), 6 deletions(-)
Author: Stephen Milborrow
Title: Just-in-time compiler
Description:
Enable just-in-time (JIT) compilation.
The functions in this package are useful only under Ra and have no effect under R.
This version of the jit package is for Ra 1.0.7 and higher.
Diff between jit versions 0.0-3 dated 2008-03-12 and 0.0-4 dated 2008-04-03
DESCRIPTION | 6 +++--- NEWS | 2 ++ man/jit.Rd | 36 +++++++++++++++++++----------------- 3 files changed, 24 insertions(+), 20 deletions(-)
Author: Mark S. Handcock
Diff between ergm versions 2.0-6 dated 2008-03-12 and 2.0-7 dated 2008-04-03
Title: Fit, Simulate and Diagnose Exponential-Family Models for Networks
Description: An integrated set of tools to analyze and simulate networks based on exponential-family random graph models (ERGM). "ergm" is a part of the "statnet" suite of packages for network analysis. For a list of functions type: help(package='ergm')
ergm-2.0-6/ergm/tests/termtests.R |only
ergm-2.0-7/ergm/DESCRIPTION | 6
ergm-2.0-7/ergm/R/InitErgm.R | 713 +++---
ergm-2.0-7/ergm/R/InitErgmTerm.R | 390 ++-
ergm-2.0-7/ergm/R/check.ErgmTerm.R | 14
ergm-2.0-7/ergm/R/control.ergm.R | 4
ergm-2.0-7/ergm/R/ergm.R | 5
ergm-2.0-7/ergm/R/ergm.estimate.R | 2
ergm-2.0-7/ergm/R/ergm.mple.R | 10
ergm-2.0-7/ergm/R/ergm.pl.R | 24
ergm-2.0-7/ergm/R/gof.ergm.R | 145 -
ergm-2.0-7/ergm/R/mcmc.diagnostics.ergm.R | 6
ergm-2.0-7/ergm/R/summary.statistics.network.R | 6
ergm-2.0-7/ergm/data/samplk.RData |binary
ergm-2.0-7/ergm/data/sampson.RData |binary
ergm-2.0-7/ergm/man/control.ergm.Rd | 6
ergm-2.0-7/ergm/man/ergm-internal.Rd | 6
ergm-2.0-7/ergm/man/ergm-terms.Rd | 1009 ++++----
ergm-2.0-7/ergm/man/gof.ergm.Rd | 27
ergm-2.0-7/ergm/src/MCMC.c | 47
ergm-2.0-7/ergm/src/MPLE.c | 247 +-
ergm-2.0-7/ergm/src/MPLE.h | 10
ergm-2.0-7/ergm/src/changestats.c | 2679 ++++++++---------------
ergm-2.0-7/ergm/src/changestats.h | 29
ergm-2.0-7/ergm/src/edgetree.c | 1
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Author: Mathieu Ribatet
Diff between POT versions 1.0-6 dated 2007-12-06 and 1.0-7 dated 2008-04-03
Title: Generalized Pareto Distribution and Peaks Over Threshold
Description: Some functions useful to perform a Peak Over Threshold analysis in univariate and bivariate cases. A user's guide is avalaible.
DESCRIPTION | 16
R/checkThresh.R | 11
R/fitBvGPD.R | 2
R/fitMcGPD.R | 3
R/fitPP.R |only
R/internals.R | 137
R/plotGPD.R | 28
inst/CHANGES | 3096 +++++++++++++++++
inst/ChangeLog | 3100 -----------------
inst/doc/POT.pdf | 9502 +++++++++++++++++++++++++++---------------------------
man/convassess.Rd | 10
man/diplot.Rd | 5
man/fitPP.Rd |only
man/lmomplot.Rd | 5
src/POT.c | 64
src/header.h | 2
16 files changed, 8100 insertions(+), 7881 deletions(-)
Author: Achim Zeileis, Kurt Hornik
Title: CRAN Task Views
Description: Server-side and client-side tools for task views
to CRAN-style repositories
Diff between ctv versions 0.4-0 dated 2008-02-16 and 0.4-2 dated 2008-04-03
DESCRIPTION | 6 +- R/ctv-client.R | 2 R/ctv-server.R | 8 ++ inst/ctv/Econometrics.ctv | 36 ++++++------ inst/ctv/Environmetrics.ctv | 38 ++++++++++-- inst/ctv/ExperimentalDesign.ctv | 17 +++-- inst/ctv/Finance.ctv | 14 ++++ inst/ctv/Graphics.ctv | 120 ++++++++++++++++++++++++++++------------ inst/ctv/MachineLearning.ctv | 7 +- inst/ctv/Psychometrics.ctv | 7 +- inst/ctv/Robust.ctv |only inst/ctv/SocialSciences.ctv | 6 +- inst/doc/ctv-howto.pdf | 6 +- 13 files changed, 182 insertions(+), 85 deletions(-)
Author: Oscar Rueda
Diff between RJaCGH versions 1.2.2 dated 2008-02-29 and 1.2.4 dated 2008-04-02
Title: Reversible Jump MCMC for the analysis of CGH arrays.
Description: Bayesian analysis of CGH microarrays fitting Hidden Markov Chain models.
The selection of the number of states is made via their posterior probability
computed by Reversible Jump Markov Chain Monte Carlo Methods. Also
returns probabilistic minimal common regions for gains/losses.
Changes | 3 +++
DESCRIPTION | 6 +++---
man/plot.pREC_S.RJaCGH.array.Rd | 4 ++--
src/nnhl.c | 23 ++++++++++++-----------
4 files changed, 20 insertions(+), 16 deletions(-)
Author: Patrick Mair, Reinhold Hatzinger
Title: Extended Rasch Modeling.
Description: eRm fits Rasch models (RM), linear logistic test models (LLTM), rating scale model (RSM), linear rating scale models (LRSM), partial credit models (PCM), and linear partial credit models (LPCM). Missing values are allowed in the data matrix. Additional features are the estimation of the person parameters, LR-Model test, item-specific Wald test, itemfit and personfit statistics, various ICC plots. An eRm platform is provided at http://r-forge.r-project.org/projects/erm/.
Diff between eRm versions 0.9-6 dated 2008-01-23 and 0.9-7 dated 2008-04-02
eRm-0.9-6/eRm/R/itemfit.ppar.r |only eRm-0.9-6/eRm/R/print.logLik.eRm.r |only eRm-0.9-7/eRm/DESCRIPTION | 6 +- eRm-0.9-7/eRm/R/itemfit.ppar.R |only eRm-0.9-7/eRm/R/person.parameter.eRm.R | 88 ++++++++++++++++++------------ eRm-0.9-7/eRm/R/print.logLik.eRm.R |only eRm-0.9-7/eRm/R/print.ppar.R | 2 eRm-0.9-7/eRm/R/summary.ppar.R | 2 eRm-0.9-7/eRm/inst/doc/Rplots.ps |only eRm-0.9-7/eRm/inst/doc/UCML.jpg |only eRm-0.9-7/eRm/inst/doc/Z.cls |only eRm-0.9-7/eRm/inst/doc/eRmvig.bib |only eRm-0.9-7/eRm/inst/doc/eRmvig.pdf | 70 ++++++++++------------- eRm-0.9-7/eRm/inst/doc/jss.bst |only eRm-0.9-7/eRm/inst/doc/modelhierarchy.pdf |only eRm-0.9-7/eRm/man/eRm-package.Rd | 4 - eRm-0.9-7/eRm/man/person.parameter.Rd | 2 eRm-0.9-7/eRm/man/sim.2pl.Rd | 22 +++++-- 18 files changed, 112 insertions(+), 84 deletions(-)
Author: Luke Tierney
Diff between codetools versions 0.2-0 dated 2008-04-02 and 0.2-1 dated 2008-04-02
Title: Code Analysis Tools for R
Description: Code analysis tools for R
DESCRIPTION | 4 ++--
R/codetools.R | 2 +-
tests/tests.R | 1 +
3 files changed, 4 insertions(+), 3 deletions(-)
Author: Markus Kalisch, Martin Maechler
Title: Estimating the skeleton and equivalence class of a DAG
Description: Standard and robust estimation of the skeleton (ugraph)
and the equivalence class of a Directed Acyclic Graph (DAG) via the
PC-Algorithm. The equivalence class is represented by its (unique)
Completetd Partially Directed Acyclic Graph (CPDAG). Moreover, the
function pcSelect implements variable selection techniques.
Diff between pcalg versions 0.1-5 dated 2007-04-11 and 0.1-6 dated 2008-04-02
pcalg-0.1-5/pcalg/man/udag2cpdag.Rd |only pcalg-0.1-5/pcalg/tests/test_ROC.R |only pcalg-0.1-5/pcalg/tests/test_ROC.R.bak2 |only pcalg-0.1-5/pcalg/tests/test_ROC.Rout.save |only pcalg-0.1-5/pcalg/tests/test_ROC.Rout.save.bak2 |only pcalg-0.1-5/pcalg/tests/test_dag2cpdag.Rout.save |only pcalg-0.1-5/pcalg/tests/test_generateData.R |only pcalg-0.1-5/pcalg/tests/test_generateData.R.bak2 |only pcalg-0.1-5/pcalg/tests/test_generateData.Rout.save |only pcalg-0.1-5/pcalg/tests/test_pcAlgo.R.bak2 |only pcalg-0.1-5/pcalg/tests/test_pcAlgo.R.save |only pcalg-0.1-5/pcalg/tests/test_pcAlgo.Rout.last |only pcalg-0.1-5/pcalg/tests/test_pcAlgo.Rout.lastT |only pcalg-0.1-5/pcalg/tests/test_pcAlgo.Rout.save |only pcalg-0.1-5/pcalg/tests/test_pcAlgo.Rout.save.bak2 |only pcalg-0.1-5/pcalg/tests/test_pdag2dag.Rout.save |only pcalg-0.1-5/pcalg/tests/test_randomDAG.Rout.save |only pcalg-0.1-5/pcalg/tests/test_udag2cpdag.R |only pcalg-0.1-5/pcalg/tests/test_udag2cpdag.Rout.last |only pcalg-0.1-5/pcalg/tests/test_udag2cpdag.Rout.lastT |only pcalg-0.1-5/pcalg/tests/test_udag2cpdag.Rout.save |only pcalg-0.1-5/pcalg/tests/test_udag2pdag.Rout.save |only pcalg-0.1-6/pcalg/DESCRIPTION | 13 pcalg-0.1-6/pcalg/NAMESPACE |only pcalg-0.1-6/pcalg/R/pcalg.R | 377 +++++++- pcalg-0.1-6/pcalg/inst/doc/Sweave-pcalg.log | 847 +++++++++++++++++--- pcalg-0.1-6/pcalg/inst/doc/Sweave-pcalg.pdf |binary pcalg-0.1-6/pcalg/inst/doc/Sweave-pcalg.tex | 2 pcalg-0.1-6/pcalg/man/dag2cpdag.Rd | 2 pcalg-0.1-6/pcalg/man/decHeur.Rd |only pcalg-0.1-6/pcalg/man/mcor.Rd | 14 pcalg-0.1-6/pcalg/man/pcAlgo.Rd | 8 pcalg-0.1-6/pcalg/man/pcSelect.Rd |only pcalg-0.1-6/pcalg/man/pcSelect.presel.Rd |only pcalg-0.1-6/pcalg/man/pcorOrder.Rd | 8 pcalg-0.1-6/pcalg/man/pdag2dag.Rd | 5 pcalg-0.1-6/pcalg/man/udag2pdag.Rd | 2 pcalg-0.1-6/pcalg/tests/test_amat2dag.R |only pcalg-0.1-6/pcalg/tests/test_compareGraphs.R |only pcalg-0.1-6/pcalg/tests/test_dag2cpdag.R | 26 pcalg-0.1-6/pcalg/tests/test_decHeur.R |only pcalg-0.1-6/pcalg/tests/test_getNextSet.R |only pcalg-0.1-6/pcalg/tests/test_pcAlgo.R | 56 - pcalg-0.1-6/pcalg/tests/test_pcSelect.R |only pcalg-0.1-6/pcalg/tests/test_pcorOrder.R |only pcalg-0.1-6/pcalg/tests/test_pdag2dag.R | 42 pcalg-0.1-6/pcalg/tests/test_randomDAG.R | 94 -- pcalg-0.1-6/pcalg/tests/test_rmvDAG.R |only pcalg-0.1-6/pcalg/tests/test_shd.R |only pcalg-0.1-6/pcalg/tests/test_udag2pdag.R | 44 - pcalg-0.1-6/pcalg/tests/test_wgtMatrix.R |only 51 files changed, 1224 insertions(+), 316 deletions(-)
Author: S original by Terry Therneau, ported by Thomas Lumley
Title: Survival analysis, including penalised likelihood.
Description: survival analysis: descriptive statistics, two-sample
tests, parametric accelerated failure models, Cox model. Delayed entry
(truncation) allowed for all models; interval censoring for parametric
models. Case-cohort designs.
Diff between survival versions 2.34 dated 2007-10-16 and 2.34-1 dated 2008-04-02
DESCRIPTION | 9 +++++---- Examples/test/Rtest.out.save | 4 ++-- Examples/testfrail/Rtest.out |only Examples/testreg/Rtest.out |only R/anova.survreg.s | 4 ++-- R/anova.survreglist.s | 3 ++- R/predict.coxph.s | 2 +- 7 files changed, 12 insertions(+), 10 deletions(-)
Author: Longhai Li
Diff between gibbs.met versions 1.1-2 dated 2008-03-26 and 1.1-3 dated 2008-04-02
Title: Naive Gibbs Sampling with Metropolis Steps
Description: This package provides two generic functions for performing Markov chain sampling in a naive way for a user-defined target distribution, which involves only continuous variables. The function "gibbs_met" performs Gibbs sampling with each 1-dimensional distribution sampled with Metropolis update using Gaussian proposal distribution centered at the previous state. The function "met_gaussian" updates the whole state with Metropolis method using independent Gaussian proposal distribution centered at the previous state. The sampling is carried out without considering any special tricks for improving efficiency. This package is aimed at only routine applications of MCMC in moderate-dimensional problems.
DESCRIPTION | 6 +++---
R/gibbs-met.R | 51 +++++++++++++++++++++++++++------------------------
man/gibbs.Rd | 37 ++++++++++++++++++-------------------
3 files changed, 48 insertions(+), 46 deletions(-)
Author: Luke Tierney
Diff between codetools versions 0.1-3 dated 2007-10-03 and 0.2-0 dated 2008-04-02
Title: Code Analysis Tools for R
Description: Code analysis tools for R
DESCRIPTION | 4 ++--
R/codetools.R | 57 +++++++++++++++++++++++++++++++++++++++++++++++++--------
tests/tests.R | 3 +++
3 files changed, 54 insertions(+), 10 deletions(-)
Author: Paul Murrell
Title: Data and Functions from the book R Graphics
Description: Data and Functions from the book R Graphics. There is a
function to produce each figure in the book, plus several functions,
classes, and methods defined in Chapter 7.
Diff between RGraphics versions 1.0-6 dated 2007-01-30 and 1.0-7 dated 2008-04-02
DESCRIPTION | 4 ++-- R/figures.R | 27 +++++++++++---------------- tests/test.R | 2 +- 3 files changed, 14 insertions(+), 19 deletions(-)
Author: Longhai Li
Diff between BPHO versions 1.2-3 dated 2008-02-22 and 1.2-4 dated 2008-04-02
Title: Bayesian Prediction with High-order Interactions
Description:
This software is used in two situations. The first is to predict the next outcome based on the previous states of a discrete sequence. The second is to classify a discrete response based on a number of discreate covariates. In both situations, we use Bayesian logistic regression models that consider the high-order interactions. The time arising from using high-order interactions is reduced greatly by our compression technique that represents a group of original parameters as a single one in MCMC step. In this version, we use log-normal prior for the hyperparameters. When it is used for the second situation --- classification, we consider the full set of interaction patterns up to a specified order.
DESCRIPTION | 4
R/firstlib.r | 4
R/gendata.r | 5
R/training.r | 52 ++-
R/user.r | 43 +--
man/a-user.Rd | 82 ++---
man/c-training.Rd | 16 -
src/ccodes/display_mc_g.h | 3
src/ccodes/pred_int.c | 69 ++--
src/ccodes/training_int.c | 645 ++++++++++++++++++++++++----------------------
src/ccodes/training_int.h | 40 +-
11 files changed, 510 insertions(+), 453 deletions(-)
Author: Luke Tierney
Diff between tkrplot versions 0.0-17 dated 2008-03-21 and 0.0-18 dated 2008-04-01
Title: TK Rplot
Description: simple mechanism for placing R graphics in a Tk widget
DESCRIPTION | 6 +++---
R/tkrplot.R | 9 +++++----
2 files changed, 8 insertions(+), 7 deletions(-)
Author: Alan Genz, Frank Bretz and Torsten Hothorn
with contributions by Tetsuhisa Miwa, Xuefei Mi, Friedrich Leisch
and Fabian Scheipl
Title: Multivariate Normal and t Distributions
Description: Computes multivariate normal and t probabilities, quantiles,
random deviates and densities.
Diff between mvtnorm versions 0.8-3 dated 2008-02-19 and 0.9-0 dated 2008-04-01
mvtnorm-0.8-3/mvtnorm/inst/todo |only mvtnorm-0.8-3/mvtnorm/man/mvtnorm-internal.Rd |only mvtnorm-0.8-3/mvtnorm/tests/mvtnorm-Ex.R |only mvtnorm-0.8-3/mvtnorm/tests/mvtnorm-Ex.Rout.save |only mvtnorm-0.9-0/mvtnorm/CHANGES | 17 +- mvtnorm-0.9-0/mvtnorm/DESCRIPTION | 18 +- mvtnorm-0.9-0/mvtnorm/NAMESPACE | 7 mvtnorm-0.9-0/mvtnorm/R/mvt.R | 159 +++++++++++++++------ mvtnorm-0.9-0/mvtnorm/inst/doc/MVT_Rnews.pdf |binary mvtnorm-0.9-0/mvtnorm/man/Mvnorm.Rd | 4 mvtnorm-0.9-0/mvtnorm/man/algorithms.Rd |only mvtnorm-0.9-0/mvtnorm/man/pmvnorm.Rd | 25 ++- mvtnorm-0.9-0/mvtnorm/man/pmvt.Rd | 37 ++-- mvtnorm-0.9-0/mvtnorm/man/qmvnorm.Rd | 12 - mvtnorm-0.9-0/mvtnorm/man/qmvt.Rd | 11 - mvtnorm-0.9-0/mvtnorm/src/miwa.c |only mvtnorm-0.9-0/mvtnorm/src/miwa.h |only mvtnorm-0.9-0/mvtnorm/tests/Examples |only mvtnorm-0.9-0/mvtnorm/tests/bugfix-tests.R | 85 +++++++++++ mvtnorm-0.9-0/mvtnorm/tests/bugfix-tests.Rout.save | 94 ++++++++++++ 20 files changed, 364 insertions(+), 105 deletions(-)
Author: Torsten Hothorn, Frank Bretz and Peter Westfall with
contributions by Richard M. Heiberger
Title: Simultaneous Inference in General Parametric Models
Description: Simultaneous tests and confidence intervals
for general linear hypotheses in parametric models, including
linear, generalized linear, linear mixed effects, and survival models.
Diff between multcomp versions 0.993-2 dated 2008-03-05 and 1.0-0 dated 2008-04-01
multcomp-0.993-2/multcomp/inst/doc/multcomp.Rnw |only multcomp-0.993-2/multcomp/inst/doc/multcomp.pdf |only multcomp-1.0-0/multcomp/CHANGES | 17 multcomp-1.0-0/multcomp/DESCRIPTION | 8 multcomp-1.0-0/multcomp/NAMESPACE | 4 multcomp-1.0-0/multcomp/R/helpers.R | 4 multcomp-1.0-0/multcomp/R/mcp.R | 45 multcomp-1.0-0/multcomp/R/parm.R |only multcomp-1.0-0/multcomp/R/pqfunctions.R | 25 multcomp-1.0-0/multcomp/R/print.R | 16 multcomp-1.0-0/multcomp/inst/doc/generalsiminf.Rnw | 260 multcomp-1.0-0/multcomp/inst/doc/generalsiminf.pdf | 4525 +++++------ multcomp-1.0-0/multcomp/inst/doc/multcomp-examples.Rnw |only multcomp-1.0-0/multcomp/inst/doc/multcomp-examples.pdf |only multcomp-1.0-0/multcomp/inst/doc/references.bib | 10 multcomp-1.0-0/multcomp/man/contrMat.Rd | 12 multcomp-1.0-0/multcomp/man/glht.Rd | 40 multcomp-1.0-0/multcomp/man/methods.Rd | 34 multcomp-1.0-0/multcomp/man/parm.Rd |only multcomp-1.0-0/multcomp/man/trees513.Rd | 12 multcomp-1.0-0/multcomp/man/waste.Rd | 20 multcomp-1.0-0/multcomp/tests/Examples/multcomp-Ex.Rout.save | 357 multcomp-1.0-0/multcomp/tests/bugfix.R | 30 multcomp-1.0-0/multcomp/tests/bugfix.Rout.save | 138 multcomp-1.0-0/multcomp/tests/codetools-checks.Rout.save | 4 multcomp-1.0-0/multcomp/tests/regtest-Tukey.R | 2 multcomp-1.0-0/multcomp/tests/regtest-Tukey.Rout.save | 70 multcomp-1.0-0/multcomp/tests/regtest-anova.Rout.save |only multcomp-1.0-0/multcomp/tests/regtest-interface.Rout.save | 25 multcomp-1.0-0/multcomp/tests/regtest-lme.Rout.save |only 30 files changed, 3088 insertions(+), 2570 deletions(-)
Author: Jonathan M. Lees
Title: Read in WIN format data
Description: Reads in WIN pickfile and waveform file, prepares data for RSEIS
Diff between WINRPACK versions 1.0.2 dated 2008-04-01 and 1.0-3 dated 2008-04-01
DESCRIPTION | 4 ++-- inst/doc/WIN2R-010.pdf | 4 ++-- inst/doc/WIN2R-011.pdf | 4 ++-- inst/doc/WIN2R-012.pdf | 4 ++-- inst/doc/WIN2R.pdf |binary man/WINRPACK-package.Rd | 2 +- src/win2R.c | 27 ++++++++++++++++++++------- 7 files changed, 29 insertions(+), 16 deletions(-)
Author: Evgenia Dimitriadou, Kurt Hornik, Friedrich Leisch,
David Meyer, and Andreas Weingessel
Title: Misc Functions of the Department of Statistics (e1071), TU Wien
Description: Functions for latent class analysis, short time Fourier
transform, fuzzy clustering, support vector machines,
shortest path computation, bagged clustering, naive Bayes
classifier, ...
Diff between e1071 versions 1.5-17 dated 2007-10-19 and 1.5-18 dated 2008-04-01
DESCRIPTION | 7 ++---- NEWS | 4 +++ R/tune.R | 54 ++++++++++++++++++++++++++-------------------------- inst/NEWS | 4 +++ inst/doc/svmdoc.pdf |binary src/svm.cpp | 4 +-- 6 files changed, 40 insertions(+), 33 deletions(-)
Author: Michael Hahsler, Christian Buchta, Bettina Gruen and Kurt Hornik
Title: Mining Association Rules and Frequent Itemsets
Description: Provides the infrastructure for representing,
manipulating and analyzing transaction data and patterns (frequent
itemsets and association rules). Also provides interfaces to
C implementations of the association mining algorithms Apriori and Eclat
by C. Borgelt.
Diff between arules versions 0.6-3 dated 2007-07-13 and 0.6-4 dated 2008-04-01
arules-0.6-3/arules/inst/doc/Rplots.ps |only arules-0.6-3/arules/inst/doc/arules-019.eps |only arules-0.6-3/arules/inst/doc/arules-019.pdf |only arules-0.6-3/arules/inst/doc/arules-epub.eps |only arules-0.6-3/arules/inst/doc/arules-epub.pdf |only arules-0.6-3/arules/inst/doc/arules.tex |only arules-0.6-4/arules/DESCRIPTION | 9 arules-0.6-4/arules/R/transactions.R | 2 arules-0.6-4/arules/inst/doc/arules.bib | 6 arules-0.6-4/arules/inst/doc/arules.pdf |10125 +++++++++++------------ arules-0.6-4/arules/man/Adult.Rd | 2 arules-0.6-4/arules/src/rapriori.c | 21 arules-0.6-4/arules/src/reclat.c | 3 arules-0.6-4/arules/tests/transactions.Rout.save | 91 14 files changed, 5193 insertions(+), 5066 deletions(-)
Author: Greg Snow
Title: Demonstrations for teaching and learning
Description: This package is a set of demonstration functions that can be used in a classroom to demonstrate statistical concepts, or on your own to better understand the concepts or the programming.
Diff between TeachingDemos versions 2.0 dated 2008-03-25 and 2.1 dated 2008-04-01
DESCRIPTION | 9 +++++---- NAMESPACE | 5 ++--- NEWS | 5 +++++ R/lattice.demo.R | 10 +++++----- R/mle.demo.R | 6 +++--- R/plot.rgl.coin.R | 2 ++ R/plot.rgl.die.R | 5 +++-- R/rgl.Map.R | 5 +++-- R/roc.demo.R | 14 +++++++------- R/rotate.cloud.R | 14 +++++++------- R/rotate.wireframe.R | 14 +++++++------- R/run.power.examp.R | 2 +- R/slider.R | 2 +- R/sliderv.R | 2 +- R/tdspinner.R |only R/tkexamp.R | 4 ++-- R/tkprogress.R | 2 +- R/vis.binom.R | 8 ++++---- R/vis.boxcox.R | 6 +++--- R/vis.boxcoxu.R | 10 +++++----- R/vis.gamma.R | 28 ++++++++++++++-------------- R/vis.normal.R | 16 ++++++++-------- R/vis.t.R | 12 ++++++------ TeachingDemos.Rcheck |only man/mysymbols.Rd | 8 ++++---- man/tkexamp.Rd | 2 ++ 26 files changed, 101 insertions(+), 90 deletions(-)
Author: Michael Lawrence
Diff between RGtk2 versions 2.12.4 dated 2008-03-31 and 2.12.5 dated 2008-04-01
Title: R bindings for Gtk 2.8.0 and above
Description: Facilities in the R language for programming
graphical interfaces using Gtk, the Gimp Tool Kit.
DESCRIPTION | 4 ++--
R/zzz.R | 10 ++++------
2 files changed, 6 insertions(+), 8 deletions(-)
Author: Dan Kelley
Diff between oce versions 0.1.69 dated 2007-12-14 and 0.1.70 dated 2008-03-31
Title: Analysis of Oceanographic data
Description: Supports the analysis of Oceanographic data,
including CTD measurements, sea-level timeseries, coastline
files, etc. Also includes functions for calculating
seawater properties such as density, and derived properties
such as buoyancy frequency.
oce-0.1.69/oce/data/coastline.halifax.rda |only
oce-0.1.69/oce/data/sealevel.rda |only
oce-0.1.69/oce/man/coastline.halifax.Rd |only
oce-0.1.69/oce/man/sealevel.Rd |only
oce-0.1.70/oce/DESCRIPTION | 6
oce-0.1.70/oce/NAMESPACE | 123 ++-
oce-0.1.70/oce/NEWS | 225 +++---
oce-0.1.70/oce/R/as.coastline.R | 16
oce-0.1.70/oce/R/as.ctd.R | 62 -
oce-0.1.70/oce/R/as.sealevel.R | 83 +-
oce-0.1.70/oce/R/as.windrose.R |only
oce-0.1.70/oce/R/coriolis.R | 5
oce-0.1.70/oce/R/ctd.add.column.R | 126 +--
oce-0.1.70/oce/R/ctd.decimate.R | 166 ++--
oce-0.1.70/oce/R/ctd.trim.R | 149 ++--
oce-0.1.70/oce/R/ctd.update.header.R | 54 -
oce-0.1.70/oce/R/ctd.write.R | 12
oce-0.1.70/oce/R/geod.dist.R | 112 ++-
oce-0.1.70/oce/R/gravity.R | 5
oce-0.1.70/oce/R/make.section.R | 78 +-
oce-0.1.70/oce/R/misc.R | 132 +++
oce-0.1.70/oce/R/oce.as.POSIXlt.R | 38 -
oce-0.1.70/oce/R/plot.TS.R | 122 +--
oce-0.1.70/oce/R/plot.coastline.R | 14
oce-0.1.70/oce/R/plot.ctd.R | 78 --
oce-0.1.70/oce/R/plot.ctd.scan.R | 72 +-
oce-0.1.70/oce/R/plot.lobo.R | 110 +--
oce-0.1.70/oce/R/plot.profile.R | 151 ++--
oce-0.1.70/oce/R/plot.sealevel.R | 241 +++----
oce-0.1.70/oce/R/plot.section.R | 212 +++---
oce-0.1.70/oce/R/plot.tide.R |only
oce-0.1.70/oce/R/plot.windrose.R |only
oce-0.1.70/oce/R/predict.tide.R |only
oce-0.1.70/oce/R/processing.log.append.R | 6
oce-0.1.70/oce/R/processing.log.summary.R | 21
oce-0.1.70/oce/R/read.coastline.R | 119 +--
oce-0.1.70/oce/R/read.ctd.R | 866 ++++++++++++--------------
oce-0.1.70/oce/R/read.lobo.R | 63 -
oce-0.1.70/oce/R/read.oce.R | 78 +-
oce-0.1.70/oce/R/read.sealevel.R | 243 +++----
oce-0.1.70/oce/R/read.section.R | 163 ++--
oce-0.1.70/oce/R/section.grid.R | 134 ++--
oce-0.1.70/oce/R/section.subset.R |only
oce-0.1.70/oce/R/summary.coastline.R | 21
oce-0.1.70/oce/R/summary.ctd.R | 72 --
oce-0.1.70/oce/R/summary.lobo.R | 24
oce-0.1.70/oce/R/summary.oce.R |only
oce-0.1.70/oce/R/summary.sealevel.R | 47 -
oce-0.1.70/oce/R/summary.section.R | 59 -
oce-0.1.70/oce/R/summary.tide.R |only
oce-0.1.70/oce/R/summary.windrose.R |only
oce-0.1.70/oce/R/sw.N2.R | 20
oce-0.1.70/oce/R/sw.S.C.T.p.R | 32
oce-0.1.70/oce/R/sw.S.T.rho.R | 41 -
oce-0.1.70/oce/R/sw.T.S.rho.R | 39 -
oce-0.1.70/oce/R/sw.T.freeze.R | 8
oce-0.1.70/oce/R/sw.alpha.R | 9
oce-0.1.70/oce/R/sw.alpha.over.beta.R | 53 -
oce-0.1.70/oce/R/sw.beta.R | 52 -
oce-0.1.70/oce/R/sw.conductivity.R | 10
oce-0.1.70/oce/R/sw.depth.R | 13
oce-0.1.70/oce/R/sw.dynamic.height.R |only
oce-0.1.70/oce/R/sw.lapse.rate.R | 39 -
oce-0.1.70/oce/R/sw.rho.R | 49 -
oce-0.1.70/oce/R/sw.sigma.R | 9
oce-0.1.70/oce/R/sw.sigma.t.R | 11
oce-0.1.70/oce/R/sw.sigma.theta.R | 11
oce-0.1.70/oce/R/sw.sound.speed.R | 49 -
oce-0.1.70/oce/R/sw.specific.heat.R | 45 -
oce-0.1.70/oce/R/sw.spice.R | 45 -
oce-0.1.70/oce/R/sw.theta.R | 75 +-
oce-0.1.70/oce/R/sw.viscosity.R | 10
oce-0.1.70/oce/R/tidem.R |only
oce-0.1.70/oce/R/tidem.astron.R |only
oce-0.1.70/oce/R/tidem.vuf.R |only
oce-0.1.70/oce/R/zzz.R | 5
oce-0.1.70/oce/data/a03.rda |binary
oce-0.1.70/oce/data/coastline.hal.rda |only
oce-0.1.70/oce/data/coastline.maritimes.rda |binary
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oce-0.1.70/oce/data/ctd.rda |binary
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oce-0.1.70/oce/demo/TS.R |only
oce-0.1.70/oce/demo/sealevel.R | 6
oce-0.1.70/oce/demo/section.R | 8
oce-0.1.70/oce/demo/tide.R |only
oce-0.1.70/oce/inst/doc/Rplots.ps |only
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oce-0.1.70/oce/man/a03.Rd | 12
oce-0.1.70/oce/man/as.coastline.Rd | 12
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oce-0.1.70/oce/man/as.sealevel.Rd | 70 +-
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oce-0.1.70/oce/man/coastline.hal.Rd |only
oce-0.1.70/oce/man/coastline.maritimes.Rd | 4
oce-0.1.70/oce/man/coastline.world.Rd | 4
oce-0.1.70/oce/man/coriolis.Rd | 6
oce-0.1.70/oce/man/ctd.Rd | 2
oce-0.1.70/oce/man/ctd.add.column.Rd | 15
oce-0.1.70/oce/man/ctd.decimate.Rd | 18
oce-0.1.70/oce/man/ctd.raw.Rd | 2
oce-0.1.70/oce/man/ctd.trim.Rd | 82 +-
oce-0.1.70/oce/man/ctd.update.header.Rd | 8
oce-0.1.70/oce/man/ctd.write.Rd | 2
oce-0.1.70/oce/man/geod.dist.Rd | 53 -
oce-0.1.70/oce/man/gravity.Rd | 17
oce-0.1.70/oce/man/lat.format.Rd | 4
oce-0.1.70/oce/man/latlon.format.Rd | 4
oce-0.1.70/oce/man/lobo.Rd | 2
oce-0.1.70/oce/man/lon.format.Rd | 4
oce-0.1.70/oce/man/magic.Rd | 2
oce-0.1.70/oce/man/make.section.Rd | 30
oce-0.1.70/oce/man/oce.as.POSIXlt.Rd | 4
oce-0.1.70/oce/man/plot.TS.Rd | 26
oce-0.1.70/oce/man/plot.coastline.Rd | 4
oce-0.1.70/oce/man/plot.ctd.Rd | 7
oce-0.1.70/oce/man/plot.ctd.scan.Rd | 17
oce-0.1.70/oce/man/plot.lobo.Rd | 2
oce-0.1.70/oce/man/plot.profile.Rd | 13
oce-0.1.70/oce/man/plot.sealevel.Rd | 91 +-
oce-0.1.70/oce/man/plot.section.Rd | 18
oce-0.1.70/oce/man/plot.tide.Rd |only
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oce-0.1.70/oce/man/predict.tide.Rd |only
oce-0.1.70/oce/man/processing.log.append.Rd | 10
oce-0.1.70/oce/man/processing.log.summary.Rd | 2
oce-0.1.70/oce/man/read.coastline.Rd | 14
oce-0.1.70/oce/man/read.ctd.Rd | 130 ++-
oce-0.1.70/oce/man/read.lobo.Rd | 46 -
oce-0.1.70/oce/man/read.oce.Rd | 8
oce-0.1.70/oce/man/read.sealevel.Rd | 83 +-
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oce-0.1.70/oce/man/summary.coastline.Rd | 2
oce-0.1.70/oce/man/summary.ctd.Rd | 12
oce-0.1.70/oce/man/summary.lobo.Rd | 2
oce-0.1.70/oce/man/summary.sealevel.Rd | 23
oce-0.1.70/oce/man/summary.section.Rd | 2
oce-0.1.70/oce/man/summary.tide.Rd |only
oce-0.1.70/oce/man/summary.windrose.Rd |only
oce-0.1.70/oce/man/sw.N2.Rd | 47 -
oce-0.1.70/oce/man/sw.S.C.T.p.Rd | 16
oce-0.1.70/oce/man/sw.S.T.rho.Rd | 13
oce-0.1.70/oce/man/sw.T.S.rho.Rd | 4
oce-0.1.70/oce/man/sw.T.freeze.Rd | 13
oce-0.1.70/oce/man/sw.alpha.Rd | 15
oce-0.1.70/oce/man/sw.alpha.over.beta.Rd | 14
oce-0.1.70/oce/man/sw.beta.Rd | 14
oce-0.1.70/oce/man/sw.conductivity.Rd | 26
oce-0.1.70/oce/man/sw.depth.Rd | 17
oce-0.1.70/oce/man/sw.dynamic.height.Rd |only
oce-0.1.70/oce/man/sw.lapse.rate.Rd | 12
oce-0.1.70/oce/man/sw.rho.Rd | 23
oce-0.1.70/oce/man/sw.sigma.Rd | 16
oce-0.1.70/oce/man/sw.sigma.t.Rd | 15
oce-0.1.70/oce/man/sw.sigma.theta.Rd | 16
oce-0.1.70/oce/man/sw.sound.speed.Rd | 14
oce-0.1.70/oce/man/sw.specific.heat.Rd | 20
oce-0.1.70/oce/man/sw.spice.Rd | 33
oce-0.1.70/oce/man/sw.theta.Rd | 22
oce-0.1.70/oce/man/sw.viscosity.Rd | 38 -
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oce-0.1.70/oce/man/tidem.vuf.Rd |only
oce-0.1.70/oce/src/sw_strho.c | 14
oce-0.1.70/oce/src/sw_tsrho.c | 4
oce-0.1.70/oce/svn-commit.2.tmp |only
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oce-0.1.70/oce/tests/eos.R | 31
oce-0.1.70/oce/tests/t_equilib.dat |only
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oce-0.1.70/oce/tests/tide3.dat |only
202 files changed, 3737 insertions(+), 3307 deletions(-)
Author: Julian Faraway
Diff between faraway versions 1.0.2 dated 2007-10-09 and 1.0.3 dated 2008-03-31
Title: Functions and datasets for books by Julian Faraway.
Description: Books are "Practical Regression and ANOVA in R" on CRAN, "Linear Models with R" published in August 2004 by CRC press and "Extending the Linear Model with R" published by CRC press in December 2005.
DESCRIPTION | 6 +++---
NAMESPACE |only
2 files changed, 3 insertions(+), 3 deletions(-)
Author: Roger Koenker
Diff between SparseM versions 0.75 dated 2008-01-14 and 0.77 dated 2008-03-31
Title: Sparse Linear Algebra
Description: Basic linear algebra for sparse matrices
SparseM-0.75/SparseM/data/triogramX.R |only
SparseM-0.77/SparseM/DESCRIPTION | 5 ++---
SparseM-0.77/SparseM/REVISIONS | 6 ++++++
SparseM-0.77/SparseM/data/lsq.rda |binary
SparseM-0.77/SparseM/data/triogramX.rda |only
SparseM-0.77/SparseM/inst/doc/SparseM.pdf |binary
6 files changed, 8 insertions(+), 3 deletions(-)
Author: Martin J. Wolfsegger
Diff between PK versions 0.03 dated 2006-01-26 and 0.04 dated 2008-03-31
Title: Basic Pharmacokinetics
Description: Estimation of pharmacokinetic parameters
PK-0.03/PK/man/AUC.rd |only
PK-0.03/PK/man/biexp.rd |only
PK-0.03/PK/man/lee.rd |only
PK-0.03/PK/man/plot.halflife.rd |only
PK-0.04/PK/DESCRIPTION | 20 +-
PK-0.04/PK/R/AUC.R | 156 ++++++++--------
PK-0.04/PK/R/auc.ssd.R |only
PK-0.04/PK/R/biexp.R | 252 ++++++++++++-------------
PK-0.04/PK/R/eqv.ssd.R |only
PK-0.04/PK/R/lee.R | 389 +++++++++++++++++++---------------------
PK-0.04/PK/R/plot.halflife.R | 61 ++----
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PK-0.04/PK/man/ptest.ssd.Rd |only
19 files changed, 434 insertions(+), 444 deletions(-)
Author: Markus Helbig
Diff between JGR versions 1.5-12 dated 2008-03-30 and 1.5-13 dated 2008-03-31
Title: JGR - Java Gui for R
Description: Java GUI for R - cross-platform, universal and unified Graphical User Interface for R. For full functionality on Windows and Mac OS X JGR requires a start application which depends on your OS. This can be downloaded from JGR's website: http://www.rosuda.org/JGR
DESCRIPTION | 2 +-
NEWS | 3 +++
R/JGR.R | 4 ++--
inst/java/JGR.jar |binary
4 files changed, 6 insertions(+), 3 deletions(-)
Author: Martin Oliver Sailer
Diff between crossdes versions 1.0-7 dated 2007-04-16 and 1.0-8 dated 2008-03-31
Title: Design and Randomization in Crossover Studies
Description: Contains functions for the construction and randomization of balanced carryover balanced designs. Contains functions to check given designs for balance. Also contains functions for simulation studies on the validity of two randomization procedures.
crossdes-1.0-7/crossdes/README |only
crossdes-1.0-8/crossdes/DESCRIPTION | 6 +++---
crossdes-1.0-8/crossdes/NAMESPACE |only
crossdes-1.0-8/crossdes/R/all.combin.R | 5 +----
crossdes-1.0-8/crossdes/R/find.BIB.R | 3 ---
crossdes-1.0-8/crossdes/R/mult.R | 2 +-
crossdes-1.0-8/crossdes/R/rand.design.RC.R | 3 ---
crossdes-1.0-8/crossdes/R/rand.design.azais.R | 5 +----
8 files changed, 6 insertions(+), 18 deletions(-)
Author: Michael Lawrence
Diff between RGtk2 versions 2.12.2 dated 2008-01-04 and 2.12.4 dated 2008-03-31
Title: R bindings for Gtk 2.8.0 and above
Description: Facilities in the R language for programming
graphical interfaces using Gtk, the Gimp Tool Kit.
RGtk2-2.12.2/RGtk2/aclocal.m4 |only
RGtk2-2.12.4/RGtk2/DESCRIPTION | 6 +++---
RGtk2-2.12.4/RGtk2/NAMESPACE | 26 ++++++++++++++++++++++++++
RGtk2-2.12.4/RGtk2/R/RGtkDataFrame.R | 2 +-
RGtk2-2.12.4/RGtk2/R/gdkAtoms.R |only
RGtk2-2.12.4/RGtk2/R/gdkCoerce.R | 9 +++++----
RGtk2-2.12.4/RGtk2/R/gobject.R | 16 ++++++++--------
RGtk2-2.12.4/RGtk2/R/gtkManuals.R | 2 +-
RGtk2-2.12.4/RGtk2/R/zzz.R | 12 +++++++-----
RGtk2-2.12.4/RGtk2/demo/clipboard.R | 6 +++---
RGtk2-2.12.4/RGtk2/man/gdkAtoms.Rd |only
RGtk2-2.12.4/RGtk2/src/Rgtk.c | 2 +-
RGtk2-2.12.4/RGtk2/src/gdkConversion.c | 4 ++--
RGtk2-2.12.4/RGtk2/src/gtkFuncs.c | 2 +-
14 files changed, 58 insertions(+), 29 deletions(-)
Author: Duncan Temple Lang
Diff between rggobi versions 2.1.8 dated 2008-03-26 and 2.1.8-1 dated 2008-03-30
Title: Interface between R and GGobi
Description: The rggobi package provides a command-line interface to GGobi, an interactive and dynamic graphics package. Rggobi complements GGobi's graphical user interface, providing a way to fluidly transition between analysis and exploration, as well as automating common tasks.
DESCRIPTION | 6 +++---
R/zzz.r | 17 +++++++++--------
2 files changed, 12 insertions(+), 11 deletions(-)
Author: Jose Pinheiro
Diff between nlme versions 3.1-87 dated 2008-02-19 and 3.1-88 dated 2008-03-30
Title: Linear and Nonlinear Mixed Effects Models
Description: Fit and compare Gaussian linear and nonlinear mixed-effects models.
ChangeLog | 18 ++++++++++++++++++
DESCRIPTION | 8 ++++----
inst/CITATION |only
man/logLik.gnls.Rd | 6 ++----
man/logLik.lme.Rd | 7 ++++---
5 files changed, 28 insertions(+), 11 deletions(-)
Author: S original
Diff between boot versions 1.2-31 dated 2008-02-19 and 1.2-32 dated 2008-03-30
Title: Bootstrap R (S-Plus) Functions (Canty)
Description: functions and datasets for bootstrapping from the
book "Bootstrap Methods and Their Applications" by A. C. Davison and
D. V. Hinkley (1997, CUP).
ChangeLog | 4 ++++
DESCRIPTION | 6 +++---
inst/CITATION |only
3 files changed, 7 insertions(+), 3 deletions(-)
Author: Douglas Bates
Diff between Matrix versions 0.999375-8 dated 2008-03-26 and 0.999375-9 dated 2008-03-30
Title: A Matrix package for R
Description: Classes and methods for dense and sparse matrices and
operations on them using Lapack, CSparse and CHOLMOD
ChangeLog | 21
DESCRIPTION | 6
R/AllClass.R | 4
R/AllGeneric.R | 10
R/Matrix.R | 8
R/ddenseMatrix.R | 8
R/denseMatrix.R | 6
R/dgeMatrix.R | 19
R/dpoMatrix.R | 10
R/dppMatrix.R | 10
R/dspMatrix.R | 10
R/dsyMatrix.R | 10
R/dtpMatrix.R | 10
R/dtrMatrix.R | 10
R/ldenseMatrix.R | 4
R/ndenseMatrix.R | 2
R/sparseMatrix.R | 9
inst/doc/Comparisons.pdf | 606 +++++-----
inst/doc/Design-issues.Rnw | 4
inst/doc/Design-issues.pdf |binary
inst/doc/Intro2Matrix.Rnw | 148 +-
inst/doc/Intro2Matrix.pdf | 2684 +++++++++++++++++++++++++--------------------
inst/doc/Introduction.pdf |binary
man/Schur-class.Rd | 8
man/TsparseMatrix-class.Rd | 5
man/dgeMatrix-class.Rd | 4
man/dpoMatrix-class.Rd | 6
man/dsCMatrix-class.Rd | 2
man/dtpMatrix-class.Rd | 4
man/dtrMatrix-class.Rd | 2
man/rcond.Rd | 11
man/sparseLU-class.Rd | 2
src/UFsparse_download.sh | 2
tests/simple.R | 5
34 files changed, 2016 insertions(+), 1634 deletions(-)
Author: Markus Helbig
Diff between JGR versions 1.5-11 dated 2008-03-28 and 1.5-12 dated 2008-03-30
Title: JGR - Java Gui for R
Description: Java GUI for R - cross-platform, universal and unified Graphical User Interface for R. For full functionality on Windows and Mac OS X JGR requires a start application which depends on your OS. This can be downloaded from JGR's website: http://www.rosuda.org/JGR
DESCRIPTION | 3 +--
NEWS | 5 +++++
R/JGR.R | 5 +++--
inst/java/JGR.jar |binary
4 files changed, 9 insertions(+), 4 deletions(-)
Author: Virasakdi Chongsuvivatwong
Diff between epicalc versions 2.6.2.7 dated 2008-03-24 and 2.6.2.8 dated 2008-03-29
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.
DESCRIPTION | 6 +++---
R/epicalc.R | 56 ++++++++++++++++++++++++++++++++------------------------
2 files changed, 35 insertions(+), 27 deletions(-)
Author: Stephen Milborrow
derived from mda:mars by Trevor Hastie and Rob Tibshirani.
Title: Multivariate Adaptive Regression Spline Models
Description: Build regression models using the techniques in Friedman's
papers "Fast MARS" and "Multivariate Adaptive Regression Splines".
(The term "MARS" is copyrighted and thus not used in the name of the package.)
Diff between earth versions 1.3-1 dated 2008-03-24 and 1.3-2 dated 2008-03-29
DESCRIPTION | 4 NEWS | 48 - R/earth.R | 20 src/earth.c | 23 src/tests/test.all.bat | 12 src/tests/test.earth.big.Rout.save | 2 src/tests/test.earth.full.R | 287 ++++++-- src/tests/test.earth.full.Rout.save | 1209 ++++++++++++++++++++---------------- src/tests/test.earthc.out.save | 138 ++-- src/tests/test.plotmo.Rout.save | 4 tests/test.earth.Rout.save | 283 ++++---- 11 files changed, 1184 insertions(+), 846 deletions(-)
Author: Klaus Nordhausen, Jean-Francois Cardoso, Hannu Oja, Esa Ollila
Title: JADE and ICA performance criteria
Description: The package ports JF Cardoso's JADE algorithm as well as his function for joint diagonalization. There are also several criteria for performance evaluation of ICA algorithms.
Diff between JADE versions 1.0-0 dated 2007-11-03 and 1.0-1 dated 2008-03-29
DESCRIPTION | 6 +++--- R/rjd.R | 6 ++---- inst |only man/JADE-package.Rd | 4 ++-- man/JADE.Rd | 4 ++-- man/rjd.Rd | 8 ++++---- 6 files changed, 13 insertions(+), 15 deletions(-)
Author: Jonathan M. Lees
Title: Seismic Time Series Analysis Tools
Description: Multiple interactive codes to analyze seismic data, via, spectrum analysis, wavelet transforms, particle motion, hodograms.
Diff between RSEIS versions 1.0-5 dated 2008-02-28 and 1.0-6 dated 2008-03-28
DESCRIPTION | 4 R/INSTresponse.R | 15 R/PLOT.MATN.R | 95 R/PMOT.drive.R | 49 R/SPECT.drive.R | 12 R/distaz.R |only R/grotseis.R |only R/hodogram.R |only R/xcor2.R | 16 inst/doc/Rplots.ps |3255216 +++++++++++++++++++++++++++++++++---------------- inst/doc/hodo-006.eps |only inst/doc/hodo-006.pdf |only inst/doc/hodo-007.eps |only inst/doc/hodo-007.pdf |only inst/doc/hodo-008.eps |only inst/doc/hodo-008.pdf |only inst/doc/hodo-009.eps |only inst/doc/hodo-009.pdf |only inst/doc/hodo-010.eps |only inst/doc/hodo-010.pdf |only inst/doc/hodo-011.eps |only inst/doc/hodo-011.pdf |only inst/doc/hodo-012.eps |only inst/doc/hodo-012.pdf |only inst/doc/hodo.Rnw |only inst/doc/hodo.aux |only inst/doc/hodo.dvi |only inst/doc/hodo.log |only inst/doc/hodo.pdf |only inst/doc/hodo.tex |only inst/doc/rseis-004.eps |only inst/doc/rseis-004.pdf |only inst/doc/rseis-005.eps |only inst/doc/rseis-005.pdf |only inst/doc/rseis-006.eps |only inst/doc/rseis-006.pdf |only inst/doc/rseis-012.eps |only inst/doc/rseis-012.pdf |only inst/doc/rseis.Rnw | 165 inst/doc/rseis.aux | 4 inst/doc/rseis.log | 68 inst/doc/rseis.pdf |binary inst/doc/rseis.tex | 148 man/PLOT.MATN.Rd | 6 man/PMOT.drive.Rd | 6 man/RSEIS-package.Rd | 2 man/distaz.Rd |only man/grotseis.Rd |only man/hodogram.Rd |only 49 files changed, 2231236 insertions(+), 1024570 deletions(-)
More information about similarityRichards at CRAN
Permanent link
Author: Christopher Jackson
Diff between msm versions 0.7.6 dated 2007-12-12 and 0.8 dated 2008-03-28
Title: Multi-state Markov and hidden Markov models in continuous time
Description: Functions for fitting general continuous-time Markov and hidden
Markov multi-state models to longitudinal data. Both Markov
transition rates and the hidden Markov output process can be modelled
in terms of covariates. A variety of observation schemes are
supported, including processes observed at arbitrary times,
completely-observed processes, and censored states.
msm-0.7.6/msm/data/heart.txt |only
msm-0.7.6/msm/inst/doc/index.html |only
msm-0.7.6/msm/man/heart.Rd |only
msm-0.8/msm/ChangeLog | 54 +++++
msm-0.8/msm/DESCRIPTION | 8
msm-0.8/msm/NAMESPACE | 8
msm-0.8/msm/R/boot.R | 10
msm-0.8/msm/R/hmm.R | 4
msm-0.8/msm/R/msm.R | 46 +++-
msm-0.8/msm/R/outputs.R | 161 +++++++++++++--
msm-0.8/msm/R/pearson.R |only
msm-0.8/msm/R/simul.R | 42 ++--
msm-0.8/msm/R/utils.R | 10
msm-0.8/msm/data/cav.txt |only
msm-0.8/msm/inst/NEWS | 33 +++
msm-0.8/msm/inst/doc/msm-manual.pdf |binary
msm-0.8/msm/man/aneur.Rd | 3
msm-0.8/msm/man/boot.msm.Rd | 27 +-
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msm-0.8/msm/man/crudeinits.msm.Rd | 8
msm-0.8/msm/man/hmm-dists.Rd | 2
msm-0.8/msm/man/logLik.msm.Rd | 2
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msm-0.8/msm/man/medists.Rd | 2
msm-0.8/msm/man/msm.Rd | 25 +-
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msm-0.8/msm/man/pexp.Rd | 2
msm-0.8/msm/man/plot.msm.Rd | 12 -
msm-0.8/msm/man/plot.prevalence.msm.Rd | 9
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msm-0.8/msm/man/pmatrix.msm.Rd | 2
msm-0.8/msm/man/pmatrix.piecewise.msm.Rd | 2
msm-0.8/msm/man/prevalence.msm.Rd | 9
msm-0.8/msm/man/scoreresid.msm.Rd |only
msm-0.8/msm/man/simmulti.msm.Rd | 18 +
msm-0.8/msm/man/statetable.msm.Rd | 6
msm-0.8/msm/man/summary.msm.Rd | 2
msm-0.8/msm/man/tnorm.Rd | 2
msm-0.8/msm/man/totlos.msm.Rd | 2
msm-0.8/msm/man/transient.msm.Rd | 2
msm-0.8/msm/man/viterbi.msm.Rd | 10
msm-0.8/msm/src/lik.c | 141 +++++++++----
msm-0.8/msm/src/msm.h | 1
msm-0.8/msm/tests/analyticp.R | 6
msm-0.8/msm/tests/boot.R | 8
msm-0.8/msm/tests/deriv-test.R | 22 +-
msm-0.8/msm/tests/deriv.R | 258 +++++++++++++-----------
msm-0.8/msm/tests/errors.R | 324 +++++++++++++++----------------
msm-0.8/msm/tests/misc.R | 92 ++++----
msm-0.8/msm/tests/miscnew.R | 22 +-
msm-0.8/msm/tests/pearson.R |only
msm-0.8/msm/tests/sim.R | 11 -
msm-0.8/msm/tests/simple.R | 264 ++++++++++++-------------
54 files changed, 1036 insertions(+), 636 deletions(-)
Author: Karsten Tabelow
Diff between fmri versions 1.2-3 dated 2007-11-23 and 1.2-5 dated 2008-03-28
Title: Analysis of fMRI experiments
Description: The library contains R-functions to perform an fmri analysis
as described in
Tabelow, K., Polzehl, J., Voss, H.U., and Spokoiny, V.
Analysing fMRI experiments with structure adaptive smoothing procedures,
NeuroImage, 33:55-62 (2006).
fmri-1.2-3/fmri/libs |only
fmri-1.2-5/fmri/BUGS |only
fmri-1.2-5/fmri/DESCRIPTION | 12 +--
fmri-1.2-5/fmri/HISTORY | 22 ++++++
fmri-1.2-5/fmri/NAMESPACE | 2
fmri-1.2-5/fmri/R/io.R | 80 ++++++++++++++++++-----
fmri-1.2-5/fmri/R/lm.R | 7 +-
fmri-1.2-5/fmri/R/ngca.r | 125 +++++++++++++++++++++++++++++++++---
fmri-1.2-5/fmri/man/fmriica.Rd |only
fmri-1.2-5/fmri/man/ngca.Rd | 10 +-
fmri-1.2-5/fmri/man/read.AFNI.Rd | 3
fmri-1.2-5/fmri/man/read.ANALYZE.Rd | 3
fmri-1.2-5/fmri/man/read.NIFTI.Rd | 3
fmri-1.2-5/fmri/src/misc.f | 4 -
14 files changed, 226 insertions(+), 45 deletions(-)
Author: Florian Wickelmaier
Diff between eba versions 1.5-0 dated 2007-10-22 and 1.5-1 dated 2008-03-28
Title: Elimination-By-Aspects (EBA) Models
Description: Fitting and testing multi-attribute probabilistic choice
models, especially the Bradley-Terry-Luce (BTL) model (Bradley &
Terry, 1952; Luce, 1959), elimination-by-aspects (EBA) models
(Tversky, 1972), and preference tree (Pretree) models (Tversky &
Sattath, 1979).
ChangeLog | 13 +++++++++++++
DESCRIPTION | 8 ++++----
R/EBA_fast.R | 46 ++++++++++++++++++++++++++++++++++++++++++++++
R/balanced.pcdesign.R |only
R/thurstone.R |only
R/zzMethods.R | 2 ++
man/OptiPt.Rd | 25 +++++++++++++++++--------
man/balanced.pcdesign.Rd |only
man/eba.order.Rd | 1 +
man/pcX.Rd | 17 ++++++++++++++---
man/plot.eba.Rd | 1 +
man/thurstone.Rd |only
12 files changed, 98 insertions(+), 15 deletions(-)
Author: Max Kuhn
Title: Classification and Regression Training LSF Style
Description: Augment some caret functions for parallel processing
Diff between caretLSF versions 1.12 dated 2007-11-29 and 1.14 dated 2008-03-28
DESCRIPTION | 7 ++++--- NAMESPACE | 2 +- R/rfLSF.R |only R/trainLSF.R | 48 +++++++++++++++++++++++++++--------------------- man/rfLSF.Rd |only 5 files changed, 32 insertions(+), 25 deletions(-)
Author: Max Kuhn. Contributions form Jed Wing, Steve Weston and Andre Williams
Title: Classification and Regression Training
Description: Misc functions for training and plotting classification and regression models
Diff between caret versions 3.13 dated 2008-03-02 and 3.16 dated 2008-03-28
caret-3.13/caret/inst/doc/caretMisc.tex |only caret-3.13/caret/inst/doc/caretTrain.tex |only caret-3.13/caret/inst/doc/caretVarImp.tex |only caret-3.16/caret/DESCRIPTION | 8 caret-3.16/caret/R/bagEarth.R | 2 caret-3.16/caret/R/createGrid.R | 2 caret-3.16/caret/R/createModel.R | 990 ++++++++++++------------ caret-3.16/caret/R/earthVarImp.R | 2 caret-3.16/caret/R/format.bagEarth.R | 21 caret-3.16/caret/R/misc.R | 1212 ++++++++++++++---------------- caret-3.16/caret/inst/doc/caretMisc.Rnw | 1 caret-3.16/caret/inst/doc/caretTrain.Rnw | 2 caret-3.16/caret/inst/doc/caretVarImp.Rnw | 2 caret-3.16/caret/man/format.bagEarth.Rd | 3 14 files changed, 1144 insertions(+), 1101 deletions(-)
More information about backfitRichards at CRAN
Permanent link
Author: R-core members, Saikat DebRoy
Diff between foreign versions 0.8-23 dated 2007-10-08 and 0.8-24 dated 2008-03-28
Title: Read Data Stored by Minitab, S, SAS, SPSS, Stata, Systat, dBase, ...
Description: Functions for reading and writing data stored by statistical
packages such as Minitab, S, SAS, SPSS, Stata, Systat, ...,
and for reading and writing .dbf (dBase) files.
ChangeLog | 35 +++++++++++++++++++
DESCRIPTION | 7 ++-
R/read.dta.R | 9 ++--
R/read.epiinfo.R | 2 -
R/spss.R | 42 ++++++++++++++++++++--
man/read.dta.Rd | 10 +++--
man/read.spss.Rd | 34 ++++++++++++------
man/write.dta.Rd | 9 ++--
src/SASxport.c | 12 ++++++
src/dbfopen.c | 9 ++++
src/minitab.c | 4 ++
src/pfm-read.c | 64 ++++++++++------------------------
src/sfm-read.c | 26 +++++++++-----
src/sfm.h | 9 ++--
src/sfmP.h | 1
src/spss.c | 101 ++++++++++++++++++++++++++++---------------------------
src/stataread.c | 46 ++++++++++++++++---------
tests/sas.R |only
18 files changed, 265 insertions(+), 155 deletions(-)
Author: Sřren Hřjsgaard
Diff between gRain versions 0.2.0 dated 2008-03-07 and 0.3.0 dated 2008-03-28
Title: Graphical Independence Networks
Description: A package for probability propagation in graphical independence networks, also known as probabilistic expert systems (which includes Bayesian networks as a special case).
gRain-0.2.0/gRain/R/Graphsh-convert.R |only
gRain-0.2.0/gRain/R/Graphsh-mat.R |only
gRain-0.2.0/gRain/R/cliquemat.R |only
gRain-0.2.0/gRain/man/gRain-package.Rd |only
gRain-0.2.0/gRain/man/graphs-operations.Rd |only
gRain-0.2.0/gRain/man/newugsh.Rd |only
gRain-0.3.0/gRain/ChangeLog | 11 +
gRain-0.3.0/gRain/DESCRIPTION | 8 -
gRain-0.3.0/gRain/INDEX | 3
gRain-0.3.0/gRain/NAMESPACE | 14 --
gRain-0.3.0/gRain/R/Evidence.R | 2
gRain-0.3.0/gRain/R/Graphsh-EdgeConversion.R |only
gRain-0.3.0/gRain/R/Graphsh-GraphConversion.R |only
gRain-0.3.0/gRain/R/Graphsh-mcs-moral-rip.R | 4
gRain-0.3.0/gRain/R/Graphsh-queryg.R | 181 +++++++++++++-------------
gRain-0.3.0/gRain/R/Graphsh-triangulate.R | 2
gRain-0.3.0/gRain/R/Sets-Generel-SetOp.R | 79 +++++------
gRain-0.3.0/gRain/R/TabOpArray.R | 5
gRain-0.3.0/gRain/R/allClasses-Graphsh.R | 165 +++++++++++++++++------
gRain-0.3.0/gRain/R/asxxx.R | 3
gRain-0.3.0/gRain/R/display.R | 126 ++++++++++--------
gRain-0.3.0/gRain/R/potentialList.R | 2
gRain-0.3.0/gRain/R/predict.R | 8 -
gRain-0.3.0/gRain/R/zzz.R | 24 ---
gRain-0.3.0/gRain/man/gRain.Rd |only
gRain-0.3.0/gRain/man/grash-operations.Rd |only
gRain-0.3.0/gRain/man/grash.Rd |only
gRain-0.3.0/gRain/man/internal-gRain.Rd | 23 ++-
gRain-0.3.0/gRain/man/predict.Rd | 6
gRain-0.3.0/gRain/man/queryg.Rd | 6
gRain-0.3.0/gRain/man/simulate.Rd | 2
31 files changed, 384 insertions(+), 290 deletions(-)
Author: Elizabeth Freeman
Diff between PresenceAbsence versions 1.1.1 dated 2008-01-07 and 1.1.2 dated 2008-03-28
More information about PresenceAbsence at CRAN
Title: Presence-Absence Model Evaluation
Description: This package provides a set of functions useful when evaluating the results of presence-absence models. Package includes functions for calculating threshold dependant measures such as confusion matrices, pcc, sensitivity, specificity, and Kappa, and produces plots of each measure as the threshold is varied. It will calculate optimal threshold choice according to a choice of optimization criteria. It also includes functions to plot the threshold independent ROC curves along with the associated AUC (area under the curve).
DESCRIPTION | 6 +++---
R/calibration.plot.R | 30 +++++++++++++++++++++++++-----
R/predicted.prevalence.R | 17 ++++++++++-------
R/presence.absence.hist.R | 6 ++++--
man/PresenceAbsence.package.Rd | 4 ++--
man/calibration.plot.Rd | 24 ++++++++++++++++++++----
man/predicted.prevalence.Rd | 2 +-
7 files changed, 65 insertions(+), 24 deletions(-)
Permanent link
Author: Markus Helbig
Diff between JGR versions 1.5-10 dated 2008-03-24 and 1.5-11 dated 2008-03-28
Title: JGR - Java Gui for R
Description: Java GUI for R - cross-platform, universal and unified Graphical User Interface for R. For full functionality on Windows and Mac OS X JGR requires a start application which depends on your OS. This can be downloaded from JGR's website: http://www.rosuda.org/JGR
DESCRIPTION | 3 ++-
NEWS | 2 ++
R/JGR.R | 7 +++----
inst/java/JGR.jar |binary
4 files changed, 7 insertions(+), 5 deletions(-)
Author: David Firth
Title: Relative Contribution of Effects in a Regression Model
Description: Functions to facilitate inference on the relative importance of predictors in a linear or generalized linear model, and a couple of useful Tcl/Tk widgets
Diff between relimp versions 0.9-7 dated 2006-09-12 and 0.9-8 dated 2008-03-27
DESCRIPTION | 4 - R/pickFrom.R | 1 R/relimp.R | 160 +++++++++++++++++++++++++++++----------------------------- man/relimp.Rd | 4 - 4 files changed, 87 insertions(+), 82 deletions(-)
Author: Juan R González, Lluís Armengol, Elisabet Guinó, Xavier Solé, and Víctor Moreno
Title: SNPs-based whole genome association studies
Description: This package carries out most common analysis when performing whole genome association studies. These analyses include descriptive statistics and exploratory analysis of missing values, calculation of Hardy-Weinberg equilibrium, analysis of association based on generalized linear models (either for quantitative or binary traits), and analysis of multiple SNPs (haplotype and epistasis analysis). Permutation test and related tests (sum statistic and truncated product) are also implemented.
Diff between SNPassoc versions 1.4-9 dated 2007-10-16 and 1.5-1 dated 2008-03-27
DESCRIPTION | 6 +- NAMESPACE | 3 + R/expandsetupSNP.R | 30 ++++------- R/print.summary.snp.R |only R/summary.snp.R | 126 ++++++++++++++++++++---------------------------- R/tableHWE.R | 59 ++++++++++++---------- inst/docs/changelog.txt | 7 +- man/snp.Rd | 2 8 files changed, 113 insertions(+), 120 deletions(-)
Author: Kevin Gross, with help from Douglas Bates
Title: ML estimation for multivariate normal data with missing values.
Description: Finds the maximum likelihood estimate of the mean vector
and variance-covariance matrix for multivariate normal data with
missing values.
Diff between mvnmle versions 0.1-6 dated 2005-11-29 and 0.1-8 dated 2008-03-27
DESCRIPTION | 8 ++++---- R/mlest.R | 2 +- data/apple.rda |binary data/missvals.rda |binary man/apple.Rd | 1 - man/getstartvals.Rd | 2 +- man/missvals.Rd | 1 - man/mlest.Rd | 5 +++-- 8 files changed, 9 insertions(+), 10 deletions(-)
Author: Martin Schlather
Diff between MarkedPointProcess versions 0.2.7 dated 2008-02-19 and 0.2.8 dated 2008-03-27
More information about MarkedPointProcess at CRAN
Title: Analysis of Marks of Marked Point Processes
Description: Non-parametric Analysis of the Marks of Marked Point Processes
DESCRIPTION | 4 ++--
R/mpp.R | 8 ++++----
src/auxiliary.cc | 1 -
3 files changed, 6 insertions(+), 7 deletions(-)
Permanent link
Author: John Hughes
Title: Object-Oriented Data Structures for R
Description: This package furnishes R with a suite of object-oriented data structures: stack, queue, deque, max-heap, min-heap, binary search tree, and splay tree.
Diff between Containers versions 1.1 dated 2008-01-11 and 1.2 dated 2008-03-27
Containers-1.1/Containers/inst/doc/Containers.eps |only Containers-1.2/Containers/DESCRIPTION | 7 +++-- Containers-1.2/Containers/inst/doc/Containers.Rnw | 2 - Containers-1.2/Containers/inst/doc/Containers.pdf |binary Containers-1.2/Containers/inst/doc/Containers.tex | 26 +++++++++++----------- Containers-1.2/Containers/inst/doc/UML.eps |only Containers-1.2/Containers/inst/doc/UML.pdf |only Containers-1.2/Containers/man/BST.Rd | 2 + 8 files changed, 20 insertions(+), 17 deletions(-)
Author: Hadley Wickham
Diff between hints versions 1.0.1 dated 2007-11-27 and 1.0.1-1 dated 2008-03-27
Title: Provide hints on what to do next
Description: Gives hints on what functions you might want to apply to an object you have created.
hints-1.0.1-1/hints/._DESCRIPTION |only
hints-1.0.1-1/hints/DESCRIPTION | 6 +++---
hints-1.0.1-1/hints/inst/doc/hints.pdf |binary
hints-1.0.1/hints/inst/doc/hints.aux |only
hints-1.0.1/hints/inst/doc/hints.log |only
hints-1.0.1/hints/inst/doc/hints.out |only
hints-1.0.1/hints/inst/doc/hints.tex |only
7 files changed, 3 insertions(+), 3 deletions(-)
Author: Longhai Li
Diff between gibbs.met versions 1.1-1 dated 2008-03-24 and 1.1-2 dated 2008-03-26
Title: Naive Gibbs Sampling with Metropolis Steps
Description: This package provides two generic functions for performing Markov chain sampling in a naive way for a user-defined target distribution, which involves only continuous variables. The function "gibbs_met" performs Gibbs sampling with each 1-dimensional distribution sampled with Metropolis update using Gaussian proposal distribution centered at the previous state. The function "met_gaussian" updates the whole state with Metropolis method using independent Gaussian proposal distribution centered at the previous state. The sampling is carried out without considering any special tricks for improving efficiency. This package is aimed at only routine applications in moderate-dimensional problems.
DESCRIPTION | 4 ++--
R/firstlib.R |only
R/gibbs-met.R | 12 ++++++++----
3 files changed, 10 insertions(+), 6 deletions(-)
Author: Sřren Hřjsgaard
Diff between gRbase versions 0.3.0 dated 2008-03-12 and 0.3.1 dated 2008-03-26
Title: A package for graphical modelling in R
Description: This package defines S3-classes gmData (graphical meta data), gModel (graphical model). Several other graphical modelling packages rely on these fundamental constructs. gRbase illustrates how hierarchical log-linear models (hllm) may be implemented.
ChangeLog | 9 +++
DESCRIPTION | 4 -
R/formulae.R | 117 ++++++++++++++++++++-------------------
R/gRfit.R | 2
R/ggm.R | 14 ++--
R/names2pairs.R |only
R/setopsC.R |only
R/setopsR.R |only
R/stepwise.R |only
R/zzz.R | 40 +------------
inst/doc/gRbase.log | 4 -
inst/doc/gRbase.pdf |binary
man/gRbase-internal.Rd | 144 +++++++++++++++++++++++++++----------------------
src |only
14 files changed, 163 insertions(+), 171 deletions(-)
Author: Sřren Hřjsgaard
Diff between doBy versions 2.2 dated 2008-02-14 and 2.3 dated 2008-03-26
Title: Groupwise computations of summary statistics and other utilities
Description: Facilities for groupwise computations of summary statistics and other facilities for working with grouped data (similar to what can be achieved by proc means or proc summary of the SAS system).
doBy-2.2/doBy/README |only
doBy-2.3/doBy/ChangeLog | 6
doBy-2.3/doBy/DESCRIPTION | 4
doBy-2.3/doBy/R/orderBy.R | 2
doBy-2.3/doBy/inst/doc/doBy.pdf | 673 ++++++++++++++++++++--------------------
5 files changed, 356 insertions(+), 329 deletions(-)
Author: Matthias Wangler
Diff between changeLOS versions 2.0.6 dated 2007-09-05 and 2.0.8 dated 2008-03-26
Title: Change in LOS
Description: Change in length of hospital stay (LOS) is frequently used to assess the impact and the costs of hospital-acquired complications. In order to compute the attributable change in LOS, it is crucial to account for the timing of events: A complication can only have an effect on LOS, once it has occured. These temporal dynamics can be adequately handled by multistate models; however, there is few software for such models available. We introduce an R-package "changeLOS" for computing change in LOS based on methods described in Schulgen and Schumacher (1996). We will illustrate the program on data from a prospective cohort study on hospital-acquired infections. Main features of the R-package "changeLOS" are R-methods to: (1) describe the multi-state model. (2) compute the Aalen-Johansen estimator for the matrix of transition probabilities P(u-, u) for all observed transition times u.(3) compute the Aalen-Johansen estimator for the matrix of transition probabilities P(s,t); the estimator is a finite matrix product of matrices P(u-,u) for every observed event time in the interval(s,t]. (4) visualize the temporal dynamics of the data, illustrated by transition probabilities. (5) compute and visualize change in LOS. (6) compute bootstrap variances for change in LOS.
DESCRIPTION | 10 +++++-----
R/aj.R | 28 ++++++++++++++++------------
R/exampleclos.R | 11 ++++++-----
R/print.aj.R | 17 +++++++++++------
R/trans.R | 6 +++---
man/clos.Rd | 16 ++++++++++------
man/plot.aj.Rd | 2 +-
man/plot.clos.Rd | 2 +-
man/plot.progdismodel.Rd | 2 +-
man/print.aj.Rd | 2 +-
man/print.clos.Rd | 2 +-
man/print.msmodel.Rd | 2 +-
man/print.progdismodel.Rd | 2 +-
man/print.trans.Rd | 2 +-
man/summary.clos.Rd | 2 +-
man/summary.trans.Rd | 2 +-
man/trans.Rd | 1 +
17 files changed, 62 insertions(+), 47 deletions(-)
Author: Friedrich Leisch and Bettina Gruen
Title: Flexible Mixture Modeling
Description: FlexMix implements a general framework for finite
mixtures of regression models using the EM algorithm.
FlexMix provides the E-step and all data handling, while the M-step can be
supplied by the user to easily define new models. Existing drivers
implement mixtures of standard linear models, generalized linear
models and model-based clustering.
Diff between flexmix versions 2.0-1 dated 2007-09-11 and 2.0-2 dated 2008-03-26
DESCRIPTION | 10 NAMESPACE | 8 NEWS | 9 R/FLXMCmvpois.R | 5 R/allGenerics.R | 29 R/classes.R | 86 R/concomitant.R | 54 R/examples.R | 4 R/flexmix.R | 92 R/flexmixFix.R | 9 R/glmFix.R | 40 R/infocrit.R | 4 R/kldiv.R | 6 R/models.R | 12 R/plot-flexmix.R | 16 R/plot-refit.R | 91 R/plot.R | 48 R/refit.R | 463 + R/stepFlexmix.R | 16 R/utils.R | 8 R/z.R | 5 R/ziglm.R | 60 inst/NEWS | 9 inst/doc/flexmix-intro.Rnw | 61 inst/doc/flexmix-intro.pdf |12708 +++++++++++++++++++-------------------- inst/doc/flexmix.bib |only inst/doc/jss.bst |only inst/doc/mymclust.R | 2 inst/doc/regression-examples.Rnw | 92 inst/doc/regression-examples.pdf | 4973 +++++++-------- inst/doc/vignette.cls |only man/AIC-methods.Rd | 4 man/BIC-methods.Rd | 4 man/BregFix.Rd | 4 man/ExNPreg.Rd | 6 man/ExNclus.Rd | 4 man/FLXMCmvpois.Rd | 8 man/FLXMRziglm.Rd | 15 man/FLXP-class.Rd |only man/FLXbclust.Rd | 14 man/FLXcomponent-class.Rd | 6 man/FLXconcomitant.Rd | 13 man/FLXcontrol-class.Rd | 11 man/FLXdist-class.Rd | 23 man/FLXfit.Rd | 15 man/FLXglm.Rd | 8 man/FLXglmFix.Rd | 17 man/FLXmclust.Rd | 8 man/FLXmodel-class.Rd | 15 man/FLXnested-class.Rd | 8 man/ICL.Rd | 6 man/KLdiv.Rd | 22 man/Lapply-methods.Rd | 19 man/Mehta.Rd | 4 man/NregFix.Rd | 16 man/betablocker.Rd | 4 man/bioChemists.Rd | 4 man/candy.Rd | 4 man/dmft.Rd | 4 man/fabricfault.Rd | 6 man/fitted.Rd | 9 man/flexmix-class.Rd | 6 man/flexmix-internal.Rd | 4 man/flexmix.Rd | 19 man/logLik-methods.Rd | 4 man/patent.Rd | 5 man/plot-methods.Rd | 50 man/plotEll.Rd | 12 man/posterior.Rd | 22 man/refit.Rd | 112 man/salmonellaTA98.Rd | 10 man/seizure.Rd | 14 man/stepFlexmix.Rd | 27 man/tribolium.Rd | 8 man/trypanosome.Rd | 7 man/whiskey.Rd | 5 tests/binomial.R | 2 tests/binomial.Rout.save | 7 78 files changed, 10096 insertions(+), 9419 deletions(-)
Author: Marco Scutari
Title: Bayesian network structure learning
Description: Bayesian network structure learning
via constraint-based (also known as 'conditional
independence') and score-based algorithms.
This package implements the Grow-Shrink (GS)
algorithm, the Incremental Association (IAMB)
algorithm, the Interleaved-IAMB (Inter-IAMB)
algorithm, the Fast-IAMB (Fast-IAMB) algorithm
and the Hill-Climbing (HC) greedy search
algorithm for both discrete and gaussian networks,
along with many score functions and conditional
independence tests.
Some utility functions (model comparison and
manipulation, random data generation, arc
orientation testing) are also included.
Diff between bnlearn versions 0.6 dated 2008-02-11 and 0.7 dated 2008-03-26
DESCRIPTION | 14 - R/backend-indep.R | 78 +--------- R/backend-score.R | 306 ------------------------------------------- R/choose.direction.R | 10 - R/frontend.R | 89 ++++++++---- R/hill-climbing.R |only R/methods.R | 21 +- R/scores.R | 20 +- R/test.R | 32 +--- R/utils-amat.R | 85 +---------- R/utils-arcs.R | 5 R/utils-graph.R | 218 ++++++++++++++++++++++++++++++ R/utils-sanitization.R | 6 R/utils-tests.R | 99 +++++++++++++ man/00.bnlearn-package.Rd | 88 ++++++++---- man/10.gs.Rd | 19 +- man/11.iamb.Rd | 17 +- man/12.fast.iamb.Rd | 19 +- man/13.inter.iamb.Rd | 17 +- man/14.hc.Rd | 24 ++- man/20.mb.Rd | 19 +- man/21.arcops.Rd | 6 man/22.modelstring.Rd | 22 +-- man/23.compare.Rd | 2 man/24.graphgen.Rd | 24 +-- man/25.ordering.Rd | 6 man/30.score.Rd | 26 +-- man/31.choose.direction.Rd | 14 + man/40.rbn.Rd | 12 - man/A0.learning-test.Rd | 79 +++++------ man/A1.gaussian-test.Rd | 6 man/B0.bn.class.Rd | 8 - man/C0.snow.Rd |only src/arcs2amat.c |only src/configurations.c | 7 src/discrete.loglikelihood.c | 61 +++++--- src/gaussian.posterior.c | 26 +-- src/is.row.equal.c |only src/mutual.information.c | 89 +++++++----- src/nparams.c | 5 40 files changed, 790 insertions(+), 789 deletions(-)
Author: S-PLUS original by Phil Everson; R port by Roger D. Peng
Diff between tlnise versions 0.2-6 dated 2007-05-01 and 0.2-7 dated 2008-03-26
Title: Two-level normal independent sampling estimation
Description: Functions for two level normal models as described in Everson and Morris (2000). J. R. Statist. Soc. B, 62 prt 2, pp.399--412.
DESCRIPTION | 9 +--
R/internal.R | 122 +++++++++++++++++++++++-----------------------
tests/reg-tests.Rout.save | 6 +-
3 files changed, 70 insertions(+), 67 deletions(-)
Author: Gordon Smyth with contributions from Yifang Hu
Title: Statistical Modeling
Description: Various statistical modeling functions including growth curve comparisons, limiting dilution analysis, mixed linear models, heteroscedastic regression, Tweedie family generalized linear models, the inverse-Gaussian distribution and Gauss quadrature.
Diff between statmod versions 1.3.3 dated 2008-01-14 and 1.3.5 dated 2008-03-26
DESCRIPTION | 24 +++++----- INDEX | 4 + R/limdil.R | 110 ++++++++++++++++++++++--------------------------- R/remlscorgamma.R |only inst/doc/changelog.txt | 14 +++++- man/remlscorgamma.Rd |only 6 files changed, 79 insertions(+), 73 deletions(-)
Author: Daniel P Gaile
Diff between sendplot versions 1.0.0 dated 2008-02-14 and 1.1.0 dated 2008-03-26
Title: Tool for sending interactive plots with tool-tip content.
Description: A tool for visualizing data
DESCRIPTION | 7
R/HeatmapWrapper.R | 8
R/sendimage.R | 8
R/sendplot.R | 514 ++++++++++++++++++++++++++++++++++++++++--
R/sendxy.R | 8
inst/doc/heatmapSendPlot.html | 30 +-
inst/doc/heatmapSendPlot.png |binary
inst/doc/heatmapSendPlot.ps | 141 +++++------
inst/doc/sendplot.Rnw | 304 +++++++++++++++++++++---
inst/doc/sendplot.pdf |binary
inst/doc/sendplot.tex | 304 +++++++++++++++++++++---
inst/doc/test.png |binary
inst/doc/testImg.html | 40 +--
inst/doc/testImg.png |binary
inst/doc/testImg.ps | 32 +-
man/heatmap.send.Rd | 11
man/sendimage.Rd | 10
man/sendplot.Rd | 32 ++
man/sendxy.Rd | 10
19 files changed, 1192 insertions(+), 267 deletions(-)
Author: Duncan Temple Lang
Diff between rggobi versions 2.1.7 dated 2007-09-30 and 2.1.8 dated 2008-03-26
Title: Interface between R and GGobi
Description: The rggobi package provides a command-line interface to GGobi, an interactive and dynamic graphics package. Rggobi complements GGobi's graphical user interface, providing a way to fluidly transition between analysis and exploration, as well as automating common tasks.
rggobi-2.1.7/rggobi/inst |only
rggobi-2.1.8/rggobi/DESCRIPTION | 6 ++--
rggobi-2.1.8/rggobi/NAMESPACE | 29 +++++++++++++++++++++
rggobi-2.1.8/rggobi/R/call.r | 9 +++---
rggobi-2.1.8/rggobi/R/data.r | 13 +++++++--
rggobi-2.1.8/rggobi/R/display-tour.r | 2 -
rggobi-2.1.8/rggobi/R/display-variables.r | 19 +++++++++----
rggobi-2.1.8/rggobi/R/edges.r | 4 ++
rggobi-2.1.8/rggobi/R/glyphs.r | 1
rggobi-2.1.8/rggobi/R/gtk.r | 3 +-
rggobi-2.1.8/rggobi/R/longitudinal.r | 20 +++++++++-----
rggobi-2.1.8/rggobi/R/zzz.r | 12 +++++---
rggobi-2.1.8/rggobi/aclocal.m4 | 6 ++--
rggobi-2.1.8/rggobi/configure | 24 ++++++++---------
rggobi-2.1.8/rggobi/man/GGobiCall-n1.rd | 4 +-
rggobi-2.1.8/rggobi/man/as-RGtkObject-8g.rd | 4 +-
rggobi-2.1.8/rggobi/man/display-ce.rd | 4 +-
rggobi-2.1.8/rggobi/man/excluded-54.rd | 2 -
rggobi-2.1.8/rggobi/man/ggobi-longitudinal-2e.rd | 2 -
rggobi-2.1.8/rggobi/man/ggobi-set-data-frame-k0.rd | 2 -
rggobi-2.1.8/rggobi/man/ggobi-symbol-34.rd | 9 ++----
rggobi-2.1.8/rggobi/man/valid-ggobi-mk.rd | 4 +-
rggobi-2.1.8/rggobi/man/variables--hh.rd | 2 -
rggobi-2.1.8/rggobi/man/variables-cf.rd | 2 -
rggobi-2.1.8/rggobi/src/Makevars | 4 +-
rggobi-2.1.8/rggobi/src/Makevars.win | 2 -
rggobi-2.1.8/rggobi/src/display.c | 11 +++++++
rggobi-2.1.8/rggobi/src/ggobi.c | 7 +++--
28 files changed, 136 insertions(+), 71 deletions(-)
Author: Hemant Ishwaran
Diff between randomSurvivalForest versions 3.2.1 dated 2008-03-12 and 3.2.2 dated 2008-03-26
More information about randomSurvivalForest at CRAN
Title: Ishwaran and Kogalur's Random Survival Forest
Description: Ensemble survival analysis based on a random forest of trees using random inputs.
DESCRIPTION | 6 +++---
R/find.interaction.R | 2 +-
R/interaction.rsf.R | 2 +-
R/plot.ensemble.R | 2 +-
R/plot.error.R | 2 +-
R/plot.proximity.R | 2 +-
R/plot.rsf.R | 2 +-
R/plot.variable.R | 2 +-
R/pmml_to_rsf.R | 2 +-
R/predict.rsf.R | 2 +-
R/print.rsf.R | 2 +-
R/randomSurvivalForest.R | 2 +-
R/rsf.R | 2 +-
R/rsf.default.R | 2 +-
R/rsf.formula.R | 2 +-
R/rsf.news.R | 2 +-
R/rsf_to_pmml.R | 2 +-
R/zzz.R | 2 +-
inst/NEWS | 24 +++++++++++++++++-------
src/extern.h | 2 +-
src/global.h | 2 +-
src/node.h | 2 +-
src/node_ops.c | 2 +-
src/node_ops.h | 2 +-
src/nrutil.c | 2 +-
src/nrutil.h | 2 +-
src/rsf.c | 2 +-
src/rsf.h | 2 +-
src/rsfBootstrap.c | 2 +-
src/rsfBootstrap.h | 2 +-
src/rsfEntry.c | 2 +-
src/rsfEntry.h | 2 +-
src/rsfImpute.c | 6 +++---
src/rsfImpute.h | 2 +-
src/rsfSplit.c | 2 +-
src/rsfSplit.h | 2 +-
src/rsfStack.c | 2 +-
src/rsfStack.h | 2 +-
src/rsfUtil.c | 2 +-
src/rsfUtil.h | 2 +-
40 files changed, 60 insertions(+), 50 deletions(-)
Permanent link
Author: Vincent Goulet, Sébastien Auclair, Christophe Dutang, Tommy Ouellet, Louis-Philippe Pouliot, Mathieu Pigeon
Title: Actuarial functions
Description: Collection of functions and data sets related to
actuarial science applications, mostly loss distributions, risk
theory (including ruin theory), simulation of compound hierarchical
models and credibility theory, for the moment.
Diff between actuar versions 0.9-6 dated 2008-02-19 and 0.9-7 dated 2008-03-26
DESCRIPTION | 6 NAMESPACE | 5 R/grouped.data.R | 6 R/hierarc.R | 67 R/ruin.R | 9 demo/risk.R | 1 inst/NEWS | 18 inst/doc/actuar.pdf |binary inst/doc/coverage.pdf |binary inst/doc/credibility.Rnw | 4 inst/doc/credibility.pdf |binary inst/doc/lossdist.Rnw | 84 inst/doc/lossdist.pdf | 1777 +- inst/doc/risk.Rnw | 24 inst/doc/risk.pdf |40908 +++++++++++++++++++++++------------------------ inst/doc/simulation.Rnw | 44 inst/doc/simulation.pdf |binary man/cm.Rd | 9 man/ruin.Rd | 36 19 files changed, 21493 insertions(+), 21505 deletions(-)
Author: Douglas Bates
Diff between Matrix versions 0.999375-7 dated 2008-03-24 and 0.999375-8 dated 2008-03-26
Title: A Matrix package for R
Description: Classes and methods for dense and sparse matrices and
operations on them using Lapack, CSparse and CHOLMOD
Matrix-0.999375-7/Matrix/ourUsers.txt |only
Matrix-0.999375-8/Matrix/ChangeLog | 23
Matrix-0.999375-8/Matrix/DESCRIPTION | 6
Matrix-0.999375-8/Matrix/NAMESPACE | 1
Matrix-0.999375-8/Matrix/R/AllGeneric.R | 3
Matrix-0.999375-8/Matrix/R/MatrixFactorization.R | 12
Matrix-0.999375-8/Matrix/R/diagMatrix.R | 36
Matrix-0.999375-8/Matrix/R/dspMatrix.R | 3
Matrix-0.999375-8/Matrix/R/dsyMatrix.R | 3
Matrix-0.999375-8/Matrix/inst/doc/Announce.txt | 4
Matrix-0.999375-8/Matrix/inst/doc/Comparisons.pdf |binary
Matrix-0.999375-8/Matrix/inst/doc/Design-issues.pdf |binary
Matrix-0.999375-8/Matrix/inst/doc/Intro2Matrix.pdf | 1037 ++++++++++---------
Matrix-0.999375-8/Matrix/inst/doc/Introduction.pdf |binary
Matrix-0.999375-8/Matrix/inst/test-tools.R | 2
Matrix-0.999375-8/Matrix/man/BunchKaufman-methods.Rd |only
Matrix-0.999375-8/Matrix/man/Cholesky-class.Rd | 10
Matrix-0.999375-8/Matrix/man/ddiMatrix-class.Rd | 2
Matrix-0.999375-8/Matrix/src/cs.h | 8
Matrix-0.999375-8/Matrix/src/dgCMatrix.c | 1
Matrix-0.999375-8/Matrix/src/init.c | 1
Matrix-0.999375-8/Matrix/tests/dg_Matrix.R | 10
Matrix-0.999375-8/Matrix/tests/simple.R | 76 -
23 files changed, 737 insertions(+), 501 deletions(-)
Author: Roger Bivand
Diff between spdep versions 0.4-17 dated 2008-02-19 and 0.4-20 dated 2008-03-25
Title: Spatial dependence: weighting schemes, statistics and models
Description: A collection of functions to create spatial weights matrix
objects from polygon contiguities, from point patterns by distance and
tesselations, for summarising these objects, and for permitting their
use in spatial data analysis; a collection of tests for spatial
autocorrelation, including global Moran's I, Geary's C, Hubert/Mantel
general cross product statistic, Empirical Bayes estimates and Assunçăo/Reis
Index, Getis/Ord G and multicoloured join count statistics,
local Moran's I and Getis/Ord G, saddlepoint approximations and exact
tests for global and local Moran's I; and functions for estimating
spatial simultaneous autoregressive (SAR) lag and error models,
weighted and unweighted SAR and CAR spatial regression models,
semi-parametric and Moran eigenvector spatial filtering, GM SAR error
models, and generalized spatial two stage least squares models.
ChangeLog | 39 +++++++++
DESCRIPTION | 8 -
NAMESPACE | 4
R/ME.R | 8 -
R/error.spsarlm.R | 74 +----------------
R/kpgm_new.R | 15 +--
R/lag.spsarlm.R | 151 +++++++++++++++++++----------------
R/listw2Matrix.R | 17 +---
R/spautolm.R | 193 ++++++++++++++++++++++++----------------------
inst/ChangeLog | 39 +++++++++
inst/doc/Fig-bitmap-1.pdf | 4
inst/doc/sids-010.pdf | 4
inst/doc/sids.pdf |binary
inst/doc/sids.tex | 2
man/GMerrorsar.Rd | 6 -
man/as_dgRMatrix_listw.Rd | 26 +++---
man/errorsarlm.Rd | 23 ++---
man/lagsarlm.Rd | 19 ++--
man/nc.sids.Rd | 8 -
man/similar.listw.Rd | 9 +-
man/spautolm.Rd | 45 +++++++---
21 files changed, 380 insertions(+), 314 deletions(-)
Author: Brian J. Smith
Diff between ramps versions 0.6-1 dated 2007-12-17 and 0.6-2 dated 2008-03-25
Title: Bayesian Geostatistical Modeling with RAMPS
Description: Bayesian geostatistical modeling of Gaussian processes using a reparameterized and marginalized posterior sampling (RAMPS) algorithm designed to lower autocorrelation in MCMC samples. Package performance is tuned for large spatial datasets.
DESCRIPTION | 10 +++++-----
R/mpdensity.R | 9 +++++----
R/mpdpred.R | 47 ++++++++++++++---------------------------------
data/simJSS.R |only
inst/CITATION | 21 ++++++++++-----------
man/NURE.Rd | 2 +-
man/georamps.Rd | 35 ++++++++++++++++++++++++++++++++++-
man/predict.ramps.Rd | 5 ++---
man/simJSS.Rd |only
man/window.Rd | 6 ++++--
10 files changed, 75 insertions(+), 60 deletions(-)
Author: Jim Lemon
Diff between prettyR versions 1.2-1 dated 2008-02-21 and 1.3 dated 2008-03-25
Title: Pretty descriptive stats.
Description: Functions for conventionally formatted descriptive stats, and
to format R output as HTML.
DESCRIPTION | 6 +++---
R/describe.R | 2 +-
man/AddNav.Rd | 2 +-
man/AddNavItem.Rd | 2 +-
man/CreateIndexFile.Rd | 2 +-
man/EndHTML.Rd | 2 +-
man/HTMLgraph.Rd | 2 +-
man/StartList.Rd | 2 +-
man/StartNav.Rd | 2 +-
man/describe.Rd | 8 ++++++++
man/describe.numeric.Rd | 14 ++++++++++++++
11 files changed, 33 insertions(+), 11 deletions(-)
Author: Jim Lemon
Diff between plotrix versions 2.3-3 dated 2008-03-09 and 2.4 dated 2008-03-25
Title: Various plotting functions
Description: Lots of plots, various labeling, axis and color scaling functions.
DESCRIPTION | 6 +++---
R/boxed.labels.R | 22 +++++++++++++---------
R/brkdn.plot.R | 50 ++++++++++++++++++++++++++++++++------------------
R/cylindrect.R | 6 ++++--
R/pyramid.plot.R | 51 ++++++++++++++++++++++++++++++++++++++++-----------
R/spread.labels.R | 8 +++++---
man/boxed.labels.Rd | 17 +++++++++++++----
man/cylindrect.Rd | 3 ++-
man/pyramid.plot.Rd | 31 ++++++++++++++++++++++++++++++-
man/radial.plot.Rd | 7 +++++--
man/spread.labels.Rd | 14 ++++++++------
man/stackpoly.Rd | 2 +-
12 files changed, 156 insertions(+), 61 deletions(-)
Author: Gemechis Dilba, Mario Hasler, Frank Schaarschmidt
Title: Inferences for ratios of coefficients in the general linear model
Description: With this package, it is possible to perform (simultaneous) inferences for ratios of linear combinations of coefficients in the
general linear model. In particular, tests and confidence interval estimations for ratios of
treatment means in the normal one-way layout and confidence interval estimations like in (multiple) slope ratio
and parallel line assays can be carried out. Moreover, it is possible to calculate the sample sizes required in comparisons
with a control based on relative margins. For the simple two-sample problem, functions for a t-test for ratio-formatted
hypotheses and the corresponding Fieller confidence interval are provided assuming homogeneous or heterogeneous group variances.
Diff between mratios versions 1.3.3 dated 2008-01-29 and 1.3.5 dated 2008-03-25
DESCRIPTION | 9 ++++--- R/n.ratio.R | 2 - R/ratioVH.R | 30 +++++++++++++++--------- R/sci.ratio.R | 8 +++--- R/sci.ratio.gen.R | 2 - R/sci.ratioI.R | 8 +++--- R/simtest.ratio.R | 5 +++- R/simtest.ratioI.R | 2 - man/sci.ratioVH.Rd | 36 ++++++++++++++++++++++++++--- man/simtest.ratioVH.Rd | 59 +++++++++++++++++++++++++++++++++++++++++++++++-- 10 files changed, 126 insertions(+), 35 deletions(-)
Author: Frank Schaarschmidt, Daniel Gerhard, Martin Sill
Title: Multiple comparisons using normal approximation
Description: Multiple contrast tests and simultaneous confidence
intervals based on normal approximation. With implementations for
binomial proportions in a 2xk setting (risk difference and odds ratio),
poly-3-adjusted tumour rates, and multiple comparisons of biodiversity indices.
Approximative power calculation for multiple contrast tests of binomial
proportions.
Diff between MCPAN versions 1.1-0 dated 2008-01-14 and 1.1-3 dated 2008-03-25
MCPAN-1.1-0/MCPAN/R/plot.sci.R |only MCPAN-1.1-0/MCPAN/man/MCPAN |only MCPAN-1.1-3/MCPAN/DESCRIPTION | 10 - MCPAN-1.1-3/MCPAN/R/Shannon.R |only MCPAN-1.1-3/MCPAN/R/Simpson.R |only MCPAN-1.1-3/MCPAN/R/Waldci.R | 6 MCPAN-1.1-3/MCPAN/R/binomORci.R | 159 ++++++++++++++++++++++++-- MCPAN-1.1-3/MCPAN/R/binomRDci.R | 4 MCPAN-1.1-3/MCPAN/R/binomRRci.R |only MCPAN-1.1-3/MCPAN/R/mosaicShannonSimpson.R |only MCPAN-1.1-3/MCPAN/R/plotCI.R |only MCPAN-1.1-3/MCPAN/R/print.binomRRci.R |only MCPAN-1.1-3/MCPAN/R/summary.binomORci.R | 8 + MCPAN-1.1-3/MCPAN/R/summary.binomRDci.R | 9 + MCPAN-1.1-3/MCPAN/R/summary.binomRRci.R |only MCPAN-1.1-3/MCPAN/data/HCD.rda |only MCPAN-1.1-3/MCPAN/man/HCD.Rd |only MCPAN-1.1-3/MCPAN/man/MCPAN-package.Rd | 16 +- MCPAN-1.1-3/MCPAN/man/Shannon.Rd |only MCPAN-1.1-3/MCPAN/man/Shannonci.Rd |only MCPAN-1.1-3/MCPAN/man/Simpson.Rd |only MCPAN-1.1-3/MCPAN/man/Simpsonci.Rd |only MCPAN-1.1-3/MCPAN/man/binomORci.Rd | 66 ++++++++-- MCPAN-1.1-3/MCPAN/man/binomRDci.Rd | 12 + MCPAN-1.1-3/MCPAN/man/binomRRci.Rd |only MCPAN-1.1-3/MCPAN/man/estShannon.Rd |only MCPAN-1.1-3/MCPAN/man/estShannonf.Rd |only MCPAN-1.1-3/MCPAN/man/estSimpson.Rd |only MCPAN-1.1-3/MCPAN/man/estSimpsonf.Rd |only MCPAN-1.1-3/MCPAN/man/mosaicplot.Shannonci.Rd |only MCPAN-1.1-3/MCPAN/man/plot.sci.Rd | 82 +++---------- MCPAN-1.1-3/MCPAN/man/plotCI.Rd |only MCPAN-1.1-3/MCPAN/man/plotCII.Rd |only MCPAN-1.1-3/MCPAN/man/poly3ci.Rd | 15 ++ MCPAN-1.1-3/MCPAN/man/print.Shannonci.Rd |only MCPAN-1.1-3/MCPAN/man/print.Simpsonci.Rd |only MCPAN-1.1-3/MCPAN/man/print.binomRRci.Rd |only MCPAN-1.1-3/MCPAN/man/summary.Shannonci.Rd |only MCPAN-1.1-3/MCPAN/man/summary.Simpsonci.Rd |only MCPAN-1.1-3/MCPAN/man/summary.binomRRci.Rd |only 40 files changed, 289 insertions(+), 98 deletions(-)
Author: Gregory R. Warnes and Gregor Gorjanc. Includes R source code
and/or documentation contributed by Ben Bolker and Thomas Lumley.
Title: Various R programming tools for data manipulation
Description: Various R programming tools for data manipulation
Diff between gdata versions 2.4.0 dated 2008-01-31 and 2.4.1 dated 2008-03-25
ChangeLog | 665 +++++++++++++------------ DESCRIPTION | 6 NAMESPACE | 1 NEWS | 13 inst/ChangeLog | 665 +++++++++++++------------ inst/NEWS | 13 inst/doc/mapLevels.pdf |binary inst/doc/unknown.pdf |binary inst/perl/IO/AtomicFile.pm | 10 inst/perl/IO/InnerFile.pm | 11 inst/perl/IO/Lines.pm | 12 inst/perl/IO/Scalar.pm | 17 inst/perl/IO/ScalarArray.pm | 15 inst/perl/IO/Stringy.pm | 164 +++--- inst/perl/IO/Wrap.pm | 10 inst/perl/IO/WrapTie.pm | 10 inst/perl/OLE/Storage_Lite.pm | 538 +++++++++++--------- inst/perl/Spreadsheet/ParseExcel.pm | 656 ++++++++++++------------ inst/perl/Spreadsheet/ParseExcel/Dump.pm | 15 inst/perl/Spreadsheet/ParseExcel/FmtDefault.pm | 21 inst/perl/Spreadsheet/ParseExcel/FmtJapan.pm | 21 inst/perl/Spreadsheet/ParseExcel/FmtJapan2.pm | 13 inst/perl/Spreadsheet/ParseExcel/FmtUnicode.pm | 15 inst/perl/Spreadsheet/ParseExcel/SaveParser.pm | 77 +- inst/perl/Spreadsheet/ParseExcel/Utility.pm | 33 - inst/xls/iris.xls |binary man/read.xls.Rd | 2 27 files changed, 1643 insertions(+), 1360 deletions(-)
Author: Greg Snow
Title: Demonstrations for teaching and learning
Description: This package is a set of demonstration functions that can be used in a classroom to demonstrate statistical concepts, or on your own to better understand the concepts or the programming.
Diff between TeachingDemos versions 1.6 dated 2007-11-28 and 2.0 dated 2008-03-25
DESCRIPTION | 11 +- NAMESPACE |only NEWS |only R/00vars.R |only R/R2txt.R |only R/SensSpec.demo.R |only R/TkApprox.R |only R/TkSpline.R |only R/clipplot.R | 12 +- R/clt.examp.R | 57 +++++++----- R/col2grey.R |only R/dynIdentify.R |only R/faces2.R | 2 R/fagan.R | 191 +++++++++++++++++++++++++++++++++++++++++-- R/gnuplot.R | 9 +- R/identify.Map.R | 2 R/plot.rgl.coin.R | 4 R/power.examp.R | 39 ++++---- R/run.cor.examp.R | 83 ++++++++++++++++++ R/run.cor2.examp.R | 109 +++++++++++++++++++++++- R/run.old.cor.examp.R |only R/run.old.cor2.examp.R |only R/run.power.examp.R | 110 ++++++++++++++++++++++++ R/slider.R | 132 ++++++++++++++++++----------- R/tkBrush.R | 24 ++--- R/tkexamp.R |only R/tkprogress.R |only R/vis.boxcox.R | 79 +++++++++++++++++ R/vis.boxcoxu.R | 87 +++++++++++++++++++ data/gps.rda |only man/R2txt.Rd |only man/SensSpec.demo.Rd |only man/TeachingDemos-package.Rd |only man/TkApprox.Rd |only man/TkSpline.Rd |only man/bct.Rd | 13 -- man/ccc.Rd |only man/char2seed.Rd | 2 man/chisq.detail.Rd | 2 man/ci.examp.Rd | 9 +- man/clipplot.Rd | 16 ++- man/clt.examp.Rd | 24 ++++- man/cnvrt.coords.Rd | 19 ++-- man/col2grey.Rd |only man/dice.Rd | 2 man/dots.Rd | 2 man/dynIdentify.Rd |only man/faces.Rd | 153 ---------------------------------- man/faces2.Rd | 2 man/fagan.Rd | 23 +++-- man/gp.open.Rd | 2 man/hpd.Rd | 2 man/identify.Map.Rd | 2 man/lattice.demo.Rd | 6 - man/limits.g.Rd | 2 man/loess.demo.Rd | 4 man/mle.demo.Rd | 6 - man/ms.polygram.Rd | 2 man/mysymbols.Rd | 2 man/plot.rgl.coin.Rd | 4 man/plot2script.Rd | 4 man/power.examp.Rd | 14 ++- man/project.Map.Rd | 6 - man/put.points.demo.Rd | 4 man/recenter.Map.Rd | 4 man/rgl.Map.Rd | 4 man/roc.demo.Rd | 4 man/rotate.cloud.Rd | 8 - man/run.cor.examp.Rd | 42 ++++++--- man/run.hist.demo.Rd | 4 man/slider.Rd | 37 ++++---- man/sliderv.Rd | 12 +- man/squishplot.Rd | 2 man/strip.shingle.Rd | 4 man/subplot.Rd | 2 man/tkBrush.Rd | 4 man/tkexamp.Rd |only man/tkprogress.Rd |only man/tree.demo.Rd | 4 man/triplot.Rd | 4 man/vis.binom.Rd | 4 man/vis.boxcox.Rd | 30 +++++- man/z.test.Rd | 2 man/zoomplot.Rd | 4 84 files changed, 1029 insertions(+), 424 deletions(-)
Author: Kosuke Imai
Diff between MNP versions 2.5-5 dated 2007-08-02 and 2.5-6 dated 2008-03-25
Title: R Package for Fitting the Multinomial Probit Model
Description: MNP is a publicly available R package that fits the Bayesian
multinomial probit model via Markov chain Monte Carlo. The
multinomial probit model is often used to analyze the discrete
choices made by individuals recorded in survey data. Examples where
the multinomial probit model may be useful include the analysis of
product choice by consumers in market research and the analysis of
candidate or party choice by voters in electoral studies. The MNP
software can also fit the model with different choice sets for each
individual, and complete or partial individual choice orderings of
the available alternatives from the choice set. The estimation
is based on the efficient marginal data augmentation algorithm that
is developed by Imai and van Dyk (2005). ``A Bayesian Analysis of
the Multinomial Probit Model Using the Data Augmentation,'' Journal
of Econometrics, Vol. 124, No. 2 (February), pp. 311-334. Detailed
examples are given in Imai and van Dyk (2005). ``MNP: R Package for
Fitting the Multinomial Probit Model.'' Journal of Statistical Software,
Vol. 14, No. 3 (May), pp. 1-32.
DESCRIPTION | 8 ++++----
R/ymatrix.mnp.R | 11 +++++------
man/mnp.Rd | 2 +-
src/MNP.c | 6 ++++--
4 files changed, 14 insertions(+), 13 deletions(-)
Author: Jonathan M. Lees
Title: Topographic and Geologic Mapping
Description: Set of routines for making Map Projections (forward and inverse), Topographic Maps, Perspective plots, Geological Maps, geological map symbols, geological databases, interactive plotting and selection of focus regions.
Diff between GEOmap versions 1.0-4 dated 2008-02-28 and 1.0-5 dated 2008-03-25
GEOmap-1.0-4/GEOmap/inst/doc/GEOmap.dvi |only GEOmap-1.0-5/GEOmap/DESCRIPTION | 8 GEOmap-1.0-5/GEOmap/R/DOTOPOMAPI.R | 10 GEOmap-1.0-5/GEOmap/R/HOZscale.R |only GEOmap-1.0-5/GEOmap/R/addLLXY.R | 16 GEOmap-1.0-5/GEOmap/R/insertNA.R |only GEOmap-1.0-5/GEOmap/R/pgon.R |only GEOmap-1.0-5/GEOmap/R/plotGEOmapXY.R | 66 GEOmap-1.0-5/GEOmap/R/sizelegend.R |only GEOmap-1.0-5/GEOmap/R/utm.sphr.xy.R | 7 GEOmap-1.0-5/GEOmap/R/ymarginfo.R |only GEOmap-1.0-5/GEOmap/inst/doc/GEOmap.Rnw | 383 GEOmap-1.0-5/GEOmap/inst/doc/GEOmap.aux | 10 GEOmap-1.0-5/GEOmap/inst/doc/GEOmap.log | 77 GEOmap-1.0-5/GEOmap/inst/doc/GEOmap.pdf |binary GEOmap-1.0-5/GEOmap/inst/doc/GEOmap.tex | 407 GEOmap-1.0-5/GEOmap/inst/doc/Plates.gmt |only GEOmap-1.0-5/GEOmap/inst/doc/Rplots.ps |361710 +++++++++++++++++++++++- GEOmap-1.0-5/GEOmap/inst/doc/Volc_points.LLZ |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-003.pdf | 6 GEOmap-1.0-5/GEOmap/inst/doc/gmap-004.eps | 4 GEOmap-1.0-5/GEOmap/inst/doc/gmap-004.pdf | 24 GEOmap-1.0-5/GEOmap/inst/doc/gmap-005.pdf | 6 GEOmap-1.0-5/GEOmap/inst/doc/gmap-006.pdf | 4 GEOmap-1.0-5/GEOmap/inst/doc/gmap-007.eps | 1591 GEOmap-1.0-5/GEOmap/inst/doc/gmap-007.pdf | 1626 GEOmap-1.0-5/GEOmap/inst/doc/gmap-008.pdf | 4 GEOmap-1.0-5/GEOmap/inst/doc/gmap-011.eps |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-011.pdf |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-012.eps |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-012.pdf |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-013.eps |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-013.pdf |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-014.eps |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-014.pdf |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-017.eps |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-017.pdf |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-018.eps |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-018.pdf |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-019.eps |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-019.pdf |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-020.eps |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-020.pdf |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-022.eps |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-022.pdf |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-023.eps |only GEOmap-1.0-5/GEOmap/inst/doc/gmap-023.pdf |only GEOmap-1.0-5/GEOmap/inst/doc/japan.eng |only GEOmap-1.0-5/GEOmap/inst/doc/newFUJIstation.LLZ |only GEOmap-1.0-5/GEOmap/man/GEOmap-package.Rd | 2 GEOmap-1.0-5/GEOmap/man/HOZscale.Rd |only GEOmap-1.0-5/GEOmap/man/addLLXY.Rd | 3 GEOmap-1.0-5/GEOmap/man/insertNA.Rd |only GEOmap-1.0-5/GEOmap/man/pgon.Rd |only GEOmap-1.0-5/GEOmap/man/plotGEOmapXY.Rd | 5 GEOmap-1.0-5/GEOmap/man/sizelegend.Rd |only GEOmap-1.0-5/GEOmap/man/ymarginfo.Rd |only 57 files changed, 363543 insertions(+), 2426 deletions(-)
Author: Robert B. Gramacy
Diff between tgp versions 2.0-4 dated 2008-01-25 and 2.1 dated 2008-03-24
Title: Bayesian treed Gaussian process models
Description: Bayesian nonstationary, semiparametric nonlinear regression
and design by treed Gaussian processes with jumps to the limiting
linear model (LLM). Special cases also implemented include Bayesian
linear models, CART, treed linear models, stationary separable and
isotropic Gaussian processes. Provides 1-d and 2-d plotting functions
(with projection and slice capabilities) and tree drawing, designed for
visualization of tgp-class output. Sensitivity analysis and
multi-resolution models are supported, and a limited set of experimental
design and adaptive sampling functions are also provided, including ALM,
ALC, and expected improvement.
tgp-2.0-4/tgp/CHANGES |only
tgp-2.0-4/tgp/data/._exp2d.rda |only
tgp-2.0-4/tgp/inst/doc/._Makefile |only
tgp-2.0-4/tgp/inst/doc/._as.Rnw |only
tgp-2.0-4/tgp/inst/doc/._as.pdf |only
tgp-2.0-4/tgp/inst/doc/._exp.Rnw |only
tgp-2.0-4/tgp/inst/doc/._exp.pdf |only
tgp-2.0-4/tgp/inst/doc/._fried.Rnw |only
tgp-2.0-4/tgp/inst/doc/._fried.pdf |only
tgp-2.0-4/tgp/inst/doc/._linear.Rnw |only
tgp-2.0-4/tgp/inst/doc/._linear.pdf |only
tgp-2.0-4/tgp/inst/doc/._motivate.tex |only
tgp-2.0-4/tgp/inst/doc/._moto.Rnw |only
tgp-2.0-4/tgp/inst/doc/._moto.pdf |only
tgp-2.0-4/tgp/inst/doc/._motovate_bgp.eps |only
tgp-2.0-4/tgp/inst/doc/._motovate_btgp.eps |only
tgp-2.0-4/tgp/inst/doc/._pred.Rnw |only
tgp-2.0-4/tgp/inst/doc/._pred.pdf |only
tgp-2.0-4/tgp/inst/doc/._sin.Rnw |only
tgp-2.0-4/tgp/inst/doc/._sin.pdf |only
tgp-2.0-4/tgp/inst/doc/._sweave.R |only
tgp-2.0-4/tgp/inst/doc/._tgp.Rnw |only
tgp-2.0-4/tgp/inst/doc/._tgp.bib |only
tgp-2.0-4/tgp/inst/doc/._tgp.pdf |only
tgp-2.0-4/tgp/inst/doc/._traces.Rnw |only
tgp-2.0-4/tgp/inst/doc/._traces.pdf |only
tgp-2.0-4/tgp/inst/doc/._tree.pstex |only
tgp-2.0-4/tgp/inst/doc/._tree.pstex_t |only
tgp-2.0-4/tgp/inst/doc/._tree_pic.pstex |only
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tgp-2.0-4/tgp/inst/doc/linear.Rnw |only
tgp-2.0-4/tgp/inst/doc/linear.pdf |only
tgp-2.0-4/tgp/inst/doc/moto.Rnw |only
tgp-2.0-4/tgp/inst/doc/moto.pdf |only
tgp-2.0-4/tgp/inst/doc/pred.Rnw |only
tgp-2.0-4/tgp/inst/doc/pred.pdf |only
tgp-2.0-4/tgp/inst/doc/sin.Rnw |only
tgp-2.0-4/tgp/inst/doc/sin.pdf |only
tgp-2.0-4/tgp/inst/doc/sweave.R |only
tgp-2.0-4/tgp/inst/doc/traces.Rnw |only
tgp-2.0-4/tgp/inst/doc/traces.pdf |only
tgp-2.1/tgp/._DESCRIPTION |binary
tgp-2.1/tgp/._LICENSE |binary
tgp-2.1/tgp/._R |binary
tgp-2.1/tgp/._README |binary
tgp-2.1/tgp/._data |binary
tgp-2.1/tgp/._demo |binary
tgp-2.1/tgp/._inst |binary
tgp-2.1/tgp/._man |binary
tgp-2.1/tgp/._src |binary
tgp-2.1/tgp/ChangeLog |only
tgp-2.1/tgp/DESCRIPTION | 4 -
tgp-2.1/tgp/INDEX | 24 +++----
tgp-2.1/tgp/R/btgp.R | 12 +--
tgp-2.1/tgp/R/default.itemps.R | 97 ++++++++++++++++++++++++-----
tgp-2.1/tgp/R/friedman.1.data.R | 54 +++++++++++++++-
tgp-2.1/tgp/R/predict.tgp.R | 1
tgp-2.1/tgp/R/tgp.R | 25 +++++--
tgp-2.1/tgp/R/tgp.default.params.R | 82 ++++++++++++++++--------
tgp-2.1/tgp/R/tgp.plot.slice.R | 2
tgp-2.1/tgp/R/tgp.postprocess.R | 10 ++
tgp-2.1/tgp/R/tgp.read.traces.R | 24 +++----
tgp-2.1/tgp/R/tgp.trees.R | 3
tgp-2.1/tgp/demo/00Index | 2
tgp-2.1/tgp/demo/cat.R |only
tgp-2.1/tgp/demo/it.R |only
tgp-2.1/tgp/inst/._doc |binary
tgp-2.1/tgp/inst/doc/Makefile | 54 ----------------
tgp-2.1/tgp/inst/doc/as.iRnw |only
tgp-2.1/tgp/inst/doc/cat.iRnw |only
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tgp-2.1/tgp/inst/doc/sin.iRnw |only
tgp-2.1/tgp/inst/doc/tgp.Rnw | 16 ++--
tgp-2.1/tgp/inst/doc/tgp2.Rnw |only
tgp-2.1/tgp/inst/doc/tgp2.pdf |only
tgp-2.1/tgp/inst/doc/traces.iRnw |only
tgp-2.1/tgp/man/default.itemps.Rd | 24 +++----
tgp-2.1/tgp/man/friedman.1.data.Rd | 70 +++++++++++++++++---
tgp-2.1/tgp/man/itemps.Rd |only
tgp-2.1/tgp/man/tgp-internal.Rd | 1
tgp-2.1/tgp/man/tgp.default.params.Rd | 16 +++-
tgp-2.1/tgp/man/tgp.trees.Rd | 4 -
tgp-2.1/tgp/src/base.cc | 3
tgp-2.1/tgp/src/base.h | 1
tgp-2.1/tgp/src/gp.cc | 27 +++++---
tgp-2.1/tgp/src/gp.h | 2
tgp-2.1/tgp/src/matrix.c | 32 +++++++--
tgp-2.1/tgp/src/matrix.h | 25 ++++---
tgp-2.1/tgp/src/model.cc | 38 ++++++++---
tgp-2.1/tgp/src/model.h | 5 -
tgp-2.1/tgp/src/mr_exp_sep.cc | 52 ++++++++-------
tgp-2.1/tgp/src/params.cc | 64 +++++++++++++------
tgp-2.1/tgp/src/params.h | 21 +++---
tgp-2.1/tgp/src/rhelp.c | 2
tgp-2.1/tgp/src/rhelp.h | 2
tgp-2.1/tgp/src/temper.cc | 29 +++++---
tgp-2.1/tgp/src/tgp.cc | 20 +++++
tgp-2.1/tgp/src/tgp.h | 13 ++-
tgp-2.1/tgp/src/tree.cc | 96 +++++++++++++++++++---------
113 files changed, 642 insertions(+), 315 deletions(-)
Author: Graham Williams
Diff between rattle versions 2.2.64 dated 2007-09-30 and 2.3.1 dated 2008-03-24
Title: A graphical user interface for data mining in R using GTK
Description: Rattle provides a Gnome (RGtk2) based interface to
R functionality for data mining. The aim is to provide
a simple and intuitive interface that allows a user to quickly
load data from a CSV file (or via ODBC), transform and explore the data,
and build and evaluate models, and export models as PMML (predictive
modelling markup language). All of this with knowing little about R.
All R commands are logged and available for the user, as a tool to
then begin interacting directly with R itself, if so desired. Rattle also
exports a number of utility functions and the graphical user interface does
not need to be run to deploy these.
DESCRIPTION | 10
NAMESPACE | 1
R/ada.R | 4
R/cluster.R | 71 +
R/export.R | 11
R/log.R | 4
R/model.R | 181 ++
R/rattle.R | 2683 ++++++++++++++++++++++++++++++++++---------
R/rpart.R | 466 ++++---
R/textview.R | 87 -
data/audit.RData |binary
inst/etc/rattle.glade | 1231 ++++++++++++++++---
man/calcInitialDigitDistr.Rd | 5
man/drawTreeNodes.Rd | 2
man/internal.Rd | 13
man/modalvalue.Rd |only
man/treeset.randomForest.Rd | 6
17 files changed, 3786 insertions(+), 989 deletions(-)
Author: William Revelle
Diff between psych versions 1.0-33 dated 2007-10-11 and 1.0-42 dated 2008-03-24
Title: Procedures for Personality and Psychological Research
Description: A number of routines for personality, psychometrics and experimental
psychology. Functions are primarily for scale construction, cluster analysis and
reliability analysis, although others provide basic descriptive
statistics. For more information, see the personality-project.org/r.
psych-1.0-33/psych/R/psycho.demo.R |only
psych-1.0-33/psych/man/psycho.demo.Rd |only
psych-1.0-42/psych/DESCRIPTION | 10
psych-1.0-42/psych/NAMESPACE | 39
psych-1.0-42/psych/R/Yule.R |only
psych-1.0-42/psych/R/anova.sim.R |only
psych-1.0-42/psych/R/circ.sim.plot.R |only
psych-1.0-42/psych/R/describe.R | 18
psych-1.0-42/psych/R/describe.by.R | 12
psych-1.0-42/psych/R/eigen.loadings.R | 15
psych-1.0-42/psych/R/ellipses.R |only
psych-1.0-42/psych/R/error.bars.R | 11
psych-1.0-42/psych/R/error.bars.by.R |only
psych-1.0-42/psych/R/fa.parallel.R | 7
psych-1.0-42/psych/R/factor.pa.R | 38
psych-1.0-42/psych/R/factor.residuals.R | 5
psych-1.0-42/psych/R/factor.rotate.R | 4
psych-1.0-42/psych/R/fisherz.R | 6
psych-1.0-42/psych/R/headtail.R |only
psych-1.0-42/psych/R/interp.median.R |only
psych-1.0-42/psych/R/multi.hist.R | 30
psych-1.0-42/psych/R/omega.R | 2
psych-1.0-42/psych/R/paired.r.R | 23
psych-1.0-42/psych/R/pairs.panels.R | 211
psych-1.0-42/psych/R/panel.hist.R | 18
psych-1.0-42/psych/R/phi.demo.R |only
psych-1.0-42/psych/R/polychor.matrix.R | 82
psych-1.0-42/psych/R/polycor.matrix.R | 47
psych-1.0-42/psych/R/principal.R | 19
psych-1.0-42/psych/R/r.con.R |only
psych-1.0-42/psych/R/r.test.R |only
psych-1.0-42/psych/R/rescale.R |only
psych-1.0-42/psych/R/schmid.R | 15
psych-1.0-42/psych/R/score.items.R | 5
psych-1.0-42/psych/R/table2matrix.R |only
psych-1.0-42/psych/R/test.psych.r | 2
psych-1.0-42/psych/R/winsor.R |only
psych-1.0-42/psych/data/cubits.rda |only
psych-1.0-42/psych/data/galton.rda |only
psych-1.0-42/psych/data/heights.rda |only
psych-1.0-42/psych/data/peas.rda |only
psych-1.0-42/psych/inst/NEWS |only
psych-1.0-42/psych/inst/doc/index.html | 13
psych-1.0-42/psych/inst/doc/psych-manual.pdf |29140 ++++++++++++++-------------
psych-1.0-42/psych/man/00.psych-package.Rd | 83
psych-1.0-42/psych/man/Yule.Rd |only
psych-1.0-42/psych/man/alpha.scale.Rd | 2
psych-1.0-42/psych/man/circ.simulation.Rd | 7
psych-1.0-42/psych/man/circ.tests.Rd | 2
psych-1.0-42/psych/man/cubits.Rd |only
psych-1.0-42/psych/man/describe.Rd | 13
psych-1.0-42/psych/man/describe.by.Rd | 3
psych-1.0-42/psych/man/eigen.loadings.Rd | 11
psych-1.0-42/psych/man/ellipses.Rd |only
psych-1.0-42/psych/man/error.bars.Rd | 15
psych-1.0-42/psych/man/error.bars.by.Rd |only
psych-1.0-42/psych/man/fa.parallel.Rd | 11
psych-1.0-42/psych/man/factor.pa.Rd | 10
psych-1.0-42/psych/man/factor.residuals.Rd | 10
psych-1.0-42/psych/man/factor.rotate.Rd | 14
psych-1.0-42/psych/man/fisherz.Rd | 36
psych-1.0-42/psych/man/galton.Rd |only
psych-1.0-42/psych/man/headtail.Rd |only
psych-1.0-42/psych/man/heights.Rd |only
psych-1.0-42/psych/man/interp.median.Rd |only
psych-1.0-42/psych/man/item.sim.Rd | 4
psych-1.0-42/psych/man/multi.hist.Rd | 18
psych-1.0-42/psych/man/omega.Rd | 4
psych-1.0-42/psych/man/p.rep.Rd | 1
psych-1.0-42/psych/man/paired.r.Rd | 29
psych-1.0-42/psych/man/pairs.panels.Rd | 25
psych-1.0-42/psych/man/peas.Rd |only
psych-1.0-42/psych/man/phi.Rd | 13
psych-1.0-42/psych/man/phi.demo.Rd |only
psych-1.0-42/psych/man/phi2poly.Rd | 12
psych-1.0-42/psych/man/polar.Rd | 4
psych-1.0-42/psych/man/poly.mat.Rd | 4
psych-1.0-42/psych/man/polychor.matrix.Rd | 37
psych-1.0-42/psych/man/principal.Rd | 9
psych-1.0-42/psych/man/r.test.Rd |only
psych-1.0-42/psych/man/rescale.Rd |only
psych-1.0-42/psych/man/schmid.Rd | 2
psych-1.0-42/psych/man/score.items.Rd | 4
psych-1.0-42/psych/man/table2matrix.Rd |only
psych-1.0-42/psych/man/winsor.Rd |only
85 files changed, 16911 insertions(+), 13244 deletions(-)
Author: Patrick Giraudoux
Diff between pgirmess versions 1.3.5 dated 2007-12-31 and 1.3.6 dated 2008-03-24
Title: Data analysis in ecology
Description: Miscellaneous functions for analysis and display of ecological and spatial data
DESCRIPTION | 8 ++++----
R/correlog.R | 7 ++++---
man/Segments.rd | 3 +--
man/correlog.Rd | 9 +++++----
man/diag2edge.Rd | 2 +-
man/distTot.rd | 2 +-
man/piankabio.Rd | 2 +-
man/piankabioboot.Rd | 2 +-
man/polycirc2.Rd | 2 +-
9 files changed, 19 insertions(+), 18 deletions(-)
Author: Virasakdi Chongsuvivatwong
Diff between epicalc versions 2.6.2.6 dated 2008-03-12 and 2.6.2.7 dated 2008-03-24
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.
DESCRIPTION | 6 -
R/epicalc.R | 185 +++++++++++++++++++++++++++++++-----------------------
man/print.des.rd |only
man/print.summ.rd |only
man/tab1.rd | 3
5 files changed, 112 insertions(+), 82 deletions(-)
Author: Stephen Milborrow
derived from mda:mars by Trevor Hastie and Rob Tibshirani.
Title: Multivariate Adaptive Regression Spline Models
Description: Build regression models using the techniques in Friedman's
papers "Fast MARS" and "Multivariate Adaptive Regression Splines".
(The term "MARS" is copyrighted and thus not used in the name of the package.)
Diff between earth versions 1.2-2 dated 2008-01-13 and 1.3-1 dated 2008-03-24
earth-1.2-2/earth/man/get.nterms.per.degree.Rd |only earth-1.2-2/earth/man/get.nused.preds.per.subset.Rd |only earth-1.2-2/earth/man/reorder.earth.Rd |only earth-1.3-1/earth/DESCRIPTION | 4 earth-1.3-1/earth/NAMESPACE | 3 earth-1.3-1/earth/NEWS | 121 + earth-1.3-1/earth/R/earth.R | 195 +- earth-1.3-1/earth/R/earthlib.R | 9 earth-1.3-1/earth/R/mars.to.earth.R | 12 earth-1.3-1/earth/R/plot.earth.R | 15 earth-1.3-1/earth/R/plotmo.R | 19 earth-1.3-1/earth/man/earth.Rd | 264 +- earth-1.3-1/earth/man/format.earth.Rd | 17 earth-1.3-1/earth/man/mars.to.earth.Rd | 11 earth-1.3-1/earth/man/model.matrix.earth.Rd | 65 earth-1.3-1/earth/man/plot.earth.models.Rd | 6 earth-1.3-1/earth/man/plotmo.Rd | 8 earth-1.3-1/earth/man/predict.earth.Rd | 2 earth-1.3-1/earth/man/summary.earth.Rd | 14 earth-1.3-1/earth/man/update.earth.Rd | 39 earth-1.3-1/earth/src/earth.c | 231 +- earth-1.3-1/earth/src/tests/README | 4 earth-1.3-1/earth/src/tests/earth-timing-tests.txt | 2 earth-1.3-1/earth/src/tests/earth.times.R |only earth-1.3-1/earth/src/tests/earth.times.Rout |only earth-1.3-1/earth/src/tests/earth.times.bat |only earth-1.3-1/earth/src/tests/test.all.bat | 1 earth-1.3-1/earth/src/tests/test.earth.big.R |only earth-1.3-1/earth/src/tests/test.earth.big.Rout.save |only earth-1.3-1/earth/src/tests/test.earth.big.bat |only earth-1.3-1/earth/src/tests/test.earth.full.R | 51 earth-1.3-1/earth/src/tests/test.earth.full.Rout.save | 1607 +++++++++--------- earth-1.3-1/earth/src/tests/test.earth.full.bat | 2 earth-1.3-1/earth/src/tests/test.earthc.bat | 10 earth-1.3-1/earth/src/tests/test.earthc.mak | 2 earth-1.3-1/earth/src/tests/test.earthc.out.save | 16 earth-1.3-1/earth/src/tests/test.earthmain.bat | 12 earth-1.3-1/earth/src/tests/test.earthmain.gcc.bat | 15 earth-1.3-1/earth/src/tests/test.earthmain.out.save | 36 earth-1.3-1/earth/src/tests/test.plotmo.R | 53 earth-1.3-1/earth/src/tests/test.plotmo.Rout.save | 150 - earth-1.3-1/earth/src/tests/test.plotmo.bat | 2 earth-1.3-1/earth/tests/test.earth.R | 9 earth-1.3-1/earth/tests/test.earth.Rout.save | 146 - 44 files changed, 1750 insertions(+), 1403 deletions(-)
Author: Vinzenz Erhardt
Title: Zero Inflated Generalized Poisson (ZIGP) regression models
Description: Adapt and analyze GP, ZIP and ZIGP regression models
Diff between ZIGP versions 2.0 dated 2007-12-20 and 2.1 dated 2008-03-24
DESCRIPTION | 8 R/FM.R | 406 ++++++++------------------ R/loglikelihood.zigp.R | 181 ++++------- R/loglikelihood.zigp.full.R | 102 ++---- R/mle.zigp.R | 379 ++++++++++--------------- R/mle.zigp.full.like.R | 215 ++++---------- R/optimized.run.R | 93 ++---- R/wald.test.R | 666 ++++++++++++++++++++------------------------ man/ZIGP-package.Rd | 6 9 files changed, 809 insertions(+), 1247 deletions(-)
Author: Douglas Bates
Diff between Matrix versions 0.999375-6 dated 2008-03-21 and 0.999375-7 dated 2008-03-24
Title: A Matrix package for R
Description: Classes and methods for dense and sparse matrices and
operations on them using Lapack, CSparse and CHOLMOD
Matrix-0.999375-6/Matrix/man/dCholCMatrix-class.Rd |only
Matrix-0.999375-7/Matrix/ChangeLog | 50
Matrix-0.999375-7/Matrix/DESCRIPTION | 6
Matrix-0.999375-7/Matrix/Done | 14
Matrix-0.999375-7/Matrix/NAMESPACE | 10
Matrix-0.999375-7/Matrix/R/AllGeneric.R | 12
Matrix-0.999375-7/Matrix/R/Auxiliaries.R | 4
Matrix-0.999375-7/Matrix/R/CHMfactor.R | 38
Matrix-0.999375-7/Matrix/R/Csparse.R | 1
Matrix-0.999375-7/Matrix/R/Matrix.R | 4
Matrix-0.999375-7/Matrix/R/Tsparse.R | 3
Matrix-0.999375-7/Matrix/R/ddenseMatrix.R | 2
Matrix-0.999375-7/Matrix/R/denseMatrix.R | 13
Matrix-0.999375-7/Matrix/R/dgCMatrix.R | 2
Matrix-0.999375-7/Matrix/R/dgeMatrix.R | 2
Matrix-0.999375-7/Matrix/R/diagMatrix.R | 189 +
Matrix-0.999375-7/Matrix/R/dsCMatrix.R | 54
Matrix-0.999375-7/Matrix/R/dsparseMatrix.R | 12
Matrix-0.999375-7/Matrix/R/lsCMatrix.R | 10
Matrix-0.999375-7/Matrix/R/nsCMatrix.R | 10
Matrix-0.999375-7/Matrix/R/sparseMatrix.R | 12
Matrix-0.999375-7/Matrix/TODO | 29
Matrix-0.999375-7/Matrix/data/USCounties.R |only
Matrix-0.999375-7/Matrix/inst/doc/Announce.txt |only
Matrix-0.999375-7/Matrix/inst/doc/Comparisons.pdf |binary
Matrix-0.999375-7/Matrix/inst/doc/Design-issues.pdf |binary
Matrix-0.999375-7/Matrix/inst/doc/Intro2Matrix.pdf | 1137 ++++------
Matrix-0.999375-7/Matrix/inst/doc/Introduction.pdf |binary
Matrix-0.999375-7/Matrix/inst/doc/UFsparse/CHOLMOD.txt | 15
Matrix-0.999375-7/Matrix/inst/doc/UFsparse/UFconfig.txt | 10
Matrix-0.999375-7/Matrix/inst/external/USCounties_slots.rda |only
Matrix-0.999375-7/Matrix/inst/include/Matrix.h | 2
Matrix-0.999375-7/Matrix/inst/include/Matrix_stubs.c | 20
Matrix-0.999375-7/Matrix/inst/test-tools.R | 31
Matrix-0.999375-7/Matrix/man/CHMfactor-class.Rd | 49
Matrix-0.999375-7/Matrix/man/Cholesky.Rd | 27
Matrix-0.999375-7/Matrix/man/Diagonal.Rd | 19
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Matrix-0.999375-7/Matrix/man/chol.Rd | 38
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Matrix-0.999375-7/Matrix/ourUsers.txt |only
Matrix-0.999375-7/Matrix/src/CHMfactor.c | 97
Matrix-0.999375-7/Matrix/src/CHMfactor.h | 5
Matrix-0.999375-7/Matrix/src/CHOLMOD/Check/cholmod_write.c | 19
Matrix-0.999375-7/Matrix/src/CHOLMOD/Cholesky/cholmod_resymbol.c | 9
Matrix-0.999375-7/Matrix/src/CHOLMOD/Cholesky/cholmod_rowcolcounts.c | 4
Matrix-0.999375-7/Matrix/src/CHOLMOD/Cholesky/cholmod_rowfac.c | 4
Matrix-0.999375-7/Matrix/src/CHOLMOD/Cholesky/cholmod_spsolve.c | 56
Matrix-0.999375-7/Matrix/src/CHOLMOD/Cholesky/t_cholmod_rowfac.c | 4
Matrix-0.999375-7/Matrix/src/CHOLMOD/Core/cholmod_aat.c | 4
Matrix-0.999375-7/Matrix/src/CHOLMOD/Core/cholmod_add.c | 8
Matrix-0.999375-7/Matrix/src/CHOLMOD/Core/cholmod_common.c | 2
Matrix-0.999375-7/Matrix/src/CHOLMOD/Core/cholmod_factor.c | 2
Matrix-0.999375-7/Matrix/src/CHOLMOD/Core/cholmod_memory.c | 2
Matrix-0.999375-7/Matrix/src/CHOLMOD/Include/cholmod_blas.h | 2
Matrix-0.999375-7/Matrix/src/CHOLMOD/Include/cholmod_core.h | 15
Matrix-0.999375-7/Matrix/src/CHOLMOD/Include/cholmod_internal.h | 17
Matrix-0.999375-7/Matrix/src/CHOLMOD/Lib/Makefile | 6
Matrix-0.999375-7/Matrix/src/CHOLMOD/MatrixOps/cholmod_ssmult.c | 19
Matrix-0.999375-7/Matrix/src/CHOLMOD/MatrixOps/cholmod_submatrix.c | 3
Matrix-0.999375-7/Matrix/src/CHOLMOD/MatrixOps/cholmod_symmetry.c | 7
Matrix-0.999375-7/Matrix/src/CHOLMOD/Modify/cholmod_rowadd.c | 3
Matrix-0.999375-7/Matrix/src/CHOLMOD/Modify/cholmod_updown.c | 4
Matrix-0.999375-7/Matrix/src/CHOLMOD/Partition/cholmod_nesdis.c | 84
Matrix-0.999375-7/Matrix/src/CHOLMOD/Supernodal/cholmod_super_numeric.c | 3
Matrix-0.999375-7/Matrix/src/CHOLMOD/Supernodal/cholmod_super_symbolic.c | 10
Matrix-0.999375-7/Matrix/src/COLAMD/Include/colamd.h | 9
Matrix-0.999375-7/Matrix/src/COLAMD/Source/colamd.c | 4
Matrix-0.999375-7/Matrix/src/COLAMD/Source/colamd_global.c | 2
Matrix-0.999375-7/Matrix/src/Csparse.c | 107
Matrix-0.999375-7/Matrix/src/Csparse.h | 4
Matrix-0.999375-7/Matrix/src/UFconfig/UFconfig.h | 32
Matrix-0.999375-7/Matrix/src/UFsparse_download.sh | 19
Matrix-0.999375-7/Matrix/src/chm_common.c | 6
Matrix-0.999375-7/Matrix/src/dsCMatrix.c | 215 +
Matrix-0.999375-7/Matrix/src/dsCMatrix.h | 5
Matrix-0.999375-7/Matrix/src/init.c | 9
Matrix-0.999375-7/Matrix/tests/factorizing.R | 86
Matrix-0.999375-7/Matrix/tests/indexing.Rout.save | 14
Matrix-0.999375-7/Matrix/tests/simple.R | 11
81 files changed, 1733 insertions(+), 1039 deletions(-)
Author: Simon Urbanek
Diff between JavaGD versions 0.4-3 dated 2007-08-25 and 0.5-0 dated 2008-03-24
Title: Java Graphics Device
Description: Graphics device routing all graphics commands to a Java
program. The actual functionality of the JavaGD depends
on the Java-side implementation. Simple AWT and Swing
implementations are included.
DESCRIPTION | 6
NEWS | 5
configure | 416 ++++++++++-----------------------------------------
configure.ac | 132 ++++++----------
getsp.class |binary
inst/java/javaGD.jar |binary
man/JavaGD.Rd | 2
src/config.h.in | 3
src/jGDtalk.c | 30 ++-
src/javaGD.c | 33 ++--
src/javaGD.h | 16 +
src/s2u.c | 90 +++++------
12 files changed, 245 insertions(+), 488 deletions(-)
Author: Markus Helbig
Diff between JGR versions 1.5-9 dated 2008-03-21 and 1.5-10 dated 2008-03-24
Title: JGR - Java Gui for R
Description: Java GUI for R - cross-platform, universal and unified Graphical User Interface for R. For full functionality on Windows and Mac OS X JGR requires a start application which depends on your OS. This can be downloaded from JGR's website: http://www.rosuda.org/JGR
DESCRIPTION | 2 +-
NEWS | 3 +++
R/JGR.R | 4 ++--
inst/java/JGR.jar |binary
4 files changed, 6 insertions(+), 3 deletions(-)
Author: Simon Urbanek
Diff between GDD versions 0.1-8 dated 2005-12-05 and 0.1-11 dated 2008-03-24
Title: GD device for creating bitmap graphics as jpeg, png or gif files using gd library
Description: Platform and X11 independent device for creating bitmaps (png, gif and jpeg).
GDD-0.1-11/GDD/DESCRIPTION | 4
GDD-0.1-11/GDD/NEWS |only
GDD-0.1-11/GDD/README | 2
GDD-0.1-11/GDD/configure | 5224 +++++++++++++++--------------
GDD-0.1-11/GDD/configure.ac | 73
GDD-0.1-11/GDD/inst/fonts/basefont.mapping | 5
GDD-0.1-11/GDD/man/GDD.Rd | 41
GDD-0.1-11/GDD/man/GDDfont.Rd | 2
GDD-0.1-11/GDD/src/GDD.c | 25
GDD-0.1-11/GDD/src/GDD.h | 18
GDD-0.1-11/GDD/src/GDDtalk.c | 50
GDD-0.1-11/GDD/src/s2u.c |only
GDD-0.1-8/GDD/.#DESCRIPTION.1.4 |only
13 files changed, 3015 insertions(+), 2429 deletions(-)
Author: Simon Urbanek
Diff between Cairo versions 1.3-5 dated 2007-09-01 and 1.4-1 dated 2008-03-24
Title: R graphics device using cairo graphics library for creating high-quality bitmap (PNG, JPEG, TIFF), vector (PDF, SVG, PostScript) and display (X11 and Win32) output.
Description: This package provides a Cairo graphics device that can be use to create high-quality vector (PDF, PostScript and SVG) and bitmap output (PNG,JPEG,TIFF), and high-quality rendering in displays (X11 and Win32). Since it uses the same back-end for all output, copying across formats is WYSIWYG. Files are created without the dependence on X11 or other external programs. This device supports alpha channel (semi-transparent drawing) and resulting images can contain transparent and semi-transparent regions. It is ideal for use in server environemnts (file output) and as a replacement for other devices that don't have Cairo's capabilities such as alpha support or anti-aliasing. Backends are modular such that any subset of backends is supported.
DESCRIPTION | 4 +-
NEWS | 12 +++++++
R/Cairo.R | 8 ++--
man/Cairo.Rd | 4 +-
src/cairogd.c | 37 +++++++---------------
src/cairogd.h | 16 +++++++++
src/cairotalk.c | 87 +++++++++++++++--------------------------------------
src/w32-backend.c | 2 -
src/xlib-backend.c | 9 ++---
9 files changed, 77 insertions(+), 102 deletions(-)
Author: Tomas Aragon
Diff between epitools versions 0.9-2 dated 2008-03-21 and 0.4-9 dated 2008-03-22
Title: Epidemiology Tools
Description: EpiTools: R Package for Epidemiologic Data and Graphics
epitools-0.4-9/epitools/DESCRIPTION | 27 ++++++++--------------
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162 files changed, 10 insertions(+), 17 deletions(-)
Author: Nicholas L. Crookston
Diff between yaImpute versions 1.0-3 dated 2008-03-02 and 1.0-4 dated 2008-03-21
Title: yaImpute: An R Package for k-NN Imputation
Description: Performs popular nearest neighbor routines for imputation
yaImpute-1.0-3/yaImpute/R/imputeWithNewIdeas.R |only
yaImpute-1.0-4/yaImpute/DESCRIPTION | 8 +-
yaImpute-1.0-4/yaImpute/R/asciigridimpute.R | 63 +++++++++++-----
yaImpute-1.0-4/yaImpute/R/impute.R | 8 --
yaImpute-1.0-4/yaImpute/R/uniondatajoin.R | 4 -
yaImpute-1.0-4/yaImpute/man/asciigridimpute.Rd | 95 ++++++++++++++++---------
6 files changed, 111 insertions(+), 67 deletions(-)
Author: Jari Oksanen, Roeland Kindt, Pierre Legendre, Bob O'Hara, Gavin L. Simpson,
M. Henry H. Stevens
Title: Community Ecology Package
Description: Ordination methods, diversity analysis and other
functions for community and vegetation ecologists.
Diff between vegan versions 1.11-0 dated 2008-02-21 and 1.11-2 dated 2008-03-21
DESCRIPTION | 6 R/bstick.princomp.R | 2 R/numPerms.R | 2 R/permuted.index2.R | 3 inst/ChangeLog | 19 +- inst/NEWS | 27 ++- inst/doc/FAQ-vegan.pdf |binary inst/doc/FAQ-vegan.texi | 54 ++---- inst/doc/decision-vegan.pdf |binary inst/doc/decision-vegan.tex | 16 - inst/doc/diversity-vegan.Rnw | 275 +++++++++++++++++++++++++------ inst/doc/diversity-vegan.pdf |binary inst/doc/diversity-vegan.tex | 377 +++++++++++++++++++++++++++++++++---------- inst/doc/intro-vegan.pdf |binary inst/doc/intro-vegan.tex | 45 ++--- 15 files changed, 625 insertions(+), 201 deletions(-)
Author: Charles J. Geyer
Diff between trust versions 0.1 dated 2005-10-26 and 0.1-1 dated 2008-03-21
Title: Trust Region Optimization
Description: local optimization using two derivatives and trust regions
ChangeLog | 7 +++++++
DESCRIPTION | 8 ++++----
R/trust.R | 2 ++
inst/doc/trust.pdf |binary
inst/doc/trust.tex | 5 +++--
man/trust.Rd | 13 +++++++++----
tests/bar.Rout.save | 38 +++++++++++++++++++-------------------
tests/baz.Rout.save | 38 +++++++++++++++++++-------------------
tests/fred.Rout.save | 31 ++++++++++++++++---------------
tests/gred.Rout.save | 9 +++++----
tests/hero.Rout.save | 12 +++++++-----
tests/hoo.R | 2 ++
tests/hoo.Rout.save | 48 ++++++++++++++++++++++++++----------------------
tests/qux.Rout.save | 46 +++++++++++++++++++++++-----------------------
14 files changed, 142 insertions(+), 117 deletions(-)
Author: Luke Tierney
Diff between tkrplot versions 0.0-16 dated 2006-08-19 and 0.0-17 dated 2008-03-21
Title: TK Rplot
Description: simple mechanism for placing R graphics in a Tk widget
DESCRIPTION | 4 ++--
R/tkrplot.R | 2 +-
src/tcltkimg.c | 14 ++++++++++----
3 files changed, 13 insertions(+), 7 deletions(-)
Author: Philippe Grosjean
Diff between tcltk2 versions 1.0-6 dated 2008-03-03 and 1.0-7 dated 2008-03-21
Title: Tcl/Tk Additions
Description: A series of additional Tk widgets with style and various functions
(under Windows: DDE exchange, access to the registry and icon manipulation) to
supplement the tcltk package.
DESCRIPTION | 6 +++---
R/tk2reg.R | 6 +++---
inst/tklibs/notebook1.3/._notebook.tcl |only
inst/tklibs/tktextplus0.1/demos/._demo.tcl |only
man/windows/tk2reg.Rd | 18 ++++++++++--------
trials&demos/._framebox.tcl |only
6 files changed, 16 insertions(+), 14 deletions(-)
Author: Mark S. Handcock
Diff between statnet versions 2.0-5 dated 2008-01-28 and 2.0-6 dated 2008-03-21
Title: Software tools for the Statistical Modeling of Network Data
Description: An integrated set of tools for the representation, visualization, analysis and simulation of network data. This package For an introduction type: help(package='statnet')
DESCRIPTION | 8 +++---
R/update.statnet.R | 57 ++++++++++++++++++++++++++++++++++---------------
inst/CITATION | 4 +--
man/statnet-package.Rd | 16 ++++++++-----
man/update.statnet.Rd | 21 ++++++++----------
5 files changed, 66 insertions(+), 40 deletions(-)
Author: Adrian Baddeley
Diff between spatstat versions 1.12-8 dated 2008-02-26 and 1.12-9 dated 2008-03-21
Title: Spatial Point Pattern analysis, model-fitting, simulation, tests
Description: A package for analysing spatial data,
mainly Spatial Point Patterns, including multitype/marked points
and spatial covariates, in any two-dimensional spatial region.
Contains functions for plotting spatial data,
exploratory data analysis, model-fitting, simulation,
spatial sampling, model diagnostics,
and formal inference. Data types include point patterns,
line segment patterns, spatial windows, and
pixel images. Point process models can be
fitted to point pattern data. Cluster type models are fitted
by the method of minimum contrast. Very general Gibbs point
process models can be fitted to point pattern data
using a function ppm similar to lm or glm. Models may
include dependence on covariates, interpoint interaction
and dependence on marks. Fitted models can be simulated automatically.
Also provides facilities for formal inference (such as chi-squared
tests) and model diagnostics (including simulation
envelopes, residuals, residual plots and Q-Q plots).
.Rbuildindex.7213 |only
DESCRIPTION | 17 ++++++++--------
INDEX | 4 +++
R/diagnoseppm.R | 30 ++++++++++++-----------------
R/envelope.R | 2 -
R/geyer.S | 7 ++++--
R/lurking.R | 36 +++++++++++++++++++++++++++++------
R/ppm.R | 40 +++++++++++++++++++++++++++++++++++----
R/ppmclass.R | 44 ++++++++++++++++++++++++++++++++++++++++++-
R/quadscheme.S | 45 ++++++++++++++++++++++++++++++++++++++++++--
R/satpiece.R |only
R/window.S | 9 +++++++-
demo/diagnose.R | 6 ++---
man/00spatstat.Rd | 10 +++++----
man/AreaInter.Rd | 3 --
man/DiggleGratton.Rd | 3 --
man/Fest.Rd | 5 +---
man/Gcross.Rd | 3 --
man/Gdot.Rd | 3 --
man/Gest.Rd | 3 --
man/Geyer.Rd | 22 ++++++++++-----------
man/Gmulti.Rd | 3 --
man/Iest.Rd | 3 --
man/Jcross.Rd | 3 --
man/Jdot.Rd | 3 --
man/Jest.Rd | 3 --
man/Jmulti.Rd | 3 --
man/Kcross.Rd | 3 --
man/Kcross.inhom.Rd | 3 --
man/Kdot.Rd | 3 --
man/Kdot.inhom.Rd | 3 --
man/Kest.Rd | 3 --
man/Kest.fft.Rd | 3 --
man/Kinhom.Rd | 3 --
man/Kmeasure.Rd | 3 --
man/Kmulti.Rd | 3 --
man/LennardJones.Rd | 3 --
man/Lest.Rd | 3 --
man/Linhom.Rd | 3 --
man/MultiStrauss.Rd | 7 ++----
man/MultiStraussHard.Rd | 5 +---
man/Ord.Rd | 3 --
man/OrdThresh.Rd | 3 --
man/PairPiece.Rd | 7 ++----
man/Pairwise.Rd | 5 +---
man/Poisson.Rd | 3 --
man/SatPiece.Rd |only
man/Saturated.Rd | 5 ++--
man/Softcore.Rd | 5 +---
man/Strauss.Rd | 7 ++----
man/StraussHard.Rd | 7 ++----
man/affine.Rd | 3 --
man/affine.owin.Rd | 3 --
man/affine.ppp.Rd | 3 --
man/affine.psp.Rd | 3 --
man/allstats.Rd | 5 +---
man/alltypes.Rd | 5 +---
man/angles.psp.Rd | 3 --
man/anova.ppm.Rd | 3 --
man/append.psp.Rd | 3 --
man/applynbd.Rd | 3 --
man/area.owin.Rd | 3 --
man/areadiff.Rd | 3 --
man/as.data.frame.ppp.Rd | 3 --
man/as.im.Rd | 3 --
man/as.mask.Rd | 3 --
man/as.matrix.im.Rd | 3 --
man/as.owin.Rd | 9 ++++++--
man/as.ppp.Rd | 3 --
man/as.psp.Rd | 3 --
man/as.rectangle.Rd | 3 --
man/bdist.pixels.Rd | 3 --
man/bdist.points.Rd | 3 --
man/bounding.box.Rd | 3 --
man/bounding.box.xy.Rd | 3 --
man/centroid.owin.Rd | 3 --
man/clickpoly.Rd | 3 --
man/clickppp.Rd | 3 --
man/coef.ppm.Rd | 5 +---
man/compatible.fv.Rd | 3 --
man/compatible.im.Rd | 3 --
man/complement.owin.Rd | 3 --
man/concatxy.Rd | 3 --
man/contour.im.Rd | 3 --
man/convexhull.xy.Rd | 3 --
man/corners.Rd | 3 --
man/crossdist.psp.Rd | 3 --
man/crossing.psp.Rd | 3 --
man/cut.im.Rd | 3 --
man/cut.ppp.Rd | 3 --
man/data.ppm.Rd | 5 +---
man/default.dummy.Rd | 3 --
man/density.ppp.Rd | 4 +--
man/density.psp.Rd | 4 +--
man/density.splitppp.Rd | 4 +--
man/diagnose.ppm.Rd | 13 +++++-------
man/diameter.Rd | 3 --
man/dilate.owin.Rd | 3 --
man/dirichlet.weights.Rd | 3 --
man/disc.Rd | 3 --
man/discretise.Rd | 3 --
man/distmap.Rd | 3 --
man/distmap.owin.Rd | 3 --
man/distmap.ppp.Rd | 3 --
man/distmap.psp.Rd | 3 --
man/dummy.ppm.Rd | 5 +---
man/duplicated.ppp.Rd | 3 --
man/eem.Rd | 5 +---
man/endpoints.psp.Rd | 3 --
man/envelope.Rd | 36 ++++++++++++++++++++++++-----------
man/erode.owin.Rd | 3 --
man/eroded.areas.Rd | 3 --
man/eval.fv.Rd | 3 --
man/eval.hyper.Rd | 3 --
man/eval.im.Rd | 3 --
man/ewcdf.Rd | 3 --
man/expand.owin.Rd | 3 --
man/fasp.object.Rd | 3 --
man/fitin.Rd | 5 +---
man/fitted.ppm.Rd | 5 +---
man/fv.object.Rd | 3 --
man/gridcentres.Rd | 3 --
man/gridweights.Rd | 3 --
man/harmonic.Rd | 3 --
man/hist.im.Rd | 3 --
man/hyperframe.Rd | 3 --
man/identify.ppp.Rd | 3 --
man/im.Rd | 3 --
man/im.object.Rd | 3 --
man/inforder.family.Rd | 3 --
man/inside.owin.Rd | 3 --
man/internal.Rd | 2 +
man/interp.im.Rd | 3 --
man/intersect.owin.Rd | 3 --
man/is.im.Rd | 3 --
man/is.marked.Rd | 3 --
man/is.marked.ppm.Rd | 3 --
man/is.marked.ppp.Rd | 3 --
man/is.multitype.Rd | 3 --
man/is.multitype.ppm.Rd | 3 --
man/is.multitype.ppp.Rd | 3 --
man/is.owin.Rd | 3 --
man/is.ppm.Rd | 3 --
man/is.ppp.Rd | 3 --
man/is.subset.owin.Rd | 3 --
man/kaplan.meier.Rd | 3 --
man/km.rs.Rd | 3 --
man/kstest.Rd | 3 --
man/lengths.psp.Rd | 3 --
man/levelset.Rd | 3 --
man/localK.Rd | 3 --
man/logLik.ppm.Rd | 3 --
man/lurking.Rd | 6 +++++
man/markcorr.Rd | 3 --
man/markstat.Rd | 3 --
man/marktable.Rd | 3 --
man/mean.im.Rd | 3 --
man/midpoints.psp.Rd | 3 --
man/model.images.Rd |only
man/model.matrix.ppm.Rd |only
man/multiplicity.ppp.Rd | 3 --
man/nearest.raster.point.Rd | 3 --
man/nncorr.Rd | 3 --
man/nncross.Rd | 3 --
man/nndist.psp.Rd | 3 --
man/ord.family.Rd | 4 +--
man/owin.Rd | 3 --
man/owin.object.Rd | 3 --
man/pairdist.psp.Rd | 3 --
man/pairsat.family.Rd | 10 +++++----
man/pairwise.family.Rd | 3 --
man/pcf.Rd | 3 --
man/pcf.fasp.Rd | 3 --
man/pcf.fv.Rd | 3 --
man/pcf.ppp.Rd | 3 --
man/persp.im.Rd | 3 --
man/plot.fasp.Rd | 3 --
man/plot.fv.Rd | 3 --
man/plot.hyperframe.Rd | 3 --
man/plot.im.Rd | 3 --
man/plot.listof.Rd | 3 --
man/plot.owin.Rd | 3 --
man/plot.plotppm.Rd | 3 --
man/plot.ppm.Rd | 3 --
man/plot.ppp.Rd | 3 --
man/plot.psp.Rd | 3 --
man/plot.quad.Rd | 3 --
man/plot.splitppp.Rd | 3 --
man/ppm.Rd | 12 +++++------
man/ppm.object.Rd | 3 --
man/ppp.Rd | 27 +++++++++++++++++++++-----
man/ppp.object.Rd | 3 --
man/predict.ppm.Rd | 5 +---
man/print.im.Rd | 3 --
man/print.owin.Rd | 3 --
man/print.ppm.Rd | 3 --
man/print.ppp.Rd | 3 --
man/print.psp.Rd | 3 --
man/print.quad.Rd | 3 --
man/profilepl.Rd | 3 --
man/progressreport.Rd | 3 --
man/psp.Rd | 3 --
man/psp.object.Rd | 3 --
man/qqplot.ppm.Rd | 3 --
man/quad.object.Rd | 3 --
man/quad.ppm.Rd | 5 +---
man/quadrat.test.Rd | 3 --
man/quadratcount.Rd | 3 --
man/quadscheme.Rd | 3 --
man/quantile.im.Rd | 3 --
man/rGaussPoisson.Rd | 3 --
man/rMatClust.Rd | 3 --
man/rMaternI.Rd | 3 --
man/rMaternII.Rd | 3 --
man/rNeymanScott.Rd | 3 --
man/rSSI.Rd | 3 --
man/rThomas.Rd | 3 --
man/raster.x.Rd | 3 --
man/rcell.Rd | 3 --
man/reach.Rd | 3 --
man/reduced.sample.Rd | 3 --
man/rescale.Rd | 3 --
man/rescale.owin.Rd | 3 --
man/rescale.ppp.Rd | 3 --
man/rescale.psp.Rd | 3 --
man/rescue.rectangle.Rd | 3 --
man/residuals.ppm.Rd | 5 +---
man/ripras.Rd | 3 --
man/rlabel.Rd | 3 --
man/rlinegrid.Rd | 3 --
man/rmh.Rd | 3 --
man/rmh.default.Rd | 3 --
man/rmh.ppm.Rd | 13 +++++-------
man/rmhcontrol.Rd | 3 --
man/rmhmodel.Rd | 3 --
man/rmhmodel.default.Rd | 3 --
man/rmhmodel.list.Rd | 3 --
man/rmhmodel.ppm.Rd | 3 --
man/rmhstart.Rd | 3 --
man/rmpoint.Rd | 3 --
man/rmpoispp.Rd | 3 --
man/rotate.Rd | 3 --
man/rotate.owin.Rd | 3 --
man/rotate.ppp.Rd | 3 --
man/rotate.psp.Rd | 3 --
man/rpoint.Rd | 3 --
man/rpoisline.Rd | 3 --
man/rpoispp.Rd | 3 --
man/rshift.Rd | 3 --
man/rshift.ppp.Rd | 3 --
man/rshift.psp.Rd | 3 --
man/rshift.splitppp.Rd | 3 --
man/rstrat.Rd | 3 --
man/rsyst.Rd | 3 --
man/rthin.Rd | 3 --
man/runifdisc.Rd | 3 --
man/runifpoint.Rd | 3 --
man/scanpp.Rd | 3 --
man/selfcrossing.psp.Rd | 3 --
man/setcov.Rd | 3 --
man/setmarks.Rd | 3 --
man/shift.Rd | 3 --
man/shift.im.Rd | 3 --
man/shift.owin.Rd | 3 --
man/shift.ppp.Rd | 3 --
man/shift.psp.Rd | 3 --
man/simdat.Rd | 2 -
man/smooth.ppp.Rd | 4 +--
man/solutionset.Rd | 3 --
man/spatstat.options.Rd | 3 --
man/split.ppp.Rd | 3 --
man/spokes.Rd | 3 --
man/square.Rd | 3 --
man/subset.fasp.Rd | 3 --
man/subset.fv.Rd | 3 --
man/subset.im.Rd | 3 --
man/subset.listof.Rd | 3 --
man/subset.ppp.Rd | 3 --
man/subset.psp.Rd | 3 --
man/subset.splitppp.Rd | 3 --
man/subsetget.im.Rd | 3 --
man/suffstat.Rd | 3 --
man/summary.im.Rd | 3 --
man/summary.listof.Rd | 3 --
man/summary.owin.Rd | 3 --
man/summary.ppm.Rd | 3 --
man/summary.ppp.Rd | 3 --
man/summary.psp.Rd | 3 --
man/summary.quad.Rd | 3 --
man/summary.splitppp.Rd | 3 --
man/superimpose.Rd | 3 --
man/trim.rectangle.Rd | 3 --
man/union.quad.Rd | 3 --
man/unique.ppp.Rd | 3 --
man/unitname.Rd | 3 --
man/unmark.Rd | 3 --
man/update.ppm.Rd | 7 ++----
man/vcov.ppm.Rd | 3 --
man/vertices.Rd | 3 --
299 files changed, 602 insertions(+), 670 deletions(-)
Author: Andrew Parnell
Title: Stable Isotope Analysis in R
Description: This package takes data on organism isotopes and fits a Bayesian model to their dietary habits based upon a Gaussian likelihood with a mixture dirichlet-distributed prior on the mean.
Diff between siar versions 1.3 dated 2008-03-09 and 2.0 dated 2008-03-21
siar-1.3/siar/R/siarmcmc.R |only siar-1.3/siar/man/siarmcmc.Rd |only siar-1.3/siar/src/siarmcmcmultigroup.c |only siar-2.0/siar/DESCRIPTION | 10 siar-2.0/siar/NAMESPACE | 5 siar-2.0/siar/R/loadsiardata.R |only siar-2.0/siar/R/newgraphwindow.R |only siar-2.0/siar/R/panelcontour.R |only siar-2.0/siar/R/panelcor.R | 4 siar-2.0/siar/R/panelhist.R | 4 siar-2.0/siar/R/siardemo.R |only siar-2.0/siar/R/siarhdrs.R |only siar-2.0/siar/R/siarhistograms.R |only siar-2.0/siar/R/siarmatrixplot.R |only siar-2.0/siar/R/siarmcmcdirichlet.R |only siar-2.0/siar/R/siarmenu.R | 811 ------------------------ siar-2.0/siar/R/siarmultigrouprun.R |only siar-2.0/siar/R/siarproportionbysourceplot.R |only siar-2.0/siar/R/siarsaveoutput.R |only siar-2.0/siar/R/siarsinglegrouprun.R |only siar-2.0/siar/data/allgroups.txt |only siar-2.0/siar/data/correctionsdemo.rda |binary siar-2.0/siar/data/correctionsdemo.txt |only siar-2.0/siar/data/geese1demo.txt |only siar-2.0/siar/data/geese2demo.txt |only siar-2.0/siar/data/sourcesdemo.rda |binary siar-2.0/siar/data/sourcesdemo.txt |only siar-2.0/siar/man/loadsiardata.Rd |only siar-2.0/siar/man/newgraphwindow.Rd |only siar-2.0/siar/man/panelcontour.Rd |only siar-2.0/siar/man/panelcor.Rd | 4 siar-2.0/siar/man/siar-package.Rd | 7 siar-2.0/siar/man/siardemo.Rd |only siar-2.0/siar/man/siarhdrs.Rd |only siar-2.0/siar/man/siarhistograms.Rd |only siar-2.0/siar/man/siarmatrixplot.Rd |only siar-2.0/siar/man/siarmcmcdirichlet.Rd |only siar-2.0/siar/man/siarmenu.Rd | 20 siar-2.0/siar/man/siarmultigrouprun.Rd |only siar-2.0/siar/man/siarproportionbysourceplot.Rd |only siar-2.0/siar/man/siarsaveoutput.Rd |only siar-2.0/siar/man/siarsinglegrouprun.Rd |only siar-2.0/siar/src/siarmcmcmultigroupdirichlet.c |only 43 files changed, 56 insertions(+), 809 deletions(-)
Author: Paul Gilbert
Diff between setRNG versions 2006.4-1 dated 2006-04-05 and 2008.3-1 dated 2008-03-21
Title: Set (normal) random number generator and seed
Description: Set reproducible random number generator in R (and S). See ?setRNG.Intro for more details.
setRNG-2006.4-1/setRNG/INDEX |only
setRNG-2006.4-1/setRNG/setRNG-man.pdf |only
setRNG-2008.3-1/setRNG/DESCRIPTION | 9 +++++----
setRNG-2008.3-1/setRNG/LICENSE | 2 +-
setRNG-2008.3-1/setRNG/NEWS | 8 ++++++++
setRNG-2008.3-1/setRNG/R/setRNG.R | 10 +++++++---
setRNG-2008.3-1/setRNG/inst/doc/setRNG.pdf |binary
7 files changed, 21 insertions(+), 8 deletions(-)
Author: Ioannis Kosmidis
Diff between profileModel versions 0.5-2 dated 2008-02-24 and 0.5-3 dated 2008-03-21
Title: Tools for profiling inference functions for various model classes
Description: profileModel provides tools that can be used to calculate, evaluate, plot and use for inference the profiles of *arbitrary* inference functions for *arbitrary* 'glm'-like fitted models with linear predictors.
DESCRIPTION | 6 +++---
R/profZoom.R | 22 ++++++++++++++--------
inst/CHANGES | 7 +++++++
man/confintModel.Rd | 44 +++++++++++++++++++++++---------------------
4 files changed, 47 insertions(+), 32 deletions(-)
Author: REvolution Computing
Diff between nws versions 1.6.2 dated 2007-11-03 and 1.6.3 dated 2008-03-21
Title: R functions for NetWorkSpaces and Sleigh
Description: Provides coordination and parallel execution
facilities, as well as limited cross-language data exchange,
using the netWorkSpaces server developed by REvolution
Computing
DESCRIPTION | 4 +-
NAMESPACE | 4 +-
R/cmdLaunchOptions.R | 35 ++++++++++++++++++++-
R/launch.R | 2 -
R/lsfSleigh.R | 2 -
R/nws.R | 4 +-
R/sleigh-internal.R | 12 +++++--
R/sleigh.R | 4 +-
R/sleighPending.R | 2 -
R/sleighPro.R | 2 -
R/workerLoop.R | 2 -
R/zzz.R | 2 -
demo/00Index | 3 +
demo/pportfolio.R |only
inst/ChangeLog | 12 +++++++
inst/bin/BackgroundLaunch.py | 2 -
inst/bin/RBabelfishService.py | 2 -
inst/bin/RNWSSleighWorker.py | 2 -
inst/bin/RNWSSleighWorker.sh | 2 -
inst/bin/RSleighService.py | 2 -
inst/bin/SleighWorkerWrapper.sh | 15 ---------
inst/bin/babelfish.R | 2 -
inst/bin/nwsclient.py | 2 -
inst/bin/nwsutil.py | 2 -
inst/bin/sleighmon.R | 55 ++++++++++++++++-----------------
inst/examples/sleigh/par_contestant.R | 3 +
inst/examples/sleigh/portfolio_race.py | 6 +++
inst/examples/sleigh/pportfolio.R | 40 ++++++++++++++++++++----
inst/examples/sleigh/seq_contestant.R | 3 +
inst/examples/sleigh/sportfolio.R | 40 ++++++++++++++++++++----
man/sshcmd.Rd | 25 +++++++++++++--
31 files changed, 208 insertions(+), 85 deletions(-)
Author: Peter Solymos
Title: Multivariate count data handling in ecology and biogeography
Description: R package for multivariate count data handling in ecology and biogeography. The name 'mefa' stands for the term 'metafaunistics' indicating that data handling is the most critical and sometimes most time consuming part of data analysis. The package contains object classes and functions to manipulate basic biotic (sample/species/count or crosstabulated) count data and relational attribute tables for samples and species. Functions can handle segments within the count data and samples with zero count. Reports are generated in plain text or LaTeX format.
Diff between mefa versions 1.0-4 dated 2008-02-11 and 1.1-0 dated 2008-03-21
DESCRIPTION | 13 +- R/accumulate.R |only R/add.attrib.R | 51 +++++------ R/as.xcount.R | 52 ++++++++--- R/ivgen.R |only R/mapmf.R |only R/mefa.R | 18 +++- R/qdef.R |only R/report.mefa.R | 230 ++++++++++++++++++++++++++++++++-------------------- R/xytrend.R |only demo/dolina.R | 4 inst/ChangeLog | 55 ++++++++---- inst/SampleReport | 5 - inst/doc |only man/accumulate.Rd |only man/ivgen.Rd |only man/mapmf.Rd |only man/mefa-package.Rd | 21 ++-- man/mefa.Rd | 3 man/mefadocs.Rd | 2 man/mefaweb.Rd | 7 - man/qdef.Rd |only man/report.mefa.Rd | 9 -- man/xcount.Rd | 9 +- man/xytrend.Rd |only 25 files changed, 299 insertions(+), 180 deletions(-)
Author: Mark Stevenson
Diff between epitools versions 0.4-9 dated 2007-06-28 and 0.9-2 dated 2008-03-21
Title: Functions for analysing epidemiological data
Description: A package for analysing epidemiological data. Contains functions
for directly and indirectly adjusting measures of disease frequency,
quantifying measures of association on the basis of single or multiple
strata of count data presented in a contingency table, and computing
confidence intervals around incidence risk and incidence rate estimates.
Miscellaneous functions for use in meta-analysis, diagnostic test
interpretation, and sample size calculations.
epitools-0.4-9/epitools/R/ageadjust.direct.R |only
epitools-0.4-9/epitools/R/ageadjust.indirect.R |only
epitools-0.4-9/epitools/R/as.hour.R |only
epitools-0.4-9/epitools/R/as.month.R |only
epitools-0.4-9/epitools/R/as.week.R |only
epitools-0.4-9/epitools/R/binom.approx.R |only
epitools-0.4-9/epitools/R/binom.exact.R |only
epitools-0.4-9/epitools/R/binom.wilson.R |only
epitools-0.4-9/epitools/R/colorbrewer.data.R |only
epitools-0.4-9/epitools/R/colorbrewer.display.R |only
epitools-0.4-9/epitools/R/colorbrewer.pallette.R |only
epitools-0.4-9/epitools/R/colors.matrix.R |only
epitools-0.4-9/epitools/R/colors.plot.R |only
epitools-0.4-9/epitools/R/epicurve.dates.R |only
epitools-0.4-9/epitools/R/epicurve.hours.R |only
epitools-0.4-9/epitools/R/epicurve.months.R |only
epitools-0.4-9/epitools/R/epicurve.table.R |only
epitools-0.4-9/epitools/R/epicurve.weeks.R |only
epitools-0.4-9/epitools/R/epidate.R |only
epitools-0.4-9/epitools/R/epitab.R |only
epitools-0.4-9/epitools/R/epitable.R |only
epitools-0.4-9/epitools/R/expand.table.R |only
epitools-0.4-9/epitools/R/expected.R |only
epitools-0.4-9/epitools/R/julian2date.R |only
epitools-0.4-9/epitools/R/kapmeier.R |only
epitools-0.4-9/epitools/R/oddsratio.R |only
epitools-0.4-9/epitools/R/oddsratio.fisher.R |only
epitools-0.4-9/epitools/R/oddsratio.midp.R |only
epitools-0.4-9/epitools/R/oddsratio.small.R |only
epitools-0.4-9/epitools/R/oddsratio.wald.R |only
epitools-0.4-9/epitools/R/or.midp.R |only
epitools-0.4-9/epitools/R/ormidp.test.R |only
epitools-0.4-9/epitools/R/pois.approx.R |only
epitools-0.4-9/epitools/R/pois.byar.R |only
epitools-0.4-9/epitools/R/pois.daly.R |only
epitools-0.4-9/epitools/R/pois.exact.R |only
epitools-0.4-9/epitools/R/rate2by2.test.R |only
epitools-0.4-9/epitools/R/rateratio.R |only
epitools-0.4-9/epitools/R/rateratio.midp.R |only
epitools-0.4-9/epitools/R/rateratio.wald.R |only
epitools-0.4-9/epitools/R/ratetable.R |only
epitools-0.4-9/epitools/R/riskratio.R |only
epitools-0.4-9/epitools/R/riskratio.boot.R |only
epitools-0.4-9/epitools/R/riskratio.small.R |only
epitools-0.4-9/epitools/R/riskratio.wald.R |only
epitools-0.4-9/epitools/R/tab2by2.test.R |only
epitools-0.4-9/epitools/R/table.margins.R |only
epitools-0.4-9/epitools/data/oswego.rda |only
epitools-0.4-9/epitools/data/wcgs.rda |only
epitools-0.4-9/epitools/data/wnv.rda |only
epitools-0.4-9/epitools/man/ageadjust.direct.Rd |only
epitools-0.4-9/epitools/man/ageadjust.indirect.Rd |only
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epitools-0.4-9/epitools/man/as.month.Rd |only
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epitools-0.4-9/epitools/man/binom.conf.int.Rd |only
epitools-0.4-9/epitools/man/colorbrewer.Rd |only
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epitools-0.4-9/epitools/man/epitab.Rd |only
epitools-0.4-9/epitools/man/epitable.Rd |only
epitools-0.4-9/epitools/man/expand.table.Rd |only
epitools-0.4-9/epitools/man/expected.Rd |only
epitools-0.4-9/epitools/man/julian2date.Rd |only
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epitools-0.4-9/epitools/man/or.midp.Rd |only
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epitools-0.4-9/epitools/man/rate2by2.test.Rd |only
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epitools-0.4-9/epitools/man/riskratio.Rd |only
epitools-0.4-9/epitools/man/tab2by2.test.Rd |only
epitools-0.4-9/epitools/man/table.margins.Rd |only
epitools-0.4-9/epitools/man/wcgs.Rd |only
epitools-0.4-9/epitools/man/wnv.Rd |only
epitools-0.9-2/epitools/DESCRIPTION | 27 +++++++++++++---------
epitools-0.9-2/epitools/R/epi.2by2.R |only
epitools-0.9-2/epitools/R/epi.RtoBUGS.R |only
epitools-0.9-2/epitools/R/epi.about.R |only
epitools-0.9-2/epitools/R/epi.asc.R |only
epitools-0.9-2/epitools/R/epi.bohning.R |only
epitools-0.9-2/epitools/R/epi.ccc.R |only
epitools-0.9-2/epitools/R/epi.cluster1size.R |only
epitools-0.9-2/epitools/R/epi.cluster2size.R |only
epitools-0.9-2/epitools/R/epi.clustersize.R |only
epitools-0.9-2/epitools/R/epi.conf.R |only
epitools-0.9-2/epitools/R/epi.convgrid.R |only
epitools-0.9-2/epitools/R/epi.covpattern.R |only
epitools-0.9-2/epitools/R/epi.descriptives.R |only
epitools-0.9-2/epitools/R/epi.detectsize.R |only
epitools-0.9-2/epitools/R/epi.dgamma.R |only
epitools-0.9-2/epitools/R/epi.directadj.R |only
epitools-0.9-2/epitools/R/epi.dms.R |only
epitools-0.9-2/epitools/R/epi.dsl.R |only
epitools-0.9-2/epitools/R/epi.edr.R |only
epitools-0.9-2/epitools/R/epi.empbayes.R |only
epitools-0.9-2/epitools/R/epi.herdtest.R |only
epitools-0.9-2/epitools/R/epi.indirectadj.R |only
epitools-0.9-2/epitools/R/epi.insthaz.R |only
epitools-0.9-2/epitools/R/epi.iv.R |only
epitools-0.9-2/epitools/R/epi.kappa.R |only
epitools-0.9-2/epitools/R/epi.ltd.R |only
epitools-0.9-2/epitools/R/epi.mh.R |only
epitools-0.9-2/epitools/R/epi.nomogram.R |only
epitools-0.9-2/epitools/R/epi.offset.R |only
epitools-0.9-2/epitools/R/epi.popsize.R |only
epitools-0.9-2/epitools/R/epi.prcc.R |only
epitools-0.9-2/epitools/R/epi.prev.R |only
epitools-0.9-2/epitools/R/epi.simplesize.R |only
epitools-0.9-2/epitools/R/epi.smd.R |only
epitools-0.9-2/epitools/R/epi.stratasize.R |only
epitools-0.9-2/epitools/R/epi.studysize.R |only
epitools-0.9-2/epitools/R/epi.tests.R |only
epitools-0.9-2/epitools/R/zzz.R |only
epitools-0.9-2/epitools/data/epi.SClip.RData |only
epitools-0.9-2/epitools/data/epi.epidural.RData |only
epitools-0.9-2/epitools/data/epi.incin.RData |only
epitools-0.9-2/epitools/doc |only
epitools-0.9-2/epitools/man/epi.2by2.Rd |only
epitools-0.9-2/epitools/man/epi.RtoBUGS.Rd |only
epitools-0.9-2/epitools/man/epi.SClip.Rd |only
epitools-0.9-2/epitools/man/epi.about.Rd |only
epitools-0.9-2/epitools/man/epi.asc.Rd |only
epitools-0.9-2/epitools/man/epi.bohning.Rd |only
epitools-0.9-2/epitools/man/epi.ccc.Rd |only
epitools-0.9-2/epitools/man/epi.cluster1size.Rd |only
epitools-0.9-2/epitools/man/epi.cluster2size.Rd |only
epitools-0.9-2/epitools/man/epi.clustersize.Rd |only
epitools-0.9-2/epitools/man/epi.conf.Rd |only
epitools-0.9-2/epitools/man/epi.convgrid.Rd |only
epitools-0.9-2/epitools/man/epi.covpattern.Rd |only
epitools-0.9-2/epitools/man/epi.descriptives.Rd |only
epitools-0.9-2/epitools/man/epi.detectsize.Rd |only
epitools-0.9-2/epitools/man/epi.dgamma.Rd |only
epitools-0.9-2/epitools/man/epi.directadj.Rd |only
epitools-0.9-2/epitools/man/epi.dms.Rd |only
epitools-0.9-2/epitools/man/epi.dsl.Rd |only
epitools-0.9-2/epitools/man/epi.edr.Rd |only
epitools-0.9-2/epitools/man/epi.empbayes.Rd |only
epitools-0.9-2/epitools/man/epi.epidural.Rd |only
epitools-0.9-2/epitools/man/epi.herdtest.Rd |only
epitools-0.9-2/epitools/man/epi.incin.Rd |only
epitools-0.9-2/epitools/man/epi.indirectadj.Rd |only
epitools-0.9-2/epitools/man/epi.insthaz.Rd |only
epitools-0.9-2/epitools/man/epi.iv.Rd |only
epitools-0.9-2/epitools/man/epi.kappa.Rd |only
epitools-0.9-2/epitools/man/epi.ltd.Rd |only
epitools-0.9-2/epitools/man/epi.mh.Rd |only
epitools-0.9-2/epitools/man/epi.nomogram.Rd |only
epitools-0.9-2/epitools/man/epi.offset.Rd |only
epitools-0.9-2/epitools/man/epi.popsize.Rd |only
epitools-0.9-2/epitools/man/epi.prcc.Rd |only
epitools-0.9-2/epitools/man/epi.prev.Rd |only
epitools-0.9-2/epitools/man/epi.simplesize.Rd |only
epitools-0.9-2/epitools/man/epi.smd.Rd |only
epitools-0.9-2/epitools/man/epi.stratasize.Rd |only
epitools-0.9-2/epitools/man/epi.studysize.Rd |only
epitools-0.9-2/epitools/man/epi.tests.Rd |only
162 files changed, 17 insertions(+), 10 deletions(-)
Author: Charles J. Geyer
Diff between aster versions 0.7-3 dated 2007-10-09 and 0.7-4 dated 2008-03-21
Title: Aster Models
Description: functions and datasets for Aster modeling (forest graph
exponential family conditional or unconditional canonical statistic models
for life history analysis)
aster-0.7-3/aster/tests/tutor.R |only
aster-0.7-3/aster/tests/tutor.Rout.save |only
aster-0.7-4/aster/CHANGES | 4 ++++
aster-0.7-4/aster/DESCRIPTION | 8 ++++----
aster-0.7-4/aster/man/predict.aster.Rd | 9 +++++++--
5 files changed, 15 insertions(+), 6 deletions(-)
Author: Emmanuel Paradis, Ben Bolker, Julien Claude, Hoa Sien Cuong,
Richard Desper, Benoit Durand, Julien Dutheil, Olivier Gascuel,
Gangolf Jobb, Christoph Heibl, Vincent Lefort, Jim Lemon,
Yvonnick Noel, Johan Nylander, Rainer Opgen-Rhein, Korbinian Strimmer
Title: Analyses of Phylogenetics and Evolution
Description: ape provides functions for reading, writing, plotting,
and manipulating phylogenetic trees, analyses of comparative data
in a phylogenetic framework, analyses of diversification and
macroevolution, computing distances from allelic and nucleotide
data, reading nucleotide sequences, and several tools such as
Mantel's test, computation of minimum spanning tree, the population
parameter theta based on various approaches, nucleotide diversity,
generalized skyline plots, estimation of absolute evolutionary rates
and clock-like trees using mean path lengths, non-parametric rate
smoothing and penalized likelihood, classifying genes in trees using
the Klastorin-Misawa-Tajima approach. Phylogeny estimation can be done
with the NJ, BIONJ, ME, and ML methods.
Diff between ape versions 2.1-2 dated 2008-02-29 and 2.1-3 dated 2008-03-21
Changes | 20 ++++++++++++++++++++ DESCRIPTION | 8 ++++---- R/DNA.R | 18 ++++++++---------- R/ace.R | 9 ++++++--- R/multi2di.R | 12 ++++++++++-- R/read.nexus.R | 5 ++++- inst/doc/MoranI.pdf |binary man/DNAbin.Rd | 2 +- man/ace.Rd | 11 ++++++++--- man/compar.cheverud.Rd | 3 ++- man/mlphylo.Rd | 2 +- man/multi2di.Rd | 2 +- man/nj.Rd | 3 ++- man/read.tree.Rd | 2 +- src/reorder_phylo.c | 11 +++++------ src/tree_build.c | 6 +++--- 16 files changed, 76 insertions(+), 38 deletions(-)
Author: Thomas W. Yee
Diff between VGAM versions 0.7-5 dated 2007-11-30 and 0.7-6 dated 2008-03-21
Title: Vector Generalized Linear and Additive Models
Description: Vector generalized linear and additive models, and
associated models (Reduced-Rank VGLMs, Quadratic RR-VGLMs,
Reduced-Rank VGAMs). This package fits many models and
distribution by maximum likelihood estimation (MLE) or
penalized MLE. Also fits constrained ordination models in
ecology.
VGAM-0.7-5/VGAM/data/aml.R |only
VGAM-0.7-5/VGAM/man/aml.Rd |only
VGAM-0.7-6/VGAM/DESCRIPTION | 8
VGAM-0.7-6/VGAM/NAMESPACE | 33
VGAM-0.7-6/VGAM/NEWS | 30
VGAM-0.7-6/VGAM/R/aamethods.q | 54 +
VGAM-0.7-6/VGAM/R/add1.vglm.q | 2
VGAM-0.7-6/VGAM/R/attrassign.R | 2
VGAM-0.7-6/VGAM/R/build.terms.vlm.q | 2
VGAM-0.7-6/VGAM/R/calibrate.q | 2
VGAM-0.7-6/VGAM/R/cao.R | 2
VGAM-0.7-6/VGAM/R/cao.fit.q | 5
VGAM-0.7-6/VGAM/R/coef.vlm.q | 2
VGAM-0.7-6/VGAM/R/cqo.R | 2
VGAM-0.7-6/VGAM/R/cqo.fit.q | 5
VGAM-0.7-6/VGAM/R/deviance.vlm.q | 2
VGAM-0.7-6/VGAM/R/effects.vglm.q | 2
VGAM-0.7-6/VGAM/R/family.aunivariate.q | 139 ++--
VGAM-0.7-6/VGAM/R/family.basics.q | 22
VGAM-0.7-6/VGAM/R/family.binomial.q | 2
VGAM-0.7-6/VGAM/R/family.bivariate.q | 177 ++++-
VGAM-0.7-6/VGAM/R/family.categorical.q | 166 +++-
VGAM-0.7-6/VGAM/R/family.censored.q | 2
VGAM-0.7-6/VGAM/R/family.circular.q | 2
VGAM-0.7-6/VGAM/R/family.extremes.q | 2
VGAM-0.7-6/VGAM/R/family.functions.q | 2
VGAM-0.7-6/VGAM/R/family.genetic.q | 2
VGAM-0.7-6/VGAM/R/family.glmgam.q | 251 +++++++
VGAM-0.7-6/VGAM/R/family.loglin.q | 2
VGAM-0.7-6/VGAM/R/family.mixture.q | 2
VGAM-0.7-6/VGAM/R/family.nonlinear.q | 2
VGAM-0.7-6/VGAM/R/family.normal.q | 102 ++
VGAM-0.7-6/VGAM/R/family.positive.q | 2
VGAM-0.7-6/VGAM/R/family.qreg.q | 970 ++++++++++++++++++++++------
VGAM-0.7-6/VGAM/R/family.rcqo.q | 2
VGAM-0.7-6/VGAM/R/family.rrr.q | 2
VGAM-0.7-6/VGAM/R/family.survival.q | 2
VGAM-0.7-6/VGAM/R/family.ts.q | 2
VGAM-0.7-6/VGAM/R/family.univariate.q | 462 ++++++++++++-
VGAM-0.7-6/VGAM/R/family.vglm.q | 2
VGAM-0.7-6/VGAM/R/family.zeroinf.q | 6
VGAM-0.7-6/VGAM/R/fitted.vlm.q | 2
VGAM-0.7-6/VGAM/R/generic.q | 2
VGAM-0.7-6/VGAM/R/links.q | 2
VGAM-0.7-6/VGAM/R/logLik.vlm.q | 2
VGAM-0.7-6/VGAM/R/model.matrix.vglm.q | 3
VGAM-0.7-6/VGAM/R/mux.q | 14
VGAM-0.7-6/VGAM/R/plot.vglm.q | 2
VGAM-0.7-6/VGAM/R/predict.vgam.q | 2
VGAM-0.7-6/VGAM/R/predict.vglm.q | 2
VGAM-0.7-6/VGAM/R/predict.vlm.q | 2
VGAM-0.7-6/VGAM/R/print.summary.others.q | 2
VGAM-0.7-6/VGAM/R/print.vglm.q | 2
VGAM-0.7-6/VGAM/R/print.vlm.q | 2
VGAM-0.7-6/VGAM/R/qrrvglm.control.q | 2
VGAM-0.7-6/VGAM/R/qtplot.q | 6
VGAM-0.7-6/VGAM/R/residuals.vlm.q | 2
VGAM-0.7-6/VGAM/R/rrvglm.R | 2
VGAM-0.7-6/VGAM/R/rrvglm.control.q | 2
VGAM-0.7-6/VGAM/R/rrvglm.fit.q | 5
VGAM-0.7-6/VGAM/R/s.q | 2
VGAM-0.7-6/VGAM/R/s.vam.q | 2
VGAM-0.7-6/VGAM/R/smart.R | 2
VGAM-0.7-6/VGAM/R/step.vglm.q | 2
VGAM-0.7-6/VGAM/R/summary.others.q | 2
VGAM-0.7-6/VGAM/R/summary.vgam.q | 2
VGAM-0.7-6/VGAM/R/summary.vglm.q | 13
VGAM-0.7-6/VGAM/R/summary.vlm.q | 2
VGAM-0.7-6/VGAM/R/uqo.R | 2
VGAM-0.7-6/VGAM/R/vgam.R | 66 -
VGAM-0.7-6/VGAM/R/vgam.control.q | 2
VGAM-0.7-6/VGAM/R/vgam.fit.q | 8
VGAM-0.7-6/VGAM/R/vgam.match.q | 2
VGAM-0.7-6/VGAM/R/vglm.R | 44 -
VGAM-0.7-6/VGAM/R/vglm.control.q | 2
VGAM-0.7-6/VGAM/R/vglm.fit.q | 6
VGAM-0.7-6/VGAM/R/vlm.R | 2
VGAM-0.7-6/VGAM/R/vlm.wfit.q | 2
VGAM-0.7-6/VGAM/R/vsmooth.spline.q | 2
VGAM-0.7-6/VGAM/R/zzz.R | 2
VGAM-0.7-6/VGAM/data/leukemia.R |only
VGAM-0.7-6/VGAM/data/toxop.R | 2
VGAM-0.7-6/VGAM/man/Surv.Rd | 4
VGAM-0.7-6/VGAM/man/alaplace3.Rd |only
VGAM-0.7-6/VGAM/man/alaplaceUC.Rd |only
VGAM-0.7-6/VGAM/man/alsqreg.Rd | 78 +-
VGAM-0.7-6/VGAM/man/amh.Rd |only
VGAM-0.7-6/VGAM/man/amhUC.Rd |only
VGAM-0.7-6/VGAM/man/amlbinomial.Rd |only
VGAM-0.7-6/VGAM/man/amlexponential.Rd |only
VGAM-0.7-6/VGAM/man/amlpoisson.Rd |only
VGAM-0.7-6/VGAM/man/betanormUC.Rd | 4
VGAM-0.7-6/VGAM/man/binomialff.Rd | 3
VGAM-0.7-6/VGAM/man/cumulative.Rd | 70 +-
VGAM-0.7-6/VGAM/man/dirichlet.Rd | 2
VGAM-0.7-6/VGAM/man/exponential.Rd | 2
VGAM-0.7-6/VGAM/man/fgm.Rd | 2
VGAM-0.7-6/VGAM/man/fgmUC.Rd | 4
VGAM-0.7-6/VGAM/man/frank.Rd | 2
VGAM-0.7-6/VGAM/man/freund61.Rd | 2
VGAM-0.7-6/VGAM/man/gammahyp.Rd | 2
VGAM-0.7-6/VGAM/man/gaussianff.Rd | 1
VGAM-0.7-6/VGAM/man/gumbelIbiv.Rd | 2
VGAM-0.7-6/VGAM/man/kumar.Rd | 4
VGAM-0.7-6/VGAM/man/laplace.Rd | 23
VGAM-0.7-6/VGAM/man/leukemia.Rd |only
VGAM-0.7-6/VGAM/man/lms.yjn.Rd | 36 -
VGAM-0.7-6/VGAM/man/loge.Rd | 4
VGAM-0.7-6/VGAM/man/logff.Rd | 8
VGAM-0.7-6/VGAM/man/lqnorm.Rd |only
VGAM-0.7-6/VGAM/man/mbinomial.Rd |only
VGAM-0.7-6/VGAM/man/mckaygamma2.Rd | 2
VGAM-0.7-6/VGAM/man/morgenstern.Rd | 2
VGAM-0.7-6/VGAM/man/notdocumentedyet.Rd | 2
VGAM-0.7-6/VGAM/man/plackUC.Rd | 4
VGAM-0.7-6/VGAM/man/plackett.Rd | 2
VGAM-0.7-6/VGAM/man/poissonff.Rd | 1
VGAM-0.7-6/VGAM/man/polonoUC.Rd | 65 +
VGAM-0.7-6/VGAM/man/riceff.Rd | 3
VGAM-0.7-6/VGAM/man/skellamUC.Rd | 4
VGAM-0.7-6/VGAM/man/slash.Rd |only
VGAM-0.7-6/VGAM/man/slashUC.Rd |only
VGAM-0.7-6/VGAM/man/undocumented-methods.Rd | 2
VGAM-0.7-6/VGAM/man/vglm-class.Rd | 5
VGAM-0.7-6/VGAM/man/yulesimon.Rd | 4
VGAM-0.7-6/VGAM/man/yulesimonUC.Rd | 4
VGAM-0.7-6/VGAM/man/zinbUC.Rd | 4
VGAM-0.7-6/VGAM/src/testf90.f90 |only
128 files changed, 2430 insertions(+), 632 deletions(-)
Author: Richard M. Heiberger, with contributions from Burt Holland.
Title: Rcmdr support for the HH package
Description: Rcmdr menu support for many of the functions in the HH package.
The focus is on menu items for functions we use in our introductory courses.
Diff between RcmdrPlugin.HH versions 1.1-11 dated 2008-03-14 and 1.1-12 dated 2008-03-21
DESCRIPTION | 6 +++--- R/normal.and.t.hypotheses.plot.R | 6 +++--- 2 files changed, 6 insertions(+), 6 deletions(-)
More information about RcmdrPlugin.HH at CRAN
Permanent link
Author: This package is 99% based on the Rcmdr package written by John Fox
Diff between QCAGUI versions 1.3-0 dated 2007-10-07 and 1.3-1 dated 2008-03-21
Title: QCA Graphical User Interface
Description: QCAGUI is a graphical user interface (GUI) for the QCA package, derived from R Commander. Because QCA has little to do with statistics, the menus from Rcmdr were stripped down to the very basics. In crisp sets QCA, data is binary therefore it is fairly decent to treat it as categorical (1 - presence; 0 - absence). In order to ease the primary analysis (e.g. tables of frequencies) and the creation of basic graphs, this package activates some menus that are not available in Rcmdr but for factors. Users should be aware, however, that QCAGUI is not a package for statistics; Rcmdr is better for this purpose
DESCRIPTION | 6 +++---
R/graphs-menu.R | 4 ++--
R/utilities.R | 6 +++---
inst/CHANGES | 4 ++++
inst/etc/log-exceptions.txt | 3 ++-
man/Hist.Rd | 3 +--
man/QCAGUI.package.Rd | 4 ++--
man/colPercents.Rd | 2 +-
man/numSummary.Rd | 2 +-
man/partial.cor.Rd | 2 +-
man/reliability.Rd | 2 +-
11 files changed, 21 insertions(+), 17 deletions(-)
Author: Douglas Bates
Diff between Matrix versions 0.999375-5 dated 2008-03-07 and 0.999375-6 dated 2008-03-21
Title: A Matrix package for R
Description: Classes and methods for dense and sparse matrices and
operations on them using Lapack, CSparse and CHOLMOD
ChangeLog | 19 +
DESCRIPTION | 6
R/Auxiliaries.R | 31 +-
R/Ops.R | 3
R/diagMatrix.R | 58 +++-
R/dpoMatrix.R | 4
R/dsCMatrix.R | 9
R/dtCMatrix.R | 2
R/triangularMatrix.R | 6
inst/doc/Comparisons.pdf |binary
inst/doc/Design-issues.Rnw | 31 +-
inst/doc/Design-issues.pdf |binary
inst/doc/Intro2Matrix.pdf | 578 +++++++++++++++++++++-----------------------
inst/doc/Introduction.pdf |binary
man/dgCMatrix-class.Rd | 4
man/diagonalMatrix-class.Rd | 1
tests/matr-exp.R | 1
tests/simple.R | 39 ++
18 files changed, 457 insertions(+), 335 deletions(-)
Author: Andrew O. Finley
Diff between MBA versions 0.0-3 dated 2006-10-11 and 0.0-4 dated 2008-03-21
Title: Multilevel B-spline Approximation
Description: Scattered data interpolation with Multilevel B-Splines
DESCRIPTION | 10 +++++-----
man/mba.points.Rd | 2 +-
man/mba.surf.Rd | 2 +-
src/include/GenMatrix.h | 2 +-
4 files changed, 8 insertions(+), 8 deletions(-)
Author: Andrew Gelman
Diff between JudgeIt versions 1.1.6.3 dated 2007-09-10 and 1.2.0 dated 2008-03-21
Title: JudgeIt
Description: Calculates bias, responsiveness, and other characteristics of
two-party electoral systems, with district-level electoral and
other data.
JudgeIt-1.1.6.3/JudgeIt/R/colm.R |only
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JudgeIt-1.1.6.3/JudgeIt/R/uncontested.remove.R |only
JudgeIt-1.1.6.3/JudgeIt/R/unique.columns.R |only
JudgeIt-1.1.6.3/JudgeIt/R/v2s.R |only
JudgeIt-1.1.6.3/JudgeIt/R/voting.power.R |only
JudgeIt-1.1.6.3/JudgeIt/R/vshar.R |only
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JudgeIt-1.2.0/JudgeIt/DESCRIPTION | 8
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JudgeIt-1.2.0/JudgeIt/R/quantities.R |only
JudgeIt-1.2.0/JudgeIt/R/visibles.R |only
JudgeIt-1.2.0/JudgeIt/inst/doc/index.shtml | 2
JudgeIt-1.2.0/JudgeIt/inst/doc/judgeit.log | 18
JudgeIt-1.2.0/JudgeIt/inst/doc/judgeit.pdf | 1197 ++++++++++++------------
JudgeIt-1.2.0/JudgeIt/inst/doc/judgeit.tex | 2
JudgeIt-1.2.0/JudgeIt/man/judgeit.Rd | 7
50 files changed, 626 insertions(+), 608 deletions(-)
Author: Markus Helbig
Diff between JGR versions 1.5-8 dated 2007-12-08 and 1.5-9 dated 2008-03-21
Title: JGR - Java Gui for R
Description: Java GUI for R - cross-platform, universal and unified Graphical User Interface for R. For full functionality on Windows and Mac OS X JGR requires a start application which depends on your OS. This can be downloaded from JGR's website: http://www.rosuda.org/JGR
DESCRIPTION | 2 +-
NEWS | 6 +++++-
R/JGR.R | 6 +++---
inst/java/JGR.jar |binary
4 files changed, 9 insertions(+), 5 deletions(-)
Author: Richard M. Heiberger
Title: Statistical Analysis and Data Display: Heiberger and Holland
Description: Support software for Statistical Analysis and Data
Display (Springer, ISBN 0-387-40270-5). This contemporary
presentation of statistical methods features extensive use of
graphical displays for exploring data and for displaying the
analysis. The authors demonstrate how to analyze data---showing
code, graphics, and accompanying computer listings---for all the
methods they cover. They emphasize how to construct and
interpret graphs, discuss principles of graphical design, and
show how accompanying traditional tabular results are used to
confirm the visual impressions derived directly from the
graphs. Many of the graphical formats are novel and appear
here for the first time in print. All chapters have exercises.
Diff between HH versions 2.1-8 dated 2008-03-14 and 2.1-9 dated 2008-03-21
DESCRIPTION | 6 +++--- R/glht.mmc.R | 22 ++++++++++------------ R/mcalinfct.R | 2 +- man/aov.sufficient.Rd | 2 +- man/as.multicomp.Rd | 4 ++++ man/panel.bwplott.Rd | 2 -- man/seqplot.forecast.Rd | 2 -- 7 files changed, 19 insertions(+), 21 deletions(-)
Author: Spencer Graves
Title: Companion to Tsay (2005) Analysis of Financial
Time Series
Description: R companion to Tsay (2005)
Analysis of Financial Time Series, 2nd ed. (Wiley).
Includes data sets, functions and script files
required to work some of the examples. Version 0.2-x
includes R objects for all data files used in the text
and script files to recreate most of the analyses in
chapters 1 and 2 plus parts of chapters 3 and 11.
Diff between FinTS versions 0.2-7 dated 2008-02-11 and 0.3-1 dated 2008-03-21
DESCRIPTION | 4 R/Acf.R | 22 +++ R/ArchTest.R | 7 - R/AutocorTest.R | 2 R/apca.R |only inst/scripts/ch02.R | 2 inst/scripts/ch03.R | 308 +++++++++++++++++++++++++++++++++++++++++++++++++--- inst/scripts/ch04.R |only inst/scripts/ch09.R |only man/ARIMA.Rd | 2 man/apca.Rd |only man/ch09data.Rd | 19 ++- 12 files changed, 337 insertions(+), 29 deletions(-)
Author: Simon Jackman, with contributions from
Alex Tahk, Achim Zeileis, Christina Maimone and Jim Fearon
Title: Political Science Computational Laboratory, Stanford University
Description: Bayesian analysis of item-response theory (IRT) models, roll call analysis;
computing highest density regions; maximum likelihood estimation of
zero-inflated and hurdle models for count data; goodness-of-fit measures for
GLMs; data sets used in writing
and teaching at the Political Science Computational Laboratory; seats-votes curves.
Diff between pscl versions 0.94 dated 2008-02-15 and 0.95 dated 2008-03-20
pscl-0.94/pscl/R/._extractVotes.r |only pscl-0.94/pscl/inst/doc/Rplots.ps |only pscl-0.94/pscl/inst/doc/auto |only pscl-0.94/pscl/inst/doc/countreg-bad-good.pdf |only pscl-0.94/pscl/inst/doc/countreg-ofp-plot2.pdf |only pscl-0.94/pscl/inst/doc/countreg-ofp2-plot1.pdf |only pscl-0.94/pscl/inst/doc/countreg.aux |only pscl-0.94/pscl/inst/doc/countreg.bbl |only pscl-0.94/pscl/inst/doc/countreg.blg |only pscl-0.94/pscl/inst/doc/countreg.dvi |only pscl-0.94/pscl/inst/doc/countreg.log |only pscl-0.94/pscl/inst/doc/countreg.out |only pscl-0.94/pscl/inst/doc/countreg.tex |only pscl-0.94/pscl/inst/doc/countreg.tpt |only pscl-0.94/pscl/man/._computeMargins.Rd |only pscl-0.94/pscl/man/._ntable.Rd |only pscl-0.94/pscl/man/._simpi.Rd |only pscl-0.95/pscl/DESCRIPTION | 6 +++--- pscl-0.95/pscl/HISTORY | 4 ++++ pscl-0.95/pscl/R/hurdle.R | 9 +++++++-- pscl-0.95/pscl/R/zeroinfl.R | 13 +++++++++---- pscl-0.95/pscl/inst/doc/countreg.pdf |binary 22 files changed, 23 insertions(+), 9 deletions(-)
Author: Achim Zeileis, Gabor Grothendieck
Title: Z's ordered observations
Description: An S3 class with methods for totally ordered indexed
observations. It is particularly aimed at irregular
time series of numeric vectors/matrices and factors.
zoo's key design goals are independence of a particular
index/date/time class and consistency with with ts and
base R by providing methods to extend standard generics.
Diff between zoo versions 1.4-2 dated 2008-01-28 and 1.5-0 dated 2008-03-14
DESCRIPTION | 8 NAMESPACE | 7 NEWS | 23 ++ R/na.approx.R | 6 R/read.zoo.R | 29 ++- R/yearmon.R | 16 + R/yearqtr.R | 36 +++ R/zoo.R | 20 ++ WISHLIST | 5 inst/doc/Rplots.ps |only inst/doc/plot-axes.pdf |only inst/doc/plot-axes.tex |only inst/doc/zoo-faq.Rnw | 229 ++++++++++++++++++------ inst/doc/zoo-faq.aux |only inst/doc/zoo-faq.out |only inst/doc/zoo-faq.pdf |binary inst/doc/zoo-faq.tex |only inst/doc/zoo-faq.tpt |only inst/doc/zoo-quickref.Rnw | 2 inst/doc/zoo-quickref.pdf | 431 +++++++++++++++++++++++----------------------- inst/doc/zoo-quickref.tex |only inst/doc/zoo.pdf |binary inst/doc/zoo.tex |only man/na.approx.Rd | 2 man/na.trim.Rd | 3 man/plot.zoo.Rd | 51 ++++- man/read.zoo.Rd | 34 ++- man/window.zoo.Rd | 14 - man/yearmon.Rd | 18 + man/yearqtr.Rd | 12 + man/zoo.Rd | 13 + 31 files changed, 631 insertions(+), 328 deletions(-)
Author: NCAR - Research Application Program
Title: Forecast verification utilities.
Description: This package contains utilities for verification of discrete,continuous, probabilistic forecasts and forecast expressed as parametric distributions.
Diff between verification versions 1.20 dated 2007-02-11 and 1.26 dated 2008-03-14
ChangeLog | 1 DESCRIPTION | 10 - R/attribute.R | 22 +-- R/attribute.default.R | 3 R/attribute.prob.bin.R | 44 +++---- R/probcont2disc.R | 34 ++--- R/verify.r | 179 +++++++++++++++--------------- inst/doc/Rplots.ps | 152 +++++++++++++------------- inst/doc/verification-004.pdf | 6 - inst/doc/verification-005.pdf | 6 - inst/doc/verification-006.eps | 152 +++++++++++++------------- inst/doc/verification-006.pdf | 244 +++++++++++++++++++++--------------------- inst/doc/verification-007.pdf | 6 - inst/doc/verification-008.pdf | 6 - inst/doc/verification-009.pdf | 6 - inst/doc/verification.aux | 72 ++++++------ inst/doc/verification.log | 38 +++--- inst/doc/verification.pdf |binary inst/doc/verification.tex | 6 - man/attribute.Rd | 6 - man/crps.circ.Rd | 5 man/discrimination.plot.Rd | 1 man/lines.verify.Rd | 69 ++++++----- man/plot.int.scale.Rd | 2 man/verify-internal.Rd | 128 ++++++++++------------ man/verify.Rd | 2 26 files changed, 601 insertions(+), 599 deletions(-)
Author: Edzer J. Pebesma
Diff between sp versions 0.9-23 dated 2008-02-19 and 0.9-24 dated 2008-03-14
Title: classes and methods for spatial data
Description: A package that provides classes and methods for spatial
data. The classes document where the spatial location information
resides, for 2D or 3D data. Utility functions are provided, e.g. for
plotting data as maps, spatial selection, as well as methods for
retrieving coordinates, for subsetting, print, summary, etc.
sp-0.9-23/sp/inst/doc/Rplots.ps |only
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sp-0.9-23/sp/inst/doc/sp.toc |only
sp-0.9-24/sp/DESCRIPTION | 6
sp-0.9-24/sp/NAMESPACE | 4
sp-0.9-24/sp/R/CRS-methods.R | 8
sp-0.9-24/sp/R/spsample.R | 9
sp-0.9-24/sp/R/zerodist.R | 19
sp-0.9-24/sp/S |only
sp-0.9-24/sp/inst/doc/sp.pdf | 3508 ++++++++++++++++-----------------
sp-0.9-24/sp/man/CRS-class.Rd | 2
sp-0.9-24/sp/man/GridTopology-class.Rd | 4
sp-0.9-24/sp/man/Polygon-class.Rd | 5
sp-0.9-24/sp/man/Polygons-class.Rd | 2
sp-0.9-24/sp/man/Spatial-class.Rd | 5
sp-0.9-24/sp/man/bubble.Rd | 2
sp-0.9-24/sp/man/is.projected.Rd | 4
sp-0.9-24/sp/man/panel.Rd | 4
sp-0.9-24/sp/man/spplot.Rd | 3
sp-0.9-24/sp/man/zerodist.Rd | 16
33 files changed, 1833 insertions(+), 1768 deletions(-)
Author: Chris Stubben, Brook Milligan, Patrick Nantel
Title: Construction and analysis of matrix population models
Description: Construct and analyze projection matrix models from a demography study of marked individuals classified by age or stage. The package covers methods described in Matrix Population Models by Caswell (2001) and Quantitative Conservation Biology by Morris and Doak (2002).
Diff between popbio versions 1.1.7 dated 2008-02-21 and 1.1.8 dated 2008-03-14
popbio-1.1.7/popbio/inst/doc/changelog.txt |only popbio-1.1.8/popbio/DESCRIPTION | 8 - popbio-1.1.8/popbio/R/countCDFxt.R | 144 ++++++++++------------------- popbio-1.1.8/popbio/R/extCDF.R |only popbio-1.1.8/popbio/data/grizzly.R |only popbio-1.1.8/popbio/demo/fillmore.R | 2 popbio-1.1.8/popbio/inst/doc/ChangeLog.txt |only popbio-1.1.8/popbio/man/02Caswell.Rd | 4 popbio-1.1.8/popbio/man/03Morris.Rd | 9 + popbio-1.1.8/popbio/man/LTRE.Rd | 8 - popbio-1.1.8/popbio/man/colorguide.Rd | 1 popbio-1.1.8/popbio/man/countCDFxt.Rd | 23 ++-- popbio-1.1.8/popbio/man/extCDF.Rd |only popbio-1.1.8/popbio/man/grizzly.Rd |only 14 files changed, 85 insertions(+), 114 deletions(-)
Author: Timur V. Elzhov, Katharine M. Mullen
Title: R interface to the Levenberg-Marquardt nonlinear least-squares algorithm found in MINPACK
Description: Provides R interface to lmder and lmdif from the MINPACK library, for solving nonlinear least-squares problems by a modification of the Levenberg-Marquardt algorithm.
Diff between minpack.lm versions 1.0-8 dated 2008-03-12 and 1.0-9 dated 2008-03-14
minpack.lm-1.0-8/minpack.lm/inst |only minpack.lm-1.0-9/minpack.lm/DESCRIPTION | 6 +++--- minpack.lm-1.0-9/minpack.lm/LICENSE |only minpack.lm-1.0-9/minpack.lm/R/zzz.R | 11 +++++++++++ 4 files changed, 14 insertions(+), 3 deletions(-)
Author: Richard M. Heiberger, with contributions from Burt Holland.
Title: Rcmdr support for the HH package
Description: Rcmdr menu support for many of the functions in the HH package.
The focus is on menu items for functions we use in our introductory courses.
Diff between RcmdrPlugin.HH versions 1.1-10 dated 2008-01-25 and 1.1-11 dated 2008-03-14
RcmdrPlugin.HH-1.1-10/RcmdrPlugin.HH/R/normalHypothesesPlot.R |only RcmdrPlugin.HH-1.1-10/RcmdrPlugin.HH/R/tHypothesesPlot.R |only RcmdrPlugin.HH-1.1-11/RcmdrPlugin.HH/DESCRIPTION | 8 +- RcmdrPlugin.HH-1.1-11/RcmdrPlugin.HH/R/MMC.R | 35 ++++++---- RcmdrPlugin.HH-1.1-11/RcmdrPlugin.HH/R/normal.and.t.hypotheses.plot.R |only RcmdrPlugin.HH-1.1-11/RcmdrPlugin.HH/inst/etc/menus.txt | 6 - RcmdrPlugin.HH-1.1-11/RcmdrPlugin.HH/man/normalHypothesesPlot.Rd | 9 +- 7 files changed, 37 insertions(+), 21 deletions(-)
More information about RcmdrPlugin.HH at CRAN
Permanent link
Author: Richard M. Heiberger
Title: Statistical Analysis and Data Display: Heiberger and Holland
Description: Support software for Statistical Analysis and Data
Display (Springer, ISBN 0-387-40270-5). This contemporary
presentation of statistical methods features extensive use of
graphical displays for exploring data and for displaying the
analysis. The authors demonstrate how to analyze data---showing
code, graphics, and accompanying computer listings---for all the
methods they cover. They emphasize how to construct and
interpret graphs, discuss principles of graphical design, and
show how accompanying traditional tabular results are used to
confirm the visual impressions derived directly from the
graphs. Many of the graphical formats are novel and appear
here for the first time in print. All chapters have exercises.
Diff between HH versions 2.1-7 dated 2008-01-25 and 2.1-8 dated 2008-03-14
HH-2.1-7/HH/R/bwplot.formula.revised.R |only HH-2.1-7/HH/man/bwplot.formula.Rd |only HH-2.1-8/HH/DESCRIPTION | 7 HH-2.1-8/HH/R/glht.mmc.R | 35 +- HH-2.1-8/HH/R/interaction.positioned.R | 4 HH-2.1-8/HH/R/intxplot.s | 8 HH-2.1-8/HH/R/mcalinfct.R | 8 HH-2.1-8/HH/R/meanslinfct.hh.R |only HH-2.1-8/HH/R/multicomp.mmc.R | 5 HH-2.1-8/HH/R/norm.curve.R | 297 +++++++++++++++++++++++- HH-2.1-8/HH/R/panel.bwplot.intermediate.hh.R | 4 HH-2.1-8/HH/R/panel.interaction2wt.R | 5 HH-2.1-8/HH/R/plot.multicomp.R | 4 HH-2.1-8/HH/R/position.R | 33 -- HH-2.1-8/HH/demo/MMC.WoodEnergy.R | 6 HH-2.1-8/HH/demo/MMC.apple.R | 6 HH-2.1-8/HH/demo/MMC.catalystm.R | 14 - HH-2.1-8/HH/demo/MMC.cc176.R | 4 HH-2.1-8/HH/demo/MMC.pulmonary.R | 13 - HH-2.1-8/HH/demo/nottem.r | 2 HH-2.1-8/HH/man/aov.sufficient.Rd | 16 - HH-2.1-8/HH/man/as.multicomp.Rd | 5 HH-2.1-8/HH/man/mcalinfct.Rd | 7 HH-2.1-8/HH/man/mmc.Rd | 26 +- HH-2.1-8/HH/man/norm.curve.Rd | 67 ++++- HH-2.1-8/HH/man/panel.bwplot.intermediate.hh.Rd | 7 HH-2.1-8/HH/man/plot.mmc.multicomp.Rd | 12 HH-2.1-8/HH/man/position.Rd | 54 ++-- 28 files changed, 523 insertions(+), 126 deletions(-)
Author: Nagiza F. Samatova
Diff between taskPR versions 0.30 dated 2008-03-13 and 0.31 dated 2008-03-13
Title: Task-Parallel R Package
Description: The Task-Parallel R ("task-pR") system, repackaged as an R package
..Rcheck/00check.log | 4 +---
..Rcheck/00install.out | 7 +++----
..Rcheck/taskPR-Ex.Rout | 2 +-
..Rcheck/taskPR/DESCRIPTION | 2 +-
..Rcheck/taskPR/Meta/package.rds |binary
..Rcheck/taskPR/R/taskPR | 2 +-
..Rcheck/taskPR/libs/taskPR.so |binary
DESCRIPTION | 6 +++---
R/pRMain.R | 2 +-
src/extra.c | 3 ++-
src/hashtable.c | 2 +-
11 files changed, 14 insertions(+), 16 deletions(-)
Author: Tarn Duong
Diff between ks versions 1.5.4 dated 2007-10-24 and 1.5.5 dated 2008-03-13
Title: Kernel smoothing
Description: Kernel density estimators and kernel discriminant analysis for multivariate data
DESCRIPTION | 6
R/kda.R | 6
R/kde.R | 87 +++++++--
R/normal.R | 503 +++++++++++++++++++++++++++----------------------------
R/prelim.R | 18 +
R/selector.R | 32 ++-
inst/doc/kde.log | 128 +++++++------
inst/doc/kde.pdf |binary
inst/doc/kde.tex | 2
man/Hpi.Rd | 8
man/pre.scale.Rd | 9
11 files changed, 437 insertions(+), 362 deletions(-)
Author: Nagiza F. Samatova
Diff between taskPR versions 0.2.7 dated 2005-05-12 and 0.30 dated 2008-03-13
Title: Task-Parallel R Package
Description: The Task-Parallel R ("task-pR") system, repackaged as an R package
taskPR-0.2.7/taskPR/src/Defn.h |only
taskPR-0.2.7/taskPR/src/Errormsg.h |only
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taskPR-0.30/taskPR/INDEX | 4
taskPR-0.30/taskPR/R/pRMain.R | 12
taskPR-0.30/taskPR/R/pRWorker.R | 8
taskPR-0.30/taskPR/README | 43
taskPR-0.30/taskPR/configure | 5806 +++++++++++++++++++++++++++------
taskPR-0.30/taskPR/configure.alt |only
taskPR-0.30/taskPR/configure.in | 60
taskPR-0.30/taskPR/man/StartWorker.Rd | 2
taskPR-0.30/taskPR/src/Makefile | 5
taskPR-0.30/taskPR/src/Makefile.old |only
taskPR-0.30/taskPR/src/Makevars | 6
taskPR-0.30/taskPR/src/Makevars.in | 2
taskPR-0.30/taskPR/src/create_links.sh | 8
taskPR-0.30/taskPR/src/extra.c | 251 +
taskPR-0.30/taskPR/src/hashtable.c | 2
taskPR-0.30/taskPR/src/hashtable.h | 2
taskPR-0.30/taskPR/src/mpspawn.c | 16
taskPR-0.30/taskPR/src/peval.c | 42
taskPR-0.30/taskPR/src/peval.h | 10
taskPR-0.30/taskPR/src/scheduler.c | 2
taskPR-0.30/taskPR/src/scheduler.h | 15
taskPR-0.30/taskPR/src/spawnhelper.c | 16
taskPR-0.30/taskPR/src/worker.c | 26
29 files changed, 5195 insertions(+), 1157 deletions(-)
Author: Roger Bivand
Title: Interface between GRASS 6 geographical information system and R
Description: Interpreted interface between GRASS 6 geographical
information system and R, based on starting R from within the GRASS
environment.
Diff between spgrass6 versions 0.5-2 dated 2008-02-03 and 0.5-3 dated 2008-03-12
ChangeLog | 4 ++++ DESCRIPTION | 6 +++--- R/vect_link.R | 19 ++++++++++++++++--- inst/ChangeLog | 4 ++++ 4 files changed, 27 insertions(+), 6 deletions(-)
Author: Daniel Adler
Diff between rgl versions 0.76 dated 2007-12-02 and 0.77 dated 2008-03-12
Title: 3D visualization device system (OpenGL)
Description: 3D visualization device (OpenGL)
DESCRIPTION | 10 +++++-----
R/persp3d.R | 3 ++-
R/plot3d.R | 6 +++---
R/scene.R | 10 ++++++----
configure.win | 28 ++++++++++++++++++++++------
inst/NEWS | 7 ++++++-
man/persp3d.Rd | 20 +++++++++++++++-----
man/surface.Rd | 3 ++-
man/surface3d.Rd | 3 ++-
src/api.cpp | 4 +++-
src/par3d.cpp | 15 +++++++++++----
src/pngpixmap.h | 18 +++++++++---------
12 files changed, 86 insertions(+), 41 deletions(-)
Author: Hemant Ishwaran
Diff between randomSurvivalForest versions 3.2.0 dated 2008-02-11 and 3.2.1 dated 2008-03-12
More information about randomSurvivalForest at CRAN
Title: Ishwaran and Kogalur's Random Survival Forest
Description: Ensemble survival analysis based on a random forest of trees using random inputs.
DESCRIPTION | 8
R/find.interaction.R | 8
R/interaction.rsf.R | 31 +
R/plot.ensemble.R | 2
R/plot.error.R | 2
R/plot.proximity.R | 14
R/plot.rsf.R | 2
R/plot.variable.R | 16
R/pmml_to_rsf.R | 2
R/predict.rsf.R | 675 +++++++++++++++++-----------------
R/print.rsf.R | 2
R/randomSurvivalForest.R | 2
R/rsf.R | 2
R/rsf.default.R | 897 ++++++++++++++++++++++-----------------------
R/rsf.formula.R | 2
R/rsf.news.R | 2
R/rsf_to_pmml.R | 2
R/zzz.R | 2
inst/NEWS | 38 +
man/find.interaction.Rd | 18
man/interaction.rsf.Rd | 17
man/plot.variable.Rd | 43 +-
man/predict.rsf.Rd | 7
man/recid.Rd | 1
man/rsf.Rd | 68 +--
src/extern.h | 6
src/global.h | 3
src/node.h | 5
src/node_ops.c | 52 --
src/node_ops.h | 7
src/nrutil.c | 8
src/nrutil.h | 7
src/rsf.c | 567 +++++-----------------------
src/rsf.h | 47 --
src/rsfBootstrap.c | 102 -----
src/rsfBootstrap.h | 4
src/rsfEntry.c |only
src/rsfEntry.h |only
src/rsfImpute.c | 35 +
src/rsfImpute.h | 2
src/rsfSplit.c | 589 ++++++++++++++++++------------
src/rsfSplit.h | 33 -
src/rsfStack.c | 82 ++--
src/rsfStack.h | 8
src/rsfUtil.c | 922 ++++++++++++++++++++++++++++++++---------------
src/rsfUtil.h | 27 +
46 files changed, 2232 insertions(+), 2137 deletions(-)
Permanent link
Author: Graham Williams
Diff between pmml versions 1.1.3 dated 2007-09-30 and 1.1.5 dated 2008-03-12
Title: Generate PMML for various models
Description: The Predictive Modelling Markup Language (PMML) is a language
for representing models, in an application independent way. Such models
can then be loaded into other applications supporting PMML, including
ADAPA from Zementis, Teradata Warehouse Miner and IBM's DB2.
The package provides a generic pmml function to generate pmml for an
object. Using a S3 generic function the approriate method for the
class of the supplied object is dispatched.
The package currently supports the export of PMML for linear
regression, SVMs, rpart classification trees,
randomSurvivalForest forest models, and kmeans clusters.
This package is part of the Rattle toolkit.
DESCRIPTION | 14
NAMESPACE | 1
R/pmml.R | 3720 ++++++++++++++++++++++++++++++++++++-------------------
man/pmml.ksvm.Rd |only
man/pmml.lm.Rd | 4
man/pmml.nnet.Rd |only
6 files changed, 2497 insertions(+), 1242 deletions(-)
Author: Timur V. Elzhov, Katharine M. Mullen
Title: R interface to the Levenberg-Marquardt nonlinear least-squares algorithm found in MINPACK
Description: Provides R interface to lmder and lmdif from the MINPACK library, for solving nonlinear least-squares problems by a modification of the Levenberg-Marquardt algorithm.
Diff between minpack.lm versions 1.0-5 dated 2005-04-19 and 1.0-8 dated 2008-03-12
DESCRIPTION | 17 +--- NAMESPACE |only R/nls.lm.R | 110 ++++++++++++++++++++------- R/zzz.R |only inst/COPYRIGHTS | 23 +---- man/nls.lm.Rd | 199 ++++++++++++++++++++++---------------------------- man/nls.lm.control.Rd |only src/Makevars | 3 src/fcn_lmder.c | 8 +- src/fcn_lmdif.c | 15 ++- src/fcn_message.c | 6 + src/getsse.f |only src/lmder.f | 54 +++++++++---- src/lmdif.f | 57 +++++++++----- src/minpack_lm.h | 14 +-- src/nls_lm.c | 102 +++++++++++++------------ src/ss.f |only 17 files changed, 337 insertions(+), 271 deletions(-)
Author: Sřren Hřjsgaard
Diff between mimR versions 2.1.4 dated 2008-02-07 and 2.2.0 dated 2008-03-12
Title: A package for graphical modelling in R
Description: An R interface to MIM for graphical modelling in R
mimR-2.1.4/mimR/man/MIMfit.Rd |only
mimR-2.2.0/mimR/ChangeLog | 7 +++++++
mimR-2.2.0/mimR/DESCRIPTION | 4 ++--
mimR-2.2.0/mimR/INDEX | 2 +-
mimR-2.2.0/mimR/NAMESPACE | 2 +-
mimR-2.2.0/mimR/R/mim-model-fit.R | 4 ++--
mimR-2.2.0/mimR/man/MIM-fit.Rd |only
mimR-2.2.0/mimR/man/imputeMissing.Rd | 2 +-
mimR-2.2.0/mimR/man/retrieveData.Rd | 2 +-
9 files changed, 15 insertions(+), 8 deletions(-)
Author: Stephen Milborrow
Title: Just-in-time compiler
Description:
Enable just-in-time (JIT) compilation.
The functions in this package are useful only under Ra and have no effect under R.
This version of the jit package is for Ra 1.0.6.
Diff between jit versions 0.0-2 dated 2008-03-07 and 0.0-3 dated 2008-03-12
DESCRIPTION | 6 +++--- NEWS | 3 +++ R/jit.R | 2 +- man/jit.Rd | 5 +++-- 4 files changed, 10 insertions(+), 6 deletions(-)
Author: Edzer J. Pebesma
Diff between gstat versions 0.9-43 dated 2008-02-04 and 0.9-44 dated 2008-03-12
Title: geostatistical modelling, prediction and simulation
Description: variogram modelling; simple, ordinary and universal point
or block (co)kriging, sequential Gaussian or indicator (co)simulation;
variogram and variogram map plotting utility functions.
DESCRIPTION | 6
INDEX | 2
NAMESPACE | 2
R/gstat.formula.predict.R | 20
R/hscat.R | 2
R/panel.pointPairs.R | 4
R/predict.gstat.R | 4
demo/pcb.R | 4
inst/doc/gstat.pdf |29149 ++++++++++++++++++++++-----------------------
man/gstat-internal.Rd | 6
man/hscat.Rd | 6
man/krige.cv.Rd | 21
man/plot.gstatVariogram.Rd | 4
man/vgm.panel.Rd |only
src/data.c | 2
src/version.h | 4
16 files changed, 14787 insertions(+), 14449 deletions(-)
Author: Sřren Hřjsgaard
Diff between gRc versions 0.1.2 dated 2008-02-04 and 0.1.4 dated 2008-03-12
Title: Inference in Graphical Gaussian Models with Edge and Vertex Symmetries
Description: Estimation, model selection and other aspects of statistical inference in Graphical Gaussian models with edge and vertex symmetries (Graphical Gaussian models with colours)
gRc-0.1.2/gRc/src/Makevars |only
gRc-0.1.4/gRc/ChangeLog | 18 ++
gRc-0.1.4/gRc/DESCRIPTION | 4
gRc-0.1.4/gRc/R/fitMain.R | 57 +++------
gRc-0.1.4/gRc/R/getScoreAndInformation4.R | 189 +-----------------------------
gRc-0.1.4/gRc/R/rcox-ScoreMatching4.R | 76 ++++++------
gRc-0.1.4/gRc/R/rcox-Scoring.R | 22 ++-
gRc-0.1.4/gRc/R/rcox4.R | 106 +++++-----------
gRc-0.1.4/gRc/R/switchThetaK4.R | 84 ++++++++++---
gRc-0.1.4/gRc/man/fit.Rd | 7 -
10 files changed, 209 insertions(+), 354 deletions(-)
Author: Sřren Hřjsgaard
Diff between gRbase versions 0.2.4 dated 2008-01-07 and 0.3.0 dated 2008-03-12
Title: A package for graphical modelling in R
Description: This package defines S3-classes gmData (graphical meta data), gModel (graphical model). Several other graphical modelling packages rely on these fundamental constructs. gRbase illustrates how hierarchical log-linear models (hllm) may be implemented.
ChangeLog | 15 +
DESCRIPTION | 6
R/gRfit.R | 2
R/ggm.R | 2
R/hllm.R | 38 +--
data/breastcancer.txt | 500 +++++++++++++++++++++++++-------------------------
inst/doc/gRbase.log | 4
inst/doc/gRbase.pdf |binary
man/gRfit.Rd | 8
man/hllm.Rd | 5
10 files changed, 300 insertions(+), 280 deletions(-)
Author: Mark S. Handcock
Diff between ergm versions 2.0-5 dated 2008-02-18 and 2.0-6 dated 2008-03-12
Title: Fit, Simulate and Diagnose Exponential-Family Models for Networks
Description: An integrated set of tools to analyze and simulate networks based on exponential-family random graph models (ERGM). "ergm" is a part of the "statnet" suite of packages for network analysis. For a list of functions type: help(package='ergm')
DESCRIPTION | 6
R/InitConstraint.R | 8
R/InitErgm.R | 844 +++++++++++++++---------------
R/InitErgmTerm.R | 297 ++++++++++
R/InitMHP.R | 39 -
R/anova.ergm.R | 70 +-
R/check.ErgmTerm.R | 23
R/ergm.getmodel.R | 4
R/ergm.utility.R | 62 +-
R/getMHproposal.R | 2
R/gof.ergm.R | 41 -
R/mcmc.diagnostics.ergm.R | 4
R/plot.ergm.R | 362 ++++++-------
R/print.ergm.R | 10
R/print.summary.ergm.R |only
R/simulate.ergm.R | 22
R/summary.ergm.R | 100 ---
man/ergm-internal.Rd | 14
man/ergm-terms.Rd | 20
src/changestats.c | 1265 ++++++++++++++++++++++------------------------
src/changestats.h | 8
tests/mple_largenetwork.R | 6
tests/termtests.R | 46 +
23 files changed, 1756 insertions(+), 1497 deletions(-)
Author: Virasakdi Chongsuvivatwong
Diff between epicalc versions 2.6.2.5 dated 2008-03-09 and 2.6.2.6 dated 2008-03-12
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.
DESCRIPTION | 6 -
R/epicalc.R | 239 ++++++++++++++++++++++++++++++++++------------
man/Hakimi.rd | 4
man/print.n.for.2means.rd |only
man/print.n.for.2p.rd |only
man/print.n.for.lqas.rd |only
man/print.n.for.survey.rd |only
man/sampsize.rd | 32 +++++-
8 files changed, 211 insertions(+), 70 deletions(-)
Author: Peter Rossi
Diff between bayesm versions 2.2-0 dated 2008-03-07 and 2.2-1 dated 2008-03-12
Title: Bayesian Inference for Marketing/Micro-econometrics
Description: bayesm covers many important models used
in marketing and micro-econometrics applications.
The package includes:
Bayes Regression (univariate or multivariate dep var),
Bayes Seemingly Unrelated Regression (SUR),
Binary and Ordinal Probit,
Multinomial Logit (MNL) and Multinomial Probit (MNP),
Multivariate Probit,
Negative Binomial (Poisson) Regression,
Multivariate Mixtures of Normals (including clustering),
Dirichlet Process Prior Density Estimation with normal base,
Hierarchical Linear Models with normal prior and covariates,
Hierarchical Linear Models with a mixture of normals prior and covariates,
Hierarchical Multinomial Logits with a mixture of normals prior
and covariates,
Hierarchical Negative Binomial Regression Models,
Bayesian analysis of choice-based conjoint data,
Bayesian treatment of linear instrumental variables models,
and
Analyis of Multivariate Ordinal survey data with scale
usage heterogeneity (as in Rossi et al, JASA (01)).
For further reference, consult our book, Bayesian Statistics and
Marketing by Rossi, Allenby and McCulloch.
DESCRIPTION | 8
R/rivDP.R | 8
inst/doc/bayesm-manual.pdf | 5493 +++++++++++++++++++++++----------------------
man/customerSat.Rd | 1
man/fsh.Rd | 1
man/rDPGibbs.Rd | 64
man/rivDP.Rd | 16
man/rmvpGibbs.Rd | 1
8 files changed, 2871 insertions(+), 2721 deletions(-)
Author: Yihui Xie
Title: Demonstrate Animations in Statistics
Description: This package consists of various functions for animations in statistics, covering many areas such as probability theory, mathematical statistics, multivariate statistics, nonparamatric statstics, sampling survey, linear models, time series, computational statistics, data mining and machine learning. These functions might be of help in teaching statistics and data analysis.
Diff between animation versions 0.1-7 dated 2008-01-27 and 0.1-8 dated 2008-03-12
DESCRIPTION | 8 R/flip.coin.R | 41 inst/NEWS | 17 inst/doc/Rplots.ps | 1158 +++++++++--------- inst/doc/animation.Rnw | 2999 ++++++++++++++++++++++++++++------------------ inst/doc/animation.pdf | 3005 +++++++++++++++++++++++------------------------ inst/doc/bib.bib | 18 man/animation-package.Rd | 2 man/flip.coin.Rd | 15 9 files changed, 3980 insertions(+), 3283 deletions(-)
Author: Roger Bivand
Title: Interface between GRASS 5.0 geographical information system and R
Description: Interface between GRASS 5.0 geographical information system and R,
based on starting R from within the GRASS environment using values
of environment variables set in the GISRC file. Interface examples
should be run outside GRASS, others may be run within. Wrapper and
helper functions are provided for a range of R functions to match the
interface metadata structures.
Diff between GRASS versions 0.3-6 dated 2007-11-03 and 0.3-7 dated 2008-03-12
DESCRIPTION | 6 +++--- src/Makevars.win | 1 + src/gisinit.c | 6 +++--- src/mapset.c | 2 +- src/mapset_msc.c | 2 +- 5 files changed, 9 insertions(+), 8 deletions(-)
Author: Holger Froehlich
Diff between GOSim versions 1.1.2 dated 2007-12-10 and 1.1.3.1 dated 2008-03-12
Title: Computation of functional similarities between GO terms and gene products; GO enrichement analysis
Description: This package implements several functions useful for
computing similarities between GO terms and gene products based on their GO annotation
DESCRIPTION | 11
R/GOenrichment.R | 4
R/clusterEvaluation.R | 9
R/geneSimilarity.R | 8
R/termSimilarity.R | 97 ++-
inst/doc/GOSim.Rnw | 1
inst/doc/GOSim.log | 74 +-
inst/doc/GOSim.pdf | 1263 +++++++++++++++++++++-----------------------
inst/doc/GOSim.tex | 35 -
man/GOenrichment.Rd | 8
man/calcICs.Rd | 10
man/evaluateClustering.Rd | 11
man/getDisjCommAnc.Rd | 3
man/getGOGraph.Rd | 15
man/getGOInfo.Rd | 6
man/getTermSim.Rd | 12
man/internal.Rd | 1
man/setEnrichmentFactors.Rd | 6
18 files changed, 795 insertions(+), 779 deletions(-)
Author: Kurt Hornik, with contributions from Walter Boehm
Title: Cluster ensembles
Description: CLUster Ensembles
Diff between clue versions 0.3-21 dated 2008-01-19 and 0.3-22 dated 2008-03-12
DESCRIPTION | 6 +-- R/addtree.R | 6 +-- R/consensus.R | 17 ++++---- R/pclust.R | 103 +++++++++++++++++++++++++++++++++++++++++------------- R/predict.R | 12 ++++-- R/ultrametric.R | 8 ++-- inst/doc/clue.pdf |binary man/pclust.Rd | 2 - 8 files changed, 109 insertions(+), 45 deletions(-)
Author: Kurt Hornik, with contributions from Christian Buchta,
Torsten Hothorn, Alexandros Karatzoglou, David Meyer, and
Achim Zeileis
Title: R/Weka interface
Description: An R interface to Weka (Version 3.5.7).
Weka is a collection of machine learning algorithms for data mining
tasks written in Java, containing tools for data pre-processing,
classification, regression, clustering, association rules, and
visualization. Both the R interface and Weka itself are contained
in the RWeka package. For more information on Weka see
http://www.cs.waikato.ac.nz/~ml/weka/.
Diff between RWeka versions 0.3-9 dated 2007-12-24 and 0.3-10 dated 2008-03-12
DESCRIPTION | 18 +++++++++--------- configure | 55 +++++++++++++++++++++++++++++-------------------------- inst/CITATION | 11 +++++++---- 3 files changed, 45 insertions(+), 39 deletions(-)
Author: Andrew Parnell
Title: Stable Isotope Analysis in R
Description: This package takes data on organism isotopes and fits a Bayesian model to their dietary habits based upon a Gaussian likelihood with a mixture Beta-distributed prior on the mean.
Diff between siar versions 1.2 dated 2008-02-29 and 1.3 dated 2008-03-09
DESCRIPTION | 4 +-- NAMESPACE | 2 - R/panelcor.R |only R/panelhist.R | 4 --- R/siarmenu.R | 56 ++++++++++++++++++++++++++--------------------- data/allgroups.rda |binary data/geese2demo.rda |binary data/sourcesdemo.rda |binary man/panelcor.Rd |only src/siarmcmcmultigroup.c | 5 ++-- src/use.c | 16 +++++++++---- 11 files changed, 50 insertions(+), 37 deletions(-)
Author: Jim Lemon
Diff between plotrix versions 2.3-2 dated 2008-02-21 and 2.3-3 dated 2008-03-09
Title: Various plotting functions
Description: Lots of plots, various labeling, axis and color scaling functions.
DESCRIPTION | 4 ++--
INDEX | 4 +++-
R/addtable2plot.R | 11 +++++++++--
R/gantt.R | 23 +++++++++++++++--------
R/stackpoly.R |only
R/tab.title.R |only
R/thigmophobe.R | 19 +++++++++++++++++++
man/stackpoly.Rd |only
man/tab.title.Rd |only
man/thigmophobe.Rd | 2 +-
man/thigmophobe.labels.Rd | 4 ++++
11 files changed, 53 insertions(+), 14 deletions(-)
Author: Virasakdi Chongsuvivatwong
Diff between epicalc versions 2.6.2.4 dated 2008-03-02 and 2.6.2.5 dated 2008-03-09
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.
DESCRIPTION | 6 ++---
R/epicalc.R | 60 ++++++++++++++++++++++++++++++----------------------
man/alpha.rd | 8 +++++-
man/risk.display.rd | 25 ++++++++++++---------
4 files changed, 58 insertions(+), 41 deletions(-)
Author: Ben Bolker
Diff between bbmle versions 0.8.2 dated 2007-11-17 and 0.8.5 dated 2008-03-09
Title: Tools for general maximum likelihood estimation
Description: Methods and functions for fitting maximum likelihood models in R. This package modifies and extends the mle classes in the stats4 package.
DESCRIPTION | 6 +++---
NEWS | 10 ++++++++++
R/mle.R | 38 ++++++++++++++++++++++++++++++++------
TODO | 16 +++++++++++-----
experimental/dists.R | 30 ++++++++++++++++++++++++++++--
inst/doc/mle2-010.pdf | 6 +++---
inst/doc/mle2-025.pdf | 6 +++---
inst/doc/mle2-026.pdf | 6 +++---
inst/doc/mle2.log | 24 ++++++++----------------
inst/doc/mle2.pdf |binary
man/mle-class.Rd | 3 ---
man/profile-methods.Rd |only
tests/mortanal.Rout.save | 18 +++++++++---------
tests/plot-methods.Rd |only
tests/profile-methods.Rd |only
tests/testbounds.R |only
16 files changed, 110 insertions(+), 53 deletions(-)
Author: Stephen Milborrow
Title: Just-in-time compiler
Description:
Enable just-in-time (JIT) compilation.
The functions in this package are useful only under Ra and have no effect under R.
This version of the jit package is for Ra 1.0.5.
Diff between jit versions 0.0-1 dated 2008-03-06 and 0.0-2 dated 2008-03-07
DESCRIPTION | 8 ++++---- NEWS | 1 + man/jit.Rd | 10 +++++----- 3 files changed, 10 insertions(+), 9 deletions(-)
Author: Wolfgang Breymann, David Luethi
Title: A package on the generalized hyperbolic distribution and its special cases
Description: This package provides detailed functionality for working with the univariate and multivariate Generalized Hyperbolic distribution and its special cases (Hyperbolic (hyp), Normal Inverse Gaussian (NIG), Variance Gamma (VG), skewed Student-t and Gaussian distribution). Especially, it contains fitting procedures, an AIC-based model selection routine, and functions for the computation of density, quantile, probability, random variates, expected shortfall and some portfolio optimization and plotting routines as well as the likelihood ratio test. In addition, it contains the Generalized Inverse Gaussian distribution.
Diff between ghyp versions 1.1.0 dated 2008-02-05 and 1.2.0 dated 2008-03-07
ghyp-1.1.0/ghyp/man/ghyp-deprecated.Rd |only ghyp-1.2.0/ghyp/ChangeLog | 18 ghyp-1.2.0/ghyp/DESCRIPTION | 12 ghyp-1.2.0/ghyp/NAMESPACE | 12 ghyp-1.2.0/ghyp/R/AIC.mle.ghyp.r | 26 ghyp-1.2.0/ghyp/R/EGIG.r | 115 ghyp-1.2.0/ghyp/R/ESghyp.r | 67 ghyp-1.2.0/ghyp/R/ESgig.r | 37 ghyp-1.2.0/ghyp/R/abar2chipsi.r | 36 ghyp-1.2.0/ghyp/R/check.data.r | 22 ghyp-1.2.0/ghyp/R/check.gig.pars.r | 12 ghyp-1.2.0/ghyp/R/check.opt.pars.r | 10 ghyp-1.2.0/ghyp/R/classes.r | 3 ghyp-1.2.0/ghyp/R/coef.ghyp.r | 52 ghyp-1.2.0/ghyp/R/dghyp.r | 42 ghyp-1.2.0/ghyp/R/dgig.r | 34 ghyp-1.2.0/ghyp/R/extract.ghyp.r | 6 ghyp-1.2.0/ghyp/R/fit.ghypmv.r | 4 ghyp-1.2.0/ghyp/R/fit.ghypuv.r | 1 ghyp-1.2.0/ghyp/R/fit.mvWrapper.r | 45 ghyp-1.2.0/ghyp/R/fit.uvWrapper.r | 43 ghyp-1.2.0/ghyp/R/get.stepAIC.ghyp.r |only ghyp-1.2.0/ghyp/R/ghyp.data.r | 2 ghyp-1.2.0/ghyp/R/ghyp.fit.info.r | 2 ghyp-1.2.0/ghyp/R/ghyp.model.r | 53 ghyp-1.2.0/ghyp/R/ghyp.r | 38 ghyp-1.2.0/ghyp/R/ghypWrapper.r | 164 ghyp-1.2.0/ghyp/R/integrate.moment.ghypuv.r | 4 ghyp-1.2.0/ghyp/R/internal.dghyp.r | 82 ghyp-1.2.0/ghyp/R/internal.dghypmv.r | 60 ghyp-1.2.0/ghyp/R/is.gaussian.r |only ghyp-1.2.0/ghyp/R/is.symmetric.t.r |only ghyp-1.2.0/ghyp/R/is.univariate.r |only ghyp-1.2.0/ghyp/R/mle.default.r | 18 ghyp-1.2.0/ghyp/R/p.default.r | 17 ghyp-1.2.0/ghyp/R/pairs.ghyp.r | 2 ghyp-1.2.0/ghyp/R/pghyp.r | 57 ghyp-1.2.0/ghyp/R/pgig.r | 33 ghyp-1.2.0/ghyp/R/portfolio.optimize.r | 7 ghyp-1.2.0/ghyp/R/q.default.r | 25 ghyp-1.2.0/ghyp/R/qghyp.r | 92 ghyp-1.2.0/ghyp/R/qgig.r | 120 ghyp-1.2.0/ghyp/R/qqghyp.r | 61 ghyp-1.2.0/ghyp/R/rghyp.r | 26 ghyp-1.2.0/ghyp/R/rgig.r | 4 ghyp-1.2.0/ghyp/R/show.ghyp.r | 149 ghyp-1.2.0/ghyp/R/show.mle.ghyp.r | 2 ghyp-1.2.0/ghyp/R/stepAIC.ghyp.r | 45 ghyp-1.2.0/ghyp/R/summary.mle.ghyp.r | 27 ghyp-1.2.0/ghyp/R/t.transform.r | 4 ghyp-1.2.0/ghyp/R/test.ghyp.r | 2 ghyp-1.2.0/ghyp/R/transform.ghyp.r | 23 ghyp-1.2.0/ghyp/R/vcov.ghyp.r | 2 ghyp-1.2.0/ghyp/inst/cleanup | 2 ghyp-1.2.0/ghyp/inst/doc/Generalized_Hyperbolic_Distribution.Snw | 398 ghyp-1.2.0/ghyp/inst/doc/Generalized_Hyperbolic_Distribution.pdf |56530 ++++------ ghyp-1.2.0/ghyp/inst/doc/ghyp.bib |only ghyp-1.2.0/ghyp/man/coef-methods.Rd | 42 ghyp-1.2.0/ghyp/man/fit.ghypmv.Rd | 27 ghyp-1.2.0/ghyp/man/fit.ghypuv.Rd | 184 ghyp-1.2.0/ghyp/man/ghyp-constructors.Rd | 101 ghyp-1.2.0/ghyp/man/ghyp-distribution.Rd | 24 ghyp-1.2.0/ghyp/man/ghyp-get.Rd | 19 ghyp-1.2.0/ghyp/man/ghyp-internal.Rd | 29 ghyp-1.2.0/ghyp/man/ghyp-mle.ghyp-classes.Rd | 70 ghyp-1.2.0/ghyp/man/ghyp-package.Rd | 41 ghyp-1.2.0/ghyp/man/ghyp.moments.Rd | 4 ghyp-1.2.0/ghyp/man/gig-distribution.Rd | 17 ghyp-1.2.0/ghyp/man/hist-methods.Rd | 8 ghyp-1.2.0/ghyp/man/lik.ratio.test.Rd | 8 ghyp-1.2.0/ghyp/man/logLik-AIC-methods.Rd | 6 ghyp-1.2.0/ghyp/man/pairs-methods.Rd | 4 ghyp-1.2.0/ghyp/man/plot-lines-methods.Rd | 2 ghyp-1.2.0/ghyp/man/portfolio.optimize.Rd | 17 ghyp-1.2.0/ghyp/man/qq-ghyp.Rd | 6 ghyp-1.2.0/ghyp/man/stepAIC.ghyp.Rd | 22 ghyp-1.2.0/ghyp/man/summary-methods.Rd | 2 ghyp-1.2.0/ghyp/man/transform-extract-methods.Rd | 6 78 files changed, 27659 insertions(+), 31628 deletions(-)
Author: Luke Harmon
Diff between geiger versions 1.2-06 dated 2008-01-31 and 1.2-13 dated 2008-03-07
Title: Analysis of evolutionary diversification
Description: Running macroevolutionary simulation, and estimating parameters related to diversification from comparative phylogenetic data.
DESCRIPTION | 6 +--
R/deltaTree.R | 2 -
R/fitContinuous.R | 77 ++++++++++++++++++++++++++++++++++++++++++++++-----
R/fitDiscrete.R | 11 +++++--
R/name.check.R | 4 --
R/treedata.R | 1
man/deltaTree.Rd | 4 +-
man/fitContinuous.Rd | 5 ++-
8 files changed, 90 insertions(+), 20 deletions(-)
Author: Sřren Hřjsgaard
Diff between gRain versions 0.1.2 dated 2008-03-03 and 0.2.0 dated 2008-03-07
Title: Graphical Independence Networks
Description: A package for probability propagation in graphical independence networks, also known as probabilistic expert systems (which includes Bayesian networks as a special case).
gRain-0.1.2/gRain/R/NewStuff.R |only
gRain-0.1.2/gRain/R/TableOp1.R |only
gRain-0.1.2/gRain/R/TableOp2.R |only
gRain-0.1.2/gRain/R/simulate.R |only
gRain-0.1.2/gRain/inst/doc/TabOp.pdf |only
gRain-0.2.0/gRain/ChangeLog | 19 ++++
gRain-0.2.0/gRain/DESCRIPTION | 6 -
gRain-0.2.0/gRain/NAMESPACE | 27 +++---
gRain-0.2.0/gRain/R/Evidence.R | 6 -
gRain-0.2.0/gRain/R/Graphsh-update.R |only
gRain-0.2.0/gRain/R/SimulateArray.R |only
gRain-0.2.0/gRain/R/TabOpArray.R |only
gRain-0.2.0/gRain/R/allClasses-Graphsh.R | 17 ----
gRain-0.2.0/gRain/R/cpt.R | 117 +++++++++++++++++++++++++++--
gRain-0.2.0/gRain/R/gmInstance.R | 20 +++-
gRain-0.2.0/gRain/R/loadSaveHuginNet.R | 69 +++++++++--------
gRain-0.2.0/gRain/R/potentialList.R | 4
gRain-0.2.0/gRain/R/predict.R | 3
gRain-0.2.0/gRain/R/propagate.R | 20 +++-
gRain-0.2.0/gRain/R/querygm.R | 41 ++++++----
gRain-0.2.0/gRain/R/summary.R | 23 ++---
gRain-0.2.0/gRain/R/xxx2yyy.R | 7 +
gRain-0.2.0/gRain/inst/doc/gRain.pdf |binary
gRain-0.2.0/gRain/inst/doc/gRash.pdf |binary
gRain-0.2.0/gRain/inst/doc/gRpotential.pdf |only
gRain-0.2.0/gRain/man/ctab.Rd | 38 +++++----
gRain-0.2.0/gRain/man/gmInstance.Rd | 38 +++++++--
gRain-0.2.0/gRain/man/internal-gRain.Rd | 8 -
gRain-0.2.0/gRain/man/querygm.Rd | 4
29 files changed, 323 insertions(+), 144 deletions(-)
Author: Peter Rossi
Diff between bayesm versions 2.1-3 dated 2007-03-29 and 2.2-0 dated 2008-03-07
Title: Bayesian Inference for Marketing/Micro-econometrics
Description: bayesm covers many important models used
in marketing and micro-econometrics applications.
The package includes:
Bayes Regression (univariate or multivariate dep var),
Bayes Seemingly Unrelated Regression (SUR),
Binary and Ordinal Probit,
Multinomial Logit (MNL) and Multinomial Probit (MNP),
Multivariate Probit,
Negative Binomial (Poisson) Regression,
Multivariate Mixtures of Normals (including clustering),
Dirichlet Process Prior Density Estimation with normal base
Hierarchical Linear Models with normal prior and covariates,
Hierarchical Linear Models with a mixture of normals prior and covariates,
Hierarchical Multinomial Logits with a mixture of normals prior
and covariates,
Hierarchical Negative Binomial Regression Models,
Bayesian analysis of choice-based conjoint data,
Bayesian treatment of linear instrumental variables models,
and
Analyis of Multivariate Ordinal survey data with scale
usage heterogeneity (as in Rossi et al, JASA (01)).
For further reference, consult our book, Bayesian Statistics and
Marketing by Rossi, Allenby and McCulloch.
DESCRIPTION | 7 ++--
NAMESPACE | 2 -
R/plot.bayesm.hcoef.R | 2 -
R/plot.bayesm.mat.R | 5 +--
R/plot.bayesm.nmix.R | 79 +++++++++++++++++++++++++++++-------------------
R/rDPGibbs.R |only
R/rhierLinearMixture.R | 5 ++-
R/rhierLinearModel.R | 7 +++-
R/rhierNegbinRw.R | 31 ++++++++++--------
R/rivDP.R |only
R/rnegbinRw.R | 1
R/summary.bayesm.nmix.R | 4 +-
man/plot.bayesm.mat.Rd | 3 +
man/plot.bayesm.nmix.Rd | 18 +++++++---
man/rDPGibbs.Rd |only
man/rhierNegbinRw.Rd | 4 +-
man/rivDP.Rd |only
man/rnmixGibbs.Rd | 2 -
man/rscaleUsage.Rd | 2 -
src/thetadraw.c |only
20 files changed, 106 insertions(+), 66 deletions(-)
Author: Eun-Kyung Lee, Sung Gon Yi, Yoojin Jung, Junghyun Namkung, Taesung Park
Title: ORMDR
Description: Odds ratio based multifactor-dimensionality reduction method for detecting gene-gene interactions
Diff between ORMDR versions 1.1 dated 2007-03-16 and 1.2 dated 2008-03-07
DESCRIPTION | 8 ++++---- R/mdr_revised.R | 4 ++-- 2 files changed, 6 insertions(+), 6 deletions(-)
Author: Douglas Bates
Diff between Matrix versions 0.999375-4 dated 2008-01-13 and 0.999375-5 dated 2008-03-07
Title: A Matrix package for R
Description: Classes and methods for dense and sparse matrices and
operations on them using Lapack, CSparse and CHOLMOD
ChangeLog | 184 +++++++
DESCRIPTION | 8
Done | 54 ++
NAMESPACE | 16
R/AllClass.R | 23
R/AllGeneric.R | 16
R/Auxiliaries.R | 141 ++++-
R/CHMfactor.R | 46 +
R/Csparse.R | 35 +
R/Matrix.R | 219 +++++---
R/Ops.R | 191 ++++---
R/Rsparse.R | 37 +
R/Tsparse.R | 83 ++-
R/bind2.R | 46 -
R/dMatrix.R | 4
R/ddenseMatrix.R | 121 ++--
R/denseMatrix.R | 35 -
R/dgTMatrix.R | 15
R/dgeMatrix.R | 13
R/diagMatrix.R | 16
R/dpoMatrix.R | 6
R/dsCMatrix.R | 15
R/dspMatrix.R | 7
R/dsparseMatrix.R | 26 -
R/dsyMatrix.R | 18
R/dtCMatrix.R | 2
R/dtTMatrix.R | 8
R/eigen.R | 103 +++-
R/ldenseMatrix.R | 11
R/lsCMatrix.R | 12
R/lsparseMatrix.R | 14
R/ndenseMatrix.R | 7
R/ngCMatrix.R | 5
R/ngTMatrix.R | 3
R/nsCMatrix.R | 6
R/nsparseMatrix.R | 14
R/sparseMatrix.R | 57 +-
R/symmetricMatrix.R | 69 ++
R/triangularMatrix.R | 30 -
TODO | 89 +--
inst/doc/Comparisons.pdf |binary
inst/doc/Design-issues.Rnw |only
inst/doc/Design-issues.pdf |only
inst/doc/Intro2Matrix.Rnw | 7
inst/doc/Intro2Matrix.pdf | 1065 ++++++++++++++++++++++--------------------
inst/doc/Introduction.pdf |binary
inst/test-tools.R | 139 +++--
man/CAex.Rd | 5
man/CHMfactor-class.Rd | 12
man/Cholesky.Rd | 8
man/Schur-class.Rd |only
man/Schur.Rd | 47 +
man/Subassign-methods.Rd | 8
man/band.Rd | 10
man/chol.Rd | 12
man/dgTMatrix-class.Rd | 6
man/dsCMatrix-class.Rd | 25
man/dsRMatrix-class.Rd | 50 -
man/dsyMatrix-class.Rd | 17
man/dtCMatrix-class.Rd | 3
man/dtRMatrix-class-def.Rd | 3
man/forceSymmetric.Rd |only
man/nMatrix-class.Rd | 37 -
man/ndenseMatrix-class.Rd | 2
man/number-class.Rd |only
man/symmetricMatrix-class.Rd | 4
man/symmpart.Rd |only
man/tcrossprod.Rd | 2
man/triangularMatrix-class.Rd | 21
src/Csparse.c | 110 +++-
src/Csparse.h | 1
src/Mutils.c | 76 ++
src/Mutils.h | 22
src/TMatrix_as.c | 4
src/Tsparse.c | 91 +++
src/Tsparse.h | 2
src/chm_common.c | 97 +++
src/chm_common.h | 5
src/cs_utils.c | 14
src/dense.c | 236 ++++++++-
src/dense.h | 5
src/dgCMatrix.c | 2
src/dgeMatrix.c | 179 +++----
src/dspMatrix.c | 15
src/dsyMatrix.c | 15
src/dtTMatrix.c | 16
src/dtTMatrix.h | 1
src/dtpMatrix.c | 4
src/dtrMatrix.c | 26 -
src/init.c | 447 ++++++++---------
tests/Class+Meth.R | 14
tests/bind.Rout.save | 9
tests/factorizing.R | 44 +
tests/indexing.R | 58 ++
tests/indexing.Rout.save | 114 +++-
tests/matprod.R | 29 +
tests/matr-exp.R | 26 -
tests/simple.R | 73 +-
tests/validObj.R | 17
99 files changed, 3336 insertions(+), 1704 deletions(-)
Author: Alexis Dinno
Diff between paran versions 1.3.1 dated 2008-03-03 and 1.3.2 dated 2008-03-07
Title: Horn's Test of Principal Components/Factors
Description: paran is an implementation of Horn's technique for numerically and graphically evaluating the components or factors retained in a principle components analysis (PCA) or factor analysis (FA). Horn's method contrasts eigenvalues produced through a PCA or FA on a number of random data sets of uncorrelated variables with the same number of variables and observations as the experimental or observational data set to produce eigenvalues for components or factors that are adjusted for the sample error-induced inflation. Components with adjusted eigenvalues greater than one are retained. paran may also be used to conduct parallel analysis following Glorfeld's (1995) suggestions to reduce the likelihood of over-retention.
DESCRIPTION | 8 +++----
R/paran.R | 61 +++++++++++++++++++++++++++++++++++++++++++----------------
man/paran.Rd | 3 +-
3 files changed, 51 insertions(+), 21 deletions(-)
Author: Henrik Bengtsson
Diff between R.utils versions 0.9.8 dated 2007-11-29 and 1.0.1 dated 2008-03-07
Title: Various programming utilities
Description: This package provides utility classes and methods useful when programming in R and developing R packages.
DESCRIPTION | 9 ++++-----
R/Arguments.R | 10 +++++++---
R/GString.R | 2 +-
R/Options.R | 3 ---
R/System.R | 5 +----
R/colClasses.R |only
R/eps.R | 4 +++-
R/filePath.R | 4 ++--
R/getParent.R | 6 +++---
R/getRelativePath.R | 2 +-
R/hasUrlProtocol.R | 2 +-
R/insert.R | 12 ++++++++++--
R/intToBin.R | 2 ++
R/isPackageLoaded.R |only
R/jpeg2.R | 3 ---
R/png2.R | 3 ---
R/readWindowsShortcut.R | 24 ++++++++++++++----------
R/toUrl.R | 8 ++++----
R/touchFile.R |only
incl/colClasses.Rex |only
incl/touchFile.Rex |only
inst/HISTORY | 23 +++++++++++++++++++++++
man/Options.Rd | 3 ---
man/as.character.binmode.Rd | 1 +
man/colClasses.Rd |only
man/eps.Rd | 2 +-
man/getVerbose.Arguments.Rd | 2 +-
man/intToBin.Rd | 1 +
man/isPackageLoaded.Rd |only
man/jpeg2.Rd | 3 ---
man/parseDebian.System.Rd | 3 ---
man/png2.Rd | 3 ---
man/readWindowsShortcut.Rd | 2 ++
man/touchFile.Rd |only
34 files changed, 82 insertions(+), 60 deletions(-)
Author: Henrik Bengtsson
Diff between R.rsp versions 0.3.3 dated 2007-08-02 and 0.3.4 dated 2008-03-07
Title: R Server Pages
Description: An R Server Page (RSP) is a document that contains both text in a format of choice (HTML, TeX, ...) as well as R source code within special tags. An RSP file can be translated into a so called R servlet, which is an R script that outputs the final document when sourced. This way documents in any format can be generated dynamically using R, e.g. automatic reports of statistical analysis. Utilizing an internal cross-platform web server, this package provides dynamic help pages in HTML. If other packages provide RSP help pages, these are automatically linked to in the RSP main menu.
DESCRIPTION | 8 ++++----
R/translateRsp.R | 7 ++-----
inst/HISTORY | 8 ++++++++
man/translateRsp.Rd | 3 ---
4 files changed, 14 insertions(+), 12 deletions(-)
Author: Henrik Bengtsson
Diff between R.oo versions 1.4.1 dated 2008-01-11 and 1.4.2 dated 2008-03-07
Title: R object-oriented programming with or without references
Description: Methods and classes for object-oriented programming in R with or without references. Large effort has been made on making definition of methods as simple as possible with a minimum of maintainance for package developers. The package has been developed since 2001 and is now considered very stable. This is a cross-platform package implemented in pure R that defines standard S3 classes without any tricks.
DESCRIPTION | 6 +++---
R/040.setConstructorS3.R | 4 ++--
R/050.Object.R | 4 ++--
R/Rdoc.R | 8 ++++----
inst/CITATION |only
inst/HISTORY | 9 +++++++++
6 files changed, 20 insertions(+), 11 deletions(-)
Author: Henrik Bengtsson
Diff between R.methodsS3 versions 1.0.0 dated 2007-12-11 and 1.0.1 dated 2008-03-07
Title: Utility function for defining S3 methods
Description: Methods that simplify the setup of S3 generic functions and S3 methods. Major effort has been made in making definition of methods as simple as possible with a minimum of maintainance for package developers. For example, generic functions are created automatically, if missing, and name conflict are automatically solved, if possible. The method setMethodS3() is a good start for those who in the future want to migrate to S4. This is a cross-platform package implemented in pure R and is generating standard S3 methods.
DESCRIPTION | 8 ++++----
R/005.varArgs.R | 2 +-
R/010.setGenericS3.R | 2 +-
R/rccValidators.R | 2 +-
R/setMethodS3.R | 6 +++---
inst/CITATION |only
inst/HISTORY | 9 +++++++++
7 files changed, 19 insertions(+), 10 deletions(-)
Author: Henrik Bengtsson
Diff between R.cache versions 0.1.6 dated 2007-07-23 and 0.1.7 dated 2008-03-07
Title: Fast and light-weight caching of objects
Description: Methods for memoization, that is, caching arbitrary R objects in persistent memory. Objects can be loaded and saved stratified on a set of hashing objects.
DESCRIPTION | 11 +++++------
R/loadCache.R | 32 +++++++++++++++++++++++---------
R/readCacheHeader.R | 23 ++++++++++++++---------
R/saveCache.R | 4 ++--
inst/HISTORY | 10 ++++++++++
5 files changed, 54 insertions(+), 26 deletions(-)
Author: Feiming Chen
Title: Adjustment of Survey Respondent Weights
Description: Adjusts the weights of survey respondents so that the marginal distributions of certain variables fit more closely to those from a more precise source (e.g. Census Bureau's data).
Diff between reweight versions 1.01 dated 2006-08-07 and 1.02 dated 2008-03-06
DESCRIPTION | 20 - NAMESPACE | 12 R/reweight.R | 520 ++++++++++++++++++------------------- inst/doc/reweight-presentation.pdf |binary man/pumswgt.Rd | 134 ++++----- man/reweight.Rd | 190 ++++++------- 6 files changed, 438 insertions(+), 438 deletions(-)
Author: Charles J. Geyer
Diff between rcdd versions 1.0 dated 2008-02-11 and 1.0-1 dated 2008-03-06
Title: rcdd (C Double Description for R)
Description: R interface to (some of) cddlib,
see http://www.ifor.math.ethz.ch/~fukuda/cdd_home/cdd.html
converts back and forth between two representations of a convex polytope:
as solution of a set of linear equalities and inequalities and as
convex hull of set of points and rays,
also does linear programming with exact arithmetic
CHANGES | 2 ++
DESCRIPTION | 8 ++++----
README | 7 ++++++-
configure.win |only
inst/README |only
inst/doc/vinny.pdf |binary
inst/doc/vinny.tex | 2 +-
src/makevars.win |only
8 files changed, 13 insertions(+), 6 deletions(-)
Author: Tim Keitt
Title: Builds color tables
Description: Builds gradient color maps
Diff between colorRamps versions 2.0 dated 2007-09-10 and 2.1 dated 2008-03-06
DESCRIPTION | 4 ++-- R/colorRamps.R | 11 +++++++++++ man/colorRamps-package.Rd | 3 +-- man/primary.colors.Rd |only 4 files changed, 14 insertions(+), 4 deletions(-)
Author: Carsten F. Dormann and Bernd Gruber, with additional code from Jochen Fruend, based on the C-code developed by Nils Bluethgen.
Title: Visualises bipartite networks and calculates some ecological indices.
Description: See bipartite-package for more details.
Diff between bipartite versions 0.4 dated 2008-03-05 and 0.5 dated 2008-03-06
bipartite-0.4/bipartite/Wishlist.txt |only bipartite-0.4/bipartite/man/nestedness.Rd |only bipartite-0.5/bipartite/DESCRIPTION | 6 +++--- bipartite-0.5/bipartite/R/genweb.r |only bipartite-0.5/bipartite/R/shuffle.web.R |only bipartite-0.5/bipartite/data/kevan1970.rda |only bipartite-0.5/bipartite/man/bipartite-package.Rd | 4 ++-- bipartite-0.5/bipartite/man/genweb.Rd |only bipartite-0.5/bipartite/man/kevan1970.Rd |only bipartite-0.5/bipartite/man/nestedness.rd |only bipartite-0.5/bipartite/man/shuffle.web.Rd |only 11 files changed, 5 insertions(+), 5 deletions(-)
Author: Reinhard Harter, Kurt Hornik and Stefan Theussl
Title: Symphony in R
Description: An R interface to the SYMPHONY MILP solver (version 5.1.7).
Diff between Rsymphony versions 0.1-3 dated 2008-02-06 and 0.1-4 dated 2008-03-06
DESCRIPTION | 9 +++++---- configure.win |only src/Makevars.win |only 3 files changed, 5 insertions(+), 4 deletions(-)
Author: William Constantine (Insightful Corporation)
Title: Insightful Research Tools
Description: Insightful Research Tools.
Diff between ifultools versions 1.0-3 dated 2007-11-27 and 1.0-5 dated 2008-03-06
ifultools-1.0-3/ifultools/inst/ifultools.chm |only ifultools-1.0-5/ifultools/DESCRIPTION | 4 ifultools-1.0-5/ifultools/R/it_mutils.q | 3 ifultools-1.0-5/ifultools/R/it_plot.q | 3 ifultools-1.0-5/ifultools/R/it_util.q | 21 ifultools-1.0-5/ifultools/inst/doc |only ifultools-1.0-5/ifultools/man/ACVStoPACS.Rd | 102 +-- ifultools-1.0-5/ifultools/man/aggregateData.Rd | 82 +-- ifultools-1.0-5/ifultools/man/autoKey.Rd | 216 ++++---- ifultools-1.0-5/ifultools/man/autoText.Rd | 120 ++-- ifultools-1.0-5/ifultools/man/checkRange.Rd | 104 ++-- ifultools-1.0-5/ifultools/man/checkScalarType.Rd | 80 +-- ifultools-1.0-5/ifultools/man/checkVectorType.Rd | 82 +-- ifultools-1.0-5/ifultools/man/decibel.Rd | 78 +-- ifultools-1.0-5/ifultools/man/em.Rd | 56 +- ifultools-1.0-5/ifultools/man/gridOverlay.Rd | 74 +- ifultools-1.0-5/ifultools/man/ilogb.Rd | 86 +-- ifultools-1.0-5/ifultools/man/isVectorAtomic.Rd | 126 ++-- ifultools-1.0-5/ifultools/man/linearFit.Rd | 180 +++---- ifultools-1.0-5/ifultools/man/linearSegmentation.Rd | 188 +++---- ifultools-1.0-5/ifultools/man/logScale.Rd | 86 +-- ifultools-1.0-5/ifultools/man/mergeList.Rd | 86 +-- ifultools-1.0-5/ifultools/man/mutilsDistanceMetric.Rd | 70 +- ifultools-1.0-5/ifultools/man/mutilsFilterType.Rd | 70 +- ifultools-1.0-5/ifultools/man/mutilsFilterTypeContinuous.Rd | 70 +- ifultools-1.0-5/ifultools/man/mutilsSDF.Rd | 130 ++--- ifultools-1.0-5/ifultools/man/mutilsTransformPeakType.Rd | 72 +- ifultools-1.0-5/ifultools/man/mutilsTransformType.Rd | 72 +- ifultools-1.0-5/ifultools/man/mutilsWSShrinkageFunction.Rd | 76 +- ifultools-1.0-5/ifultools/man/mutilsWSThresholdFunction.Rd | 78 +-- ifultools-1.0-5/ifultools/man/nextDyadic.Rd | 66 +- ifultools-1.0-5/ifultools/man/ordinal.Rd | 76 +- ifultools-1.0-5/ifultools/man/prettyPrintList.Rd | 86 +-- ifultools-1.0-5/ifultools/man/properCase.Rd | 92 +-- ifultools-1.0-5/ifultools/man/rotateVector.Rd | 68 +- ifultools-1.0-5/ifultools/man/scaleData.Rd | 68 +- ifultools-1.0-5/ifultools/man/scaleZoom.Rd | 182 +++---- ifultools-1.0-5/ifultools/man/solveODE.Rd | 118 ++-- ifultools-1.0-5/ifultools/man/sparsestQuadrant.Rd | 120 ++-- ifultools-1.0-5/ifultools/man/splitplot.Rd | 120 ++-- ifultools-1.0-5/ifultools/man/stackPlot.Rd | 308 ++++++------ ifultools-1.0-5/ifultools/man/stringSize.Rd | 94 +-- ifultools-1.0-5/ifultools/man/variance.Rd | 86 +-- ifultools-1.0-5/ifultools/src/Makevars | 2 ifultools-1.0-5/ifultools/src/wav_filt.c | 12 45 files changed, 1962 insertions(+), 1951 deletions(-)
Author: Ernesto Barrios
Title: Useful Functions for Box, Hunter and Hunter II
Description: Functions and data sets reproducing some examples in
Box, Hunter and Hunter II
Diff between BHH2 versions 1.0.0 dated 2008-03-04 and 1.0.1 dated 2008-03-06
DESCRIPTION | 6 +++--- inst/doc/BHH2.pdf |binary inst/doc/Rplots.pdf | 4 ++-- man/poison.data.Rd | 1 - man/tab03B1.Rd | 1 - man/tab03B2.Rd | 1 - 6 files changed, 5 insertions(+), 8 deletions(-)
Author: Maria L. Rizzo
Diff between energy versions 1.0-8 dated 2007-11-04 and 1.0-9 dated 2008-03-05
Title: E-statistics (energy statistics) tests of fit, independence, clustering
Description: E-statistics (energy) tests for comparing distributions:
multivariate normality, multivariate k-sample test for equal distributions,
hierarchical clustering by e-distances, multivariate independence test,
goodness-of-fit tests. Energy-statistics concept based on a generalization of
Newton's potential energy is due to Gabor J. Szekely.
DESCRIPTION | 8 ++++----
man/ksample.e.Rd | 3 +--
src/energy.c | 55 ++-----------------------------------------------------
3 files changed, 7 insertions(+), 59 deletions(-)
Author: Jeffrey A. Ryan, Josh M. Ulrich
Title: Extensible Time Series
Description: Provide for uniform handling of R's different time-based data classes by extending zoo, maximizing native format information preservation and allowing for user level customization and extension, while simplifying cross-class interoperability.
Diff between xts versions 0.0-10 dated 2008-02-17 and 0.0-11 dated 2008-03-05
DESCRIPTION | 6 +-- NAMESPACE | 3 + R/coredata.xts.R | 23 ++++++++++-- R/periodicity.R | 3 + R/plot.R | 16 +++++++- R/timeSeries.R | 1 R/toperiod.R | 2 - R/ts.R | 1 R/xts.methods.R | 92 ++++++++++++++++++++++++++++++++++++++++++--------- WISHLIST | 1 man/xts-package.Rd | 4 +- man/xtsAttributes.Rd | 4 +- 12 files changed, 126 insertions(+), 30 deletions(-)
Author: Jeffrey A. Ryan
Title: Quantitative Financial Modelling Framework
Description: Specify, build, trade, and analyse quantitative financial trading strategies
Diff between quantmod versions 0.3-2 dated 2008-02-24 and 0.3-3 dated 2008-03-05
DESCRIPTION | 8 - NAMESPACE | 1 R/addTA.R | 152 +++++++++++++++++++---------- R/chartSeries.R | 247 ++++++++++++++++++++++++++++++++++++++++++------ R/chartSeries.chob.R | 13 +- R/chob.R | 5 R/periodReturn.R | 2 R/zzz.R | 2 man/addExpiry.Rd | 3 man/chartSeries.Rd | 3 man/quantmod-package.Rd | 4 man/zoomChart.Rd |only 12 files changed, 346 insertions(+), 94 deletions(-)
Author: Torsten Hothorn, Frank Bretz and Peter Westfall with
contributions by Richard M. Heiberger
Title: Simultaneous Inference for General Linear Hypotheses
Description: Simultaneous tests and confidence intervals
for general linear hypotheses in parametric models, including
linear, generalized linear, linear mixed effects, and survival models.
Diff between multcomp versions 0.993-1 dated 2008-02-16 and 0.993-2 dated 2008-03-05
CHANGES | 9 DESCRIPTION | 6 R/contrMat.R | 1 R/expressions.R | 22 R/methods.R | 4 inst/doc/generalsiminf.pdf | 1001 ++++++++++++++++++++++----------------------- inst/doc/multcomp.pdf |binary man/contrMat.Rd | 3 tests/bugfix.R | 8 tests/bugfix.Rout.save | 16 10 files changed, 555 insertions(+), 515 deletions(-)
Author: Korbinian Strimmer.
Title: Estimation and Control of (Local) False Discovery Rates
Description: This package allows to estimate both tail area-based false
discovery rates (Fdr) as well as local false discovery rates (fdr) for a
variety of null models (p-values, z-scores, correlation coefficients,
t-scores). The proportion of null values and the parameters of the null
distribution are adaptively estimated from the data. In addition, the package
contains functions for non-parametric density estimation (Grenander estimator),
for monotone regression (isotonic regression and antitonic regression with weights),
for computing the greatest convex minorant (GCM) and the least concave majorant (LCM),
and for the half-normal and correlation distributions.
Diff between fdrtool versions 1.2.3 dated 2008-02-27 and 1.2.4 dated 2008-03-05
CHANGES | 6 ++++++ DESCRIPTION | 6 +++--- R/censored.fit.R | 10 +++++----- R/fdrtool.R | 5 +++-- R/fndr.cutoff.R | 17 +++++++++++++---- 5 files changed, 30 insertions(+), 14 deletions(-)
Author: Bob Wheeler
Diff between SuppDists versions 1.1-1 dated 2008-03-04 and 1.1-2 dated 2008-03-05
Title: Supplementary distributions
Description: Ten distributions supplementing those built into R. Inverse Gauss,
Kruskal-Wallis, Kendall's Tau, Friedman's chi squared, Spearman's rho, maximum F ratio,
the Pearson product moment correlation coefficiant, Johnson distributions, normal scores
and generalized hypergeometric distributions. In addition two random number generators
of George Marsaglia are included.
DESCRIPTION | 6 +++---
src/dists.cc | 6 ++++--
2 files changed, 7 insertions(+), 5 deletions(-)
Author: Bob Wheeler
Diff between AlgDesign versions 1.0-7 dated 2006-02-04 and 1.0-9 dated 2008-03-05
Title: AlgDesign
Description: Algorithmic experimental designs. Calculates exact and approximate
theory experimental designs for D,A, and I criteria. Very large
designs may be created. Experimental designs may be blocked or blocked
designs created from a candidate list, using several criteria.
The blocking can be done when whole and within plot factors
interact.
AlgDesign-1.0-7/AlgDesign/R/zzz.R |only
AlgDesign-1.0-9/AlgDesign/DESCRIPTION | 6 +++---
AlgDesign-1.0-9/AlgDesign/NAMESPACE |only
AlgDesign-1.0-9/AlgDesign/man/Federov.Rd | 2 +-
4 files changed, 4 insertions(+), 4 deletions(-)
Author: Carsten F. Dormann and Bernd Gruber, with additional code from Jochen Fruend, based on the C-code developed by Nils Bluethgen.
Title: Visualises bipartite networks and calculates some ecological indices.
Description: See bipartite-package for more details.
Diff between bipartite versions 0.3 dated 2008-01-16 and 0.4 dated 2008-03-05
bipartite-0.3/bipartite/man/nestedness.rd |only bipartite-0.3/bipartite/src/bmn.cc |only bipartite-0.4/bipartite/DESCRIPTION | 6 +-- bipartite-0.4/bipartite/R/H2fun.R | 39 ++++++++++++++++++++++- bipartite-0.4/bipartite/R/nestedness.r | 23 +++++-------- bipartite-0.4/bipartite/R/networklevel.R | 4 +- bipartite-0.4/bipartite/man/bipartite-package.Rd | 2 - bipartite-0.4/bipartite/man/nestedness.Rd |only bipartite-0.4/bipartite/man/networklevel.Rd | 10 ++--- bipartite-0.4/bipartite/src/bmn5.cc |only 10 files changed, 59 insertions(+), 25 deletions(-)
Author: S original by David James
Diff between chron versions 2.3-21 dated 2008-02-14 and 2.3-22 dated 2008-03-04
Title: Chronological objects which can handle dates and times
Description: Chronological objects which can handle dates and times
ChangeLog | 6 ++++++
DESCRIPTION | 6 +++---
R/chron.R | 11 +++++++++--
3 files changed, 18 insertions(+), 5 deletions(-)
Author: Ernesto Barrios
Title: Useful Functions for Box, Hunter and Hunter II
Description: Functions and data sets reproducing some examples in
Box, Hunter and Hunter II
Diff between BHH2 versions 0.2-2 dated 2007-10-21 and 1.0.0 dated 2008-03-04
DESCRIPTION | 12 ++++++------ R/dots.R | 2 +- inst/doc/BHH2.pdf |binary inst/doc/Rplots.pdf |only man/anovaPlot.Rd | 7 ++++--- 5 files changed, 11 insertions(+), 10 deletions(-)
Author: Bob Wheeler
Diff between SuppDists versions 1.1-0 dated 2006-02-20 and 1.1-1 dated 2008-03-04
Title: Supplementary distributions
Description: Ten distributions supplementing those built into R. Inverse Gauss,
Kruskal-Wallis, Kendall's Tau, Friedman's chi squared, Spearman's rho, maximum F ratio,
the Pearson product moment correlation coefficiant, Johnson distributions, normal scores
and generalized hypergeometric distributions. In addition two random number generators
of George Marsaglia are included.
DESCRIPTION | 6 +++---
man/ghyper.Rd | 2 +-
man/ziggurat.Rd | 2 +-
src/dists.cc | 4 ++--
4 files changed, 7 insertions(+), 7 deletions(-)
Author: Philippe Grosjean
Diff between tcltk2 versions 0.9-5 dated 2006-02-10 and 1.0-6 dated 2008-03-03
Title: Tcl/Tk Additions
Description: A series of additional Tk widgets with style and various functions
(under Windows: DDE exchange, access to the registry and icon manipulation) to
supplement the tcltk package.
tcltk2-0.9-5/tcltk2/R/Startup.R |only
tcltk2-0.9-5/tcltk2/R/Variables.R |only
tcltk2-0.9-5/tcltk2/R/Widgets.R |only
tcltk2-0.9-5/tcltk2/R/WindowsSpecific.R |only
tcltk2-0.9-5/tcltk2/R/tkEdit.R |only
tcltk2-0.9-5/tcltk2/configure |only
tcltk2-0.9-5/tcltk2/configure.win |only
tcltk2-0.9-5/tcltk2/inst/etc |only
tcltk2-0.9-5/tcltk2/inst/tklibs/tile0.6 |only
tcltk2-0.9-5/tcltk2/inst/tklibs/winico0.5 |only
tcltk2-0.9-5/tcltk2/man/tk2theme.Rd |only
tcltk2-1.0-6/tcltk2/DESCRIPTION | 17
tcltk2-1.0-6/tcltk2/LICENSE |only
tcltk2-1.0-6/tcltk2/Localization.R |only
tcltk2-1.0-6/tcltk2/NAMESPACE | 35 +
tcltk2-1.0-6/tcltk2/R/tclVarFun.R |only
tcltk2-1.0-6/tcltk2/R/tk2commands.R |only
tcltk2-1.0-6/tcltk2/R/tk2dde.R |only
tcltk2-1.0-6/tcltk2/R/tk2dialogs.R |only
tcltk2-1.0-6/tcltk2/R/tk2edit.R |only
tcltk2-1.0-6/tcltk2/R/tk2fonts.R |only
tcltk2-1.0-6/tcltk2/R/tk2ico.R |only
tcltk2-1.0-6/tcltk2/R/tk2reg.R |only
tcltk2-1.0-6/tcltk2/R/tk2tip.R |only
tcltk2-1.0-6/tcltk2/R/tk2widgets.R |only
tcltk2-1.0-6/tcltk2/R/winSystemFonts.R |only
tcltk2-1.0-6/tcltk2/R/zzz.R |only
tcltk2-1.0-6/tcltk2/TODO |only
tcltk2-1.0-6/tcltk2/inst/CITATION |only
tcltk2-1.0-6/tcltk2/inst/Fonts.txt |only
tcltk2-1.0-6/tcltk2/inst/bin |only
tcltk2-1.0-6/tcltk2/inst/doc_renamed |only
tcltk2-1.0-6/tcltk2/inst/gui |only
tcltk2-1.0-6/tcltk2/inst/po |only
tcltk2-1.0-6/tcltk2/inst/tklibs/balloon1.2/balloon.tcl | 2
tcltk2-1.0-6/tcltk2/inst/tklibs/choosefont0.2 |only
tcltk2-1.0-6/tcltk2/inst/tklibs/combobox2.3/combobox.tcl | 7
tcltk2-1.0-6/tcltk2/inst/tklibs/ctext3.1 |only
tcltk2-1.0-6/tcltk2/inst/tklibs/cursor0.1 |only
tcltk2-1.0-6/tcltk2/inst/tklibs/fonts.tcl |only
tcltk2-1.0-6/tcltk2/inst/tklibs/notebook1.3/example.tcl | 2
tcltk2-1.0-6/tcltk2/inst/tklibs/notebook1.3/notebook.tcl | 66 +-
tcltk2-1.0-6/tcltk2/inst/tklibs/tile0.7.2 |only
tcltk2-1.0-6/tcltk2/inst/tklibs/tkdnd2.0 |only
tcltk2-1.0-6/tcltk2/inst/tklibs/tktextplus0.1 |only
tcltk2-1.0-6/tcltk2/inst/tklibs/toolbar1.0 |only
tcltk2-1.0-6/tcltk2/inst/tklibs/tree1.7/tree.tcl | 64 +-
tcltk2-1.0-6/tcltk2/inst/tklibs/treectrl2.2.3 |only
tcltk2-1.0-6/tcltk2/inst/tklibs/winico0.6 |only
tcltk2-1.0-6/tcltk2/man/setLanguage.Rd |only
tcltk2-1.0-6/tcltk2/man/tclVarFun.Rd | 71 +-
tcltk2-1.0-6/tcltk2/man/tcltk2-package.Rd |only
tcltk2-1.0-6/tcltk2/man/tk2commands.Rd | 114 +++-
tcltk2-1.0-6/tcltk2/man/tk2dialogs.Rd |only
tcltk2-1.0-6/tcltk2/man/tk2edit.Rd |only
tcltk2-1.0-6/tcltk2/man/tk2fonts.Rd |only
tcltk2-1.0-6/tcltk2/man/tk2tip.Rd | 48 +
tcltk2-1.0-6/tcltk2/man/tk2widgets.Rd | 273 +++++-----
tcltk2-1.0-6/tcltk2/man/unix/tk2dde.Rd | 3
tcltk2-1.0-6/tcltk2/man/unix/tk2ico.Rd | 58 +-
tcltk2-1.0-6/tcltk2/man/unix/tk2reg.Rd | 2
tcltk2-1.0-6/tcltk2/man/unix/winSystemFonts.Rd |only
tcltk2-1.0-6/tcltk2/man/windows/tk2dde.Rd | 401 +++++++--------
tcltk2-1.0-6/tcltk2/man/windows/tk2ico.Rd | 189 ++++---
tcltk2-1.0-6/tcltk2/man/windows/tk2reg.Rd | 158 +++--
tcltk2-1.0-6/tcltk2/man/windows/winSystemFonts.Rd |only
tcltk2-1.0-6/tcltk2/po |only
tcltk2-1.0-6/tcltk2/src_torework |only
tcltk2-1.0-6/tcltk2/trials&demos |only
69 files changed, 917 insertions(+), 593 deletions(-)
Author: Sřren Hřjsgaard
Diff between gRain versions 0.1.1 dated 2008-01-30 and 0.1.2 dated 2008-03-03
Title: Graphical Independence Networks
Description: A package for probability propagation in graphical independence networks.
gRain-0.1.1/gRain/R/Graphsh-junctionTree.R |only
gRain-0.1.1/gRain/R/Graphsh-mcs.R |only
gRain-0.1.1/gRain/R/Graphsh-moralize.R |only
gRain-0.1.1/gRain/R/Graphsh-ripOrder.R |only
gRain-0.1.1/gRain/R/TabOp.R |only
gRain-0.1.1/gRain/R/TabOpX.R |only
gRain-0.1.1/gRain/R/mcwh-GrappaIt.R |only
gRain-0.1.1/gRain/R/mcwhSH2.R |only
gRain-0.1.2/gRain/ChangeLog | 12 ++
gRain-0.1.2/gRain/DESCRIPTION | 4
gRain-0.1.2/gRain/INDEX | 2
gRain-0.1.2/gRain/NAMESPACE | 3
gRain-0.1.2/gRain/R/Graphsh-convert.R | 8 -
gRain-0.1.2/gRain/R/Graphsh-mat.R | 48 ++++++++-
gRain-0.1.2/gRain/R/Graphsh-mcs-moral-rip.R |only
gRain-0.1.2/gRain/R/Graphsh-queryg.R | 12 +-
gRain-0.1.2/gRain/R/Graphsh-triangulate.R | 114 +++++++++++++++++-----
gRain-0.1.2/gRain/R/NewStuff.R | 16 ---
gRain-0.1.2/gRain/R/TableOp1.R |only
gRain-0.1.2/gRain/R/TableOp2.R |only
gRain-0.1.2/gRain/R/allClasses-Graphsh.R | 2
gRain-0.1.2/gRain/R/display.R | 109 +++++++++++++++++++--
gRain-0.1.2/gRain/R/gmInstance.R | 58 ++++++-----
gRain-0.1.2/gRain/R/loadSaveHuginNet.R | 7 -
gRain-0.1.2/gRain/R/mcwh-SHD.R |only
gRain-0.1.2/gRain/R/potentialList.R | 140 ++--------------------------
gRain-0.1.2/gRain/R/simulate.R | 9 -
gRain-0.1.2/gRain/inst/doc/TabOp.pdf |only
gRain-0.1.2/gRain/inst/doc/gRain.pdf |binary
gRain-0.1.2/gRain/inst/doc/gRash.pdf |binary
gRain-0.1.2/gRain/man/ctab.Rd | 6 -
gRain-0.1.2/gRain/man/graphs-operations.Rd | 39 ++++++-
gRain-0.1.2/gRain/man/internal-gRain.Rd | 2
gRain-0.1.2/gRain/src/mcwh.f | 6 +
gRain-0.1.2/gRain/src/triangmcwh.c |only
35 files changed, 344 insertions(+), 253 deletions(-)
Author: Andrew D. Martin
Diff between MCMCpack versions 0.9-3 dated 2007-10-17 and 0.9-4 dated 2008-03-03
Title: Markov chain Monte Carlo (MCMC) Package
Description: This package contains functions to perform Bayesian
inference using posterior simulation for a number of statistical
models. Most simulation is done in compiled C++ written in the Scythe
Statistical Library Version 1.0.2. All models return coda mcmc objects
that can then be summarized using the coda package. MCMCpack
also contains some useful utility functions, including some
additional density functions and pseudo-random number generators
for statistical distributions, a general purpose Metropolis
sampling algorithm, and tools for visualization.
DESCRIPTION | 8 ++++----
HISTORY | 6 +++++-
NAMESPACE | 1 +
R/MCMCmetrop1R.R | 1 +
man/MCMCirtKd.Rd | 4 ++--
src/ide.h | 16 ++++++++--------
src/la.h | 4 ++--
src/matrix.h | 4 ++--
8 files changed, 25 insertions(+), 19 deletions(-)
Author: P.E.Meyer, F.Lafitte, G.Bontempi
Title: Mutual Information Network Inference
Description: This package implements various algorithms for inferring mutual information networks from data.
All the algorithms compute the mutual information matrix in order to infer a network.
Several mutual information estimators are implemented.
Diff between minet versions 1.1.0 dated 2007-12-12 and 1.1.3 dated 2008-03-03
minet-1.1.0/minet/demo/demo1.R |only minet-1.1.0/minet/demo/demo2.R |only minet-1.1.0/minet/src/aracne.h |only minet-1.1.0/minet/src/clr.h |only minet-1.1.0/minet/src/disc.h |only minet-1.1.0/minet/src/mim.h |only minet-1.1.0/minet/src/mrnet.h |only minet-1.1.0/minet/src/symmetrize.h |only minet-1.1.0/minet/src/validate.h |only minet-1.1.3/minet/CHANGES |only minet-1.1.3/minet/DESCRIPTION | 12 +++--- minet-1.1.3/minet/R/aracne.net.R | 9 ---- minet-1.1.3/minet/R/build.mim.R | 66 +++++++++++++---------------------- minet-1.1.3/minet/R/clr.net.R | 10 +---- minet-1.1.3/minet/R/disc.R | 27 ++++---------- minet-1.1.3/minet/R/minet.R | 7 ++- minet-1.1.3/minet/R/mr.net.R | 8 ---- minet-1.1.3/minet/R/validate.R | 39 +++++++------------- minet-1.1.3/minet/R/vis.res.R | 4 +- minet-1.1.3/minet/R/zzz.R | 3 + minet-1.1.3/minet/data/bcell.rda |binary minet-1.1.3/minet/demo/00Index | 5 +- minet-1.1.3/minet/demo/demo.R |only minet-1.1.3/minet/inst |only minet-1.1.3/minet/man/aracne.net.Rd | 4 +- minet-1.1.3/minet/man/bcell.Rd | 7 ++- minet-1.1.3/minet/man/build.mim.Rd | 19 +++++----- minet-1.1.3/minet/man/minet.Rd | 4 +- minet-1.1.3/minet/man/syn.data.Rd | 4 +- minet-1.1.3/minet/man/syn.net.Rd | 10 +++-- minet-1.1.3/minet/man/validate.Rd | 24 ++++++------ minet-1.1.3/minet/man/vis.res.Rd | 24 ++++++------ minet-1.1.3/minet/src/aracne.cpp |only minet-1.1.3/minet/src/clr.cpp |only minet-1.1.3/minet/src/disc.cpp |only minet-1.1.3/minet/src/mim.cpp |only minet-1.1.3/minet/src/minet.cpp | 36 +++++++++++-------- minet-1.1.3/minet/src/minet.h |only minet-1.1.3/minet/src/mrnet.cpp |only minet-1.1.3/minet/src/symmetrize.cpp |only minet-1.1.3/minet/src/validate.cpp |only 41 files changed, 146 insertions(+), 176 deletions(-)
Author: Alexis Dinno
Diff between paran versions 1.2.6-1 dated 2007-10-04 and 1.3.1 dated 2008-03-03
Title: Horn's Test of Principal Components/Factors
Description: paran is an implementation of Horn's technique for evaluating the components or factors retained in a principle components analysis (PCA) or factor analysis (FA). Horn's method contrasts eigenvalues produced through a PCA or FA on a number of random data sets of uncorrelated variables with the same number of variables and observations as the experimental or observational data set to produce eigenvalues for components or factors that are adjusted for the sample error-induced inflation. Components with adjusted eigenvalues greater than one are retained. paran may also be used to conduct parallel analysis following Glorfeld's (1995) suggestions to reduce the likelihood of over-retention.
DESCRIPTION | 10 +--
R/paran.R | 161 +++++++++++++++++++++++++++++++++++++++--------------------
man/paran.Rd | 21 ++++---
3 files changed, 125 insertions(+), 67 deletions(-)
Author: Arne Henningsen
Diff between micEcon versions 0.4-0 dated 2008-01-02 and 0.5-1 dated 2008-03-03
Title: Microeconomics
Description: Tools for microeconomic analysis and microeconomic modelling
micEcon-0.4-0/micEcon/R/activePar.R |only
micEcon-0.4-0/micEcon/R/aidsTestConsist.R |only
micEcon-0.4-0/micEcon/R/coef.maxLik.R |only
micEcon-0.4-0/micEcon/R/coef.selection.R |only
micEcon-0.4-0/micEcon/R/coef.summary.probit.R |only
micEcon-0.4-0/micEcon/R/coef.summary.selection.R |only
micEcon-0.4-0/micEcon/R/compareDerivatives.R |only
micEcon-0.4-0/micEcon/R/heckit.R |only
micEcon-0.4-0/micEcon/R/heckit2fit.R |only
micEcon-0.4-0/micEcon/R/heckit5fit.R |only
micEcon-0.4-0/micEcon/R/heckitVcov.R |only
micEcon-0.4-0/micEcon/R/hessian.R |only
micEcon-0.4-0/micEcon/R/invMillsRatio.R |only
micEcon-0.4-0/micEcon/R/linearPredictors.R |only
micEcon-0.4-0/micEcon/R/loglikValue.R |only
micEcon-0.4-0/micEcon/R/maxBFGS.R |only
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micEcon-0.4-0/micEcon/R/vcov-methods.R |only
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micEcon-0.5-1/micEcon/DESCRIPTION | 10
micEcon-0.5-1/micEcon/INDEX | 48
micEcon-0.5-1/micEcon/R/aidsBestA0.R | 11
micEcon-0.5-1/micEcon/R/aidsCalc.R | 168
micEcon-0.5-1/micEcon/R/aidsCheckCoef.R |only
micEcon-0.5-1/micEcon/R/aidsCoef.R | 6
micEcon-0.5-1/micEcon/R/aidsConcav.R |only
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micEcon-0.5-1/micEcon/R/aidsElas.R | 271
micEcon-0.5-1/micEcon/R/aidsElasJacobian.R | 6
micEcon-0.5-1/micEcon/R/aidsEst.R | 90
micEcon-0.5-1/micEcon/R/aidsEstMethod.R | 50
micEcon-0.5-1/micEcon/R/aidsJacobian.R | 6
micEcon-0.5-1/micEcon/R/aidsMono.R |only
micEcon-0.5-1/micEcon/R/aidsPx.R | 130
micEcon-0.5-1/micEcon/R/aidsRestr.R | 2
micEcon-0.5-1/micEcon/R/aidsSystem.R | 2
micEcon-0.5-1/micEcon/R/checkConsist.R |only
micEcon-0.5-1/micEcon/R/coef.aidsEst.R |only
micEcon-0.5-1/micEcon/R/df.residual.aidsEst.R |only
micEcon-0.5-1/micEcon/R/elas.aidsEst.R | 28
micEcon-0.5-1/micEcon/R/fitted.aidsEst.R |only
micEcon-0.5-1/micEcon/R/logLik.aidsEst.R |only
micEcon-0.5-1/micEcon/R/lrtest.aidsEst.R |only
micEcon-0.5-1/micEcon/R/predict.aidsEst.R |only
micEcon-0.5-1/micEcon/R/print.aidsConcav.R |only
micEcon-0.5-1/micEcon/R/print.aidsConsist.R |only
micEcon-0.5-1/micEcon/R/print.aidsElas.R | 34
micEcon-0.5-1/micEcon/R/print.aidsEst.R | 15
micEcon-0.5-1/micEcon/R/print.aidsMono.R |only
micEcon-0.5-1/micEcon/R/print.coef.aidsEst.R |only
micEcon-0.5-1/micEcon/R/print.summary.aidsElas.R | 6
micEcon-0.5-1/micEcon/R/print.summary.aidsEst.R | 4
micEcon-0.5-1/micEcon/R/vcov.aidsEst.R |only
micEcon-0.5-1/micEcon/data/USMeatConsump.tab |only
micEcon-0.5-1/micEcon/man/USMeatConsump.Rd |only
micEcon-0.5-1/micEcon/man/aidsBestA0.Rd | 11
micEcon-0.5-1/micEcon/man/aidsCalc.Rd | 72
micEcon-0.5-1/micEcon/man/aidsConcav.Rd |only
micEcon-0.5-1/micEcon/man/aidsConsist.Rd |only
micEcon-0.5-1/micEcon/man/aidsElas.Rd | 39
micEcon-0.5-1/micEcon/man/aidsEst.Rd | 59
micEcon-0.5-1/micEcon/man/aidsMono.Rd |only
micEcon-0.5-1/micEcon/man/aidsPx.Rd | 43
micEcon-0.5-1/micEcon/man/checkConsist.Rd |only
micEcon-0.5-1/micEcon/man/coef.aidsEst.Rd |only
micEcon-0.5-1/micEcon/man/df.residual.aidsEst.Rd |only
micEcon-0.5-1/micEcon/man/fitted.aidsEst.Rd |only
micEcon-0.5-1/micEcon/man/logLik.aidsEst.Rd |only
micEcon-0.5-1/micEcon/man/lrtest.aidsEst.Rd |only
micEcon-0.5-1/micEcon/man/micEcon-internal.Rd | 15
micEcon-0.5-1/micEcon/man/summary.aidsElas.Rd | 2
micEcon-0.5-1/micEcon/man/summary.aidsEst.Rd | 2
micEcon-0.5-1/micEcon/man/vcov.aidsEst.Rd |only
micEcon-0.5-1/micEcon/tests/aids.R | 834 ++
micEcon-0.5-1/micEcon/tests/aids.Rout.save | 7751 +++++++++++++++++++---
micEcon-0.5-1/micEcon/tests/frontier41.Rout.save | 15
micEcon-0.5-1/micEcon/tests/indices.Rout.save | 17
micEcon-0.5-1/micEcon/tests/snqProfit.Rout.save | 8
micEcon-0.5-1/micEcon/tests/translog.Rout.save | 15
144 files changed, 8330 insertions(+), 1440 deletions(-)
Author: Dimitris Rizopoulos
Diff between ltm versions 0.8-2 dated 2007-12-03 and 0.8-3 dated 2008-03-03
Title: Latent Trait Models under IRT
Description: Analysis of multivariate dichotomous and polytomous data using latent trait models under the Item Response Theory approach. It includes the Rasch, the Two-Parameter Logistic, the Birnbaum's Three-Parameter, and the Graded Response Models.
DESCRIPTION | 8 ++++----
R/IRT.parm.grm.R | 7 ++++++-
R/factor.scores.grm.R | 10 +++++++---
R/factor.scores.ltm.R | 8 ++++++--
R/factor.scores.rasch.R | 8 ++++++--
R/factor.scores.tpm.R | 8 ++++++--
R/grm.R | 8 --------
R/onAttach.R | 2 +-
data/Abortion.rda |binary
data/Environment.rda |binary
data/LSAT.rda |binary
data/Mobility.rda |binary
data/Science.rda |binary
data/WIRS.rda |binary
inst/NEWS | 12 ++++++++++++
man/factor.scores.Rd | 3 ++-
man/ltm-package.Rd | 4 ++--
man/ltm.Rd | 5 +----
man/tpm.Rd | 10 +++++-----
man/vcov.Rd | 10 +++++++---
20 files changed, 65 insertions(+), 38 deletions(-)
Author: Harold C. Doran
Title: Miscellaneous Psychometrics
Description: Computes statistical analyses useful for applied psychometricians
Diff between MiscPsycho versions 1.1 dated 2008-01-24 and 1.2 dated 2008-03-03
DESCRIPTION | 6 ++--- R/class.acc.R | 3 ++ R/irt.ability.R | 2 - man/MiscPsycho-package.Rd | 2 - man/irt.ability.Rd | 52 ++++++++++++++++++++++++++++++---------------- 5 files changed, 42 insertions(+), 23 deletions(-)
Author: Virasakdi Chongsuvivatwong
Diff between epicalc versions 2.6.2.3 dated 2008-03-02 and 2.6.2.4 dated 2008-03-02
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.
DESCRIPTION | 6 +++---
R/epicalc.R | 24 +++++++++++++++---------
2 files changed, 18 insertions(+), 12 deletions(-)
Author: S original by Barry W. Brown, James Lovato and Kathy Russel.
R port by Kjetil Halvorsen
Diff between asypow versions 1.2.1 dated 2007-09-27 and 1.2.2 dated 2008-03-02
Title: Calculate Power Utilizing Asymptotic Likelihood Ratio Methods
Description: A set of routines written in the S language
that calculate power and related quantities utilizing asymptotic
likelihood ratio methods.
DESCRIPTION | 19 ++++---------------
LICENSE |only
2 files changed, 4 insertions(+), 15 deletions(-)
Author: Nicholas L. Crookston
Diff between yaImpute versions 0.0-5 dated 2007-12-17 and 1.0-3 dated 2008-03-02
Title: yaImpute: An R Package for k-NN Imputation
Description: Performs popular nearest neighbor routines for imputation
yaImpute-0.0-5/yaImpute/inst/doc |only
yaImpute-1.0-3/yaImpute/COPYRIGHTS | 24 ++--
yaImpute-1.0-3/yaImpute/DESCRIPTION | 11 +
yaImpute-1.0-3/yaImpute/R/addXlevels.R | 3
yaImpute-1.0-3/yaImpute/R/asciigridimpute.R | 137 ++++++++++++++++--------
yaImpute-1.0-3/yaImpute/R/findFactors.R | 40 +++++--
yaImpute-1.0-3/yaImpute/R/imputeWithNewIdeas.R |only
yaImpute-1.0-3/yaImpute/R/newtargets.R | 2
yaImpute-1.0-3/yaImpute/R/print.yai.R | 2
yaImpute-1.0-3/yaImpute/R/uniondatajoin.R | 16 +-
yaImpute-1.0-3/yaImpute/inst/CITATION | 34 +++--
yaImpute-1.0-3/yaImpute/man/addXlevels.Rd | 8 -
yaImpute-1.0-3/yaImpute/man/asciigridimpute.Rd | 71 +++++++-----
yaImpute-1.0-3/yaImpute/man/compare.yai.Rd | 3
yaImpute-1.0-3/yaImpute/man/cor.yai.Rd | 6 -
yaImpute-1.0-3/yaImpute/man/errorStats.Rd | 3
yaImpute-1.0-3/yaImpute/man/plot.compare.yai.Rd | 5
yaImpute-1.0-3/yaImpute/man/rmsd.yai.Rd | 3
yaImpute-1.0-3/yaImpute/man/yai.Rd | 25 +---
yaImpute-1.0-3/yaImpute/src/ANN.cpp | 14 +-
yaImpute-1.0-3/yaImpute/src/kd_dump.cpp | 11 +
21 files changed, 260 insertions(+), 158 deletions(-)
Author: A. I. McLeod
Diff between pear versions 0.1-4 dated 2006-11-30 and 1.0 dated 2008-03-02
Title: Package for Periodic Autoregression Analysis
Description: Package for estimating periodic autoregressive models. Package also includes methods for plotting periodic time series data.
pear-0.1-4/pear/COPYRIGHT.orig |only
pear-0.1-4/pear/README.orig |only
pear-0.1-4/pear/data/fraser.R |only
pear-0.1-4/pear/data/ozone.R |only
pear-1.0/pear/DESCRIPTION | 25 -
pear-1.0/pear/R/find.ice.R |only
pear-1.0/pear/R/peacf.R |only
pear-1.0/pear/R/peacf.plot.R |only
pear-1.0/pear/R/pear.R | 619 ++++++-----------------------
pear-1.0/pear/R/peboxplot.R |only
pear-1.0/pear/R/pepacf.R |only
pear-1.0/pear/R/peplot.R |only
pear-1.0/pear/R/pepsi.R |only
pear-1.0/pear/R/var.periodic.correlation.R |only
pear-1.0/pear/README | 12
pear-1.0/pear/data/fraser.rda |only
pear-1.0/pear/data/ozone.rda |only
17 files changed, 161 insertions(+), 495 deletions(-)
Author: Jing Hua Zhao in collaboration with other colleagues, and with
help from Kurt Hornik and Brian Ripley of the R core development team
Title: Genetic analysis package
Description: It is designed as an integrated package for genetic data
analysis of both population and family data. Currently, it
contains functions for sample size calculations of both
population-based and family-based designs, classic twin models,
probability of familial disease aggregation, kinship calculation,
some statistics in linkage analysis, and association analysis
involving one or more genetic markers including haplotype
analysis with or without environmental covariates.
Diff between gap versions 1.0-13 dated 2007-10-02 and 1.0-14 dated 2008-03-02
ChangeLog | 9 +++++++++ DESCRIPTION | 18 ++++++++---------- NAMESPACE | 4 ++-- R/KCC.R |only R/pbsize2.R |only R/tscc.R | 22 ++-------------------- inst/doc/gap.Rnw | 32 +++++++++++++++++--------------- inst/doc/gap.aux |only inst/doc/gap.bbl |only inst/doc/gap.blg |only inst/doc/gap.log |only inst/doc/gap.pdf |binary inst/doc/gap.tex |only inst/doc/gap.toc |only inst/doc/jss07.pdf |only inst/tests/mao.dat |only man/apoeapoc.Rd | 2 +- man/cf.Rd | 2 +- man/crohn.Rd | 2 +- man/gap-internal.Rd | 3 ++- man/gap-package.Rd | 17 ++++++++--------- man/genecounting.Rd | 4 +++- man/hwe.Rd | 2 +- man/pbsize.Rd | 2 +- man/pbsize2.Rd |only man/plot.hap.score.Rd | 2 +- src/twinan90.f | 3 ++- 27 files changed, 59 insertions(+), 65 deletions(-)
Author: Virasakdi Chongsuvivatwong
Diff between epicalc versions 2.6.2.2 dated 2008-02-26 and 2.6.2.3 dated 2008-03-02
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.
DESCRIPTION | 8 ++++----
R/epicalc.R | 12 ++++++------
2 files changed, 10 insertions(+), 10 deletions(-)
Author: Max Kuhn, Jed Wing, Steve Weston, Andre Williams
Title: Classification and Regression Training
Description: Misc functions for training and plotting classification and regression models
Diff between caret versions 3.12 dated 2008-02-27 and 3.13 dated 2008-03-02
DESCRIPTION | 6 +++--- R/plsVarImp.R | 4 ++-- inst/doc/caretMisc.Rnw | 2 ++ inst/doc/caretMisc.pdf | 38 +++++++++++++++++++------------------- inst/doc/caretMisc.tex | 2 ++ inst/doc/caretTrain.Rnw | 2 +- inst/doc/caretTrain.pdf |binary inst/doc/caretTrain.tex | 2 +- inst/doc/caretVarImp.Rnw | 2 ++ inst/doc/caretVarImp.pdf |binary inst/doc/caretVarImp.tex | 2 ++ 11 files changed, 34 insertions(+), 26 deletions(-)
Author: Andrew Parnell
Title: Stable Isotope Analysis in R
Description: This package takes data on organism isotopes and fits a Bayesian model to their dietary habits based upon a Gaussian likelihood with a mixture Beta-distributed prior on the mean.
Diff between siar versions 1.1 dated 2008-02-26 and 1.2 dated 2008-02-29
DESCRIPTION | 6 +- R/siarmcmc.R | 11 +--- R/siarmenu.R | 14 ++--- R/sourcesdemo.R | 2 man/siar-package.Rd | 2 man/siarmcmc.Rd | 7 +- src/siarmcmcmultigroup.c | 128 ++++++++++++++++++++++++++--------------------- src/use.c | 2 src/use.h | 2 9 files changed, 93 insertions(+), 81 deletions(-)
Author: Matthias Templ
Title: Statistical Disclosure Control methods for the generation of public- and scientific-use files.
Description: Data from statistical agencies and other institutions are mostly confidential. This package can be used for the generation of save (micro)data, i.e. for the generation of public- and scientific-use files.
Diff between sdcMicro versions 2.2.0 dated 2008-02-07 and 2.4.1 dated 2008-02-29
DESCRIPTION | 6 +++--- R/localSupp2.R |only R/localSupp2Wrapper.R |only R/microaggregation.R | 26 ++++++++++++++------------ R/plot.localSupp2.R |only R/print.localSupp2.R |only R/zzz.R | 17 ++++++++++------- inst/doc/sdcMicroPaper-001.pdf | 4 ++-- inst/doc/sdcMicroPaper.log | 2 +- man/localSupp2.Rd |only man/localSupp2Wrapper.Rd |only man/plot.indivRisk.Rd | 15 ++++++++++----- man/plot.localSupp2.Rd |only man/print.localSupp2.Rd |only man/sdcMicro-package.Rd | 21 +++++++++++++++++++++ 15 files changed, 61 insertions(+), 30 deletions(-)
Author: Yves Croissant
Diff between plm versions 0.3-1 dated 2007-12-13 and 0.3-2 dated 2008-02-29
Title: Linear models for panel data
Description: A set of estimators and tests for panel data
DESCRIPTION | 8 -
NAMESPACE | 3
R/pfunctions.R | 9 -
R/pggls.R | 3
R/pgmm.R | 36 ++--
R/plm.data.R | 12 +
R/plm.formula.R | 36 +++-
R/plm.methods.R | 21 +-
R/plm.model.R | 61 +++++--
R/pserial.R | 234 ++++++++++++++++-------------
R/ptest.R | 129 ++++++++++------
R/pvcovHC.R | 415 ++++++++++++++++++++++++++---------------------------
R/pwfdtest.R |only
changelog | 8 -
inst/doc/plmEN.pdf |binary
inst/doc/plmEN.rnw | 6
inst/doc/plmEN.tex | 124 ++++++++-------
man/pFtest.Rd | 6
man/pbgtest.Rd | 4
man/pbltest.Rd | 9 -
man/pbsytest.Rd | 4
man/pdwtest.Rd | 7
man/pgmm.Rd | 2
man/phtest.Rd | 3
man/plmtest.Rd | 9 -
man/pooltest.Rd | 4
man/pvcovHC.Rd | 49 +++---
man/pwartest.Rd | 11 -
man/pwfdtest.Rd |only
man/pwtest.Rd | 3
30 files changed, 680 insertions(+), 536 deletions(-)
Author: Alberto Viglione
Title: Non-supervised Regional Frequency Analysis
Description: A collection of statistical tools for objective (non-supervised) applications
of the Regional Frequency Analysis methods in hydrology.
Diff between nsRFA versions 0.4-8 dated 2008-02-06 and 0.5-0 dated 2008-02-29
DESCRIPTION | 6 ++-- R/GOFmontecarlo.R | 4 +- R/P3.R | 81 ++++++++++++++++++++++++++++++++++++++++-------------- inst |only 4 files changed, 65 insertions(+), 26 deletions(-)
Author: Pavel N. Krivitsky
Diff between latentnet versions 2.0 dated 2008-01-21 and 2.1-1 dated 2008-02-29
Title: Latent position and cluster models for statistical networks
Description: A package to fit and simulate latent position and cluster models for statistical networks.
latentnet-2.0/latentnet/R/MCMC.out.utils.R |only
latentnet-2.0/latentnet/R/ergmm.loglike.R |only
latentnet-2.0/latentnet/man/sociomatrix.Rd |only
latentnet-2.1-1/latentnet/DESCRIPTION | 8
latentnet-2.1-1/latentnet/LICENSE | 9
latentnet-2.1-1/latentnet/R/P.alloc.R | 3
latentnet-2.1-1/latentnet/R/bayesmbc.MCMC.C.R | 28 +-
latentnet-2.1-1/latentnet/R/bayesmbc.R | 10
latentnet-2.1-1/latentnet/R/ergmm.MCMC.C.R | 99 ++++----
latentnet-2.1-1/latentnet/R/ergmm.R | 127 ++++++----
latentnet-2.1-1/latentnet/R/ergmm.defaults.R | 46 +--
latentnet-2.1-1/latentnet/R/ergmm.families.R | 5
latentnet-2.1-1/latentnet/R/ergmm.geodesicmatrix.R | 3
latentnet-2.1-1/latentnet/R/ergmm.get.model.R | 39 ---
latentnet-2.1-1/latentnet/R/ergmm.initvals.R | 6
latentnet-2.1-1/latentnet/R/ergmm.par.R |only
latentnet-2.1-1/latentnet/R/ergmm.probs.R |only
latentnet-2.1-1/latentnet/R/ergmm.sample.utils.R | 114 ++++-----
latentnet-2.1-1/latentnet/R/ergmm.statseval.R | 36 +--
latentnet-2.1-1/latentnet/R/ergmm.tuner.R | 192 +++-------------
latentnet-2.1-1/latentnet/R/mcmc.diagnostics.ergmm.R | 19 +
latentnet-2.1-1/latentnet/R/plot.ergmm.R | 20 +
latentnet-2.1-1/latentnet/R/predict.ergmm.R | 4
latentnet-2.1-1/latentnet/R/simulate.ergmm.R | 4
latentnet-2.1-1/latentnet/R/summary.ergmm.R | 50 ++--
latentnet-2.1-1/latentnet/R/utilities.R | 18 -
latentnet-2.1-1/latentnet/data/davis.RData |only
latentnet-2.1-1/latentnet/man/as.mcmc.list.ergmm.Rd | 7
latentnet-2.1-1/latentnet/man/davis.Rd |only
latentnet-2.1-1/latentnet/man/ergmm.Rd | 30 --
latentnet-2.1-1/latentnet/man/ergmm.control.Rd | 83 ++++--
latentnet-2.1-1/latentnet/man/ergmm.object.Rd | 3
latentnet-2.1-1/latentnet/man/ergmm.par.list.object.Rd | 3
latentnet-2.1-1/latentnet/man/ergmm.par.object.Rd | 10
latentnet-2.1-1/latentnet/man/ergmm.prior.Rd |only
latentnet-2.1-1/latentnet/man/gof.ergmm.Rd | 7
latentnet-2.1-1/latentnet/man/latentnet-internal.Rd | 18 -
latentnet-2.1-1/latentnet/man/latentnet.Rd | 40 ---
latentnet-2.1-1/latentnet/man/mcmc.diagnostics.ergmm.Rd | 21 -
latentnet-2.1-1/latentnet/man/plot.ergmm.Rd | 37 +--
latentnet-2.1-1/latentnet/man/predict.ergmm.Rd | 5
latentnet-2.1-1/latentnet/man/sampson.Rd | 23 -
latentnet-2.1-1/latentnet/man/simulate.ergmm.Rd | 9
latentnet-2.1-1/latentnet/man/summary.ergmm.Rd | 6
latentnet-2.1-1/latentnet/man/terms.ergmm.Rd | 3
latentnet-2.1-1/latentnet/man/tribes.Rd | 4
latentnet-2.1-1/latentnet/src/P_alloc.c | 19 -
latentnet-2.1-1/latentnet/src/P_alloc.h | 10
latentnet-2.1-1/latentnet/src/ergmm_probs.c | 29 +-
latentnet-2.1-1/latentnet/src/ergmm_probs.h | 2
latentnet-2.1-1/latentnet/src/ergmm_sampler.c | 99 +++-----
latentnet-2.1-1/latentnet/src/ergmm_sampler.h | 22 -
latentnet-2.1-1/latentnet/src/ergmm_structs.h | 12 -
latentnet-2.1-1/latentnet/src/ergmm_updaters.c | 115 +++++----
latentnet-2.1-1/latentnet/src/ergmm_updaters.h | 2
latentnet-2.1-1/latentnet/src/ergmm_utils.c | 19 -
latentnet-2.1-1/latentnet/src/ergmm_utils.h | 6
latentnet-2.1-1/latentnet/src/matrix_utils.c | 6
latentnet-2.1-1/latentnet/src/matrix_utils.h | 6
latentnet-2.1-1/latentnet/src/mbc_sampler.c | 111 ++++-----
latentnet-2.1-1/latentnet/src/mbc_sampler.h | 64 ++---
latentnet-2.1-1/latentnet/src/mvnorm.c | 4
latentnet-2.1-1/latentnet/src/post_utils.c | 28 +-
latentnet-2.1-1/latentnet/src/post_utils.h | 4
latentnet-2.1-1/latentnet/src/wishart.h | 2
latentnet-2.1-1/latentnet/tests |only
66 files changed, 791 insertions(+), 918 deletions(-)
Author: Jussi Klemela
Diff between delt versions 0.6.0 dated 2006-05-19 and 0.7.0 dated 2008-02-29
Title: Estimation of multivariate densities with adaptive histograms
Description:
The package implements
methods for estimating multivariate densities:
adaptive histograms (greedy histograms and CART-histograms),
stagewise minimization, and
bootstrap aggregation are included in the package.
DESCRIPTION | 14 +-
R/downhigh.R |only
R/findleafs.R | 22 ++--
R/lowupp.R |only
R/rf2tree.R | 227 +++++++-----------------------------------------
R/rf2tree.old.R |only
man/delt-package.Rd | 4
man/densplit.Rd | 2
man/eval.bagg.Rd | 2
man/eval.cart.Rd | 2
man/eval.greedy.Rd | 2
man/eval.pick.Rd | 2
man/eval.stage.Rd | 2
man/eval.stage.gauss.Rd | 4
man/intpcf.Rd | 2
man/lefrig2par.Rd | 2
man/lstseq.bagg.Rd | 2
man/lstseq.cart.Rd | 2
man/lstseq.greedy.Rd | 2
man/makebina.Rd | 2
man/partition.Rd | 2
man/plotparti.Rd | 2
man/prune.Rd | 2
man/scaspa.Rd | 2
man/supp.Rd | 2
25 files changed, 74 insertions(+), 231 deletions(-)
Author: Martin Maechler, based on S original by Peter Rousseeuw
Diff between cluster versions 1.11.9 dated 2007-10-02 and 1.11.10 dated 2008-02-29
Title: Cluster Analysis Extended Rousseeuw et al.
Description: Cluster Analysis, extended original from
Peter Rousseeuw, Anja Struyf and Mia Hubert.
ChangeLog | 25 +++++
DESCRIPTION | 10 +-
R/clara.q | 2
R/pam.q | 8 +
cluster_references |only
man/clara.Rd | 5 -
man/pam.Rd | 11 ++
src-compiler-warnings |only
src/cluster.h | 3
src/ind_2.h | 16 ++-
src/pam.c | 189 ++++++++++++++++++++++---------------------
tests/clusplot-out.R | 3
tests/clusplot-out.Rout.save | 20 ++--
tests/pam.R | 4
tests/pam.Rout.save | 23 ++---
15 files changed, 187 insertions(+), 132 deletions(-)
Author: Emmanuel Paradis, Ben Bolker, Julien Claude, Hoa Sien Cuong,
Richard Desper, Benoit Durand, Julien Dutheil, Olivier Gascuel,
Gangolf Jobb, Christoph Heibl, Vincent Lefort, Jim Lemon,
Yvonnick Noel, Johan Nylander, Rainer Opgen-Rhein, Korbinian Strimmer
Title: Analyses of Phylogenetics and Evolution
Description: ape provides functions for reading, writing, plotting,
and manipulating phylogenetic trees, analyses of comparative data
in a phylogenetic framework, analyses of diversification and
macroevolution, computing distances from allelic and nucleotide
data, reading nucleotide sequences, and several tools such as
Mantel's test, computation of minimum spanning tree, the population
parameter theta based on various approaches, nucleotide diversity,
generalized skyline plots, estimation of absolute evolutionary rates
and clock-like trees using mean path lengths, non-parametric rate
smoothing and penalized likelihood, classifying genes in trees using
the Klastorin-Misawa-Tajima approach. Phylogeny estimation can be done
with the NJ, BIONJ, ME, and ML methods.
Diff between ape versions 2.1-1 dated 2008-02-01 and 2.1-2 dated 2008-02-29
Changes | 40 ++++++ DESCRIPTION | 6 R/DNA.R | 9 - R/compar.gee.R | 6 R/dist.topo.R | 19 +-- R/identify.phylo.R | 13 -- R/ltt.plot.R | 20 ++- R/nodelabels.R | 49 +++----- R/plot.phylo.R | 7 - R/read.nexus.R | 147 ++++++++++++++++-------- R/read.tree.R | 92 +++++++-------- R/root.R | 283 ++++++++++++++++++++++++++++++++++------------- R/scales.R | 26 ++-- R/summary.phylo.R | 24 +++ R/unique.multiPhylo.R | 6 R/zzz.R | 4 inst/doc/MoranI.pdf |binary man/MoranI.Rd | 3 man/ltt.plot.Rd | 7 - man/print.phylo.Rd | 16 ++ man/root.Rd | 16 +- man/rotate.Rd | 2 man/unique.multiPhylo.Rd | 3 src/tree_build.c |only 24 files changed, 539 insertions(+), 259 deletions(-)
Author:
Unless otherwise noted, the contents of this package were written by
Gregory R. Warnes
Diff between SASxport versions 1.2.2 dated 2007-11-11 and 1.2.3 dated 2008-02-29
Title: Read and Write SAS XPORT Files
Description: This package provides functions for reading, listing
the contents of, and writing SAS xport format files.
The functions support reading and writing of either
individual data frames or sets of data frames. Further,
a mechanism has been provided for customizing how
variables of different data types are stored.
SASxport-1.2.2/SASxport/tests/testNumeric.Rout |only
SASxport-1.2.2/SASxport/tests/testNumeric.xpt |only
SASxport-1.2.3/SASxport/ChangeLog | 9 +++++++++
SASxport-1.2.3/SASxport/DESCRIPTION | 6 +++---
SASxport-1.2.3/SASxport/NEWS | 8 ++++++++
SASxport-1.2.3/SASxport/inst/ChangeLog | 9 +++++++++
SASxport-1.2.3/SASxport/inst/NEWS | 8 ++++++++
SASxport-1.2.3/SASxport/man/write.xport.Rd | 4 ++--
8 files changed, 39 insertions(+), 5 deletions(-)
Author: Oscar Rueda
Diff between RJaCGH versions 1.2.1 dated 2008-01-14 and 1.2.2 dated 2008-02-29
Title: Reversible Jump MCMC for the analysis of CGH arrays.
Description: Bayesian analysis of CGH microarrays fitting Hidden Markov Chain models.
The selection of the number of states is made via their posterior probability
computed by Reversible Jump Markov Chain Monte Carlo Methods. Also
returns probabilistic minimal common regions for gains/losses.
Changes | 8 ++
DESCRIPTION | 6 -
NAMESPACE | 1
R/RJaCGH.R | 170 ++++++++++++++++++++++++++++++++--------------------
inst/doc/RJaCGH.pdf |only
man/RJaCGH.Rd | 9 ++
man/chainsSelect.Rd | 16 ++--
7 files changed, 134 insertions(+), 76 deletions(-)
Author: Brian S. Everitt and Torsten Hothorn
Title: A Handbook of Statistical Analyses Using R
Description: Functions, data sets, analyses and examples from the book
`A Handbook of Statistical Analyses Using R' (Brian S. Everitt and Torsten
Hothorn, Chapman & Hall/CRC, 2006). The first chapter
of the book, which is entitled `An Introduction to R',
is completely included in this package, for all other chapters,
a vignette containing all data analyses is available.
Diff between HSAUR versions 1.2-1 dated 2007-07-07 and 1.2-2 dated 2008-02-29
HSAUR-1.2-1/HSAUR/inst/LaTeXBibTeX/setup.tex |only HSAUR-1.2-1/HSAUR/inst/LaTeXBibTeX/tables |only HSAUR-1.2-1/HSAUR/tests/Ch_errata.R |only HSAUR-1.2-1/HSAUR/tests/Ch_introduction_to_R.R |only HSAUR-1.2-1/HSAUR/tests/tables |only HSAUR-1.2-2/HSAUR/DESCRIPTION | 6 HSAUR-1.2-2/HSAUR/inst/LaTeXBibTeX/HSAUR.bib | 69 HSAUR-1.2-2/HSAUR/inst/LaTeXBibTeX/HSAUR.in | 35 HSAUR-1.2-2/HSAUR/inst/doc/Ch_analysing_longitudinal_dataI.pdf |binary HSAUR-1.2-2/HSAUR/inst/doc/Ch_analysing_longitudinal_dataII.pdf |binary HSAUR-1.2-2/HSAUR/inst/doc/Ch_analysis_of_variance.pdf |binary HSAUR-1.2-2/HSAUR/inst/doc/Ch_cluster_analysis.pdf |binary HSAUR-1.2-2/HSAUR/inst/doc/Ch_conditional_inference.pdf |binary HSAUR-1.2-2/HSAUR/inst/doc/Ch_density_estimation.pdf |binary HSAUR-1.2-2/HSAUR/inst/doc/Ch_errata.Rnw | 13 HSAUR-1.2-2/HSAUR/inst/doc/Ch_errata.pdf | 1977 ++--- HSAUR-1.2-2/HSAUR/inst/doc/Ch_introduction_to_R.pdf | 3788 ++++------ HSAUR-1.2-2/HSAUR/inst/doc/Ch_logistic_regression_glm.pdf |binary HSAUR-1.2-2/HSAUR/inst/doc/Ch_meta_analysis.pdf |binary HSAUR-1.2-2/HSAUR/inst/doc/Ch_multidimensional_scaling.pdf |binary HSAUR-1.2-2/HSAUR/inst/doc/Ch_multiple_linear_regression.pdf |binary HSAUR-1.2-2/HSAUR/inst/doc/Ch_principal_components_analysis.pdf |binary HSAUR-1.2-2/HSAUR/inst/doc/Ch_recursive_partitioning.pdf |binary HSAUR-1.2-2/HSAUR/inst/doc/Ch_simple_inference.pdf |binary HSAUR-1.2-2/HSAUR/inst/doc/Ch_survival_analysis.pdf |binary HSAUR-1.2-2/HSAUR/inst/doc/Rplots.ps |only HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-AItR-Forbes2000-country-plot.pdf | 44 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-AItR-Forbes2000-marketvalue-sales.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-AItR-Forbes2000-marketvalue.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-ALDI-plot-BtheB.pdf | 102 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-ALDII-plot1.pdf | 70 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-ALDII-plot2.pdf | 70 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-ANOVA-foster-plot.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-ANOVA-foster-tukeyHSDplot.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-ANOVA-skulls-fig.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-ANOVA-weightgain-iplot-nice.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-ANOVA-weightgain-plot.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-BCG-Latitude-plot.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-CA-planet-ss.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-CA-planets-mclust-plot.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-CA-planets-mclust-scatter.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-CA-planets-mclust-scatterclust.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-CA-planets-scatter.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-CI-roomwidth-plot.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-DE-CYGOB1-contour.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-DE-CYGOB1-persp.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-DE-epakernel-fig.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-DE-faithful-2Dplot.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-DE-faithful-boot-plot.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-DE-faithful-density.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-DE-kernel-figs.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-DE-x-bumps.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-GLM-plasma-bubble.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-GLM-plasma-plot.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-GLM-role-fitted1.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-GLM-role-fitted2.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-GLM-role-plot2.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-MA-funnel-ex.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-MA-smoking-OR-plot.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-MA-smoking-funnel.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-MDS-voting-Shepard.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-MDS-voting-plot.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-MDS-watervoles-mst.pdf | 126 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-MDS-watervoles-plot.pdf | 74 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-MLR-clouds-boxplots.pdf | 28 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-MLR-clouds-cook.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-MLR-clouds-lmplot.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-MLR-clouds-qqplot.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-MLR-clouds-residplot.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-MLR-clouds-scatterplots.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-PCA-heptathlon-PCscatter.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-PCA-heptathlon-pca-plot.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-PCA-heptathlon-scatter.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-PCA-heptathlonscore.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-RP-Forbes-initial.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-RP-Forbes-plot.pdf | 60 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-RP-glaucoma-baggplot.pdf | 2488 +++--- HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-RP-glaucoma-ctree-plot.pdf | 307 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-RP-glaucoma-plot.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-SA-GBSG2-Martingal.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-SA-GBSG2-ctree-plot.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-SA-GBSG2-plot.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-SA-GBSG2-zph-plot.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-SA-glioma-KM.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-SI-assoc-plot.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-SI-roomwidth-boxplot.pdf | 26 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-SI-water-plot.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/figures/HSAUR-SI-wavese-boxplot.pdf | 6 HSAUR-1.2-2/HSAUR/inst/doc/longtable.sty | 446 + HSAUR-1.2-2/HSAUR/inst/doc/preface.pdf |binary HSAUR-1.2-2/HSAUR/inst/doc/tables/rec.tex | 14 91 files changed, 5154 insertions(+), 4895 deletions(-)
Author: David Kraus
Title: Tests of the Proportional Hazards Assumption
Description: Tests of the proportional hazards assumption in the Cox
model: data-driven Neyman type smooth tests and score process based
tests for identifying nonproportional covariates and for global
checks.
Diff between proptest versions 0.1-2 dated 2007-12-24 and 0.1-3 dated 2008-02-28
DESCRIPTION | 6 +++--- man/proptest-internal.Rd | 2 +- man/proptest-package.Rd | 3 +-- man/scoreproptest.Rd | 3 +-- man/smoothproptest.Rd | 3 +-- 5 files changed, 7 insertions(+), 10 deletions(-)
Author: Torsten Hothorn, Kurt Hornik and Achim Zeileis
Title: A Laboratory for Recursive Partytioning
Description: A computational toolbox for recursive partitioning.
The core of the package is ctree(), an implementation of
conditional inference trees which embed tree-structured
regression models into a well defined theory of conditional
inference procedures. This non-parametric class of regression
trees is applicable to all kinds of regression problems, including
nominal, ordinal, numeric, censored as well as multivariate response
variables and arbitrary measurement scales of the covariates.
Based on conditional inference trees, cforest() provides an
implementation of Breiman's random forests. The function mob()
implements an algorithm for recursive partitioning based on
parametric models (e.g. linear models, GLMs or survival
regression) employing parameter instability tests for split
selection. Extensible functionality for visualizing tree-structured
regression models is available.
Diff between party versions 0.9-94 dated 2008-01-30 and 0.9-95 dated 2008-02-28
CHANGES | 7 + DESCRIPTION | 6 - inst/doc/MOB.pdf |binary inst/doc/party.pdf |binary inst/documentation/html/Classes_8c-source.html | 4 inst/documentation/html/Classes_8c.html | 4 inst/documentation/html/Classes_8h-source.html | 4 inst/documentation/html/Classes_8h.html | 4 inst/documentation/html/Convenience_8c-source.html | 4 inst/documentation/html/Convenience_8c.html | 4 inst/documentation/html/Convenience_8h-source.html | 4 inst/documentation/html/Convenience_8h.html | 4 inst/documentation/html/Distributions_8c-source.html | 4 inst/documentation/html/Distributions_8c.html | 4 inst/documentation/html/Distributions_8h-source.html | 4 inst/documentation/html/Distributions_8h.html | 4 inst/documentation/html/IndependenceTest_8c-source.html | 4 inst/documentation/html/IndependenceTest_8c.html | 4 inst/documentation/html/IndependenceTest_8h-source.html | 4 inst/documentation/html/IndependenceTest_8h.html | 4 inst/documentation/html/LinearStatistic_8c-source.html | 4 inst/documentation/html/LinearStatistic_8c.html | 4 inst/documentation/html/LinearStatistic_8h-source.html | 4 inst/documentation/html/LinearStatistic_8h.html | 4 inst/documentation/html/Node_8c-source.html | 4 inst/documentation/html/Node_8c.html | 4 inst/documentation/html/Node_8h-source.html | 4 inst/documentation/html/Node_8h.html | 4 inst/documentation/html/Predict_8c-source.html | 55 +++++----- inst/documentation/html/Predict_8c.html | 4 inst/documentation/html/Predict_8h-source.html | 4 inst/documentation/html/Predict_8h.html | 4 inst/documentation/html/RandomForest_8c-source.html | 4 inst/documentation/html/RandomForest_8c.html | 4 inst/documentation/html/S3Classes_8c-source.html | 4 inst/documentation/html/S3Classes_8c.html | 4 inst/documentation/html/S3Classes_8h-source.html | 4 inst/documentation/html/S3Classes_8h.html | 4 inst/documentation/html/Splits_8c-source.html | 4 inst/documentation/html/Splits_8c.html | 4 inst/documentation/html/Splits_8h-source.html | 4 inst/documentation/html/Splits_8h.html | 4 inst/documentation/html/SurrogateSplits_8c-source.html | 4 inst/documentation/html/SurrogateSplits_8c.html | 4 inst/documentation/html/SurrogateSplits_8h-source.html | 4 inst/documentation/html/SurrogateSplits_8h.html | 4 inst/documentation/html/TestStatistic_8c-source.html | 4 inst/documentation/html/TestStatistic_8c.html | 4 inst/documentation/html/TestStatistic_8h-source.html | 4 inst/documentation/html/TestStatistic_8h.html | 4 inst/documentation/html/TreeGrow_8c-source.html | 4 inst/documentation/html/TreeGrow_8c.html | 4 inst/documentation/html/TreeGrow_8h-source.html | 4 inst/documentation/html/TreeGrow_8h.html | 4 inst/documentation/html/Utils_8c-source.html | 4 inst/documentation/html/Utils_8c.html | 4 inst/documentation/html/Utils_8h-source.html | 4 inst/documentation/html/Utils_8h.html | 4 inst/documentation/html/dir_6c30642956b040afcd6ed9c9ec492c91.html |only inst/documentation/html/dir_6c30642956b040afcd6ed9c9ec492c91_dep.map 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|only inst/documentation/latex/dir_6c30642956b040afcd6ed9c9ec492c91_dep.eps |only inst/documentation/latex/dir_6c30642956b040afcd6ed9c9ec492c91_dep.pdf |only inst/documentation/latex/dirs.tex | 2 inst/documentation/latex/doxygen.sty | 4 inst/documentation/latex/refman.tex | 4 inst/documentation/man/man3/Classes.c.3 | 2 inst/documentation/man/man3/Classes.h.3 | 2 inst/documentation/man/man3/Convenience.c.3 | 2 inst/documentation/man/man3/Convenience.h.3 | 2 inst/documentation/man/man3/Distributions.c.3 | 2 inst/documentation/man/man3/Distributions.h.3 | 2 inst/documentation/man/man3/IndependenceTest.c.3 | 2 inst/documentation/man/man3/IndependenceTest.h.3 | 2 inst/documentation/man/man3/LinearStatistic.c.3 | 2 inst/documentation/man/man3/LinearStatistic.h.3 | 2 inst/documentation/man/man3/Node.c.3 | 2 inst/documentation/man/man3/Node.h.3 | 2 inst/documentation/man/man3/Predict.c.3 | 2 inst/documentation/man/man3/Predict.h.3 | 2 inst/documentation/man/man3/RandomForest.c.3 | 2 inst/documentation/man/man3/S3Classes.c.3 | 2 inst/documentation/man/man3/S3Classes.h.3 | 2 inst/documentation/man/man3/Splits.c.3 | 2 inst/documentation/man/man3/Splits.h.3 | 2 inst/documentation/man/man3/SurrogateSplits.c.3 | 2 inst/documentation/man/man3/SurrogateSplits.h.3 | 2 inst/documentation/man/man3/TestStatistic.c.3 | 2 inst/documentation/man/man3/TestStatistic.h.3 | 2 inst/documentation/man/man3/TreeGrow.c.3 | 2 inst/documentation/man/man3/TreeGrow.h.3 | 2 inst/documentation/man/man3/Utils.c.3 | 2 inst/documentation/man/man3/Utils.h.3 | 2 inst/documentation/man/man3/_home_hothorn_projects_svn_Rpkgs_trunk_party_src_.3 |only inst/documentation/man/man3/mvt.h.3 | 2 inst/documentation/man/man3/party.h.3 | 2 inst/documentation/man/man3/todo.3 | 2 man/cforest.Rd | 16 ++ src/Predict.c | 25 +++- src/mvt.f | 5 tests/Distributions.Rout.save | 12 +- tests/Examples/party-Ex.Rout.save | 28 ++++- tests/IndependenceTest-regtest.Rout.save | 12 +- tests/LinearStatistic-regtest.Rout.save | 12 +- tests/Node-regtest.Rout.save | 12 +- tests/Predict-regtest.Rout.save | 12 +- tests/RandomForest-regtest.Rout.save | 45 +++++--- tests/Splits-regtest.Rout.save | 12 +- tests/TestStatistic-regtest.Rout.save | 12 +- tests/TreeGrow-regtest.Rout.save | 12 +- tests/Utils-regtest.Rout.save | 12 +- tests/bugfixes.Rout.save | 12 +- tests/codetools-checks.Rout.save | 12 +- tests/mob.Rout.save | 22 ++-- 155 files changed, 442 insertions(+), 269 deletions(-)
Author: Jonathan M. Lees
Title: Seismic Time Series Analysis Tools
Description: Multiple interactive codes to analyze seismic data, via, spectrum analysis, wavelet transforms, particle motion, hodograms.
Diff between RSEIS versions 1.0-3 dated 2008-02-16 and 1.0-5 dated 2008-02-28
DESCRIPTION | 7 ++-- R/Comp1Dvel.R |only R/Comp1Dvels.R |only R/FILT.SEISN.R | 5 ++- R/PLOT.TTCURVE.R |only R/Put1Dvel.R |only R/choosfilt.R | 79 ++++++++++++++++----------------------------------- R/itoxyz.R | 41 +++++++++++--------------- R/jmlcfamily.R | 3 + R/jmlcrc.R | 2 + R/jmlcwt.R | 2 + R/wlet.do.R | 2 + R/wlet.drive.R | 2 + inst/doc/rseis.log | 4 +- inst/doc/rseis.pdf |binary man/Comp1Dvel.Rd |only man/Comp1Dvels.Rd |only man/FILT.SEISN.Rd | 5 +-- man/PLOT.TTCURVE.Rd |only man/Put1Dvel.Rd |only man/RSEIS-package.Rd | 2 - src/ARAIC.c | 13 ++++++++ src/GetCornerFreq.c | 10 +++++- src/LLNfilt.c | 10 ++++++ src/MTAPSRC.c | 1 src/jget_seis.c | 9 +++++ src/wletxcor.c | 12 +++++++ 27 files changed, 122 insertions(+), 87 deletions(-)
Author: Jonathan M. Lees
Title: Topographic and Geologic Mapping
Description: Set of routines for making Map Projections (forward and inverse), Topographic Maps, Perspective plots, Geological Maps, geological map symbols, geological databases, interactive plotting and selection of focus regions.
Diff between GEOmap versions 1.0-2 dated 2008-02-16 and 1.0-4 dated 2008-02-28
DESCRIPTION | 4 ++-- R/itoxyz.R | 41 ++++++++++++++++++----------------------- demo/WMAP.R | 8 ++++++++ inst/doc/GEOmap.log | 4 ++-- inst/doc/GEOmap.pdf |binary inst/doc/gmap-001.pdf | 4 ++-- inst/doc/gmap-002.pdf | 4 ++-- inst/doc/gmap-003.pdf | 4 ++-- inst/doc/gmap-004.pdf | 4 ++-- inst/doc/gmap-005.pdf | 4 ++-- inst/doc/gmap-006.pdf | 4 ++-- inst/doc/gmap-007.pdf | 4 ++-- inst/doc/gmap-008.pdf | 4 ++-- man/GEOmap-package.Rd | 2 +- src/rspline.c | 13 ++++++++++++- 15 files changed, 59 insertions(+), 45 deletions(-)
Author: Thomas Wolter
Diff between truncgof versions 0.5-1 dated 2006-12-15 and 0.5-2 dated 2008-02-28
Title: GoF tests allowing for left truncated data
Description: Goodness-of-fit tests and some adjusted exploratory tools allowing for left truncated data
CHANGES | 5 +++++
DESCRIPTION | 6 +++---
R/qplot.R | 2 +-
man/qplot.Rd | 2 +-
man/w2.test.Rd | 10 +++++-----
5 files changed, 15 insertions(+), 10 deletions(-)
Author: David Kraus
Title: Two-Sample Tests for Survival Analysis
Description: The package provides tests for comparing two survival
distributions, testing equality of two cumulative incidence
functions under competing risks and checking goodness of fit of
proportional rate models (proportional hazards, proportional
odds) for two samples.
Diff between surv2sample versions 0.1-1 dated 2007-11-17 and 0.1-2 dated 2008-02-28
DESCRIPTION | 12 ++++++++---- man/surv2sample-package.Rd | 14 +++++++------- src/cif_ks.c | 3 +++ 3 files changed, 18 insertions(+), 11 deletions(-)
Author: Garrett M. Dancik
Title: Maximum Likelihood Estimates of Gaussian Processes
Description: Maximum likelihood Gaussian process modeling for univariate and multi-dimensional outputs with diagnostic plots and sensitivity analysis.
Diff between mlegp versions 2.2.2 dated 2008-02-14 and 2.2.3 dated 2008-02-28
DESCRIPTION | 6 +++--- man/plot.gp.Rd | 2 +- man/plot.gp.list.Rd | 2 +- man/predict.gp.Rd | 2 +- man/print.gp.Rd | 2 +- man/print.gp.list.Rd | 2 +- man/summary.gp.Rd | 2 +- man/summary.gp.list.Rd | 2 +- 8 files changed, 10 insertions(+), 10 deletions(-)
Author: Derek Cyr
Diff between kzs versions 1.2.0 dated 2007-11-03 and 1.3 dated 2008-02-28
Title: Kolmogorov-Zurbenko Spline Smoothing and Applications
Description: A collection of functions utilizng splines to construct a smooth estimate
of a signal buried in noise.
kzs-1.2.0/kzs/R/argkzs.R |only
kzs-1.2.0/kzs/R/argskzs.R |only
kzs-1.2.0/kzs/R/skzs.R |only
kzs-1.2.0/kzs/man/argkzs.Rd |only
kzs-1.2.0/kzs/man/argskzs.Rd |only
kzs-1.2.0/kzs/man/skzs.Rd |only
kzs-1.3/kzs/DESCRIPTION | 8 -
kzs-1.3/kzs/NAMESPACE | 4
kzs-1.3/kzs/R/kzs.2d.R |only
kzs-1.3/kzs/R/kzs.R | 80 +++++++--------
kzs-1.3/kzs/R/kzs.md.R |only
kzs-1.3/kzs/R/kzs.params.R |only
kzs-1.3/kzs/data |only
kzs-1.3/kzs/man/kzs.2d.Rd |only
kzs-1.3/kzs/man/kzs.3d_data.Rd |only
kzs-1.3/kzs/man/kzs.Rd | 206 ++++++++++++++++++++---------------------
kzs-1.3/kzs/man/kzs.md.Rd |only
kzs-1.3/kzs/man/kzs.params.Rd |only
18 files changed, 150 insertions(+), 148 deletions(-)
Author: Antoine Lucas, Immanuel Scholz, Rainer Boehme
Diff between gmp versions 0.4-6 dated 2007-09-21 and 0.4-8 dated 2008-02-28
Title: Multiple Precision Arithmetic
Description: Multiple Precision Arithmetic (big integers and rationals, prime number tests, matrix computation),
"arithmetic without limitations" using the C library gmp.
Changes | 6 +
DESCRIPTION | 6 -
src/biginteger.cc | 13 +++
src/biginteger.h | 21 +----
src/bigintegerR.cc | 16 ++--
src/bigintegerR.h | 12 +--
src/bigrationalR.cc | 9 +-
src/bigvec.cc | 14 +++
src/bigvec.h | 21 +----
src/extract_matrix.cc | 31 ++++----
src/extract_matrix.h | 192 ++++++++++++++++++++++++++++++--------------------
src/factor.cc | 2
src/factor.h | 2
src/matrixq.cc | 6 -
14 files changed, 202 insertions(+), 149 deletions(-)
Author: J L Marchini
Diff between AnalyzeFMRI versions 1.1-9 dated 2007-12-14 and 1.1-10 dated 2008-02-28
Title: Functions for analysis of fMRI datasets stored in the ANALYZE or NIFTI format.
Description: Functions for I/O, visualisation and analysis of functional Magnetic Resonance Imaging (fMRI) datasets stored in the ANALYZE or NIFTI format.
DESCRIPTION | 10
INDEX | 53 +
R/analyzeFMRI.R | 8
R/niftiFMRI.R | 1071 ++++++++++++++++++++++++++--
inst/AnalyzeFMRI.gui.R | 4
inst/HISTORY | 30
inst/ICA.gui.R | 4
man/f.basic.hdr.list.create.Rd | 2
man/f.basic.hdr.nifti.list.create.Rd |only
man/f.nifti.file.summary.Rd |only
man/f.read.analyze.header.Rd | 4
man/f.read.header.Rd |only
man/f.read.nifti.header.Rd | 4
man/f.read.nifti.slice.Rd |only
man/f.read.nifti.slice.at.all.timepoints.Rd |only
man/f.read.nifti.tpt.Rd |only
man/f.read.nifti.ts.Rd |only
man/f.read.nifti.volume.Rd |only
man/f.spectral.summary.nifti.Rd |only
man/f.write.analyze.Rd | 2
man/f.write.list.to.hdr.Rd | 4
man/f.write.list.to.hdr.nifti.Rd |only
man/f.write.nifti.Rd |only
man/f.write.nii.array.to.img.2bytes.Rd |only
man/f.write.nii.array.to.img.8bit.Rd |only
man/f.write.nii.array.to.img.float.Rd |only
src/analyzeFMRI.c | 113 +-
src/niftiFMRI.c | 331 ++++++--
28 files changed, 1399 insertions(+), 241 deletions(-)
More information about sampleSelection at CRAN
Permanent link
Author: Rajarshi Guha
Diff between rcdk versions 2.6.1 dated 2006-11-29 and 2.7 dated 2008-02-27
Title: rcdk - Interface to the CDK Libraries
Description: This package allows the user to access functionality in the
CDK, a Java framework for cheminformatics. This allows the user to load
molecules, evaluate fingerprints, calculate molecular descriptors and so on.
In addition the CDK API allows the user to view structures in 2D.
rcdk-2.6.1/rcdk/inst/cont/Jmol.jar |only
rcdk-2.6.1/rcdk/inst/cont/cdk-jchempaint.jar |only
rcdk-2.6.1/rcdk/inst/cont/cdk-svn-20061122.jar |only
rcdk-2.6.1/rcdk/man/editmol.Rd |only
rcdk-2.6.1/rcdk/man/getdesc.Rd |only
rcdk-2.6.1/rcdk/man/getdescclassnames.Rd |only
rcdk-2.6.1/rcdk/man/getdescengine.Rd |only
rcdk-2.6.1/rcdk/man/viewmol.Rd |only
rcdk-2.6.1/rcdk/man/viewmolt.Rd |only
rcdk-2.7/rcdk/DESCRIPTION | 12 +-
rcdk-2.7/rcdk/R/desc.R | 98 +++++++++++++++----
rcdk-2.7/rcdk/R/rcdk.R | 14 +-
rcdk-2.7/rcdk/R/smiles.R | 26 +++--
rcdk-2.7/rcdk/R/visual.R | 125 +++++++++++--------------
rcdk-2.7/rcdk/inst/cont/cdk.jar |only
rcdk-2.7/rcdk/inst/cont/junit.jar |only
rcdk-2.7/rcdk/inst/cont/rcdk.jar |binary
rcdk-2.7/rcdk/man/evaldesc.Rd | 19 ++-
rcdk-2.7/rcdk/man/getdesccat.Rd |only
rcdk-2.7/rcdk/man/getdescnames.Rd |only
rcdk-2.7/rcdk/man/getfp.Rd | 2
rcdk-2.7/rcdk/man/getsmilesparser.Rd |only
rcdk-2.7/rcdk/man/loadmol.Rd | 1
rcdk-2.7/rcdk/man/parsesmiles.Rd | 9 +
rcdk-2.7/rcdk/man/viewmol2d.Rd | 7 -
25 files changed, 191 insertions(+), 122 deletions(-)
Author: Ben B. Hansen
Diff between optmatch versions 0.3-3 dated 2007-08-25 and 0.3-4 dated 2008-02-27
Title: Functions for optimal matching
Description: Functions to perform optimal matching, particularly full matching
optmatch-0.3-3/optmatch/tests/optmatch-tests.RR |only
optmatch-0.3-4/optmatch/ChangeLog | 6
optmatch-0.3-4/optmatch/DESCRIPTION | 8
optmatch-0.3-4/optmatch/LICENSE |only
optmatch-0.3-4/optmatch/R/fullmatch200706.R | 3
optmatch-0.3-4/optmatch/R/mahal.dist.R | 47 +++
optmatch-0.3-4/optmatch/R/max.controls.cap.R | 4
optmatch-0.3-4/optmatch/R/stratumStructure.R | 4
optmatch-0.3-4/optmatch/ToDo | 20 +
optmatch-0.3-4/optmatch/inst/doc/optmatch.log | 256 ++++++++++----------
optmatch-0.3-4/optmatch/inst/doc/optmatch.pdf |binary
optmatch-0.3-4/optmatch/man/mahal.dist.Rd | 9
optmatch-0.3-4/optmatch/man/matched.Rd | 2
optmatch-0.3-4/optmatch/man/min.controls.cap.Rd | 7
optmatch-0.3-4/optmatch/man/relaxinfo.Rd | 3
optmatch-0.3-4/optmatch/tests/mahal-dist.R |only
optmatch-0.3-4/optmatch/tests/mahal-dist.Rout.save |only
optmatch-0.3-4/optmatch/tests/makingTests.txt |only
optmatch-0.3-4/optmatch/tests/pscore-dist.R |only
optmatch-0.3-4/optmatch/tests/pscore-dist.Rout.save |only
20 files changed, 219 insertions(+), 150 deletions(-)
Author: Korbinian Strimmer.
Title: Estimation and Control of (Local) False Discovery Rates
Description: This package allows to estimate both tail area-based false
discovery rates (Fdr) as well as local false discovery rates (fdr) for a
variety of null models (p-values, z-scores, correlation coefficients,
t-scores). The proportion of null values and the parameters of the null
distribution are adaptively estimated from the data. In addition, the package
contains functions for non-parametric density estimation (Grenander estimator),
for monotone regression (isotonic regression and antitonic regression with weights),
for computing the greatest convex minorant (GCM) and the least concave majorant (LCM),
and for the half-normal and correlation distributions.
Diff between fdrtool versions 1.2.2 dated 2008-02-25 and 1.2.3 dated 2008-02-27
CHANGES | 7 +++++++ DESCRIPTION | 6 +++--- R/censored.fit.R | 4 ++-- man/fdrtool.Rd | 6 ++++++ 4 files changed, 18 insertions(+), 5 deletions(-)
Author: Max Kuhn, Jed Wing, Steve Weston, Andre Williams
Title: Classification and Regression Training
Description: Misc functions for training and plotting classification and regression models
Diff between caret versions 3.08 dated 2007-11-29 and 3.12 dated 2008-02-27
DESCRIPTION | 10 NAMESPACE | 8 R/bagFDA.R | 9 R/confusionMatrix.R | 16 R/plsda.R | 21 R/preProcess.R |only R/predictionFunction.R | 206 +- R/print.confusionMatrix.R | 74 - R/print.train.R | 67 R/probFunction.R | 110 - inst/doc/caretMisc.Rnw | 31 inst/doc/caretMisc.pdf | 3255 +++++++++++++++++++++++----------------------- inst/doc/caretMisc.tex | 29 inst/doc/caretTrain.Rnw | 20 inst/doc/caretTrain.pdf |binary inst/doc/caretTrain.tex | 68 inst/doc/caretVarImp.Rnw | 12 inst/doc/caretVarImp.pdf | 1617 +++++++++++----------- inst/doc/caretVarImp.tex | 12 man/applyProcessing.Rd | 7 man/confusionMatrix.Rd | 5 man/plsda.Rd | 4 man/preProcess.Rd |only man/print.train.Rd | 19 src/caret.c | 4 25 files changed, 2929 insertions(+), 2675 deletions(-)
Author: Justin Harrington, Matias Salibian-Barrera
Title: Dealing with very large datasets using BIRCH
Description: birch is an implementation of the algorithms described in Zhang et al (1997), and provides functions for creating CF-trees, along with algorithms for dealing with some combinatorial problems, such as covMcd and ltsReg. It is very well suited for dealing with very large data sets, and does not require that the data can fit in physical memory.
Diff between birch versions 1.1-2 dated 2008-02-24 and 1.1-3 dated 2008-02-27
ChangeLog |only DESCRIPTION | 8 +++--- man/birch-package.Rd | 65 +++++++++++++++++++++++++++++++-------------------- man/birch.Rd | 58 +++++++++++++++++++++++++++++---------------- man/birchObj.Rd | 5 ++- man/covMcd.birch.Rd | 26 +++++++++----------- man/dist.birch.Rd | 2 - man/generic.Rd | 24 ++++++++++-------- man/kmeans.birch.Rd | 11 +++----- man/lts.birch.Rd | 35 +++++++++++++-------------- man/rlga.birch.Rd | 33 +++++++++++++------------ 11 files changed, 150 insertions(+), 117 deletions(-)
Author: Anthony Davison
Diff between SMPracticals versions 1.1-1 dated 2006-12-19 and 1.2 dated 2008-02-27
Title: Practicals for use with Davison (2003) Statistical Models
Description: This package contains the datasets and a few functions
for use with the practicals outlined in Appendix A of the book
Statistical Models (Davison, 2003, Cambridge University Press).
The practicals themselves can be found at
http://statwww.epfl.ch/davison/SM/
DESCRIPTION | 9 +++-----
R/lik.ci.R | 1
R/pairs.mod.R | 57 +++++++++++++++++++++++++--------------------------
R/plot.glm.diag.R | 9 +++-----
R/zzz.R |only
man/glm.diag.Rd | 2 -
man/pairs.mod.Rd | 1
man/plot.glm.diag.Rd | 6 ++---
man/pollution.Rd | 3 +-
9 files changed, 43 insertions(+), 45 deletions(-)
Author: David A. James
Title: SQLite interface for R
Description: Database Interface R driver for SQLite.
This package embeds the SQLite database engine in R and
provides an interface compliant with the DBI package.
The source for the SQLite engine (version 3.4.1) is included.
Diff between RSQLite versions 0.6-7 dated 2008-01-27 and 0.6-8 dated 2008-02-27
._DESCRIPTION |only ._configure.in |only DESCRIPTION | 4 R/._SQLiteSupport.R |only R/SQLiteSupport.R | 12 configure | 3927 +++++++++++++++-------------- configure.in | 2 inst/UnitTests/._result_set_closing_test.R |only inst/UnitTests/result_set_closing_test.R | 4 src/._RS-DBI.h |only 10 files changed, 2156 insertions(+), 1793 deletions(-)
Author: Thomas Jaki
Title: Maximum kernel likelihood estimation.
Description: Package for fast computation of the maximum kernel likelihood estimator (mkle)
Diff between MKLE versions 0.03 dated 2007-08-14 and 0.04 dated 2008-02-27
DESCRIPTION | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-)
Author: Barret Scloerke
Diff between geozoo versions 0.2 dated 2008-01-16 and 0.4 dated 2008-02-26
Title: Zoo of Geometric Objects
Description: The package allows geometric objects defined in geozoo to be displayed in GGobi through the use of rggobi.
geozoo-0.2/geozoo/man/cube.Rd |only
geozoo-0.2/geozoo/man/cube.solid.Rd |only
geozoo-0.2/geozoo/man/cube.solid.eq.Rd |only
geozoo-0.2/geozoo/man/sphere.Rd |only
geozoo-0.2/geozoo/man/sphere.solid.Rd |only
geozoo-0.2/geozoo/man/sphere.solid.eq.Rd |only
geozoo-0.4/geozoo/DESCRIPTION | 6 +--
geozoo-0.4/geozoo/NEWS |only
geozoo-0.4/geozoo/R/cube.r | 10 ++---
geozoo-0.4/geozoo/R/mobius.r | 53 ++++++++++++++++++++-------
geozoo-0.4/geozoo/R/sphere.r | 38 ++++++++-----------
geozoo-0.4/geozoo/R/torus.r | 11 +++--
geozoo-0.4/geozoo/functions.txt | 15 ++++---
geozoo-0.4/geozoo/man/cube.iterate.Rd |only
geozoo-0.4/geozoo/man/cube.solid.grid.Rd |only
geozoo-0.4/geozoo/man/cube.solid.random.Rd |only
geozoo-0.4/geozoo/man/ggobi.Rd | 4 +-
geozoo-0.4/geozoo/man/mobius.Rd | 6 +--
geozoo-0.4/geozoo/man/mobius.experiement.Rd |only
geozoo-0.4/geozoo/man/sphere.hollow.Rd |only
geozoo-0.4/geozoo/man/sphere.solid.grid.Rd |only
geozoo-0.4/geozoo/man/sphere.solid.random.Rd |only
geozoo-0.4/geozoo/man/torus.Rd | 4 +-
23 files changed, 88 insertions(+), 59 deletions(-)
Author: Virasakdi Chongsuvivatwong
Diff between epicalc versions 2.6.2.0 dated 2008-02-12 and 2.6.2.2 dated 2008-02-26
Title: Epidemiological calculator
Description: Functions making R easy for epidemiological calculation.
DESCRIPTION | 6 -
R/epicalc.R | 162 +++++++++++++++++++++++++++++++++++++++++++----
man/risk.display.rd | 176 ++++++++++++++++++++++++++++------------------------
3 files changed, 246 insertions(+), 98 deletions(-)
Author: Compiled by Adrian Trapletti
Diff between tseries versions 0.10-13 dated 2007-12-15 and 0.10-14 dated 2008-02-26
Title: Time series analysis and computational finance
Description: Package for time series analysis and computational finance
ChangeLog | 21 +++++++++++++++++++
DESCRIPTION | 6 ++---
NAMESPACE | 5 +++-
R/arma.R | 24 ++++++++++++++--------
R/garch.R | 54 ++++++++++++++++++++++++++++++++++-----------------
README | 2 -
man/arma-methods.Rd | 4 ++-
man/arma.Rd | 2 -
man/garch-methods.Rd | 4 +++
man/garch.Rd | 43 +++++++++++++++++++++-------------------
src/garch.c | 16 +++++++++------
11 files changed, 122 insertions(+), 59 deletions(-)
Author: Adrian Baddeley
Diff between spatstat versions 1.12-7 dated 2008-02-11 and 1.12-8 dated 2008-02-26
Title: Spatial Point Pattern analysis, model-fitting, simulation, tests
Description: A package for analysing spatial data,
mainly Spatial Point Patterns, including multitype/marked points
and spatial covariates, in any two-dimensional spatial region.
Contains functions for plotting spatial data,
exploratory data analysis, model-fitting, simulation,
spatial sampling, model diagnostics,
and formal inference. Data types include point patterns,
line segment patterns, spatial windows, and
pixel images. Point process models can be
fitted to point pattern data. Cluster type models are fitted
by the method of minimum contrast. Very general Gibbs point
process models can be fitted to point pattern data
using a function ppm similar to lm or glm. Models may
include dependence on covariates, interpoint interaction
and dependence on marks. Fitted models can be simulated automatically.
Also provides facilities for formal inference (such as chi-squared
tests) and model diagnostics (including simulation
envelopes, residuals, residual plots and Q-Q plots).
DESCRIPTION | 6 +-
R/areainter.R | 4 -
R/rmhmodel.R | 7 --
R/suffstat.R | 9 ++-
inst/ratfor/Makefile | 11 ++--
inst/ratfor/areaint.r | 44 ++++++++++-------
man/AreaInter.Rd | 124 ++++++++++++++++++++++++++++++++++++--------------
man/suffstat.Rd | 2
src/areaint.f | 27 ++++++----
9 files changed, 152 insertions(+), 82 deletions(-)
Author: Andrew Parnell
Title: Stable Isotope Analysis in R
Description: This package takes data on organism isotopes and fits a Bayesian model to their dietary habits based upon a Gaussian likelihood with a Dirichlet prior on the mean.
Diff between siar versions 1.0 dated 2008-02-25 and 1.1 dated 2008-02-26
DESCRIPTION | 4 +- R/siarmenu.R | 117 ++++++++++++++++++++++++++++++++++++++++++++++++----------- 2 files changed, 99 insertions(+), 22 deletions(-)
Author: Valentin Todorov
Diff between rrcov versions 0.4-03 dated 2007-11-23 and 0.4-05 dated 2008-02-26
Title: Scalable Robust Estimators with High Breakdown Point
Description: Robust Location and Scatter Estimation and Robust Multivariate Analysis with High Breakdown Point.
ChangeLog | 53 ++++++----
DESCRIPTION | 8 -
INDEX | 9 +
NAMESPACE | 4
R/AllClasses.R | 15 ++
R/CovMve.R | 35 ------
R/CovSest.R |only
data/OsloTransect.rda |only
man/CovClassic.Rd | 4
man/CovControlMest-class.Rd | 1
man/CovControlSest-class.Rd |only
man/CovControlSest.Rd |only
man/CovMcd.Rd | 2
man/CovMest-class.Rd | 5
man/CovMest.Rd | 17 +--
man/CovMve.Rd | 5
man/CovSest-class.Rd |only
man/CovSest.Rd |only
man/OsloTransect.Rd |only
man/PcaClassic.Rd | 6 -
man/Wilks.test.Rd | 6 -
man/covMest3.Rd | 11 --
man/fish.Rd | 14 ++
man/hemophilia.Rd | 27 +++--
man/rrcov.control.Rd | 6 -
src/fast-mve.c | 1
tests/thubert.Rout.save | 4
tests/tmcd4.Rout.save | 4
tests/tmest.Rout.save | 106 ++++++++++----------
tests/tmest4.Rout.save | 98 +++++++++---------
tests/tmve4.Rout.save | 227 +++++++++++++++++++++-----------------------
tests/togk4.Rout.save | 4
32 files changed, 340 insertions(+), 332 deletions(-)
Author: Jérôme Sueur
Diff between seewave versions 1.4.6 dated 2008-01-16 and 1.4.7 dated 2008-02-25
Title: Time wave analysis and graphical representation
Description: seewave provides functions for analysing, manipulating, displaying, editing and synthesizing time waves (particularly sound). This package processes time analysis (oscillograms and envelopes), spectral content, resonance quality factor, cross correlation and autocorrelation, zero-crossing, dominant frequency, 2D and 3D spectrograms and many other analyses.
DESCRIPTION | 6
R/seewave.r | 355 ++++++++++++++++++++++++++++++++-----------------
man/addsilw.Rd | 3
man/afilter.Rd | 9 -
man/ccoh.Rd | 11 -
man/ceps.Rd | 5
man/cepstro.Rd | 10 -
man/covspectro.Rd | 3
man/cutw.Rd | 6
man/dBscale.Rd | 5
man/deletew.Rd | 3
man/dfreq.Rd | 2
man/dynspec.rd | 15 +-
man/export.Rd | 1
man/fdoppler.rd | 5
man/meanspec.Rd | 8 -
man/mutew.Rd | 3
man/noise.Rd | 3
man/oscillo.Rd | 12 +
man/oscilloST.Rd | 5
man/pastew.Rd | 9 -
man/repw.rd |only
man/savewav.Rd | 2
man/seewave.package.Rd | 7
man/setenv.rd |only
man/simspec.Rd | 6
man/spec.Rd | 6
man/spectro.Rd | 16 +-
man/spectro3D.Rd | 6
man/synth.Rd | 3
man/th.Rd | 3
31 files changed, 345 insertions(+), 183 deletions(-)
Author: Korbinian Strimmer.
Title: Estimation and Control of (Local) False Discovery Rates
Description: This package allows to estimate both tail area-based false
discovery rates (Fdr) as well as local false discovery rates (fdr) for a
variety of null models (p-values, z-scores, correlation coefficients,
t-scores). The proportion of null values and the parameters of the null
distribution are adaptively estimated from the data. In addition, the package
contains functions for non-parametric density estimation (Grenander estimator),
for monotone regression (isotonic regression and antitonic regression with weights),
for computing the greatest convex minorant (GCM) and the least concave majorant (LCM),
and for the half-normal and correlation distributions.
Diff between fdrtool versions 1.2.1 dated 2008-01-03 and 1.2.2 dated 2008-02-25
CHANGES | 6 ++++++ DESCRIPTION | 6 +++--- R/censored.fit.R | 20 +++++++++++++------- 3 files changed, 22 insertions(+), 10 deletions(-)
Author: Jae H. Kim
Title: Variance Ratio tests for Weak-form Market Efficiency
Description: A collection of variance ratio tests
Diff between vrtest versions 0.7 dated 2007-06-16 and 0.8 dated 2008-02-24
DESCRIPTION | 6 +++--- NAMESPACE | 2 +- R/ABEL1Q.R |only R/AR1.R |only R/Auto.VR.R |only R/Boot.test.R | 44 +++++++++++++++++++++++++++++++++++++++++--- R/Chen.Deo.R |only R/Joint.Wright.R | 2 +- R/Mammen.R |only R/Rademacher.R |only R/VR.plot.R |only R/Wald.R | 2 +- R/kfunc.R |only R/stat.R | 2 +- R/stat.plot.R |only man/Auto.VR.Rd |only man/Boot.test.Rd | 12 ++++-------- man/Chen.Deo.Rd |only man/VR.plot.Rd |only man/vrtest-package.Rd | 9 +++++---- 20 files changed, 57 insertions(+), 22 deletions(-)
Author: Jeffrey A. Ryan
Title: Quantitative Financial Modelling Framework
Description: Specify, build, trade, and analyse quantitative financial trading strategies
Diff between quantmod versions 0.3-1 dated 2008-01-13 and 0.3-2 dated 2008-02-24
quantmod-0.3-1/quantmod/man/apply.monthly.Rd |only quantmod-0.3-1/quantmod/man/first.Rd |only quantmod-0.3-1/quantmod/man/period.apply.Rd |only quantmod-0.3-1/quantmod/man/periodicity.Rd |only quantmod-0.3-1/quantmod/man/to.period.Rd |only quantmod-0.3-2/quantmod/CHANGES | 30 quantmod-0.3-2/quantmod/DESCRIPTION | 14 quantmod-0.3-2/quantmod/NAMESPACE | 37 quantmod-0.3-2/quantmod/R/addTA.R | 1384 +++++++++++++++++++++--- quantmod-0.3-2/quantmod/R/chartSeries.R | 14 quantmod-0.3-2/quantmod/R/chartSeries.chob.R | 67 + quantmod-0.3-2/quantmod/R/dropTA.R |only quantmod-0.3-2/quantmod/R/getQuote.R | 52 quantmod-0.3-2/quantmod/R/getSymbols.skeleton.R |only quantmod-0.3-2/quantmod/R/zzz.R | 2 quantmod-0.3-2/quantmod/WISHLIST | 19 quantmod-0.3-2/quantmod/man/addADX.Rd |only quantmod-0.3-2/quantmod/man/addBBands.Rd | 15 quantmod-0.3-2/quantmod/man/addTA.Rd | 62 - quantmod-0.3-2/quantmod/man/breakpoints.Rd | 1 quantmod-0.3-2/quantmod/man/chartSeries.Rd | 4 quantmod-0.3-2/quantmod/man/minutes.Rd | 2 quantmod-0.3-2/quantmod/man/ndays.Rd | 4 quantmod-0.3-2/quantmod/man/period.max.Rd | 2 quantmod-0.3-2/quantmod/man/period.min.Rd | 2 quantmod-0.3-2/quantmod/man/period.prod.Rd | 2 quantmod-0.3-2/quantmod/man/period.sum.Rd | 2 quantmod-0.3-2/quantmod/man/quantmod-package.Rd | 4 28 files changed, 1475 insertions(+), 244 deletions(-)
Author: Michal Czajkowski, Ryan Gill, Greg Rempala
Title: Logistic Joinpoint Regression
Description: Fits and tests logistic joinpoint models.
Diff between ljr versions 1.0-1 dated 2007-07-16 and 1.1-0 dated 2008-02-24
DESCRIPTION | 18 +-- R/firstlib.R | 2 man/ljr0.rd | 2 man/ljr01.rd | 2 man/ljr02.rd | 2 man/ljr1.rd | 4 man/ljr11.rd | 2 man/ljr12.rd | 2 man/ljr2.rd | 2 man/ljr22.rd | 2 man/ljrb.rd | 2 man/ljrb2.rd | 2 man/ljrf.rd | 2 man/ljrf2.rd | 2 man/ljrjk.rd | 2 man/ljrk.rd | 2 man/ljrkk.rd | 2 src/backward2.c | 12 +- src/forward2.c | 10 - src/ljr11.c | 2 src/ljrlib.h | 296 ++++++++++++++++++++++++++++---------------------------- src/lr.c | 10 - src/rmdm.c | 8 - src/test01.c | 4 24 files changed, 197 insertions(+), 197 deletions(-)
Author: Justin Harrington
Title: Tools for linear grouping analysis (LGA)
Description: Tools for linear grouping analysis. Three user-level functions: gap, rlga and lga.
Diff between lga versions 1.0-0 dated 2007-09-10 and 1.1-0 dated 2008-02-24
ChangeLog |only DESCRIPTION | 8 ++--- NAMESPACE | 7 +++- R/gap.R | 6 ++-- R/lga.R | 75 +++++++++++++++++++++-------------------------------- R/rlga.R |only man/gap.Rd | 8 +++-- man/lga-package.Rd | 9 ++++-- man/lga.Rd | 39 +++++++++++++++++++-------- 9 files changed, 83 insertions(+), 69 deletions(-)
Author: Roger Koenker
Diff between quantreg versions 4.16 dated 2008-02-19 and 4.17 dated 2008-02-22
Title: Quantile Regression
Description: Quantile regression and related methods.
quantreg-4.16/quantreg/src/qrcnew.f |only
quantreg-4.16/quantreg/src/ratfor/._qrcensnew.f |only
quantreg-4.16/quantreg/src/ratfor/boot.f |only
quantreg-4.16/quantreg/src/ratfor/qrcens.f |only
quantreg-4.16/quantreg/src/ratfor/qrcensnew.f |only
quantreg-4.17/quantreg/DESCRIPTION | 4 ++--
quantreg-4.17/quantreg/R/crq.R | 15 +++++++++++----
quantreg-4.17/quantreg/REVISIONS | 14 +++++++++++++-
quantreg-4.17/quantreg/inst/doc/rq.pdf |binary
quantreg-4.17/quantreg/man/akj.Rd | 1 -
quantreg-4.17/quantreg/man/crq.Rd | 5 ++++-
quantreg-4.17/quantreg/src/boot.f | 4 ++--
quantreg-4.17/quantreg/src/brute.f | 3 ++-
quantreg-4.17/quantreg/src/crqfnb.f | 2 +-
quantreg-4.17/quantreg/src/powell.f | 7 ++++---
quantreg-4.17/quantreg/src/ratfor/boot.r | 2 +-
quantreg-4.17/quantreg/src/ratfor/brute.r | 3 ++-
quantreg-4.17/quantreg/src/ratfor/crqfnb.r | 2 +-
quantreg-4.17/quantreg/src/ratfor/powell.r | 7 ++++---
19 files changed, 47 insertions(+), 22 deletions(-)
Author: Toni Giorgino
Diff between dtw versions 1.4-3 dated 2008-01-09 and 1.5-3 dated 2008-02-22
Title: Dynamic Time Warping algorithms
Description: Comprehensive implementation of Dynamic Time Warping
algorithms in R. DTW finds the optimal (least cumulative distance)
mapping between two time series. This package implements all common
DTW variants, including local and global constraints, arbitrary
timeseries lenghts, distance definitions, etc. Methods provides
cumulative distance, warping functions, plots, etc.
DESCRIPTION | 4 +--
R/dtw.R | 11 +++++----
R/stepPattern.R | 21 +++++++++++++++++
R/warpArea.R | 58 +++++++++++++++++++++++++++++++++++++++++++++++++
R/zzz.R | 15 +++++++-----
inst/ChangeLog |only
man/dtwDist.Rd | 62 +++++++++++++++++++++++++++++------------------------
man/stepPattern.Rd | 15 ++++++++++++
src/computeCM.c | 5 ++--
9 files changed, 149 insertions(+), 42 deletions(-)
Author: Longhai Li
Diff between BPHO versions 1.2-2 dated 2008-02-22 and 1.2-3 dated 2008-02-22
Title: Bayesian Prediction with High-order Interactions
Description:
This software is used in two situations. The first is to predict the next outcome based on the previous states of a discrete sequence. The second is to classify a discrete response based on a number of discreate covariates. In both situations, we use Bayesian logistic regression models that consider the high-order interactions. The time arising from using high-order interactions is reduced greatly by our compression technique that represents a group of original parameters as a single one in MCMC step. In this version, we use log-normal prior for the hyperparameters. When it is used for the second situation --- classification, we consider the full set of interaction patterns up to a specified order.
BPHO-1.2-2/BPHO/man/begin.Rd |only
BPHO-1.2-2/BPHO/man/gendata.Rd |only
BPHO-1.2-2/BPHO/man/training.Rd |only
BPHO-1.2-3/BPHO/DESCRIPTION | 8 ++++----
BPHO-1.2-3/BPHO/man/a-user.Rd |only
BPHO-1.2-3/BPHO/man/c-training.Rd |only
BPHO-1.2-3/BPHO/man/compression.Rd | 8 ++++----
BPHO-1.2-3/BPHO/man/prediction.Rd | 2 +-
BPHO-1.2-3/BPHO/man/z-gendata.Rd |only
9 files changed, 9 insertions(+), 9 deletions(-)
Author: Francois Husson, Julie Josse, Sebastien Le, Jeremy Mazet
Title: Factor Analysis and Data Mining with R
Description: an R package for exploratory data analysis
Diff between FactoMineR versions 1.07 dated 2007-10-07 and 1.08 dated 2008-02-22
DESCRIPTION | 8 ++--- R/CA.R | 15 ++++++----- R/DMFA.R | 5 ++- R/MFA.R | 7 ++--- R/PCA.R | 37 +++++++++++++++++---------- R/coeffRV.R | 4 ++ R/plot.AFDM.R | 4 +- R/plot.CA.R | 3 +- R/plot.DMFA.R | 20 +++++--------- R/plot.GPA.R | 15 ++--------- R/plot.GPApartial.R | 12 ++------ R/plot.HMFA.R | 10 +++---- R/plot.MCA.R | 34 +++++++++++-------------- R/plot.MFA.R | 66 +++++++++++++++++++++++++++---------------------- R/plot.MFApartial.R | 12 ++------ R/plot.PCA.R | 18 +++++++------ R/print.AFDM.R | 2 - R/print.CA.R | 5 ++- R/print.HMFA.R | 2 - R/print.MCA.R | 2 - R/print.MFA.R | 2 - R/print.PCA.R | 6 ++-- man/AFDM.Rd | 2 - man/CA.Rd | 2 - man/DMFA.Rd | 6 ++-- man/HMFA.Rd | 2 - man/MCA.Rd | 5 ++- man/MFA.Rd | 8 +++-- man/PCA.Rd | 9 +++++- man/plot.AFDM.Rd | 3 +- man/plot.CA.Rd | 5 ++- man/plot.DMFA.Rd | 4 ++ man/plot.GPA.Rd | 5 ++- man/plot.GPApartial.Rd | 3 +- man/plot.HMFA.Rd | 3 +- man/plot.MCA.Rd | 5 ++- man/plot.MFA.Rd | 4 ++ man/plot.MFApartial.Rd | 3 +- man/plot.PCA.Rd | 9 +++++- 39 files changed, 200 insertions(+), 167 deletions(-)
Author: Longhai Li
Diff between predbayescor versions 1.1-2 dated 2007-11-11 and 1.1-3 dated 2008-02-22
Title: Classification rule based on Bayesian naive Bayes models with feature selection bias corrected
Description: This software is used to predict the binary response based on high dimensional features, for example gene expression data. The data are modelled with Bayesian naive Bayes models. When a large number of features are available, one may like to select only a subset of features to use, typically those features strongly correlated with the response in training cases. Such a feature selection procedure is however invalid since the relationship between the response and the features will appear stronger. This package provides a way to avoid this bias and yields well-calibrated prediction for the test cases.
predbayescor-1.1-2/predbayescor/DESCRIPTION.bck |only
predbayescor-1.1-2/predbayescor/R/cv.R |only
predbayescor-1.1-2/predbayescor/R/gendata.R |only
predbayescor-1.1-2/predbayescor/R/pred.R |only
predbayescor-1.1-2/predbayescor/R/present.R |only
predbayescor-1.1-2/predbayescor/R/present.tex.R |only
predbayescor-1.1-2/predbayescor/man/Predict.bayes.Rd |only
predbayescor-1.1-2/predbayescor/man/gendata.bayes.Rd |only
predbayescor-1.1-3/predbayescor/DESCRIPTION | 12 ++++++------
predbayescor-1.1-3/predbayescor/R/cv.r |only
predbayescor-1.1-3/predbayescor/R/evaluate.r |only
predbayescor-1.1-3/predbayescor/R/gendata.r |only
predbayescor-1.1-3/predbayescor/R/pred.r |only
predbayescor-1.1-3/predbayescor/R/present.r |only
predbayescor-1.1-3/predbayescor/man/a-predbayescor.Rd |only
predbayescor-1.1-3/predbayescor/man/b-gendata.bayes.Rd |only
predbayescor-1.1-3/predbayescor/man/evaluate_loss.Rd |only
predbayescor-1.1-3/predbayescor/man/predbayescor-intenal.Rd | 5 +++--
18 files changed, 9 insertions(+), 8 deletions(-)
Author: Longhai Li
Diff between BPHO versions 1.2-1 dated 2008-02-21 and 1.2-2 dated 2008-02-22
Title: Bayesian Prediction with High-order Interactions
Description:
This software is used in two situations. The first is to predict the next outcome based on the previous states of a discrete sequence. The second is to classify a discrete response based on a number of discreate covariates. In both situations, we use Bayesian logistic regression models that consider the high-order interactions. The time arising from using high-order interactions is reduced greatly by our compression technique that represents a group of original parameters as a single one in MCMC step. In this version, we use log-normal prior for the hyperparameters. When it is used for the second situation --- classification, we consider the full set of interaction patterns up to a specified order.
BPHO-1.2-1/BPHO/man/oldman |only
BPHO-1.2-1/BPHO/man/user.Rd |only
BPHO-1.2-2/BPHO/DESCRIPTION | 8 +++---
BPHO-1.2-2/BPHO/man/begin.Rd |only
BPHO-1.2-2/BPHO/man/compression.Rd | 26 ++++++++++++-------
BPHO-1.2-2/BPHO/man/gendata.Rd | 2 -
BPHO-1.2-2/BPHO/man/prediction.Rd | 31 ++++++++++++++---------
BPHO-1.2-2/BPHO/man/training.Rd | 49 ++++++++++++++++++++-----------------
8 files changed, 67 insertions(+), 49 deletions(-)
Author: Jari Oksanen, Roeland Kindt, Pierre Legendre, Bob O'Hara, Gavin L. Simpson,
M. Henry H. Stevens
Title: Community Ecology Package
Description: Ordination methods, diversity analysis and other
functions for community and vegetation ecologists.
Diff between vegan versions 1.8-8 dated 2007-10-03 and 1.11-0 dated 2008-02-21
vegan-1.11-0/vegan/DESCRIPTION | 15 - vegan-1.11-0/vegan/R/CCorA.R |only vegan-1.11-0/vegan/R/adonis.R | 24 +- vegan-1.11-0/vegan/R/anova.betadisper.R |only vegan-1.11-0/vegan/R/anova.cca.R | 18 + vegan-1.11-0/vegan/R/anova.ccabyaxis.R | 4 vegan-1.11-0/vegan/R/anova.ccabymargin.R |only vegan-1.11-0/vegan/R/anova.ccabyterm.R | 12 - vegan-1.11-0/vegan/R/as.mlm.cca.R | 6 vegan-1.11-0/vegan/R/as.mlm.rda.R | 6 vegan-1.11-0/vegan/R/betadisper.R |only vegan-1.11-0/vegan/R/bgdispersal.R | 50 +++- vegan-1.11-0/vegan/R/biplot.CCorA.R |only vegan-1.11-0/vegan/R/biplot.rda.R |only vegan-1.11-0/vegan/R/boxplot.betadisper.R |only vegan-1.11-0/vegan/R/calibrate.cca.R | 6 vegan-1.11-0/vegan/R/capscale.R | 1 vegan-1.11-0/vegan/R/commsimulator.R |only vegan-1.11-0/vegan/R/fitted.cca.R | 21 - vegan-1.11-0/vegan/R/fitted.rda.R | 21 + vegan-1.11-0/vegan/R/getNumObs.R |only vegan-1.11-0/vegan/R/isomapdist.R | 6 vegan-1.11-0/vegan/R/metaMDS.R | 10 vegan-1.11-0/vegan/R/nestedchecker.R |only vegan-1.11-0/vegan/R/nesteddisc.R |only vegan-1.11-0/vegan/R/nestedn0.R |only vegan-1.11-0/vegan/R/numPerms.R |only vegan-1.11-0/vegan/R/oecosimu.R |only vegan-1.11-0/vegan/R/ordiParseFormula.R | 2 vegan-1.11-0/vegan/R/ordicloud.R |only vegan-1.11-0/vegan/R/ordilattice.getEnvfit.R |only vegan-1.11-0/vegan/R/ordiplot.R | 2 vegan-1.11-0/vegan/R/ordiresids.R |only vegan-1.11-0/vegan/R/ordisplom.R |only vegan-1.11-0/vegan/R/orditkplot.R |only vegan-1.11-0/vegan/R/orditorp.R | 27 +- vegan-1.11-0/vegan/R/ordixyplot.R |only vegan-1.11-0/vegan/R/panel.ordi.R |only vegan-1.11-0/vegan/R/panel.ordi3d.R |only vegan-1.11-0/vegan/R/pasteCall.R |only vegan-1.11-0/vegan/R/permCheck.R |only vegan-1.11-0/vegan/R/permControl.R |only vegan-1.11-0/vegan/R/permDisper.R |only vegan-1.11-0/vegan/R/permuted.index2.R |only vegan-1.11-0/vegan/R/permutest.cca.R | 5 vegan-1.11-0/vegan/R/plot.betadisper.R |only vegan-1.11-0/vegan/R/plot.orditkplot.R |only vegan-1.11-0/vegan/R/points.orditkplot.R |only vegan-1.11-0/vegan/R/predict.decorana.R | 21 - vegan-1.11-0/vegan/R/prepanel.ordi3d.R |only vegan-1.11-0/vegan/R/print.CCorA.R |only vegan-1.11-0/vegan/R/print.betadisper.R |only vegan-1.11-0/vegan/R/print.metaMDS.R | 23 +- vegan-1.11-0/vegan/R/print.nestedchecker.R |only vegan-1.11-0/vegan/R/print.nesteddisc.R |only vegan-1.11-0/vegan/R/print.nestedn0.R |only vegan-1.11-0/vegan/R/print.oecosimu.R |only vegan-1.11-0/vegan/R/print.permCheck.R |only vegan-1.11-0/vegan/R/print.permControl.R |only vegan-1.11-0/vegan/R/print.permDisper.R |only vegan-1.11-0/vegan/R/print.summary.permCheck.R |only vegan-1.11-0/vegan/R/scores.betadisper.R |only vegan-1.11-0/vegan/R/scores.cca.R | 23 +- vegan-1.11-0/vegan/R/scores.default.R | 2 vegan-1.11-0/vegan/R/scores.orditkplot.R |only vegan-1.11-0/vegan/R/scores.rda.R | 15 - vegan-1.11-0/vegan/R/summary.permCheck.R |only vegan-1.11-0/vegan/R/summary.prc.R | 2 vegan-1.11-0/vegan/R/taxa2dist.R | 2 vegan-1.11-0/vegan/R/text.orditkplot.R |only vegan-1.11-0/vegan/R/varpart.R | 16 - vegan-1.11-0/vegan/R/vegandocs.R | 4 vegan-1.11-0/vegan/R/wascores.R | 15 - vegan-1.11-0/vegan/data/sipoo.rda |only vegan-1.11-0/vegan/inst/ChangeLog | 267 +++++++++++++++++++++++- vegan-1.11-0/vegan/inst/NEWS |only vegan-1.11-0/vegan/inst/doc/FAQ-vegan.pdf |binary vegan-1.11-0/vegan/inst/doc/FAQ-vegan.texi |only vegan-1.11-0/vegan/inst/doc/Makefile |only vegan-1.11-0/vegan/inst/doc/decision-vegan.Rnw |only vegan-1.11-0/vegan/inst/doc/decision-vegan.pdf |only vegan-1.11-0/vegan/inst/doc/decision-vegan.tex |only vegan-1.11-0/vegan/inst/doc/diversity-vegan.Rnw |only vegan-1.11-0/vegan/inst/doc/diversity-vegan.pdf |only vegan-1.11-0/vegan/inst/doc/diversity-vegan.tex |only vegan-1.11-0/vegan/inst/doc/intro-vegan.Rnw |only vegan-1.11-0/vegan/inst/doc/intro-vegan.pdf |only vegan-1.11-0/vegan/inst/doc/intro-vegan.tex |only vegan-1.11-0/vegan/man/CCorA.Rd |only vegan-1.11-0/vegan/man/adonis.Rd | 42 ++- vegan-1.11-0/vegan/man/anosim.Rd | 3 vegan-1.11-0/vegan/man/anova.cca.Rd | 76 +++--- vegan-1.11-0/vegan/man/beals.Rd | 14 - vegan-1.11-0/vegan/man/betadisper.Rd |only vegan-1.11-0/vegan/man/bgdispersal.Rd | 50 ++-- vegan-1.11-0/vegan/man/bioenv.Rd | 3 vegan-1.11-0/vegan/man/biplot.rda.Rd |only vegan-1.11-0/vegan/man/capscale.Rd | 98 ++++---- vegan-1.11-0/vegan/man/cascadeKM.Rd | 138 ++++++------ vegan-1.11-0/vegan/man/cca.Rd | 66 +++-- vegan-1.11-0/vegan/man/cca.object.Rd | 44 +-- vegan-1.11-0/vegan/man/decorana.Rd | 165 +++++++------- vegan-1.11-0/vegan/man/decostand.Rd | 45 ++-- vegan-1.11-0/vegan/man/designdist.Rd | 45 ++-- vegan-1.11-0/vegan/man/deviance.cca.Rd | 52 ++-- vegan-1.11-0/vegan/man/distconnected.Rd | 28 +- vegan-1.11-0/vegan/man/diversity.Rd | 47 ++-- vegan-1.11-0/vegan/man/dune.Rd | 44 ++- vegan-1.11-0/vegan/man/dune.taxon.Rd | 15 - vegan-1.11-0/vegan/man/metaMDS.Rd | 10 vegan-1.11-0/vegan/man/mrpp.Rd | 6 vegan-1.11-0/vegan/man/oecosimu.Rd |only vegan-1.11-0/vegan/man/ordiresids.Rd |only vegan-1.11-0/vegan/man/orditkplot.Rd |only vegan-1.11-0/vegan/man/orditorp.Rd | 17 - vegan-1.11-0/vegan/man/ordixyplot.Rd |only vegan-1.11-0/vegan/man/permCheck.Rd |only vegan-1.11-0/vegan/man/permuted.index2.Rd |only vegan-1.11-0/vegan/man/plot.cca.Rd | 11 vegan-1.11-0/vegan/man/predict.cca.Rd | 22 + vegan-1.11-0/vegan/man/scores.Rd | 6 vegan-1.11-0/vegan/man/sipoo.Rd |only vegan-1.11-0/vegan/man/taxondive.Rd | 13 - vegan-1.11-0/vegan/man/vegan-internal.Rd | 4 vegan-1.11-0/vegan/man/vegandocs.Rd | 8 vegan-1.11-0/vegan/man/vegdist.Rd | 13 - vegan-1.11-0/vegan/src/data2hill.c | 49 ++-- vegan-1.8-8/vegan/R/print.anova.cca.R |only vegan-1.8-8/vegan/inst/doc/vegan-FAQ.Rnw |only vegan-1.8-8/vegan/inst/doc/vegan-FAQ.pdf |only vegan-1.8-8/vegan/inst/doc/vegan-FAQ.tex |only 131 files changed, 1111 insertions(+), 649 deletions(-)
Author: Robert Ferstl, Josef Hayden
Title: Zero-coupon Yield Curve Estimation
Description: Zero-coupon yield curves and spread curves are important inputs for various financial models, e.g. pricing of securities, risk management, monetary policy issues. Since zero-coupon rates are rarely directly observable, they have to be estimated from market data. The literature broadly distinguishes between parametric and spline-based estimation methods for the zero-coupon yield curve. Our package consists of several widely-used approaches, i.e. the parametric Nelson and Siegel (1987) method with the Svensson (1994) extension, and the McCulloch (1975) cubic splines approach. Extensive summary statistics and plots are provided to compare the results of the different estimation methods.
Diff between termstrc versions 1.0 dated 2007-07-09 and 1.1 dated 2008-02-21
DESCRIPTION | 15 R/methods.R | 844 ++++++++++++++++++++++---------------- R/nelson.R | 428 +++++++++++-------- R/splines.R | 368 +++++++++------- R/tools.R | 623 +++++++++++++++------------- data/govbonds.RData |only demo/00Index | 2 demo/euro01.R | 50 +- demo/euro02.R | 6 demo/euro03.R |only man/aabse.Rd | 20 man/bond_prices.Rd | 26 - man/bond_yields.Rd | 19 man/corpbonds.Rd | 10 man/create_cashflows_matrix.Rd | 8 man/create_maturities_matrix.Rd | 12 man/duration.Rd | 25 - man/eurobonds.Rd | 8 man/forwardrates.Rd |only man/fwr_ns.Rd |only man/fwr_sv.Rd |only man/gi.Rd | 27 - man/govbonds.Rd |only man/impl_fwr.Rd |only man/loss_function.Rd | 18 man/maturity_range.Rd | 10 man/nelson_estim.Rd | 151 ++++-- man/nelson_siegel.Rd | 18 man/plot.cubicsplines.Rd | 78 +-- man/plot.df_curves.Rd |only man/plot.error.Rd |only man/plot.fwr_curves.Rd |only man/plot.ir_curve.Rd |only man/plot.nelson.Rd | 79 ++- man/plot.s_curves.Rd |only man/plot.spot_curves.Rd |only man/print.cubicsplines.Rd | 12 man/print.nelson.Rd | 14 man/print.summary.cubicsplines.Rd | 8 man/print.summary.nelson.Rd | 8 man/rm_bond.Rd |only man/rmse.Rd | 15 man/splines_estim.Rd | 108 +++- man/spotrates.Rd | 39 + man/summary.cubicsplines.Rd | 15 man/summary.nelson.Rd | 16 man/svensson.Rd | 21 man/termstrc-package.Rd | 33 - 48 files changed, 1790 insertions(+), 1344 deletions(-)
Author: Jim Lemon
Diff between prettyR versions 1.1-3 dated 2007-10-17 and 1.2-1 dated 2008-02-21
Title: Pretty descriptive stats.
Description: Functions for conventionally formatted descriptive stats, and
to format R output as HTML.
prettyR-1.1-3/prettyR/R/cats2ranks.R |only
prettyR-1.1-3/prettyR/man/cats2ranks.Rd |only
prettyR-1.1-3/prettyR/man/integer.frequency.Rd |only
prettyR-1.2-1/prettyR/DESCRIPTION | 8 +++---
prettyR-1.2-1/prettyR/INDEX | 7 +++--
prettyR-1.2-1/prettyR/R/brkdn.R | 22 +++++++++--------
prettyR-1.2-1/prettyR/R/delim.table.R | 2 -
prettyR-1.2-1/prettyR/R/describe.R | 32 ++++++++++++++++---------
prettyR-1.2-1/prettyR/R/freq.R | 31 ++++++------------------
prettyR-1.2-1/prettyR/man/brkdn.Rd | 8 +++++-
prettyR-1.2-1/prettyR/man/calculate.xtab.Rd | 2 -
prettyR-1.2-1/prettyR/man/describe.Rd | 3 +-
prettyR-1.2-1/prettyR/man/describe.logical.Rd | 8 +++---
prettyR-1.2-1/prettyR/man/freq.Rd | 16 +++++-------
14 files changed, 73 insertions(+), 66 deletions(-)
Author: Chris Stubben, Brook Milligan, Patrick Nantel
Title: Construction and analysis of matrix population models
Description: Construct and analyze projection matrix models from a demography study of marked individuals classified by age or stage. The package covers methods described in Matrix Population Models by Caswell (2001) and Quantitative Conservation Biology by Morris and Doak (2002).
Diff between popbio versions 1.1.6 dated 2008-01-14 and 1.1.7 dated 2008-02-21
DESCRIPTION | 6 +- R/colorguide.R |only R/mean.list.R |only inst/doc/changelog.txt | 12 ++++ man/LTRE.Rd | 120 ++++++++++++++++++++++++++++------------------- man/aq.trans.Rd | 16 +----- man/calathea.Rd | 17 +++--- man/colorguide.Rd |only man/eigen.analysis.Rd | 4 - man/hudsonia.Rd | 14 ++++- man/mean.list.Rd |only man/monkeyflower.Rd | 2 man/projection.matrix.Rd | 5 + 13 files changed, 121 insertions(+), 75 deletions(-)
Author: Jim Lemon
Diff between plotrix versions 2.3-1 dated 2008-02-11 and 2.3-2 dated 2008-02-21
Title: Various plotting functions
Description: Lots of plots, various labeling, axis and color scaling functions.
DESCRIPTION | 6 +++---
R/barp.R | 2 +-
R/color.scale.R | 4 +++-
R/color2D.matplot.R | 10 ++++++----
R/gantt.R | 35 +++++++++++++++++++++--------------
R/rescale.R | 3 ++-
R/taylor.diagram.R | 2 +-
man/color.scale.Rd | 2 +-
man/color2D.matplot.Rd | 30 ++++++++++++++++++++++++------
man/fan.plot.Rd | 6 +++---
man/gantt.chart.Rd | 16 +++++++++++-----
11 files changed, 76 insertions(+), 40 deletions(-)
Author: Joerg Helms, Ullrich Munzel
Title: Nonparametric Multiple Comparisons
Description: Provides simultaneous rank test procedures for the one-way layout
without presuming a certain distribution.
Diff between npmc versions 1.0-6 dated 2007-11-20 and 1.0-7 dated 2008-02-21
DESCRIPTION | 6 +++--- R/npmc.R | 2 +- 2 files changed, 4 insertions(+), 4 deletions(-)
Author: Beth Atkinson (atkinson@mayo.edu) for pedigree
functions. Terry Therneau (therneau@mayo.edu) for all other functions.
Title: mixed-effects Cox models, sparse matrices, and modeling data from large pedigrees
Description: coxme: general mixed-effects Cox models; kinship: routines
to create and manipulate n by n matrices that describe the
genetic relationships between n persons; pedigree: create and
plot pedigrees; bdsmatrix: a class of objects for sparse
block-diagonal matrices (which is how kinship matrices are
stored); gchol: generalized cholesky decompositions
Diff between kinship versions 1.1.0-18 dated 2007-10-02 and 1.1.0-19 dated 2008-02-21
kinship-1.1.0-18/kinship/inst/doc/releasep.pdf |only kinship-1.1.0-19/kinship/ChangeLog | 3 kinship-1.1.0-19/kinship/DESCRIPTION | 19 ---- kinship-1.1.0-19/kinship/R/align.pedigree.R | 16 +-- kinship-1.1.0-19/kinship/R/autohint.R | 118 +++++++++++++------------ kinship-1.1.0-19/kinship/R/check.hint.R |only kinship-1.1.0-19/kinship/R/print.lmekin.R | 2 kinship-1.1.0-19/kinship/inst/doc/kinship.pdf |only kinship-1.1.0-19/kinship/man/bdsI.Rd | 1 9 files changed, 78 insertions(+), 81 deletions(-)
Author: Mario Pineda-Krch
Diff between GillespieSSA versions 0.5-2 dated 2008-01-19 and 0.5-3 dated 2008-02-21
Title: Gillespie's Stochastic Simulation Algorithm (SSA)
Description: GillespieSSA provides a simple to use, intuitive, and extensible interface to several stochastic simulation algorithms for generating simulated trajectories of finite population continuous-time model. Currently it implements Gillespie's exact stochastic simulation algorithm (Direct method) and several approximate methods (Explicit tau-leap, Binomial tau-leap, and Optimized tau-leap). The package also contains a library of template models that can be run as demo models and can easily be customized and extended. Currently the following models are included, decaying-dimerization reaction set, linear chain system, logistic growth model, Lotka predator-prey model, Rosenzweig-MacArthur predator-prey model, Kermack-McKendrick SIR model, and a metapopulation SIRS model.}
DESCRIPTION | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
Author: Zuleyka Diaz-Martinez, Jose Fernandez-Menendez.
Title: Data Envelopment Analysis.
Description: Performs some basic models of Data Envelopment Analysis, both in multiplier and envelopment form.
Diff between DEA versions 0.1-1 dated 2008-01-29 and 0.1-2 dated 2008-02-20
DESCRIPTION | 14 R/dea.add.env.R | 17 - R/dea.add.mul.R | 17 - R/dea.bcc.io.env.R | 17 - R/dea.bcc.io.mul.R | 17 - R/dea.bcc.oo.env.R | 17 - R/dea.bcc.oo.mul.R | 17 - R/dea.ccr.io.env.R | 19 + R/dea.ccr.io.mul.R | 17 - R/dea.ccr.oo.env.R | 17 - R/dea.ccr.oo.mul.R | 21 + R/dea.sbm.bcc.R | 17 - R/dea.sbm.bcc.io.R | 17 - R/dea.sbm.bcc.oo.R | 17 - R/dea.sbm.ccr.R | 17 - R/dea.sbm.ccr.io.R | 17 - R/dea.sbm.ccr.oo.R | 17 - man/dea.add.env.Rd | 17 - man/dea.add.mul.Rd | 13 man/dea.bcc.io.env.Rd | 13 man/dea.bcc.io.mul.Rd | 12 man/dea.bcc.oo.env.Rd | 12 man/dea.bcc.oo.mul.Rd | 12 man/dea.ccr.io.env.Rd | 14 man/dea.ccr.io.mul.Rd | 12 man/dea.ccr.oo.env.Rd | 12 man/dea.ccr.oo.mul.Rd | 12 man/dea.sbm.bcc.Rd | 12 man/dea.sbm.bcc.io.Rd | 12 man/dea.sbm.bcc.oo.Rd | 14 man/dea.sbm.ccr.Rd | 12 man/dea.sbm.ccr.io.Rd | 12 man/dea.sbm.ccr.oo.Rd | 14 src/dea.c | 812 +++++++++++++++++++++++++++++++++++++++----------- 34 files changed, 1054 insertions(+), 255 deletions(-)
Author: William Constantine (Insightful Corporation) and Donald Percival (Applied Physics Laboratory, University of Washington)
Title: Insightful Wavelet Methods for Time Series Analysis
Description: Software to book Wavelet Methods for Time Series Analysis, Donald B. Percival and Andrew T. Walden, Cambridge University Press, 2000.
Diff between wmtsa versions 1.0-3 dated 2007-11-27 and 1.0-4 dated 2008-02-20
wmtsa-1.0-3/wmtsa/inst/wmtsa.chm |only wmtsa-1.0-4/wmtsa/DESCRIPTION | 4 wmtsa-1.0-4/wmtsa/R/wav_wtmm.q | 39 + wmtsa-1.0-4/wmtsa/inst/doc |only wmtsa-1.0-4/wmtsa/man/D.statistic.Rd | 80 ++-- wmtsa-1.0-4/wmtsa/man/D.table.Rd | 204 +++++----- wmtsa-1.0-4/wmtsa/man/D.table.critical.Rd | 54 +- wmtsa-1.0-4/wmtsa/man/atomclock.Rd | 64 +-- wmtsa-1.0-4/wmtsa/man/create.signalSeries.Rd | 208 +++++----- wmtsa-1.0-4/wmtsa/man/crystal.names.Rd | 66 +-- wmtsa-1.0-4/wmtsa/man/ecg.Rd | 54 +- wmtsa-1.0-4/wmtsa/man/eda.plot.Rd | 66 +-- wmtsa-1.0-4/wmtsa/man/fdp045.Rd | 48 +- wmtsa-1.0-4/wmtsa/man/holderSpectrum.Rd | 229 +++++------ wmtsa-1.0-4/wmtsa/man/make.signal.Rd | 90 ++-- wmtsa-1.0-4/wmtsa/man/nile.Rd | 48 +- wmtsa-1.0-4/wmtsa/man/ocean.Rd | 58 +- wmtsa-1.0-4/wmtsa/man/oceansdf.Rd | 66 +-- wmtsa-1.0-4/wmtsa/man/reconstruct.Rd | 94 ++-- wmtsa-1.0-4/wmtsa/man/wavBestBasis.Rd | 132 +++--- wmtsa-1.0-4/wmtsa/man/wavBootstrap.Rd | 130 +++--- wmtsa-1.0-4/wmtsa/man/wavBoundary.Rd | 122 +++--- wmtsa-1.0-4/wmtsa/man/wavCWT.Rd | 294 +++++++------- wmtsa-1.0-4/wmtsa/man/wavCWTFilters.Rd | 152 +++---- wmtsa-1.0-4/wmtsa/man/wavCWTPeaks.Rd | 296 +++++++------- wmtsa-1.0-4/wmtsa/man/wavCWTTree.Rd | 378 +++++++++--------- wmtsa-1.0-4/wmtsa/man/wavDWPT.Rd | 172 ++++---- wmtsa-1.0-4/wmtsa/man/wavDWPTWhitest.Rd | 178 ++++---- wmtsa-1.0-4/wmtsa/man/wavDWT.Rd | 204 +++++----- wmtsa-1.0-4/wmtsa/man/wavDaubechies.Rd | 228 +++++------ wmtsa-1.0-4/wmtsa/man/wavDictionary.Rd | 186 ++++----- wmtsa-1.0-4/wmtsa/man/wavEDOF.Rd | 264 ++++++------- wmtsa-1.0-4/wmtsa/man/wavFDP.Rd | 264 ++++++------- wmtsa-1.0-4/wmtsa/man/wavFDPBand.Rd | 222 +++++------ wmtsa-1.0-4/wmtsa/man/wavFDPBlock.Rd | 306 +++++++-------- wmtsa-1.0-4/wmtsa/man/wavFDPSDF.Rd | 126 +++--- wmtsa-1.0-4/wmtsa/man/wavFDPTime.Rd | 222 +++++------ wmtsa-1.0-4/wmtsa/man/wavGain.Rd | 146 +++---- wmtsa-1.0-4/wmtsa/man/wavIndex.Rd | 88 ++-- wmtsa-1.0-4/wmtsa/man/wavMODWPT.Rd | 164 ++++---- wmtsa-1.0-4/wmtsa/man/wavMODWT.Rd | 214 +++++----- wmtsa-1.0-4/wmtsa/man/wavMRD.Rd | 330 ++++++++-------- wmtsa-1.0-4/wmtsa/man/wavMRDSum.Rd | 308 +++++++-------- wmtsa-1.0-4/wmtsa/man/wavMaxLevel.Rd | 80 ++-- wmtsa-1.0-4/wmtsa/man/wavPacketBasis.Rd | 138 +++--- wmtsa-1.0-4/wmtsa/man/wavPacketIndices.Rd | 110 ++--- wmtsa-1.0-4/wmtsa/man/wavShift.Rd | 114 ++--- wmtsa-1.0-4/wmtsa/man/wavShrink.Rd | 518 +++++++++++++------------- wmtsa-1.0-4/wmtsa/man/wavSortCrystals.Rd | 68 +-- wmtsa-1.0-4/wmtsa/man/wavStackPlot.Rd | 64 +-- wmtsa-1.0-4/wmtsa/man/wavStackPlot.default.Rd | 140 +++---- wmtsa-1.0-4/wmtsa/man/wavTitle.Rd | 72 +-- wmtsa-1.0-4/wmtsa/man/wavTransform.Rd | 318 +++++++-------- wmtsa-1.0-4/wmtsa/man/wavVar.Rd | 318 +++++++-------- wmtsa-1.0-4/wmtsa/man/wavVarConfidence.Rd | 114 ++--- wmtsa-1.0-4/wmtsa/man/wavVarTest.Rd | 234 +++++------ wmtsa-1.0-4/wmtsa/man/wavZeroPhase.Rd | 110 ++--- 57 files changed, 4505 insertions(+), 4491 deletions(-)
Author: William Constantine, Insightful Corporation
Title: Insightful package providing missing S-PLUS functionality in R
Description: Currently there are many functions in S-PLUS that are
missing in R. To facilitate the conversion of S-PLUS packages to R
packages, this package provides some missing S-PLUS functionality
in R.
Diff between splus2R versions 1.0-2 dated 2007-11-27 and 1.0-3 dated 2008-02-20
splus2R-1.0-2/splus2R/inst/splus2R.chm |only splus2R-1.0-3/splus2R/DESCRIPTION | 11 splus2R-1.0-3/splus2R/R/doTest.R |only splus2R-1.0-3/splus2R/demo |only splus2R-1.0-3/splus2R/inst/doc |only splus2R-1.0-3/splus2R/inst/examples.t |only splus2R-1.0-3/splus2R/man/allTrue.Rd |only splus2R-1.0-3/splus2R/man/anyMissing.Rd | 70 +++--- splus2R-1.0-3/splus2R/man/as.rectangular.Rd | 68 +++--- splus2R-1.0-3/splus2R/man/asSeriesData.Rd | 58 ++--- splus2R-1.0-3/splus2R/man/colIds.Rd | 202 +++++++++--------- splus2R-1.0-3/splus2R/man/deparseText.Rd | 66 ++--- splus2R-1.0-3/splus2R/man/do.test.Rd |only splus2R-1.0-3/splus2R/man/expectStop.Rd |only splus2R-1.0-3/splus2R/man/ifelse1.Rd | 94 ++++---- splus2R-1.0-3/splus2R/man/is.missing.Rd | 68 +++--- splus2R-1.0-3/splus2R/man/is.numeric.atomic.vector.Rd | 130 +++++------ splus2R-1.0-3/splus2R/man/is.rectangular.Rd | 68 +++--- splus2R-1.0-3/splus2R/man/is.zero.Rd | 66 ++--- splus2R-1.0-3/splus2R/man/lowerCase.Rd | 72 +++--- splus2R-1.0-3/splus2R/man/nDotArgs.Rd | 74 +++--- splus2R-1.0-3/splus2R/man/numCols.Rd | 72 +++--- splus2R-1.0-3/splus2R/man/numericSequence-methods.Rd | 184 ++++++++-------- splus2R-1.0-3/splus2R/man/numericSequence.Rd | 102 ++++----- splus2R-1.0-3/splus2R/man/oldUnclass.Rd | 64 ++--- splus2R-1.0-3/splus2R/man/peaks.Rd | 74 +++--- splus2R-1.0-3/splus2R/man/positions.Rd | 66 ++--- splus2R-1.0-3/splus2R/man/rmvnorm.Rd | 110 ++++----- splus2R-1.0-3/splus2R/man/seriesData.Rd | 84 +++---- splus2R-1.0-3/splus2R/man/seriesDataNew.Rd | 50 ++-- splus2R-1.0-3/splus2R/man/seriesDataValid.Rd | 58 ++--- splus2R-1.0-3/splus2R/man/signalSeries-methods.Rd | 172 +++++++-------- splus2R-1.0-3/splus2R/man/signalSeries.Rd | 160 +++++++------- splus2R-1.0-3/splus2R/man/stdev.Rd | 68 +++--- splus2R-1.0-3/splus2R/man/subscript2d.Rd | 90 ++++---- splus2R-1.0-3/splus2R/man/vecnorm.Rd | 100 ++++---- splus2R-1.0-3/splus2R/man/which.na.Rd | 84 +++---- splus2R-1.0-3/splus2R/tests |only 38 files changed, 1294 insertions(+), 1291 deletions(-)
Author: Andrew Gelman
Diff between arm versions 1.1-2 dated 2008-02-12 and 1.1-3 dated 2008-02-20
Title: Data Analysis Using Regression and Multilevel/Hierarchical Models
Description: R functions for processing lm, glm, mer and polr outputs.
CHANGELOG | 6 ++++++
DESCRIPTION | 6 +++---
R/coefplot.R | 22 ++++++++++++++--------
3 files changed, 23 insertions(+), 11 deletions(-)
Author: Markus Gesmann
Title: Mack- and Munich-chain-ladder methods for insurance claims reserving
Description: The package contains the Mack- and Munich-chain-ladder methods which are used in insurance claims reserving exercise.
Diff between ChainLadder versions 0.1.1-2 dated 2008-02-07 and 0.1.1-3 dated 2008-02-20
ChangeLog |only DESCRIPTION | 4 ++-- R/MackChainLadderFunctions.R | 42 +++++++++++++++++++++++++++++++++++++++--- man/MackChainLadder.Rd | 10 ++++++---- 4 files changed, 47 insertions(+), 9 deletions(-)
Author: Qianxing Mo, Mithat Gonen and Glenn Heller
Title: Concordance Probability Estimates in Survival Analysis
Description: Functions to calculate concordance probability estimates in survival analysis
Diff between CPE versions 1.2 dated 2008-01-14 and 1.3 dated 2008-02-20
DESCRIPTION | 4 ++-- R/phcpe.R | 17 +++++++++++------ R/zzz.R | 2 +- clean | 2 +- demo/phcpe.R | 10 +++++++++- man/phcpe.Rd | 11 +++++++++-- src/phcpe.c | 22 ++++++++++++++++++++++ 7 files changed, 55 insertions(+), 13 deletions(-)
Author: Andrea Spano' and Giorgio Spedicato
Title: Variables and Attributes Control Charts
Description: qAnalyst makes control charts for variables and attributes according to Douglas C. Montgomery Introduction to Statistical Quality Control book. Moreover, capability analysis for normal and non - normal distributions is implemented.
Diff between qAnalyst versions 0.1 dated 2008-01-10 and 0.5.1 dated 2008-02-19
qAnalyst-0.1/qAnalyst/R/statsFun.R |only qAnalyst-0.1/qAnalyst/man/statsFun.Rd |only qAnalyst-0.5.1/qAnalyst/DESCRIPTION | 12 +- qAnalyst-0.5.1/qAnalyst/R/andersonDarlingFun.R |only qAnalyst-0.5.1/qAnalyst/R/boxcoxFun.R |only qAnalyst-0.5.1/qAnalyst/R/c4Fun.R |only qAnalyst-0.5.1/qAnalyst/R/capabilityNormal.R |only qAnalyst-0.5.1/qAnalyst/R/capabilityNotNormal.R |only qAnalyst-0.5.1/qAnalyst/R/centerFun.R | 23 +--- qAnalyst-0.5.1/qAnalyst/R/clFun.R | 48 ++++---- qAnalyst-0.5.1/qAnalyst/R/devFun.R |only qAnalyst-0.5.1/qAnalyst/R/funInfoFun.R |only qAnalyst-0.5.1/qAnalyst/R/getCoeffFun.R | 8 - qAnalyst-0.5.1/qAnalyst/R/getParameterFun.R | 51 ++++----- qAnalyst-0.5.1/qAnalyst/R/invCpFun.R |only qAnalyst-0.5.1/qAnalyst/R/johnsonFun.R |only qAnalyst-0.5.1/qAnalyst/R/legendFun.R |only qAnalyst-0.5.1/qAnalyst/R/mrangeFun.R | 6 - qAnalyst-0.5.1/qAnalyst/R/paretoChart.R |only qAnalyst-0.5.1/qAnalyst/R/plot.capability.R |only qAnalyst-0.5.1/qAnalyst/R/plot.spc.R | 34 +++--- qAnalyst-0.5.1/qAnalyst/R/plot.transformation.R |only qAnalyst-0.5.1/qAnalyst/R/pointsFun.R | 12 +- qAnalyst-0.5.1/qAnalyst/R/print.capability.R |only qAnalyst-0.5.1/qAnalyst/R/print.spc.R | 12 +- qAnalyst-0.5.1/qAnalyst/R/print.transformation.R |only qAnalyst-0.5.1/qAnalyst/R/probplot.R |only qAnalyst-0.5.1/qAnalyst/R/rFun.R | 2 qAnalyst-0.5.1/qAnalyst/R/rapidFitFun.R |only qAnalyst-0.5.1/qAnalyst/R/sgFun.R | 39 ++++--- qAnalyst-0.5.1/qAnalyst/R/spc.R | 108 ++++++++++++-------- qAnalyst-0.5.1/qAnalyst/R/statsSpcFun.R |only qAnalyst-0.5.1/qAnalyst/R/summary.capability.R |only qAnalyst-0.5.1/qAnalyst/R/summary.infoFun.R |only qAnalyst-0.5.1/qAnalyst/R/summary.spc.R | 17 +-- qAnalyst-0.5.1/qAnalyst/R/switchFun.R | 31 ++++- qAnalyst-0.5.1/qAnalyst/R/testFun.R | 99 ++++++++++-------- qAnalyst-0.5.1/qAnalyst/README | 40 +++++++ qAnalyst-0.5.1/qAnalyst/data/brakeCap.rda |only qAnalyst-0.5.1/qAnalyst/data/warpTiles.rda |only qAnalyst-0.5.1/qAnalyst/demo |only qAnalyst-0.5.1/qAnalyst/inst |only qAnalyst-0.5.1/qAnalyst/man/andersonDarlingFun.Rd |only qAnalyst-0.5.1/qAnalyst/man/blemish.Rd | 10 - qAnalyst-0.5.1/qAnalyst/man/boxcoxFun.Rd |only qAnalyst-0.5.1/qAnalyst/man/brakeCap.Rd |only qAnalyst-0.5.1/qAnalyst/man/c4Fun.Rd |only qAnalyst-0.5.1/qAnalyst/man/capabilityNormal.Rd |only qAnalyst-0.5.1/qAnalyst/man/capabilityNotNormal.Rd |only qAnalyst-0.5.1/qAnalyst/man/centerFun.Rd | 25 ++-- qAnalyst-0.5.1/qAnalyst/man/clFun.Rd | 23 +--- qAnalyst-0.5.1/qAnalyst/man/countFun.Rd | 15 +- qAnalyst-0.5.1/qAnalyst/man/cranks.Rd | 12 +- qAnalyst-0.5.1/qAnalyst/man/devFun.Rd |only qAnalyst-0.5.1/qAnalyst/man/faults.Rd | 8 - qAnalyst-0.5.1/qAnalyst/man/funInfoFun.Rd |only qAnalyst-0.5.1/qAnalyst/man/getCoeffFun.Rd | 15 +- qAnalyst-0.5.1/qAnalyst/man/getParameterFun.Rd | 16 +- qAnalyst-0.5.1/qAnalyst/man/iFun.Rd | 11 -- qAnalyst-0.5.1/qAnalyst/man/iLimitsFun.Rd | 18 +-- qAnalyst-0.5.1/qAnalyst/man/invCpFun.Rd |only qAnalyst-0.5.1/qAnalyst/man/johnsonFun.Rd |only qAnalyst-0.5.1/qAnalyst/man/legendFun.Rd |only qAnalyst-0.5.1/qAnalyst/man/limitsFun.Rd | 18 +-- qAnalyst-0.5.1/qAnalyst/man/mrangeFun.Rd | 7 - qAnalyst-0.5.1/qAnalyst/man/paretoChart.Rd |only qAnalyst-0.5.1/qAnalyst/man/plot.capability.Rd |only qAnalyst-0.5.1/qAnalyst/man/plot.spc.Rd | 21 +-- qAnalyst-0.5.1/qAnalyst/man/plot.transformation.Rd |only qAnalyst-0.5.1/qAnalyst/man/pointsFun.Rd | 30 ++--- qAnalyst-0.5.1/qAnalyst/man/print.capability.Rd |only qAnalyst-0.5.1/qAnalyst/man/print.spc.Rd | 25 ++-- qAnalyst-0.5.1/qAnalyst/man/print.transformation.Rd |only qAnalyst-0.5.1/qAnalyst/man/probplot.Rd |only qAnalyst-0.5.1/qAnalyst/man/qAnalyst-package.Rd | 43 ++++--- qAnalyst-0.5.1/qAnalyst/man/rFun.Rd | 20 ++- qAnalyst-0.5.1/qAnalyst/man/rapidFitFun.Rd |only qAnalyst-0.5.1/qAnalyst/man/rawWeight.Rd | 14 +- qAnalyst-0.5.1/qAnalyst/man/sgFun.Rd | 26 +--- qAnalyst-0.5.1/qAnalyst/man/spc.Rd | 66 +----------- qAnalyst-0.5.1/qAnalyst/man/statsSpcFun.Rd |only qAnalyst-0.5.1/qAnalyst/man/summary.capability.Rd |only qAnalyst-0.5.1/qAnalyst/man/summary.infoFun.Rd |only qAnalyst-0.5.1/qAnalyst/man/summary.spc.Rd | 10 - qAnalyst-0.5.1/qAnalyst/man/switchFun.Rd | 33 ++++-- qAnalyst-0.5.1/qAnalyst/man/testFun.Rd | 42 +++---- qAnalyst-0.5.1/qAnalyst/man/toyCarsDefects.Rd | 10 - qAnalyst-0.5.1/qAnalyst/man/toys.Rd | 2 qAnalyst-0.5.1/qAnalyst/man/tubes.Rd | 10 - qAnalyst-0.5.1/qAnalyst/man/warpTiles.Rd |only qAnalyst-0.5.1/qAnalyst/man/xLimitsFun.Rd | 22 +--- qAnalyst-0.5.1/qAnalyst/man/ylabFun.Rd | 12 +- 92 files changed, 575 insertions(+), 531 deletions(-)
Author: Alan Genz
Diff between mvtnorm versions 0.8-2 dated 2008-02-12 and 0.8-3 dated 2008-02-19
Title: Multivariate Normal and T Distribution
Description: Computes multivariate normal and t probabilities, quantiles and
densities.
CHANGES | 6 ++++++
DESCRIPTION | 4 ++--
R/mvnorm.R | 7 ++++---
inst/doc/MVT_Rnews.pdf |binary
4 files changed, 12 insertions(+), 5 deletions(-)
Author: Jonathan M. Lees
Title: Grades Setting and Exam Maker
Description: Programs to determine student grades and create
examinations from Question banks. Programs will create numerous
multiple choice exams, randomly shuffled, for different versions of same question list.
Diff between ProfessR versions 1.0-2 dated 2008-02-16 and 1.0-3 dated 2008-02-19
DESCRIPTION | 4 R/DUMPgrades.R |only R/checkgrades.R |only R/getlet.R | 112 ++++++++++----- R/getlet2.R |only R/make.exam.R | 9 - R/prep.solution.R | 4 inst/doc/ExamMaker.log | 4 inst/doc/ExamMaker.pdf |binary inst/doc/Grader.log | 4 inst/doc/Grader.pdf |binary inst/doc/Grader.tex | 62 ++++---- inst/doc/Rplots.ps | 307 +++++++++++++++++++++---------------------- inst/doc/exam2A.tex | 239 ++++++++++++++++----------------- inst/doc/exam2A.tex.ANS | 42 ++--- inst/doc/exam2Asolutions.tex | 84 +++++------ inst/doc/exam2B.tex | 217 +++++++++++++++--------------- inst/doc/exam2B.tex.ANS | 38 ++--- inst/doc/exam2Bsolutions.tex | 76 +++++----- inst/doc/grades-004.eps | 36 ++--- inst/doc/grades-004.pdf | 40 ++--- man/DUMPgrades.Rd |only man/ProfessR-package.Rd | 2 man/checkgrades.Rd |only man/getlet.Rd | 5 man/ran.exam.Rd | 1 26 files changed, 668 insertions(+), 618 deletions(-)
Author: Martin Schlather
Diff between MarkedPointProcess versions 0.2.5 dated 2008-02-03 and 0.2.7 dated 2008-02-19
More information about MarkedPointProcess at CRAN
Title: Analysis of Marks of Marked Point Processes
Description: Non-parametric Analysis of the Marks of Marked Point Processes
DESCRIPTION | 5 ++---
src/MPPsimu.cc | 22 ++++++++++------------
2 files changed, 12 insertions(+), 15 deletions(-)
Permanent link
Author: S original by Venables & Ripley.
R port by Brian Ripley
Diff between VR versions 7.2-40 dated 2008-01-27 and 7.2-41 dated 2008-02-19
Bundle: VR
Contains: MASS class nnet spatial
DESCRIPTION | 6 +++---
MASS/R/fitdistr.R | 2 +-
MASS/R/lm.ridge.R | 2 +-
MASS/R/profiles.R | 2 +-
MASS/inst/NEWS | 4 +++-
MASS/src/MASS.c | 2 +-
MASS/tests/confint.R | 15 +++++++++++++++
WHATS.NEW | 4 +++-
8 files changed, 28 insertions(+), 9 deletions(-)
Author: Roger Bivand and Danlin Yu
Title: Geographically weighted regression
Description: Functions for computing geographically weighted
regressions based on work by Chris
Brunsdon, Martin Charlton and Stewart Fortheringham,
http://ncg.nuim.ie/ncg/GWR/index.htm
Diff between spgwr versions 0.4-7 dated 2007-11-03 and 0.5-1 dated 2008-02-19
ChangeLog | 10 +++++++++- DESCRIPTION | 6 +++--- R/gwr.R | 10 ++-------- R/gwr.cv.R | 26 ++++++++++++++++---------- R/gwr.gauss.R | 7 +++++++ R/gwr1.R | 4 ++-- R/gwr1.cv.R | 24 +++++++++++++++--------- R/zzz.R | 3 +++ inst/ChangeLog | 10 +++++++++- man/ggwr.Rd | 7 ++++--- man/ggwr.sel.Rd | 8 +++++--- man/gwr.Rd | 6 +++--- man/gwr.bisquare.Rd | 4 ++-- man/gwr.cv.Rd | 8 +++++--- man/gwr.gauss.Rd | 16 ++++++++++++---- 15 files changed, 97 insertions(+), 52 deletions(-)
Author: Roger Bivand
Diff between spdep versions 0.4-13 dated 2008-01-01 and 0.4-17 dated 2008-02-19
Title: Spatial dependence: weighting schemes, statistics and models
Description: A collection of functions to create spatial weights matrix
objects from polygon contiguities, from point patterns by distance and
tesselations, for summarising these objects, and for permitting their
use in spatial data analysis; a collection of tests for spatial
autocorrelation, including global Moran's I, Geary's C, Hubert/Mantel
general cross product statistic, Empirical Bayes estimates and Assunçăo/Reis
Index, Getis/Ord G and multicoloured join count statistics,
local Moran's I and Getis/Ord G, saddlepoint approximations and exact
tests for global and local Moran's I; and functions for estimating
spatial simultaneous autoregressive (SAR) lag and error models,
weighted and unweighted SAR and CAR spatial regression models,
semi-parametric and Moran eigenvector spatial filtering, GM SAR error
models, and generalized spatial two stage least squares models.
ChangeLog | 62 ++++++++++++++++++++++++++++++-
DESCRIPTION | 6 +--
R/EBI.R | 2 -
R/geary.R | 12 +++---
R/globalG.R | 7 ++-
R/jc.R | 45 ++++++++++++----------
R/kpgm_new.R | 35 ++++++++++-------
R/lm.LMtests.R | 4 +-
R/lm.morantest.R | 2 -
R/localmoran.exact.R | 2 -
R/moran.R | 10 +++--
R/moran.exact.R | 68 +++++++++++++++++++++++++++++++---
R/moran.exact.alt.R | 14 +------
R/mtlocalmoran.R | 63 ++++++++++++++-----------------
R/mtmoran.R | 90 +++++++++++++++++++++++++++++----------------
R/nb2listw.R | 8 +++-
R/poly2nb.R | 4 ++
R/sp.mantel.R | 2 -
R/utils.R | 7 ++-
R/weights-utils.R | 8 +++-
inst/ChangeLog | 62 ++++++++++++++++++++++++++++++-
inst/doc/Fig-bitmap-1.pdf | 6 +--
inst/doc/sids-010.pdf | 6 +--
inst/doc/sids.pdf |binary
inst/doc/sids.tex | 2 -
man/GMerrorsar.Rd | 7 +++
man/geary.mc.Rd | 5 +-
man/geary.test.Rd | 5 +-
man/globalG.test.Rd | 5 +-
man/joincount.multi.Rd | 6 +--
man/joincount.test.Rd | 6 +--
man/lm.morantest.exact.Rd | 2 -
man/lm.morantest.sad.Rd | 6 ++-
man/localmoran.exact.Rd | 8 ++--
man/localmoran.sad.Rd | 6 ++-
man/moran.test.Rd | 5 +-
man/spweights.constants.Rd | 5 +-
man/testnb.Rd | 2 -
src/gsymtest.c | 25 +++++++-----
39 files changed, 428 insertions(+), 192 deletions(-)
Author: Edzer J. Pebesma
Diff between sp versions 0.9-19 dated 2007-12-24 and 0.9-23 dated 2008-02-19
Title: classes and methods for spatial data
Description: A package that provides classes and methods for spatial
data. The classes document where the spatial location information
resides, for 2D or 3D data. Utility functions are provided, e.g. for
plotting data as maps, spatial selection, as well as methods for
retrieving coordinates, for subsetting, print, summary, etc.
ChangeLog | 38
DESCRIPTION | 6
R/Spatial-methods.R | 2
R/SpatialPoints-methods.R | 6
R/SpatialPointsDataFrame-methods.R | 6
R/gridded.R | 11
R/spsample.R | 22
inst/ChangeLog | 38
inst/doc/Rplots.ps |only
inst/doc/sp-005.eps |only
inst/doc/sp-005.pdf |only
inst/doc/sp-014.eps |only
inst/doc/sp-014.pdf |only
inst/doc/sp-021.eps |only
inst/doc/sp-021.pdf |only
inst/doc/sp-023.eps |only
inst/doc/sp-023.pdf |only
inst/doc/sp-025.eps |only
inst/doc/sp-025.pdf |only
inst/doc/sp.aux |only
inst/doc/sp.log |only
inst/doc/sp.out |only
inst/doc/sp.pdf | 2223 ++++++++++++++++++-------------------
inst/doc/sp.tex |only
inst/doc/sp.toc |only
man/SpatialPoints-class.Rd | 4
man/SpatialPoints.Rd | 5
man/overlay.Rd | 5
tests/grid.Rout.save | 10
29 files changed, 1218 insertions(+), 1158 deletions(-)
Author: Terry M Therneau and Beth Atkinson
Diff between rpart versions 3.1-38 dated 2007-10-04 and 3.1-39 dated 2008-02-19
Title: Recursive Partitioning
Description: Recursive partitioning and regression trees
ChangeLog | 8 +++++---
DESCRIPTION | 7 ++++---
R/summary.rpart.s | 2 +-
inst/po/en@quot/LC_MESSAGES/R-rpart.mo |binary
inst/po/en@quot/LC_MESSAGES/rpart.mo |binary
po/R-en@quot.po | 13 ++++++++-----
po/R-fr.po | 13 ++++++++++---
po/R-rpart.pot | 7 +++++--
po/en@quot.po | 6 +++---
src/graycode.c | 2 +-
src/rpartproto.h | 2 +-
11 files changed, 38 insertions(+), 22 deletions(-)
Author: Roger Koenker
Diff between quantreg versions 4.11 dated 2008-01-16 and 4.16 dated 2008-02-19
Title: Quantile Regression
Description: Quantile regression and related methods.
quantreg-4.11/quantreg/ChangeLog |only
quantreg-4.11/quantreg/R/rq.fit.cen.R |only
quantreg-4.11/quantreg/R/summary.fcrq.R |only
quantreg-4.11/quantreg/man/rq.fit.fcen.Rd |only
quantreg-4.11/quantreg/src/qrcens.f |only
quantreg-4.11/quantreg/src/ratfor/out |only
quantreg-4.16/quantreg/ChangeLog.MM |only
quantreg-4.16/quantreg/DESCRIPTION | 8 -
quantreg-4.16/quantreg/R/boot.R | 8 -
quantreg-4.16/quantreg/R/combos.R |only
quantreg-4.16/quantreg/R/crq.R |only
quantreg-4.16/quantreg/R/khmal.R | 2
quantreg-4.16/quantreg/R/quantreg.R | 14 +-
quantreg-4.16/quantreg/R/rqss.R | 2
quantreg-4.16/quantreg/REVISIONS | 32 ++++
quantreg-4.16/quantreg/data/uis.R |only
quantreg-4.16/quantreg/inst/doc/rq.pdf |binary
quantreg-4.16/quantreg/man/QTECox.Rd |only
quantreg-4.16/quantreg/man/boot.crq.Rd |only
quantreg-4.16/quantreg/man/combos.Rd |only
quantreg-4.16/quantreg/man/crq.Rd |only
quantreg-4.16/quantreg/man/rq.Rd | 25 ++-
quantreg-4.16/quantreg/man/rqss.Rd | 1
quantreg-4.16/quantreg/man/summary.crq.Rd |only
quantreg-4.16/quantreg/man/summary.rq.Rd | 9 -
quantreg-4.16/quantreg/man/uis.Rd |only
quantreg-4.16/quantreg/src/boot.f | 59 +++------
quantreg-4.16/quantreg/src/brute.f |only
quantreg-4.16/quantreg/src/combos.f |only
quantreg-4.16/quantreg/src/crq.f |only
quantreg-4.16/quantreg/src/crqfnb.f | 18 +-
quantreg-4.16/quantreg/src/idmin.f |only
quantreg-4.16/quantreg/src/powell.f |only
quantreg-4.16/quantreg/src/qrcnew.f |only
quantreg-4.16/quantreg/src/ratfor/._qrcensnew.f |only
quantreg-4.16/quantreg/src/ratfor/README | 3
quantreg-4.16/quantreg/src/ratfor/boot.f |only
quantreg-4.16/quantreg/src/ratfor/boot.r | 36 +----
quantreg-4.16/quantreg/src/ratfor/brute.r |only
quantreg-4.16/quantreg/src/ratfor/combos.r |only
quantreg-4.16/quantreg/src/ratfor/crqfnb.r | 27 ++--
quantreg-4.16/quantreg/src/ratfor/powell.r |only
quantreg-4.16/quantreg/src/ratfor/qrcens.f |only
quantreg-4.16/quantreg/src/ratfor/qrcensnew.f |only
quantreg-4.16/quantreg/src/rq0.f |only
quantreg-4.16/quantreg/src/rq1.f | 154 ++++++------------------
46 files changed, 162 insertions(+), 236 deletions(-)
Author: Jose Pinheiro
Diff between nlme versions 3.1-86 dated 2007-10-05 and 3.1-87 dated 2008-02-19
Title: Linear and Nonlinear Mixed Effects Models
Description: Fit and compare Gaussian linear and nonlinear mixed-effects models.
ChangeLog | 21 +++++++++++++++++++++
DESCRIPTION | 6 +++---
R/VarCorr.R | 1 +
R/VarCov.R | 1 +
R/corStruct.R | 8 +++++++-
R/gls.R | 3 +++
R/gnls.R | 4 +++-
R/lmList.R | 4 ++++
R/lme.R | 9 +++++++--
R/modelStruct.R | 2 ++
R/newMethods.R | 1 +
R/pdMat.R | 3 ++-
R/reStruct.R | 2 ++
R/simulate.R | 2 ++
R/varFunc.R | 9 +++++++--
inst/po/en@quot/LC_MESSAGES/R-nlme.mo |binary
inst/po/en@quot/LC_MESSAGES/nlme.mo |binary
inst/po/fr/LC_MESSAGES/R-nlme.mo |binary
inst/po/fr/LC_MESSAGES/nlme.mo |binary
man/Initialize.reStruct.Rd | 6 ------
man/collapse.groupedData.Rd | 6 ------
man/fitted.lmeStruct.Rd | 6 ------
man/lme.Rd | 29 ++++++++++++-----------------
man/lme.groupedData.Rd | 28 ++++++++++++----------------
man/lme.lmList.Rd | 28 ++++++++++++----------------
man/logLik.reStruct.Rd | 8 --------
man/nlme.nlsList.Rd | 26 +++++++++++---------------
man/plot.nffGroupedData.Rd | 6 +-----
man/plot.nfnGroupedData.Rd | 4 ----
man/plot.nmGroupedData.Rd | 4 ----
man/recalc.reStruct.Rd | 6 ------
man/residuals.lme.Rd | 5 -----
man/residuals.lmeStruct.Rd | 5 -----
po/R-en@quot.po | 15 ++++++++++++---
po/R-fr.po | 15 ++++++++++++---
po/R-nlme.pot | 13 +++++++++++--
po/en@quot.po | 30 +++++++++++++++---------------
po/fr.po | 22 +++++++++++-----------
po/nlme.pot | 22 +++++++++++-----------
tests/gls.R | 14 ++++++++++++++
40 files changed, 200 insertions(+), 174 deletions(-)
Author: Nicholas J. Lewin-Koh and Roger Bivand, contributions by Edzer J. Pebesma, Eric Archer, Stéphane Dray, David Forrest, Patrick Giraudoux, Duncan Golicher, Virgilio Gómez Rubio, Patrick Hausmann, Thomas Jagger, Sebastian P. Luque, Don MacQueen, Andrew Niccolai and Tom Short
Title: Tools for reading and handling spatial objects
Description: Set of tools for manipulating and reading geographic data, in particular ESRI shapefiles; C code used from shapelib. It includes binary access to GSHHS 1.5 shoreline files. The package also provides interface wrappers for exchanging spatial objects with packages such as PBSmapping, spatstat, maps, RArcInfo, Stata tmap, WinBUGS, Mondrian, and others.
Diff between maptools versions 0.7-4 dated 2008-01-21 and 0.7-7 dated 2008-02-19
ChangeLog | 49 +++++++++++++++++++++++++++++++++++++++ DESCRIPTION | 6 ++-- NAMESPACE | 2 - R/GE_png.R | 18 +++++++++++--- R/elide.R | 10 ++++++-- R/shapelib.R | 31 ++++++++++++++++++------ R/sp_spat1.R | 20 ++++++++++++---- R/spatstat1.R | 16 ++++-------- inst/ChangeLog | 55 ++++++++++++++++++++++++++++++++++++++++++++ man/GE_SpatialGrid.Rd | 6 ++++ man/Rgshhs.Rd | 7 ++++- man/SpatialLines2PolySet.Rd | 12 ++++++--- man/checkPolygonsHoles.Rd | 3 +- man/dotsInPolys.Rd | 12 ++++++--- man/elide-methods.Rd | 1 man/gcDestination.Rd | 11 +++++++- man/map2SpatialPolygons.Rd | 15 ++++++++---- man/nowrapRecenter.Rd | 3 +- man/pal2SpatialPolygons.Rd | 18 +++++++++----- man/plot.polylist.Rd | 12 ++++++--- man/pointLabel.Rd | 3 +- man/readGPS.Rd | 6 +++- man/readShapeLines.Rd | 11 +++++--- man/readShapePoints.Rd | 5 ++-- man/readShapePoly.Rd | 11 +++++--- man/sp2WB.Rd | 3 +- man/sp2tmap.Rd | 3 +- man/sun-methods.Rd | 5 +++- man/symbolsInPolys.Rd | 6 +++- man/unionSpatialPolygons.Rd | 3 +- man/write.linelistShape.Rd | 3 +- man/write.pointShape.Rd | 6 +++- man/write.polylistShape.Rd | 3 +- src/Rshapeget.c | 2 - src/Rshapeinfo.c | 52 ++++++++++++++++++++++++++++++++++++++++- 35 files changed, 343 insertions(+), 86 deletions(-)
Author: Fridolin Wild
Title: Latent Semantic Analysis
Description: The basic idea of latent semantic analysis (LSA) is,
that text do have a higher order (=latent semantic) structure which,
however, is obscured by word usage (e.g. through the use of synonyms
or polysemy). By using conceptual indices that are derived statistically
via a truncated singular value decomposition (a two-mode factor analysis)
over a given document-term matrix, this variability problem can be overcome.
Diff between lsa versions 0.57 dated 2005-11-25 and 0.59 dated 2008-02-19
lsa-0.57/lsa/TO-DO.txt |only lsa-0.57/lsa/data/stopwords_de.R |only lsa-0.57/lsa/data/stopwords_en.R |only lsa-0.57/lsa/data/stopwords_english.txt |only lsa-0.57/lsa/data/stopwords_german.txt |only lsa-0.59/lsa/DESCRIPTION | 10 - lsa-0.59/lsa/HISTORY |only lsa-0.59/lsa/NAMESPACE | 1 lsa-0.59/lsa/R/corpus_sample.R |only lsa-0.59/lsa/R/dimcalc.R | 10 + lsa-0.59/lsa/R/textmatrix.R | 217 +++++++++++++++++++++++++------- lsa-0.59/lsa/R/triples.R | 12 + lsa-0.59/lsa/data/corpus_essays.rda |only lsa-0.59/lsa/data/corpus_scores.rda |only lsa-0.59/lsa/data/corpus_training.rda |only lsa-0.59/lsa/data/stopwords_de.rda |only lsa-0.59/lsa/data/stopwords_en.rda |only lsa-0.59/lsa/data/stopwords_nl.rda |only lsa-0.59/lsa/demo/00Index | 5 lsa-0.59/lsa/demo/lsa_essayscoring.R |only lsa-0.59/lsa/demo/lsa_landauer.R | 9 + lsa-0.59/lsa/demo/lsa_plot.R |only lsa-0.59/lsa/man/corpora.Rd |only lsa-0.59/lsa/man/corpus_sample.Rd |only lsa-0.59/lsa/man/dimcalc.Rd | 9 + lsa-0.59/lsa/man/foldin.Rd | 4 lsa-0.59/lsa/man/print.textmatrix.Rd | 2 lsa-0.59/lsa/man/stopwords.Rd | 12 + lsa-0.59/lsa/man/textmatrix.Rd | 27 +++ lsa-0.59/lsa/man/weightings.Rd | 4 lsa-0.59/lsa/tests/lsa-tests.R | 124 ++++++++++++++++++ 31 files changed, 381 insertions(+), 65 deletions(-)
Author: Jussi Klemela
Diff between denpro versions 0.8.2 dated 2006-05-19 and 0.8.4 dated 2008-02-19
Title: Visualization of multivariate, functions, sets, and data
Description:
The package provides tools to
(1) visualize multivariate density functions and density estimates
with level set trees,
(2) visualize level sets with shape trees,
(3) visualize multivariate data with tail trees,
(4) visualize scales of multivariate density estimates with
mode graphs and branching maps, and
(5) visualize anisotropic spread with 2D volume functions and
2D probability conetent functions.
Level set trees visualize mode structure,
shape trees visualize shapes of level sets of unimodal densities,
and tail trees visualize connected data sets.
The kernel estimator is implemented
but the package may be applied for visualizing other density estimates.
denpro-0.8.2/denpro/R/ccengra1.R |only
denpro-0.8.2/denpro/R/ccengra2.R |only
denpro-0.8.2/denpro/R/ccenuni.R |only
denpro-0.8.2/denpro/R/ccenuniapp.R |only
denpro-0.8.2/denpro/R/centersit.R |only
denpro-0.8.2/denpro/R/cfrekv2.R |only
denpro-0.8.2/denpro/R/chanall.R |only
denpro-0.8.2/denpro/R/coloallof.R |only
denpro-0.8.2/denpro/R/csurface.R |only
denpro-0.8.2/denpro/R/cvolgra1.R |only
denpro-0.8.2/denpro/R/cvolgra2.R |only
denpro-0.8.2/denpro/R/decomgra1.R |only
denpro-0.8.2/denpro/R/decomgra2.R |only
denpro-0.8.2/denpro/R/dfind.R |only
denpro-0.8.2/denpro/R/drawdisk.R |only
denpro-0.8.2/denpro/R/drawdisk1d.R |only
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denpro-0.8.2/denpro/R/vecmatch.R |only
denpro-0.8.4/denpro/._.DS_Store |only
denpro-0.8.4/denpro/DESCRIPTION | 23 +---
denpro-0.8.4/denpro/R/allokoi.R | 10 -
denpro-0.8.4/denpro/R/alloroot.R | 11 +
denpro-0.8.4/denpro/R/colobary.R | 10 -
denpro-0.8.4/denpro/R/declevgen.R | 3
denpro-0.8.4/denpro/R/den2reg.R | 23 ++--
denpro-0.8.4/denpro/R/draw.kern.R | 4
denpro-0.8.4/denpro/R/draw.levset.R | 21 ++-
denpro-0.8.4/denpro/R/draw.pcf.R | 9 -
denpro-0.8.4/denpro/R/drawgene.R |only
denpro-0.8.4/denpro/R/eval.func.dD.R | 2
denpro-0.8.4/denpro/R/findleafs.R |only
denpro-0.8.4/denpro/R/histo.R | 9 -
denpro-0.8.4/denpro/R/histo1d.R |only
denpro-0.8.4/denpro/R/leafsfirst.R | 15 +-
denpro-0.8.4/denpro/R/leafsfirst.lst.R |only
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denpro-0.8.4/denpro/R/leafsfirst.nn.R |only
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denpro-0.8.4/denpro/R/leafsfirst.tail.R |only
denpro-0.8.4/denpro/R/leafsfirst.visu.R | 74 ++++++-------
denpro-0.8.4/denpro/R/makehis.R | 4
denpro-0.8.4/denpro/R/makeparent.R |only
denpro-0.8.4/denpro/R/nn.likeset.R | 12 +-
denpro-0.8.4/denpro/R/pcf.func.R | 66 +++++++----
denpro-0.8.4/denpro/R/pcf.histo.R |only
denpro-0.8.4/denpro/R/perspec.dyna.R |only
denpro-0.8.4/denpro/R/plot.kernscale.R | 4
denpro-0.8.4/denpro/R/plotbary.R | 6 -
denpro-0.8.4/denpro/R/plotbranchmap.R | 2
denpro-0.8.4/denpro/R/plotdata.R | 13 +-
denpro-0.8.4/denpro/R/plotmodet.R | 12 +-
denpro-0.8.4/denpro/R/plotprof.R | 48 --------
denpro-0.8.4/denpro/R/plottree.R | 7 -
denpro-0.8.4/denpro/R/plotvolu.R | 22 ++-
denpro-0.8.4/denpro/R/profkernC.R | 36 +++---
denpro-0.8.4/denpro/R/profkernCRC.R | 51 ++++-----
denpro-0.8.4/denpro/R/profkernR.R | 24 ++--
denpro-0.8.4/denpro/R/proftree.R | 6 -
denpro-0.8.4/denpro/R/prunemodes.R | 5
denpro-0.8.4/denpro/R/scaletable.R | 167 +++++++++++++++++++++---------
denpro-0.8.4/denpro/R/sim.data.R | 25 ++--
denpro-0.8.4/denpro/R/sim.mulmod.R | 5
denpro-0.8.4/denpro/R/sim.peaks.R |only
denpro-0.8.4/denpro/R/support.R | 6 -
denpro-0.8.4/denpro/R/touchi.R | 2
denpro-0.8.4/denpro/R/touchi.tail.R |only
denpro-0.8.4/denpro/R/touchstep.R | 9 +
denpro-0.8.4/denpro/R/touchstep.tail.R |only
denpro-0.8.4/denpro/R/tree.segme.R | 8 +
denpro-0.8.4/denpro/R/treedisc.R | 6 -
denpro-0.8.4/denpro/man/branchmap.Rd | 2
denpro-0.8.4/denpro/man/denpro-package.Rd | 4
denpro-0.8.4/denpro/man/draw.levset.Rd | 16 ++
denpro-0.8.4/denpro/man/draw.pcf.Rd | 17 ++-
denpro-0.8.4/denpro/man/excmas.Rd | 2
denpro-0.8.4/denpro/man/exmap.Rd | 2
denpro-0.8.4/denpro/man/hgrid.Rd | 2
denpro-0.8.4/denpro/man/leafsfirst.Rd | 6 -
denpro-0.8.4/denpro/man/locofmax.Rd | 2
denpro-0.8.4/denpro/man/lstseq.kern.Rd | 2
denpro-0.8.4/denpro/man/modecent.Rd | 2
denpro-0.8.4/denpro/man/modegraph.Rd | 2
denpro-0.8.4/denpro/man/paracoor.Rd | 2
denpro-0.8.4/denpro/man/pcf.func.Rd | 6 -
denpro-0.8.4/denpro/man/pcf.kern.Rd | 2
denpro-0.8.4/denpro/man/plotbary.Rd | 11 +
denpro-0.8.4/denpro/man/plotbranchmap.Rd | 2
denpro-0.8.4/denpro/man/plotexmap.Rd | 2
denpro-0.8.4/denpro/man/plotmodet.Rd | 10 +
denpro-0.8.4/denpro/man/plottree.Rd | 10 +
denpro-0.8.4/denpro/man/plotvolu.Rd | 10 +
denpro-0.8.4/denpro/man/plotvolu2d.Rd | 4
denpro-0.8.4/denpro/man/profgene.Rd | 2
denpro-0.8.4/denpro/man/profhist.Rd | 2
denpro-0.8.4/denpro/man/profkern.Rd | 4
denpro-0.8.4/denpro/man/prunemodes.Rd | 2
denpro-0.8.4/denpro/man/scaletable.Rd | 12 +-
denpro-0.8.4/denpro/man/shape2d.Rd | 4
denpro-0.8.4/denpro/man/sim.data.Rd | 16 +-
denpro-0.8.4/denpro/man/slicing.Rd | 2
denpro-0.8.4/denpro/man/stseq.Rd | 2
denpro-0.8.4/denpro/man/tree.segme.Rd | 5
denpro-0.8.4/denpro/man/treedisc.Rd | 16 +-
176 files changed, 546 insertions(+), 399 deletions(-)
Author: S original
Diff between boot versions 1.2-30 dated 2007-10-04 and 1.2-31 dated 2008-02-19
Title: Bootstrap R (S-Plus) Functions (Canty)
Description: functions and datasets for bootstrapping from the
book "Bootstrap Methods and Their Applications" by A. C. Davison and
D. V. Hinkley (1997, CUP).
ChangeLog | 6 +++++-
DESCRIPTION | 9 +++++----
R/bootfuns.q | 1 +
3 files changed, 11 insertions(+), 5 deletions(-)
Author: Vincent Goulet, Sébastien Auclair, Christophe Dutang, Tommy Ouellet, Louis-Philippe Pouliot, Mathieu Pigeon
Title: Actuarial functions
Description: Collection of functions and data sets related to
actuarial science applications, mostly loss distributions, risk
theory (including ruin theory), simulation of compound hierarchical
models and credibility theory, for the moment.
Diff between actuar versions 0.9-5 dated 2008-02-12 and 0.9-6 dated 2008-02-19
DESCRIPTION | 6 R/cm.R | 4 R/hierarc.R | 2 R/normal.R | 2 R/panjer.R | 2 R/ruin.R | 2 R/simul.R | 2 inst/NEWS | 10 inst/doc/actuar.pdf |binary inst/doc/coverage.pdf |binary inst/doc/credibility.pdf |binary inst/doc/lossdist.pdf | 18 inst/doc/risk.pdf |40220 +++++++++++++++++++++++------------------------ po/R-actuar.pot | 2 po/R-fr.po | 11 15 files changed, 20139 insertions(+), 20142 deletions(-)
Author: David Harte
Title: Hidden Markov Models
Description: Contains functions for the analysis of Discrete Time Hidden Markov Models, Markov Modulated GLMs and the Markov Modulated Poisson Process. It includes functions for simulation, parameter estimation, and the Viterbi algorithm. See the topic \code{\link{Overview}} for an introduction to the package, and \code{\link{changes}} for a list of recent changes. The algorithms are based of those of Walter Zucchini.
Diff between HiddenMarkov versions 1.2-3 dated 2007-12-06 and 1.2-4 dated 2008-02-18
DESCRIPTION | 6 ++--- R/BaumWelch.dthmm.R | 2 - R/BaumWelch.mmpp.R | 4 --- R/Estep.mmpp.R | 2 + R/Pi2vector.R |only R/Q2vector.R |only R/dthmm.R | 8 ++++++- R/forwardback.mmpp.R | 2 + R/logLik.dthmm.R | 39 +++++++++++++++++++++++------------ R/logLik.mmglm.R | 4 +-- R/logLik.mmpp.R | 48 +++++++++++++++++++++++++++++++------------- R/neglogLik.R |only R/vector2Pi.R |only R/vector2Q.R |only inst/doc/index.html | 8 +++++++ man/BaumWelch.Rd | 6 ++--- man/Mstep.Rd | 2 - man/Overview.Rd | 2 - man/Transform.Parameters.Rd |only man/changes.Rd | 8 +++++++ man/dthmm.Rd | 6 ++--- man/logLik.Rd | 7 +++--- man/mmglm.Rd | 2 - man/mmpp.Rd | 11 ++++------ man/neglogLik.Rd |only src/multiply.f | 6 ++--- 26 files changed, 115 insertions(+), 58 deletions(-)
Author: Klaus Nordhausen, Hannu Oja, David E. Tyler
Title: Tools for Exploring Multivariate Data via ICS/ICA
Description: The package implements Tyler et al.'s and Oja et al.'s method of two different scatter
matrices to obtain an invariant coordinate system or independent
components, depending on the underlying assumptions.
Diff between ICS versions 1.1-0 dated 2007-12-07 and 1.1-1 dated 2008-02-18
DESCRIPTION | 6 +++--- R/cov4.R | 4 ++++ R/covAxis.R | 4 ++++ R/covOrigin.R | 5 ++++- R/frobenius.norm.R | 5 ++++- R/ics-class.R | 28 ++++++++++++++++++++++++++-- R/ics.R | 7 +++++++ R/ics.components.R | 5 ++++- R/internals.R | 26 ++++++++++++-------------- R/mat.sqrt.R | 5 ++++- R/mean3.R | 4 ++++ R/mvnorm.kur.test.R | 9 ++++++++- R/mvnorm.skew.test.R | 4 ++++ R/screeplot.ics.R | 4 ++++ R/tM.R | 21 ++++++++++++++++++--- inst/CHANGES | 4 ++++ man/ICS-package.Rd | 4 ++-- man/covOrigin.Rd | 2 +- 18 files changed, 117 insertions(+), 30 deletions(-)
Author: Mark S. Handcock
Diff between ergm versions 2.0-4 dated 2008-02-05 and 2.0-5 dated 2008-02-18
Title: Fit, Simulate and Diagnose Exponential-Family Models for Networks
Description: An integrated set of tools to analyze and simulate networks based on exponential-family random graph models (ERGM). "ergm" is a part of the "statnet" suite of packages for network analysis. For a list of functions type: help(package='ergm')
ergm-2.0-4/ergm/src/edgeTree.c |only
ergm-2.0-4/ergm/src/edgeTree.h |only
ergm-2.0-5/ergm/DESCRIPTION | 6
ergm-2.0-5/ergm/R/InitConstraint.R | 14
ergm-2.0-5/ergm/R/InitErgm.R | 34
ergm-2.0-5/ergm/R/InitErgmTerm.R | 14
ergm-2.0-5/ergm/R/InitMHP.R | 14
ergm-2.0-5/ergm/R/anova.ergm.R | 14
ergm-2.0-5/ergm/R/anova.ergmlist.R | 14
ergm-2.0-5/ergm/R/as.directed.R | 14
ergm-2.0-5/ergm/R/as.edgelist.R | 14
ergm-2.0-5/ergm/R/as.network.numeric.R | 14
ergm-2.0-5/ergm/R/check.ErgmTerm.R | 14
ergm-2.0-5/ergm/R/coef.ergm.R | 14
ergm-2.0-5/ergm/R/control.ergm.R | 14
ergm-2.0-5/ergm/R/control.gof.R | 14
ergm-2.0-5/ergm/R/control.simulate.R | 14
ergm-2.0-5/ergm/R/ergm.Cprepare.R | 29
ergm-2.0-5/ergm/R/ergm.MCMCacf.R | 14
ergm-2.0-5/ergm/R/ergm.MCMCse.R | 14
ergm-2.0-5/ergm/R/ergm.R | 14
ergm-2.0-5/ergm/R/ergm.bounddeg.R | 16
ergm-2.0-5/ergm/R/ergm.check.R | 14
ergm-2.0-5/ergm/R/ergm.curved.R | 14
ergm-2.0-5/ergm/R/ergm.curved.statsmatrix.R | 14
ergm-2.0-5/ergm/R/ergm.curved.update.R | 14
ergm-2.0-5/ergm/R/ergm.degeneracy.R | 14
ergm-2.0-5/ergm/R/ergm.degenerate.R | 14
ergm-2.0-5/ergm/R/ergm.estimate.R | 14
ergm-2.0-5/ergm/R/ergm.eta.R | 14
ergm-2.0-5/ergm/R/ergm.etagrad.R | 14
ergm-2.0-5/ergm/R/ergm.etagradmult.R | 14
ergm-2.0-5/ergm/R/ergm.etamap.R | 14
ergm-2.0-5/ergm/R/ergm.geodist.R | 14
ergm-2.0-5/ergm/R/ergm.geodistn.R | 14
ergm-2.0-5/ergm/R/ergm.getMCMCsample.R | 16
ergm-2.0-5/ergm/R/ergm.getglobalstats.R | 19
ergm-2.0-5/ergm/R/ergm.getmodel.R | 14
ergm-2.0-5/ergm/R/ergm.getnetwork.R | 14
ergm-2.0-5/ergm/R/ergm.getterms.R | 14
ergm-2.0-5/ergm/R/ergm.independencemodel.R | 14
ergm-2.0-5/ergm/R/ergm.initialfit.R | 14
ergm-2.0-5/ergm/R/ergm.llik.R | 14
ergm-2.0-5/ergm/R/ergm.logitreg.R | 14
ergm-2.0-5/ergm/R/ergm.mainfitloop.R | 14
ergm-2.0-5/ergm/R/ergm.mcmcslave.R | 16
ergm-2.0-5/ergm/R/ergm.mple.R | 15
ergm-2.0-5/ergm/R/ergm.pen.glm.R | 14
ergm-2.0-5/ergm/R/ergm.phase12.R | 17
ergm-2.0-5/ergm/R/ergm.pl.R | 17
ergm-2.0-5/ergm/R/ergm.revisetheta0.R | 14
ergm-2.0-5/ergm/R/ergm.robmon.R | 14
ergm-2.0-5/ergm/R/ergm.stocapprox.R | 14
ergm-2.0-5/ergm/R/ergm.sufftoprob.R | 14
ergm-2.0-5/ergm/R/ergm.utility.R | 14
ergm-2.0-5/ergm/R/get.node.attr.R | 14
ergm-2.0-5/ergm/R/getMHproposal.R | 14
ergm-2.0-5/ergm/R/gof.ergm.R | 14
ergm-2.0-5/ergm/R/license.statnet.R | 14
ergm-2.0-5/ergm/R/mcmc.diagnostics.ergm.R | 14
ergm-2.0-5/ergm/R/midarrow.R | 14
ergm-2.0-5/ergm/R/mixingmatrix.R | 16
ergm-2.0-5/ergm/R/network.update.R | 14
ergm-2.0-5/ergm/R/plot.ergm.R | 14
ergm-2.0-5/ergm/R/print.ergm.R | 14
ergm-2.0-5/ergm/R/print.network.series.R | 14
ergm-2.0-5/ergm/R/robust.inverse.R | 14
ergm-2.0-5/ergm/R/simulate.ergm.R | 24
ergm-2.0-5/ergm/R/statnetShowDoc.R | 14
ergm-2.0-5/ergm/R/summary.ergm.R | 14
ergm-2.0-5/ergm/R/summary.network.series.R | 14
ergm-2.0-5/ergm/R/summary.statistics.network.R | 14
ergm-2.0-5/ergm/R/zzz.R | 28
ergm-2.0-5/ergm/man/Getting.Started.Rd | 12
ergm-2.0-5/ergm/man/anova.ergm.Rd | 12
ergm-2.0-5/ergm/man/as.network.numeric.Rd | 12
ergm-2.0-5/ergm/man/coef.ergm.Rd | 12
ergm-2.0-5/ergm/man/control.ergm.Rd | 12
ergm-2.0-5/ergm/man/control.gof.Rd | 12
ergm-2.0-5/ergm/man/control.simulate.Rd | 12
ergm-2.0-5/ergm/man/ergm-internal.Rd | 18
ergm-2.0-5/ergm/man/ergm-package.Rd | 12
ergm-2.0-5/ergm/man/ergm-terms.Rd | 81 +
ergm-2.0-5/ergm/man/ergm.Rd | 12
ergm-2.0-5/ergm/man/ergmuserterms.Rd | 12
ergm-2.0-5/ergm/man/faux.magnolia.high.Rd | 12
ergm-2.0-5/ergm/man/faux.mesa.high.Rd | 12
ergm-2.0-5/ergm/man/flobusiness.Rd | 12
ergm-2.0-5/ergm/man/flomarriage.Rd | 12
ergm-2.0-5/ergm/man/florentine.Rd | 12
ergm-2.0-5/ergm/man/g4.Rd | 12
ergm-2.0-5/ergm/man/gof.ergm.Rd | 12
ergm-2.0-5/ergm/man/mcmc.diagnostics.ergm.Rd | 12
ergm-2.0-5/ergm/man/molecule.Rd | 12
ergm-2.0-5/ergm/man/network.update.Rd | 12
ergm-2.0-5/ergm/man/plot.ergm.Rd | 12
ergm-2.0-5/ergm/man/plot.gofobject.Rd | 12
ergm-2.0-5/ergm/man/print.ergm.Rd | 12
ergm-2.0-5/ergm/man/samplk.Rd | 12
ergm-2.0-5/ergm/man/sampson.Rd | 12
ergm-2.0-5/ergm/man/simulate.ergm.Rd | 12
ergm-2.0-5/ergm/man/summary.ergm.Rd | 12
ergm-2.0-5/ergm/man/summary.gofobject.Rd | 12
ergm-2.0-5/ergm/man/summary.statistics.Rd | 12
ergm-2.0-5/ergm/src/MCMC.c | 79 -
ergm-2.0-5/ergm/src/MCMC.h | 20
ergm-2.0-5/ergm/src/MHproposals.c | 15
ergm-2.0-5/ergm/src/MHproposals.h | 17
ergm-2.0-5/ergm/src/MHproposals_bipartite.c | 15
ergm-2.0-5/ergm/src/MHproposals_bipartite.h | 17
ergm-2.0-5/ergm/src/MPLE.c | 26
ergm-2.0-5/ergm/src/MPLE.h | 18
ergm-2.0-5/ergm/src/changestats.c | 1240 ++++++++++---------------
ergm-2.0-5/ergm/src/changestats.h | 225 ++--
ergm-2.0-5/ergm/src/edgetree.c |only
ergm-2.0-5/ergm/src/edgetree.h |only
ergm-2.0-5/ergm/src/geodist.c | 15
ergm-2.0-5/ergm/src/geodist.h | 17
ergm-2.0-5/ergm/src/model.c | 15
ergm-2.0-5/ergm/src/model.h | 17
ergm-2.0-5/ergm/tests/mple_largenetwork.R |only
ergm-2.0-5/ergm/tests/termtests.R |only
122 files changed, 825 insertions(+), 2423 deletions(-)
Author: Jeffrey A. Ryan, Josh M. Ulrich
Title: Extensible Time Series
Description: Provide for uniform handling of R's different time-based data classes by extending zoo, maximizing native format information preservation and allowing for user level customization and extension, while simplifying cross-class interoperability.
Diff between xts versions 0.0-6 dated 2008-01-29 and 0.0-10 dated 2008-02-17
DESCRIPTION | 8 ++-- NAMESPACE | 12 ++++++ R/coredata.xts.R | 5 +- R/endpoints.R | 8 +++- R/indexClass.R | 48 +++++++++++++++++++++++--- R/plot.R |only R/toperiod.R | 31 ++++++++++++++--- R/ts.R | 71 +++++++++++++++++++++++++++++++++----- R/xts.R | 51 ++++++++++++++++++--------- R/xts.methods.R | 93 ++++++++++++++++++++++++++++++++++++++++++--------- R/zoo.R | 24 ++++++++++--- WISHLIST | 68 ++++++++++++++++++++++++++++++------- data |only man/indexClass.Rd | 14 +++++-- man/sample.data.Rd |only man/xts-package.Rd | 4 +- tests/test.Rout.save | 4 -- 17 files changed, 354 insertions(+), 87 deletions(-)More information about xts at CRAN
Author: Jelle Goeman
Diff between penalized versions 0.9-19 dated 2007-12-24 and 0.9-20 dated 2008-02-17
Title: L1 (lasso) and L2 (ridge) penalized estimation in GLMs and in the Cox model
Description: A package for fitting possibly high dimensional penalized regression models. The penalty structure can be any combination of an L1 penalty (lasso), an L2 penalty (ridge) and a positivity constraint on the regression coefficients. The supported regression models are linear and logistic regression and the Cox Proportional Hazards model. Cross-validation routines allow optimization of the tuning parameters.
DESCRIPTION | 6
R/core.R | 2
changelog.txt | 5
inst/doc/Rplots.ps |36118 +++++++++++++++----------------
inst/doc/penalized-breslowplot.eps |14234 ++++++------
inst/doc/penalized-breslowplot.pdf |28628 ++++++++++++------------
inst/doc/penalized-positivestepsplot.pdf | 4
inst/doc/penalized-profpathplot.eps | 3315 +-
inst/doc/penalized-profpathplot.pdf | 3320 +-
inst/doc/penalized-profplot1.eps | 229
inst/doc/penalized-profplot1.pdf | 241
inst/doc/penalized-profplot2.eps | 216
inst/doc/penalized-profplot2.pdf | 216
inst/doc/penalized-stepsplot.pdf | 4
inst/doc/penalized.Rnw | 4
inst/doc/penalized.log | 12
inst/doc/penalized.pdf |binary
inst/doc/penalized.tex | 12
18 files changed, 43042 insertions(+), 43524 deletions(-)
More information about penalized at CRAN
Permanent link
Author: Jens Henrik Badsberg, Claus Dethlefsen, Luca La Rocca
Title: The giRaph package for graph representation in R
Description: Supply classes and methods to represent and manipulate graphs
Diff between giRaph versions 0.0.1.3 dated 2007-04-19 and 0.1-1 dated 2008-02-17
giRaph-0.0.1.3/giRaph/README |only giRaph-0.1-1/giRaph/DESCRIPTION | 10 +- giRaph-0.1-1/giRaph/R/f3-vertexAndEdge.R | 28 ++----- giRaph-0.1-1/giRaph/R/f6-graphs.R | 90 ++++++++++++++++++++++-- giRaph-0.1-1/giRaph/changes.txt | 17 ++++ giRaph-0.1-1/giRaph/man/directedEdge-class.Rd | 6 - giRaph-0.1-1/giRaph/man/edge-class.Rd | 8 ++ giRaph-0.1-1/giRaph/man/generalGraph-class.Rd | 2 giRaph-0.1-1/giRaph/man/multiGraph-class.Rd | 4 + giRaph-0.1-1/giRaph/man/simpleGraph-class.Rd | 6 + giRaph-0.1-1/giRaph/man/undirectedEdge-class.Rd | 6 - 11 files changed, 135 insertions(+), 42 deletions(-)More information about giRaph at CRAN
Author: Yurii Aulchenko, with contributions from
Maksim Struchalin, Stephan Ripke and Toby Johnson
Title: genome-wide SNP association analysis
Description: a package for genome-wide association analysis between
quantitative or binary traits and single-nucleiotide
polymorphisms (SNPs).
Diff between GenABEL versions 1.3-1 dated 2007-11-07 and 1.3-5 dated 2008-02-17
GenABEL-1.3-1/GenABEL/R/QC1.R |only GenABEL-1.3-5/GenABEL/CHANGES.LOG | 63 GenABEL-1.3-5/GenABEL/DESCRIPTION | 13 GenABEL-1.3-5/GenABEL/NAMESPACE | 7 GenABEL-1.3-5/GenABEL/R/Xfix.R | 69 GenABEL-1.3-5/GenABEL/R/add.phdata.R |only GenABEL-1.3-5/GenABEL/R/add.plot.R | 3 GenABEL-1.3-5/GenABEL/R/alleleID.R | 195 GenABEL-1.3-5/GenABEL/R/autosomal.R |only GenABEL-1.3-5/GenABEL/R/catable.R | 5 GenABEL-1.3-5/GenABEL/R/ccfast.R | 1 GenABEL-1.3-5/GenABEL/R/check.marker.R | 249 GenABEL-1.3-5/GenABEL/R/check.marker.internal.R | 116 GenABEL-1.3-5/GenABEL/R/convert.snp.illumina.R | 34 GenABEL-1.3-5/GenABEL/R/convert.snp.mach.R | 136 GenABEL-1.3-5/GenABEL/R/convert.snp.ped.R | 54 GenABEL-1.3-5/GenABEL/R/convert.snp.tped.R | 16 GenABEL-1.3-5/GenABEL/R/descriptives.marker.R | 10 GenABEL-1.3-5/GenABEL/R/descriptives.scan.R | 39 GenABEL-1.3-5/GenABEL/R/egscore.R | 311 GenABEL-1.3-5/GenABEL/R/estlambda.R | 19 GenABEL-1.3-5/GenABEL/R/export.merlin.R | 124 GenABEL-1.3-5/GenABEL/R/fcc.R | 2 GenABEL-1.3-5/GenABEL/R/formetascore.R |only GenABEL-1.3-5/GenABEL/R/formetascore_engage.R |only GenABEL-1.3-5/GenABEL/R/grammar.R | 236 GenABEL-1.3-5/GenABEL/R/imphetcheck.R |only GenABEL-1.3-5/GenABEL/R/load.gwaa.data.R | 13 GenABEL-1.3-5/GenABEL/R/merge.snp.data.R | 596 GenABEL-1.3-5/GenABEL/R/metascore.R |only GenABEL-1.3-5/GenABEL/R/mmscore.R | 246 GenABEL-1.3-5/GenABEL/R/npsubtreated.R |only GenABEL-1.3-5/GenABEL/R/plot.scan.gwaa.R | 33 GenABEL-1.3-5/GenABEL/R/polygenic.R | 342 GenABEL-1.3-5/GenABEL/R/qtscore.R | 266 GenABEL-1.3-5/GenABEL/R/refresh.gwaa.data.R | 24 GenABEL-1.3-5/GenABEL/R/rntransform.R | 21 GenABEL-1.3-5/GenABEL/R/scan.glm.R | 2 GenABEL-1.3-5/GenABEL/R/scan.haplo.R | 2 GenABEL-1.3-5/GenABEL/R/snp.names.R | 16 GenABEL-1.3-5/GenABEL/R/snp.subset.R | 4 GenABEL-1.3-5/GenABEL/R/ss.R | 6 GenABEL-1.3-5/GenABEL/R/summary.check.marker.R | 23 GenABEL-1.3-5/GenABEL/R/summary.snp.data.R | 33 GenABEL-1.3-5/GenABEL/R/update.check.marker.R | 6 GenABEL-1.3-5/GenABEL/R/ztransform.R |only GenABEL-1.3-5/GenABEL/TODO | 7 GenABEL-1.3-5/GenABEL/data/ge03d2.clean.RData |only GenABEL-1.3-5/GenABEL/data/ge03d2ex.clean.RData |only GenABEL-1.3-5/GenABEL/demo/srdta.R | 132 GenABEL-1.3-5/GenABEL/demo/srdtawin.R | 131 GenABEL-1.3-5/GenABEL/inst/doc/GenABEL-manual.pdf | 4837 +++-- GenABEL-1.3-5/GenABEL/inst/doc/GenABEL-tutorial.pdf |13864 ++++++++-------- GenABEL-1.3-5/GenABEL/inst/exdata/map.18 | 430 GenABEL-1.3-5/GenABEL/man/GenABEL-package.Rd | 79 GenABEL-1.3-5/GenABEL/man/Xfix.Rd | 13 GenABEL-1.3-5/GenABEL/man/add.phdata.Rd |only GenABEL-1.3-5/GenABEL/man/as.data.frame.gwaa.data.Rd | 2 GenABEL-1.3-5/GenABEL/man/as.hsgeno.Rd | 8 GenABEL-1.3-5/GenABEL/man/autosomal.Rd |only GenABEL-1.3-5/GenABEL/man/check.marker.Rd | 7 GenABEL-1.3-5/GenABEL/man/convert.snp.ped.Rd | 17 GenABEL-1.3-5/GenABEL/man/convert.snp.tped.Rd | 7 GenABEL-1.3-5/GenABEL/man/descriptives.scan.Rd | 3 GenABEL-1.3-5/GenABEL/man/egscore.Rd | 7 GenABEL-1.3-5/GenABEL/man/export.merlin.Rd | 7 GenABEL-1.3-5/GenABEL/man/formetascore.Rd |only GenABEL-1.3-5/GenABEL/man/ge03d2.Rd | 20 GenABEL-1.3-5/GenABEL/man/grammar.Rd | 32 GenABEL-1.3-5/GenABEL/man/load.gwaa.data.Rd | 2 GenABEL-1.3-5/GenABEL/man/mmscore.Rd | 22 GenABEL-1.3-5/GenABEL/man/npsubtreated.Rd |only GenABEL-1.3-5/GenABEL/man/plot.scan.gwaa.Rd | 13 GenABEL-1.3-5/GenABEL/man/polygenic.Rd | 44 GenABEL-1.3-5/GenABEL/man/qtscore.Rd | 18 GenABEL-1.3-5/GenABEL/man/refresh.gwaa.data.Rd | 2 GenABEL-1.3-5/GenABEL/man/rntransform.Rd | 29 GenABEL-1.3-5/GenABEL/man/scan.glm.Rd | 6 GenABEL-1.3-5/GenABEL/man/summary.snp.data.Rd | 4 GenABEL-1.3-5/GenABEL/man/ztransform.Rd |only GenABEL-1.3-5/GenABEL/src/convert_snp_merlin.cpp | 64 GenABEL-1.3-5/GenABEL/src/convert_snp_merlin_wslash.cpp |only GenABEL-1.3-5/GenABEL/src/convert_snp_tped.cpp | 28 GenABEL-1.3-5/GenABEL/src/gwaa.c | 189 GenABEL-1.3-5/GenABEL/src/gwaautil.cpp |only 85 files changed, 12895 insertions(+), 10464 deletions(-)More information about GenABEL at CRAN