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 0.6-4 dated 2009-04-15 and 0.6-5 dated 2009-04-30
ChangeLog | 34 ++++++++++++++++++++++++++++++++++ DESCRIPTION | 8 ++++---- R/bin_link.R | 13 +++++++------ R/initGRASS.R | 1 + R/vect_link.R | 17 ++++++++++++++--- inst/ChangeLog | 34 ++++++++++++++++++++++++++++++++++ man/readRAST6.Rd | 5 +++-- man/readVECT6.Rd | 3 ++- 8 files changed, 99 insertions(+), 16 deletions(-)
Author: Timothy H. Keitt
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.
Diff between rgdal versions 0.6-7 dated 2009-02-16 and 0.6-8 dated 2009-04-30
ChangeLog | 7 ++++++- DESCRIPTION | 29 +++++++++++++++++++++++------ R/ogr_sp.R | 5 +++-- man/readOGR.Rd | 3 ++- 4 files changed, 34 insertions(+), 10 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 0.2.1 dated 2009-02-23 and 0.3 dated 2009-04-30
CHANGELOG |only DESCRIPTION | 24 +++++++++++++++++------- LICENSE | 12 +++++++----- R/block.R | 18 +++++++++++++++++- man/assignment.Rd | 5 +++-- man/block.Rd | 31 +++++++++++++++++++++---------- man/blockTools-package.Rd | 2 +- man/diagnose.Rd | 2 +- man/outTeX.Rd | 2 +- man/x100.Rd | 9 +++++---- 10 files changed, 73 insertions(+), 32 deletions(-)
Author: Kurt Hornik
Title: Snowball Stemmers
Description: Snowball stemmers.
Diff between Snowball versions 0.0-4 dated 2009-04-29 and 0.0-5 dated 2009-04-30
DESCRIPTION | 10 +++++----- R/zzz.R | 5 ++++- 2 files changed, 9 insertions(+), 6 deletions(-)
Author: Thomas Jaki
Title: Basic Non-Compartmental Pharmacokinetics
Description: Estimation of pharmacokinetic parameters using
non-compartmental theory
Diff between PK versions 1.00 dated 2009-02-16 and 1.01 dated 2009-04-30
DESCRIPTION | 14 +++++++++----- R/auc.batch.ci.R | 4 ++-- 2 files changed, 11 insertions(+), 7 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 1.0.10 dated 2009-01-28 and 1.0.12 dated 2009-04-30
Epi-1.0.10/Epi/MethComp |only Epi-1.0.10/Epi/inst/doc/R-intro.pdf |only Epi-1.0.12/Epi/CHANGES | 16 Epi-1.0.12/Epi/DESCRIPTION | 33 Epi-1.0.12/Epi/R/apc.fit.R | 2 Epi-1.0.12/Epi/R/apc.frame.R | 6 Epi-1.0.12/Epi/R/apc.plot.R | 2 Epi-1.0.12/Epi/inst/doc/Follow-up.pdf | 4945 ++++++++++++++++------------------ Epi-1.0.12/Epi/inst/doc/Follow-up.rnw |only Epi-1.0.12/Epi/inst/doc/Rplots.pdf |only Epi-1.0.12/Epi/inst/doc/index.html | 5 Epi-1.0.12/Epi/man/apc.frame.Rd | 3 Epi-1.0.12/Epi/man/ci.cum.Rd | 2 13 files changed, 2457 insertions(+), 2557 deletions(-)
Author: Pedro Brasil
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.
Diff between DiagnosisMed versions 0.1.2.3 dated 2009-03-19 and 0.2 dated 2009-04-30
DESCRIPTION | 13 ++++---- R/LRgraph.r |only R/ROC.r | 21 ++++++------- R/TGROC.r |only R/diagnosis.r | 22 ++++++------- R/diagnosisI.r | 5 +-- R/print.ROC.r |only R/print.TGROC.r |only R/print.diag.r | 26 ++++++++-------- R/zzz.r | 2 - man/LRgrgaph.Rd |only man/ROC.Rd | 83 ++++++++++------------------------------------------ man/TGROC.Rd |only man/diagnosis.Rd | 44 +++++---------------------- man/interact.ROC.Rd | 41 ++++--------------------- man/plot.diag.Rd | 2 - 16 files changed, 80 insertions(+), 179 deletions(-)
Author: Edzer J. Pebesma
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.
Diff between sp versions 0.9-34 dated 2009-03-31 and 0.9-36 dated 2009-04-29
ChangeLog | 23 DESCRIPTION | 8 NAMESPACE | 4 R/SpatialGridDataFrame-methods.R | 7 R/SpatialLinesDataFrame-methods.R | 4 R/SpatialPolygonsDataFrame-methods.R | 4 R/spdists.R | 4 inst/ChangeLog | 23 inst/doc/sp.pdf | 1014 ++++++++++++++++------------------ man/SpatialGridDataFrame-class.Rd | 1 man/SpatialLinesDataFrame-class.Rd | 1 man/SpatialPixelsDataFrame-class.Rd | 1 man/SpatialPolygonsDataFrame-class.Rd | 1 13 files changed, 575 insertions(+), 520 deletions(-)
Author: Yaqian Guo
Title: Shrunken Centroids Regularized Discriminant Analysis
Description: Shrunken Centroids Regularized Discriminant Analysis for
the classification purpose in high dimensional data.
Diff between rda versions 1.0.1 dated 2009-03-01 and 1.0.2 dated 2009-04-29
DESCRIPTION | 20 +++++++++++--------- man/rda.plotcv.Rd | 1 - 2 files changed, 11 insertions(+), 10 deletions(-)
Author: Andrew Gelman
Title: Missing Data Imputation and Model Checking
Description: Missing-data imputation and model checking
Diff between mi versions 0.06-5 dated 2009-04-23 and 0.07-1 dated 2009-04-29
mi-0.06-5/mi/R/mi.dichotomous.R |only mi-0.06-5/mi/man/mi.dichotomous.Rd |only mi-0.06-5/mi/man/prior.control.Rd |only mi-0.07-1/mi/CHANGELOG | 11 +++++++- mi-0.07-1/mi/DESCRIPTION | 8 +++--- mi-0.07-1/mi/NAMESPACE | 8 +++--- mi-0.07-1/mi/R/AllClass.R | 2 - mi-0.07-1/mi/R/imputation.models.R | 8 +++--- mi-0.07-1/mi/R/mi.R | 46 ++++++++++++++++++------------------- mi-0.07-1/mi/R/mi.binary.R |only mi-0.07-1/mi/R/mi.hist.R | 6 ++-- mi-0.07-1/mi/R/mi.info.R | 41 ++++++++++++++++---------------- mi-0.07-1/mi/R/mi.preprocess.R | 18 +++++++------- mi-0.07-1/mi/R/plot.R | 25 +++++++++++--------- mi-0.07-1/mi/R/print.R | 4 +-- mi-0.07-1/mi/R/resid.R | 4 +-- mi-0.07-1/mi/R/typecast.R | 4 +-- mi-0.07-1/mi/man/CHAIN.Rd | 2 - mi-0.07-1/mi/man/mi.Rd | 24 +++++++++---------- mi-0.07-1/mi/man/mi.binary.Rd |only mi-0.07-1/mi/man/mi.categorical.Rd | 15 ++++++------ mi-0.07-1/mi/man/mi.completed.Rd | 2 - mi-0.07-1/mi/man/mi.fixed.Rd | 4 +-- mi-0.07-1/mi/man/mi.hist.Rd | 14 +++++------ mi-0.07-1/mi/man/mi.info.Rd | 2 - mi-0.07-1/mi/man/mi.info.update.Rd | 4 +-- mi-0.07-1/mi/man/mi.method.Rd | 3 +- mi-0.07-1/mi/man/mi.polr.Rd | 1 mi-0.07-1/mi/man/mi.pooled.Rd | 2 - mi-0.07-1/mi/man/mi.preprocess.Rd | 6 ++-- mi-0.07-1/mi/man/noise.control.Rd |only mi-0.07-1/mi/man/plot.mi.Rd | 20 ++++++++++------ mi-0.07-1/mi/man/type.models.Rd | 4 +-- mi-0.07-1/mi/man/typecast.Rd | 4 +-- 34 files changed, 156 insertions(+), 136 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 3.1-10.3 dated 2009-03-08 and 3.2 dated 2009-04-29
CHANGELOG | 2 ++ DESCRIPTION | 26 ++++++++++++++------------ R/mclust.R | 3 ++- src/Makevars | 3 ++- 4 files changed, 20 insertions(+), 14 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 0.9-8 dated 2009-02-25 and 0.9-9 dated 2009-04-29
DESCRIPTION | 16 R/gnm.R | 6 R/gnmFit.R | 62 R/gnmTerms.R | 9 R/gnmTools.R | 2 R/nonlinTerms.R | 7 inst/NEWS | 9 inst/doc/gnmOverview.Rnw | 31 inst/doc/gnmOverview.pdf | 6135 +++++++++++++++++++++++------------------------ man/House2001.Rd | 8 man/Mult.Rd | 2 man/MultHomog.Rd | 7 man/backPain.Rd | 186 - man/friend.Rd | 75 man/gnm.Rd | 12 man/instances.Rd | 2 man/nonlin.function.Rd | 7 src/gnm.c | 58 18 files changed, 3399 insertions(+), 3235 deletions(-)
Author: Andrew Gelman
Title: Data Analysis Using Regression and Multilevel/Hierarchical
Models
Description: R functions for processing lm, glm, mer and polr outputs.
Diff between arm versions 1.2-8 dated 2009-04-01 and 1.2-9 dated 2009-04-29
CHANGELOG | 8 ++++++++ DESCRIPTION | 8 ++++---- R/display.R | 6 +++--- R/matching.R | 2 +- 4 files changed, 16 insertions(+), 8 deletions(-)
Author: Douglas Bates
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.
Diff between Matrix versions 0.999375-25 dated 2009-04-19 and 0.999375-26 dated 2009-04-29
ChangeLog | 13 + DESCRIPTION | 8 R/sparseMatrix.R | 2 R/zzz.R | 9 inst/doc/Comparisons.pdf |binary inst/doc/DSC2009_abstract.pdf |only inst/doc/DSC2009_abstract.tex |only inst/doc/Design-issues.pdf |binary inst/doc/Intro2Matrix.pdf | 427 ++++++++++++++++++++---------------------- inst/doc/Introduction.pdf |binary inst/doc/sparseModels.pdf |binary src/Mutils.c | 102 ++++++++++ src/Mutils.h | 65 ------ src/Syms.h | 6 src/init.c | 16 + tests/Simple.R | 16 + 16 files changed, 377 insertions(+), 287 deletions(-)
Author: Frank E Harrell Jr
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'.
Diff between Hmisc versions 3.5-2 dated 2009-01-26 and 3.6-0 dated 2009-04-29
Hmisc-3.5-2/Hmisc/INDEX |only Hmisc-3.5-2/Hmisc/src/ratfor/cidxcn.s |only Hmisc-3.5-2/Hmisc/src/ratfor/cidxcp.s |only Hmisc-3.5-2/Hmisc/src/ratfor/hoeffd.s |only Hmisc-3.5-2/Hmisc/src/ratfor/jacklins.s |only Hmisc-3.5-2/Hmisc/src/ratfor/rcorr.s |only Hmisc-3.5-2/Hmisc/src/ratfor/wclosest.s |only Hmisc-3.6-0/Hmisc/DESCRIPTION | 35 +++--- Hmisc-3.6-0/Hmisc/R/Misc.s | 10 - Hmisc-3.6-0/Hmisc/R/areg.s | 6 - Hmisc-3.6-0/Hmisc/R/aregImpute.s | 14 ++ Hmisc-3.6-0/Hmisc/R/biVar.s | 43 +++++++ Hmisc-3.6-0/Hmisc/R/bootkm.s | 5 Hmisc-3.6-0/Hmisc/R/errbar.s | 81 +++++++++++--- Hmisc-3.6-0/Hmisc/R/impute.s | 2 Hmisc-3.6-0/Hmisc/R/latex.s | 152 ++++++++++++++++----------- Hmisc-3.6-0/Hmisc/R/rm.boot.s | 2 Hmisc-3.6-0/Hmisc/R/sas.get.s | 77 +++++++------ Hmisc-3.6-0/Hmisc/R/summary.formula.s | 5 Hmisc-3.6-0/Hmisc/R/survfit.km.s |only Hmisc-3.6-0/Hmisc/man/Hmisc-internal.Rd | 1 Hmisc-3.6-0/Hmisc/man/Overview.Rd | 4 Hmisc-3.6-0/Hmisc/man/aregImpute.Rd | 11 + Hmisc-3.6-0/Hmisc/man/errbar.Rd | 163 +++++++++++++++++------------ Hmisc-3.6-0/Hmisc/man/event.history.Rd | 2 Hmisc-3.6-0/Hmisc/man/format.df.Rd | 62 ++++++----- Hmisc-3.6-0/Hmisc/man/latex.Rd | 6 - Hmisc-3.6-0/Hmisc/man/plotCorrPrecision.Rd | 7 - Hmisc-3.6-0/Hmisc/man/rcorr.cens.Rd | 56 ++++++++- Hmisc-3.6-0/Hmisc/man/string.break.line.Rd | 12 -- Hmisc-3.6-0/Hmisc/man/unix/sas.get.Rd | 10 - Hmisc-3.6-0/Hmisc/man/windows/sas.get.Rd | 11 - 32 files changed, 504 insertions(+), 273 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 0.3-3 dated 2008-12-21 and 0.3-4 dated 2009-04-29
tm-0.3-3/tm/R/termdocmatrix.R |only tm-0.3-3/tm/man/CSVSource-class.Rd |only tm-0.3-3/tm/man/CSVSource.Rd |only tm-0.3-3/tm/man/ReutersSource-class.Rd |only tm-0.3-3/tm/man/TermDocMatrix-class.Rd |only tm-0.3-3/tm/man/colnames.Rd |only tm-0.3-3/tm/man/dim.Rd |only tm-0.3-3/tm/man/dimnames.Rd |only tm-0.3-3/tm/man/inspect-methods.Rd |only tm-0.3-3/tm/man/ncol.Rd |only tm-0.3-3/tm/man/nrow.Rd |only tm-0.3-3/tm/man/rownames.Rd |only tm-0.3-3/tm/man/weightLogical.Rd |only tm-0.3-4/tm/DESCRIPTION | 18 + tm-0.3-4/tm/NAMESPACE | 98 ++++++---- tm-0.3-4/tm/R/AAA.R | 28 --- tm-0.3-4/tm/R/aobjects.R | 155 ++--------------- tm-0.3-4/tm/R/cluster.R | 24 ++ tm-0.3-4/tm/R/complete.R | 2 tm-0.3-4/tm/R/dictionary.R | 16 - tm-0.3-4/tm/R/distmeasure.R | 27 +- tm-0.3-4/tm/R/matrix.R |only tm-0.3-4/tm/R/meta.R | 8 tm-0.3-4/tm/R/plot.R | 20 +- tm-0.3-4/tm/R/preprocess.R | 8 tm-0.3-4/tm/R/reader.R | 282 +++++++++++++------------------ tm-0.3-4/tm/R/source.R | 212 +++++++++-------------- tm-0.3-4/tm/R/sparse.R |only tm-0.3-4/tm/R/textdoccol.R | 144 ++++++++------- tm-0.3-4/tm/R/textrepo.R | 6 tm-0.3-4/tm/R/transform.R | 8 tm-0.3-4/tm/R/utils.R |only tm-0.3-4/tm/R/weight.R | 48 ++++- tm-0.3-4/tm/inst/NEWS | 52 +++++ tm-0.3-4/tm/inst/doc/extensions.Rnw |only tm-0.3-4/tm/inst/doc/extensions.pdf |only tm-0.3-4/tm/inst/doc/references.bib |only tm-0.3-4/tm/inst/doc/tm.Rnw | 102 +++++------ tm-0.3-4/tm/inst/doc/tm.pdf |binary tm-0.3-4/tm/inst/texts/custom.xml |only tm-0.3-4/tm/man/DataframeSource-class.Rd | 16 - tm-0.3-4/tm/man/DataframeSource.Rd | 1 tm-0.3-4/tm/man/Dictionary.Rd | 15 - tm-0.3-4/tm/man/DirSource-class.Rd | 16 - tm-0.3-4/tm/man/DirSource.Rd | 10 - tm-0.3-4/tm/man/GmaneSource.Rd | 2 tm-0.3-4/tm/man/ReutersSource.Rd | 2 tm-0.3-4/tm/man/Source-class.Rd | 30 ++- tm-0.3-4/tm/man/TermDocMatrix.Rd | 40 ++-- tm-0.3-4/tm/man/TextDocCol.Rd | 2 tm-0.3-4/tm/man/TextDocument-class.Rd | 4 tm-0.3-4/tm/man/TextRepository.Rd | 2 tm-0.3-4/tm/man/URISource-class.Rd | 16 - tm-0.3-4/tm/man/URISource.Rd | 2 tm-0.3-4/tm/man/VectorSource-class.Rd | 16 - tm-0.3-4/tm/man/XMLSource-class.Rd |only tm-0.3-4/tm/man/XMLSource.Rd |only tm-0.3-4/tm/man/dissimilarity-methods.Rd | 45 ++-- tm-0.3-4/tm/man/eoi-methods.Rd | 6 tm-0.3-4/tm/man/findAssocs.Rd | 32 +-- tm-0.3-4/tm/man/findFreqTerms.Rd | 37 ++-- tm-0.3-4/tm/man/getElem-methods.Rd | 4 tm-0.3-4/tm/man/inspect.Rd |only tm-0.3-4/tm/man/names.Rd |only tm-0.3-4/tm/man/number.Rd |only tm-0.3-4/tm/man/pGetElem-methods.Rd |only tm-0.3-4/tm/man/plot.Rd | 13 - tm-0.3-4/tm/man/readDOC.Rd | 11 - tm-0.3-4/tm/man/readGmane.Rd | 28 --- tm-0.3-4/tm/man/readNewsgroup.Rd | 13 - tm-0.3-4/tm/man/readPDF.Rd | 15 - tm-0.3-4/tm/man/readRCV1.Rd | 27 -- tm-0.3-4/tm/man/readReut21578XML.Rd | 27 -- tm-0.3-4/tm/man/readTabular.Rd |only tm-0.3-4/tm/man/readXML.Rd |only tm-0.3-4/tm/man/removeSparseTerms.Rd | 34 +-- tm-0.3-4/tm/man/show-methods.Rd | 3 tm-0.3-4/tm/man/subset-methods.Rd | 8 tm-0.3-4/tm/man/summary-methods.Rd | 2 tm-0.3-4/tm/man/termFreq.Rd | 6 tm-0.3-4/tm/man/tmReduce.Rd |only tm-0.3-4/tm/man/weightTf.Rd | 5 82 files changed, 827 insertions(+), 921 deletions(-)
Author: Max Kuhn. Contributions from Jed Wing, Steve Weston, Andre
Williams and Chris Keefer
Title: Classification and Regression Training
Description: Misc functions for training and plotting classification
and regression models
Diff between caret versions 4.10 dated 2009-03-27 and 4.11 dated 2009-04-29
DESCRIPTION | 14 NAMESPACE | 64 R/classDist.R |only R/createGrid.R | 8 R/createModel.R | 97 R/knnreg.R |only R/misc.R | 71 R/predictionFunction.R | 18 R/predictors.R | 87 R/probFunction.R | 14 R/rfe.R |only R/selection.R | 9 inst/CHANGES | 19 inst/doc/caretMisc.Rnw | 62 inst/doc/caretMisc.pdf | 5700 +++++++++++++++++++++++++++++++++----------- inst/doc/caretMisc.tex |only inst/doc/caretSelection.Rnw |only inst/doc/caretSelection.pdf |only inst/doc/caretSelection.tex |only inst/doc/caretTrain.Rnw | 99 inst/doc/caretTrain.pdf |binary inst/doc/caretTrain.tex |only inst/doc/caretVarImp.Rnw | 15 inst/doc/caretVarImp.pdf | 1091 ++++---- inst/doc/caretVarImp.tex |only inst/doc/rfeExamples.R |only man/classDist.Rd |only man/knnreg.Rd |only man/lattice.rfe.Rd |only man/predict.knnreg.Rd |only man/predictors.Rd | 3 man/rfe.Rd |only man/rfeControl.Rd |only man/rfeFunctions.Rd |only man/train.Rd | 37 man/varImp.Rd | 6 src/caret.c | 119 37 files changed, 5542 insertions(+), 1991 deletions(-)
Author: Kurt Hornik
Title: Snowball Stemmers
Description: Snowball stemmers.
Diff between Snowball versions 0.0-3 dated 2007-09-11 and 0.0-4 dated 2009-04-29
Snowball-0.0-3/Snowball/Work |only Snowball-0.0-4/Snowball/DESCRIPTION | 10 ++++++---- Snowball-0.0-4/Snowball/R/zzz.R | 6 +++--- 3 files changed, 9 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 3.6.0). 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 0.3-16 dated 2009-02-19 and 0.3-17 dated 2009-04-29
CHANGELOG | 4 ++++ COPYRIGHTS | 15 +++++---------- DESCRIPTION | 31 ++++++++++++++++--------------- NAMESPACE | 16 ++++++++++------ R/onLoad.R | 2 -- inst/CITATION | 2 +- inst/po/en@quot/LC_MESSAGES/R-RWeka.mo |binary po/R-RWeka.pot | 5 ++++- po/R-en@quot.po | 7 +++++-- tests/data_exchange.R | 2 +- tests/data_exchange.Rout.save | 8 +++----- 11 files changed, 49 insertions(+), 43 deletions(-)
Author: Karl W Broman
Title: Datasets for the R/qtl book
Description: Datasets for the book, A guide to QTL Mapping with R/qtl
Diff between qtlbook versions 0.16-3 dated 2009-03-30 and 0.17-1 dated 2009-04-28
.gitignore |only DESCRIPTION | 10 +++++----- inst/LICENSE.txt | 10 ++++------ inst/STATUS.txt | 23 +++++++++++++---------- 4 files changed, 22 insertions(+), 21 deletions(-)
Author: Gabriel Rodrigues Alves Margarido
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)
Diff between onemap versions 1.0-0 dated 2009-04-17 and 1.0-1 dated 2009-04-28
onemap-1.0-0/onemap/inst/doc/Tutorial_OneMap.Rnw |only onemap-1.0-0/onemap/inst/doc/Tutorial_OneMap.pdf |only onemap-1.0-0/onemap/inst/doc/Tutorial_OneMap_with_output.pdf |only onemap-1.0-1/onemap/DESCRIPTION | 8 - onemap-1.0-1/onemap/R/comb.ger.R | 58 ++++++++++- onemap-1.0-1/onemap/R/compare.R | 22 +++- onemap-1.0-1/onemap/R/rf.graph.table.R | 4 onemap-1.0-1/onemap/R/try.seq.R | 38 ++++++- onemap-1.0-1/onemap/inst/doc/Turorial_Onemap.Rnw |only onemap-1.0-1/onemap/inst/doc/Turorial_Onemap.pdf |only onemap-1.0-1/onemap/inst/doc/Turorial_Onemap_with_output.pdf |only onemap-1.0-1/onemap/man/onemap-internal.Rd | 4 onemap-1.0-1/onemap/man/rcd.Rd | 2 onemap-1.0-1/onemap/src/hmm_out.c | 5 onemap-1.0-1/onemap/src/twopts.c | 4 onemap-1.0-1/onemap/src/twopts.h | 4 16 files changed, 129 insertions(+), 20 deletions(-)
Author: Sophie Baillargeon
Title: Loglinear Models for Capture-Recapture Experiments
Description: Estimation of abundance and other demographic parameters
for closed populations, open populations and the robust design
in capture-recapture experiments using loglinear models.
Diff between Rcapture versions 1.1 dated 2008-01-29 and 1.2-0 dated 2009-04-28
Rcapture-1.1/Rcapture/R/Xclosedp.r |only Rcapture-1.1/Rcapture/R/Xomega.0.R |only Rcapture-1.1/Rcapture/R/Xomega.t.r |only Rcapture-1.1/Rcapture/R/Zdelta.R |only Rcapture-1.1/Rcapture/R/histfreq.0.R |only Rcapture-1.1/Rcapture/R/histfreq.t.R |only Rcapture-1.1/Rcapture/R/histpos.0.R |only Rcapture-1.1/Rcapture/R/histpos.t.R |only Rcapture-1.1/Rcapture/man/histfreq.Rd |only Rcapture-1.1/Rcapture/man/model.matrices.Rd |only Rcapture-1.2-0/Rcapture/DESCRIPTION | 28 - Rcapture-1.2-0/Rcapture/NAMESPACE |only Rcapture-1.2-0/Rcapture/NEWS |only Rcapture-1.2-0/Rcapture/R/closedp.Mtb.R | 34 - Rcapture-1.2-0/Rcapture/R/closedp.R | 583 +++++++++-------------- Rcapture-1.2-0/Rcapture/R/closedp.bc.R | 358 +++++--------- Rcapture-1.2-0/Rcapture/R/closedp.h.r | 30 - Rcapture-1.2-0/Rcapture/R/closedp.mX.R | 18 Rcapture-1.2-0/Rcapture/R/closedpCI.R |only Rcapture-1.2-0/Rcapture/R/descriptive.R | 259 +++++----- Rcapture-1.2-0/Rcapture/R/histfreq.R |only Rcapture-1.2-0/Rcapture/R/histpos.R |only Rcapture-1.2-0/Rcapture/R/internal.R |only Rcapture-1.2-0/Rcapture/R/model.matrices.R |only Rcapture-1.2-0/Rcapture/R/openp.R | 95 +-- Rcapture-1.2-0/Rcapture/R/periodhist.R | 33 - Rcapture-1.2-0/Rcapture/R/profileCI.R | 70 +- Rcapture-1.2-0/Rcapture/R/robustd.0.R | 235 +-------- Rcapture-1.2-0/Rcapture/R/robustd.t.r | 293 +++-------- Rcapture-1.2-0/Rcapture/R/uifit.R | 168 ++---- Rcapture-1.2-0/Rcapture/data/BBS2001.rda |only Rcapture-1.2-0/Rcapture/data/catb.rda |only Rcapture-1.2-0/Rcapture/data/mvole.rda |binary Rcapture-1.2-0/Rcapture/data/rbvole.rda |binary Rcapture-1.2-0/Rcapture/inst/doc/RcaptureJSS.Rnw |only Rcapture-1.2-0/Rcapture/inst/doc/RcaptureJSS.pdf |binary Rcapture-1.2-0/Rcapture/inst/doc/Rplots.pdf |only Rcapture-1.2-0/Rcapture/inst/doc/biblio |only Rcapture-1.2-0/Rcapture/inst/doc/fig |only Rcapture-1.2-0/Rcapture/inst/doc/jss.bst |only Rcapture-1.2-0/Rcapture/inst/doc/jss.cls |only Rcapture-1.2-0/Rcapture/man/BBS2001.Rd |only Rcapture-1.2-0/Rcapture/man/HIV.Rd | 16 Rcapture-1.2-0/Rcapture/man/Rcapture.package.Rd | 59 +- Rcapture-1.2-0/Rcapture/man/bunting.Rd | 15 Rcapture-1.2-0/Rcapture/man/catb.Rd |only Rcapture-1.2-0/Rcapture/man/closedp.Mtb.Rd | 10 Rcapture-1.2-0/Rcapture/man/closedp.Rd | 130 +++-- Rcapture-1.2-0/Rcapture/man/closedp.bc.Rd | 46 + Rcapture-1.2-0/Rcapture/man/closedp.custom.Rd | 26 - Rcapture-1.2-0/Rcapture/man/closedpCI.Rd |only Rcapture-1.2-0/Rcapture/man/descriptive.Rd | 63 +- Rcapture-1.2-0/Rcapture/man/duck.Rd | 15 Rcapture-1.2-0/Rcapture/man/hare.Rd | 20 Rcapture-1.2-0/Rcapture/man/histpos.Rd | 12 Rcapture-1.2-0/Rcapture/man/mvole.Rd | 9 Rcapture-1.2-0/Rcapture/man/openp.Rd | 15 Rcapture-1.2-0/Rcapture/man/periodhist.Rd | 25 Rcapture-1.2-0/Rcapture/man/profileCI.Rd | 24 Rcapture-1.2-0/Rcapture/man/rbvole.Rd | 7 Rcapture-1.2-0/Rcapture/man/robustd.Rd | 33 - Rcapture-1.2-0/Rcapture/man/uifit.Rd | 4 62 files changed, 1195 insertions(+), 1538 deletions(-)
Author: HUANG Ronggui
Title: R-based Qualitative Data Analysis
Description: R package for Qualitative Data Analysis. Current version
only supports plain text.
Diff between RQDA versions 0.1-6 dated 2008-12-30 and 0.1-7 dated 2009-04-28
RQDA-0.1-6/RQDA/R/Rename.R |only RQDA-0.1-6/RQDA/inst |only RQDA-0.1-6/RQDA/man/RQDA-internal.rd |only RQDA-0.1-7/RQDA/CITATION |only RQDA-0.1-7/RQDA/ChangeLog | 121 +++++++++++++++++ RQDA-0.1-7/RQDA/DESCRIPTION | 34 +++- RQDA-0.1-7/RQDA/KnownBugs | 4 RQDA-0.1-7/RQDA/NAMESPACE |only RQDA-0.1-7/RQDA/R/Attributes.R |only RQDA-0.1-7/RQDA/R/AttributesWidge.R |only RQDA-0.1-7/RQDA/R/CaseButton.R | 69 +++++++-- RQDA-0.1-7/RQDA/R/CaseFun.R | 9 - RQDA-0.1-7/RQDA/R/CodeCatButton.R | 32 ++-- RQDA-0.1-7/RQDA/R/CodesFun.R | 243 ++++++++++++++++++++++++++++++----- RQDA-0.1-7/RQDA/R/Coding_Buttons.R | 142 +++++++++++--------- RQDA-0.1-7/RQDA/R/FileButton.R | 133 +++++++++++++++++-- RQDA-0.1-7/RQDA/R/FileCatButton.R | 189 ++++++++++++++++++++------- RQDA-0.1-7/RQDA/R/FilesFun.R | 164 ++++++++++++++++++----- RQDA-0.1-7/RQDA/R/GUIHandler.R | 77 +++-------- RQDA-0.1-7/RQDA/R/Journal.R |only RQDA-0.1-7/RQDA/R/ProjectButton.R | 27 +++ RQDA-0.1-7/RQDA/R/ProjectFun.R | 78 ++++++++++- RQDA-0.1-7/RQDA/R/RQDAtm.R |only RQDA-0.1-7/RQDA/R/Setting.R | 9 + RQDA-0.1-7/RQDA/R/deletion.R | 2 RQDA-0.1-7/RQDA/R/merger.R |only RQDA-0.1-7/RQDA/R/relation.R | 2 RQDA-0.1-7/RQDA/R/root_gui.R | 41 ++++- RQDA-0.1-7/RQDA/R/sysdata.rda |binary RQDA-0.1-7/RQDA/R/utils.R | 103 +++++++++++++- RQDA-0.1-7/RQDA/R/zzz.R | 3 RQDA-0.1-7/RQDA/man/GetAttr.Rd |only RQDA-0.1-7/RQDA/man/GetCaseId.rd |only RQDA-0.1-7/RQDA/man/GetFileId.rd | 22 ++- RQDA-0.1-7/RQDA/man/GetFileIdSets.Rd |only RQDA-0.1-7/RQDA/man/RQDA-package.Rd | 4 RQDA-0.1-7/RQDA/man/RQDA2tm.Rd |only RQDA-0.1-7/RQDA/man/RQDAQuery.rd |only RQDA-0.1-7/RQDA/man/RQDATables.rd |only RQDA-0.1-7/RQDA/man/gselect.list.rd |only RQDA-0.1-7/RQDA/man/retrieval.Rd |only 41 files changed, 1181 insertions(+), 327 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 2.0-2 dated 2009-02-06 and 2.0-3 dated 2009-04-28
seqinr-2.0-2/seqinr/inst/doc/seqinr_2_0-1.pdf |only seqinr-2.0-3/seqinr/DESCRIPTION | 27 seqinr-2.0-3/seqinr/R/al2bp.R |only seqinr-2.0-3/seqinr/R/getTrans.R | 2 seqinr-2.0-3/seqinr/R/peakabif.R | 7 seqinr-2.0-3/seqinr/R/plotladder.R | 2 seqinr-2.0-3/seqinr/R/readBins.R |only seqinr-2.0-3/seqinr/R/readPanels.R |only seqinr-2.0-3/seqinr/inst/abif/AmpFLSTR_Bins_v1.txt |only seqinr-2.0-3/seqinr/inst/abif/AmpFLSTR_Panels_v1.txt |only seqinr-2.0-3/seqinr/inst/abif/Promega_Bins_v1.txt |only seqinr-2.0-3/seqinr/inst/abif/Promega_Panels_v1.txt |only seqinr-2.0-3/seqinr/inst/doc/seqinr_2_0-3.pdf |only seqinr-2.0-3/seqinr/inst/doc/src/appendix/FAQ.tex | 36 seqinr-2.0-3/seqinr/inst/doc/src/appendix/fdl.tex | 2 seqinr-2.0-3/seqinr/inst/doc/src/appendix/releasenotes.rnw | 43 seqinr-2.0-3/seqinr/inst/doc/src/appendix/releasenotes.tex | 88 + seqinr-2.0-3/seqinr/inst/doc/src/appendix/subsequences.tex | 540 ++++++++--- seqinr-2.0-3/seqinr/inst/doc/src/config/book.bib | 7 seqinr-2.0-3/seqinr/inst/doc/src/config/commonrnw.rnw | 13 seqinr-2.0-3/seqinr/inst/doc/src/config/sessionInfo.rnw | 4 seqinr-2.0-3/seqinr/inst/doc/src/figs/cover.pdf | 8 seqinr-2.0-3/seqinr/inst/doc/src/frontmatter/cover.tex | 20 seqinr-2.0-3/seqinr/inst/doc/src/mainmatter/acnucsocket.tex | 188 +-- seqinr-2.0-3/seqinr/inst/doc/src/mainmatter/chr1.RData |binary seqinr-2.0-3/seqinr/inst/doc/src/mainmatter/dealseq.tex | 24 seqinr-2.0-3/seqinr/inst/doc/src/mainmatter/extractseqs.tex | 56 - seqinr-2.0-3/seqinr/inst/doc/src/mainmatter/getseqacnuc.tex | 110 +- seqinr-2.0-3/seqinr/inst/doc/src/mainmatter/getseqflat.tex | 32 seqinr-2.0-3/seqinr/inst/doc/src/mainmatter/introduction.tex | 51 - seqinr-2.0-3/seqinr/inst/doc/src/mainmatter/multivariate.tex | 24 seqinr-2.0-3/seqinr/inst/doc/src/mainmatter/nonparastats.tex | 24 seqinr-2.0-3/seqinr/inst/doc/src/mainmatter/querylang.tex | 36 seqinr-2.0-3/seqinr/inst/doc/src/tables/aacost.tex | 46 seqinr-2.0-3/seqinr/inst/doc/src/tables/dpqrtable.tex | 44 seqinr-2.0-3/seqinr/inst/doc/src/tables/toyaa.tex | 14 seqinr-2.0-3/seqinr/inst/doc/src/tables/toycodon.tex | 12 seqinr-2.0-3/seqinr/inst/sequences/DarrenObbard.fasta |only seqinr-2.0-3/seqinr/man/al2bp.Rd |only seqinr-2.0-3/seqinr/man/kaks.Rd | 56 - seqinr-2.0-3/seqinr/man/peakabif.Rd | 7 seqinr-2.0-3/seqinr/man/plotladder.Rd | 2 seqinr-2.0-3/seqinr/man/readBins.Rd |only seqinr-2.0-3/seqinr/man/readPanels.Rd |only seqinr-2.0-3/seqinr/src/kaks.c | 272 ++--- 45 files changed, 1099 insertions(+), 698 deletions(-)
Author: Hadley Wickham
Title: Flexibly reshape data.
Description: Reshape lets you flexibly restructure and aggregate data
using just two functions: melt and cast.
Diff between reshape versions 0.8.2 dated 2008-11-04 and 0.8.3 dated 2009-04-28
DESCRIPTION | 9 ++++++--- NEWS | 6 ++++++ R/melt.r | 13 ++++++++----- R/stamp.r | 2 +- R/utils.r | 15 ++++++++++++++- inst/CITATION | 2 +- man/cast-parse-formula-uw.rd | 6 +++--- man/french-fries.rd | 3 ++- man/melt-check-j7.rd | 4 ++-- man/melt-data-frame-da.rd | 2 +- man/rename-au.rd | 15 ++++++++++++++- man/stamp-fw.rd | 2 +- man/tips.rd | 5 +++-- 13 files changed, 62 insertions(+), 22 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 0.3.3 dated 2009-01-11 and 0.4.0 dated 2009-04-28
DESCRIPTION | 31 ++++------ R/bootcomp.R | 4 - R/compcdf.R | 94 +++++++++------------------------ R/dmvnorm.R | 13 ++-- R/multmixEM.R | 65 ++++++++++++++-------- R/multmixmodelsel.R | 8 ++ R/normalmixEM.R | 136 +++++++++++++++++++++++++++--------------------- R/regmixMH.R | 4 - R/summary.mixEM.R |only man/compCDF.Rd | 31 +++++++--- man/dmvnorm.Rd | 8 +- man/makemultdata.Rd | 3 - man/multmixEM.Rd | 22 ++++--- man/multmixmodel.sel.Rd | 7 +- man/normalmixEM.Rd | 75 +++++++++++++++++++++----- man/npEM.Rd | 13 ++-- man/spEM.Rd | 9 +-- man/summary.mixEM.Rd |only src/multinompost.c |only src/normpost.c |only src/sd.c | 2 src/z.c | 9 +-- 22 files changed, 297 insertions(+), 237 deletions(-)
Author: Cedric Gouy-Pailler
Title: Joint Approximate Diagonalization of a set of square matrices
Description: Different algorithms to perform approximate joint
diagonalization of a finite set of square matrices. Depending
on the algorithm, orthogonal or non-orthogonal diagonalizer is
found. These algorithms are particularly useful in the context
of blind source separation.
Diff between jointDiag versions 0.1 dated 2009-03-12 and 0.1-2 dated 2009-04-28
jointDiag-0.1-2/jointDiag/DESCRIPTION | 22 +++++++++------------- jointDiag-0.1-2/jointDiag/man/ajd.Rd | 3 ++- jointDiag-0.1-2/jointDiag/src/Makevars | 3 +-- jointDiag-0.1-2/jointDiag/src/Makevars.win | 3 +-- jointDiag-0.1/jointDiag/R/lscjadiag.R |only 5 files changed, 13 insertions(+), 18 deletions(-)
Author: Sinnwell JP, Schaid DJ
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 1.3.8 dated 2008-05-13 and 1.4.3 dated 2009-04-28
DESCRIPTION | 25 ++++++++----- NEWS | 47 +++++++++++++++++++++++- R/haplo.scan.q | 17 +++++++- R/haplo.score.q | 15 +++++-- R/plot.seqhap.q | 59 +++++++++++++++++------------- R/print.haplo.em.q | 25 ++++++++++--- R/print.seqhap.q | 35 +++++++++++------- R/seqhap.q | 17 ++++++-- R/summary.haplo.em.q | 10 +++-- README.haplo.stats | 30 +++++++++------ data/seqhap.dat.tab | 2 - inst/doc/manualHaploStats.pdf |binary man/hapPower.demo.Rd | 38 +++++++++++-------- man/hla.demo.Rd | 80 ++++++++++++++++++++++++------------------ man/plot.seqhap.Rd | 30 ++++++++++++--- man/seqhap.Rd | 37 +++++++++++++------ man/seqhap.dat.Rd | 56 +++++++++++++++++++++-------- src/seqhap.c | 72 +++++++++++++++++++++++++++---------- 18 files changed, 407 insertions(+), 188 deletions(-)
Author: Sebastian Kaiser, Rodrigo Santamaria, Roberto Theron, Luis
Quintales and Friedrich Leisch.
Title: BiCluster Algorithms
Description: The main function biclust provides several algorithms to
find biclusters in two-dimensional data: Cheng and Church,
Spectral, Plaid Model, Xmotifs and Bimax. In addition, the
package provides methods for data preprocessing (normalization
and discretisation), visualisation, and validation of bicluster
solutions.
Diff between biclust versions 0.7.1 dated 2009-03-13 and 0.7.2 dated 2009-04-28
biclust-0.7.1/biclust/R/gibbs.r |only biclust-0.7.1/biclust/R/qhb.r |only biclust-0.7.2/biclust/DESCRIPTION | 14 ++++++++------ biclust-0.7.2/biclust/NAMESPACE | 2 +- biclust-0.7.2/biclust/NEWS | 3 ++- biclust-0.7.2/biclust/R/clustmember.r | 4 ++-- biclust-0.7.2/biclust/R/questmotif.r | 4 ++-- biclust-0.7.2/biclust/man/clustmember.rd | 6 +++--- biclust-0.7.2/biclust/man/plotclust.rd | 6 +++--- 9 files changed, 21 insertions(+), 18 deletions(-)
Author: Hector Corrada Bravo (CSDP by Brian Borchers)
Title: R interface to the CSDP semidefinite programming library
Description: R interface to the CSDP semidefinite programming library.
Installs version 6.0.1 of CSDP from the COIN-OR website if
required. An existing intallation of CSDP may be used by
passing the proper configure arguments to the installation
command. See the INSTALL file for further details.
Diff between Rcsdp versions 0.1-3 dated 2009-03-09 and 0.1-4 dated 2009-04-28
CHANGES |only DESCRIPTION | 15 +++++++++++---- R/sparse.R | 2 +- 3 files changed, 12 insertions(+), 5 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 0.1-5 dated 2009-01-09 and 0.1-6 dated 2009-04-27
CHANGELOG | 11 +++++++++++ DESCRIPTION | 16 +++++++++------- R/02sequences.R | 2 ++ src_exec/TPOSE/Array.h | 2 +- src_exec/cSPADE/Array.h | 2 +- src_exec/cSPADE/extl2.cc | 2 +- src_exec/cSPADE/maxgap.cc | 2 +- src_exec/cSPADE/partition.cc | 2 +- src_exec/cSPADE/sequence.cc | 2 +- 9 files changed, 28 insertions(+), 13 deletions(-)
More information about arulesSequences at CRAN
Permanent link
Author: John Fox
Title: R Commander
Description: A platform-independent basic-statistics GUI (graphical
user interface) for R, based on the tcltk package.
Diff between Rcmdr versions 1.4-9 dated 2009-04-04 and 1.4-10 dated 2009-04-27
DESCRIPTION | 11 +++++------ R/commander.R | 31 +++++++++++++++++-------------- R/utilities.R | 2 +- inst/CHANGES | 8 ++++++++ man/Commander.Rd | 3 +++ man/Rcmdr-package.Rd | 4 ++-- 6 files changed, 36 insertions(+), 23 deletions(-)
Author: James Honaker
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.
Diff between Amelia versions 1.2-1 dated 2009-04-15 and 1.2-2 dated 2009-04-27
DESCRIPTION | 8 R/emb.r | 5 inst/doc/amelia.log | 4 inst/doc/amelia.pdf | 1716 +++++++++++++++++++++++++-------------------------- inst/doc/amelia.tex | 2 inst/doc/index.shtml | 2 6 files changed, 861 insertions(+), 876 deletions(-)
Author: Arnost Komarek
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.
Diff between smoothSurv versions 0.3-12 dated 2008-06-26 and 0.4 dated 2009-04-27
CHANGES | 5 +++++ DESCRIPTION | 24 +++++++++++++----------- R/smoothSurvReg.R | 8 ++++---- 3 files changed, 22 insertions(+), 15 deletions(-)
Author: Rense Nieuwenhuis, Ben Pelzer, Manfred te Grotenhuis
Title: Tools for recognizing influential data in mixed models
Description: influence.ME provides a collection of tool for calculating
measures of influential data for mixed effects models. The
basic rationale behind identifying influential data is that
when iteratively single units are omitted from the data, models
based on these data should not produce substantially different
estimates. To standardize the assessment of how influential a
(single group of) observation(s) is, several measures of
influence are common practice. First, DFBETAS is a standardized
measure of the absolute difference between the estimate with a
particular case included and the estimate without that
particular case. Second, Cook's distance provides an overall
measurement of the change in all parameter estimates, or a
selection thereof.
Diff between influence.ME versions 0.6 dated 2009-04-26 and 0.6.1 dated 2009-04-27
DESCRIPTION | 8 ++++---- man/estex.Rd | 2 +- man/grouping.levels.Rd | 3 --- man/influence.ME-package.Rd | 6 +++--- 4 files changed, 8 insertions(+), 11 deletions(-)
Author: Arnost Komarek
Title: Generalized Linear Mixed Models
Description: Later
Diff between glmmAK versions 1.2 dated 2008-06-26 and 1.3 dated 2009-04-27
DESCRIPTION | 8 +++++--- inst/doc/index.html | 2 +- man/GMRF.Rd | 6 +++--- 3 files changed, 9 insertions(+), 7 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 1.2.0 dated 2008-11-30 and 1.3.0 dated 2009-04-27
DESCRIPTION | 28 ++++++---- R/RHmm-HyperNew.R | 4 - R/RHmm-internals.R | 4 - R/RHmm.R | 9 ++- README | 3 - man/HMMFit.rd | 15 +++-- man/distributionSet.rd | 12 ++-- src/AllDistributions.h | 4 - src/Debogage.h | 4 - src/Hmm.h | 4 - src/Kmeans.cpp | 4 - src/Kmeans.h | 4 - src/MultivariateNormalUtil.cpp | 4 - src/MultivariateNormalUtil.h | 4 - src/OTMathUtil.h | 4 - src/REquivalents.h | 4 - src/RHmm.cpp | 18 ++++-- src/RHmm.h | 4 - src/SamplesUtil.cpp | 4 - src/SamplesUtil.h | 4 - src/cBaumWelch.cpp | 4 - src/cBaumWelch.h | 4 - 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/cLogBaumWelch.cpp | 103 ++++++++++++++++++++++++++++++++++++---- src/cLogBaumWelch.h | 8 ++- src/cMixtMultivariateNormal.cpp | 4 - src/cMixtMultivariateNormal.h | 4 - src/cMixtUnivariateNormal.cpp | 4 - src/cMixtUnivariateNormal.h | 4 - src/cMultivariateNormal.cpp | 4 - src/cMultivariateNormal.h | 4 - src/cOTError.cpp | 4 - src/cOTError.h | 4 - src/cOTMatrix.cpp | 4 - src/cOTMatrix.h | 4 - src/cOTVector.cpp | 4 - src/cOTVector.h | 4 - src/cRUtils.cpp | 4 - src/cRUtils.h | 4 - src/cRandomGenerator.h | 4 - src/cUnivariateNormal.cpp | 4 - src/cUnivariateNormal.h | 4 - src/cViterbi.cpp | 4 - src/cViterbi.h | 4 - src/logprob.cpp | 4 - src/logprob.h | 4 - 56 files changed, 246 insertions(+), 142 deletions(-)
Author: Matthias Kohl
Title: Miscellaneous Functions from M. Kohl
Description: Miscellaneous Functions from M. Kohl
Diff between MKmisc versions 0.3 dated 2008-11-30 and 0.4 dated 2009-04-27
DESCRIPTION | 28 +++++++++++++++------------- R/corPlot.R | 11 ++++++----- R/heatmapCol.R | 4 ++-- man/MKmisc-package.Rd | 6 +++--- man/corDist.Rd | 6 +++--- man/corPlot.Rd | 9 +++++++-- man/heatmapCol.Rd | 3 ++- 7 files changed, 38 insertions(+), 29 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 1.0-2 dated 2009-03-04 and 1.0-3 dated 2009-04-27
ChangeLog | 5 DESCRIPTION | 34 R/analysisMM.R | 6 ToDo | 3 inst/doc/MCPMod.pdf | 2132 ++++++++++++++++++++++++-------------------------- inst/doc/Rplots.pdf |only man/MCPMod-package.Rd | 4 7 files changed, 1078 insertions(+), 1106 deletions(-)
Author: Stephen Gardiner and Paul Murrell
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 1.0-3 dated 2009-03-31 and 1.0-4 dated 2009-04-27
ChangeLog | 9 +++++++++ DESCRIPTION | 6 +++--- inst/CITATION |only inst/doc |only 4 files changed, 12 insertions(+), 3 deletions(-)
Author: Michael A. Lawrence
Title: Easy analysis and visualization of factorial experiments.
Description: This package facilitates easy analysis of factorial
experiments, including purely within-Ss designs (a.k.a.
"repeated measures"), purely between-Ss designs, and mixed
within-and-between-Ss designs. The functions in this package
provide easy access to descriptive statistics, ANOVA,
permutation tests, and visualization of results.
Diff between ez versions 1.0 dated 2009-04-26 and 1.1 dated 2009-04-27
DESCRIPTION | 12 ++++++------ NAMESPACE | 2 +- R/ez-internal.R | 15 +++++++++++++++ R/ezPerm.R |only man/ANT.Rd | 2 +- man/ez-package.Rd | 17 +++++++++++++---- man/ezANOVA.Rd | 7 +++---- man/ezPerm.Rd |only man/ezPlot.Rd | 2 +- man/ezStats.Rd | 2 +- 10 files changed, 41 insertions(+), 18 deletions(-)
Author: Manuel J. A. Eugster
Title: Archetypal Analysis
Description: The main function archetypes implements a framework for
archetypal analysis supporting arbitary problem solving
mechanisms for the different conceputal parts of the algorithm.
NOTE: This package is used as real-world test application for
the Roxygen documentation system. At the moment, Roxygen does
not produce "good" help pages for the everyday use of a
package; we refer to the vignette for a consistent package
illustration.
Diff between archetypes versions 0.1-1 dated 2009-04-15 and 1.0 dated 2009-04-27
DESCRIPTION | 10 inst/CITATION | 27 + inst/doc/archetypes.Rnw | 727 +++++++++++++++++++++++++++--------------------- inst/doc/archetypes.bib | 88 +++-- inst/doc/archetypes.pdf |binary inst/doc/rt-002.pdf |only inst/doc/rt-003.pdf |only 7 files changed, 494 insertions(+), 358 deletions(-)
Author: David Meyer
Title: implementation of the StatDataML proposal
Description: read and write StatDataML files
Diff between StatDataML versions 1.0-17 dated 2009-03-31 and 1.0-18 dated 2009-04-26
DESCRIPTION | 8 ++++---- inst/CITATION | 5 ++--- 2 files changed, 6 insertions(+), 7 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 (2009). 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 1.1.1 dated 2009-02-05 and 1.1.2 dated 2009-04-26
DESCRIPTION | 23 +++++++++++++---------- NEWS | 7 +++++++ R/cst.R |only R/lait.R |only man/cst.stat.Rd |only man/lait.stat.Rd |only man/shrinkcat.stat.Rd | 34 ++++++++++++++++++---------------- man/st.package.Rd | 7 ++++++- 8 files changed, 44 insertions(+), 27 deletions(-)
Author: Alex Couture-Beil
Title: JSON for R
Description: Converts R object into JSON objects and vice-versa
Diff between rjson versions 0.1.4 dated 2009-01-02 and 0.1.5 dated 2009-04-26
DESCRIPTION | 22 ++++++++++++---------- R/json.R | 10 +++++----- inst |only man/newJSONParser.Rd | 8 ++++---- 4 files changed, 21 insertions(+), 19 deletions(-)
Author: Rense Nieuwenhuis, Ben Pelzer, Manfred te Grotenhuis
Title: Tools for recognizing influential data in mixed models
Description: influence.ME provides a collection of tool for calculating
measures of influential data for mixed effects models. The
basic rationale behind identifying influential data is that
when iteratively single units are omitted from the data, models
based on these data should not produce substantially different
estimates. To standardize the assessment of how influential a
(single group of) observation(s) is, several measures of
influence are common practice. First, DFBETAS is a standardized
measure of the absolute difference between the estimate with a
particular case included and the estimate without that
particular case. Second, Cook's distance provides an overall
measurement of the change in all parameter estimates, or a
selection thereof.
Diff between influence.ME versions 0.5 dated 2009-04-15 and 0.6 dated 2009-04-26
DESCRIPTION | 9 +++-- R/ME.cook.R | 11 ++++-- R/ME.dfbetas.R | 29 ++++++++++++++--- R/ME.pchange.R |only R/dp.ME.cook.R | 9 ++++- R/dp.ME.dfbetas.R | 4 +- R/dp.ME.pchange.R |only R/estex.R | 72 ++++++++++++++++++++++---------------------- R/exclude.influence.R | 24 ++++++++++---- man/ME.cook.Rd | 3 + man/ME.dfbetas.Rd | 7 +++- man/ME.pchange.Rd |only man/dp.ME.cook.Rd | 11 +++--- man/dp.ME.dfbetas.Rd | 5 ++- man/dp.ME.pchange.Rd |only man/influence.ME-package.Rd | 8 ++-- 16 files changed, 119 insertions(+), 73 deletions(-)
Author: Patrick Brown
Title: Generalised Linear Mixed Models and Spatial Models with BUGS
Description: Write bugs model files for hierarchical and spatial
models, arranges unbalanced data in ragged arrays, and creates
starting values.
Diff between glmmBUGS versions 1.5 dated 2009-01-13 and 1.6 dated 2009-04-26
DESCRIPTION | 32 ++++++++++++++++++------------ Paper |only R/getDesignMatrix.R | 8 +++++++ R/getStartingValues.R | 49 ++++++++++++++++++++++++++++++----------------- R/glmmBUGS.R | 19 +++++++++++++----- R/restoreParams.R | 9 ++++++++ data/ontario.RData |binary data/ontarioResult.RData |binary data/popDataAdjMat.RData |binary man/addSpatial.Rd | 2 - man/glmmBUGS.Rd | 22 +++++++++++---------- man/ontario.Rd | 2 - 12 files changed, 96 insertions(+), 47 deletions(-)
Author: S�ren H�jsgaard
Title: A package for graphical modelling in R
Description: The gRbase package provides certain general constructs
which are used by other graphical modelling packages. This
includes 1) the concept of gmData (graphical meta data), 2)
several graph algorithms 3) facilities for table operations, 4)
functions for testing for conditional independence. gRbase also
illustrates how hierarchical log-linear models (hllm) may be
implemented.
Diff between gRbase versions 1.0.1 dated 2009-02-26 and 1.1.0 dated 2009-04-26
gRbase-1.0.1/gRbase/R/Graphsh-querygSH2.R |only gRbase-1.0.1/gRbase/TODO |only gRbase-1.0.1/gRbase/man/graph-operations1.Rd |only gRbase-1.0.1/gRbase/man/graph-operations2.Rd |only gRbase-1.0.1/gRbase/man/querygraph.Rd |only gRbase-1.0.1/gRbase/man/triangulate.Rd |only gRbase-1.1.0/gRbase/ChangeLog | 8 gRbase-1.1.0/gRbase/DESCRIPTION | 34 +- gRbase-1.1.0/gRbase/INDEX | 1 gRbase-1.1.0/gRbase/NAMESPACE |only gRbase-1.1.0/gRbase/R/GraphAlgo-mcs.R | 8 gRbase-1.1.0/gRbase/R/GraphAlgo-querygraph.R |only gRbase-1.1.0/gRbase/R/GraphSH2.R | 6 gRbase-1.1.0/gRbase/R/dualRep.R | 2 gRbase-1.1.0/gRbase/R/formulae.R | 6 gRbase-1.1.0/gRbase/R/gmData.R | 4 gRbase-1.1.0/gRbase/R/processFormula.R | 2 gRbase-1.1.0/gRbase/R/setopsC.R | 107 +++++--- gRbase-1.1.0/gRbase/R/setopsR.R | 10 gRbase-1.1.0/gRbase/R/table-operations.R | 289 +++++++++++++++-------- gRbase-1.1.0/gRbase/R/utilities.R | 6 gRbase-1.1.0/gRbase/R/zzz.R | 4 gRbase-1.1.0/gRbase/inst/doc/gRbase.pdf |binary gRbase-1.1.0/gRbase/man/GraphAlgo-operations1.Rd |only gRbase-1.1.0/gRbase/man/GraphAlgo-operations2.Rd |only gRbase-1.1.0/gRbase/man/GraphAlgo-querygraph.Rd |only gRbase-1.1.0/gRbase/man/GraphAlgo-triangulate.Rd |only gRbase-1.1.0/gRbase/man/gRbase-internal.Rd | 41 --- gRbase-1.1.0/gRbase/man/gRbase-utilities.Rd | 24 - gRbase-1.1.0/gRbase/man/removeRedundant.Rd |only gRbase-1.1.0/gRbase/man/table-operations.Rd | 21 + 31 files changed, 333 insertions(+), 240 deletions(-)
Author: S�ren H�jsgaard
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).
Diff between gRain versions 0.7.0 dated 2009-02-12 and 0.8.0 dated 2009-04-26
gRain-0.7.0/gRain/R/compile-grain.R |only gRain-0.7.0/gRain/R/cumcounts.R |only gRain-0.7.0/gRain/R/grain-main.R |only gRain-0.7.0/gRain/R/nodeNamesETC.R |only gRain-0.7.0/gRain/R/querygm.R |only gRain-0.7.0/gRain/inst/doc/R-current.lnk |only gRain-0.7.0/gRain/man/propagate.compgrain.Rd |only gRain-0.7.0/gRain/man/querygm.Rd |only gRain-0.8.0/gRain/ChangeLog | 6 gRain-0.8.0/gRain/DESCRIPTION | 30 - gRain-0.8.0/gRain/INDEX | 17 gRain-0.8.0/gRain/NAMESPACE | 81 ---- gRain-0.8.0/gRain/R/Finding.R | 14 gRain-0.8.0/gRain/R/Generics.R | 16 gRain-0.8.0/gRain/R/GraphAlgo-misc.R |only gRain-0.8.0/gRain/R/SimulateArray.R | 20 - gRain-0.8.0/gRain/R/asxxx.R | 30 - gRain-0.8.0/gRain/R/compile-grain2.R |only gRain-0.8.0/gRain/R/compileCPT.R |only gRain-0.8.0/gRain/R/cptable-specialized.R |only gRain-0.8.0/gRain/R/cptable.R | 337 ++--------------- gRain-0.8.0/gRain/R/display.R | 2 gRain-0.8.0/gRain/R/extractCPT.R |only gRain-0.8.0/gRain/R/grain-main2.R |only gRain-0.8.0/gRain/R/loadSaveHuginNet.R | 506 ++++++++++++++++++--------- gRain-0.8.0/gRain/R/methods.R | 17 gRain-0.8.0/gRain/R/potentialList.R | 98 ++--- gRain-0.8.0/gRain/R/propagate.R | 22 - gRain-0.8.0/gRain/R/querygrain.R |only gRain-0.8.0/gRain/R/simarray.R | 4 gRain-0.8.0/gRain/R/summary.R | 5 gRain-0.8.0/gRain/R/utilities.R | 154 -------- gRain-0.8.0/gRain/inst/doc/gRain-intro.Rnw | 2 gRain-0.8.0/gRain/inst/doc/gRain-intro.pdf |binary gRain-0.8.0/gRain/man/andtable.Rd |only gRain-0.8.0/gRain/man/compile.Rd |only gRain-0.8.0/gRain/man/compile.grain.Rd | 9 gRain-0.8.0/gRain/man/compileCPT.Rd |only gRain-0.8.0/gRain/man/cptable.Rd | 9 gRain-0.8.0/gRain/man/extractCPT.Rd |only gRain-0.8.0/gRain/man/gRain-package.Rd | 8 gRain-0.8.0/gRain/man/grain.Rd | 24 - gRain-0.8.0/gRain/man/internal-gRain.Rd | 1 gRain-0.8.0/gRain/man/loadSaveHuginNet.Rd | 21 - gRain-0.8.0/gRain/man/propagate.grain.Rd |only gRain-0.8.0/gRain/man/querygrain.Rd |only gRain-0.8.0/gRain/man/simulate.Rd | 3 47 files changed, 562 insertions(+), 874 deletions(-)
Author: Patrick Brown
Title: Calculate SMR's from population and case data
Description: works with regular data set file and shape file.
Diff between diseasemapping versions 0.2 dated 2009-04-17 and 0.3 dated 2009-04-26
diseasemapping-0.2/diseasemapping/R/area.r |only diseasemapping-0.2/diseasemapping/man/area.Rd |only diseasemapping-0.3/diseasemapping/DESCRIPTION | 12 - diseasemapping-0.3/diseasemapping/R/computeArea.r |only diseasemapping-0.3/diseasemapping/R/formatCases.R | 1 diseasemapping-0.3/diseasemapping/R/formatPopulation.data.frame.R | 6 diseasemapping-0.3/diseasemapping/R/formatPopulation.list.R | 27 +-- diseasemapping-0.3/diseasemapping/R/getRates.R | 9 - diseasemapping-0.3/diseasemapping/R/getSMR.SpatialPolygonsDataFrame.R | 3 diseasemapping-0.3/diseasemapping/R/getSMR.data.frame.R | 38 ++--- diseasemapping-0.3/diseasemapping/R/getSMR.list.r | 73 ++++++---- diseasemapping-0.3/diseasemapping/R/mergeBugsData.R | 1 diseasemapping-0.3/diseasemapping/data/popdata.RData |binary diseasemapping-0.3/diseasemapping/man/computeArea.Rd |only diseasemapping-0.3/diseasemapping/man/diseasemapping-package.Rd | 18 ++ diseasemapping-0.3/diseasemapping/man/formatPopulation.Rd | 4 diseasemapping-0.3/diseasemapping/man/getSMR.Rd | 3 17 files changed, 122 insertions(+), 73 deletions(-)
More information about diseasemapping at CRAN
Permanent link
Author: John Fox
Title: R Commander Plug-in for the survival Package
Description: This package provides an R Commander plug-in for the
survival package, with dialogs for Cox models, parametric
survival regression models, estimation of survival curves, and
testing for differences in survival curves, along with
data-management facilities and a variety of tests, diagnostics
and graphs.
Diff between RcmdrPlugin.survival versions 0.7-2 dated 2009-04-03 and 0.7-3 dated 2009-04-26
DESCRIPTION | 11 +++++------ R/Survfit.R | 8 +++++--- inst/CHANGES | 4 ++++ man/RcmdrPlugin.survival-package.Rd | 4 ++-- 4 files changed, 16 insertions(+), 11 deletions(-)
More information about RcmdrPlugin.survival at CRAN
Permanent link
Author: Volodymyr Melnykov
Title: Simulating Data to Study Performance of Clustering Algorithms.
Description: MixSim
Diff between MixSim versions 0.1-02 dated 2009-04-23 and 0.1-03 dated 2009-04-26
DESCRIPTION | 9 ++++----- fixed.txt | 4 ++-- log.txt | 5 ++++- src/Makevars | 2 +- 4 files changed, 11 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 1.10 dated 2008-09-16 and 1.12 dated 2009-04-26
FactoMineR-1.10/FactoMineR/R/afdm.R |only FactoMineR-1.12/FactoMineR/DESCRIPTION | 26 FactoMineR-1.12/FactoMineR/NAMESPACE | 2 FactoMineR-1.12/FactoMineR/R/AFDM.R |only FactoMineR-1.12/FactoMineR/R/CA.R | 10 FactoMineR-1.12/FactoMineR/R/DMFA.R | 2 FactoMineR-1.12/FactoMineR/R/GPA.R | 1941 ++++++++++------------- FactoMineR-1.12/FactoMineR/R/HCPC.R |only FactoMineR-1.12/FactoMineR/R/MCA.R | 307 ++- FactoMineR-1.12/FactoMineR/R/MFA.R | 12 FactoMineR-1.12/FactoMineR/R/PCA.R | 19 FactoMineR-1.12/FactoMineR/R/catdes.r | 30 FactoMineR-1.12/FactoMineR/R/coeffRV.R | 2 FactoMineR-1.12/FactoMineR/R/condes.r | 188 +- FactoMineR-1.12/FactoMineR/R/dimdesc.r | 47 FactoMineR-1.12/FactoMineR/R/plot.AFDM.R | 2 FactoMineR-1.12/FactoMineR/R/plot.CA.R | 7 FactoMineR-1.12/FactoMineR/R/plot.GPA.R | 7 FactoMineR-1.12/FactoMineR/R/plot.HCPC.R |only FactoMineR-1.12/FactoMineR/R/plot.MCA.R | 54 FactoMineR-1.12/FactoMineR/R/plot.MFA.R | 20 FactoMineR-1.12/FactoMineR/R/plot.PCA.R | 33 FactoMineR-1.12/FactoMineR/R/plot.catdes.R |only FactoMineR-1.12/FactoMineR/R/plotellipses.r |only FactoMineR-1.12/FactoMineR/R/print.CA.R | 8 FactoMineR-1.12/FactoMineR/R/print.MCA.R | 20 FactoMineR-1.12/FactoMineR/R/print.MFA.R | 6 FactoMineR-1.12/FactoMineR/R/print.PCA.R | 20 FactoMineR-1.12/FactoMineR/R/write.infile.R | 26 FactoMineR-1.12/FactoMineR/data/JO.rda |only FactoMineR-1.12/FactoMineR/data/decathlon.rda |binary FactoMineR-1.12/FactoMineR/data/poulet.rda |only FactoMineR-1.12/FactoMineR/man/AFDM.Rd | 11 FactoMineR-1.12/FactoMineR/man/CA.Rd | 10 FactoMineR-1.12/FactoMineR/man/HCPC.Rd |only FactoMineR-1.12/FactoMineR/man/JO.Rd |only FactoMineR-1.12/FactoMineR/man/MCA.Rd | 14 FactoMineR-1.12/FactoMineR/man/MFA.Rd | 4 FactoMineR-1.12/FactoMineR/man/catdes.Rd | 3 FactoMineR-1.12/FactoMineR/man/condes.Rd | 2 FactoMineR-1.12/FactoMineR/man/plot.DMFA.Rd | 2 FactoMineR-1.12/FactoMineR/man/plot.HCPC.Rd |only FactoMineR-1.12/FactoMineR/man/plot.MCA.Rd | 13 FactoMineR-1.12/FactoMineR/man/plot.MFA.Rd | 3 FactoMineR-1.12/FactoMineR/man/plot.PCA.Rd | 4 FactoMineR-1.12/FactoMineR/man/plot.catdes.Rd |only FactoMineR-1.12/FactoMineR/man/plotellipses.Rd |only FactoMineR-1.12/FactoMineR/man/poison.Rd | 3 FactoMineR-1.12/FactoMineR/man/poison.text.Rd | 3 FactoMineR-1.12/FactoMineR/man/poulet.Rd |only FactoMineR-1.12/FactoMineR/man/svd.triplet.Rd | 4 FactoMineR-1.12/FactoMineR/man/tab.disjonctif.Rd | 2 FactoMineR-1.12/FactoMineR/man/tea.Rd | 4 FactoMineR-1.12/FactoMineR/man/write.infile.Rd | 3 54 files changed, 1412 insertions(+), 1462 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 1.0-0 dated 2008-11-21 and 1.0-1 dated 2009-04-24
DESCRIPTION | 16 NEWS | 7 inst/CITATION | 11 inst/doc/color.bib | 9 inst/doc/hcl-colors.Rnw | 2 inst/doc/hcl-colors.pdf | 1439 ++++++++++++++++++++++++------------------------ man/rainbow_hcl.Rd | 7 7 files changed, 753 insertions(+), 738 deletions(-)
Author: Philippe Grosjean
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.
Diff between tcltk2 versions 1.0-7.1 dated 2009-02-10 and 1.0-8 dated 2009-04-24
tcltk2-1.0-7.1/tcltk2/Localization.R |only tcltk2-1.0-7.1/tcltk2/inst/bin |only tcltk2-1.0-7.1/tcltk2/inst/doc_renamed |only tcltk2-1.0-7.1/tcltk2/inst/tklibs/Img1.3 |only tcltk2-1.0-7.1/tcltk2/inst/tklibs/Tktable2.9 |only tcltk2-1.0-7.1/tcltk2/inst/tklibs/tile0.7.2 |only tcltk2-1.0-7.1/tcltk2/inst/tklibs/tkdnd2.0 |only tcltk2-1.0-7.1/tcltk2/inst/tklibs/tktextplus0.1 |only tcltk2-1.0-7.1/tcltk2/inst/tklibs/treectrl2.2.3 |only tcltk2-1.0-7.1/tcltk2/inst/tklibs/winico0.6 |only tcltk2-1.0-7.1/tcltk2/src_torework |only tcltk2-1.0-7.1/tcltk2/trials&demos |only tcltk2-1.0-8/tcltk2/BinaryFiles |only tcltk2-1.0-8/tcltk2/DESCRIPTION | 30 +++++++++--------- tcltk2-1.0-8/tcltk2/NEWS |only tcltk2-1.0-8/tcltk2/R/tk2fonts.R | 39 ++++++++++++------------ tcltk2-1.0-8/tcltk2/R/tk2widgets.R | 23 +++++++------- tcltk2-1.0-8/tcltk2/R/winSystemFonts.R | 8 +++- tcltk2-1.0-8/tcltk2/TODO | 13 ++++---- tcltk2-1.0-8/tcltk2/cleanup |only tcltk2-1.0-8/tcltk2/configure.win |only tcltk2-1.0-8/tcltk2/inst/doc |only tcltk2-1.0-8/tcltk2/win |only 23 files changed, 60 insertions(+), 53 deletions(-)
Author: Matthias Burger
Title: R Unit test framework
Description: R functions implementing a standard Unit Testing
framework, with additional code inspection and report
generation tools
Diff between RUnit versions 0.4.21 dated 2009-01-15 and 0.4.22 dated 2009-04-24
ChangeLog | 416 ++++++++++ DESCRIPTION | 30 NAMESPACE | 5 NEWS | 14 R/00Init.r | 7 R/checkFuncs.r | 59 - R/exportHTML.r | 157 +-- R/html.r | 105 +- R/htmlProtocol.r | 8 R/inspector.r | 110 +- R/runit.r | 65 + R/testLogger.r | 44 - R/textProtocol.r | 12 inst/doc/RUnit.Rnw | 38 inst/doc/RUnit.dvi |binary inst/doc/RUnit.pdf |binary inst/doc/RUnit.ps | 1367 ++++++++++++--------------------- inst/doc/RUnit.tex | 30 inst/examples/correctTestCase.r | 32 inst/examples/runitVirtualClassTest.r | 11 inst/examples/runitVirtualClassTest2.r |only inst/share/R/checkCode.r | 7 inst/share/R/compareRUnitTestData.r | 19 man/RUnit-internal.Rd | 18 man/RUnit-intro.Rd | 18 man/checkFuncs.Rd | 33 man/inspect.Rd | 26 man/printHTML.trackinfo.Rd | 11 man/runit.Rd | 43 - man/textProtocol.Rd | 40 man/tracker.Rd | 13 tests/runitHTMLProtocol.r | 7 tests/runitInspect.r | 157 +++ tests/runitPlotConnection.r | 7 tests/runitRUnit.r | 7 tests/runitS4.r | 8 tests/runitSetUp.r | 7 tests/runitTearDown.r | 7 tests/runitTextProtocol.r | 7 39 files changed, 1644 insertions(+), 1301 deletions(-)
Author: Volodymyr Melnykov
Title: Simulating Data to Study Performance of Clustering Algorithms.
Description: MixSim
Diff between MixSim versions 0.1-01 dated 2009-04-22 and 0.1-02 dated 2009-04-23
MixSim-0.1-01/MixSim/libQF.c |only MixSim-0.1-02/MixSim/DESCRIPTION | 8 ++++---- MixSim-0.1-02/MixSim/R/zzz.R |only MixSim-0.1-02/MixSim/fixed.txt | 4 ++-- MixSim-0.1-02/MixSim/log.txt | 3 +++ MixSim-0.1-02/MixSim/src/Makevars | 2 +- 6 files changed, 10 insertions(+), 7 deletions(-)
Author: Tyler Kendall and Erik R. Thomas
Title: Vowel Manipulation, Normalization, and Plotting
Description: vowels is an R package for the manipulation,
normalization, and plotting of phonetic and sociophonetic vowel
formant data. vowels is the backend for the NORM website.
Diff between vowels versions 1.0-1 dated 2009-03-20 and 1.0-2 dated 2009-04-23
DESCRIPTION | 8 ++++---- R/vowels.R | 37 ++++++++++++++++++++++++++----------- man/vowelplot.Rd | 26 +++++++++++++++++--------- man/vowels-package.Rd | 4 ++-- 4 files changed, 49 insertions(+), 26 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 1.1-2 dated 2009-01-22 and 1.1-3 dated 2009-04-23
DESCRIPTION | 18 ++++++++++++------ NAMESPACE | 2 +- R/complexity.mincv.CoxBoost.R | 3 +-- R/ipec.R |only R/peperr.R | 22 +++++++++++----------- R/pmpec.R | 2 +- changeLog | 3 +++ man/ipec.Rd |only man/peperr.Rd | 4 ++-- man/perr.Rd | 5 +++-- man/pmpec.Rd | 5 +++-- 11 files changed, 37 insertions(+), 27 deletions(-)
Author: Andrew Gelman
Title: Missing Data Imputation and Model Checking
Description: Missing-data imputation and model checking
Diff between mi versions 0.06-4.01 dated 2009-04-21 and 0.06-5 dated 2009-04-23
CHANGELOG | 5 +++ DESCRIPTION | 8 ++-- R/AllInternal.R | 74 +++++++++++++++++++++++++++++++--------------- R/mi.R | 90 +++++++++++++++++++++++++++++--------------------------- R/mi.info.R | 53 ++++++++++++++++++-------------- R/mi.polr.R | 8 ++++ man/mi.polr.Rd | 2 - 7 files changed, 145 insertions(+), 95 deletions(-)
Author: Gregory R. Warnes. Includes R source code and/or documentation
contributed by (in alphabetical order): Ben Bolker, Lodewijk
Bonebakker, Robert Gentleman, Wolfgang Huber Andy Liaw, Thomas
Lumley, Martin Maechler, Arni Magnusson, Steffen Moeller, Marc
Schwartz, Bill Venables
Title: Various R programming tools for plotting data
Description: Various R programming tools for plotting data
Diff between gplots versions 2.6.0 dated 2008-04-09 and 2.7.0 dated 2009-04-23
ChangeLog | 919 +++++++++++++++++++++++++++-------------------------- DESCRIPTION | 19 - NAMESPACE | 6 NEWS | 34 + R/balloonplot.R | 120 ++++-- R/bandplot.R | 36 +- R/plot.lm.R | 17 R/venn.R |only TODO |only inst/ChangeLog | 919 +++++++++++++++++++++++++++-------------------------- inst/NEWS | 34 + inst/TODO |only man/balloonplot.Rd | 15 man/bandplot.Rd | 6 man/barplot2.Rd | 4 man/ooplot.Rd | 2 man/plot.lm2.Rd | 47 +- man/space.Rd | 2 man/venn.Rd |only 19 files changed, 1197 insertions(+), 983 deletions(-)
Author: John Fox
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.
Diff between effects versions 2.0-5 dated 2009-04-15 and 2.0-6 dated 2009-04-23
DESCRIPTION | 11 +++++------ R/effects.R | 5 +++-- R/plot-summary-print-methods.R | 17 ++++++++++------- inst/CHANGES | 8 ++++++++ man/effects-package.Rd |only 5 files changed, 26 insertions(+), 15 deletions(-)
Author: John Fox
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.
Diff between car versions 1.2-13 dated 2009-04-03 and 1.2-14 dated 2009-04-23
DESCRIPTION | 8 ++++---- data/Chile.rda |binary inst/CHANGES | 5 +++++ man/car-package.Rd | 4 ++-- 4 files changed, 11 insertions(+), 6 deletions(-)
More information about Multiclasstesting at CRAN
Permanent link
Author: Eric Aldrich
Title: A package of funtions for computing wavelet filters, wavelet
transforms and multiresolution analyses
Description: This package contains functions for computing and plotting
discrete wavelet transforms (DWT) and maximal overlap discrete
wavelet transforms (MODWT), as well as their inverses.
Additionally, it contains functionality for computing and
plotting wavelet transform filters that are used in the above
decompositions as well as multiresolution analyses.
Diff between wavelets versions 0.2-3 dated 2007-08-02 and 0.2-4 dated 2009-04-22
DESCRIPTION | 29 ++++++++++++------------ R/dwt.R | 2 - R/plot.dwt.R | 5 +++- R/plot.modwt.R | 2 - R/wt.filter.R | 54 ++++++++++++++++++++++++---------------------- R/wt.filter.shift.R | 12 +++++++--- man/figure98.wt.filter.Rd | 2 - man/plot.dwt.multiple.Rd | 2 - man/plot.modwt.Rd | 2 - 9 files changed, 62 insertions(+), 48 deletions(-)
Author: Benjamin Haibe-Kains, Christos Sotiriou, Gianluca Bontempi
Title: Performance Assessment and Comparison for Survival Analysis
Description: R package providing functions to assess and to compare the
performance of risk prediction (survival) models.
Diff between survcomp versions 1.0 dated 2009-02-09 and 1.1.0 dated 2009-04-22
DESCRIPTION | 16 ++++++++++------ man/getsurv2.Rd | 2 +- man/survcomp-package.Rd | 6 +++--- 3 files changed, 14 insertions(+), 10 deletions(-)
Author: Heloise Lavigne and Aurelien Proye and Jean-Pierre Gattuso.
Portions of code and/or corrections were contributed by
Jean-Marie Epitalon, Andreas Hofmann, 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 2.0.8 dated 2009-04-17 and 2.1 dated 2009-04-22
ChangeLog | 20 ++++++- DESCRIPTION | 10 +-- R/K1.R | 18 +++++-- R/K1p.R | 18 +++++-- R/K2.R | 17 +++++- R/K2p.R | 19 +++++-- R/K3p.R | 18 +++++-- R/Kb.R | 20 ++++++- R/Kf.R | 16 +++++- R/Khs.R | 18 +++++-- R/Kn.R | 18 +++++-- R/Ksi.R | 19 ++++++- R/Kw.R | 19 ++++++- R/buffer.R | 38 ++++++++++---- R/carb.R | 132 ++++++++-------------------------------------------- R/kconv.R | 4 - R/pCa.R | 4 - R/pHconv.R | 53 ++++++++++++++------ R/pTA.R | 12 ++-- R/pgas.R | 6 +- R/phinsi.R | 6 +- R/pmix.R | 8 +-- R/ppH.R | 116 ++------------------------------------------- R/psi.R |only man/K1.Rd | 9 +-- man/K1p.Rd | 5 + man/K2.Rd | 8 +-- man/K2p.Rd | 3 - man/K3p.Rd | 5 + man/Kb.Rd | 7 +- man/Kf.Rd | 10 ++- man/Khs.Rd | 9 +-- man/Kn.Rd | 9 +-- man/Ks.Rd | 2 man/Ksi.Rd | 9 +-- man/Kw.Rd | 7 +- man/buffer.Rd | 21 +++++--- man/carb.Rd | 19 +++++-- man/pCa.Rd | 21 ++++---- man/pHconv.Rd | 43 +++++++++++----- man/pTA.Rd | 9 ++- man/pgas.Rd | 7 +- man/phinsi.Rd | 6 +- man/pmix.Rd | 7 +- man/ppH.Rd | 13 +++-- man/psi.Rd |only man/seacarb_test.Rd | 19 ++++--- 47 files changed, 457 insertions(+), 400 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 1.0.2 dated 2009-03-04 and 1.0.3 dated 2009-04-22
CHANGES | 5 +++ DESCRIPTION | 26 ++++++++++-------- R/tableContinuous.R | 59 +++++++++++++++++++++++++++++++----------- R/tableDate.R | 62 ++++++++++++++++++++++++++++++++++----------- R/tableNominal.R | 42 +++++++++++++++++++++++------- man/NAtoCategory.Rd | 2 - man/checkDateSuccession.Rd | 2 - man/disp.Rd | 2 - man/displayCI.Rd | 2 - man/displayKbyC.Rd | 2 - man/eliminateNA.Rd | 2 - man/reporttools-package.Rd | 8 ++--- man/tableContinuous.Rd | 49 ++++++++++++++++++++++------------- man/tableDate.Rd | 35 ++++++++++++++++--------- man/tableNominal.Rd | 28 +++++++++++++------- man/transformVarNames.Rd | 2 - man/varNamesToChar.Rd | 2 - 17 files changed, 228 insertions(+), 102 deletions(-)
Author: Berend Hasselman
Title: Solve systems of non linear equations
Description: Solve a system of non linear equations using a Broyden or
a Newton method with a choice of global strategies such as
linesearch and trust region. There are options for using a
numerical or an analytical jacobian and fixed or automatic
scaling of parameters.
Diff between nleqslv versions 1.3 dated 2009-03-22 and 1.4 dated 2009-04-22
DESCRIPTION | 10 +++++----- NEWS | 5 +++++ src/nleqslv.c | 3 ++- src/nwnleq.f | 2 +- src/nwnwtn.f | 4 ++-- 5 files changed, 15 insertions(+), 9 deletions(-)
Author: Simon Wood
Title: GAMs with GCV/AIC/REML smoothness estimation and GAMMs by PQL
Description: Routines for GAMs and other generalized ridge regression
with multiple smoothing parameter selection by GCV, REML or
UBRE/AIC. Also GAMMs by REML or PQL. Includes a gam() function.
Diff between mgcv versions 1.5-2 dated 2009-03-26 and 1.5-3 dated 2009-04-22
DESCRIPTION | 8 ++++---- R/gam.fit3.r | 2 +- R/mgcv.r | 13 +++++++++---- changeLog | 14 +++++++++++--- 4 files changed, 25 insertions(+), 12 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 1.1-0 dated 2009-03-27 and 1.1-1 dated 2009-04-22
DESCRIPTION | 6 ++-- R/family.R | 18 ++++++++++++ R/xsp.R | 18 ++++-------- inst/CHANGES | 6 ++++ inst/India_quantiles.R |only inst/analysis.R |only inst/doc/SurvivalEnsembles.pdf |binary inst/doc/mboost_illustrations.pdf |binary inst/india.Rdata |only inst/india.raw |only inst/india_fit.R |only inst/india_helpfunc.R |only inst/india_preproc.R |only man/Family.Rd | 15 ++++++++++ tests/bugfixes.R | 11 ++++++- tests/bugfixes.Rout.save | 51 ++++++++++++++++++++++++++++++++--- tests/codetools-checks.Rout.save | 2 - tests/mboost_illustrations.Rout.save | 2 - tests/regtest-blackboost.Rout.save | 2 - tests/regtest-gamboost.Rout.save | 2 - tests/regtest-glmboost.Rout.save | 2 - tests/regtest-hatmatrix.Rout.save | 2 - tests/setup.Rout.save |only to_do_list.txt | 2 + 24 files changed, 114 insertions(+), 25 deletions(-)
Author: Holger Froehlich
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.
Diff between gene2pathway versions 1.0.5.3 dated 2008-12-08 and 1.0.5.4 dated 2009-04-22
DESCRIPTION | 33 ++++++++++++++++++++++++--------- R/gene2pathway.signaltrans.R | 9 +++++---- inst/doc/gene2pathway.Rnw | 2 +- inst/doc/gene2pathway.pdf |binary man/classificationModel.Rd | 18 ++++++++++-------- man/classificationModelSignalTrans.Rd | 22 +++++++++++++--------- 6 files changed, 53 insertions(+), 31 deletions(-)
Author: Seija Sirkia, Klaus Nordhausen, Hannu Oja
Title: Multivariate nonparametric methods based on spatial signs and
ranks
Description: This package contains test and estimates of location,
tests of independence, tests of sphericity and several
estimates of shape all based on spatial signs, symmetrized
signs, ranks and signed ranks.
Diff between SpatialNP versions 0.9.1 dated 2009-02-23 and 1.00 dated 2009-04-22
SpatialNP-0.9.1/SpatialNP/R/sr.regression.R |only SpatialNP-0.9.1/SpatialNP/man/sr.regression.Rd |only SpatialNP-1.00/SpatialNP/DESCRIPTION | 22 + SpatialNP-1.00/SpatialNP/NAMESPACE | 43 +-- SpatialNP-1.00/SpatialNP/R/signrankinternals.R | 236 ++++++++---------- SpatialNP-1.00/SpatialNP/R/spatial.signrank.R | 5 SpatialNP-1.00/SpatialNP/R/sr.loc.test.R | 275 +++++++++++----------- SpatialNP-1.00/SpatialNP/man/SRCov.Rd | 2 SpatialNP-1.00/SpatialNP/man/SpatialNP-package.Rd | 21 - SpatialNP-1.00/SpatialNP/man/independencetests.Rd | 2 SpatialNP-1.00/SpatialNP/man/locationtests.Rd | 2 SpatialNP-1.00/SpatialNP/man/shapematrices.Rd | 10 SpatialNP-1.00/SpatialNP/man/spatial.location.Rd | 4 SpatialNP-1.00/SpatialNP/man/spatialsignsranks.Rd | 6 SpatialNP-1.00/SpatialNP/man/sphericitytests.Rd | 2 SpatialNP-1.00/SpatialNP/man/to.shape.Rd | 12 16 files changed, 312 insertions(+), 330 deletions(-)
Author: Cyril Piou
Title: Pattern Oriented Modelling Information Criterion
Description: This package propose calculations of an information
criterion to check the quality of simulations results of
ABM/IBM or other non-linear rule-based models. The POMDEV
measure is based on the KL divergence and likelihood theory. It
basically indicates the deviance of simulation results from
field observations. Once POMDEV scores and metropolis-hasting
sampling on different model versions are effectuated, POMIC
scores can be calculated. This method is still under
development and further work are needed for the incorporation
of multiple patterns assessment.
Diff between Pomic versions 0.9.1 dated 2008-08-22 and 0.9.2 dated 2009-04-22
Pomic-0.9.1/Pomic/R/analyse.pomics.R |only Pomic-0.9.1/Pomic/R/pomic.R |only Pomic-0.9.1/Pomic/R/pomic.corrected.r |only Pomic-0.9.1/Pomic/R/pomic.simple.r |only Pomic-0.9.1/Pomic/R/pomic.timeseries.r |only Pomic-0.9.1/Pomic/R/summarize.parameters.R |only Pomic-0.9.1/Pomic/R/summarize.pomics.r |only Pomic-0.9.1/Pomic/man/analyse.pomics.Rd |only Pomic-0.9.1/Pomic/man/pomic.Rd |only Pomic-0.9.1/Pomic/man/pomic.corrected.rd |only Pomic-0.9.1/Pomic/man/pomic.simple.rd |only Pomic-0.9.1/Pomic/man/pomic.timeseries.rd |only Pomic-0.9.1/Pomic/man/summarize.parameters.Rd |only Pomic-0.9.1/Pomic/man/summarize.pomics.Rd |only Pomic-0.9.2/Pomic/DESCRIPTION | 33 ++++++++----- Pomic-0.9.2/Pomic/INDEX |only Pomic-0.9.2/Pomic/NEWS | 8 +++ Pomic-0.9.2/Pomic/R/pomdev.corrected.r |only Pomic-0.9.2/Pomic/R/pomdev.extra.R |only Pomic-0.9.2/Pomic/R/pomdev.r |only Pomic-0.9.2/Pomic/demo |only Pomic-0.9.2/Pomic/inst |only Pomic-0.9.2/Pomic/man/Pomic-package.Rd | 65 +++++++++++--------------- Pomic-0.9.2/Pomic/man/pomdev.corrected.rd |only Pomic-0.9.2/Pomic/man/pomdev.extra.Rd |only Pomic-0.9.2/Pomic/man/pomdev.rd |only 26 files changed, 58 insertions(+), 48 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 1.0-1 dated 2008-03-29 and 1.0-2 dated 2009-04-22
DESCRIPTION | 24 ++++++++++++++---------- inst/CHANGES | 3 +++ man/JADE-package.Rd | 4 ++-- man/JADE.Rd | 3 ++- 4 files changed, 21 insertions(+), 13 deletions(-)
Author: Klaus Nordhausen, Seija Sirkia, Hannu Oja, David E. Tyler
Title: Tools for Multivariate Nonparametrics
Description: Tools for multivariate nonparametrics, as location tests
based on marginal ranks, spatial median and spatial signs
computation, Hotelling's T-test, estimates of shape
Diff between ICSNP versions 1.0-2 dated 2007-12-31 and 1.0-3 dated 2009-04-22
DESCRIPTION | 28 ++++++++++++++++------------ NAMESPACE | 2 +- R/HR.Mest.R | 2 +- R/center.step.R | 3 +-- R/pair.diff.R | 2 -- R/pair.prod.R |only R/pair.sum.R |only inst/CHANGES | 6 ++++++ man/HP1.shape.Rd | 3 ++- man/HR.Mest.Rd | 23 ++++++++++++----------- man/ICSNP-package.Rd | 4 ++-- man/duembgen.shape.Rd | 2 +- man/pair.diff.Rd |only man/pair.prod.Rd |only man/pair.sum.Rd |only man/rank.ictest.Rd | 2 +- man/spatial.median.Rd | 2 +- man/spatial.sign.Rd | 2 +- man/tyler.shape.Rd | 2 +- src/icsnp.cpp | 15 +++++++++++++++ 20 files changed, 61 insertions(+), 37 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 1.2-0 dated 2008-10-30 and 1.2-1 dated 2009-04-22
DESCRIPTION | 35 NAMESPACE | 2 R/cov4.wt.R |only inst/CHANGES | 5 inst/CITATION | 2 inst/doc/ICS.pdf |12953 ++++++++++++++++++++++++++++++++++++++++++++++++---- inst/doc/Rplots.pdf |11645 +++++++++++++++++++++++++++++++++++++++++++++- man/ICS-package.Rd | 4 man/cov4.wt.Rd |only man/covAxis.Rd | 2 man/ics.Rd | 4 11 files changed, 23533 insertions(+), 1119 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 0.4-2 dated 2009-02-23 and 0.4-3 dated 2009-04-21
DESCRIPTION | 22 ++++++++++++---------- inst/CITATION |only inst/doc/GNU.pdf |only inst/doc/GNU.ps |only inst/doc/Rnewspage27.pdf |only inst/doc/blueify.R |only inst/doc/blueshade.R |only inst/doc/chess_game_01.fromInkscape.eps |only inst/doc/chessmod.txt |only inst/doc/circleRas.pdf |only inst/doc/circleVec.pdf |only inst/doc/convert.ps |only inst/doc/fiddledplot.pdf |only inst/doc/fillrule.pdf |only inst/doc/flower.ps |only inst/doc/hello.pdf |only inst/doc/hello.ps |only inst/doc/helloclip.pdf |only inst/doc/import.Rnw |only inst/doc/import.bib |only inst/doc/import.pdf |only inst/doc/jss.bst |only inst/doc/jss.cls |only inst/doc/page27.ps |only inst/doc/patternclip.pdf |only inst/doc/petal.ps |only inst/doc/seqlogo.pdf |only inst/doc/tiger.ps |only 28 files changed, 12 insertions(+), 10 deletions(-)
Author: Arni Magnusson and Ian Stewart
Title: MCMC diagnostic plots
Description: Markov-chain Monte Carlo diagnostic plots, accompanying
the 'scape' package. The purpose of the package is to combine
existing tools from the 'coda' and 'lattice' packages, and make
it easy to adjust graphical details. It can be useful for
anyone using MCMC analysis, regardless of the application.
Diff between scapeMCMC versions 1.0-3 dated 2007-09-30 and 1.0-4 dated 2009-04-21
DESCRIPTION | 34 ++++++++++++++++++---------------- inst/CHANGES | 33 +++++++++++++++++++-------------- inst/doc |only man/importMCMC.Rd | 8 ++++---- man/importProj.Rd | 8 ++++---- man/scapeMCMC-package.Rd | 13 +++++++++---- man/xmcmc.Rd | 12 ++++++------ man/xproj.Rd | 12 ++++++------ 8 files changed, 66 insertions(+), 54 deletions(-)
Author: Arni Magnusson
Title: Statistical catch-at-age plotting environment
Description: Import and plot results from statistical catch-at-age
models, used in fisheries stock assessments.
Diff between scape versions 1.0-8 dated 2007-09-30 and 1.0-9 dated 2009-04-21
DESCRIPTION | 28 R/importCol.R | 2 R/plotB.R | 2 R/plotCA.R | 6 R/plotCL.R | 6 R/plotLA.R | 4 R/plotSel.R | 4 inst/CHANGES | 174 - inst/doc/dsc.pdf | 8867 ++++++++++++++++++++++++++++++++------------------- inst/doc/mymodel.txt | 2 man/importCol.Rd | 10 man/scape-package.Rd | 18 man/x.cod.Rd | 16 man/x.ling.Rd | 20 man/x.oreo.Rd | 22 man/x.sbw.Rd | 22 16 files changed, 5856 insertions(+), 3347 deletions(-)
Author: Hadley Wickham
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. For example, you might want to fit a model to each
spatial location or time point in your study, summarise data by
panels or collapse high-dimensional arrays to simpler summary
statistics.
Diff between plyr versions 0.1.7 dated 2009-04-15 and 0.1.8 dated 2009-04-21
DESCRIPTION | 6 +++--- NEWS | 5 +++++ R/rbind.r | 40 +++++++++++++++++++++++----------------- R/simplify-array.r | 3 ++- 4 files changed, 33 insertions(+), 21 deletions(-)
Author: Andrew Gelman
Title: Missing Data Imputation and Model Checking
Description: Missing-data imputation and model checking
Diff between mi versions 0.06-2 dated 2009-04-19 and 0.06-4.01 dated 2009-04-21
DESCRIPTION | 8 ++++---- R/AllInternal.R | 42 +++++++++++++++++++++++++++--------------- R/mi.R | 48 ++++++++++++++++++++++++++++++++++++++++++++---- R/mi.info.R | 6 +++--- man/mi.info.Rd | 3 --- 5 files changed, 78 insertions(+), 29 deletions(-)
Author: Arni Magnusson
Title: Interface between GMT map-making software and R
Description: Interface between the GMT map-making software and R,
enabling the user to manipulate geographic data within R and
call GMT commands to draw and annotate maps in postscript
format. The 'gmt' package is about interactive data analysis,
rapidly visualizing subsets and summaries of geographic data,
while performing statistical analysis in the R console.
Diff between gmt versions 1.1-2 dated 2007-09-30 and 1.1-3 dated 2009-04-21
DESCRIPTION | 35 +++++++++++---------- inst/CHANGES | 87 ++++++++++++++++++++++++++--------------------------- man/deg2num.Rd | 4 +- man/gmt-package.Rd | 30 +++++++++--------- man/gmt.Rd | 18 ++++------ man/gmt.demo.Rd | 4 +- man/gmt.system.Rd | 2 - man/num2deg.Rd | 4 +- man/psbar.Rd | 12 +++---- man/psclose.Rd | 25 ++++++--------- man/pscoast.Rd | 8 ++-- man/pstext.Rd | 13 +++---- man/psxy.Rd | 13 +++---- man/r2gmt.Rd | 9 ++--- 14 files changed, 129 insertions(+), 135 deletions(-)
Author: Karline Soetaert
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
Diff between limSolve versions 1.4 dated 2009-04-15 and 1.5 dated 2009-04-20
limSolve-1.4/limSolve/inst/doc/Mirrortechnique-fig01.pdf |only limSolve-1.4/limSolve/inst/doc/jss.bst |only limSolve-1.4/limSolve/inst/doc/jss.cls |only limSolve-1.5/limSolve/DESCRIPTION | 12 limSolve-1.5/limSolve/inst/CITATION |only limSolve-1.5/limSolve/inst/doc/JSS-373-fig1.pdf |only limSolve-1.5/limSolve/inst/doc/JSS-373-fig2.pdf |only limSolve-1.5/limSolve/inst/doc/limSolve.pdf |84401 +++++++-------- limSolve-1.5/limSolve/inst/doc/limSolve.rnw | 39 limSolve-1.5/limSolve/inst/doc/vignettes.bib | 189 limSolve-1.5/limSolve/inst/doc/xsample.pdf |binary limSolve-1.5/limSolve/inst/doc/xsample.rnw | 843 limSolve-1.5/limSolve/man/limSolve.rd | 8 limSolve-1.5/limSolve/man/xsample.Rd | 6 14 files changed, 42914 insertions(+), 42584 deletions(-)
Author: Hadley Wickham
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.
Diff between ggplot2 versions 0.8.2 dated 2009-02-25 and 0.8.3 dated 2009-04-20
ggplot2-0.8.2/ggplot2/R/guides-strip.r |only ggplot2-0.8.2/ggplot2/R/utilities-geoms.r |only ggplot2-0.8.2/ggplot2/man/calc-aesthetics-5l.rd |only ggplot2-0.8.2/ggplot2/man/labels-default-fs.rd |only ggplot2-0.8.3/ggplot2/ANNOUNCE | 3 ggplot2-0.8.3/ggplot2/CHANGELOG | 42 ++ ggplot2-0.8.3/ggplot2/DESCRIPTION | 61 ++- ggplot2-0.8.3/ggplot2/NEWS | 65 +-- ggplot2-0.8.3/ggplot2/R/aaa-html.r | 23 - ggplot2-0.8.3/ggplot2/R/aes.r | 22 + ggplot2-0.8.3/ggplot2/R/annotation.r |only ggplot2-0.8.3/ggplot2/R/facet-grid-.r | 202 +++++----- ggplot2-0.8.3/ggplot2/R/facet-labels.r |only ggplot2-0.8.3/ggplot2/R/facet-wrap.r | 163 ++++---- ggplot2-0.8.3/ggplot2/R/fortify-map.r | 2 ggplot2-0.8.3/ggplot2/R/fortify-spatial.r |only ggplot2-0.8.3/ggplot2/R/fortify.r | 9 ggplot2-0.8.3/ggplot2/R/geom-.r | 5 ggplot2-0.8.3/ggplot2/R/geom-abline.r | 16 ggplot2-0.8.3/ggplot2/R/geom-bar-.r | 31 - ggplot2-0.8.3/ggplot2/R/geom-bar-histogram.r | 17 ggplot2-0.8.3/ggplot2/R/geom-bin2d.r | 2 ggplot2-0.8.3/ggplot2/R/geom-boxplot.r | 8 ggplot2-0.8.3/ggplot2/R/geom-crossbar.r | 2 ggplot2-0.8.3/ggplot2/R/geom-error.r | 11 ggplot2-0.8.3/ggplot2/R/geom-errorh.r |only ggplot2-0.8.3/ggplot2/R/geom-hex.r | 5 ggplot2-0.8.3/ggplot2/R/geom-hline.r | 25 - 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ggplot2-0.8.3/ggplot2/man/stat_sum.rd | 4 ggplot2-0.8.3/ggplot2/man/stat_summary.rd | 20 ggplot2-0.8.3/ggplot2/man/wrap-hmisc-hc.rd | 15 ggplot2-0.8.3/ggplot2/templates/qplot.html | 2 170 files changed, 1230 insertions(+), 824 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 1.0-6 dated 2008-12-17 and 1.0-7 dated 2009-04-20
DESCRIPTION | 38 ++++++++++++++++++++++++++------------ NAMESPACE |only R/graph.freq.R | 4 ++-- R/plot.graph.freq.R |only R/summary.graph.freq.R |only R/table.freq.R | 8 ++++---- man/agricolae.package.Rd | 4 ++-- man/cv.model.Rd | 2 +- man/design.bib.Rd | 2 +- man/index.bio.Rd | 4 +++- man/index.smith.Rd | 2 +- man/kurtosis.Rd | 6 ------ man/plot.graph.freq.Rd |only man/skewness.Rd | 6 ------ man/summary.graph.freq.Rd |only man/table.freq.Rd | 8 ++++---- 16 files changed, 44 insertions(+), 40 deletions(-)
Author: Vinzenz Erhardt
Title: Zero Inflated Generalized Poisson (ZIGP) regression models
Description: Fit, analyze and compare GP, ZIP and ZIGP regression
models
Diff between ZIGP versions 3.3 dated 2009-03-09 and 3.4 dated 2009-04-20
DESCRIPTION | 13 + R/est.zigp.r | 326 +++++++++++++++++++++++++++---------------------- R/gradient.r | 2 R/gradient1.r | 2 R/mle.zigp.full.like.r | 2 R/mle.zigp.r | 195 ++++++++++++++++------------- man/ZIGP-package.rd | 4 man/est.zigp.rd | 25 +-- man/mle.zigp.rd | 55 ++++---- 9 files changed, 349 insertions(+), 275 deletions(-)
Author: Rory Michelland
Title: StatFingerprints
Description: processing and statistical analysis of molecular
fingerprint profiles
Diff between StatFingerprints versions 1.2.1 dated 2009-02-23 and 1.3 dated 2009-04-20
StatFingerprints-1.2.1/StatFingerprints/R/StatFingerprints.R |only StatFingerprints-1.2.1/StatFingerprints/R/align.R |only StatFingerprints-1.2.1/StatFingerprints/R/alignGUI.R |only StatFingerprints-1.2.1/StatFingerprints/R/askquitGUI.R |only StatFingerprints-1.2.1/StatFingerprints/R/baselineGUI.R |only StatFingerprints-1.2.1/StatFingerprints/R/best.nmdsGUI.R |only StatFingerprints-1.2.1/StatFingerprints/R/best.ordinationGUI.R |only StatFingerprints-1.2.1/StatFingerprints/R/ffcorGUI.R |only StatFingerprints-1.2.1/StatFingerprints/R/globalanosimGUI.R |only StatFingerprints-1.2.1/StatFingerprints/R/iterative.testGUI.R |only StatFingerprints-1.2.1/StatFingerprints/R/loadGUI.R |only StatFingerprints-1.2.1/StatFingerprints/R/normalisationGUI.R |only StatFingerprints-1.2.1/StatFingerprints/R/pcaGUI.R |only StatFingerprints-1.2.1/StatFingerprints/R/plot2dGUI.R |only StatFingerprints-1.2.1/StatFingerprints/R/plot3dimGUI.R |only StatFingerprints-1.2.1/StatFingerprints/R/plotordGUI.R |only StatFingerprints-1.2.1/StatFingerprints/R/pwanosimGUI.R |only StatFingerprints-1.2.1/StatFingerprints/R/roxnewGUI.R |only StatFingerprints-1.2.1/StatFingerprints/R/saveGUI.R |only StatFingerprints-1.2.1/StatFingerprints/R/saveasGUI.R |only StatFingerprints-1.2.1/StatFingerprints/R/simperGUI.R |only StatFingerprints-1.2.1/StatFingerprints/R/trunckGUI.R |only StatFingerprints-1.2.1/StatFingerprints/R/withingroupvariabilityGUI.R |only StatFingerprints-1.2.1/StatFingerprints/Thumbs.db |only StatFingerprints-1.2.1/StatFingerprints/inst/Thumbs.db |only StatFingerprints-1.2.1/StatFingerprints/man/StatFingerprints-internal.Rd |only StatFingerprints-1.3/StatFingerprints/DESCRIPTION | 25 + StatFingerprints-1.3/StatFingerprints/R/StatFingerprints.r |only StatFingerprints-1.3/StatFingerprints/R/addGUI.R | 2 StatFingerprints-1.3/StatFingerprints/R/align.r |only StatFingerprints-1.3/StatFingerprints/R/alignGUI.r |only StatFingerprints-1.3/StatFingerprints/R/anovaGUI.r | 105 ++++--- StatFingerprints-1.3/StatFingerprints/R/askquitGUI.r |only StatFingerprints-1.3/StatFingerprints/R/baseline.R | 3 StatFingerprints-1.3/StatFingerprints/R/baselineGUI.r |only StatFingerprints-1.3/StatFingerprints/R/best.nmdsGUI.r |only StatFingerprints-1.3/StatFingerprints/R/best.ordinationGUI.r |only StatFingerprints-1.3/StatFingerprints/R/binaryGUI.r | 18 - StatFingerprints-1.3/StatFingerprints/R/change.nameGUI.R | 7 StatFingerprints-1.3/StatFingerprints/R/checkfact.r |only StatFingerprints-1.3/StatFingerprints/R/checkparam.r |only StatFingerprints-1.3/StatFingerprints/R/checkprofile.r |only StatFingerprints-1.3/StatFingerprints/R/convertGUI.r | 134 +++++---- StatFingerprints-1.3/StatFingerprints/R/correlationGUI.R | 3 StatFingerprints-1.3/StatFingerprints/R/delete.background.R | 2 StatFingerprints-1.3/StatFingerprints/R/delete.backgroundGUI.R | 44 +-- StatFingerprints-1.3/StatFingerprints/R/deleteGUI.R | 10 StatFingerprints-1.3/StatFingerprints/R/deletefactGUI.r | 143 ++++++---- StatFingerprints-1.3/StatFingerprints/R/dendoGUI.R | 4 StatFingerprints-1.3/StatFingerprints/R/des.univGUI.R | 5 StatFingerprints-1.3/StatFingerprints/R/ffcorGUI.r |only StatFingerprints-1.3/StatFingerprints/R/globalanosimGUI.r |only StatFingerprints-1.3/StatFingerprints/R/heat.mapGUI.R | 4 StatFingerprints-1.3/StatFingerprints/R/importGUI3.r | 3 StatFingerprints-1.3/StatFingerprints/R/iterative.test.R | 22 - StatFingerprints-1.3/StatFingerprints/R/iterative.testGUI.r |only StatFingerprints-1.3/StatFingerprints/R/loadGUI.r |only StatFingerprints-1.3/StatFingerprints/R/make.peak.r | 119 ++++---- StatFingerprints-1.3/StatFingerprints/R/make.peakGUI.r | 29 +- StatFingerprints-1.3/StatFingerprints/R/newrdata.r | 41 +- StatFingerprints-1.3/StatFingerprints/R/normalisation.R | 14 StatFingerprints-1.3/StatFingerprints/R/normalisationGUI.r |only StatFingerprints-1.3/StatFingerprints/R/pcaGUI.r |only StatFingerprints-1.3/StatFingerprints/R/permanovaGUI.r | 17 - StatFingerprints-1.3/StatFingerprints/R/plot2dGUI.r |only StatFingerprints-1.3/StatFingerprints/R/plot3dim.R | 2 StatFingerprints-1.3/StatFingerprints/R/plot3dimGUI.r |only StatFingerprints-1.3/StatFingerprints/R/plotord3dGUI.R | 3 StatFingerprints-1.3/StatFingerprints/R/plotordGUI.r |only StatFingerprints-1.3/StatFingerprints/R/pwanosim.R | 1 StatFingerprints-1.3/StatFingerprints/R/pwanosimGUI.r |only StatFingerprints-1.3/StatFingerprints/R/rollball.R | 2 StatFingerprints-1.3/StatFingerprints/R/roxdefault.R | 37 +- StatFingerprints-1.3/StatFingerprints/R/roxnewGUI.r |only StatFingerprints-1.3/StatFingerprints/R/saveGUI.r |only StatFingerprints-1.3/StatFingerprints/R/saveasGUI.r |only StatFingerprints-1.3/StatFingerprints/R/simper.R | 2 StatFingerprints-1.3/StatFingerprints/R/simperGUI.r |only StatFingerprints-1.3/StatFingerprints/R/trunck.r | 3 StatFingerprints-1.3/StatFingerprints/R/trunckGUI.r |only StatFingerprints-1.3/StatFingerprints/R/withingroupvariability.R | 2 StatFingerprints-1.3/StatFingerprints/R/withingroupvariabilityGUI.r |only StatFingerprints-1.3/StatFingerprints/inst/doc/StatFingerprintsUM.pdf |binary StatFingerprints-1.3/StatFingerprints/man/StatFingerprints-internal.rd |only StatFingerprints-1.3/StatFingerprints/man/StatFingerprints-package.rd | 4 85 files changed, 452 insertions(+), 358 deletions(-)
More information about StatFingerprints at CRAN
Permanent link
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 2100.82 dated 2009-04-17 and 2100.83 dated 2009-04-20
ChangeLog | 5 +++++ DESCRIPTION | 12 ++++++------ 2 files changed, 11 insertions(+), 6 deletions(-)
Author: Diethelm Wuertz
Title: Rmetrics - Portfolio Selection and Optimization
Description: Environment for teaching "Financial Engineering and
Computational Finance"
Diff between fPortfolio versions 2100.76 dated 2009-04-17 and 2100.77 dated 2009-04-20
ChangeLog | 21 +++++++++++++ DESCRIPTION | 14 ++++----- NAMESPACE | 1 R/efficientPortfolio.R | 75 ++++++++++++++++++++++++++++++++++++++++++++++--- R/methods-show.R | 22 +++++++------- R/portfolioSpec.R | 38 ++++++++++++++++++++++++ R/solveRglpk.R | 8 ++--- 7 files changed, 154 insertions(+), 25 deletions(-)
Author: Diethelm Wuertz, Yohan Chalabi, Michal Miklovic
Title: Rmetrics - Autoregressive Conditional Heteroskedastic Modelling
Description: Environment for teaching "Financial Engineering and
Computational Finance"
Diff between fGarch versions 290.77 dated 2009-04-16 and 2100.78 dated 2009-04-20
ChangeLog | 5 +++++ DESCRIPTION | 12 ++++++------ 2 files changed, 11 insertions(+), 6 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 290.75 dated 2009-04-16 and 2100.76 dated 2009-04-20
ChangeLog | 8 ++++++++ DESCRIPTION | 12 ++++++------ 2 files changed, 14 insertions(+), 6 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 290.76 dated 2009-04-16 and 2100.77 dated 2009-04-20
ChangeLog | 5 +++++ DESCRIPTION | 12 ++++++------ 2 files changed, 11 insertions(+), 6 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 2100.76 dated 2009-04-17 and 2100.77 dated 2009-04-20
ChangeLog | 5 +++++ DESCRIPTION | 12 ++++++------ 2 files changed, 11 insertions(+), 6 deletions(-)
Author: Mathieu Ribatet
Title: Modelling Spatial Extremes
Description: This package proposes several approaches for spatial
extremes modelling.
Diff between SpatialExtremes versions 1.1-1 dated 2009-02-23 and 1.2-0 dated 2009-04-20
ChangeLog | 125 +++ DESCRIPTION | 17 R/fitcovmat.R | 2 R/geomgauss.R | 4 R/gradients.R | 163 +++- R/spatgev.R | 48 + R/starting.values.R | 2 inst/doc/SpatialExtremesGuide.pdf | 1373 ++++++++++++++++++-------------------- src/covariance.c | 121 +-- src/fitcovmat.c | 27 src/geomgauss.c | 2 src/gradients.c | 1176 +++++++++++++++++++------------- src/header.h | 6 src/nsgeomgauss.c | 2 src/pairwiselik.c | 73 -- src/schlather.c | 7 src/schlatherind.c | 4 src/smith.c | 2 src/smith3d.c | 2 src/spatgevlik.c | 10 src/univllik.c | 4 src/utils.c | 8 22 files changed, 1859 insertions(+), 1319 deletions(-)
More information about SpatialExtremes at CRAN
Permanent link
Author: Douglas Bates
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.
Diff between Matrix versions 0.999375-23 dated 2009-03-31 and 0.999375-25 dated 2009-04-19
Matrix-0.999375-23/Matrix/src/Makevars.win |only Matrix-0.999375-23/Matrix/src/scripts/Win.mk |only Matrix-0.999375-25/Matrix/ChangeLog | 43 + Matrix-0.999375-25/Matrix/DESCRIPTION | 11 Matrix-0.999375-25/Matrix/Done | 1 Matrix-0.999375-25/Matrix/NAMESPACE | 35 - Matrix-0.999375-25/Matrix/R/AllGeneric.R | 3 Matrix-0.999375-25/Matrix/R/Auxiliaries.R | 58 + Matrix-0.999375-25/Matrix/R/Csparse.R | 3 Matrix-0.999375-25/Matrix/R/Matrix.R | 48 - Matrix-0.999375-25/Matrix/R/Ops.R | 19 Matrix-0.999375-25/Matrix/R/Tsparse.R | 106 +-- Matrix-0.999375-25/Matrix/R/dgTMatrix.R | 11 Matrix-0.999375-25/Matrix/R/dgeMatrix.R | 4 Matrix-0.999375-25/Matrix/R/diagMatrix.R | 15 Matrix-0.999375-25/Matrix/R/dtpMatrix.R | 2 Matrix-0.999375-25/Matrix/R/kronecker.R | 6 Matrix-0.999375-25/Matrix/R/lgTMatrix.R | 3 Matrix-0.999375-25/Matrix/R/ngTMatrix.R | 3 Matrix-0.999375-25/Matrix/R/sparseMatrix.R | 20 Matrix-0.999375-25/Matrix/R/sparseVector.R | 24 Matrix-0.999375-25/Matrix/R/zzz.R | 22 Matrix-0.999375-25/Matrix/inst/doc/Comparisons.pdf |binary Matrix-0.999375-25/Matrix/inst/doc/Design-issues.pdf |binary Matrix-0.999375-25/Matrix/inst/doc/Intro2Matrix.pdf | 583 +++++++++---------- Matrix-0.999375-25/Matrix/inst/doc/Introduction.pdf |binary Matrix-0.999375-25/Matrix/inst/doc/sparseModels.pdf |binary Matrix-0.999375-25/Matrix/inst/test-tools.R | 79 -- Matrix-0.999375-25/Matrix/man/Matrix-class.Rd | 7 Matrix-0.999375-25/Matrix/man/bandSparse.Rd | 6 Matrix-0.999375-25/Matrix/man/dgeMatrix-class.Rd | 2 Matrix-0.999375-25/Matrix/man/lu.Rd | 16 Matrix-0.999375-25/Matrix/man/sparseMatrix-class.Rd | 3 Matrix-0.999375-25/Matrix/man/sparseMatrix.Rd | 5 Matrix-0.999375-25/Matrix/man/sparseVector-class.Rd | 2 Matrix-0.999375-25/Matrix/src/dgeMatrix.c | 2 Matrix-0.999375-25/Matrix/tests/Simple.R | 16 Matrix-0.999375-25/Matrix/tests/bind.Rout.save | 16 Matrix-0.999375-25/Matrix/tests/dg_Matrix.R | 5 Matrix-0.999375-25/Matrix/tests/indexing.R | 47 + Matrix-0.999375-25/Matrix/tests/indexing.Rout.save | 411 +++---------- 41 files changed, 736 insertions(+), 901 deletions(-)
Author: Nicholas L. Crookston
Title: yaImpute: An R Package for k-NN Imputation
Description: Performs popular nearest neighbor routines for imputation
Diff between yaImpute versions 1.0-8 dated 2009-02-06 and 1.0-9 dated 2009-04-19
DESCRIPTION | 8 +- R/asciigridimpute.R | 30 ++++++---- R/yai.R | 2 inst/NEWS |only man/asciigridimpute.Rd | 143 +++++++++++++++++++++++++------------------------ 5 files changed, 99 insertions(+), 84 deletions(-)
Author: Aaron A. King, Edward L. Ionides, Carles Martinez Breto, Steve
Ellner, Bruce Kendall
Title: Statistical inference for partially observed Markov processes
Description: Inference methods for partially-observed Markov processes
Diff between pomp versions 0.23-1 dated 2009-04-16 and 0.23-2 dated 2009-04-19
DESCRIPTION | 11 ++---- R/mif-methods.R | 2 - R/mif.R | 4 +- data/ou2.rda |binary inst/ChangeLog | 25 ++++++++++++++ inst/doc/Rplots.pdf | 4 +- inst/doc/compiled_code_in_pomp.Rnw | 1 inst/doc/compiled_code_in_pomp.pdf |binary inst/doc/intro_to_pomp.pdf |binary inst/examples/euler_sir.R | 5 +- inst/examples/euler_sir.c | 65 ++++++++++++++++++++++--------------- inst/include/pomp.h | 9 +++++ man/euler.Rd | 5 +- man/mif-class.Rd | 4 ++ man/mif-methods.Rd | 4 ++ man/mif.Rd | 20 ++++++----- src/euler.c | 21 +++++++++-- src/euler_sir.c | 65 ++++++++++++++++++++++--------------- src/ou2.c | 2 - src/pomp.h | 9 +++++ src/rmeasure.c | 4 ++ tests/sir.R | 5 +- tests/sir.Rout.save | 13 +++---- 23 files changed, 188 insertions(+), 90 deletions(-)
Author: Jonathan P. Weeks
Title: IRT Separate Calibration Linking Methods
Description: This package uses item response theory methods to compute
linking constants and conduct chain linking of unidimensional
or multidimensional tests for multiple groups under a
nonequivalent groups common item design. The unidimensional
methods include the Mean/Mean, Mean/Sigma, Haebara, and
Stocking-Lord methods for dichotomous (1PL, 2PL and 3PL) and/or
polytomous (graded response, partial credit/generalized partial
credit, nominal, and multiple-choice model) items. The
multidimensional methods include the Reckase-Martineau method
and extensions of the Haebara and Stocking-Lord method using a
single dilation parameter, multiple dilation parameters, or the
Oshima, Davey, & Lee approach for multidimensional extensions
of all the unidimensional dichotomous and polytomous item
response models. The package also includes functions for
importing item and/or ability parameters from common IRT
software and ploting item characteristic/category curves or
surfaces and vector plots.
Diff between plink versions 0.1-1 dated 2009-01-26 and 1.0.0 dated 2009-04-19
DESCRIPTION | 46 +- NAMESPACE | 7 R/classes.R | 21 R/drm.R | 98 +++- R/gpcm.R | 107 +++-- R/grm.R | 111 +++-- R/irt.pars.R | 65 +-- R/link.R | 93 ++-- R/mcm.R | 108 +++-- R/mixed.R | 105 +++- R/nrm.R | 103 +++- R/plink.R | 1019 ++++++++++++++++++++++++++++++++++-------------- R/plot.R | 269 +++++++++++- R/read.bilog.R | 40 + R/sep.pars.R | 499 ++++++++++++----------- R/summary.R | 329 +++++++++------ R/weight.R | 168 +++++-- data/plink.RData |binary inst/CITATION | 4 inst/NEWS | 67 +++ man/KB04.Rd | 12 man/TK07.Rd | 18 man/act.mcm.Rd | 11 man/act.nrm.Rd | 10 man/as.irt.pars.Rd | 213 ++-------- man/as.poly.mod.Rd | 28 - man/as.weight.Rd | 179 ++++++-- man/combine.pars.Rd | 6 man/dgn.Rd | 19 man/drm-methods.Rd | 202 ++++++--- man/gpcm-methods.Rd | 173 +++++--- man/grm-methods.Rd | 151 ++++--- man/irt.pars-class.Rd | 9 man/irt.prob-class.Rd | 13 man/link-class.Rd | 40 + man/link.con.Rd | 26 + man/mcm-methods.Rd | 159 ++++--- man/md.mixed.Rd |only man/mixed-methods.Rd | 72 ++- man/nrm-methods.Rd | 105 +++- man/plink-methods.Rd | 175 ++++++-- man/plink-package.Rd | 127 +++++ man/plot.irt.prob.Rd | 123 +++++ man/poly.mod-class.Rd | 7 man/read.bilog.Rd | 18 man/reading.Rd |only man/reckase9.Rd |only man/sep.pars-class.Rd | 30 - man/sep.pars-methods.Rd | 235 ++--------- man/summary.irt.pars.Rd | 14 50 files changed, 3570 insertions(+), 1864 deletions(-)
Author: Tristen Hayfield
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).
Diff between np versions 0.30-1 dated 2009-01-29 and 0.30-2 dated 2009-04-19
CHANGELOG | 6 DESCRIPTION | 27 R/np.singleindex.bw.R | 18 R/np.smoothcoef.bw.R | 12 R/util.R | 5 R/zzz.R | 2 inst/doc/np.pdf | 1968 ++++++++++++++++-------------- inst/doc/np_faq.pdf | 3221 +++++++++++++++++++++++++++----------------------- man/np-package.Rd | 2 man/np.cmstest.Rd | 4 man/np.smoothcoef.Rd | 2 src/statmods.c | 31 12 files changed, 2885 insertions(+), 2413 deletions(-)
Author: Andrew Gelman
Title: Missing Data Imputation and Model Checking
Description: Missing-data imputation and model checking
Diff between mi versions 0.06-1 dated 2009-04-17 and 0.06-2 dated 2009-04-19
CHANGELOG | 7 +++++++ DESCRIPTION | 8 ++++---- R/AllInternal.R | 11 +++++++++++ R/mi.R | 10 ++++------ R/mi.info.R | 40 ++++++++++++++++++++++------------------ 5 files changed, 48 insertions(+), 28 deletions(-)
Author: Ji-Hyung Shin
Title: Likelihood inference from case-control data Under Covariate
Assumptions (LUCA)
Description: Likelihood inference in case-control studies of a rare
disease under independence or simple dependence of genetic and
non-genetic covariates
Diff between luca versions 1.0-3 dated 2009-01-15 and 1.0-4 dated 2009-04-19
DESCRIPTION | 18 ++++++++++++------ inst/ChangeLog | 5 +++++ man/luca.Rd | 54 +++++++++++++++++++++++++++++++----------------------- 3 files changed, 48 insertions(+), 29 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 0.8-5 dated 2009-04-03 and 0.8-6 dated 2009-04-19
DESCRIPTION | 11 +++++------ R/heplot.mlm.R | 25 ++++++++++++------------- R/pairs.mlm.R | 25 +++++++++++++++++++------ R/termInfo.R |only data/VocabGrowth.rda |only demo |only inst/CHANGES | 6 +++++- man/VocabGrowth.Rd |only man/heplot-package.Rd | 4 ++-- man/heplot.Rd | 13 +++++++++---- man/heplots-internal.Rd | 3 ++- 11 files changed, 54 insertions(+), 33 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 1.2.4 dated 2009-01-06 and 1.3 dated 2009-04-19
VIM-1.2.4/VIM/R/bubbleMiss.R |only VIM-1.2.4/VIM/R/iimagMiss.R |only VIM-1.2.4/VIM/R/plot.aggr.R |only VIM-1.2.4/VIM/R/print.aggr.R |only VIM-1.2.4/VIM/R/summary.aggr.R |only VIM-1.2.4/VIM/R/utilities.R |only VIM-1.2.4/VIM/man/bubbleMiss.Rd |only VIM-1.2.4/VIM/man/iimagMiss.Rd |only VIM-1.2.4/VIM/man/plot.aggr.Rd |only VIM-1.2.4/VIM/man/utilities.Rd |only VIM-1.3/VIM/DESCRIPTION | 21 VIM-1.3/VIM/NAMESPACE |only VIM-1.3/VIM/R/TKRaggr.R |only VIM-1.3/VIM/R/TKRdevice.R |only VIM-1.3/VIM/R/TKRmarginmatrix.R |only VIM-1.3/VIM/R/TKRmatrixplot.R |only VIM-1.3/VIM/R/TKRparcoordMiss.R |only VIM-1.3/VIM/R/TKRpbox.R |only VIM-1.3/VIM/R/TKRscattmatrixMiss.R |only VIM-1.3/VIM/R/aggr.R | 310 +++++++- VIM-1.3/VIM/R/alphablend.R |only VIM-1.3/VIM/R/barMiss.R | 296 ++++++-- VIM-1.3/VIM/R/bgmap.R | 5 VIM-1.3/VIM/R/colormapMiss.R | 78 +- VIM-1.3/VIM/R/growdotMiss.R |only VIM-1.3/VIM/R/histMiss.R | 307 +++++--- VIM-1.3/VIM/R/initialise.R | 54 + VIM-1.3/VIM/R/mapMiss.R | 65 + VIM-1.3/VIM/R/marginmatrix.R |only VIM-1.3/VIM/R/marginplot.R | 243 ++++-- VIM-1.3/VIM/R/matrixplot.R |only VIM-1.3/VIM/R/pairsVIM.R |only VIM-1.3/VIM/R/parcoordMiss.R | 211 ++++-- VIM-1.3/VIM/R/pbox.R | 427 +++++++++--- VIM-1.3/VIM/R/prepare.R | 212 +++--- VIM-1.3/VIM/R/rugNA.R |only VIM-1.3/VIM/R/scattJitt.R | 174 +++- VIM-1.3/VIM/R/scattMiss.R | 171 +++- VIM-1.3/VIM/R/scattmatrixMiss.R | 221 +++++- VIM-1.3/VIM/R/spineMiss.R | 376 ++++++++-- VIM-1.3/VIM/R/utils.R |only VIM-1.3/VIM/R/vmGUImenu.R | 1188 ++++++++++++++++++---------------- VIM-1.3/VIM/R/zzz.R | 6 VIM-1.3/VIM/data/kola.background.rda |only VIM-1.3/VIM/man/VIM-package.Rd | 6 VIM-1.3/VIM/man/aggr.Rd | 123 ++- VIM-1.3/VIM/man/alphablend.Rd | 8 VIM-1.3/VIM/man/barMiss.Rd | 103 +- VIM-1.3/VIM/man/bgmap.Rd | 10 VIM-1.3/VIM/man/chorizonDL.Rd | 10 VIM-1.3/VIM/man/colormapMiss.Rd | 73 +- VIM-1.3/VIM/man/count.Rd |only VIM-1.3/VIM/man/growdotMiss.Rd |only VIM-1.3/VIM/man/histMiss.Rd | 99 +- VIM-1.3/VIM/man/initialise.Rd | 27 VIM-1.3/VIM/man/kola.background.Rd |only VIM-1.3/VIM/man/mapMiss.Rd | 28 VIM-1.3/VIM/man/marginmatrix.Rd |only VIM-1.3/VIM/man/marginplot.Rd | 64 + VIM-1.3/VIM/man/matrixplot.Rd |only VIM-1.3/VIM/man/pairsVIM.Rd |only VIM-1.3/VIM/man/parcoordMiss.Rd | 91 +- VIM-1.3/VIM/man/pbox.Rd | 109 ++- VIM-1.3/VIM/man/prepare.Rd | 63 - VIM-1.3/VIM/man/print.aggr.Rd | 12 VIM-1.3/VIM/man/print.summary.aggr.Rd |only VIM-1.3/VIM/man/rugNA.Rd |only VIM-1.3/VIM/man/scattJitt.Rd | 49 - VIM-1.3/VIM/man/scattMiss.Rd | 39 - VIM-1.3/VIM/man/scattmatrixMiss.Rd | 105 ++- VIM-1.3/VIM/man/sleep.Rd | 8 VIM-1.3/VIM/man/spineMiss.Rd | 111 ++- VIM-1.3/VIM/man/summary.aggr.Rd | 21 VIM-1.3/VIM/man/tao.Rd | 2 VIM-1.3/VIM/man/vmGUImenu.Rd | 49 - 75 files changed, 3783 insertions(+), 1792 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 \code{nassCDS} (airbag and other
influences on US vehicle accident outcomes: 1997-2002),
\code{cricketer} (handedness, British first class cricketers
born 1840-1960 whose handedness could be determined),
\code{nswdemo} and related datasets (US Labor Training
Evaluation Data), \code{rockArt} (multivariate binary data on
Pacific rock art), \code{hotspots} (ages and distance from
Kilauea of larval hotspots; c.f. also \code{hotspots2006}),
\code{nihills} (record times for Northern Ireland mountain
races), \code{worldRecords} (record times for track and road
races), \code{progression} (progression of record times for
track races), \code{edcT} and \code{edcCO2} (temperature and
CO2 estimates from the EPICA Dome C ice core, covering 0 to 800
kyr BP), \code{grog} (Australian and NZ liquor consumption
patterns, 1998-2006), and \code{bomregions} (historical
Australian climate data).
Diff between DAAGxtras versions 0.7-5 dated 2009-03-29 and 0.7-6 dated 2009-04-19
DAAGxtras-0.7-5/DAAGxtras/data/cricketers.RData |only DAAGxtras-0.7-5/DAAGxtras/man/cricketers.Rd |only DAAGxtras-0.7-6/DAAGxtras/DESCRIPTION | 12 ++++++------ DAAGxtras-0.7-6/DAAGxtras/data/cricketer.RData |only DAAGxtras-0.7-6/DAAGxtras/data/earlycrcktr.RData |only DAAGxtras-0.7-6/DAAGxtras/man/DAAGxtras-package.Rd |only DAAGxtras-0.7-6/DAAGxtras/man/cricketer.Rd |only DAAGxtras-0.7-6/DAAGxtras/man/earlycrcktr.Rd |only 8 files changed, 6 insertions(+), 6 deletions(-)
Author: Adrian Raftery
Title: Bayesian Model Averaging
Description: Package for Bayesian model averaging for linear models,
generalizable linear models and survival models (cox
regression).
Diff between BMA versions 3.09 dated 2009-02-03 and 3.10 dated 2009-04-19
CHANGELOG | 4 ++++ DESCRIPTION | 31 ++++++++++++++++++------------- man/bic.surv.Rd | 9 ++++++--- 3 files changed, 28 insertions(+), 16 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 290.81 dated 2009-04-16 and 2100.82 dated 2009-04-17
ChangeLog | 5 ++++ DESCRIPTION | 10 ++++----- NAMESPACE | 2 + R/methods-aggregate.R | 2 - man/methods-as.Rd | 2 - man/methods-plot.Rd | 2 - man/rank.Rd | 23 ++++++++++---------- man/time.Rd | 55 ++++++++++++++++++++++++++------------------------ 8 files changed, 56 insertions(+), 45 deletions(-)
Author: Diethelm Wuertz
Title: Rmetrics - Portfolio Selection and Optimization
Description: Environment for teaching "Financial Engineering and
Computational Finance"
Diff between fPortfolio versions 290.75 dated 2009-04-16 and 2100.76 dated 2009-04-17
DESCRIPTION | 10 +++++----- NAMESPACE | 3 ++- 2 files changed, 7 insertions(+), 6 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 290.75 dated 2009-04-16 and 2100.76 dated 2009-04-17
ChangeLog | 3 +++ DESCRIPTION | 10 +++++----- NAMESPACE | 5 +++-- 3 files changed, 11 insertions(+), 7 deletions(-)
More information about diseasemapping at CRAN
Permanent link
Author: Jarrod Hadfield
Title: MCMC Generalised Linear Mixed Models
Description: MCMC Generalised Linear Mixed Models
Diff between MCMCglmm versions 1.08 dated 2009-04-15 and 1.09 dated 2009-04-17
DESCRIPTION | 8 ++++---- R/MCMCglmm.R | 3 +++ inst/doc/Tutorial.pdf |binary 3 files changed, 7 insertions(+), 4 deletions(-)
Author: Heloise Lavigne and Aurelien Proye and Jean-Pierre Gattuso.
Portions of code and/or corrections were contributed by
Jean-Marie Epitalon, Andreas Hofmann, 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 2.0.6 dated 2009-02-23 and 2.0.8 dated 2009-04-17
ChangeLog | 9 ++ DESCRIPTION | 27 ++++-- R/ppH.R | 104 ++++++++++++++++++++++++++ man/pCa.Rd | 201 +++++++++++++++++++++++++--------------------------- man/ppH.Rd | 4 - man/seacarb_test.Rd | 19 ++-- 6 files changed, 239 insertions(+), 125 deletions(-)
Author: Andrew Gelman
Title: Missing Data Imputation and Model Checking
Description: Missing-data imputation and model checking
Diff between mi versions 0.05-1 dated 2009-04-15 and 0.06-1 dated 2009-04-17
CHANGELOG | 6 ++++ DESCRIPTION | 8 +++--- R/mi.R | 63 +++++++++++++++++++++++++++++---------------------- R/mi.completed.R | 1 R/mi.info.R | 21 ++++++++++++----- R/mi.preprocess.R | 14 +++++++++-- man/mi.Rd | 2 - man/plot.mi.Rd | 3 -- man/prior.control.Rd | 33 +++++++++++--------------- 9 files changed, 89 insertions(+), 62 deletions(-)
Author: Ian Dryden
Title: Statistical shape analysis
Description: Routines for the statistical analysis of shapes. In
particular, the package provides routines for procrustes
analysis, displaying shapes and principal components, testing
for mean shape difference, thin-plate spline transformation
grids and edge superimposition methods.
Diff between shapes versions 1.1-1 dated 2007-12-10 and 1.1-2 dated 2009-04-17
DESCRIPTION | 22 INDEX | 13 R/shapes.R | 1801 +++++++++++++++++++++++++++++++++++++++++++---- data/brains.rda |only data/digit3.dat.rda |binary data/nsa.rda |only data/protein.rda |only man/brains.Rd |only man/digit3.dat.Rd | 1 man/dna.dat.Rd | 1 man/plotshapes.Rd | 6 man/pongof.dat.Rd | 3 man/procGPA.Rd | 39 - man/procWGPA.Rd |only man/resampletest.Rd | 65 + man/riemdist.Rd | 3 man/rigidbody.Rd |only man/schizophrenia.dat.Rd | 4 man/shapepca.Rd | 10 man/shapes-internal.Rd | 17 man/shapes3d.Rd | 10 man/testmeanshapes.Rd | 113 +- man/tpsgrid.Rd | 32 23 files changed, 1856 insertions(+), 284 deletions(-)
Author: Gabriel Rodrigues Alves Margarido
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)
Diff between onemap versions 0.1-1 dated 2008-06-10 and 1.0-0 dated 2009-04-17
onemap-0.1-1/onemap/R/arbitr.rf.2pts.R |only onemap-0.1-1/onemap/R/cr3pts.R |only onemap-0.1-1/onemap/R/est.rf.2pts.R |only onemap-0.1-1/onemap/R/est.rf.3pts.R |only onemap-0.1-1/onemap/R/extract.group.R |only onemap-0.1-1/onemap/R/make.map.R |only onemap-0.1-1/onemap/R/modify.rf.2pts.R |only onemap-0.1-1/onemap/R/mrktype.R |only onemap-0.1-1/onemap/R/remove.marker.R |only onemap-0.1-1/onemap/man/acum.Rd |only onemap-0.1-1/onemap/man/arbitr.rf.2pts.Rd |only onemap-0.1-1/onemap/man/cr2pts.Rd |only onemap-0.1-1/onemap/man/cr3pts.Rd |only onemap-0.1-1/onemap/man/est.rf.2pts.Rd |only onemap-0.1-1/onemap/man/est.rf.3pts.Rd |only onemap-0.1-1/onemap/man/extract.group.Rd |only onemap-0.1-1/onemap/man/make.map.Rd |only onemap-0.1-1/onemap/man/modify.rf.2pts.Rd |only onemap-0.1-1/onemap/man/mrktype.Rd |only onemap-0.1-1/onemap/man/remove.marker.Rd |only onemap-1.0-0/onemap/DESCRIPTION | 24 onemap-1.0-0/onemap/R/acum.R | 7 onemap-1.0-0/onemap/R/add.marker.R |only onemap-1.0-0/onemap/R/codif.data.R |only onemap-1.0-0/onemap/R/comb.ger.R |only onemap-1.0-0/onemap/R/compare.R |only onemap-1.0-0/onemap/R/cr2pts.R | 160 -- onemap-1.0-0/onemap/R/defunct.R |only onemap-1.0-0/onemap/R/drop.marker.R |only onemap-1.0-0/onemap/R/est.map.c.R |only onemap-1.0-0/onemap/R/group.R | 93 - onemap-1.0-0/onemap/R/make.seq.R |only onemap-1.0-0/onemap/R/map.R | 234 +-- onemap-1.0-0/onemap/R/map_func.R | 16 onemap-1.0-0/onemap/R/marker.type.R |only onemap-1.0-0/onemap/R/order.seq.R |only onemap-1.0-0/onemap/R/permutations.R |only onemap-1.0-0/onemap/R/phases.R |only onemap-1.0-0/onemap/R/rcd.R | 53 onemap-1.0-0/onemap/R/read.outcross.R | 33 onemap-1.0-0/onemap/R/return.geno.R |only onemap-1.0-0/onemap/R/rf.2pts.R |only onemap-1.0-0/onemap/R/rf.graph.table.R |only onemap-1.0-0/onemap/R/ripple.R |only onemap-1.0-0/onemap/R/try.seq.R |only onemap-1.0-0/onemap/data/example_out.RData |binary onemap-1.0-0/onemap/inst/doc/Tutorial_OneMap.Rnw | 804 ++++++----- onemap-1.0-0/onemap/inst/doc/Tutorial_OneMap.pdf |binary onemap-1.0-0/onemap/inst/doc/Tutorial_OneMap_with_output.pdf |only onemap-1.0-0/onemap/inst/example/example_out.txt | 2 onemap-1.0-0/onemap/man/add_drop.Rd |only onemap-1.0-0/onemap/man/compare.Rd |only onemap-1.0-0/onemap/man/def.rf.3pts.Rd |only onemap-1.0-0/onemap/man/example_out.Rd | 7 onemap-1.0-0/onemap/man/group.Rd | 35 onemap-1.0-0/onemap/man/make.seq.Rd |only onemap-1.0-0/onemap/man/map.Rd | 126 - onemap-1.0-0/onemap/man/marker.type.Rd |only onemap-1.0-0/onemap/man/onemap-internal.Rd | 37 onemap-1.0-0/onemap/man/onemap-package.Rd | 81 - onemap-1.0-0/onemap/man/order.seq.Rd |only onemap-1.0-0/onemap/man/rcd.Rd | 49 onemap-1.0-0/onemap/man/read.outcross.Rd | 17 onemap-1.0-0/onemap/man/rf.2pts.Rd |only onemap-1.0-0/onemap/man/rf.graph.table.Rd |only onemap-1.0-0/onemap/man/ripple.Rd |only onemap-1.0-0/onemap/man/set.map.fun.Rd |only onemap-1.0-0/onemap/man/try.seq.Rd |only onemap-1.0-0/onemap/src/hmm_out.c |only onemap-1.0-0/onemap/src/hmm_out.h |only onemap-1.0-0/onemap/src/threepts.c | 4 onemap-1.0-0/onemap/src/threepts.h | 4 onemap-1.0-0/onemap/src/twopts.c | 18 onemap-1.0-0/onemap/src/twopts.h | 17 onemap-1.0-0/onemap/todo | 9 75 files changed, 963 insertions(+), 867 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 0.3.3 dated 2009-04-15 and 1.0-0 dated 2009-04-17
DESCRIPTION | 8 inst/CITATION | 36 inst/doc/fgui.pdf | 3025 +++++++++++++++++++++++++++++------------------------- 3 files changed, 1683 insertions(+), 1386 deletions(-)
Author: Rasmus E. Benestad
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)
Diff between clim.pact versions 2.2-33 dated 2009-04-15 and 2.2-34 dated 2009-04-17
DESCRIPTION | 8 ++++---- R/eof.R | 6 ++++-- 2 files changed, 8 insertions(+), 6 deletions(-)
Author: Jose L. Izquierdo
Title: What the package does (short line)
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.
Diff between Metabonomic versions 3.1.2 dated 2009-02-13 and 3.1.3 dated 2009-04-16
DESCRIPTION | 32 +- R/Import.data.R | 528 +++--------------------------------------------- R/Met.Load.Data.R | 15 + R/Phase.correction.R |only man/Phase.correction.Rd |only 5 files changed, 70 insertions(+), 505 deletions(-)
Author: Reinhold Hatzinger
Title: Utilities to fit paired comparison models for preferences
Description: Generates design matrix for analysing real paired
comparisons and derived paired comparison data (Likert type
items / ratings or rankings) using a loglinear approach. Fits
loglinear Bradley-Terry model (LLBT) exploting an eliminate
feature. Computes pattern models for paired comparisons,
rankings, and ratings. Some treatment of missing values (MCAR
and MNAR).
Diff between prefmod versions 0.8-13 dated 2008-12-12 and 0.8-14 dated 2009-04-16
prefmod-0.8-13/prefmod/R/print.pattW.R |only prefmod-0.8-13/prefmod/man/print.pattW.Rd |only prefmod-0.8-14/prefmod/DESCRIPTION | 37 ++++++++++--------- prefmod-0.8-14/prefmod/NAMESPACE | 3 + prefmod-0.8-14/prefmod/R/designkernel.R | 4 +- prefmod-0.8-14/prefmod/R/generateLpatterns.R | 16 +++----- prefmod-0.8-14/prefmod/R/generatePCpatterns.R | 20 ++++------ prefmod-0.8-14/prefmod/R/generateRpatterns.R | 16 +++----- prefmod-0.8-14/prefmod/R/llbt.worth.R |only prefmod-0.8-14/prefmod/R/llbtPC.fit.R |only prefmod-0.8-14/prefmod/R/patt.design.R | 21 ++++++++--- prefmod-0.8-14/prefmod/R/patt.worth.R | 19 +++++++--- prefmod-0.8-14/prefmod/R/plotworth.R | 30 ++++++++++++--- prefmod-0.8-14/prefmod/R/writeGLIMcmds.R | 15 +++++-- prefmod-0.8-14/prefmod/man/baseball.Rd | 7 ++- prefmod-0.8-14/prefmod/man/cemspc.Rd | 4 +- prefmod-0.8-14/prefmod/man/issp2000.Rd | 4 +- prefmod-0.8-14/prefmod/man/llbt.design.Rd | 4 +- prefmod-0.8-14/prefmod/man/llbt.worth.Rd |only prefmod-0.8-14/prefmod/man/llbtPC.fit.Rd |only prefmod-0.8-14/prefmod/man/patt.design.Rd | 2 - prefmod-0.8-14/prefmod/man/patt.worth.Rd | 24 +++++++----- prefmod-0.8-14/prefmod/man/pattL.fit.Rd | 16 ++++++-- prefmod-0.8-14/prefmod/man/pattLrep.fit.Rd | 13 ++++-- prefmod-0.8-14/prefmod/man/pattPC.fit.Rd | 19 +++++++--- prefmod-0.8-14/prefmod/man/pattR.fit.Rd | 18 +++++++-- prefmod-0.8-14/prefmod/man/plotworth.Rd | 49 +++++++++++++++++--------- prefmod-0.8-14/prefmod/man/prefmod-package.Rd | 4 +- prefmod-0.8-14/prefmod/man/print.pattMod.Rd | 5 +- 29 files changed, 221 insertions(+), 129 deletions(-)
Author: Nandita Mukhopadhyay
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.
Diff between nplplot versions 4.0.2 dated 2008-07-28 and 4.2 dated 2009-04-16
DESCRIPTION | 26 +++++++------- R/nplplot.R | 38 +++++++++----------- man/nplplot.Rd | 105 ++++++++++++++++++++++++++++++++------------------------- 3 files changed, 91 insertions(+), 78 deletions(-)
More information about EMJumpDiffusion at CRAN
Permanent link
Author: Thomas Scheike with contributions from Torben Martinussen and
Jeremy Silver
Title: timereg package for Flexible regression models for survival
data.
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. Flexible competing risks
regression including GOF-tests.
Diff between timereg versions 1.1-7 dated 2009-03-30 and 1.1-8 dated 2009-04-16
DESCRIPTION | 8 ++++---- R/mgresid.r | 3 ++- src/aalen-des.c | 3 ++- src/aalen-test.c | 8 ++++---- src/aalen.c | 34 +++++++++++++++------------------- src/additive-pls.c | 5 ++--- src/breslow.c | 14 ++++++++++---- src/comprisk.c | 18 +++++++++--------- src/cox-aalen.c | 7 +++---- src/dynadd.c | 15 +++++++++------ src/pe-sasieni.c | 11 ++++++----- src/prop-odds.c | 3 ++- src/timecox.c | 10 ++++++++-- src/two-stage-reg.c | 4 +++- src/two-stage.c | 12 +++++------- 15 files changed, 84 insertions(+), 71 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 290.80 dated 2009-02-04 and 290.81 dated 2009-04-16
timeSeries-290.80/timeSeries/inst/NEWS |only timeSeries-290.80/timeSeries/man/00fSeries-package.Rd |only timeSeries-290.80/timeSeries/man/fSeries-deprecated.Rd |only timeSeries-290.81/timeSeries/ChangeLog |only timeSeries-290.81/timeSeries/DESCRIPTION | 13 timeSeries-290.81/timeSeries/NAMESPACE | 188 ++- timeSeries-290.81/timeSeries/R/AllClass.R | 81 + timeSeries-290.81/timeSeries/R/AllGeneric.R | 36 timeSeries-290.81/timeSeries/R/colCum.R | 410 +++---- timeSeries-290.81/timeSeries/R/colStats.R | 66 - timeSeries-290.81/timeSeries/R/daily.R | 2 timeSeries-290.81/timeSeries/R/durations.R | 6 timeSeries-290.81/timeSeries/R/is.R | 23 timeSeries-290.81/timeSeries/R/methods-DataPart.R | 52 timeSeries-290.81/timeSeries/R/methods-aggregate.R | 9 timeSeries-290.81/timeSeries/R/methods-align.R | 138 +- timeSeries-290.81/timeSeries/R/methods-apply.R | 23 timeSeries-290.81/timeSeries/R/methods-as.R | 257 ++-- timeSeries-290.81/timeSeries/R/methods-bind.R | 293 +++-- timeSeries-290.81/timeSeries/R/methods-dim.R | 142 +- timeSeries-290.81/timeSeries/R/methods-head.R | 3 timeSeries-290.81/timeSeries/R/methods-lag.R | 105 - timeSeries-290.81/timeSeries/R/methods-mathOps.R | 160 ++- timeSeries-290.81/timeSeries/R/methods-merge.R | 53 - timeSeries-290.81/timeSeries/R/methods-na.R | 88 + timeSeries-290.81/timeSeries/R/methods-plot.R | 19 timeSeries-290.81/timeSeries/R/methods-series.R | 57 - timeSeries-290.81/timeSeries/R/methods-show.R | 20 timeSeries-290.81/timeSeries/R/methods-str.R | 2 timeSeries-290.81/timeSeries/R/methods-subset.R | 529 ++++++---- timeSeries-290.81/timeSeries/R/methods-tail.R | 10 timeSeries-290.81/timeSeries/R/methods-window.R | 136 +- timeSeries-290.81/timeSeries/R/model.frame.R | 118 +- timeSeries-290.81/timeSeries/R/old2new.R |only timeSeries-290.81/timeSeries/R/orderStatistics.R | 26 timeSeries-290.81/timeSeries/R/rank.R | 16 timeSeries-290.81/timeSeries/R/readSeries.R | 29 timeSeries-290.81/timeSeries/R/time.R | 140 +- timeSeries-290.81/timeSeries/R/timeSeries.R | 438 +++----- timeSeries-290.81/timeSeries/R/zzz.R | 43 timeSeries-290.81/timeSeries/data/MSFT.rda |only timeSeries-290.81/timeSeries/inst/unitTests/runit.Omit.R | 4 timeSeries-290.81/timeSeries/inst/unitTests/runit.TimeSeriesClass.R | 72 - timeSeries-290.81/timeSeries/inst/unitTests/runit.TimeSeriesCoercion.R | 2 timeSeries-290.81/timeSeries/inst/unitTests/runit.TimeSeriesData.R | 2 timeSeries-290.81/timeSeries/inst/unitTests/runit.TimeSeriesPositions.R | 5 timeSeries-290.81/timeSeries/inst/unitTests/runit.align.R | 4 timeSeries-290.81/timeSeries/inst/unitTests/runit.as.R | 9 timeSeries-290.81/timeSeries/inst/unitTests/runit.bind.R | 46 timeSeries-290.81/timeSeries/inst/unitTests/runit.colCum.R | 22 timeSeries-290.81/timeSeries/inst/unitTests/runit.mathOps.R | 1 timeSeries-290.81/timeSeries/inst/unitTests/runit.merge.R | 8 timeSeries-290.81/timeSeries/inst/unitTests/runit.subset.R | 49 timeSeries-290.81/timeSeries/inst/unitTests/runit.timeSeries.R | 17 timeSeries-290.81/timeSeries/man/00timeSeries-package.Rd |only timeSeries-290.81/timeSeries/man/apply.Rd | 2 timeSeries-290.81/timeSeries/man/colCum.Rd | 49 timeSeries-290.81/timeSeries/man/colStats.Rd | 11 timeSeries-290.81/timeSeries/man/data.Rd | 1 timeSeries-290.81/timeSeries/man/is.Rd | 5 timeSeries-290.81/timeSeries/man/lag.Rd | 3 timeSeries-290.81/timeSeries/man/methods-DataPart.Rd |only timeSeries-290.81/timeSeries/man/methods-aggregate.Rd | 1 timeSeries-290.81/timeSeries/man/methods-as.Rd | 31 timeSeries-290.81/timeSeries/man/methods-bind.Rd | 11 timeSeries-290.81/timeSeries/man/methods-dim.Rd | 12 timeSeries-290.81/timeSeries/man/methods-mathOps.Rd | 14 timeSeries-290.81/timeSeries/man/methods-na.Rd | 1 timeSeries-290.81/timeSeries/man/methods-plot.Rd | 5 timeSeries-290.81/timeSeries/man/methods-subset.Rd | 63 - timeSeries-290.81/timeSeries/man/model.frame.Rd | 39 timeSeries-290.81/timeSeries/man/rank.Rd | 4 timeSeries-290.81/timeSeries/man/time.Rd | 29 timeSeries-290.81/timeSeries/man/timeSeries-deprecated.Rd |only timeSeries-290.81/timeSeries/man/timeSeries.Rd | 27 75 files changed, 2407 insertions(+), 1873 deletions(-)
Author: Diethelm Wuertz and Yohan Chalabi
Title: Rmetrics - Chronological and Calendarical Objects
Description: Environment for teaching "Financial Engineering and
Computational Finance"
Diff between timeDate versions 290.84 dated 2009-02-08 and 290.85 dated 2009-04-16
ChangeLog | 68 +++++ DESCRIPTION | 12 NAMESPACE | 5 R/DaylightSavingTime.R | 378 +++++++++++++++--------------- R/kurtosis.R | 26 +- R/methods-Ops.R | 19 + R/methods-show.R | 2 R/periods.R | 90 +++---- R/skewness.R | 24 + R/timeDate.R | 6 R/whichFormat.R | 4 inst/unitTests/runit.DaylightSavingTime.R | 2 man/methods-Ops.Rd | 3 man/periods.Rd |only 14 files changed, 375 insertions(+), 264 deletions(-)
Author: Adrian Baddeley
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).
Diff between spatstat versions 1.15-1 dated 2009-04-01 and 1.15-2 dated 2009-04-16
DESCRIPTION | 8 INDEX | 13 R/Fest.S | 17 - R/Gest.S | 17 - R/Gmulti.S | 89 +++--- R/Iest.R | 17 - R/Jest.S | 61 ++-- R/Jmulti.S | 143 +++++----- R/Kest.S | 72 +---- R/Kinhom.S | 224 ++++++++------- R/Kmulti.S | 392 ++++++++++++--------------- R/Kmulti.inhom.R | 359 ++++++++++++------------- R/alltypes.R | 6 R/dummy.S | 14 R/edgeTrans.R | 5 R/envelope.R | 6 R/eval.fv.R | 3 R/fasp.R | 9 R/fv.R | 74 ++++- R/infline.R |only R/localK.R | 14 R/markcorr.R | 540 +++++++++++++++++++++++++++++--------- R/nearestsegment.R | 9 R/nncross.R | 10 R/pcf.R | 38 +- R/pickoption.R | 3 R/plot.fasp.R | 41 +- R/plot.fv.R | 13 R/randomonlines.R | 2 R/randomtess.R |only R/tess.R | 11 R/util.S | 21 + R/wingeom.S | 19 - R/xysegment.S | 26 + demo/spatstat.R | 67 +++- inst/doc/shapefiles.pdf | 677 ++++++++++++++++++++++++------------------------ man/00spatstat.Rd | 152 +++++++++- man/Emark.Rd |only man/Gcross.Rd | 8 man/Gdot.Rd | 3 man/Jcross.Rd | 11 man/Jdot.Rd | 6 man/Kcross.Rd | 6 man/Kcross.inhom.Rd | 2 man/Kdot.Rd | 7 man/Kdot.inhom.Rd | 1 man/Kinhom.Rd | 20 + man/chop.tess.Rd |only man/clip.infline.Rd |only man/infline.Rd |only man/internal.Rd | 20 + man/markconnect.Rd |only man/markcorr.Rd | 142 +++++++--- man/markcorrint.Rd |only man/markvario.Rd |only man/nncross.Rd | 29 +- man/pcf.ppp.Rd | 8 man/pcfcross.Rd | 6 man/plot.fasp.Rd | 19 - man/plot.fv.Rd | 8 man/plot.owin.Rd | 3 man/rMosaicField.Rd |only man/rMosaicSet.Rd |only man/rNeymanScott.Rd | 2 man/rpoisline.Rd | 2 man/rpoislinetess.Rd |only src/corrections.c | 5 67 files changed, 2109 insertions(+), 1371 deletions(-)
Author: Petr Savicky
Title: WELL19937a random number generator implemented with 53 bit
output
Description: Random number generator WELL19937a by F. Panneton, P.
L'Ecuyer and M. Matsumoto with initialization using MRG32k5a by
P. L'Ecuyer. WELL19937a is of similar type as Mersenne Twister
and has the same period. WELL19937a is slightly slower than
Mersenne Twister, but has better equidistribution and
"bit-mixing" properties and faster recovery from states with
prevailing zeros than Mersenne Twister. The output function may
be set to provide numbers with 53 or 32 random bits.
Diff between rngwell19937 versions 0.5-1 dated 2009-03-12 and 0.5-2 dated 2009-04-16
CHANGELOG | 2 ++ DESCRIPTION | 17 +++++++++-------- LICENSE | 7 +++---- R/init.R | 2 +- man/rngwell19937-package.Rd | 9 +++++---- man/set.initialization.Rd | 10 +++++++--- man/set.resolution.Rd | 19 +++++++++++++------ man/set.vector.seed.Rd | 21 ++++++++++++++------- man/well19937.validate.Rd | 6 ++++++ 9 files changed, 60 insertions(+), 33 deletions(-)
Author: Aaron A. King, Edward L. Ionides, Carles Martinez Breto, Steve
Ellner, Bruce Kendall
Title: Statistical inference for partially observed Markov processes
Description: Inference methods for partially-observed Markov processes
Diff between pomp versions 0.22-6 dated 2009-03-13 and 0.23-1 dated 2009-04-16
DESCRIPTION | 12 R/mif.R | 537 ++++++++++++++++++------------------- R/pfilter-mif.R | 2 R/pfilter.R | 454 ++++++++++++++++--------------- data/ou2.rda |binary inst/CITATION | 4 inst/ChangeLog | 97 ++++++ inst/doc/Rplots.pdf | 4 inst/doc/compiled_code_in_pomp.pdf |binary inst/doc/intro_to_pomp.Rnw | 17 - inst/doc/intro_to_pomp.pdf |binary man/mif-class.Rd | 23 - man/mif-methods.Rd | 2 man/mif.Rd | 77 ++--- man/pfilter.Rd | 10 man/pomp-methods.Rd | 3 tests/ou2-mif.R | 47 ++- tests/ou2-mif.Rout.save | 61 +++- tests/sir.Rout.save | 15 - 19 files changed, 783 insertions(+), 582 deletions(-)
Author: Zongming Ma and Xiangrui Meng
Title: Learn Chain graphs via Decomposition
Description: Functions for learning chain graphs (and as a special
case, Bayesian networks) via the decomposition approach.
Diff between lcd versions 0.7-1 dated 2009-04-15 and 0.7-2 dated 2009-04-16
DESCRIPTION | 8 ++++---- man/lcd-package.Rd | 5 ++--- src/cond_ind_test.h | 10 +++++----- 3 files changed, 11 insertions(+), 12 deletions(-)
Author: Klaus K. Holst
Title: Model-diagnostics based on cumulative residuals
Description: Implementation of model-checking technique based on
cumulative residuals
Diff between gof versions 0.6-2 dated 2009-01-16 and 0.6-4 dated 2009-04-16
gof-0.6-2/gof/CITATION |only gof-0.6-4/gof/CHANGES | 9 +++++++++ gof-0.6-4/gof/DESCRIPTION | 11 +++++++---- gof-0.6-4/gof/NAMESPACE | 2 +- gof-0.6-4/gof/R/cumres.coxph.R | 9 ++++----- gof-0.6-4/gof/R/onload.R |only gof-0.6-4/gof/inst |only gof-0.6-4/gof/man/cumres.coxph.Rd | 2 ++ gof-0.6-4/gof/man/gof-package.Rd | 4 ++-- gof-0.6-4/gof/src/matrix_bidirectional_iterator.h | 7 ++++--- gof-0.6-4/gof/src/matrix_forward_iterator.h | 6 ------ gof-0.6-4/gof/src/matrix_random_access_iterator.h | 7 ++++--- gof-0.6-4/gof/src/mersenne.h | 7 ++++--- 13 files changed, 37 insertions(+), 27 deletions(-)
Author: Daniel Adler
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.
Diff between ff versions 2.0.0 dated 2008-08-03 and 2.0.1 dated 2009-04-16
ANNOUNCEMENT.txt | 122 DESCRIPTION | 115 LICENSE | 12 NAMESPACE | 1032 ++-- R/CFUN.R | 642 +- R/array.R | 1178 ++--- R/as.ff.R | 402 - R/bigsample.R | 248 - R/ff.R | 8640 ++++++++++++++++++++-------------------- R/ffapply.R | 2058 ++++----- R/ffreturn.R | 972 ++-- R/generics.R | 196 R/getpagesize.R | 120 R/hi.R | 2938 ++++++------- R/util.R | 148 R/vmode.R | 1848 ++++---- R/vt.R | 202 R/zzz.R | 224 - README_devel.txt | 136 exec/make_rd.pl | 66 man/hi.rd | 2 man/mismatch.rd | 4 prebuild.sh | 2 src/Array.hpp | 512 +- src/Error.hpp | 84 src/FSInfo.hpp | 80 src/FSInfo_win32.cpp | 4 src/FileMapping.hpp | 98 src/MMapFileMapping.cpp | 28 src/MMapFileMapping.hpp | 228 - src/Win32FileMapping.cpp | 44 src/Win32FileMapping.hpp | 276 - src/types.hpp | 70 src/utk_config.hpp | 86 src/utk_file_allocate_fseek.cpp | 8 src/utk_file_allocate_fseek.hpp | 2 src/utk_platform_macros.hpp | 308 - 37 files changed, 11571 insertions(+), 11564 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 270.75 dated 2008-10-27 and 290.76 dated 2009-04-16
ChangeLog |only DESCRIPTION | 18 +++++--- R/baseMethods.R | 8 +-- R/getS4.R | 115 ++++++++++++++++++++++++++++---------------------------- man/fHTEST.Rd | 2 man/getS4.Rd | 9 +--- 6 files changed, 77 insertions(+), 75 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 270.74 dated 2008-10-27 and 290.75 dated 2009-04-16
ChangeLog |only DESCRIPTION | 23 ++++++++++++++--------- 2 files changed, 14 insertions(+), 9 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 270.74 dated 2008-10-27 and 290.75 dated 2009-04-16
ChangeLog |only DESCRIPTION | 21 +++++++++++++-------- 2 files changed, 13 insertions(+), 8 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 270.76.1 dated 2008-10-27 and 270.76.2 dated 2009-04-16
ChangeLog |only DESCRIPTION | 22 ++++++++++++++-------- R/zzz.R | 8 +++++++- man/daily.Rd | 2 +- 4 files changed, 22 insertions(+), 10 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 270.74 dated 2008-10-27 and 290.75 dated 2009-04-16
ChangeLog |only DESCRIPTION | 22 ++++++++++++++-------- R/regFit.R | 3 +++ man/fREG-class.Rd | 2 +- man/plot-methods.Rd | 2 +- man/regFit.Rd | 2 +- man/regSim.Rd | 2 +- 7 files changed, 21 insertions(+), 12 deletions(-)
Author: Diethelm Wuertz
Title: Rmetrics - Portfolio Selection and Optimization
Description: Environment for teaching "Financial Engineering and
Computational Finance"
Diff between fPortfolio versions 280.74 dated 2008-10-27 and 290.75 dated 2009-04-16
fPortfolio-280.74/fPortfolio/data/LPP2005REC.CSV |only fPortfolio-280.74/fPortfolio/data/SWXLP.csv |only fPortfolio-280.74/fPortfolio/data/smallcap.ts.csv |only fPortfolio-290.75/fPortfolio/ChangeLog |only fPortfolio-290.75/fPortfolio/DESCRIPTION | 24 fPortfolio-290.75/fPortfolio/NAMESPACE | 50 - fPortfolio-290.75/fPortfolio/R/class-fPFOLIOVAL.R |only fPortfolio-290.75/fPortfolio/R/class-fPORTFOLIO.R | 8 fPortfolio-290.75/fPortfolio/R/covEstimator.R | 184 +-- fPortfolio-290.75/fPortfolio/R/efficientPortfolio.R | 39 fPortfolio-290.75/fPortfolio/R/feasiblePortfolio.R | 43 fPortfolio-290.75/fPortfolio/R/frontierPlot.R | 228 +++- fPortfolio-290.75/fPortfolio/R/frontierPoints.R | 12 fPortfolio-290.75/fPortfolio/R/getData.R | 42 fPortfolio-290.75/fPortfolio/R/getDefault.R | 175 ++- fPortfolio-290.75/fPortfolio/R/getPortfolio.R | 241 ++-- fPortfolio-290.75/fPortfolio/R/getPortfolioVal.R |only fPortfolio-290.75/fPortfolio/R/getSpec.R | 32 fPortfolio-290.75/fPortfolio/R/methods-show.R | 239 +++- fPortfolio-290.75/fPortfolio/R/portfolioConstraints.R | 216 ++-- fPortfolio-290.75/fPortfolio/R/portfolioData.R | 50 - fPortfolio-290.75/fPortfolio/R/portfolioFrontier.R | 180 +-- fPortfolio-290.75/fPortfolio/R/portfolioRisk.R | 29 fPortfolio-290.75/fPortfolio/R/portfolioSpec.R | 34 fPortfolio-290.75/fPortfolio/R/setSpec.R | 41 fPortfolio-290.75/fPortfolio/R/solveRglpk.R | 227 ++-- fPortfolio-290.75/fPortfolio/R/solveRquadprog.R | 78 - fPortfolio-290.75/fPortfolio/R/solveRshortExact.R | 90 - fPortfolio-290.75/fPortfolio/R/solveRsymphony.R |only fPortfolio-290.75/fPortfolio/R/solveTwoAssets.R | 65 - fPortfolio-290.75/fPortfolio/R/weightsPie.R | 50 - fPortfolio-290.75/fPortfolio/R/weightsPlot.R | 46 fPortfolio-290.75/fPortfolio/R/zzz.R | 57 - fPortfolio-290.75/fPortfolio/data/GCCINDEX.RET.rda |only fPortfolio-290.75/fPortfolio/data/GCCINDEX.rda |only fPortfolio-290.75/fPortfolio/data/LPP2005.RET.rda |only fPortfolio-290.75/fPortfolio/data/LPP2005.rda |only fPortfolio-290.75/fPortfolio/data/SMALLCAP.RET.rda |only fPortfolio-290.75/fPortfolio/data/SMALLCAP.rda |only fPortfolio-290.75/fPortfolio/data/SPISECTOR.RET.rda |only fPortfolio-290.75/fPortfolio/data/SPISECTOR.rda |only fPortfolio-290.75/fPortfolio/data/SWX.RET.rda |only fPortfolio-290.75/fPortfolio/data/SWX.rda |only fPortfolio-290.75/fPortfolio/inst/unitTests/runit.class-fPFOLIOCON.R | 4 fPortfolio-290.75/fPortfolio/inst/unitTests/runit.class-fPFOLIODATA.R | 2 fPortfolio-290.75/fPortfolio/inst/unitTests/runit.class-fPORTFOLIO.R | 28 fPortfolio-290.75/fPortfolio/inst/unitTests/runit.covEllipsesPlot.R | 8 fPortfolio-290.75/fPortfolio/inst/unitTests/runit.efficientPortfolio.R | 20 fPortfolio-290.75/fPortfolio/inst/unitTests/runit.feasiblePortfolio.R | 8 fPortfolio-290.75/fPortfolio/inst/unitTests/runit.frontierPlot.R | 2 fPortfolio-290.75/fPortfolio/inst/unitTests/runit.frontierPoints.R | 4 fPortfolio-290.75/fPortfolio/inst/unitTests/runit.methods-plot.R | 20 fPortfolio-290.75/fPortfolio/inst/unitTests/runit.minvariancePortfolio.R | 8 fPortfolio-290.75/fPortfolio/inst/unitTests/runit.portfolioConstraints.R | 12 fPortfolio-290.75/fPortfolio/inst/unitTests/runit.portfolioData.R | 4 fPortfolio-290.75/fPortfolio/inst/unitTests/runit.portfolioFrontier.R | 18 fPortfolio-290.75/fPortfolio/inst/unitTests/runit.solveRglpk.R | 2 fPortfolio-290.75/fPortfolio/inst/unitTests/runit.solveRquadprog.R | 4 fPortfolio-290.75/fPortfolio/inst/unitTests/runit.solveRshortExact.R | 10 fPortfolio-290.75/fPortfolio/inst/unitTests/runit.tangencyPortfolio.R | 4 fPortfolio-290.75/fPortfolio/inst/unitTests/runit.weightsPie.R | 6 fPortfolio-290.75/fPortfolio/man/00fPortfolio-package.Rd | 490 ---------- fPortfolio-290.75/fPortfolio/man/class-fPFOLIOCON.Rd | 27 fPortfolio-290.75/fPortfolio/man/class-fPFOLIODATA.Rd | 8 fPortfolio-290.75/fPortfolio/man/class-fPFOLIOSPEC.Rd | 12 fPortfolio-290.75/fPortfolio/man/class-fPFOLIOVAL.Rd |only fPortfolio-290.75/fPortfolio/man/class-fPORTFOLIO.Rd | 8 fPortfolio-290.75/fPortfolio/man/covEstimator.Rd | 72 - fPortfolio-290.75/fPortfolio/man/dataSets.Rd | 124 +- fPortfolio-290.75/fPortfolio/man/efficientPortfolio.Rd | 93 - fPortfolio-290.75/fPortfolio/man/feasiblePortfolio.Rd | 62 - fPortfolio-290.75/fPortfolio/man/frontierPlot.Rd | 104 -- fPortfolio-290.75/fPortfolio/man/frontierPlotControl.Rd | 8 fPortfolio-290.75/fPortfolio/man/frontierPoints.Rd | 17 fPortfolio-290.75/fPortfolio/man/getData.Rd | 88 + fPortfolio-290.75/fPortfolio/man/getDefault.Rd | 31 fPortfolio-290.75/fPortfolio/man/getPortfolio.Rd | 25 fPortfolio-290.75/fPortfolio/man/getSpec.Rd | 100 +- fPortfolio-290.75/fPortfolio/man/methods-plot.Rd | 9 fPortfolio-290.75/fPortfolio/man/methods-show.Rd | 9 fPortfolio-290.75/fPortfolio/man/methods-summary.Rd | 9 fPortfolio-290.75/fPortfolio/man/portfolioConstraints.Rd | 13 fPortfolio-290.75/fPortfolio/man/portfolioData.Rd | 9 fPortfolio-290.75/fPortfolio/man/portfolioFrontier.Rd | 22 fPortfolio-290.75/fPortfolio/man/portfolioRisk.Rd | 30 fPortfolio-290.75/fPortfolio/man/portfolioRolling.Rd | 8 fPortfolio-290.75/fPortfolio/man/portfolioSpec.Rd | 21 fPortfolio-290.75/fPortfolio/man/setSpec.Rd | 60 - fPortfolio-290.75/fPortfolio/man/solveRglpk.Rd | 44 fPortfolio-290.75/fPortfolio/man/solveRquadprog.Rd | 39 fPortfolio-290.75/fPortfolio/man/solveRshortExact.Rd | 43 fPortfolio-290.75/fPortfolio/man/solveRsymphony.Rd |only fPortfolio-290.75/fPortfolio/man/weightsLinePlot.Rd | 31 fPortfolio-290.75/fPortfolio/man/weightsPie.Rd | 40 fPortfolio-290.75/fPortfolio/man/weightsPlot.Rd | 47 fPortfolio-290.75/fPortfolio/man/weightsSlider.Rd | 20 96 files changed, 2199 insertions(+), 2168 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 270.74 dated 2008-10-27 and 290.75 dated 2009-04-16
ChangeLog |only DESCRIPTION | 21 +++++++++++++-------- man/BinomialTreeOptions.Rd | 2 +- man/MonteCarloOptions.Rd | 2 +- man/PlainVanillaOptions.Rd | 6 +++--- 5 files changed, 18 insertions(+), 13 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 270.74 dated 2008-10-27 and 290.75 dated 2009-04-16
ChangeLog |only DESCRIPTION | 23 ++++++++++++++--------- man/NonLinTests.Rd | 2 +- 3 files changed, 15 insertions(+), 10 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 270.74 dated 2008-10-27 and 290.75 dated 2009-04-16
ChangeLog |only DESCRIPTION | 21 +++++++++++++-------- 2 files changed, 13 insertions(+), 8 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 290.75 dated 2009-01-28 and 290.76 dated 2009-04-16
ChangeLog |only DESCRIPTION | 12 ++++++++---- R/yahooKeystats.R | 6 +++++- 3 files changed, 13 insertions(+), 5 deletions(-)
Author: Diethelm Wuertz, Yohan Chalabi, Michal Miklovic
Title: Rmetrics - Autoregressive Conditional Heteroskedastic Modelling
Description: Environment for teaching "Financial Engineering and
Computational Finance"
Diff between fGarch versions 290.76 dated 2009-01-28 and 290.77 dated 2009-04-16
ChangeLog |only DESCRIPTION | 10 +++++++--- NAMESPACE | 19 +++++++++++-------- 3 files changed, 18 insertions(+), 11 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 270.75 dated 2008-10-27 and 290.76 dated 2009-04-16
ChangeLog |only DESCRIPTION | 22 +++++--- R/DataPreprocessing.R | 16 +++-- R/GevDistribution.R | 17 ++++-- R/GevFit.R | 127 ++++++++++++++++------------------------------- R/GevPrintPlotSummary.R | 65 +++++++++++++++++++----- R/GevSim.R | 4 + R/GpdDistribution.R | 18 ++++-- R/GpdSim.R | 11 +++- R/GpdSow.R | 4 + R/MeanExcessFit.R | 40 +++++++++----- R/ValueAtRisk.R | 10 +-- man/DataPreprocessing.Rd | 40 +++++++------- man/ExtremeIndex.Rd | 2 man/GevDistribution.Rd | 30 ++++------- man/GevModelling.Rd | 9 ++- 16 files changed, 231 insertions(+), 184 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 270.74 dated 2008-10-27 and 290.75 dated 2009-04-16
ChangeLog |only DESCRIPTION | 21 +++++++++++++-------- 2 files changed, 13 insertions(+), 8 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 270.75 dated 2008-10-27 and 290.76 dated 2009-04-16
ChangeLog |only DESCRIPTION | 21 +++++++++++++-------- man/CIAFactbook.Rd | 2 +- 3 files changed, 14 insertions(+), 9 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 270.74 dated 2008-10-27 and 290.75 dated 2009-04-16
fCopulae-270.74/fCopulae/R/MixedCopulae.R |only fCopulae-270.74/fCopulae/inst/unitTests/runit.MixedCopulae.R |only fCopulae-290.75/fCopulae/ChangeLog |only fCopulae-290.75/fCopulae/DESCRIPTION | 22 +++++++---- fCopulae-290.75/fCopulae/NAMESPACE |only fCopulae-290.75/fCopulae/man/ArchimedeanCopulae.Rd | 2 - fCopulae-290.75/fCopulae/man/ArchimedeanDependency.Rd | 2 - fCopulae-290.75/fCopulae/man/ArchimedeanModelling.Rd | 2 - fCopulae-290.75/fCopulae/man/EmpiricalCopulae.Rd | 2 - fCopulae-290.75/fCopulae/man/ExtremeValueCopulae.Rd | 2 - fCopulae-290.75/fCopulae/man/ExtremeValueDependency.Rd | 2 - fCopulae-290.75/fCopulae/man/ExtremeValueGenerator.Rd | 2 - fCopulae-290.75/fCopulae/man/ExtremeValueModelling.Rd | 2 - 13 files changed, 22 insertions(+), 16 deletions(-)
Author: Diethelm Wuertz, Yohan Chalabi
Title: Chronological and Calendarical Objects
Description: Environment for teaching "Financial Engineering and
Computational Finance"
Diff between fCalendar versions 270.78.1 dated 2008-10-27 and 270.78.2 dated 2009-04-16
fCalendar-270.78.1/fCalendar/tests/Rplots.pdf |only fCalendar-270.78.2/fCalendar/ChangeLog |only fCalendar-270.78.2/fCalendar/DESCRIPTION | 19 ++++++++++++------- fCalendar-270.78.2/fCalendar/R/zzz.R | 7 ++++++- fCalendar-270.78.2/fCalendar/man/Ops.Rd | 2 +- fCalendar-270.78.2/fCalendar/man/nDay.Rd | 2 +- 6 files changed, 20 insertions(+), 10 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 270.73 dated 2008-10-23 and 270.74 dated 2009-04-16
ChangeLog |only DESCRIPTION | 21 +++--- R/TermStructure.R | 176 +++++++++++++++++++++++++++--------------------------- 3 files changed, 101 insertions(+), 96 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 290.75 dated 2009-01-28 and 290.76 dated 2009-04-16
ChangeLog |only DESCRIPTION | 9 ++++++--- NAMESPACE | 60 ++++++++++++++++++++++++++++++++++-------------------------- R/qqPlot.R | 42 ++++++++++++++++++++++++------------------ 4 files changed, 64 insertions(+), 47 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 280.74 dated 2008-10-27 and 290.75 dated 2009-04-16
fAssets-280.74/fAssets/R/VaRModelling.R |only fAssets-280.74/fAssets/R/assetsStats.R |only fAssets-280.74/fAssets/R/buitin-corrgram.R |only fAssets-280.74/fAssets/R/exampleCovData.R |only fAssets-280.74/fAssets/R/fixBinHistogram.R |only fAssets-280.74/fAssets/R/outlierDetection.R |only fAssets-280.74/fAssets/R/plot-correlation.R |only fAssets-280.74/fAssets/R/plot-covEllipses.R |only fAssets-280.74/fAssets/R/plot-histPairs.R |only fAssets-280.74/fAssets/R/plot-minSpanTree.R |only fAssets-280.74/fAssets/man/VaRModelling.Rd |only fAssets-280.74/fAssets/man/assetsStats.Rd |only fAssets-280.74/fAssets/man/boxPlot.Rd |only fAssets-280.74/fAssets/man/covEllipsesPlot.Rd |only fAssets-280.74/fAssets/man/pairsPlot.Rd |only fAssets-280.74/fAssets/man/seriesPlot.Rd |only fAssets-280.74/fAssets/man/similarityPlot.Rd |only fAssets-280.74/fAssets/man/starsPlot.Rd |only fAssets-290.75/fAssets/ChangeLog |only fAssets-290.75/fAssets/DESCRIPTION | 22 fAssets-290.75/fAssets/NAMESPACE | 88 ++- fAssets-290.75/fAssets/R/assetsArrange.R | 160 +++--- fAssets-290.75/fAssets/R/assetsFit.R | 294 ++++++++---- fAssets-290.75/fAssets/R/assetsLPM.R | 4 fAssets-290.75/fAssets/R/assetsMeanCov.R | 236 ++++++++- fAssets-290.75/fAssets/R/assetsOutliers.R |only fAssets-290.75/fAssets/R/assetsPfolio.R |only fAssets-290.75/fAssets/R/assetsSelect.R | 108 +++- fAssets-290.75/fAssets/R/assetsSim.R | 4 fAssets-290.75/fAssets/R/assetsTest.R | 154 ++---- fAssets-290.75/fAssets/R/builtin-corrgram.R |only fAssets-290.75/fAssets/R/builtin-robust.R |only fAssets-290.75/fAssets/R/class-fASSETS.R |only fAssets-290.75/fAssets/R/plot-binning.R |only fAssets-290.75/fAssets/R/plot-boxplot.R | 6 fAssets-290.75/fAssets/R/plot-ellipses.R |only fAssets-290.75/fAssets/R/plot-hist.R | 4 fAssets-290.75/fAssets/R/plot-mst.R |only fAssets-290.75/fAssets/R/plot-pairs.R | 56 +- fAssets-290.75/fAssets/R/plot-panels.R |only fAssets-290.75/fAssets/R/plot-qqplot.R | 143 ----- fAssets-290.75/fAssets/R/plot-risk.R | 5 fAssets-290.75/fAssets/R/plot-stars.R | 61 +- fAssets-290.75/fAssets/R/zzz.Deprecated.R |only fAssets-290.75/fAssets/R/zzz.R | 9 fAssets-290.75/fAssets/inst/unitTests/runit.AssetsMeanCov.R | 23 fAssets-290.75/fAssets/inst/unitTests/runit.AssetsSelect.R | 30 - fAssets-290.75/fAssets/man/00fAssets-package.Rd |only fAssets-290.75/fAssets/man/assetsArrange.Rd |only fAssets-290.75/fAssets/man/assetsFit.Rd | 183 +------ fAssets-290.75/fAssets/man/assetsLPM.Rd | 48 - fAssets-290.75/fAssets/man/assetsMeanCov.Rd | 100 ++-- fAssets-290.75/fAssets/man/assetsOutliers.Rd |only fAssets-290.75/fAssets/man/assetsPfolio.Rd |only fAssets-290.75/fAssets/man/assetsSelect.Rd | 101 +--- fAssets-290.75/fAssets/man/assetsSim.Rd |only fAssets-290.75/fAssets/man/assetsTest.Rd | 48 - fAssets-290.75/fAssets/man/class-fASSETS.Rd |only fAssets-290.75/fAssets/man/plot-binning.Rd |only fAssets-290.75/fAssets/man/plot-boxplot.Rd |only fAssets-290.75/fAssets/man/plot-ellipses.Rd |only fAssets-290.75/fAssets/man/plot-hist.Rd |only fAssets-290.75/fAssets/man/plot-mst.Rd |only fAssets-290.75/fAssets/man/plot-pairs.Rd |only fAssets-290.75/fAssets/man/plot-qqplot.Rd |only fAssets-290.75/fAssets/man/plot-risk.Rd |only fAssets-290.75/fAssets/man/plot-series.Rd |only fAssets-290.75/fAssets/man/plot-similarity.Rd |only fAssets-290.75/fAssets/man/plot-stars.Rd |only 69 files changed, 980 insertions(+), 907 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 270.74 dated 2008-10-27 and 290.75 dated 2009-04-16
ChangeLog |only DESCRIPTION | 21 +++++++++++++-------- 2 files changed, 13 insertions(+), 8 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 270.74 dated 2008-10-27 and 290.75 dated 2009-04-16
ChangeLog |only DESCRIPTION | 23 ++++++++++++++--------- man/ArmaInterface.Rd | 2 +- 3 files changed, 15 insertions(+), 10 deletions(-)
Author: Tomoaki Nakatani
Title: Conditional Correlation GARCH models
Description: Functions for estimating and simulating the family of the
CC-GARCH models.
Diff between ccgarch versions 0.1.1 dated 2008-10-30 and 0.1.2-2 dated 2009-04-16
DESCRIPTION | 23 +++++++----- R/dcc_estimation.R | 38 ++++++++++----------- R/dcc_estimation1.R | 6 +-- R/dcc_results.R | 2 - R/eccc_estimation.R | 6 +-- inst |only man/analytical_Hessian.Rd | 17 ++++----- man/analytical_grad.Rd | 20 +++++------ man/d2lv.Rd | 12 +++--- man/dcc_est.Rd | 12 +++--- man/dcc_estimation.Rd | 78 ++++++++++++++++++++++++++++++++++---------- man/dcc_estimation1.Rd | 20 ++++++----- man/dcc_estimation2.Rd | 15 ++++---- man/dcc_results.Rd | 12 +++--- man/dcc_sim.Rd | 33 +++++++++--------- man/dlc.Rd | 16 ++++----- man/dlv.Rd | 16 ++++----- man/dlv_est.Rd | 16 ++++----- man/eccc_estimation.Rd | 29 +++++++++++----- man/eccc_sim.Rd | 26 +++++++------- man/fourth.Rd | 8 ++-- man/grad_dcc2.Rd | 4 +- man/grad_full_likelihood.Rd | 14 +++---- man/jb_test.Rd | 6 +-- man/ljung_box_test.Rd | 14 +++++-- man/loglik_dcc.Rd | 6 +-- man/loglik_dcc1.Rd | 10 ++--- man/loglik_dcc2.Rd | 8 ++-- man/loglik_eccc.Rd | 12 +++--- man/p_mat.Rd | 12 +++--- man/rob_kr.Rd | 6 +-- man/rob_sk.Rd | 6 +-- man/stationarity.Rd | 18 +++++----- man/stcc_sim.Rd | 30 ++++++++-------- man/tr_func.Rd | 4 +- man/uni_vola.Rd | 14 +++---- man/uni_vola_sim.Rd | 25 +++++++------- man/vdR.Rd | 6 +-- man/vec_garch_derivative.Rd | 10 ++--- man/vector_garch.Rd | 18 +++++----- src/Makevars | 2 - src/Makevars.win | 2 - 42 files changed, 352 insertions(+), 280 deletions(-)
Author: Sundar Dorai-Raj and Spencer Graves
Title: R companion to "Curve and Surface Fitting with Splines"
Description: This package provides a wrapper to the FITPACK routines
written by Paul Dierckx. The original Fortran is available from
http://www.netlib.org/dierckx
Diff between DierckxSpline versions 1.1-2 dated 2009-01-13 and 1.1-3 dated 2009-04-16
DESCRIPTION | 31 +++++++++++++++++++------------ inst/scripts/Dierckx.xls |binary 2 files changed, 19 insertions(+), 12 deletions(-)
Author: Hadley Wickham
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. For example, you might want to fit a model to each
spatial location or time point in your study, summarise data by
panels or collapse high-dimensional arrays to simpler summary
statistics.
Diff between plyr versions 0.1.6 dated 2009-04-15 and 0.1.7 dated 2009-04-15
DESCRIPTION | 6 +++--- NEWS | 6 +++++- R/rbind.r | 21 ++++++++++++++++----- 3 files changed, 24 insertions(+), 9 deletions(-)
More information about markerSearchPower at CRAN
Permanent link
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 2.0-3 dated 2009-02-20 and 2.0-4 dated 2009-04-15
DESCRIPTION | 13 ++-- inst/scripts/ch14.R | 4 - man/melanom.Rd | 2 tests/allscripts.R | 130 ++++++++++++++++++++++----------------------- tests/allscripts.Rout.save | 8 +- 5 files changed, 80 insertions(+), 77 deletions(-)
Author: James Honaker
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.
Diff between Amelia versions 1.2-0 dated 2009-04-14 and 1.2-1 dated 2009-04-15
DESCRIPTION | 8 R/emb.r | 4 inst/doc/amelia.log | 4 inst/doc/amelia.pdf | 1744 +++++++++++++++++++++++++-------------------------- inst/doc/amelia.tex | 2 inst/doc/index.shtml | 2 6 files changed, 899 insertions(+), 865 deletions(-)
Author: T. Hastie, R. Tibshirani, Balasubramanian Narasimhan, Gil Chu
Title: Pam: prediction analysis for microarrays
Description: Some functions for sample classification in microarrays
Diff between pamr versions 1.31 dated 2007-10-02 and 1.33 dated 2009-04-15
pamr-1.31/pamr/old.inst |only pamr-1.33/pamr/DESCRIPTION | 12 +++++---- pamr-1.33/pamr/R/pamr.listgenes.R | 1 pamr-1.33/pamr/R/pamr.survfuns.R | 32 +++++++++++++------------- pamr-1.33/pamr/man/pamr.confusion.survival.Rd | 9 +++---- pamr-1.33/pamr/man/pamr.cv.Rd | 6 ++-- pamr-1.33/pamr/man/pamr.from.excel.Rd | 12 ++++----- pamr-1.33/pamr/man/pamr.knnimpute.Rd | 2 - pamr-1.33/pamr/man/pamr.listgenes.Rd | 1 pamr-1.33/pamr/man/pamr.makeclasses.Rd | 2 - pamr-1.33/pamr/man/pamr.plotcen.Rd | 2 - pamr-1.33/pamr/man/pamr.predict.Rd | 2 - pamr-1.33/pamr/man/pamr.predictmany.Rd | 2 - pamr-1.33/pamr/man/pamr.surv.to.class2.Rd | 2 - pamr-1.33/pamr/man/pamr.to.excel.Rd | 3 -- pamr-1.33/pamr/man/pamr.train.Rd | 9 +++---- 16 files changed, 49 insertions(+), 48 deletions(-)
Author: Robert B. Gramacy
Title: Estimation for multivariate normal and Student-t data with
monotone missingness
Description: Estimation of multivariate normal and student-t 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 a nearly arbitrary amount of
missing data. The current version supports maximum likelihood
inference and a full Bayesian approach employing scale-mixtures
for the lasso (double-exponential) prior and Student-t errors.
Monotone data augmentation extends this Bayesian approach to
arbitrary missingness patterns. A fully functional standalone
interface to the Bayesian lasso (from Park & Casella) and ridge
regression with model selection via Reversible Jump, and
student-t errors (from Geweke) is also provided
Diff between monomvn versions 1.6-1 dated 2008-12-11 and 1.7 dated 2009-04-15
ChangeLog | 34 + DESCRIPTION | 34 + R/blasso.R | 56 ++- R/blasso.s3.R | 37 +- R/bmonomvn.R | 37 +- R/bmonomvn.traces.R | 16 R/kl.norm.R | 6 R/monomvn.s3.R | 80 +++- R/randmvn.R | 4 man/blasso.Rd | 50 ++ man/blasso.s3.Rd | 28 + man/bmonomvn.Rd | 52 ++- man/default.QP.Rd | 23 - man/monomvn-package.Rd | 27 - man/monomvn.s3.Rd | 2 man/plot.monomvn.Rd | 6 man/randmvn.Rd | 7 man/returns.Rd | 4 src/blasso.cc | 842 +++++++++++++++++++++++++++++++++---------------- src/blasso.h | 70 ++-- src/bmonomvn.cc | 188 ++++++++-- src/bmonomvn.h | 25 + src/matrix.c | 22 - src/matrix.h | 7 src/nu.c |only src/nu.h |only src/ustructs.cc | 100 +++++ src/ustructs.h | 3 28 files changed, 1265 insertions(+), 495 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 0.3.2 dated 2009-03-11 and 0.3.3 dated 2009-04-15
DESCRIPTION | 35 ++++++++++++++++++++++------------- inst |only 2 files changed, 22 insertions(+), 13 deletions(-)
Author: Giovanni Petris
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
Diff between dlm versions 0.99-0 dated 2009-01-14 and 1.0-0 dated 2009-04-15
DESCRIPTION | 14 ++-- R/DLM.R | 178 ++++++++++++++++++++++------------------------------- inst/doc/dlm.pdf |binary man/dlmFilter.Rd | 3 man/dlmForecast.Rd | 4 - man/dlmGibbsDIG.Rd | 6 + man/dlmLL.Rd | 3 man/dlmMLE.Rd | 4 + man/dlmRandom.Rd | 4 - man/dlmSmooth.Rd | 3 man/rwishart.Rd | 2 11 files changed, 107 insertions(+), 114 deletions(-)
Author: Yu-Sung Su
Title: A Package for Running jags from R
Description: Using this package to call jags from R.
Diff between R2jags versions 0.01-21 dated 2009-03-11 and 0.01-22 dated 2009-04-15
CHANGELOG | 5 +++++ DESCRIPTION | 8 ++++---- R/jags.R | 24 ++++++++++++++++++------ man/jags.Rd | 13 +++++++------ 4 files changed, 34 insertions(+), 16 deletions(-)
Author: Hormuzd A. Katki
Title: Survival Analysis for Cohorts with Missing Covariate Information
Description: Estimate hazard ratios, survival curves and attributable
risks for cohorts with missing covariates, using Cox models or
Kaplan-Meier estimated for strata. This handles studies nested
within cohorts, such as case-cohort studies with stratified
sampling. See
http://www.r-project.org/doc/Rnews/Rnews_2008-1.pdf
Diff between NestedCohort versions 1.0-1 dated 2007-09-26 and 1.1-1 dated 2009-04-15
NestedCohort-1.0-1/NestedCohort/inst/doc/NestedCohort-PlotKM.eps |only NestedCohort-1.0-1/NestedCohort/inst/doc/NestedCohort-PlotKM.pdf |only NestedCohort-1.0-1/NestedCohort/inst/doc/NestedCohort-PlotStdSurv.eps |only NestedCohort-1.0-1/NestedCohort/inst/doc/NestedCohort-PlotStdSurv.pdf |only NestedCohort-1.0-1/NestedCohort/inst/doc/NestedCohort.aux |only NestedCohort-1.0-1/NestedCohort/inst/doc/NestedCohort.log |only NestedCohort-1.0-1/NestedCohort/inst/doc/NestedCohort.tex |only NestedCohort-1.0-1/NestedCohort/inst/doc/NestedCohort.toc |only NestedCohort-1.1-1/NestedCohort/CITATION | 65 ++++++---- NestedCohort-1.1-1/NestedCohort/DESCRIPTION | 29 ++-- NestedCohort-1.1-1/NestedCohort/R/nested.coxph.R | 2 NestedCohort-1.1-1/NestedCohort/R/nested.km.R | 8 - NestedCohort-1.1-1/NestedCohort/R/nested.stdsurv.R | 2 NestedCohort-1.1-1/NestedCohort/inst/doc/NestedCohort.Rnw | 10 + NestedCohort-1.1-1/NestedCohort/inst/doc/NestedCohort.pdf |binary NestedCohort-1.1-1/NestedCohort/inst/doc/Rplots.pdf |only NestedCohort-1.1-1/NestedCohort/inst/doc/S.sty |only NestedCohort-1.1-1/NestedCohort/inst/doc/auto/NestedCohort.el | 15 +- NestedCohort-1.1-1/NestedCohort/man/nested.coxph.Rd | 31 ++-- NestedCohort-1.1-1/NestedCohort/man/nested.km.Rd | 34 ++--- NestedCohort-1.1-1/NestedCohort/man/nested.stdsurv.Rd | 36 +++-- 21 files changed, 140 insertions(+), 92 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 1.15-1 dated 2008-12-19 and 1.15-2 dated 2009-04-15
DESCRIPTION | 20 R/adonis.R | 24 R/anova.ccabyaxis.R | 9 R/anova.ccabymargin.R | 2 R/beals.R | 76 +- R/betadisper.R | 49 + R/commsimulator.R | 3 R/contribdiv.R |only R/cophenetic.spantree.R | 2 R/decostand.R | 2 R/dispindmorisita.R |only R/kendall.global.R |only R/kendall.post.R |only R/metaMDS.R | 7 R/metaMDSdist.R | 20 R/mrpp.R | 34 R/nestednodf.R |only R/ordirgl.R | 4 R/ordisurf.R | 12 R/orditkplot.R | 10 R/plot.rad.R | 4 R/plot.spantree.R | 4 R/points.procrustes.R | 13 R/postMDS.R | 16 R/print.adonis.R | 2 R/print.mrpp.R | 9 R/print.nestednodf.R |only R/print.summary.cca.R | 6 R/rad.null.R | 6 R/spantree.R | 5 R/summary.cca.R | 8 data/mite.rda |binary inst/ChangeLog | 92 ++ inst/NEWS | 79 ++ inst/doc/FAQ-vegan.pdf |binary inst/doc/decision-vegan.pdf | 1624 +++++++++++++++++++++---------------------- inst/doc/decision-vegan.tex | 16 inst/doc/diversity-vegan.pdf |binary inst/doc/diversity-vegan.tex | 77 -- inst/doc/intro-vegan.pdf |binary inst/doc/intro-vegan.tex | 78 +- man/add1.cca.Rd | 20 man/adonis.Rd | 43 + man/anova.cca.Rd | 57 - man/beals.Rd | 78 +- man/betadisper.Rd | 14 man/cascadeKM.Rd | 8 man/cca.object.Rd | 5 man/contribdiv.Rd |only man/decorana.Rd | 2 man/decostand.Rd | 5 man/dispindmorisita.Rd |only man/envfit.Rd | 6 man/kendall.global.Rd |only man/metaMDS.Rd | 20 man/mrpp.Rd | 30 man/mso.Rd | 45 - man/nestedtemp.Rd | 45 + man/oecosimu.Rd | 3 man/ordisurf.Rd | 29 man/procrustes.Rd | 4 man/radfit.Rd | 10 man/spantree.Rd | 14 man/specpool.Rd | 2 man/vegdist.Rd | 6 65 files changed, 1646 insertions(+), 1113 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 0.6-3 dated 2009-04-14 and 0.6-4 dated 2009-04-15
DESCRIPTION | 8 ++++---- R/vect_link.R | 2 +- man/readVECT6.Rd | 2 +- 3 files changed, 6 insertions(+), 6 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 2.0.4 dated 2009-02-18 and 2.0.5 dated 2009-04-15
DESCRIPTION | 14 ++++++++------ R/cpoint.R | 9 +++++---- data/DWJ.rda |binary inst/doc/changes.txt | 4 ++++ 4 files changed, 17 insertions(+), 10 deletions(-)
Author: Hadley Wickham
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. For example, you might want to fit a model to each
spatial location or time point in your study, summarise data by
panels or collapse high-dimensional arrays to simpler summary
statistics.
Diff between plyr versions 0.1.5 dated 2009-02-24 and 0.1.6 dated 2009-04-15
plyr-0.1.5/plyr/R/indexed-list.r |only plyr-0.1.5/plyr/R/simplify.r |only plyr-0.1.5/plyr/inst/doc |only plyr-0.1.5/plyr/man/indexed-list-55.rd |only plyr-0.1.6/plyr/ANNOUNCE | 38 +++------ plyr-0.1.6/plyr/DESCRIPTION | 14 ++- plyr-0.1.6/plyr/NEWS | 24 ++++++ plyr-0.1.6/plyr/R/helper-col-wise.r | 3 plyr-0.1.6/plyr/R/helper-each.r | 44 +++++++++-- plyr-0.1.6/plyr/R/helper-splat.r | 1 plyr-0.1.6/plyr/R/helper-try.r | 11 ++ plyr-0.1.6/plyr/R/indexed-array.r |only plyr-0.1.6/plyr/R/indexed-data-frame.r |only plyr-0.1.6/plyr/R/indexed.r |only plyr-0.1.6/plyr/R/ninteraction.r | 2 plyr-0.1.6/plyr/R/ply-array.r | 8 -- plyr-0.1.6/plyr/R/ply-data-frame.r | 6 + plyr-0.1.6/plyr/R/ply-list.r | 43 +++++++--- plyr-0.1.6/plyr/R/ply-mapply.r | 1 plyr-0.1.6/plyr/R/ply-null.r | 2 plyr-0.1.6/plyr/R/progress.r | 5 - plyr-0.1.6/plyr/R/rbind.r | 64 ++++++++++++++-- plyr-0.1.6/plyr/R/simplify-array.r |only plyr-0.1.6/plyr/R/simplify-data-frame.r |only plyr-0.1.6/plyr/R/simplify-vector.r |only plyr-0.1.6/plyr/R/split-array.r |only plyr-0.1.6/plyr/R/split-data-frame.r |only plyr-0.1.6/plyr/R/split.r | 102 -------------------------- plyr-0.1.6/plyr/R/utils.r | 2 plyr-0.1.6/plyr/load.r | 11 -- plyr-0.1.6/plyr/man/aaply-ym.rd | 11 -- plyr-0.1.6/plyr/man/adply-du.rd | 3 plyr-0.1.6/plyr/man/alply-wh.rd | 10 -- plyr-0.1.6/plyr/man/as-df-d2.rd |only plyr-0.1.6/plyr/man/create-progress-bar-4d.rd | 2 plyr-0.1.6/plyr/man/daply-7r.rd | 12 --- plyr-0.1.6/plyr/man/data-baseball.rd | 3 plyr-0.1.6/plyr/man/ddply-5k.rd | 6 + plyr-0.1.6/plyr/man/dlply-7t.rd | 5 - plyr-0.1.6/plyr/man/each-4v.rd | 3 plyr-0.1.6/plyr/man/failwith-sc.rd | 10 ++ plyr-0.1.6/plyr/man/get--split-0n.rd | 2 plyr-0.1.6/plyr/man/indexed-array-4w.rd |only plyr-0.1.6/plyr/man/indexed-df-uf.rd |only plyr-0.1.6/plyr/man/laply-10.rd | 10 -- plyr-0.1.6/plyr/man/list-to-array-ki.rd | 2 plyr-0.1.6/plyr/man/list-to-dataframe-zb.rd | 2 plyr-0.1.6/plyr/man/list-to-vector-27.rd |only plyr-0.1.6/plyr/man/llply-12.rd | 12 --- plyr-0.1.6/plyr/man/m-ply-5z.rd | 3 plyr-0.1.6/plyr/man/ninteraction-vw.rd | 2 plyr-0.1.6/plyr/man/print-split-fc.rd | 2 plyr-0.1.6/plyr/man/progress-none-u0.rd | 2 plyr-0.1.6/plyr/man/rbind-fill-di.rd | 8 +- plyr-0.1.6/plyr/man/splat-n6.rd | 5 + plyr-0.1.6/plyr/man/split-labels-0o.rd |only plyr-0.1.6/plyr/man/splitter-a-cs.rd | 6 + plyr-0.1.6/plyr/man/splitter-d-cs.rd | 15 +++ plyr-0.1.6/plyr/man/unrowname-ef.rd | 2 59 files changed, 265 insertions(+), 254 deletions(-)
Author: Thomas A. Gerds
Title: Prediction Error Curves for Survival Models
Description: Validation of predicted surival probabilities using
inverse weighting and resampling.
Diff between pec versions 1.0.7 dated 2008-07-28 and 1.1.0 dated 2009-04-15
DESCRIPTION | 9 +++++--- NAMESPACE | 4 ++- R/cindex.R |only R/crps.R | 2 - R/pecMethods.R | 51 +++++++++++++++----------------------------------- R/plot.pec.R | 9 +++----- R/predictSurvOrder.R |only R/predictSurvProb.R | 24 ++++++++--------------- R/print.Cindex.R |only R/resolveReplan.R | 11 +--------- R/survest.aalen.R |only R/survest.cox.aalen.R |only dev |only exa/Pec-Examples.R | 1 man/ipcw.Rd | 17 +++++++--------- man/pec.Rd | 43 ++++++++++++++++++------------------------ man/plot.pec.Rd | 5 ---- src/cindex.c | 8 +++---- 18 files changed, 72 insertions(+), 112 deletions(-)
Author: Ole F. Christensen
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.
Diff between geoRglm versions 0.8-24 dated 2008-04-29 and 0.8-25 dated 2009-04-15
DESCRIPTION | 18 ++++++++++++------ R/pois.bayes.R | 2 +- inst/doc/geoRglmintro.pdf |binary man/asympvar.Rd | 2 +- man/b50.Rd | 2 +- man/binom.krige.Rd | 2 +- man/binom.krige.bayes.Rd | 2 +- man/covariog.Rd | 2 +- man/covariog.model.env.Rd | 2 +- man/create.mcmc.coda.Rd | 2 +- man/glsm.krige.Rd | 2 +- man/glsm.mcmc.Rd | 2 +- man/likfit.glsm.Rd | 2 +- man/lines.covariomodel.Rd | 2 +- man/pois.krige.Rd | 2 +- man/pois.krige.bayes.Rd | 2 +- man/proflik.glsm.Rd | 2 +- man/rongelap.Rd | 6 +++--- 18 files changed, 30 insertions(+), 24 deletions(-)
Author: Karsten Tabelow
Title: DTI/DWI 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).
Diff between dti versions 0.6-0 dated 2008-12-04 and 0.8-0 dated 2009-04-15
DESCRIPTION | 38 +-- HISTORY | 6 NAMESPACE | 4 R/Classes.r | 65 ++++- R/aws.r | 9 R/aws2.r | 33 ++ R/dti.r | 544 +++++++++++++++++++++++++++++++++++++++---- R/misc.r | 88 ++++++ R/show3d.r |only R/unix |only R/windows |only data |only demo/dti_art.r | 23 + inst/rcode/createpolyeders.r |only inst/rcode/generatedata2.r |only man/dti-class.Rd | 33 ++ man/dti.smooth-methods.Rd | 7 man/dwiQball-methods.Rd |only man/extract-methods.Rd | 13 - man/plot-methods.Rd | 8 man/polyeder.Rd |only man/print-methods.Rd | 10 man/show3d-methods.Rd | 46 ++- man/summary-methods.Rd | 10 src/aniso.f | 2 src/dtifull.f | 5 src/dtinraw2.f | 10 src/show3d.f |only 28 files changed, 832 insertions(+), 122 deletions(-)
Author: Matthias Kohl, Peter Ruckdeschel
Title: Extensions of package distr
Description: Extensions of package distr and some additional
functionality
Diff between distrEx versions 2.0.5 dated 2009-02-20 and 2.1 dated 2009-04-15
distrEx-2.0.5/distrEx/R/Expectation_LebDec.R |only distrEx-2.1/distrEx/DESCRIPTION | 33 distrEx-2.1/distrEx/NAMESPACE | 16 distrEx-2.1/distrEx/R/AllClass.R | 103 ++ distrEx-2.1/distrEx/R/AllGeneric.R | 13 distrEx-2.1/distrEx/R/AllInitialize.R | 101 ++ distrEx-2.1/distrEx/R/AsymTotalVarDist.R |only distrEx-2.1/distrEx/R/ClippedMoments.R | 301 ++++++- distrEx-2.1/distrEx/R/ConvexContamination.R | 18 distrEx-2.1/distrEx/R/DiscreteMVDistribution.R | 2 distrEx-2.1/distrEx/R/Expectation.R | 530 ++++++++++++-- distrEx-2.1/distrEx/R/Functionals.R | 244 +++++- distrEx-2.1/distrEx/R/Gumbel.R | 9 distrEx-2.1/distrEx/R/HellingerDist.R | 58 + distrEx-2.1/distrEx/R/Internalfunctions.R | 8 distrEx-2.1/distrEx/R/KolmogorovDist.R | 20 distrEx-2.1/distrEx/R/Kurtosis.R | 235 ++++-- distrEx-2.1/distrEx/R/LMCondDistribution.R | 6 distrEx-2.1/distrEx/R/OAsymTotalVarDist.R |only distrEx-2.1/distrEx/R/Pareto.R |only distrEx-2.1/distrEx/R/PrognCondDistribution.R | 52 - distrEx-2.1/distrEx/R/Skewness.R | 220 ++++- distrEx-2.1/distrEx/R/TotalVarDist.R | 83 +- distrEx-2.1/distrEx/R/distrExOptions.R | 3 distrEx-2.1/distrEx/demo/Prognose.R | 1 distrEx-2.1/distrEx/inst/NEWS | 44 + distrEx-2.1/distrEx/man/0distrEx-package.Rd | 13 distrEx-2.1/distrEx/man/AbscontCondDistribution-class.Rd | 4 distrEx-2.1/distrEx/man/AsymTotalVarDist.Rd |only distrEx-2.1/distrEx/man/DiscreteCondDistribution-class.Rd | 4 distrEx-2.1/distrEx/man/DiscreteMVDistribution-class.Rd | 6 distrEx-2.1/distrEx/man/E.Rd | 226 ++++- distrEx-2.1/distrEx/man/Gumbel-class.Rd | 25 distrEx-2.1/distrEx/man/HellingerDist.Rd | 44 - distrEx-2.1/distrEx/man/OAsymTotalVarDist.Rd |only distrEx-2.1/distrEx/man/Pareto-class.Rd |only distrEx-2.1/distrEx/man/Pareto.Rd |only distrEx-2.1/distrEx/man/ParetoParameter-class.Rd |only distrEx-2.1/distrEx/man/PrognCondDistribution-class.Rd | 23 distrEx-2.1/distrEx/man/PrognCondDistribution.Rd |only distrEx-2.1/distrEx/man/TotalVarDist.Rd | 43 - distrEx-2.1/distrEx/man/Var.Rd | 102 ++ distrEx-2.1/distrEx/man/distrExConstants.Rd |only distrEx-2.1/distrEx/man/distrExOptions.Rd | 33 distrEx-2.1/distrEx/man/internals.Rd |only distrEx-2.1/distrEx/man/m1df.Rd | 37 distrEx-2.1/distrEx/man/m2df.Rd | 40 - 47 files changed, 2119 insertions(+), 581 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 2.0.3 dated 2008-11-30 and 2.1 dated 2009-04-15
DESCRIPTION | 38 inst/NEWS | 12 inst/doc/Rplots.pdf |only inst/doc/distr.R |only inst/doc/distr.Rnw | 835 inst/doc/distr.pdf |90414 +++++++++++++++++++++++++++-------------------- inst/doc/svn-multi.sty |only inst/doc/svnkw.sty |only man/0distrDoc-package.Rd | 4 9 files changed, 54032 insertions(+), 37271 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 2.0.6 dated 2009-02-20 and 2.1 dated 2009-04-15
DESCRIPTION | 35 NAMESPACE | 8 R/0distrOptions.R | 4 R/AllClasses.R | 462 ++-- R/AllGenerics.R | 24 R/AllInitialize.R | 49 R/CompoundDistribution.R |only R/ContDistribution.R | 70 R/Convpow.r | 74 R/DiscreteDistribution.R | 112 - R/Distribution.R | 26 R/ExtraConvolutionMethods.R | 2 R/LatticeDistribution.R | 67 R/MinMaximum.R | 2 R/SimplifyD.R | 2 R/Truncate.R | 125 + R/UnivarLebDecDistribution.R | 145 + R/UnivarMixingDistribution.R | 52 R/UtilitiesDistributions.R | 9 R/bAcDcLcDistribution.R | 264 +- R/bAffLinUnivarLebDecDistribution.R | 24 R/flat.R | 2 R/getLow.R | 119 + R/internalUtils.R | 192 + R/internalUtils_LCD.R | 60 R/internalUtils_trunc.R |only R/makeAbscontDistribution.R |only R/plot-methods.R | 243 +- R/plot-methods_LebDec.R | 349 ++- R/print-show-methods.R | 17 R/setIsRelations.R | 3 R/versionManagement.R | 10 demo/ConvolutionNormalDistr.R | 2 inst/NEWS | 176 + inst/doc/Rplots.pdf | 3568 +++++++++++++++++----------------- inst/doc/newDistributions.Rnw | 53 inst/doc/newDistributions.pdf |binary inst/doc/svn-multi.sty |only inst/doc/svnkw.sty |only man/0distr-package.Rd | 20 man/Arcsine-class.Rd | 6 man/Beta-class.Rd | 6 man/Binom-class.Rd | 6 man/Cauchy-class.Rd | 6 man/Chisq-class.Rd | 6 man/CompoundDistribution-class.Rd |only man/CompoundDistribution.Rd |only man/ContDistribution-class.Rd | 12 man/ContDistribution.Rd | 14 man/ConvPow.Rd | 14 man/DExp-class.Rd | 6 man/Dirac-class.Rd | 6 man/DiscreteDistribution-class.Rd | 32 man/DiscreteDistribution.Rd | 45 man/Distribution-class.Rd | 50 man/Fd-class.Rd | 6 man/Gammad-class.Rd | 6 man/Geom-class.Rd | 6 man/Huberize-methods.Rd | 4 man/Hyper-class.Rd | 6 man/Integer-class.Rd | 6 man/LatticeDistribution-class.Rd | 19 man/Lnorm-class.Rd | 6 man/Logis-class.Rd | 6 man/MakeAbscontDistribution.Rd |only man/Math-methods.Rd | 11 man/Nbinom-class.Rd | 6 man/Norm-class.Rd | 6 man/Pois-class.Rd | 6 man/Td-class.Rd | 6 man/Truncate-methods.Rd | 35 man/UnivarLebDecDistribution-class.Rd | 52 man/UnivarMixingDistribution-class.Rd | 11 man/UnivariateDistribution-class.Rd | 6 man/Weibull-class.Rd | 6 man/distroptions.Rd | 9 man/gap-methods.Rd | 7 man/getLow.Rd | 29 man/internals.Rd | 73 man/operators-methods.Rd | 17 man/p.l-methods.Rd | 16 man/plot-methods.Rd | 67 man/prob-methods.Rd | 40 man/q.r-methods.Rd | 16 man/showobj-methods.Rd | 2 85 files changed, 4400 insertions(+), 2665 deletions(-)
Author: Joerg Polzehl
Title: Adaptive Weights Smoothing
Description: The package contains R-functions implementing the
Propagation-Separation Approach to adaptive smoothing as
described in J. Polzehl and V. Spokoiny (2006),
Propagation-Separation Approach for Local Likelihood
Estimation, Prob. Theory and Rel. Fields, 135(3):335--362. and
J. Polzehl and V. Spokoiny (2004) Spatially adaptive regression
estimation: Propagation-separation approach, WIAS-Preprint 998.
Diff between aws versions 1.3-3.1 dated 2007-07-07 and 1.6 dated 2009-04-15
aws-1.3-3.1/aws/R/awstindex.r |only aws-1.3-3.1/aws/R/eaws.r |only aws-1.3-3.1/aws/R/haws.r |only aws-1.3-3.1/aws/R/laws.r |only aws-1.3-3.1/aws/man/awsbi.Rd |only aws-1.3-3.1/aws/man/awsdens.Rd |only aws-1.3-3.1/aws/man/awsh.Rd |only aws-1.3-3.1/aws/man/awstindex.Rd |only aws-1.3-3.1/aws/man/awstri.Rd |only aws-1.3-3.1/aws/man/awsuni.Rd |only aws-1.3-3.1/aws/man/getnubi.Rd |only aws-1.3-3.1/aws/man/getnutri.Rd |only aws-1.3-3.1/aws/man/laws.Rd |only aws-1.3-3.1/aws/src/aws.f |only aws-1.3-3.1/aws/src/dgemm.f |only aws-1.3-3.1/aws/src/eaws.f |only aws-1.3-3.1/aws/src/hawsuni.f |only aws-1.3-3.1/aws/src/laws.f |only aws-1.6/aws/COPYRIGHT | 2 aws-1.6/aws/DESCRIPTION | 36 - aws-1.6/aws/INDEX | 21 aws-1.6/aws/NAMESPACE |only aws-1.6/aws/R/Classes.r |only aws-1.6/aws/R/aws.r | 1059 ++++++++++++++++++++------------------- aws-1.6/aws/R/awsgaussian.r |only aws-1.6/aws/R/awsirregular.r |only aws-1.6/aws/R/lpaws.r |only aws-1.6/aws/R/misc.r |only aws-1.6/aws/README | 117 ---- aws-1.6/aws/demo |only aws-1.6/aws/man/aws.Rd | 456 ++++------------ aws-1.6/aws/man/aws.gaussian.Rd |only aws-1.6/aws/man/aws.irreg.Rd |only aws-1.6/aws/man/awsdata.Rd |only aws-1.6/aws/man/binning.Rd |only aws-1.6/aws/man/lpaws.Rd |only aws-1.6/aws/scripts |only aws-1.6/aws/src/Makevars |only aws-1.6/aws/src/Rentries.c |only aws-1.6/aws/src/awslp.f |only aws-1.6/aws/src/caws.f |only aws-1.6/aws/src/cawsmask.f |only aws-1.6/aws/src/misc.f |only 43 files changed, 728 insertions(+), 963 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 0.1.1 dated 2008-11-30 and 0.2 dated 2009-04-15
DESCRIPTION | 37 ++-- R/SweaveListingUtils.R | 10 - inst/NEWS | 24 +++ inst/doc/ExampleSweaveListingUtils.Rnw | 250 +++++++++++++++++++++++++++++++-- inst/doc/ExampleSweaveListingUtils.pdf |binary inst/doc/altPrep.tex |only inst/doc/locChange.tex |only inst/doc/preambleExp.tex | 152 -------------------- inst/doc/svn-multi.sty |only inst/doc/svnkw.sty |only man/0SweaveListingUtils-package.Rd | 3 11 files changed, 293 insertions(+), 183 deletions(-)
More information about SweaveListingUtils at CRAN
Permanent link
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 3.13 dated 2009-03-27 and 3.14 dated 2009-04-15
DESCRIPTION | 6 - INDEX | 10 -- NAMESPACE | 1 R/margins.R |only R/survey.R | 1 R/svykm.R | 189 ++++++++++++++++++++++++++++++++++++++++++---- TODO | 2 inst/CITATION | 4 inst/NEWS | 11 ++ inst/doc/domain.pdf |binary inst/doc/epi.pdf |binary inst/doc/phase1.pdf |binary inst/doc/survey.pdf |binary inst/porting.to.S | 4 man/calibrate.Rd | 14 +-- man/surveysummary.Rd | 32 ++++--- man/svycoxph.Rd | 59 ++++++++++++-- man/svydesign.Rd | 1 man/svyglm.Rd | 1 man/svykm.Rd | 47 +++++++++-- man/svyquantile.Rd | 10 +- tests/README | 4 tests/survcurve.R |only tests/survcurve.Rout.save |only 24 files changed, 327 insertions(+), 69 deletions(-)
Author: Peter Ruckdeschel
Title: Utilities for start-up messages
Description: Utilities for start-up messages
Diff between startupmsg versions 0.5.3 dated 2008-11-30 and 0.6 dated 2009-04-15
DESCRIPTION | 27 ++++++++++++++++----------- inst/NEWS | 9 +++++++++ 2 files changed, 25 insertions(+), 11 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 0.15-3 dated 2009-02-21 and 0.15-4 dated 2009-04-15
DESCRIPTION | 27 ++++++++++++++------------- R/definitions.R | 10 +++++----- R/dist.R | 3 ++- R/foreign.R | 5 +++-- R/kronecker.R | 6 +++--- R/plotting.R | 3 ++- R/profile.R | 20 +++++++++++++++++++- R/spam_solve.R | 12 ++++++------ R/xybind.R | 11 ++++++----- demo/article-jss.R | 3 ++- demo/cholesky.R | 3 ++- demo/spam.R | 3 ++- demo/timing.R | 3 ++- inst/NEWS | 10 ++++++++++ man/SPAM.Rd | 12 ++++++++++-- man/UScounties.Rd | 3 ++- man/USprecip.Rd | 3 ++- man/allequal.Rd | 3 ++- man/chol.Rd | 3 ++- man/det.Rd | 3 ++- man/diag.Rd | 3 ++- man/dim.Rd | 3 ++- man/display.Rd | 3 ++- man/foreign.Rd | 3 ++- man/history.spam.Rd | 3 ++- man/image.Rd | 3 ++- man/import.Rd | 3 ++- man/isSymmetric.Rd | 3 ++- man/kronecker.Rd | 3 ++- man/lu.tri.Rd | 3 ++- man/math.Rd | 3 ++- man/math2.Rd | 5 +++-- man/nearestdist.Rd | 3 ++- man/operations.Rd | 3 ++- man/options.Rd | 13 +++++++++---- man/ordering.Rd | 3 ++- man/powerboost.Rd |only man/print.Rd | 3 ++- man/solve.Rd | 3 ++- man/spam-class.Rd | 6 +++--- man/spam.chol.NgPeyton-class.Rd | 3 ++- man/spam.creation.Rd | 3 ++- man/spam.internal.Rd | 3 ++- man/summary.Rd |only man/todo.Rd | 3 ++- man/triplet.Rd | 3 ++- man/version.Rd | 3 ++- man/xybind.Rd | 12 +++++------- tests/demo_article-jss.R | 3 ++- tests/demo_article-jss.Rout.save | 9 +++++---- tests/demo_cholesky.R | 3 ++- tests/demo_cholesky.Rout.save | 9 +++++---- tests/demo_spam.R | 3 ++- tests/demo_spam.Rout.save | 9 +++++---- tests/demo_timing.R | 3 ++- tests/demo_timing.Rout.save | 9 +++++---- tests/displays.R | 3 ++- tests/displays.Rout.save | 9 +++++---- tests/dist.R | 3 ++- tests/dist.Rout.save | 9 +++++---- tests/foreign.R | 3 ++- tests/foreign.Rout.save | 7 ++++--- tests/kronecker.R | 3 ++- tests/kronecker.Rout.save | 9 +++++---- tests/overall.R | 3 ++- tests/overall.Rout.save | 9 +++++---- tests/solve.R | 3 ++- tests/solve.Rout.save | 9 +++++---- tests/xybind.R | 3 ++- tests/xybind.Rout.save | 9 +++++---- 70 files changed, 238 insertions(+), 140 deletions(-)
Author: Manuel Morales
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.
Diff between sciplot versions 1.0-4 dated 2009-02-17 and 1.0-5 dated 2009-04-15
CHANGELOG | 1 + DESCRIPTION | 14 ++++++++------ R/bargraphCI.R | 10 +++++++--- R/bargraphCI2.R |only 4 files changed, 16 insertions(+), 9 deletions(-)
Author: Thomas Baier
Title: statconn: 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,
statconnDCOM, ROOo and other systems.
Diff between rscproxy versions 1.2-0 dated 2009-03-20 and 1.3-1 dated 2009-04-15
DESCRIPTION | 8 +++---- src/rproxy.c | 41 +++++++++++++++++++++++++++++++++----- src/rproxy_impl.c | 57 +++++++++++++++++++++++++++++++++++++----------------- 3 files changed, 79 insertions(+), 27 deletions(-)
Author: Jens Oehlschl�gel
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.
Diff between rindex versions 0.08 dated 2008-08-01 and 0.09 dated 2009-04-15
DESCRIPTION | 30 +++++++++++++++++------------- R/index.R | 2 +- man/index.rd | 2 +- 3 files changed, 19 insertions(+), 15 deletions(-)
Author: Jens Oehlschl�gel
Title: References for R
Description: small package with functions for creating references,
reading from and writing ro references and a memory efficient
refdata type that transparently encapsulates matrixes and
data.frames
Diff between ref versions 0.95 dated 2007-10-22 and 0.96 dated 2009-04-15
DESCRIPTION | 29 +++++++++++++++++------------ R/refdata.R | 2 +- man/optimal.index.rd | 2 +- 3 files changed, 19 insertions(+), 14 deletions(-)
Author: Andrew Gelman
Title: Missing Data Imputation and Model Checking
Description: Missing-data imputation and model checking
Diff between mi versions 0.04-6 dated 2009-04-01 and 0.05-1 dated 2009-04-15
mi-0.04-6/mi/man/glm.mi.Rd |only mi-0.04-6/mi/man/lm.mi.Rd |only mi-0.04-6/mi/man/lmer.mi.Rd |only mi-0.05-1/mi/CHANGELOG | 61 +++++++--- mi-0.05-1/mi/DESCRIPTION | 11 - mi-0.05-1/mi/NAMESPACE | 10 + mi-0.05-1/mi/R/AllClass.R | 33 +---- mi-0.05-1/mi/R/AllInternal.R | 66 ++++++++++- mi-0.05-1/mi/R/bayesglm.mi.R | 20 --- mi-0.05-1/mi/R/bayespolr.mi.R |only mi-0.05-1/mi/R/coef.R | 30 ----- mi-0.05-1/mi/R/display.R | 41 ------ mi-0.05-1/mi/R/glm.mi.R | 17 -- mi-0.05-1/mi/R/imputation.models.R | 20 +-- mi-0.05-1/mi/R/lm.mi.R | 19 +-- mi-0.05-1/mi/R/lmer.mi.R | 48 ++------ mi-0.05-1/mi/R/mi.R | 95 +++++++-------- mi-0.05-1/mi/R/mi.completed.R | 15 ++ mi-0.05-1/mi/R/mi.info.R | 54 ++++----- mi-0.05-1/mi/R/mi.pooled.R |only mi-0.05-1/mi/R/mi.preprocess.R | 220 +++++++++++-------------------------- mi-0.05-1/mi/R/plot.R | 2 mi-0.05-1/mi/R/polr.mi.R |only mi-0.05-1/mi/R/print.R | 11 - mi-0.05-1/mi/R/se.coef.R | 14 -- mi-0.05-1/mi/TODO | 13 ++ mi-0.05-1/mi/man/mi.Rd | 17 +- mi-0.05-1/mi/man/mi.completed.Rd | 8 - mi-0.05-1/mi/man/mi.info.Rd | 4 mi-0.05-1/mi/man/mi.pooled.Rd |only mi-0.05-1/mi/man/mi.preprocess.Rd | 8 - mi-0.05-1/mi/man/type.models.Rd | 1 mi-0.05-1/mi/man/typecast.Rd | 1 33 files changed, 359 insertions(+), 480 deletions(-)
Author: Guido Schwarzer
Title: Meta-Analysis
Description: Fixed and random effects meta-analysis. Functions for
tests of bias, forest and funnel plot.
Diff between meta versions 0.9-18 dated 2009-03-03 and 0.9-19 dated 2009-04-15
DESCRIPTION | 11 +++++++---- R/metabin.R | 10 +++++++++- R/metacont.R | 11 +++++++++++ R/metagen.R | 7 +++++++ R/metaprop.R | 7 +++++++ 5 files changed, 41 insertions(+), 5 deletions(-)
Author: Karline Soetaert
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
Diff between limSolve versions 1.3 dated 2008-10-29 and 1.4 dated 2009-04-15
limSolve-1.3/limSolve/R/inverse.R |only limSolve-1.4/limSolve/DESCRIPTION | 41 limSolve-1.4/limSolve/NAMESPACE | 4 limSolve-1.4/limSolve/R/Solve.R |only limSolve-1.4/limSolve/R/Solve.banded.R |only limSolve-1.4/limSolve/R/Solve.block.R |only limSolve-1.4/limSolve/R/Solve.tridiag.R |only limSolve-1.4/limSolve/R/ldei.R |only limSolve-1.4/limSolve/R/ldp.R |only limSolve-1.4/limSolve/R/linp.R |only limSolve-1.4/limSolve/R/lsei.R |only limSolve-1.4/limSolve/R/nnls.R |only limSolve-1.4/limSolve/R/resolution.R |only limSolve-1.4/limSolve/R/varranges.R |only limSolve-1.4/limSolve/R/varsample.R |only limSolve-1.4/limSolve/R/xranges.R |only limSolve-1.4/limSolve/R/xsample.R |only limSolve-1.4/limSolve/inst/doc/limSolve.pdf |84646 ++++++++++++++-------------- limSolve-1.4/limSolve/inst/doc/limSolve.rnw | 866 limSolve-1.4/limSolve/inst/doc/xsample.pdf |binary limSolve-1.4/limSolve/inst/doc/xsample.rnw | 368 limSolve-1.4/limSolve/man/Blending.Rd | 128 limSolve-1.4/limSolve/man/Chemtax.Rd | 191 limSolve-1.4/limSolve/man/E_coli.Rd | 119 limSolve-1.4/limSolve/man/Minkdiet.Rd | 139 limSolve-1.4/limSolve/man/RigaWeb.rd | 88 limSolve-1.4/limSolve/man/Solve.Rd | 54 limSolve-1.4/limSolve/man/Solve.banded.Rd | 91 limSolve-1.4/limSolve/man/Solve.block.Rd |only limSolve-1.4/limSolve/man/Solve.tridiag.Rd | 71 limSolve-1.4/limSolve/man/ldei.Rd | 109 limSolve-1.4/limSolve/man/ldp.Rd | 79 limSolve-1.4/limSolve/man/limSolve.rd | 54 limSolve-1.4/limSolve/man/linp.Rd | 126 limSolve-1.4/limSolve/man/lsei.Rd | 177 limSolve-1.4/limSolve/man/nnls.Rd | 86 limSolve-1.4/limSolve/man/resolution.Rd | 64 limSolve-1.4/limSolve/man/varranges.Rd | 76 limSolve-1.4/limSolve/man/varsample.Rd | 46 limSolve-1.4/limSolve/man/xranges.Rd | 105 limSolve-1.4/limSolve/man/xsample.Rd | 254 limSolve-1.4/limSolve/src/Makevars |only limSolve-1.4/limSolve/src/colrow.f |only limSolve-1.4/limSolve/src/inverse.f | 1050 limSolve-1.4/limSolve/src/solve.f |only 45 files changed, 44609 insertions(+), 44423 deletions(-)
Author: Robin K.S. Hankin
Title: A generalization of the Dirichlet distribution
Description: A suite of routines for the hyperdirichlet distribution
Diff between hyperdirichlet versions 1.1-7 dated 2009-01-20 and 1.1-8 dated 2009-04-15
hyperdirichlet-1.1-7/hyperdirichlet/inst/doc/jss.bst |only hyperdirichlet-1.1-7/hyperdirichlet/inst/doc/jss.cls |only hyperdirichlet-1.1-8/hyperdirichlet/DESCRIPTION | 8 hyperdirichlet-1.1-8/hyperdirichlet/inst/doc/correspondence.Rnw |only hyperdirichlet-1.1-8/hyperdirichlet/inst/doc/correspondence.pdf |only hyperdirichlet-1.1-8/hyperdirichlet/inst/doc/hyperdirichlet.bib | 62 hyperdirichlet-1.1-8/hyperdirichlet/inst/doc/hyperdirichlet.pdf | 3540 +++++----- hyperdirichlet-1.1-8/hyperdirichlet/inst/doc/precalc.Rdata |only hyperdirichlet-1.1-8/hyperdirichlet/man/hyperdirichlet-package.Rd | 4 9 files changed, 1853 insertions(+), 1761 deletions(-)
More information about hyperdirichlet at CRAN
Permanent link
Author: Rob J Hyndman
Bundle: forecasting
Contains: forecast fma Mcomp expsmooth
Diff between forecasting versions 1.23 dated 2009-02-22 and 1.24 dated 2009-04-15
DESCRIPTION | 28 +++++++++++++++------------- forecast/R/DM.R | 4 ++-- forecast/R/forecast2.R | 4 ++-- forecast/R/newarima2.R | 22 +++++++++++++++++++++- forecast/man/forecast.HoltWinters.Rd | 2 +- 5 files changed, 41 insertions(+), 19 deletions(-)
Author: Tomas Aragon
Title: Epidemiology Tools
Description: EpiTools: R Package for Epidemiologic Data and Graphics
Diff between epitools versions 0.5-2 dated 2008-11-02 and 0.5-3 dated 2009-04-15
DESCRIPTION | 24 ++++----- NAMESPACE |only man/ageadjust.direct.Rd | 2 man/ageadjust.indirect.Rd | 2 man/as.hour.Rd | 2 man/as.month.Rd | 2 man/as.week.Rd | 2 man/binom.conf.int.Rd | 2 man/colorbrewer.Rd | 2 man/colors.plot.Rd | 2 man/epicurve.Rd | 2 man/epidate.Rd | 2 man/epitab.Rd | 2 man/epitable.Rd | 2 man/expand.table.Rd | 2 man/expected.Rd | 2 man/julian2date.Rd | 2 man/kapmeier.Rd | 12 ---- man/oddsratio.Rd | 2 man/or.midp.Rd | 2 man/ormidp.test.Rd | 2 man/oswego.Rd | 121 +++++++++++++++++++++++----------------------- man/pois.conf.int.Rd | 2 man/rate2by2.test.Rd | 2 man/rateratio.Rd | 2 man/ratetable.Rd | 2 man/riskratio.Rd | 2 man/tab2by2.test.Rd | 2 man/table.margins.Rd | 2 man/wcgs.Rd | 84 ++++++++++++++++--------------- 30 files changed, 145 insertions(+), 146 deletions(-)
Author: John Fox
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.
Diff between effects versions 2.0-4 dated 2009-04-01 and 2.0-5 dated 2009-04-15
DESCRIPTION | 12 ++++++------ R/plot-summary-print-methods.R | 24 ++++++++++++------------ inst/CHANGES | 6 ++++++ man/BEPS.Rd | 11 +++++++++++ man/Titanic.Rd | 12 +++++++++++- man/WVS.Rd | 12 ++++++++++++ man/effect.Rd | 7 +++++++ 7 files changed, 65 insertions(+), 19 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 2.0.4 dated 2009-01-13 and 2.1 dated 2009-04-15
DESCRIPTION | 38 +++++++++++++++++++++----------------- inst/NEWS | 9 +++++++++ man/0distrTeach-package.Rd | 4 ++-- 3 files changed, 32 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 2.0.4 dated 2008-12-08 and 2.1 dated 2009-04-15
DESCRIPTION | 41 +++++++++++++++++++++++------------------ inst/NEWS | 9 +++++++++ man/0distrTEst-package.Rd | 5 ++--- 3 files changed, 34 insertions(+), 21 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 2.0.4 dated 2009-01-13 and 2.1 dated 2009-04-15
DESCRIPTION | 36 ++++++++++++++++++++---------------- inst/NEWS | 16 ++++++++++++++++ man/0distrSim-package.Rd | 7 ++++--- 3 files changed, 40 insertions(+), 19 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 2.0.7 dated 2009-02-20 and 2.1 dated 2009-04-15
DESCRIPTION | 33 ++++---- NAMESPACE | 3 R/0distrModUtils.R | 110 +++++++++++++++++++++------- R/AllGeneric.R | 4 + R/AllPlot.R | 175 +++++++++++++++++++++++++++++++++------------ R/AllShow.R | 6 - R/Estimator.R | 40 +++++++++- R/L2GroupFamilies.R | 95 ++++++++++++++++++++---- R/MCEstimator.R | 20 +++-- R/MDEstimator.R | 11 ++ R/MLEstimator.R | 23 +++-- R/ParamFamily.R | 25 ++++-- R/SimpleL2ParamFamilies.R | 84 ++++++++++++++++++--- R/internalMleCalc.R | 23 +++-- R/mleCalc-methods.R | 2 R/modifyModel.R | 15 ++- inst/NEWS | 58 ++++++++++++++ man/0distrMod-package.Rd | 7 + man/L2ParamFamily-class.Rd | 69 +++++++++++++++++ man/internals.Rd | 23 +++-- man/modifyModel-methods.Rd | 3 man/trafo-methods.Rd | 9 ++ man/trafoEst.Rd |only 23 files changed, 657 insertions(+), 181 deletions(-)
Author: James Carpenter
Title: Statistical methods to model and adjust for bias in
meta-analysis
Description: Copas selection model.
Diff between copas versions 0.6-1 dated 2008-11-03 and 0.6-2 dated 2009-04-15
DESCRIPTION | 14 +++++++++----- R/plot.copas.R | 7 ++++--- 2 files changed, 13 insertions(+), 8 deletions(-)
Author: Rasmus E. Benestad
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)
Diff between clim.pact versions 2.2-31 dated 2009-03-26 and 2.2-33 dated 2009-04-15
DESCRIPTION | 8 ++++---- R/corField.R | 14 ++++++++------ R/ds.R | 27 +++++++++++---------------- R/eof.R | 46 ++++++++++++++++++++++++++++------------------ R/getnordklim.R | 19 +++++++++++++++---- R/objDS.R | 24 +++++++++++++----------- R/retrieve.nc.R | 17 +++++++++-------- man/retrieve.nc.Rd | 3 ++- 8 files changed, 90 insertions(+), 68 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 0.7-1 dated 2008-05-06 and 0.7-2 dated 2009-04-15
ChangeLog | 4 ++++ DESCRIPTION | 12 +++++++----- R/Class-hier-fn.R | 7 ++++--- man/numOutEdges.Rd | 2 +- 4 files changed, 16 insertions(+), 9 deletions(-)
Author: Jens Oehlschl�gel
Title: A class for vectors of 1-bit booleans
Description: bitmapped vectors of booleans (no NAs), coercion from and
to logicals, integers and integer subscripts; fast boolean
operators and fast summary statistics. With bit vectors you can
store true binary booleans {FALSE,TRUE} at the expense of 1 bit
only, on a 32 bit architecture this means factor 32 less RAM
and factor 32 more speed on boolean operations. With this speed
gain it even pays-off to convert to bit in order to avoid a
single boolean operation on logicals or a single set operation
on (longer) integer subscripts, the pay-off is dramatic when
such components are used more than once. Reading from and
writing to bit is approximately as fast as accessing standard
logicals - mostly due to R's time for memory allocation. The
package allows to work with pre-allocated memory for return
values by calling .Call() directly: when evaluating the speed
of C-access with pre-allocated vector memory, coping from bit
to logical requires only 70% of the time for copying from
logical to logical; and copying from logical to bit comes at a
performance penalty of 150%.
Diff between bit versions 1.0-1 dated 2009-02-15 and 1.0-2 dated 2009-04-15
ANNOUNCEMENT.txt | 64 - DESCRIPTION | 40 R/bit.R | 2116 +++++++++++++++++++++++++------------------------- R/zzz.R | 28 README_devel.txt | 20 exec/make_rd.pl | 66 - man/Extract.rd | 82 - man/Logical.rd | 118 +- man/Summary.rd | 160 +-- man/as.bit.rd | 88 +- man/as.logical.bit.rd | 86 +- man/bit-package.rd | 458 +++++----- man/bit_init.rd | 60 - man/length.bit.rd | 70 - man/regtest.bit.rd | 66 - prebuild.sh | 30 src/bit.c | 2 17 files changed, 1779 insertions(+), 1775 deletions(-)
Author: Michael J. Kane and John W. Emerson
Title: Manage massive matrices in R using C++, with support for shared
memory and memory-mapped files.
Description: Use C++ to create, store, access, and manipulate massive
matrices. Matrices may optionally be allocated to shared
memory and/or may use memory-mapped files.
Diff between bigmemory versions 2.3 dated 2008-07-28 and 3.5 dated 2009-04-15
bigmemory-2.3/bigmemory/R/kmeans.R |only bigmemory-2.3/bigmemory/configure.win |only bigmemory-2.3/bigmemory/ipc.R |only bigmemory-2.3/bigmemory/man/add.cols.Rd |only bigmemory-2.3/bigmemory/man/is.shared.Rd |only bigmemory-2.3/bigmemory/man/kmeans.big.matrix.Rd |only bigmemory-2.3/bigmemory/man/shared.big.matrix.Rd |only bigmemory-2.3/bigmemory/man/shared.deepcopy.Rd |only bigmemory-2.3/bigmemory/namespace.unix |only bigmemory-2.3/bigmemory/namespace.win |only bigmemory-2.3/bigmemory/src/BMMutex.cpp |only bigmemory-2.3/bigmemory/src/BMMutex.h |only bigmemory-2.3/bigmemory/src/DestroyShmIfLast.cpp |only bigmemory-2.3/bigmemory/src/DestroyShmIfLast.h |only bigmemory-2.3/bigmemory/src/Makevars |only bigmemory-2.3/bigmemory/src/bm_defines.h |only bigmemory-2.3/bigmemory/src/ostypedef.h |only bigmemory-2.3/bigmemory/sysctl.conf |only bigmemory-2.3/bigmemory/unixdef.h |only bigmemory-2.3/bigmemory/windef.h |only bigmemory-3.5/bigmemory/DESCRIPTION | 29 bigmemory-3.5/bigmemory/NAMESPACE | 6 bigmemory-3.5/bigmemory/R/bigmatrix.R | 354 ++-- bigmemory-3.5/bigmemory/R/bigmatrixLib.R | 86 - bigmemory-3.5/bigmemory/R/bigmatrixShm.R | 282 ++- bigmemory-3.5/bigmemory/R/is.filebacked.R |only bigmemory-3.5/bigmemory/R/mmap.R | 6 bigmemory-3.5/bigmemory/R/utils.R |only bigmemory-3.5/bigmemory/R/zzz.R | 6 bigmemory-3.5/bigmemory/cleanup | 25 bigmemory-3.5/bigmemory/configure | 10 bigmemory-3.5/bigmemory/configure.R |only bigmemory-3.5/bigmemory/configure.Rout |only bigmemory-3.5/bigmemory/include |only bigmemory-3.5/bigmemory/man/attach.big.matrix.Rd | 21 bigmemory-3.5/bigmemory/man/big.matrix-class.Rd | 19 bigmemory-3.5/bigmemory/man/big.matrix.Rd | 121 + bigmemory-3.5/bigmemory/man/biglm.big.matrix.Rd | 2 bigmemory-3.5/bigmemory/man/bigmemory-package.Rd | 38 bigmemory-3.5/bigmemory/man/binit.Rd |only bigmemory-3.5/bigmemory/man/deepcopy.Rd | 17 bigmemory-3.5/bigmemory/man/hash.mat.Rd | 2 bigmemory-3.5/bigmemory/man/mwhich.Rd | 10 bigmemory-3.5/bigmemory/man/rw.mutex-class.Rd | 8 bigmemory-3.5/bigmemory/man/rw.mutex.Rd | 24 bigmemory-3.5/bigmemory/man/write.big.matrix.Rd | 18 bigmemory-3.5/bigmemory/src/BigMatrix.cpp | 926 +++++++++--- bigmemory-3.5/bigmemory/src/BigMatrix.h | 178 +- bigmemory-3.5/bigmemory/src/BigMatrixAccessor.hpp |only bigmemory-3.5/bigmemory/src/BigMemoryDefines.h |only bigmemory-3.5/bigmemory/src/BigMemoryMutex.cpp |only bigmemory-3.5/bigmemory/src/BigMemoryMutex.h |only bigmemory-3.5/bigmemory/src/CUserMutex.cpp | 40 bigmemory-3.5/bigmemory/src/CbigmemoRy.cpp | 1579 +++++++++++++++++----- bigmemory-3.5/bigmemory/src/CbigmemoRyLib.cpp | 54 bigmemory-3.5/bigmemory/src/MSCexceptions.h |only bigmemory-3.5/bigmemory/src/Makevars.darwin |only bigmemory-3.5/bigmemory/src/Makevars.linux |only bigmemory-3.5/bigmemory/src/Makevars.win |only bigmemory-3.5/bigmemory/src/SharedCounter.cpp |only bigmemory-3.5/bigmemory/src/SharedCounter.h |only bigmemory-3.5/bigmemory/src/bigmemoryutils.cpp |only bigmemory-3.5/bigmemory/src/isna.hpp |only bigmemory-3.5/bigmemory/src/tab2space.pl |only bigmemory-3.5/bigmemory/src/util.cpp | 58 bigmemory-3.5/bigmemory/src/util.h | 48 bigmemory-3.5/bigmemory/src/writedescr.txt |only 67 files changed, 2875 insertions(+), 1092 deletions(-)
Author: Manuel J. A. Eugster
Title: Archetypal Analysis
Description: The main function archetypes implements a framework for
archetypal analysis supporting arbitary problem solving
mechanisms for the different conceputal parts of the algorithm.
NOTE: This package is used as real-world test application for
the Roxygen documentation system. At the moment, Roxygen does
not produce "good" help pages for the everyday use of a
package; we refer to the vignette for a consistent package
illustration.
Diff between archetypes versions 0.1 dated 2008-12-11 and 0.1-1 dated 2009-04-15
DESCRIPTION | 49 +++++++++++++++++++++------------------ NAMESPACE | 3 ++ R/archetypes-class.R | 31 ++++++++++++++++++++++-- R/archetypes-kit.R | 11 ++++++-- R/archetypes-movie.R | 60 ++++++++++++++++++++++++++++++++++++++++++++++-- R/archetypes-step.R | 4 +-- R/pcplot.R | 4 +-- R/skeletonplot.R | 1 inst/CITATION | 2 - inst/doc/archetypes.bib | 4 +-- inst/doc/archetypes.pdf |binary man/archetypes.Rd | 2 - man/as.archetypes.Rd | 11 +++++--- man/bestModel.Rd | 2 - man/betas.Rd |only man/movieplot.Rd | 7 ++++- man/movieplot2.Rd |only man/pcplot-methods.Rd | 2 - man/skeletonplot.Rd | 2 - 19 files changed, 148 insertions(+), 47 deletions(-)
Author: Alexis Gabadinho
Title: Sequences and trajectories mining for social scientists
Description: This package is a toolbox for sequence manipulation,
description, rendering and more generally sequence data mining
in the field of social sciences. Though it is primarily
intended for analyzing state or event sequences that describe
life courses such as family formation histories or professional
careers its features apply indeed also to many other kinds of
categorical sequence data. It accepts as input many different
sequence representations and provides tools for translating
sequences from one format to another. It offers several
statistical functions for describing and rendering sequences,
for computing distances between sequences with different
metrics among which optimal matching, the longest common prefix
and the longest common subsequence, and simple functions for
extracting the most frequent subsequences and identifying the
most discriminating ones among them. A user's guide can be
found on TraMineR's web page.
Diff between TraMineR versions 1.1 dated 2009-01-16 and 1.2 dated 2009-04-15
TraMineR-1.1/TraMineR/R/dissreg.R |only TraMineR-1.1/TraMineR/R/seqcplot.R |only TraMineR-1.1/TraMineR/R/seqctype.R |only TraMineR-1.1/TraMineR/man/dissreg.Rd |only TraMineR-1.2/TraMineR/DESCRIPTION | 30 - TraMineR-1.2/TraMineR/NAMESPACE | 5 TraMineR-1.2/TraMineR/NEWS | 125 ++-- TraMineR-1.2/TraMineR/R/BIOSPELL_to_STS.R | 12 TraMineR-1.2/TraMineR/R/LCPdist.R | 32 - TraMineR-1.2/TraMineR/R/LCSdist.R | 5 TraMineR-1.2/TraMineR/R/Levenshtein.R | 7 TraMineR-1.2/TraMineR/R/STS_to_TSE.R | 81 +- TraMineR-1.2/TraMineR/R/TraMineR-dplot.R |only TraMineR-1.2/TraMineR/R/TraMineR-fplot.R |only TraMineR-1.2/TraMineR/R/TraMineR-iplot.R |only TraMineR-1.2/TraMineR/R/TraMineR-legend.R | 19 TraMineR-1.2/TraMineR/R/TraMineR-mscore.R |only TraMineR-1.2/TraMineR/R/TraMineR-mtplot.R |only TraMineR-1.2/TraMineR/R/TraMineR-rplot.R |only TraMineR-1.2/TraMineR/R/TraMineR-trunc.R | 35 - TraMineR-1.2/TraMineR/R/checktriangleineq.R |only TraMineR-1.2/TraMineR/R/dissassoc.R | 221 +++---- TraMineR-1.2/TraMineR/R/disscenter.R | 87 +- TraMineR-1.2/TraMineR/R/dissmfac.R |only TraMineR-1.2/TraMineR/R/disstree.r | 619 +++++++++------------ TraMineR-1.2/TraMineR/R/disstree2dot.R |only TraMineR-1.2/TraMineR/R/dissvar.R | 20 TraMineR-1.2/TraMineR/R/dist2matrix.R |only TraMineR-1.2/TraMineR/R/entropy.R | 2 TraMineR-1.2/TraMineR/R/implicativestat.R |only TraMineR-1.2/TraMineR/R/normdist.R |only TraMineR-1.2/TraMineR/R/plot.stslist.R |only TraMineR-1.2/TraMineR/R/seqST.R | 10 TraMineR-1.2/TraMineR/R/seqconc.R | 28 TraMineR-1.2/TraMineR/R/seqdecomp.R | 6 TraMineR-1.2/TraMineR/R/seqdef.R | 29 TraMineR-1.2/TraMineR/R/seqdiff.R | 155 ++--- TraMineR-1.2/TraMineR/R/seqdist.R | 115 ++- TraMineR-1.2/TraMineR/R/seqdistold.R | 5 TraMineR-1.2/TraMineR/R/seqdplot.R | 110 --- TraMineR-1.2/TraMineR/R/seqdss.R | 37 - TraMineR-1.2/TraMineR/R/seqdur.R | 35 - TraMineR-1.2/TraMineR/R/seqecmpgroup.R | 6 TraMineR-1.2/TraMineR/R/seqeconstraint.R | 6 TraMineR-1.2/TraMineR/R/seqecreate.R | 6 TraMineR-1.2/TraMineR/R/seqedist.R |only TraMineR-1.2/TraMineR/R/seqefsub.R | 2 TraMineR-1.2/TraMineR/R/seqetm.R | 3 TraMineR-1.2/TraMineR/R/seqfcheck.R | 18 TraMineR-1.2/TraMineR/R/seqformat.R | 51 + TraMineR-1.2/TraMineR/R/seqfplot.R | 142 ---- TraMineR-1.2/TraMineR/R/seqgen.R | 10 TraMineR-1.2/TraMineR/R/seqient.R | 51 - TraMineR-1.2/TraMineR/R/seqientc.R |only TraMineR-1.2/TraMineR/R/seqientdiff.R |only TraMineR-1.2/TraMineR/R/seqiplot.R | 134 ---- TraMineR-1.2/TraMineR/R/seqistatd.R | 12 TraMineR-1.2/TraMineR/R/seqlegend.R | 4 TraMineR-1.2/TraMineR/R/seqlength.R | 19 TraMineR-1.2/TraMineR/R/seqlogp.R |only TraMineR-1.2/TraMineR/R/seqmpos.R | 22 TraMineR-1.2/TraMineR/R/seqmtplot.R | 94 --- TraMineR-1.2/TraMineR/R/seqprep.R | 12 TraMineR-1.2/TraMineR/R/seqrep.R |only TraMineR-1.2/TraMineR/R/seqrplot.R |only TraMineR-1.2/TraMineR/R/seqsubsn.R | 9 TraMineR-1.2/TraMineR/R/seqtab.R | 20 TraMineR-1.2/TraMineR/R/seqxtract.R | 11 TraMineR-1.2/TraMineR/R/stslist-methods.R | 6 TraMineR-1.2/TraMineR/R/subseqelist.R | 6 TraMineR-1.2/TraMineR/R/summary-stslist.R | 1 TraMineR-1.2/TraMineR/TODO.txt |only TraMineR-1.2/TraMineR/demo/Event_sequences.R | 49 - TraMineR-1.2/TraMineR/inst/CITATION |only TraMineR-1.2/TraMineR/man/actcal.Rd | 49 + TraMineR-1.2/TraMineR/man/biofam.Rd | 60 +- TraMineR-1.2/TraMineR/man/dissassoc.Rd | 46 - TraMineR-1.2/TraMineR/man/disscenter.Rd | 49 + TraMineR-1.2/TraMineR/man/dissmfac.Rd |only TraMineR-1.2/TraMineR/man/disstree.Rd | 61 +- TraMineR-1.2/TraMineR/man/disstree2dot.Rd | 26 TraMineR-1.2/TraMineR/man/disstreeleaf.Rd | 2 TraMineR-1.2/TraMineR/man/dissvar.Rd | 41 - TraMineR-1.2/TraMineR/man/mvad.Rd | 57 + TraMineR-1.2/TraMineR/man/plot.stslist.Rd |only TraMineR-1.2/TraMineR/man/plot.subseqelist.Rd | 10 TraMineR-1.2/TraMineR/man/plot.subseqelistchisq.Rd | 26 TraMineR-1.2/TraMineR/man/seqconc.Rd | 3 TraMineR-1.2/TraMineR/man/seqdef.Rd | 52 - TraMineR-1.2/TraMineR/man/seqdiff.Rd | 10 TraMineR-1.2/TraMineR/man/seqdist.Rd | 32 - TraMineR-1.2/TraMineR/man/seqdplot.Rd | 52 - TraMineR-1.2/TraMineR/man/seqdss.Rd | 5 TraMineR-1.2/TraMineR/man/seqdur.Rd | 4 TraMineR-1.2/TraMineR/man/seqe.Rd | 12 TraMineR-1.2/TraMineR/man/seqeapplysub.Rd | 49 - TraMineR-1.2/TraMineR/man/seqecmpgroup.Rd | 28 TraMineR-1.2/TraMineR/man/seqeconstraint.Rd | 19 TraMineR-1.2/TraMineR/man/seqecontain.Rd | 13 TraMineR-1.2/TraMineR/man/seqecreate.Rd | 36 - TraMineR-1.2/TraMineR/man/seqefsub.Rd | 47 - TraMineR-1.2/TraMineR/man/seqelength.Rd | 12 TraMineR-1.2/TraMineR/man/seqetm.Rd | 42 - TraMineR-1.2/TraMineR/man/seqfcheck.Rd | 10 TraMineR-1.2/TraMineR/man/seqformat.Rd | 12 TraMineR-1.2/TraMineR/man/seqfplot.Rd | 50 - TraMineR-1.2/TraMineR/man/seqient.Rd | 8 TraMineR-1.2/TraMineR/man/seqiplot.Rd | 71 -- TraMineR-1.2/TraMineR/man/seqistatd.Rd | 3 TraMineR-1.2/TraMineR/man/seqlegend.Rd | 3 TraMineR-1.2/TraMineR/man/seqmpos.Rd | 17 TraMineR-1.2/TraMineR/man/seqmtplot.Rd | 33 - TraMineR-1.2/TraMineR/man/seqstatl.Rd | 44 - TraMineR-1.2/TraMineR/man/seqtab.Rd | 5 TraMineR-1.2/TraMineR/man/seqtree2dot.Rd |only TraMineR-1.2/TraMineR/src/dist2matrix.c |only TraMineR-1.2/TraMineR/src/distancefunctions.cpp | 372 ++++++------ TraMineR-1.2/TraMineR/src/ffunctions.c | 238 ++++---- TraMineR-1.2/TraMineR/src/inertiafunctions.c | 149 ++++- TraMineR-1.2/TraMineR/src/saltt.cpp |only TraMineR-1.2/TraMineR/src/seqedist.cpp |only 121 files changed, 2124 insertions(+), 2258 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 0.03-1 dated 2009-01-09 and 0.03-2 dated 2009-04-15
DESCRIPTION | 16 ++++++++++------ R/EcosystemProduction.K.R |only man/EcosystemProduction.K.Rd |only 3 files changed, 10 insertions(+), 6 deletions(-)
More information about StreamMetabolism at CRAN
Permanent link
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 0.5 dated 2008-08-07 and 0.5.1 dated 2009-04-15
DESCRIPTION | 22 ++++++++++++++++------ man/Read.isi-package.Rd | 4 ++-- 2 files changed, 18 insertions(+), 8 deletions(-)
Author: Erin Hodgess
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.
Diff between RcmdrPlugin.epack versions 1.1-4 dated 2009-03-11 and 1.2.1 dated 2009-04-15
DESCRIPTION | 13 - R/RcmdrPlugin.epack.R | 309 ++++++++++++++++++++++++++++++++++++-- inst/etc/menus.txt | 14 + man/RcmdrPlugin.epack-internal.Rd | 12 + 4 files changed, 332 insertions(+), 16 deletions(-)
More information about RcmdrPlugin.epack at CRAN
Permanent link
Author: Daniela Witten and Rob Tibshirani
Title: Penalized Multivariate Analysis
Description: Performs Penalized Multivariate Analysis: a penalized
matrix decomposition, sparse principal components analysis, and
sparse canonical correlation analysis, described in the
following paper: Witten, Tibshirani and Hastie (2009) A
penalized matrix decomposition, with applications to sparse
principal components and canonical correlation analysis.
Diff between PMA versions 1.0.1 dated 2009-02-16 and 1.0.2 dated 2009-04-15
DESCRIPTION | 15 +++++++++++---- man/CCA.Rd | 5 +---- 2 files changed, 12 insertions(+), 8 deletions(-)
Author: Jarrod Hadfield
Title: MCMC Generalised Linear Mixed Models
Description: MCMC Generalised Linear Mixed Models
Diff between MCMCglmm versions 1.07 dated 2009-04-04 and 1.08 dated 2009-04-15
MCMCglmm-1.07/MCMCglmm/src/dcmvnorm.h |only MCMCglmm-1.08/MCMCglmm/DESCRIPTION | 8 - MCMCglmm-1.08/MCMCglmm/R/MCMCglmm.R | 106 ++++++++++++++----------- MCMCglmm-1.08/MCMCglmm/R/inverseA.R | 1 MCMCglmm-1.08/MCMCglmm/inst/doc/Figures/TEST.R | 2 MCMCglmm-1.08/MCMCglmm/inst/doc/Tutorial.pdf |binary MCMCglmm-1.08/MCMCglmm/man/MCMCglmm.Rd | 5 - MCMCglmm-1.08/MCMCglmm/src/MCMCglmm.cc | 26 +----- MCMCglmm-1.08/MCMCglmm/src/cs_dcmvnorm.c | 3 MCMCglmm-1.08/MCMCglmm/src/cs_kroneckerA.c | 1 MCMCglmm-1.08/MCMCglmm/src/cs_kroneckerH.c | 1 MCMCglmm-1.08/MCMCglmm/src/cs_kroneckerI.c | 1 MCMCglmm-1.08/MCMCglmm/src/inverseA.cc | 3 13 files changed, 75 insertions(+), 82 deletions(-)
Author: Ulrike Groemping
Title: Fractional Factorial designs with 2-level factors
Description: This package creates regular and non-regular Fractional
Factorial designs. Furthermore, analysis tools for Fractional
Factorial designs with 2-level factors are offered (main
effects and interaction plots for all factors simultaneously,
cube plot for looking at the simultaneous effects of three
factors, full or half normal plot, alias structure in a more
readable format than with the built-in function alias). The
package is currently subject to intensive development;
structures and even function names may change in the future.
Diff between FrF2 versions 0.9-1 dated 2009-03-24 and 0.91-1 dated 2009-04-15
FrF2-0.9-1/FrF2/R/util.R |only FrF2-0.9-1/FrF2/R/words.R |only FrF2-0.91-1/FrF2/DESCRIPTION | 12 - FrF2-0.91-1/FrF2/NAMESPACE | 6 FrF2-0.91-1/FrF2/R/CatalogueAccessors.R |only FrF2-0.91-1/FrF2/R/FrF2.R | 154 +++++++++++--- FrF2-0.91-1/FrF2/R/estimable2fis.R |only FrF2-0.91-1/FrF2/R/fac.design.R |only FrF2-0.91-1/FrF2/R/pb.R | 43 +++- FrF2-0.91-1/FrF2/R/sysdata.rda |binary FrF2-0.91-1/FrF2/R/utilcat.R |only FrF2-0.91-1/FrF2/R/utilpb.R |only FrF2-0.91-1/FrF2/inst/NEWS | 33 +++ FrF2-0.91-1/FrF2/man/CatalogueAccessors.Rd | 41 ++- FrF2-0.91-1/FrF2/man/FrF2-package.Rd | 8 FrF2-0.91-1/FrF2/man/FrF2.Rd | 301 ++++++++++++++++++++++++++--- FrF2-0.91-1/FrF2/man/class-design.Rd |only FrF2-0.91-1/FrF2/man/pb.Rd | 50 ++++ FrF2-0.91-1/FrF2/man/utilitiesCat.Rd | 78 +++++++ 19 files changed, 621 insertions(+), 105 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 0.90 dated 2008-08-06 and 0.91 dated 2009-04-14
DESCRIPTION | 23 +++++++++++++---------- NAMESPACE | 2 +- R/AutoBoot.test.R |only man/AutoBoot.test.Rd |only man/vrtest-package.Rd | 8 ++++---- 5 files changed, 18 insertions(+), 15 deletions(-)
Author: Eric Bair, R. Tibshirani
Title: Supervised principal components
Description: Supervised principal components for regression and
survival analsysis. Especially useful for high-dimnesional
data, including microarray data.
Diff between superpc versions 1.05 dated 2007-04-19 and 1.06 dated 2009-04-14
DESCRIPTION | 18 ++-- R/superpc.predict.R | 168 ++++++++++++++++++-------------------------- R/superpc.rainbowplot.R | 28 +++---- man/superpc.listfeatures.Rd | 10 +- 4 files changed, 99 insertions(+), 125 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 0.5-18 dated 2009-02-05 and 0.6-3 dated 2009-04-14
ChangeLog | 84 +++++++++++++++++++++- DESCRIPTION | 18 ++-- R/AAA.R |only R/bin_link.R | 208 ++++++++++++++++++++++++++++++++++++------------------- R/initGRASS.R |only R/spgrass6.R | 58 +++++++++------ R/vect_link.R | 121 ++++++++++++++++++++----------- R/xml1.R |only R/zzz.R | 18 ++++ inst/CITATION | 2 inst/ChangeLog | 89 +++++++++++++++++++++++ man/execGRASS.Rd |only man/initGRASS.Rd |only man/readRAST6.Rd | 44 ++--------- man/readVECT6.Rd | 13 +-- man/spgrass6.Rd | 2 16 files changed, 468 insertions(+), 189 deletions(-)
Author: Julien Barnier
Title: Functions to make R usage in social sciences easier (in french)
Description: This package provides functions for beginners and social
sciences students or researchers. Currently it includes
functions for cross-tabulation, weighting, results export, and
maps plotting. The documentation and help pages are written in
french.
Diff between rgrs versions 0.2-8 dated 2009-03-04 and 0.2-9 dated 2009-04-14
DESCRIPTION | 20 ++++++++++++++------ R/carte.prop.R | 19 ++++++++++++------- 2 files changed, 26 insertions(+), 13 deletions(-)
Author: Jeff D. Hamann
Title: R interface to the CONIFERS forest growth model
Description: This package contains functions for simulating future
forest conditions using the CONIFERS growth model.
Diff between rconifers versions 0.0-9 dated 2008-11-26 and 0.0-10 dated 2009-04-14
DESCRIPTION | 30 +++++++++++++++++------------- R/rconifers.r | 35 ++++++++++++++++++++++++++++++++++- data/swo.txt | 2 +- src/conifers.h | 2 +- src/mortality.c | 22 +++++++++++----------- src/rconifers.c | 36 ++++++++++++++++++++++++++++++++---- src/sample.c | 6 +++--- src/smc_coeffs.c | 2 +- src/smc_model.c | 9 ++++----- src/swo_coeffs.c | 20 ++++++++++---------- src/swo_model.c | 22 ++++++++++------------ 11 files changed, 124 insertions(+), 62 deletions(-)
Author: Ken Beath
Title: Random Effects Latent Class Analysis
Description: Fits random effects latent class models, as well as
standard latent class models.
Diff between randomLCA versions 0.6-2 dated 2009-03-08 and 0.7-1 dated 2009-04-14
DESCRIPTION | 15 +- NAMESPACE | 2 R/bestlca.R | 9 - R/fit.adapt.random.randomLCA.R | 6 + R/fit.adapt.random2.randomLCA.R | 9 + R/fit.adapt.random2byclass.randomLCA.R | 5 R/fit.adapt.randombyclass.randomLCA.R | 8 + R/fit.fixed.randomLCA.R | 1 R/outcome.probs.randomLCA.R | 95 ++++++++++++++++-- R/randomLCA.R | 10 - R/simulate.randomLCA.R |only inst/NEWS | 12 ++ inst/doc/dentistry.lca2.outcomes.boot.RData |only inst/doc/dentistry.lca2random.outcomes.boot.RData |only inst/doc/randomLCA-example.Rnw | 112 +++++++++++++++------- inst/doc/randomLCA-example.pdf |binary man/outcome.probs.Rd | 12 +- man/randomLCA.Rd | 2 man/simulate.Rd |only 19 files changed, 228 insertions(+), 70 deletions(-)
Author: Roger Koenker
Title: Quantile Regression
Description: Quantile regression and related methods.
Diff between quantreg versions 4.26 dated 2009-01-26 and 4.27 dated 2009-04-14
quantreg-4.26/quantreg/inst/doc/.build.timestamp |only quantreg-4.27/quantreg/DESCRIPTION | 8 quantreg-4.27/quantreg/R/quantreg.R | 3 quantreg-4.27/quantreg/R/rqss.R | 11 quantreg-4.27/quantreg/inst/ChangeLog | 11 quantreg-4.27/quantreg/inst/doc/Rplots.pdf | 4213 +++++++++++++++++------ quantreg-4.27/quantreg/inst/doc/rq.pdf |binary quantreg-4.27/quantreg/man/plot.Rd | 9 quantreg-4.27/quantreg/src/ratfor/out |only quantreg-4.27/quantreg/src/ratfor/rqbr.f | 17 quantreg-4.27/quantreg/src/ratfor/rqbr.o |only quantreg-4.27/quantreg/src/ratfor/rqbr.r | 4 quantreg-4.27/quantreg/src/ratfor/rqbrold.o |only quantreg-4.27/quantreg/src/rqbr.f | 2 14 files changed, 3320 insertions(+), 958 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 0.6-7 dated 2009-03-26 and 0.6-8 dated 2009-04-14
DESCRIPTION | 8 +-- R/GOFlaio2004.R | 60 ++++++++++++----------- R/GOFmontecarlo.R | 106 +++++++++++++++++++++++++++++++++++++++-- inst/doc/Fig1ElamirSeheult.pdf |binary inst/doc/MSClaio2008.pdf |binary inst/doc/nsRFA_ex01.pdf |binary inst/doc/nsRFA_ex02.pdf |binary man/GOFmontecarlo.Rd | 10 +++ man/nsRFA-package.Rd | 1 9 files changed, 148 insertions(+), 37 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 1.1-8 dated 2009-02-01 and 1.1-9 dated 2009-04-14
ChangeLog | 21 ++++++++++++++------- DESCRIPTION | 16 ++++++++++------ data/abortion.txt |only inst |only man/abortion.Rd |only man/mvna.Rd | 19 +++++++++++++++++-- 6 files changed, 41 insertions(+), 15 deletions(-)
Author: Christopher Jackson
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.
Diff between msm versions 0.8.1 dated 2008-07-28 and 0.8.2 dated 2009-04-14
ChangeLog | 19 +++++++++++++++++++ DESCRIPTION | 33 ++++++++++++++++++--------------- R/boot.R | 6 +++--- R/msm.R | 5 ++--- R/outputs.R | 25 ++++++++++++++++++++++--- R/pearson.R | 4 +++- R/utils.R | 2 +- inst/NEWS | 10 ++++++++++ inst/doc/Rplots.pdf |only inst/doc/msm-manual.pdf |binary man/msm.Rd | 23 +++++++++++++++++------ man/simmulti.msm.Rd | 2 +- man/summary.msm.Rd | 2 +- man/surface.msm.Rd | 4 ++-- src/doc |only tests/simple.R | 4 ++++ 16 files changed, 103 insertions(+), 36 deletions(-)
Author: Luc Wouters
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.
Diff between mpm versions 1.0-12 dated 2008-11-17 and 1.0-13 dated 2009-04-14
DESCRIPTION | 28 +++++++++++++++------------- R/mpm.R | 2 +- R/plot.mpm.R | 2 +- inst/NEWS | 14 ++++++++------ 4 files changed, 25 insertions(+), 21 deletions(-)
Author: Jared O'Connell
Title: Parameter estimation and prediction for hidden Markov and
semi-Markov models for data with multiple observation sequences
Description: Parameter estimation and prediction for hidden Markov and
semi-Markov models for data with multiple observation
sequences. The times must be equidistant but missing values of
the observables are allowed. The observables are allowed to be
multivariate. It is possible to have multiple sequences of
data. Estimation of the parameters of the models are made using
EM--algorithms. Computationally demanding parts of the
algorithm are implemented in C for performance. Finally, the
package is designed to allow users to specify their own
emission distributions, giving flexibility in the type of data
that may be analysed.
Diff between mhsmm versions 0.2.1 dated 2009-04-04 and 0.2.3 dated 2009-04-14
DESCRIPTION | 6 +++--- R/hmm_functions.R | 2 +- R/hsmm_functions.R | 5 +++-- man/sim.mc.Rd | 8 +++++++- 4 files changed, 14 insertions(+), 7 deletions(-)
Author: Charles J. Geyer
Title: Markov Chain Monte Carlo
Description: functions for Markov chain Monte Carlo (MCMC).
Diff between mcmc versions 0.5-1 dated 2005-09-17 and 0.6 dated 2009-04-14
mcmc-0.5-1/mcmc/inst/doc/demo.R |only mcmc-0.6/mcmc/ChangeLog | 2 mcmc-0.6/mcmc/DESCRIPTION | 14 +- mcmc-0.6/mcmc/NAMESPACE | 1 mcmc-0.6/mcmc/R/initseq.R |only mcmc-0.6/mcmc/inst/doc/Makefile | 2 mcmc-0.6/mcmc/inst/doc/demo.Rnw | 171 ++++++++++++++++++++++-- mcmc-0.6/mcmc/inst/doc/demo.pdf |binary mcmc-0.6/mcmc/inst/doc/demo.tex | 236 +++++++++++++++++++++++++++++----- mcmc-0.6/mcmc/man/initseq.Rd |only mcmc-0.6/mcmc/src/initseq.c |only mcmc-0.6/mcmc/tests/initseq.R |only mcmc-0.6/mcmc/tests/initseq.Rout.save |only mcmc-0.6/mcmc/tests/logit.Rout.save | 13 + 14 files changed, 382 insertions(+), 57 deletions(-)
Author: Nicholas J. Lewin-Koh and Roger Bivand, contributions by Edzer
J. Pebesma, Eric Archer, Adrian Baddeley, Hans-Jörg Bibiko,
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 0.7-21 dated 2009-03-29 and 0.7-22 dated 2009-04-14
ChangeLog | 5 +++++ DESCRIPTION | 8 ++++---- R/spatstat1.R | 40 ++++++++++++++++++++++------------------ inst/ChangeLog | 5 +++++ 4 files changed, 36 insertions(+), 22 deletions(-)
Author: Gabor Csardi
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.
Diff between igraph versions 0.5.1 dated 2008-07-12 and 0.5.2 dated 2009-04-14
igraph-0.5.1/igraph/ChangeLog.orig |only igraph-0.5.1/igraph/ChangeLog.rej |only igraph-0.5.2/igraph/ChangeLog | 129 ++ igraph-0.5.2/igraph/DESCRIPTION | 21 igraph-0.5.2/igraph/NAMESPACE | 16 igraph-0.5.2/igraph/R/CohesiveBlocks.R | 604 +++------ igraph-0.5.2/igraph/R/attributes.R | 20 igraph-0.5.2/igraph/R/auto.R | 132 ++ igraph-0.5.2/igraph/R/conversion.R | 130 ++ igraph-0.5.2/igraph/R/flow.R | 12 igraph-0.5.2/igraph/R/foreign.R | 53 igraph-0.5.2/igraph/R/layout.R | 15 igraph-0.5.2/igraph/R/package.R | 5 igraph-0.5.2/igraph/R/plot.R | 85 - igraph-0.5.2/igraph/R/plot.common.R | 11 igraph-0.5.2/igraph/R/plot.shapes.R | 2 igraph-0.5.2/igraph/R/print.R | 5 igraph-0.5.2/igraph/R/socnet.R |only igraph-0.5.2/igraph/R/structural.properties.R | 41 igraph-0.5.2/igraph/R/structure.generators.R | 182 ++ igraph-0.5.2/igraph/R/tkplot.R | 54 igraph-0.5.2/igraph/configure | 1091 +++++++++++++++-- igraph-0.5.2/igraph/configure.win | 13 igraph-0.5.2/igraph/inst/html_library.license.terms |only igraph-0.5.2/igraph/inst/html_library.tcl |only igraph-0.5.2/igraph/inst/igraph.gif |only igraph-0.5.2/igraph/inst/my_html_library.tcl |only igraph-0.5.2/igraph/inst/tkigraph_help |only igraph-0.5.2/igraph/man/aaa-igraph-package.Rd | 5 igraph-0.5.2/igraph/man/alpha.centrality.Rd | 5 igraph-0.5.2/igraph/man/arpack.Rd | 16 igraph-0.5.2/igraph/man/betweenness.Rd | 6 igraph-0.5.2/igraph/man/biconnected.components.Rd | 18 igraph-0.5.2/igraph/man/bipartite.projection.Rd |only igraph-0.5.2/igraph/man/canonical.permutation.Rd | 32 igraph-0.5.2/igraph/man/cliques.Rd | 6 igraph-0.5.2/igraph/man/clusters.Rd | 15 igraph-0.5.2/igraph/man/cohesive.blocks.Rd | 59 igraph-0.5.2/igraph/man/community.edge.betweenness.Rd | 25 igraph-0.5.2/igraph/man/community.structure.Rd | 6 igraph-0.5.2/igraph/man/degree.sequence.game.Rd | 14 igraph-0.5.2/igraph/man/dyad.census.Rd | 8 igraph-0.5.2/igraph/man/evcent.Rd | 12 igraph-0.5.2/igraph/man/fastgreedy.community.Rd | 26 igraph-0.5.2/igraph/man/get.incidence.Rd |only igraph-0.5.2/igraph/man/girth.Rd | 10 igraph-0.5.2/igraph/man/graph.automorphisms.Rd | 20 igraph-0.5.2/igraph/man/graph.bipartite.Rd |only igraph-0.5.2/igraph/man/graph.full.bipartite.Rd |only igraph-0.5.2/igraph/man/graph.incidence.Rd |only igraph-0.5.2/igraph/man/graph.isomorphism.Rd | 64 igraph-0.5.2/igraph/man/graph.knn.Rd |only igraph-0.5.2/igraph/man/graph.maxflow.Rd | 22 igraph-0.5.2/igraph/man/graph.strength.Rd |only igraph-0.5.2/igraph/man/independent.sets.Rd | 14 igraph-0.5.2/igraph/man/is.bipartite.Rd |only igraph-0.5.2/igraph/man/iterators.Rd | 40 igraph-0.5.2/igraph/man/kleinberg.Rd | 14 igraph-0.5.2/igraph/man/label.propagation.community.Rd |only igraph-0.5.2/igraph/man/layout.drl.Rd | 9 igraph-0.5.2/igraph/man/leading.eigenvector.Rd | 58 igraph-0.5.2/igraph/man/page.rank.Rd | 14 igraph-0.5.2/igraph/man/plot.bgraph.Rd | 2 igraph-0.5.2/igraph/man/plot.common.Rd | 15 igraph-0.5.2/igraph/man/power.law.fit.Rd | 4 igraph-0.5.2/igraph/man/print.graph.Rd | 3 igraph-0.5.2/igraph/man/read.graph.Rd | 13 igraph-0.5.2/igraph/man/shortest.paths.Rd | 16 igraph-0.5.2/igraph/man/spinglass.community.Rd | 36 igraph-0.5.2/igraph/man/tkigraph.Rd |only igraph-0.5.2/igraph/man/tkplot.Rd | 4 igraph-0.5.2/igraph/man/unfold.tree.Rd |only igraph-0.5.2/igraph/man/walktrap.community.Rd | 36 igraph-0.5.2/igraph/man/write.graph.Rd | 3 igraph-0.5.2/igraph/src/DensityGrid_3d.cpp |only igraph-0.5.2/igraph/src/DensityGrid_3d.h |only igraph-0.5.2/igraph/src/Makevars | 2 igraph-0.5.2/igraph/src/Makevars.win | 2 igraph-0.5.2/igraph/src/adjlist.c | 1 igraph-0.5.2/igraph/src/atlas.c | 1 igraph-0.5.2/igraph/src/attributes.c | 1 igraph-0.5.2/igraph/src/attributes.h | 61 igraph-0.5.2/igraph/src/basic_query.c | 27 igraph-0.5.2/igraph/src/bfgs.c | 1 igraph-0.5.2/igraph/src/bipartite.c |only igraph-0.5.2/igraph/src/bliss.cc | 9 igraph-0.5.2/igraph/src/bliss_bignum.hh | 3 igraph-0.5.2/igraph/src/bliss_graph.cc | 47 igraph-0.5.2/igraph/src/bliss_graph.hh | 2 igraph-0.5.2/igraph/src/cattributes.c | 88 + igraph-0.5.2/igraph/src/centrality.c | 1 igraph-0.5.2/igraph/src/cliques.c | 52 igraph-0.5.2/igraph/src/clustertool.cpp | 4 igraph-0.5.2/igraph/src/cocitation.c | 1 igraph-0.5.2/igraph/src/community.c | 260 +++- igraph-0.5.2/igraph/src/components.c | 1 igraph-0.5.2/igraph/src/config.h.in | 93 + igraph-0.5.2/igraph/src/conversion.c | 1 igraph-0.5.2/igraph/src/cores.c | 1 igraph-0.5.2/igraph/src/d_lg10.c | 2 igraph-0.5.2/igraph/src/d_sign.c | 2 igraph-0.5.2/igraph/src/dasum.c | 2 igraph-0.5.2/igraph/src/daxpy.c | 2 igraph-0.5.2/igraph/src/dcopy.c | 2 igraph-0.5.2/igraph/src/ddot.c | 2 igraph-0.5.2/igraph/src/dgemv.c | 2 igraph-0.5.2/igraph/src/dgeqr2.c | 2 igraph-0.5.2/igraph/src/dger.c | 2 igraph-0.5.2/igraph/src/dgetv0.c | 2 igraph-0.5.2/igraph/src/dlabad.c | 2 igraph-0.5.2/igraph/src/dlacon.c | 2 igraph-0.5.2/igraph/src/dlacpy.c | 2 igraph-0.5.2/igraph/src/dladiv.c | 2 igraph-0.5.2/igraph/src/dlae2.c | 2 igraph-0.5.2/igraph/src/dlaev2.c | 2 igraph-0.5.2/igraph/src/dlaexc.c | 2 igraph-0.5.2/igraph/src/dlahqr.c | 2 igraph-0.5.2/igraph/src/dlaln2.c | 2 igraph-0.5.2/igraph/src/dlamch.c | 4 igraph-0.5.2/igraph/src/dlange.c | 2 igraph-0.5.2/igraph/src/dlanhs.c | 2 igraph-0.5.2/igraph/src/dlanst.c | 2 igraph-0.5.2/igraph/src/dlanv2.c | 2 igraph-0.5.2/igraph/src/dlapy2.c | 2 igraph-0.5.2/igraph/src/dlaqrb.c | 2 igraph-0.5.2/igraph/src/dlarf.c | 2 igraph-0.5.2/igraph/src/dlarfg.c | 2 igraph-0.5.2/igraph/src/dlarfx.c | 2 igraph-0.5.2/igraph/src/dlarnv.c | 2 igraph-0.5.2/igraph/src/dlartg.c | 2 igraph-0.5.2/igraph/src/dlaruv.c | 2 igraph-0.5.2/igraph/src/dlascl.c | 2 igraph-0.5.2/igraph/src/dlaset.c | 2 igraph-0.5.2/igraph/src/dlasr.c | 2 igraph-0.5.2/igraph/src/dlasrt.c | 2 igraph-0.5.2/igraph/src/dlassq.c | 2 igraph-0.5.2/igraph/src/dlasy2.c | 2 igraph-0.5.2/igraph/src/dmout.c | 2 igraph-0.5.2/igraph/src/dnaitr.c | 2 igraph-0.5.2/igraph/src/dnapps.c | 2 igraph-0.5.2/igraph/src/dnaup2.c | 2 igraph-0.5.2/igraph/src/dnaupd.c | 2 igraph-0.5.2/igraph/src/dnconv.c | 14 igraph-0.5.2/igraph/src/dneigh.c | 2 igraph-0.5.2/igraph/src/dneupd.c | 16 igraph-0.5.2/igraph/src/dngets.c | 2 igraph-0.5.2/igraph/src/dnrm2.c | 2 igraph-0.5.2/igraph/src/dorm2r.c | 2 igraph-0.5.2/igraph/src/dqueue.pmt | 1 igraph-0.5.2/igraph/src/drl_Node_3d.h |only igraph-0.5.2/igraph/src/drl_graph.cpp | 38 igraph-0.5.2/igraph/src/drl_graph.h | 1 igraph-0.5.2/igraph/src/drl_graph_3d.cpp |only igraph-0.5.2/igraph/src/drl_graph_3d.h |only igraph-0.5.2/igraph/src/drl_layout_3d.cpp |only igraph-0.5.2/igraph/src/drl_layout_3d.h |only igraph-0.5.2/igraph/src/drl_parse.cpp | 1 igraph-0.5.2/igraph/src/drot.c | 2 igraph-0.5.2/igraph/src/dsaitr.c | 2 igraph-0.5.2/igraph/src/dsapps.c | 2 igraph-0.5.2/igraph/src/dsaup2.c | 2 igraph-0.5.2/igraph/src/dsaupd.c | 2 igraph-0.5.2/igraph/src/dscal.c | 2 igraph-0.5.2/igraph/src/dsconv.c | 14 igraph-0.5.2/igraph/src/dseigt.c | 2 igraph-0.5.2/igraph/src/dsesrt.c | 2 igraph-0.5.2/igraph/src/dseupd.c | 18 igraph-0.5.2/igraph/src/dsgets.c | 2 igraph-0.5.2/igraph/src/dsortc.c | 2 igraph-0.5.2/igraph/src/dsortr.c | 2 igraph-0.5.2/igraph/src/dstatn.c | 2 igraph-0.5.2/igraph/src/dstats.c | 2 igraph-0.5.2/igraph/src/dsteqr.c | 2 igraph-0.5.2/igraph/src/dstqrb.c | 2 igraph-0.5.2/igraph/src/dswap.c | 2 igraph-0.5.2/igraph/src/dtrevc.c | 2 igraph-0.5.2/igraph/src/dtrexc.c | 2 igraph-0.5.2/igraph/src/dtrmm.c | 2 igraph-0.5.2/igraph/src/dtrsen.c | 2 igraph-0.5.2/igraph/src/dtrsyl.c | 2 igraph-0.5.2/igraph/src/dvout.c | 2 igraph-0.5.2/igraph/src/error.c | 4 igraph-0.5.2/igraph/src/error.h | 4 igraph-0.5.2/igraph/src/etime_.c | 5 igraph-0.5.2/igraph/src/evolver_cit.c | 1 igraph-0.5.2/igraph/src/fast_community.c | 4 igraph-0.5.2/igraph/src/flow.c | 1 igraph-0.5.2/igraph/src/foreign-gml-lexer.c | 116 - igraph-0.5.2/igraph/src/foreign-gml-parser.c | 58 igraph-0.5.2/igraph/src/foreign-gml-parser.h | 2 igraph-0.5.2/igraph/src/foreign-graphml.c | 54 igraph-0.5.2/igraph/src/foreign-lgl-lexer.c | 108 - igraph-0.5.2/igraph/src/foreign-lgl-parser.c | 25 igraph-0.5.2/igraph/src/foreign-lgl-parser.h | 2 igraph-0.5.2/igraph/src/foreign-ncol-lexer.c | 106 - igraph-0.5.2/igraph/src/foreign-ncol-parser.c | 21 igraph-0.5.2/igraph/src/foreign-ncol-parser.h | 2 igraph-0.5.2/igraph/src/foreign-pajek-lexer.c | 190 +- igraph-0.5.2/igraph/src/foreign-pajek-parser.c | 202 +-- igraph-0.5.2/igraph/src/foreign-pajek-parser.h | 2 igraph-0.5.2/igraph/src/foreign.c | 39 igraph-0.5.2/igraph/src/forestfire.c | 1 igraph-0.5.2/igraph/src/games.c | 1 igraph-0.5.2/igraph/src/gengraph_degree_sequence.cpp | 5 igraph-0.5.2/igraph/src/gengraph_graph_molloy_hash.cpp | 3 igraph-0.5.2/igraph/src/gengraph_mr-connected.cpp | 9 igraph-0.5.2/igraph/src/gml_tree.c | 1 igraph-0.5.2/igraph/src/heap.c | 7 igraph-0.5.2/igraph/src/heap.pmt | 1 igraph-0.5.2/igraph/src/idamax.c | 2 igraph-0.5.2/igraph/src/igraph.h | 85 + igraph-0.5.2/igraph/src/igraph_buckets.c | 1 igraph-0.5.2/igraph/src/igraph_grid.c | 1 igraph-0.5.2/igraph/src/igraph_hashtable.c | 1 igraph-0.5.2/igraph/src/igraph_math.h |only igraph-0.5.2/igraph/src/igraph_psumtree.c | 1 igraph-0.5.2/igraph/src/igraph_set.c | 1 igraph-0.5.2/igraph/src/igraph_strvector.c | 1 igraph-0.5.2/igraph/src/igraph_trie.c | 1 igraph-0.5.2/igraph/src/interrupt.c | 1 igraph-0.5.2/igraph/src/iterators.c | 5 igraph-0.5.2/igraph/src/ivout.c | 2 igraph-0.5.2/igraph/src/layout.c | 2 igraph-0.5.2/igraph/src/lsame.c | 2 igraph-0.5.2/igraph/src/math.c | 200 +++ igraph-0.5.2/igraph/src/matrix.pmt | 2 igraph-0.5.2/igraph/src/measure_dynamics.c | 1 igraph-0.5.2/igraph/src/memory.c | 1 igraph-0.5.2/igraph/src/motifs.c | 1 igraph-0.5.2/igraph/src/operators.c | 1 igraph-0.5.2/igraph/src/other.c | 24 igraph-0.5.2/igraph/src/pottsmodel_2.cpp | 29 igraph-0.5.2/igraph/src/pow_dd.c | 2 igraph-0.5.2/igraph/src/pow_di.c | 2 igraph-0.5.2/igraph/src/progress.c | 3 igraph-0.5.2/igraph/src/random.c | 1 igraph-0.5.2/igraph/src/revolver_cit.c | 1 igraph-0.5.2/igraph/src/revolver_grow.c | 1 igraph-0.5.2/igraph/src/revolver_ml_cit.c | 9 igraph-0.5.2/igraph/src/rinterface.c | 617 +++++++++ igraph-0.5.2/igraph/src/s_cmp.c | 2 igraph-0.5.2/igraph/src/s_copy.c | 2 igraph-0.5.2/igraph/src/second.c | 2 igraph-0.5.2/igraph/src/spectral_properties.c | 1 igraph-0.5.2/igraph/src/spmatrix.c | 1 igraph-0.5.2/igraph/src/stack.pmt | 1 igraph-0.5.2/igraph/src/structural_properties.c | 599 +++++++++ igraph-0.5.2/igraph/src/structure_generators.c | 1 igraph-0.5.2/igraph/src/topology.c | 3 igraph-0.5.2/igraph/src/type_indexededgelist.c | 233 ++- igraph-0.5.2/igraph/src/types.h | 33 igraph-0.5.2/igraph/src/vector.c | 1 igraph-0.5.2/igraph/src/vector.h | 1 igraph-0.5.2/igraph/src/vector.pmt | 39 igraph-0.5.2/igraph/src/vector_ptr.c | 12 igraph-0.5.2/igraph/src/visitors.c | 1 igraph-0.5.2/igraph/src/walktrap.cpp | 2 igraph-0.5.2/igraph/src/xerbla.c | 2 258 files changed, 5363 insertions(+), 1721 deletions(-)
Author: Matthew Vavrek
Title: Palaeoecological and Palaeogeographical Analysis Tools
Description: A set of analytical tools useful in analysing ecological
and geographical data sets, both ancient and modern. The
package includes functions for estimating species richness
(Chao 1 and 2, ACE, ICE, Jacknife), shared species/beta
diversity, species area curves and geographic distances and
areas.
Diff between fossil versions 0.2.0 dated 2008-09-28 and 0.2.1 dated 2009-04-14
DESCRIPTION | 36 ++++++++++++++---------- R/dino.mst.R | 78 ++++++++++++++++++++++++------------------------------ inst |only man/dino.mst.Rd | 4 ++ man/earth.poly.Rd | 13 +++------ man/spp.est.Rd | 5 ++- 6 files changed, 67 insertions(+), 69 deletions(-)
Author: Karsten Tabelow
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).
Diff between fmri versions 1.2-6 dated 2008-05-19 and 1.3 dated 2009-04-14
DESCRIPTION | 30 - HISTORY | 28 + NAMESPACE | 2 R/aws.r | 507 +++++++++++++++++----------- R/detrend.R |only R/fmri.R | 136 +++++-- R/fmriGUI.r |only R/io.R | 83 ++-- R/lm.R | 11 R/misc.r | 45 ++ R/ngca.r | 107 ++++- R/segm.r |only README | 12 inst |only man/fmri.design.Rd | 5 man/fmri.detrend.Rd |only man/fmri.gui.Rd |only man/fmri.lm.Rd | 10 man/fmri.pvalue.Rd | 10 man/fmri.smooth.Rd | 21 - man/fmri.stimulus.Rd | 7 man/ngca.Rd | 8 man/plot.fmridata.Rd | 9 man/print.fmridata.Rd | 5 man/read.AFNI.Rd | 7 man/read.ANALYZE.Rd | 8 man/read.DICOM.Rd | 7 man/read.NIFTI.Rd | 10 man/write.AFNI.Rd | 5 man/write.ANALYZE.Rd | 5 man/write.NIFTI.Rd | 5 src/Makevars |only src/Rentries.c |only src/fastica.f |only src/misc.f | 263 +++++++++++++- src/ngca.f | 250 +++++++++---- src/segm3D.f |only src/vaws3D.f | 904 +++++++------------------------------------------- 38 files changed, 1328 insertions(+), 1172 deletions(-)
Author: Tarn Duong
Title: Feature significance for multivariate kernel density estimation
Description: Feature significance for multivariate kernel density
estimation
Diff between feature versions 1.2.2 dated 2009-02-16 and 1.2.3 dated 2009-04-14
feature-1.2.2/feature/R-temp |only feature-1.2.2/feature/R/dfltCounts.R |only feature-1.2.2/feature/R/linbin.R |only feature-1.2.2/feature/R/linbin2D.R |only feature-1.2.2/feature/R/linbin3D.R |only feature-1.2.2/feature/R/linbin4D.R |only feature-1.2.2/feature/R/symconv.R |only feature-1.2.2/feature/R/symconv2D.R |only feature-1.2.2/feature/R/symconv3D.R |only feature-1.2.2/feature/R/symconv4D.R |only feature-1.2.2/feature/Rplots.pdf |only feature-1.2.2/feature/src |only feature-1.2.3/feature/DESCRIPTION | 15 +++++++++------ feature-1.2.3/feature/NAMESPACE | 7 +++---- feature-1.2.3/feature/R-future |only feature-1.2.3/feature/R/addSignifFeatureRegion.R | 15 +++++---------- feature-1.2.3/feature/R/featureSignifGUI.R | 1 + feature-1.2.3/feature/inst/doc/feature.pdf |binary feature-1.2.3/feature/man/featureSignifGUI.Rd | 4 ++-- 19 files changed, 20 insertions(+), 22 deletions(-)
Author: Jeff Hallman
Title: Interface for FAME time series database
Description: Read and write FAME databases.
Diff between fame versions 2.5 dated 2009-01-22 and 2.6 dated 2009-04-14
DESCRIPTION | 20 +++++++++++--------- NEWS | 4 ++++ man/getfame.Rd | 15 +++++---------- man/getfameAttribute.Rd | 9 ++------- 4 files changed, 22 insertions(+), 26 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 0.3-7 dated 2009-02-04 and 0.4-0 dated 2009-04-14
ChangeLog | 46 +++++++++++++++++++++++++--------------------- DESCRIPTION | 13 ++++++++----- R/ci.transfo.R |only R/summary.etm.R | 41 ++++++++++++++++------------------------- R/xyplot.etm.R | 53 +++++++++++++++++++++++++++-------------------------- data/abortion.txt |only man/abortion.Rd |only man/etm.Rd | 25 ++++++++++++++++++++++++- man/plot.etm.Rd | 4 ++-- man/summary.etm.Rd | 13 ++++++++++++- man/xyplot.etm.Rd | 19 ++++++++++++++++--- 11 files changed, 130 insertions(+), 84 deletions(-)
Author: Christian Ritz
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.
Diff between drc versions 1.6-1 dated 2009-03-25 and 1.6-3 dated 2009-04-14
drc-1.6-1/drc/R/drmEMbinomial.r |only drc-1.6-1/drc/R/drmEMhv.R |only drc-1.6-1/drc/R/drmEMvp.R |only drc-1.6-1/drc/R/drmPoisson.R |only drc-1.6-1/drc/R/scaleXY.R |only drc-1.6-1/drc/R/sumbin.R |only drc-1.6-3/drc/DESCRIPTION | 10 - drc-1.6-3/drc/NAMESPACE | 2 drc-1.6-3/drc/NEWS | 11 + drc-1.6-3/drc/R/ED.drc.R | 83 ++++------- drc-1.6-3/drc/R/MAX.R | 130 +----------------- drc-1.6-3/drc/R/SI.R | 250 ++++++------------------------------ drc-1.6-3/drc/R/boxcox.drc.R | 2 drc-1.6-3/drc/R/coef.drc.R | 13 + drc-1.6-3/drc/R/compParm.R | 77 ++++++----- drc-1.6-3/drc/R/confint.drc.R | 11 - drc-1.6-3/drc/R/drm.R | 87 ++++++++++-- drc-1.6-3/drc/R/drmEMPoisson.R |only drc-1.6-3/drc/R/drmEMbinomial.R |only drc-1.6-3/drc/R/drmEMls.R | 9 - drc-1.6-3/drc/R/drmLOFbinomial.R |only drc-1.6-3/drc/R/drmLOFls.R |only drc-1.6-3/drc/R/drmOpt.R | 2 drc-1.6-3/drc/R/hewlett.R | 5 drc-1.6-3/drc/R/idrm.R | 165 ++++++++++++++--------- drc-1.6-3/drc/R/isobole.R | 1 drc-1.6-3/drc/R/logistic.R | 26 +-- drc-1.6-3/drc/R/mixture.R | 5 drc-1.6-3/drc/R/modelFit.R | 11 - drc-1.6-3/drc/R/plot.drc.R | 250 ++++++++++++++++++++++++++---------- drc-1.6-3/drc/R/predict.drc.R | 13 - drc-1.6-3/drc/R/print.summary.drc.R | 21 ++- drc-1.6-3/drc/R/relpot.R | 8 - drc-1.6-3/drc/R/resPrint.R |only drc-1.6-3/drc/R/showNews.R |only drc-1.6-3/drc/R/summary.drc.R | 98 ++++++++------ drc-1.6-3/drc/R/vcov.drc.R | 125 ++++++++++++++++-- drc-1.6-3/drc/man/ED.drc.Rd | 4 drc-1.6-3/drc/man/MAX.Rd | 4 drc-1.6-3/drc/man/SI.Rd | 21 +-- drc-1.6-3/drc/man/boxcox.drc.Rd | 5 drc-1.6-3/drc/man/compParm.Rd | 4 drc-1.6-3/drc/man/confint.drc.Rd | 4 drc-1.6-3/drc/man/drm.Rd | 4 drc-1.6-3/drc/man/earthworms.Rd | 25 ++- drc-1.6-3/drc/man/logistic.Rd | 24 +-- drc-1.6-3/drc/man/plot.drc.Rd | 92 ++++++------- drc-1.6-3/drc/man/summary.drc.Rd | 6 drc-1.6-3/drc/man/vcov.drc.Rd | 8 + 49 files changed, 859 insertions(+), 757 deletions(-)
Author: Stefano Iacus
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
Diff between cem versions 1.0.90 dated 2009-02-18 and 1.0.96 dated 2009-04-14
cem-1.0.90/cem/inst/doc/outdata1.csv |only cem-1.0.90/cem/inst/doc/outdata2.csv |only cem-1.0.90/cem/inst/doc/outdata3.csv |only cem-1.0.90/cem/inst/doc/outdata4.csv |only cem-1.0.90/cem/inst/doc/outdata5.csv |only cem-1.0.96/cem/DESCRIPTION | 24 cem-1.0.96/cem/inst/doc/Rplots.pdf | 4 cem-1.0.96/cem/inst/doc/cem.Rnw | 59 cem-1.0.96/cem/inst/doc/cem.pdf | 5815 +++++++++++++++++------------------ cem-1.0.96/cem/inst/doc/coarsen1.pdf | 4 cem-1.0.96/cem/inst/doc/coarsen2.pdf | 4 cem-1.0.96/cem/inst/doc/index.shtml | 4 cem-1.0.96/cem/inst/doc/teff.pdf | 4 cem-1.0.96/cem/man/att.Rd | 3 cem-1.0.96/cem/man/cem.Rd | 4 15 files changed, 3038 insertions(+), 2887 deletions(-)
Author: Hsin-ya Lee
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), ANOVA (lm) for a standard
RT/TR 2x2x2 crossover design and linear mixed effect model (lme
of nlme) for a 2-treatment, 2-sequence, with 2 periods or more
(i.e. 2x2x3/2x2x4) replicate design or a 2-treatment,
2-sequence, and 1-period parallel ABE study (2x2x1).
Diff between bear versions 2.3.0 dated 2009-03-09 and 2.3.1 dated 2009-04-14
DESCRIPTION | 34 +++++---- R/BANOVA.r | 123 ++++++++++++++++++----------------- R/NCAoutput.r | 8 +- R/NCAplot.r | 66 ++++++++---------- R/Paradata.r |only R/RepMIX.r | 52 +++++++------- R/demopara.r |only R/description_plot.r | 2 R/description_size.r | 11 ++- R/description_size_para.r |only R/description_version.r | 2 R/logdata.r | 150 +++++++++++++++++++++++++------------------ R/plotsingle.Rep.r | 16 ++-- R/plotsingle.para.r | 24 +----- R/plotsingle.r | 39 +++++------ R/sizemenu.r | 20 ++++- R/xtick.r |only R/ytick.r |only R/zzz.R | 2 man/Paradata.rd |only man/demopara.rd |only man/description_size_para.rd |only man/xtick.rd |only man/ytick.rd |only 24 files changed, 293 insertions(+), 256 deletions(-)
Author: David Hajage
Title: Export R objects to asciidoc or txt2tags
Description: Coerce R object to asciidoc or txt2tags syntax. Package
comes with two drivers for Sweave.
Diff between ascii versions 0.1 dated 2009-04-04 and 0.1.1 dated 2009-04-14
DESCRIPTION | 9 +++++---- NAMESPACE | 2 ++ NEWS |only R/asciiHmisc.r |only man/ascii.Rd | 5 +++++ 5 files changed, 12 insertions(+), 4 deletions(-)
Author: Karsten Tabelow
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.
Diff between adimpro versions 0.7.1 dated 2008-10-07 and 0.7.2 dated 2009-04-14
DESCRIPTION | 27 +++++++++++++++------------ NAMESPACE | 1 + R/aniso.r | 3 +-- R/awsimage.r | 31 ++++++++++++------------------- R/io.R | 1 + R/misc.r | 14 +++++++++++--- R/segment.r | 45 ++++++++++++++------------------------------- man/adimpro.options.Rd | 2 +- man/awsimage.Rd | 20 ++++++++++++-------- man/segment.Rd | 4 +--- src/segment.f | 39 +++++++++++++-------------------------- 11 files changed, 82 insertions(+), 105 deletions(-)
Author: Paul Gilbert
Title: Time Series Database Interface extensions for ODBC
Description: TSodbc provides a ODBC interface for TSdbi.
Diff between TSodbc versions 2009.3-2 dated 2009-03-25 and 2009.3-3 dated 2009-04-14
DESCRIPTION | 12 ++++++------ NEWS | 5 +++++ inst/doc/TSodbc.Stex | 2 +- 3 files changed, 12 insertions(+), 7 deletions(-)
Author: Damian W. Betebenner
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.
Diff between SGP versions 0.0-3 dated 2009-02-16 and 0.0-4 dated 2009-04-14
CITATION | 4 DESCRIPTION | 41 +- LICENSE |only NAMESPACE | 2 NEWS | 10 R/studentGrowthPercentiles.R | 801 +++++++++++++++++++++++----------------- R/studentGrowthProjections.R | 418 ++++++++++---------- inst |only man/SGP-package.Rd | 2 man/studentGrowthPercentiles.Rd | 88 +--- man/studentGrowthProjections.Rd | 150 +++---- 11 files changed, 811 insertions(+), 705 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 0.7-3 dated 2009-02-04 and 0.7-4 dated 2009-04-14
DESCRIPTION | 16 +++++++++------- inst/INSTALL | 2 ++ inst/NEWS | 6 ++++++ src/RS-DBI.c | 8 +++++--- src/RS-MySQL.c | 8 +++++--- 5 files changed, 27 insertions(+), 13 deletions(-)
Author: originally written by Andrew Gelman
Title: Running WinBUGS and OpenBUGS from R / S-PLUS
Description: Using this package, it is possible to call a BUGS model,
summarize inferences and convergence in a table and graph, and
save the simulations in arrays for easy access in R / S-PLUS.
In S-PLUS, the openbugs functionality and the windows emulation
functionality is not yet available.
Diff between R2WinBUGS versions 2.1-13 dated 2009-03-29 and 2.1-14 dated 2009-04-14
DESCRIPTION | 8 ++++---- R/bugs.R | 6 +++--- R/bugs.script.R | 4 +++- R/openbugs.R | 6 +++--- inst/NEWS | 3 +++ inst/doc/R2WinBUGS.pdf | 6 +++--- man/bugs.Rd | 3 ++- man/bugs.script.Rd | 3 ++- man/openbugs.Rd | 4 ++-- 9 files changed, 25 insertions(+), 18 deletions(-)
Author: Chun-Ying Lee, Yung-Jin Lee
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.
Diff between PKfit versions 1.1.7 dated 2009-02-01 and 1.1.8 dated 2009-04-14
DESCRIPTION | 24 ++++++++++++++---------- R/extravascular-f.R | 2 +- 2 files changed, 15 insertions(+), 11 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 2.42 dated 2009-03-06 and 2.43 dated 2009-04-14
DESCRIPTION | 19 R/MCMCped.R | 2 inst/doc/Figures/Tutorial.Rnw | 2 inst/doc/Tutorial-006.pdf | 73 inst/doc/Tutorial-007.pdf | 73 inst/doc/Tutorial-008.pdf | 81 inst/doc/Tutorial-009.pdf | 73 inst/doc/Tutorial-022.eps | 5874 ++++----- inst/doc/Tutorial-022.pdf | 7115 +++++------ inst/doc/Tutorial-027.eps | 6401 +++++----- inst/doc/Tutorial-027.pdf | 7129 +++++------ inst/doc/Tutorial-030.eps | 5627 ++++----- inst/doc/Tutorial-030.pdf | 6626 +++++----- inst/doc/Tutorial-035.eps |16438 +++++++++++++-------------- inst/doc/Tutorial-035.pdf |20155 ++++++++++++++++----------------- inst/doc/Tutorial-039.eps | 6185 +++++----- inst/doc/Tutorial-039.pdf | 6632 +++++----- inst/doc/Tutorial-044.eps | 5837 ++++----- inst/doc/Tutorial-044.pdf | 6629 +++++----- inst/doc/Tutorial-047.eps | 6004 ++++----- inst/doc/Tutorial-047.pdf | 6592 +++++----- inst/doc/Tutorial-050.eps | 3969 +++--- inst/doc/Tutorial-057.eps |15445 ++++++++++++------------- inst/doc/Tutorial-057.pdf |21133 +++++++++++++++++------------------ inst/doc/Tutorial-060.eps |16453 +++++++++++++-------------- inst/doc/Tutorial-060.pdf |21099 +++++++++++++++++----------------- inst/doc/Tutorial-063.eps | 6091 +++++----- inst/doc/Tutorial-063.pdf | 7114 +++++------ inst/doc/Tutorial-068.eps | 6174 +++++----- inst/doc/Tutorial-068.pdf | 7100 +++++------ inst/doc/Tutorial-070.eps | 6202 ++++------ inst/doc/Tutorial-070.pdf | 6899 +++++------ inst/doc/Tutorial-073.eps | 6202 +++++----- inst/doc/Tutorial-073.pdf | 7123 +++++------ inst/doc/Tutorial-076.eps | 6196 +++++----- inst/doc/Tutorial-076.pdf | 7126 +++++------ inst/doc/Tutorial-078.eps | 5446 ++++----- inst/doc/Tutorial-078.pdf | 6624 +++++----- inst/doc/Tutorial-081.eps | 6422 +++++----- inst/doc/Tutorial-081.pdf | 7053 +++++------ inst/doc/Tutorial-084.eps | 5874 ++++----- inst/doc/Tutorial-084.pdf | 7085 +++++------ inst/doc/Tutorial-087.eps | 6267 +++++----- inst/doc/Tutorial-087.pdf | 7118 +++++------ inst/doc/Tutorial-090.eps | 6413 +++++----- inst/doc/Tutorial-090.pdf | 7121 +++++------ inst/doc/Tutorial-093.eps | 5912 ++++----- inst/doc/Tutorial-093.pdf | 7107 +++++------ inst/doc/Tutorial-096.eps |10921 +++++++++--------- inst/doc/Tutorial-096.pdf |14148 +++++++++++------------ inst/doc/Tutorial-099.eps |13599 +++++++++++----------- inst/doc/Tutorial-099.pdf |14155 +++++++++++------------ inst/doc/Tutorial-EPP2Test.eps | 6422 +++++----- inst/doc/Tutorial-EPP2Test.pdf | 7053 +++++------ inst/doc/Tutorial-EPPmerge.eps | 5874 ++++----- inst/doc/Tutorial-EPPmerge.pdf | 7085 +++++------ inst/doc/Tutorial-Herm.eps | 5912 ++++----- inst/doc/Tutorial-Herm.pdf | 7107 +++++------ inst/doc/Tutorial-MGped.eps | 6413 +++++----- inst/doc/Tutorial-MGped.pdf | 7121 +++++------ inst/doc/Tutorial-model.DSconfig.eps | 3969 +++--- inst/doc/Tutorial-model.INT.cntr.eps |16453 +++++++++++++-------------- inst/doc/Tutorial-model.INT.cntr.pdf |21099 +++++++++++++++++----------------- inst/doc/Tutorial-model.INT.eps |15445 ++++++++++++------------- inst/doc/Tutorial-model.INT.pdf |21133 +++++++++++++++++------------------ inst/doc/Tutorial-model.ass.mat.eps | 6267 +++++----- inst/doc/Tutorial-model.ass.mat.pdf | 7118 +++++------ inst/doc/Tutorial-model.config.eps | 6004 ++++----- inst/doc/Tutorial-model.config.pdf | 6592 +++++----- inst/doc/Tutorial-model.miss.eps | 6174 +++++----- inst/doc/Tutorial-model.miss.pdf | 7100 +++++------ inst/doc/Tutorial-model.miss2.eps | 6196 +++++----- inst/doc/Tutorial-model.miss2.pdf | 7126 +++++------ inst/doc/Tutorial-model.miss2US.eps | 5446 ++++----- inst/doc/Tutorial-model.miss2US.pdf | 6624 +++++----- inst/doc/Tutorial-model.missTest.eps | 6202 +++++----- inst/doc/Tutorial-model.missTest.pdf | 7123 +++++------ inst/doc/Tutorial-model.missUS.eps | 6202 ++++------ inst/doc/Tutorial-model.missUS.pdf | 6899 +++++------ inst/doc/Tutorial-model.pedEE2.eps | 5837 ++++----- inst/doc/Tutorial-model.pedEE2.pdf | 6629 +++++----- inst/doc/Tutorial-model2beta.eps | 5874 ++++----- inst/doc/Tutorial-model2beta.pdf | 7115 +++++------ inst/doc/Tutorial-model3beta.eps | 6401 +++++----- inst/doc/Tutorial-model3beta.pdf | 7129 +++++------ inst/doc/Tutorial-model4US.eps | 5627 ++++----- inst/doc/Tutorial-model4US.pdf | 6626 +++++----- inst/doc/Tutorial-model5.eps |16438 +++++++++++++-------------- inst/doc/Tutorial-model5.pdf |20155 ++++++++++++++++----------------- inst/doc/Tutorial-model6US.eps | 6185 +++++----- inst/doc/Tutorial-model6US.pdf | 6632 +++++----- inst/doc/Tutorial-mon1.eps |10921 +++++++++--------- inst/doc/Tutorial-mon1.pdf |14148 +++++++++++------------ inst/doc/Tutorial-mon2.eps |13599 +++++++++++----------- inst/doc/Tutorial-mon2.pdf |14155 +++++++++++------------ inst/doc/Tutorial-ys.eps | 6091 +++++----- inst/doc/Tutorial-ys.pdf | 7114 +++++------ inst/doc/Tutorial.Rnw | 187 inst/doc/Tutorial.bbl |only inst/doc/Tutorial.blg |only inst/doc/Tutorial.pdf |binary man/varPed.Rd | 9 src/LikFunctions.cc | 178 src/SampG.cc | 17 104 files changed, 389454 insertions(+), 388930 deletions(-)
Author: Georg M. Goerg
Title: Lambert W parameter estimation, plots, simulation (Skew
Analysis)
Description: Lambert W random variables (RV) offer a new way of dealing
with slightly skewed data. It is based on an input/ouput
framework - for details see References. This package contains
the most important functions to perform an adequate analysis.
Lambert W data can be simulated, parameters estimated and
results can be plotted in a proper way.
Diff between LambertW versions 0.1.0 dated 2009-03-23 and 0.1.6 dated 2009-04-14
DESCRIPTION | 23 ++++++++++++-------- R/IGMM.default.R | 11 +++------ R/KS.test.t.R | 2 + R/MLE_LambertW.R | 2 - R/MLE_LambertW.default.R | 9 ++++--- R/dLambertW.R | 7 +++--- R/delta.GMM.R | 2 - R/delta.test.R | 4 +-- R/igmm.r | 2 - R/mom.LambertW.X.Gauss.R | 2 - R/normfit.R | 4 +-- R/pLambertW.R | 10 ++++++-- R/p_1.R | 2 - R/qLambertW.R | 36 +++++++++++++++++++++++++++---- R/qqLambertW.R | 45 ++++++++++++++++++++++----------------- R/rLambertW.R | 10 ++++++-- R/summary.LWest.R | 18 ++++++++++++--- man/AA.Rd | 39 ++++++++++++++++++++++++++++++++-- man/H.Rd | 9 ++----- man/H_delta.Rd | 6 +---- man/IGMM.Rd | 29 ++++++++++++++----------- man/IGMM.default.Rd | 29 ++++++++++++++----------- man/KS.test.t.Rd | 12 +++++++--- man/LambertW-package.Rd | 50 +++++++++++++++++++++++++++++--------------- man/MLE_LambertW.Rd | 45 ++++++++++++++++++++++----------------- man/MLE_LambertW.default.Rd | 32 ++++++++++++++++++---------- man/W.Rd | 16 +++++++++----- man/W_1.Rd | 15 +++++++++---- man/W_delta.Rd | 6 ++--- man/W_delta_1.Rd | 8 +++---- man/d1W.Rd | 4 +-- man/d1W_1.Rd | 2 - man/dLambertW.Rd | 37 +++++++++++++++++++++++++------- man/delta.01.Rd | 10 ++++---- man/delta.GMM.Rd | 16 ++++++-------- man/delta.test.Rd | 40 +++++++++++++++++++++++++++++------ man/get.input.Rd | 10 +++++++- man/mc.Rd | 3 -- man/mom.LambertW.U.Gauss.Rd | 4 +-- man/mom.LambertW.X.Gauss.Rd | 22 ++++++++++++++----- man/normfit.Rd | 37 ++++++++++++++++++++------------ man/pLambertW.Rd | 21 ++++++++++++++---- man/p_1.Rd | 14 ++++++++---- man/plot.LWest.Rd | 8 +++---- man/print.summary.LWest.Rd | 6 ++--- man/qLambertW.Rd | 18 ++++++++++++++- man/qqLambertW.Rd | 12 +++++++--- man/rLambertW.Rd | 42 +++++++++++++++++++++++++++++------- man/sd.Rd | 5 +--- man/summary.LWest.Rd | 17 ++++++-------- man/support.Rd | 11 +++++++-- man/vec.norm.Rd | 8 ++----- 52 files changed, 555 insertions(+), 277 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 1.0.01 dated 2009-03-16 and 1.1.00 dated 2009-04-14
IDPmisc-1.0.01/IDPmisc/R/plotdat.R |only IDPmisc-1.1.00/IDPmisc/ChangeLog | 20 IDPmisc-1.1.00/IDPmisc/DESCRIPTION | 8 IDPmisc-1.1.00/IDPmisc/R/draw.leg.R | 13 IDPmisc-1.1.00/IDPmisc/R/general.control.R | 13 IDPmisc-1.1.00/IDPmisc/R/griddat.R |only IDPmisc-1.1.00/IDPmisc/R/ilagplot.R | 42 +- IDPmisc-1.1.00/IDPmisc/R/ipairs.R | 44 +- IDPmisc-1.1.00/IDPmisc/R/iplot.R | 42 +- IDPmisc-1.1.00/IDPmisc/R/iplotLegend.R | 7 IDPmisc-1.1.00/IDPmisc/R/iplotMain.R | 4 IDPmisc-1.1.00/IDPmisc/R/plot.page.R | 7 IDPmisc-1.1.00/IDPmisc/R/plot.rose.R | 539 +++++++++++++------------- IDPmisc-1.1.00/IDPmisc/R/rose.R | 6 IDPmisc-1.1.00/IDPmisc/R/rose.grob.R | 95 +++- IDPmisc-1.1.00/IDPmisc/R/segments.circle.R |only IDPmisc-1.1.00/IDPmisc/R/val.rose.R | 5 IDPmisc-1.1.00/IDPmisc/man/IDPmisc-package.Rd | 4 IDPmisc-1.1.00/IDPmisc/man/general.control.Rd | 11 IDPmisc-1.1.00/IDPmisc/man/ilagplot.Rd | 14 IDPmisc-1.1.00/IDPmisc/man/ipairs.Rd | 12 IDPmisc-1.1.00/IDPmisc/man/iplot.Rd | 11 IDPmisc-1.1.00/IDPmisc/man/pkg-internal.Rd | 12 IDPmisc-1.1.00/IDPmisc/man/plot.rose.Rd | 3 24 files changed, 517 insertions(+), 395 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 1.1.0 dated 2008-07-11 and 1.1.1 dated 2009-04-14
CHANGES | 13 +++++++++++++ DESCRIPTION | 25 ++++++++++++++----------- R/robust.spectrum.R | 20 ++++++++++---------- 3 files changed, 37 insertions(+), 21 deletions(-)
Author: Andrew Harris
Title: FITS (Flexible Image Transport System) utilities
Description: Utilities to read and write files in the FITS (Flexible
Image Transport System) format, a standard format in astronomy.
Present low-level routines allow: * Reading and parsing FITS
headers * Reading FITS images (multi-dimensional arrays) *
Reading FITS binary tables * Writing FITS images
(multi-dimensional arrays) Higher-level functions allow: *
Reading files composed of one or more headers and a single
(perhaps multidimensional) image or single bintable * Reading
bintables into data frames * Generating vectors for image array
axes * Scaling and writing images as 16-bit integers Known
incompletenesses are reading FITS ASCII table and random group
extensions, as well as bit, complex, and array descriptor data
types in binary tables.
Diff between FITSio versions 1.0-2 dated 2008-08-06 and 1.0-3 dated 2009-04-14
ChangeLog |only DESCRIPTION | 51 ++++++++++++++++++++++++-------------------------- R/readFrameFromFITS.R | 3 +- man/FITSio-package.Rd | 4 +-- 4 files changed, 29 insertions(+), 29 deletions(-)
Author: Diego Zardetto
Title: Estimation of Variance by Efficient Replication
Description: Delete-A-Group Jackknife replication. Calibration of
replicate weights. Estimates, standard errors and confidence
intervals for: totals, means, absolute and relative frequency
distributions, contingency tables, ratios, quantiles and
regression coefficients. Estimates, standard errors and
confidence intervals for user-defined estimators (even
non-analytic). Domain (subpopulation) estimation.
Diff between EVER versions 1.0 dated 2008-09-12 and 1.1 dated 2009-04-14
DESCRIPTION | 30 ++++++++++++++-------- NAMESPACE | 2 - R/bounds.hint.R |only R/g.range.R | 4 +- R/kott.quantile.R | 21 +++++++++++---- R/kott.ratio.R | 22 ++++++++++++---- R/kott.regcoef.R | 30 +++++++++++----------- R/kottby.R | 65 +++++++++++++++++++++++++++++++----------------- R/kottby.user.R | 47 ++++++++++++++++++++++++++++------ R/kottcalibrate.R | 4 +- R/z.grake.R | 4 +- R/z.ranger.R |only inst/NEWS |only inst/README | 4 ++ man/bounds.hint.Rd |only man/data.examples.Rd | 2 - man/g.range.Rd | 6 ++-- man/kott.addvars.Rd | 2 - man/kott.quantile.Rd | 2 + man/kott.ratio.Rd | 6 ++-- man/kott.regcoef.Rd | 6 ++-- man/kottby.Rd | 2 + man/kottby.user.Rd | 2 + man/kottcalibrate.Rd | 8 ++--- man/kottdesign.Rd | 8 ++--- man/pop.template.Rd | 2 - man/population.check.Rd | 8 ++--- 27 files changed, 191 insertions(+), 96 deletions(-)
Author: James Honaker
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.
Diff between Amelia versions 1.1-33 dated 2008-07-28 and 1.2-0 dated 2009-04-14
Amelia-1.1-33/Amelia/man/am-internal.Rd |only Amelia-1.2-0/Amelia/DESCRIPTION | 51 Amelia-1.2-0/Amelia/NAMESPACE |only Amelia-1.2-0/Amelia/R/amcheck.r | 192 +-- Amelia-1.2-0/Amelia/R/ameliagui.r | 338 +++--- Amelia-1.2-0/Amelia/R/diag.r | 350 ++++-- Amelia-1.2-0/Amelia/R/emb.r | 460 ++++++-- Amelia-1.2-0/Amelia/R/missmap.R |only Amelia-1.2-0/Amelia/R/plot.amelia.R |only Amelia-1.2-0/Amelia/R/prep.r | 147 +- Amelia-1.2-0/Amelia/R/print.amelia.R |only Amelia-1.2-0/Amelia/R/summary.amelia.R |only Amelia-1.2-0/Amelia/R/write.amelia.R |only Amelia-1.2-0/Amelia/R/zzz.R |only Amelia-1.2-0/Amelia/data |only Amelia-1.2-0/Amelia/inst/doc/amelia.log | 92 - Amelia-1.2-0/Amelia/inst/doc/amelia.pdf | 1485 ++++++++++++++--------------- Amelia-1.2-0/Amelia/inst/doc/amelia.tex | 5 Amelia-1.2-0/Amelia/inst/doc/index.shtml | 2 Amelia-1.2-0/Amelia/man/africa.Rd |only Amelia-1.2-0/Amelia/man/amelia.Rd | 145 +- Amelia-1.2-0/Amelia/man/ameliabind.Rd |only Amelia-1.2-0/Amelia/man/compare.density.Rd |only Amelia-1.2-0/Amelia/man/disperse.Rd |only Amelia-1.2-0/Amelia/man/missmap.Rd |only Amelia-1.2-0/Amelia/man/overimpute.Rd |only Amelia-1.2-0/Amelia/man/plot.amelia.Rd |only Amelia-1.2-0/Amelia/man/summary.amelia.Rd |only Amelia-1.2-0/Amelia/man/tscsPlot.Rd |only Amelia-1.2-0/Amelia/man/write.amelia.Rd |only 30 files changed, 1787 insertions(+), 1480 deletions(-)
Author: Daniel P Gaile
Title: Tool for sending interactive plots with tool-tip content.
Description: A tool for visualizing data
Diff between sendplot versions 3.0.2 dated 2009-03-05 and 3.7.0 dated 2009-04-04
sendplot-3.0.2/sendplot/inst/doc/dendro.pdf |only sendplot-3.0.2/sendplot/inst/doc/dendro.png |only sendplot-3.0.2/sendplot/inst/doc/dendro.ps |only sendplot-3.0.2/sendplot/inst/doc/heatmapFirefox.png |only sendplot-3.0.2/sendplot/inst/doc/heatmapFirefox.ps |only sendplot-3.0.2/sendplot/inst/doc/heatmapPaint.png |only sendplot-3.0.2/sendplot/inst/doc/heatmapPaint.ps |only sendplot-3.0.2/sendplot/inst/doc/scatterPaint.png |only sendplot-3.0.2/sendplot/inst/doc/scatterPaint.ps |only sendplot-3.0.2/sendplot/inst/doc/sendPlot2.png |only sendplot-3.0.2/sendplot/inst/doc/sendPlot2.ps |only sendplot-3.0.2/sendplot/inst/doc/sendPlot3.png |only sendplot-3.0.2/sendplot/inst/doc/sendPlot3.ps |only sendplot-3.0.2/sendplot/inst/doc/sendPlot4.png |only sendplot-3.0.2/sendplot/inst/doc/sendPlot4.ps |only sendplot-3.0.2/sendplot/inst/doc/sendplot.Rnw |only sendplot-3.0.2/sendplot/inst/doc/sendplot.aux |only sendplot-3.0.2/sendplot/inst/doc/sendplot.dvi |only sendplot-3.0.2/sendplot/inst/doc/sendplot.log |only sendplot-3.0.2/sendplot/inst/doc/sendplot.toc |only sendplot-3.0.2/sendplot/inst/doc/sendplotFlowChart.png |only sendplot-3.0.2/sendplot/inst/doc/sendplotFlowChart.ps |only sendplot-3.7.0/sendplot/DESCRIPTION | 30 sendplot-3.7.0/sendplot/R/addBounding.R | 2 sendplot-3.7.0/sendplot/R/automapPts.R | 13 sendplot-3.7.0/sendplot/R/heatmap.send.R | 107 sendplot-3.7.0/sendplot/R/initSplot.R | 49 sendplot-3.7.0/sendplot/R/makeCharacter.R | 45 sendplot-3.7.0/sendplot/R/makeImageDF.R | 153 sendplot-3.7.0/sendplot/R/makeImap.R | 76 sendplot-3.7.0/sendplot/R/makePolyDF.R | 160 sendplot-3.7.0/sendplot/R/makeRectDF.R | 152 sendplot-3.7.0/sendplot/R/makeScatterDF.R | 138 sendplot-3.7.0/sendplot/R/makeSplot.R | 261 sendplot-3.7.0/sendplot/R/mapMethod.R | 52 sendplot-3.7.0/sendplot/R/writeArea.R | 79 sendplot-3.7.0/sendplot/inst/doc/exPlotImage.ps |53353 ++++++++++++----- sendplot-3.7.0/sendplot/inst/doc/hand.jpg |only sendplot-3.7.0/sendplot/inst/doc/sendplot.R | 2 sendplot-3.7.0/sendplot/inst/doc/sendplot.pdf |binary sendplot-3.7.0/sendplot/inst/doc/snapshot1.png |only sendplot-3.7.0/sendplot/man/HeatmapWrapper.Rd | 1 sendplot-3.7.0/sendplot/man/addBounding.Rd | 2 sendplot-3.7.0/sendplot/man/heatmap.send.Rd | 17 sendplot-3.7.0/sendplot/man/imagesend.Rd | 3 sendplot-3.7.0/sendplot/man/initSplot.Rd | 7 sendplot-3.7.0/sendplot/man/makeImageDF.Rd | 22 sendplot-3.7.0/sendplot/man/makeImap.Rd | 29 sendplot-3.7.0/sendplot/man/makePolyDF.Rd | 22 sendplot-3.7.0/sendplot/man/makeRectDF.Rd | 22 sendplot-3.7.0/sendplot/man/makeScatterDF.Rd | 22 sendplot-3.7.0/sendplot/man/makeSplot.Rd | 16 sendplot-3.7.0/sendplot/man/sendimage.Rd | 1 sendplot-3.7.0/sendplot/man/sendplot.Rd | 2 sendplot-3.7.0/sendplot/man/sendxy.Rd | 1 55 files changed, 41269 insertions(+), 13570 deletions(-)
Author: P. Roebuck, Rice University's DSP group
Title: Rice Wavelet Toolbox wrapper
Description: Provides a set of functions for performing digital signal
processing
Diff between rwt versions 0.9-1 dated 2005-06-25 and 0.9.2 dated 2009-04-04
rwt-0.9-1/rwt/COPYING |only rwt-0.9.2/rwt/DESCRIPTION | 15 +++++++++------ rwt-0.9.2/rwt/LICENSE |only rwt-0.9.2/rwt/inst/NEWS | 5 ++++- 4 files changed, 13 insertions(+), 7 deletions(-)
Author: Jared O'Connell
Title: Parameter estimation and prediction for hidden Markov and
semi-Markov models for data with multiple observation sequences
Description: Parameter estimation and prediction for hidden Markov and
semi-Markov models for data with multiple observation
sequences. The times must be equidistant but missing values of
the observables are allowed. The observables are allowed to be
multivariate. It is possible to have multiple sequences of
data. Estimation of the parameters of the models are made using
EM--algorithms. Computationally demanding parts of the
algorithm are implemented in C for performance. Finally, the
package is designed to allow users to specify their own
emission distributions, giving flexibility in the type of data
that may be analysed.
Diff between mhsmm versions 0.1.0 dated 2009-03-02 and 0.2.1 dated 2009-04-04
mhsmm-0.1.0/mhsmm/R/hmm_funk.R |only mhsmm-0.1.0/mhsmm/R/hsmm_funk.R |only mhsmm-0.1.0/mhsmm/man/hmm.Rd |only mhsmm-0.1.0/mhsmm/man/hsmm.Rd |only mhsmm-0.2.1/mhsmm/ChangeLog | 6 +++++ mhsmm-0.2.1/mhsmm/DESCRIPTION | 38 +++++++++++++++++++++----------- mhsmm-0.2.1/mhsmm/R/hmm_functions.R |only mhsmm-0.2.1/mhsmm/R/hsmm_functions.R |only mhsmm-0.2.1/mhsmm/man/hmmfit.Rd |only mhsmm-0.2.1/mhsmm/man/hsmmfit.Rd |only mhsmm-0.2.1/mhsmm/man/predict.hmm.Rd | 6 +++-- mhsmm-0.2.1/mhsmm/man/predict.hsmm.Rd | 5 ++-- mhsmm-0.2.1/mhsmm/man/print.hsmmspec.Rd |only mhsmm-0.2.1/mhsmm/man/reproai.Rd | 2 - mhsmm-0.2.1/mhsmm/man/reprocows.Rd | 4 +-- mhsmm-0.2.1/mhsmm/src/hsmm.c | 3 -- 16 files changed, 42 insertions(+), 22 deletions(-)
Author: Deepayan Sarkar
Title: Lattice Graphics
Description: Implementation of Trellis Graphics. See ?Lattice for a
brief introduction
Diff between lattice versions 0.17-20 dated 2009-01-06 and 0.17-22 dated 2009-04-04
DESCRIPTION | 12 +++++----- INDEX | 2 + NAMESPACE | 1 NEWS | 2 + R/bwplot.R | 54 +++++++++++++++++++++++++++------------------ R/common.R | 6 ++++- R/panel.smoothscatter.R |only R/scales.R | 2 - man/panel.smoothScatter.Rd |only man/xyplot.Rd | 2 - 10 files changed, 51 insertions(+), 30 deletions(-)
Author: Tarn Duong
Title: Kernel smoothing
Description: Kernel density estimators and kernel discriminant analysis
for multivariate data
Diff between ks versions 1.6.2 dated 2009-03-11 and 1.6.3 dated 2009-04-04
DESCRIPTION | 8 +-- NAMESPACE | 2 R-future |only R/binning.R | 126 +++++++++++++++++++++++++++-------------------------- R/kda.R | 10 ---- R/kde.R | 8 ++- R/selector.R | 2 inst/doc/kde.pdf |binary man/ks-internal.Rd | 1 src/linbin.f | 28 ++++++----- 10 files changed, 94 insertions(+), 91 deletions(-)
Author: Jens Henrik Badsberg
Title: dynamicGraph
Description: Interactive graphical tool for manipulating graphs
Diff between dynamicGraph versions 0.2.2.4 dated 2007-10-15 and 0.2.2.5 dated 2009-04-04
DESCRIPTION | 28 INDEX | 64 - R/checkList.R | 18 R/dynamicGraph-internal.R | 157 ++- R/dynamicGraphMain.R | 459 ++++----- R/modalDialog.R | 4 R/returnBlockEdgeList.R | 32 R/returnFactorVerticesAndEdges.R | 78 - R/selectDialog.R | 13 R/setBlocks.R | 61 - R/simpleGraphToGraph.R | 112 +- R/zzz.R | 1807 +++++++++++++++++++++--------------- inst/demo.source/usermenus.R | 2 man/DynamicGraph-class.Rd | 2 man/DynamicGraph.Rd | 2 man/DynamicGraphModel-class.Rd | 2 man/DynamicGraphView-class.Rd | 2 man/dg.Block-class.Rd | 2 man/dg.BlockEdge-class.Rd | 2 man/dg.DiscreteVertex-class.Rd | 3 man/dg.Edge-class.Rd | 2 man/dg.ExtraEdge-class.Rd | 2 man/dg.FactorEdge-class.Rd | 2 man/dg.FactorVertex-class.Rd | 2 man/dg.Generator-class.Rd | 4 man/dg.Model-class.Rd | 2 man/dg.Node-class.Rd | 2 man/dg.Test-class.Rd | 2 man/dg.TextVertex-class.Rd | 2 man/dg.Vertex-class.Rd | 2 man/dg.VertexEdge-class.Rd | 2 man/dg.graph-class.Rd | 2 man/dg.graphedges-class.Rd | 2 man/dg.list-class.Rd | 2 man/dg.simple.graph-class.Rd | 2 man/dynamicGraph-package.Rd |only man/dynamicGraphMain.Rd | 2 man/replaceBlockList.Rd | 2 man/replaceControls.Rd | 2 man/replaceVertexList.Rd | 2 man/returnBlockEdgeList.Rd | 2 man/returnEdgeList.Rd | 2 man/returnExtraEdgeList.Rd | 2 man/returnFactorEdgeList.Rd | 2 man/returnFactorVerticesAndEdges.Rd | 2 man/returnVertexList.Rd | 2 man/setBlocks.Rd | 2 man/wDG.Rd | 2 48 files changed, 1691 insertions(+), 1215 deletions(-)
Author: Rolf Turner
Title: Delaunay Triangulation and Dirichlet (Voronoi) Tessellation.
Description: Calculates the Delaunay triangulation and the Dirichlet or
Voronoi tessellation (with respect to the entire plane) of a
planar point set.
Diff between deldir versions 0.0-7 dated 2007-11-03 and 0.0-8 dated 2009-04-04
DESCRIPTION | 18 ++++++++++-------- R/tile.list.R | 2 +- inst/READ_ME | 18 +++++++++++++++++- man/plot.deldir.Rd | 2 +- man/plot.tile.list.Rd | 2 -- 5 files changed, 29 insertions(+), 13 deletions(-)
Author: Daniel Chessel, Anne-Beatrice Dufour
Title: Analysis of Ecological Data : Exploratory and Euclidean methods
in Environmental sciences
Description: Multivariate data analysis and graphical display.
Diff between ade4 versions 1.4-10 dated 2008-12-15 and 1.4-11 dated 2009-04-04
ChangeLog | 26 ++++++++++++++++++++++++++ DESCRIPTION | 28 +++++++++++++++++++--------- man/buech.Rd | 2 +- man/corvus.Rd | 6 ++++-- man/dist.binary.Rd | 3 ++- man/dist.prop.Rd | 10 ++++++---- man/dist.quant.Rd | 5 ++++- man/kplot.mcoa.Rd | 2 ++ man/kplot.pta.Rd | 8 ++++++-- man/ktab.Rd | 2 ++ man/maples.Rd | 6 ++++-- man/mcoa.Rd | 7 +++++-- man/mfa.Rd | 5 ++++- man/njplot.Rd | 9 ++++++--- man/optimEH.Rd | 4 ++-- man/orthogram.Rd | 17 ++++++++++++----- man/phylog.Rd | 2 +- man/randEH.Rd | 2 +- man/randtest.coinertia.Rd | 3 ++- man/scatter.fca.Rd | 3 ++- man/scatterutil.Rd | 4 +++- man/supcol.Rd | 7 +++---- man/withinpca.Rd | 2 +- 23 files changed, 118 insertions(+), 45 deletions(-)
Author: Kosuke Imai
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.
Diff between Zelig versions 3.4-3 dated 2009-02-13 and 3.4-5 dated 2009-04-04
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Author: John Fox
Title: R Commander
Description: A platform-independent basic-statistics GUI (graphical
user interface) for R, based on the tcltk package.
Diff between Rcmdr versions 1.4-8 dated 2009-03-13 and 1.4-9 dated 2009-04-04
DESCRIPTION | 12 +++++++----- R/commander.R | 2 +- R/model-menu.R | 3 ++- inst/CHANGES | 6 ++++++ inst/po/ru/LC_MESSAGES/R-Rcmdr.mo |binary man/Rcmdr-package.Rd | 4 ++-- po/R-ru.po | 22 +++++++++++----------- 7 files changed, 29 insertions(+), 20 deletions(-)
Author: Jason C. Fisher
Title: Analysis of Spatially Distributed Data
Description: This package is a processing program for spatially
distributed data. The program is capable of error corrections
and data visualization. A graphical user interface is
provided.
Diff between RSurvey versions 0.4.3 dated 2009-03-01 and 0.4.5 dated 2009-04-04
RSurvey-0.4.3/RSurvey/R/polyImport.R |only RSurvey-0.4.3/RSurvey/R/restoreImage.R |only RSurvey-0.4.3/RSurvey/R/srvy.import.R |only RSurvey-0.4.3/RSurvey/man/polyImport.Rd |only RSurvey-0.4.3/RSurvey/man/restoreImage.Rd |only RSurvey-0.4.3/RSurvey/man/srvy.import-export.Rd |only RSurvey-0.4.5/RSurvey/DESCRIPTION | 32 RSurvey-0.4.5/RSurvey/R/axesLimits.R | 9 RSurvey-0.4.5/RSurvey/R/buildPackage.R | 9 RSurvey-0.4.5/RSurvey/R/geoProj.R | 3 RSurvey-0.4.5/RSurvey/R/getFile.R | 34 RSurvey-0.4.5/RSurvey/R/keyEvent.R | 11 RSurvey-0.4.5/RSurvey/R/loadPackages.R | 2 RSurvey-0.4.5/RSurvey/R/mergeData.R | 66 RSurvey-0.4.5/RSurvey/R/minorTics.R | 1 RSurvey-0.4.5/RSurvey/R/plotPoints.R | 32 RSurvey-0.4.5/RSurvey/R/plotSurface2d.R | 14 RSurvey-0.4.5/RSurvey/R/plotSurface3d.R | 6 RSurvey-0.4.5/RSurvey/R/plotTime.R | 15 RSurvey-0.4.5/RSurvey/R/plotTransect.R | 49 RSurvey-0.4.5/RSurvey/R/polyAutocrop.R | 3 RSurvey-0.4.5/RSurvey/R/polyConstruct.R |only RSurvey-0.4.5/RSurvey/R/readFile.R |only RSurvey-0.4.5/RSurvey/R/restoreSession.R |only RSurvey-0.4.5/RSurvey/R/srvy.R | 87 RSurvey-0.4.5/RSurvey/R/srvy.config.R | 3 RSurvey-0.4.5/RSurvey/R/srvy.export.R | 3 RSurvey-0.4.5/RSurvey/R/srvy.pref.R | 5 RSurvey-0.4.5/RSurvey/R/srvy.process.R | 4 RSurvey-0.4.5/RSurvey/R/srvy.vars.R | 10 RSurvey-0.4.5/RSurvey/R/tran.R | 5 RSurvey-0.4.5/RSurvey/R/tran.dat.R | 4 RSurvey-0.4.5/RSurvey/R/tran.edit.R | 3 RSurvey-0.4.5/RSurvey/R/tran.export.R | 2 RSurvey-0.4.5/RSurvey/R/tran.import.R | 45 RSurvey-0.4.5/RSurvey/R/tran.spatial.R | 3 RSurvey-0.4.5/RSurvey/R/tran.velocity.R | 3 RSurvey-0.4.5/RSurvey/data/confluence.rda |binary RSurvey-0.4.5/RSurvey/inst/RSurvey-ex/river-temperature.txt | 1158 RSurvey-0.4.5/RSurvey/inst/RSurvey-ex/river.txt |51249 ------------ RSurvey-0.4.5/RSurvey/inst/RSurvey-ex/tmp.txt |only RSurvey-0.4.5/RSurvey/man/RSurvey-package.Rd | 14 RSurvey-0.4.5/RSurvey/man/buildPackage.Rd | 3 RSurvey-0.4.5/RSurvey/man/confluence.Rd | 4 RSurvey-0.4.5/RSurvey/man/geoProj.Rd | 2 RSurvey-0.4.5/RSurvey/man/getFile.Rd | 19 RSurvey-0.4.5/RSurvey/man/loadPackages.Rd | 2 RSurvey-0.4.5/RSurvey/man/mergeData.Rd | 20 RSurvey-0.4.5/RSurvey/man/plotSurface3d.Rd | 4 RSurvey-0.4.5/RSurvey/man/plotTransect.Rd | 3 RSurvey-0.4.5/RSurvey/man/polyConstruct.Rd |only RSurvey-0.4.5/RSurvey/man/readFile.Rd |only RSurvey-0.4.5/RSurvey/man/restoreSession.Rd |only RSurvey-0.4.5/RSurvey/man/srvy.Rd | 17 RSurvey-0.4.5/RSurvey/man/srvy.dat.Rd | 3 RSurvey-0.4.5/RSurvey/man/srvy.export.Rd |only RSurvey-0.4.5/RSurvey/man/tran.dat.Rd | 2 RSurvey-0.4.5/RSurvey/man/tran.import-export.Rd | 5 RSurvey-0.4.5/RSurvey/man/tran.vector.Rd | 2 59 files changed, 263 insertions(+), 52707 deletions(-)
Author: Jarrod Hadfield
Title: MCMC Generalised Linear Mixed Models
Description: MCMC Generalised Linear Mixed Models
Diff between MCMCglmm versions 1.06 dated 2009-03-17 and 1.07 dated 2009-04-04
DESCRIPTION | 12 - R/MCMCglmm.R | 51 ++-- inst/doc/Figures/TEST.R | 2 inst/doc/Tutorial.pdf | 509 +++++++++++++++++++++++------------------------- src/MCMCglmm.cc | 4 src/cs_dcmvnorm.c | 11 - 6 files changed, 292 insertions(+), 297 deletions(-)
Author: Jens Henrik Badsberg
Bundle: CoCo
Contains: CoCoObjects CoCoCore CoCoRaw CoCoOldData CoCoGraph CoCo
CoCoCg
Diff between CoCo versions 0.1.7.4 dated 2007-11-03 and 0.1.7.5 dated 2009-04-04
CoCo-0.1.7.4/CoCo/COPYING |only CoCo-0.1.7.4/CoCo/CoCo/man/CoCo.Rd |only CoCo-0.1.7.4/CoCo/CoCoCg/man/CoCoCg.Rd |only CoCo-0.1.7.5/CoCo/CoCo/DESCRIPTION.in | 6 CoCo-0.1.7.5/CoCo/CoCo/R/CoCo-internal.R | 22 +- CoCo-0.1.7.5/CoCo/CoCo/man/CoCo-package.Rd |only CoCo-0.1.7.5/CoCo/CoCoCg/DESCRIPTION.in | 6 CoCo-0.1.7.5/CoCo/CoCoCg/INDEX | 1 CoCo-0.1.7.5/CoCo/CoCoCg/R/CoCoCg-internal.R | 43 +-- CoCo-0.1.7.5/CoCo/CoCoCg/man/CoCoCg-package.Rd |only CoCo-0.1.7.5/CoCo/CoCoCore/DESCRIPTION.in | 6 CoCo-0.1.7.5/CoCo/CoCoCore/R/CoCoCore-internal.R | 90 +++----- CoCo-0.1.7.5/CoCo/CoCoCore/R/call.coco.R | 16 - CoCo-0.1.7.5/CoCo/CoCoCore/R/coco.init.R | 27 +- CoCo-0.1.7.5/CoCo/CoCoCore/man/CoCoCore-package.Rd |only CoCo-0.1.7.5/CoCo/CoCoGraph/DESCRIPTION.in | 4 CoCo-0.1.7.5/CoCo/CoCoGraph/R/CoCoGraph.R | 154 +++++++++----- CoCo-0.1.7.5/CoCo/CoCoGraph/man/CoCoGraph-internal.Rd | 2 CoCo-0.1.7.5/CoCo/CoCoGraph/man/CoCoGraph-package.Rd |only CoCo-0.1.7.5/CoCo/CoCoGraph/man/CoCoTestClass-class.Rd | 4 CoCo-0.1.7.5/CoCo/CoCoObjects/DESCRIPTION.in | 6 CoCo-0.1.7.5/CoCo/CoCoObjects/R/CoCoObjects-internal.R | 90 +++++--- CoCo-0.1.7.5/CoCo/CoCoObjects/R/clearCoCoObjects.R | 7 CoCo-0.1.7.5/CoCo/CoCoObjects/R/recover.coco.model.R | 2 CoCo-0.1.7.5/CoCo/CoCoObjects/man/CoCoClass-class.Rd | 12 - CoCo-0.1.7.5/CoCo/CoCoObjects/man/CoCoIdClass-class.Rd | 14 - CoCo-0.1.7.5/CoCo/CoCoObjects/man/CoCoModelClass-class.Rd | 12 - CoCo-0.1.7.5/CoCo/CoCoObjects/man/CoCoObjects-package.Rd |only CoCo-0.1.7.5/CoCo/CoCoObjects/man/clearCoCoObjects.Rd | 8 CoCo-0.1.7.5/CoCo/CoCoOldData/DESCRIPTION.in | 5 CoCo-0.1.7.5/CoCo/CoCoOldData/NAMESPACE | 3 CoCo-0.1.7.5/CoCo/CoCoOldData/R/CoCoOldData-internal.R | 23 +- CoCo-0.1.7.5/CoCo/CoCoOldData/R/reject.cases.R | 2 CoCo-0.1.7.5/CoCo/CoCoOldData/R/select.cases.R | 2 CoCo-0.1.7.5/CoCo/CoCoOldData/man/CoCoOldData-package.Rd |only CoCo-0.1.7.5/CoCo/CoCoOldData/man/reject.cases.Rd | 8 CoCo-0.1.7.5/CoCo/CoCoRaw/DESCRIPTION.in | 7 CoCo-0.1.7.5/CoCo/CoCoRaw/R/CoCoRaw-internal.R | 37 ++- CoCo-0.1.7.5/CoCo/CoCoRaw/R/optionsCoCo.R | 46 +++- CoCo-0.1.7.5/CoCo/CoCoRaw/man/CoCoRaw-package.Rd |only CoCo-0.1.7.5/CoCo/CoCoRaw/man/exportCoCo.Rd | 2 CoCo-0.1.7.5/CoCo/CoCoRaw/man/optionsCoCo.Rd | 4 CoCo-0.1.7.5/CoCo/CoCoRaw/man/returnTest.Rd | 23 +- CoCo-0.1.7.5/CoCo/CoCoRaw/man/returnVertexOrder.Rd | 5 CoCo-0.1.7.5/CoCo/CoCoRaw/man/setOrdinal.Rd | 2 CoCo-0.1.7.5/CoCo/CoCoRaw/man/showTest.Rd | 15 - CoCo-0.1.7.5/CoCo/DESCRIPTION | 36 ++- CoCo-0.1.7.5/CoCo/HISTORY | 6 CoCo-0.1.7.5/CoCo/LICENSE |only 49 files changed, 460 insertions(+), 298 deletions(-)
Author: Mikis Stasinopoulos
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.
Diff between gamlss.nl versions 1.9-0 dated 2008-06-06 and 2.0-0 dated 2009-04-03
DESCRIPTION | 36 ++++++++++++++++++++---------------- R/nlgamlss.R | 30 +++++++++++++++++++++++++----- man/la.Rd | 7 +++---- 3 files changed, 48 insertions(+), 25 deletions(-)
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 and UN M.49 area codes.
Diff between ISOcodes versions 0.2-3 dated 2009-03-25 and 0.2-4 dated 2009-04-03
DESCRIPTION | 10 +++++----- data/UN_M.49_Countries.rda |only data/UN_M.49_Regions.rda |only man/UN_M.49.Rd |only 4 files changed, 5 insertions(+), 5 deletions(-)
Author: Gemechis Dilba Djira, 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 1.3.9 dated 2008-10-23 and 1.3.10 dated 2009-04-03
DESCRIPTION | 46 ++++++++++++++++++++-------------- data/AP.rda |binary man/AP.rd | 15 ++++++----- man/ASAT.rd | 8 +++-- man/BW.Rd | 7 ++--- man/Mutagenicity.Rd | 12 +++++--- man/Penicillin.Rd | 14 +++++++--- man/SRAssay.rd | 12 +++++--- man/angina.Rd | 4 +- man/gsci.ratio.Rd | 58 ++++++++++++++++++++++++++++++++----------- man/mratios.package.Rd | 43 ++++++++++++++++++++++--------- man/n.ratio.Rd | 8 ++++- man/plot.sci.ratio.Rd | 1 man/print.sci.ratio.Rd | 3 -- man/print.simtest.ratio.Rd | 1 man/rat.weight.rd | 8 +++-- man/sci.ratio.Rd | 10 +++---- man/sci.ratio.gen.Rd | 18 ++++++++----- man/sci.ratioVH.Rd | 20 ++++++++------ man/simtest.ratio.Rd | 37 +++++++++++++-------------- man/simtest.ratioVH.Rd | 24 +++++++++++------ man/summary.sci.ratio.Rd | 2 - man/summary.simtest.ratio.Rd | 2 - man/t.test.ratio.Rd | 25 +++++++++++------- 24 files changed, 239 insertions(+), 139 deletions(-)
More information about orthogonalsplinebasis at CRAN
Permanent link
Author: Eva Herrmann
Title: Kernel Regression Smoothing with Local or Global Plug-in
Bandwidth
Description: Kernel regression smoothing with adaptive local or global
plug-in bandwidth selection.
Diff between lokern versions 1.0-4 dated 2003-11-05 and 1.0-7 dated 2009-04-03
lokern-1.0-4/lokern/INDEX |only lokern-1.0-4/lokern/R/varest.R |only lokern-1.0-4/lokern/man/varest.Rd |only lokern-1.0-7/lokern/ChangeLog | 33 +++++++++++++++++ lokern-1.0-7/lokern/DESCRIPTION | 21 ++++++---- lokern-1.0-7/lokern/R/glkerns.R | 56 ++++++++++++++-------------- lokern-1.0-7/lokern/R/lokerns.R | 52 +++++++++++++------------- lokern-1.0-7/lokern/R/varNPreg.R | 6 +++ lokern-1.0-7/lokern/man/glkerns.Rd | 15 ++++--- lokern-1.0-7/lokern/man/lokerns.Rd | 13 ------ lokern-1.0-7/lokern/man/varNPreg.Rd | 4 ++ lokern-1.0-7/lokern/man/xSim.Rd | 1 lokern-1.0-7/lokern/src/auxkerns.f | 57 +++++++++++++++++------------ lokern-1.0-7/lokern/src/glkerns.f | 60 ++++++++++++++++--------------- lokern-1.0-7/lokern/src/lokerns.f | 54 ++++++++++++++------------- lokern-1.0-7/lokern/tests/glk1.Rout.save | 35 +++++++++--------- lokern-1.0-7/lokern/tests/infloop-bug.R |only lokern-1.0-7/lokern/tests/lok1.Rout.save | 27 +++++++------ 18 files changed, 246 insertions(+), 188 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 0.8-4 dated 2008-11-19 and 0.8-5 dated 2009-04-03
DESCRIPTION | 36 +++++++++++++++++++++--------------- inst/CHANGES | 5 +++++ inst/CITATION | 28 ++++++++++++++++------------ man/heplot-package.Rd | 23 ++++++++++++----------- 4 files changed, 54 insertions(+), 38 deletions(-)
Author: Mikis Stasinopoulos
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.
Diff between gamlss.tr versions 1.9-0 dated 2008-06-06 and 2.0-0 dated 2009-04-03
DESCRIPTION | 32 +++++++++++++++++++------------- 1 file changed, 19 insertions(+), 13 deletions(-)
Author: Mikis Stasinopoulos
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.
Diff between gamlss.mx versions 1.9-0 dated 2008-06-06 and 2.0-0 dated 2009-04-03
DESCRIPTION | 30 +++++++++++++++++------------- R/gamlssNP.R | 5 +++-- man/MX.control.Rd | 1 - man/gamlssMX.Rd | 2 +- man/gamlssNP.Rd | 2 +- 5 files changed, 22 insertions(+), 18 deletions(-)
Author: Mikis Stasinopoulos
Title: Extra distributions to be used for GAMLSS modelling.
Description: This package contains few extra distributions for GAMLSS
modelling.
Diff between gamlss.dist versions 1.9-0 dated 2008-06-06 and 2.0-0 dated 2009-04-03
DESCRIPTION | 32 ++++++++++++++++++-------------- R/WEI3.R | 6 +++--- man/RGE.Rd | 5 ++--- man/SICHEL.Rd | 4 ++-- man/alveolar.Rd | 2 +- man/computer.Rd | 2 +- man/parzen.Rd | 2 +- man/tensile.Rd | 4 ++-- 8 files changed, 30 insertions(+), 27 deletions(-)
Author: Mikis Stasinopoulos
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.
Diff between gamlss.cens versions 1.9.0 dated 2008-06-06 and 2.0.0 dated 2009-04-03
DESCRIPTION | 34 ++++++++++++++++++++-------------- 1 file changed, 20 insertions(+), 14 deletions(-)
Author: Mikis Stasinopoulos
Title: Generalized Additive Models for Location Scale and Shape.
Description: The main GAMLSS library and datasets.
Diff between gamlss versions 1.9-4 dated 2008-09-16 and 2.0-0 dated 2009-04-03
DESCRIPTION | 31 ++-- NAMESPACE | 16 ++ R/WEI.R | 14 - R/WEI2.R | 14 - R/cubicSplinesNewS.R | 46 ++++-- R/cy.R |only R/gamlss.R | 20 ++ R/lpred.R | 18 +- R/pb.R | 353 ++++++++++++++++++++++++++++++++++-------------- R/ri.R |only R/vcov_gamlss.R | 36 +++- inst/doc/NEWS.txt | 19 ++ man/BCt.Rd | 2 man/BEINF.Rd | 2 man/NBI.Rd | 2 man/NBII.Rd | 2 man/SI.Rd | 2 man/centiles.Rd | 2 man/cs.Rd | 31 ++-- man/gamlss.control.Rd | 2 man/gamlss.cs.Rd | 14 + man/gamlss.family.Rd | 2 man/gamlss.fp.Rd | 6 man/gamlss.ps.Rd | 10 + man/gamlss.rc.Rd | 2 man/make.link.gamlss.Rd | 3 man/ps.Rd | 73 +++++++-- man/refit.Rd | 2 man/ridge.Rd | 15 +- 29 files changed, 523 insertions(+), 216 deletions(-)
Author: John Fox
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.
Diff between car versions 1.2-12 dated 2009-01-20 and 1.2-13 dated 2009-04-03
DESCRIPTION | 51 ++++++++++++++++------------- R/influencePlot.R | 46 ++++++++++++++++---------- R/recode.R | 88 ++++++++++++++++++++++++++------------------------- inst/CHANGES | 8 ++++ man/car-package.Rd | 4 +- man/influencePlot.Rd | 16 ++++----- man/levene.test.Rd | 6 +++ 7 files changed, 126 insertions(+), 93 deletions(-)
Author: Daniel Merl
Title: Adaptive Management of Epidemiological Interventions
Description: This package provides a flexible statistical framework for
generating optimal epidemiological interventions that are
designed to minimize the total expected cost of an emerging
epidemic while simultaneously propagating uncertainty regarding
underlying disease parameters through to the decision process
via Bayesian posterior inference. The strategies produced
through this framework are adaptive: vaccination schedules are
iteratively adjusted to reflect the anticipated trajectory of
the epidemic given the current population state and updated
parameter estimates.
Diff between amei versions 1.0 dated 2008-12-05 and 1.0-1 dated 2009-04-03
amei-1.0-1/amei/ChangeLog |only amei-1.0-1/amei/DESCRIPTION | 31 ++- amei-1.0-1/amei/R/MC.R | 17 -- amei-1.0-1/amei/R/MC_util.R | 92 +++++++---- amei-1.0-1/amei/R/epi_mcmc.R | 50 ++++-- amei-1.0-1/amei/R/manage.R | 101 ++++++++---- amei-1.0-1/amei/R/plots.R | 35 ++-- amei-1.0-1/amei/demo/amei.R | 227 +++++++++++++++++++++++++--- amei-1.0-1/amei/inst/doc/alt_trans.iRnw |only amei-1.0-1/amei/inst/doc/amei.Rnw | 109 ++++++------- amei-1.0-1/amei/inst/doc/amei.pdf |binary amei-1.0-1/amei/inst/doc/pnas.iRnw | 91 +++++------ amei-1.0-1/amei/inst/doc/pnas_mcmanage.iRnw | 20 +- amei-1.0-1/amei/man/MCepi.Rd | 17 +- amei-1.0-1/amei/man/MCmanage.Rd | 5 amei-1.0-1/amei/man/amei-internal.Rd | 4 amei-1.0-1/amei/man/epistep.Rd | 11 + amei-1.0-1/amei/man/manage.Rd | 16 + amei-1.0-1/amei/src/epidemics.c | 6 amei-1.0/amei/inst/doc/amei.dvi |only amei-1.0/amei/inst/doc/q.log |only 21 files changed, 566 insertions(+), 266 deletions(-)
Author: Thibaut Jombart
Title: adegenet: a R package for the multivariate analysis of genetic
markers.
Description: Classes and functions for genetic data analysis within the
multivariate framework.
Diff between adegenet versions 1.2-2 dated 2008-12-19 and 1.2-3 dated 2009-04-03
adegenet-1.2-2/adegenet/DEADJOE |only adegenet-1.2-3/adegenet/ChangeLog | 108 +++- adegenet-1.2-3/adegenet/DESCRIPTION | 30 - adegenet-1.2-3/adegenet/R/HWE.R | 15 adegenet-1.2-3/adegenet/R/auxil.R | 543 ++------------------ adegenet-1.2-3/adegenet/R/basicMethods.R | 142 ++++- adegenet-1.2-3/adegenet/R/chooseCN.R | 48 - adegenet-1.2-3/adegenet/R/classes.R | 430 ++++++++-------- adegenet-1.2-3/adegenet/R/dist.genpop.R | 24 adegenet-1.2-3/adegenet/R/export.R | 54 +- adegenet-1.2-3/adegenet/R/fstat.R | 7 adegenet-1.2-3/adegenet/R/genind2genpop.R | 76 +- adegenet-1.2-3/adegenet/R/gstat.randtest.R | 25 adegenet-1.2-3/adegenet/R/handling.R |only adegenet-1.2-3/adegenet/R/hybridize.R | 119 ++-- adegenet-1.2-3/adegenet/R/import.R | 640 ++++++++++++------------ adegenet-1.2-3/adegenet/R/loadingplot.R | 37 - adegenet-1.2-3/adegenet/R/makefreq.R | 2 adegenet-1.2-3/adegenet/R/monmonier.R | 2 adegenet-1.2-3/adegenet/R/old2new.R | 8 adegenet-1.2-3/adegenet/R/propShared.R | 44 - adegenet-1.2-3/adegenet/R/propTyped.R | 51 + adegenet-1.2-3/adegenet/R/scale.R | 40 + adegenet-1.2-3/adegenet/R/sequences.R |only adegenet-1.2-3/adegenet/R/setAs.R | 2 adegenet-1.2-3/adegenet/R/spca.R | 9 adegenet-1.2-3/adegenet/R/spca.rtests.R | 2 adegenet-1.2-3/adegenet/R/zzz.R | 8 adegenet-1.2-3/adegenet/TODO | 48 - adegenet-1.2-3/adegenet/data/microbov.RData |binary adegenet-1.2-3/adegenet/data/nancycats.RData |binary adegenet-1.2-3/adegenet/data/rupica.RData |binary adegenet-1.2-3/adegenet/data/sim2pop.RData |binary adegenet-1.2-3/adegenet/data/spcaIllus.RData |binary adegenet-1.2-3/adegenet/man/HWE.Rd | 2 adegenet-1.2-3/adegenet/man/accessors.Rd | 71 ++ adegenet-1.2-3/adegenet/man/adegenet.package.Rd | 15 adegenet-1.2-3/adegenet/man/as-methods.Rd | 8 adegenet-1.2-3/adegenet/man/as.genind.Rd | 19 adegenet-1.2-3/adegenet/man/as.genpop.Rd | 11 adegenet-1.2-3/adegenet/man/auxil.Rd | 11 adegenet-1.2-3/adegenet/man/chooseCN.Rd | 2 adegenet-1.2-3/adegenet/man/colorplot.Rd | 2 adegenet-1.2-3/adegenet/man/df2genind.Rd | 8 adegenet-1.2-3/adegenet/man/dist.genpop.Rd | 2 adegenet-1.2-3/adegenet/man/export.Rd | 2 adegenet-1.2-3/adegenet/man/fstat.Rd | 2 adegenet-1.2-3/adegenet/man/genind.Rd | 22 adegenet-1.2-3/adegenet/man/genind2genpop.Rd | 47 + adegenet-1.2-3/adegenet/man/genpop.Rd | 12 adegenet-1.2-3/adegenet/man/gstat.randtest.Rd | 2 adegenet-1.2-3/adegenet/man/hybridize.Rd | 2 adegenet-1.2-3/adegenet/man/import.Rd | 11 adegenet-1.2-3/adegenet/man/isPoly.Rd |only adegenet-1.2-3/adegenet/man/loadingplot.Rd | 13 adegenet-1.2-3/adegenet/man/makefreq.Rd | 2 adegenet-1.2-3/adegenet/man/monmonier.Rd | 2 adegenet-1.2-3/adegenet/man/na.replace.Rd | 2 adegenet-1.2-3/adegenet/man/old2new.Rd | 2 adegenet-1.2-3/adegenet/man/propShared.Rd | 2 adegenet-1.2-3/adegenet/man/propTyped.Rd | 2 adegenet-1.2-3/adegenet/man/read.fstat.Rd | 2 adegenet-1.2-3/adegenet/man/read.genepop.Rd | 2 adegenet-1.2-3/adegenet/man/read.genetix.Rd | 2 adegenet-1.2-3/adegenet/man/read.structure.Rd | 4 adegenet-1.2-3/adegenet/man/repool.Rd | 2 adegenet-1.2-3/adegenet/man/scale.Rd | 2 adegenet-1.2-3/adegenet/man/selpopsize.Rd |only adegenet-1.2-3/adegenet/man/seploc.Rd | 2 adegenet-1.2-3/adegenet/man/seppop.Rd | 14 adegenet-1.2-3/adegenet/man/sequences.Rd |only adegenet-1.2-3/adegenet/man/sim2pop.Rd | 2 adegenet-1.2-3/adegenet/man/spca.Rd | 2 adegenet-1.2-3/adegenet/man/spca.rtests.Rd | 2 adegenet-1.2-3/adegenet/man/spcaIllus.Rd | 2 adegenet-1.2-3/adegenet/man/truenames.Rd | 2 adegenet-1.2-3/adegenet/man/virClasses.Rd | 2 adegenet-1.2-3/adegenet/misc/capreo.RData |only adegenet-1.2-3/adegenet/src/monmonier-utils.c | 2 adegenet-1.2-3/adegenet/src/sharedAll.c | 2 80 files changed, 1473 insertions(+), 1363 deletions(-)
Author: Dirk Eddelbuettel with contributions by Simon Urbanek and David
Reiss
Title: Rcpp R/C++ interface package
Description: R/C++ interface classes and examples 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) at microsecond resolution, data frame, and function.
It also supports calling R functions from C++.
Diff between Rcpp versions 0.6.4 dated 2009-03-02 and 0.6.5 dated 2009-04-03
COPYING |only DESCRIPTION | 24 ++++++++++++------------ cleanup | 1 + inst/ChangeLog | 14 +++++++++++++- inst/doc/RcppAPI.pdf |binary src/Makevars | 2 +- 6 files changed, 27 insertions(+), 14 deletions(-)
Author: John Fox
Title: R Commander Plug-in for the survival Package
Description: This package provides an R Commander plug-in for the
survival package, with dialogs for Cox models, parametric
survival regression models, estimation of survival curves, and
testing for differences in survival curves, along with
data-management facilities and a variety of tests, diagnostics
and graphs.
Diff between RcmdrPlugin.survival versions 0.7-1 dated 2009-03-13 and 0.7-2 dated 2009-04-03
DESCRIPTION | 14 ++++++++------ R/Survfit.R | 5 +++-- R/misc.R | 36 ++++++++++++++++++------------------ inst/CHANGES | 6 ++++++ man/RcmdrPlugin.survival-package.Rd | 4 ++-- man/survQuantiles.Rd | 2 +- 6 files changed, 38 insertions(+), 29 deletions(-)
More information about RcmdrPlugin.survival at CRAN
Permanent link
Author: Matti Pastell
Title: Analyze time-coded animal behavior data
Description: The Animal package is a collection of functions for
analyzing animal (including humans) behavior data originating
from a variety of sources. The package has functions to analyze
time coded behaviors from CowLog (open source software for
coding behaviors from digital video) data files and observation
files with similar format. Other features include hourly,
daily, weekly and monthly summaries of time coded data,
analysis of RIC (roughage intake system, Insentec automation)
data files and labeling measurement data according to
behavioral observations for e.g model building purposes.
Diff between Animal versions 1.01 dated 2009-03-28 and 1.02 dated 2009-04-03
DESCRIPTION | 13 ++++++++----- R/bouts.RIC.R | 25 ++++++++++++------------- R/read.CowLog.R |only R/read.RIC.R | 2 +- inst/doc |only man/RIC.Rd | 3 +-- man/cowAnalyze.Rd | 2 +- man/read.CowLog.Rd |only man/weekly.Rd | 1 + 9 files changed, 24 insertions(+), 22 deletions(-)
Author: Terry Therneau, original R port 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 2.35-3 dated 2009-03-20 and 2.35-4 dated 2009-04-01
DESCRIPTION | 8 ++++---- R/summary.survfit.S | 6 +++--- tests/summary_survfit.R |only tests/summary_survfit.Rout.save |only 4 files changed, 7 insertions(+), 7 deletions(-)
Author: Jens Henrik Badsberg
Title: Similarity of Richards curves
Description: Values for similarity of backfitted independent values of
Richards curves are computed and plotted.
Diff between similarityRichards versions 0.4 dated 2008-03-28 and 0.5.0 dated 2009-04-01
DESCRIPTION | 28 +++++----- R/30 |only R/fits2relFits.R |only R/fits2simFits.R | 2 R/relFit.R |only R/relFits.R |only R/repValue.R |only R/repValues.R |only R/simConf.R | 8 ++ R/simFit.R | 81 +++++++++++++++++------------ R/simFits.R | 25 ++++++--- R/simPlotOne.R | 104 +++++++++++++++++++++++++------------- R/sub2relFits.R |only R/sub2simFits.R | 19 ++++-- man/fits2relFits.Rd |only man/fits2simFits.Rd | 3 - man/relFit.Rd |only man/relFits.Rd |only man/repValues.Rd |only man/simConf.Rd | 6 +- man/simFit.Rd | 6 +- man/simFits.Rd | 23 +++++--- man/simPlot.Rd | 2 man/simPlotOne.Rd | 10 ++- man/similarityRichards-package.Rd | 6 +- man/sub2relFits.Rd |only man/sub2simFits.Rd | 3 - 27 files changed, 209 insertions(+), 117 deletions(-)
More information about similarityRichards at CRAN
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Author: John Fox
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.
Diff between sem versions 0.9-15 dated 2009-01-29 and 0.9-16 dated 2009-04-01
DESCRIPTION | 37 +++++++++++++++++++++---------------- NAMESPACE | 5 +++-- R/fscores.R |only R/tsls.R | 5 +++-- inst/CHANGES | 6 ++++++ man/CNES.Rd | 18 +++++++++--------- man/fscores.Rd |only man/raw.moments.Rd | 2 +- man/sem.Rd | 6 +++--- 9 files changed, 46 insertions(+), 33 deletions(-)
Author: Jens Henrik Badsberg
Title: Richards curves
Description: Fit Richards curves
Diff between richards versions 0.4 dated 2008-03-28 and 0.5.0 dated 2009-04-01
richards-0.4/richards/R/SSrichardsLogBM.R |only richards-0.4/richards/R/fitDoubleList.R |only richards-0.4/richards/R/fitList.R |only richards-0.4/richards/man/fitList.Rd |only richards-0.4/richards/tests |only richards-0.5.0/richards/DESCRIPTION | 25 +- richards-0.5.0/richards/R/SSrichardsLogBG.R |only richards-0.5.0/richards/R/amList.R |only richards-0.5.0/richards/R/amLlist.R |only richards-0.5.0/richards/R/b2slope.R |only richards-0.5.0/richards/R/extractEstimates.R | 6 richards-0.5.0/richards/R/extractSummaries.R | 5 richards-0.5.0/richards/R/ny2f.R |only richards-0.5.0/richards/R/richards.R | 2 richards-0.5.0/richards/R/richards.inv.R | 19 -- richards-0.5.0/richards/R/slope2b.R |only richards-0.5.0/richards/R/x2c.R |only richards-0.5.0/richards/data |only richards-0.5.0/richards/demo/showNy.R | 222 ++++++++++++------------ richards-0.5.0/richards/demo/sourceModified.R | 32 +-- richards-0.5.0/richards/demo/sourceRichards.R | 4 richards-0.5.0/richards/man/SSny0.Rd | 121 +++++++------ richards-0.5.0/richards/man/SSnyFixed.Rd | 83 ++++---- richards-0.5.0/richards/man/SSrichards.Rd | 79 ++++---- richards-0.5.0/richards/man/b2slope.Rd |only richards-0.5.0/richards/man/initialRichards.Rd | 2 richards-0.5.0/richards/man/lamodified.Rd |only richards-0.5.0/richards/man/richards-package.Rd | 10 - richards-0.5.0/richards/man/richards.Rd | 52 +++-- richards-0.5.0/richards/man/simulatedPlates.Rd |only 30 files changed, 358 insertions(+), 304 deletions(-)
Author: Andrew Gelman
Title: Missing Data Imputation and Model Checking
Description: Missing-data imputation and model checking
Diff between mi versions 0.04-5 dated 2009-03-21 and 0.04-6 dated 2009-04-01
CHANGELOG | 15 +++++++++++++++ DESCRIPTION | 13 ++++++++----- NAMESPACE | 6 ++++++ R/AllClass.R | 18 ++++++++++++++---- R/bayesglm.mi.R |only R/coef.R | 21 +++++++++++++++++---- R/display.R | 36 ++++++++++++++++++++++++++++-------- R/glm.mi.R | 4 ++-- R/imputation.models.R | 4 ++-- R/lm.mi.R | 6 +++--- R/lmer.mi.R |only R/mi.R | 3 ++- R/mi.categorical.R | 2 +- R/mi.fixed.R | 6 ++++-- R/mi.hist.R | 2 +- R/mi.info.R | 4 ++-- R/mi.polr.R | 2 +- R/mi.preprocess.R | 8 ++++++-- R/print.R | 3 +++ R/se.coef.R | 10 ++++++++-- man/glm.mi.Rd | 18 +++++++++++++----- man/lm.mi.Rd | 4 ++-- man/lmer.mi.Rd |only man/mi.Rd | 8 ++++---- man/mi.fixed.Rd | 16 +++++++++++++++- man/type.models.Rd | 7 +++++-- 26 files changed, 162 insertions(+), 54 deletions(-)
Author: John Fox
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.
Diff between effects versions 2.0-3 dated 2008-12-13 and 2.0-4 dated 2009-04-01
DESCRIPTION | 40 +++++++++++++++++++++++----------------- R/effects.R | 6 +++--- R/plot-summary-print-methods.R | 26 ++++++++++++++++++-------- R/utilities.R | 41 +++++++++++++++++++++++++++++++++++------ data/Titanic.rda |only data/Wells.rda |only inst/CHANGES | 9 +++++++++ man/Arrests.Rd | 4 ++++ man/BEPS.Rd | 4 ++++ man/Cowles.Rd | 3 +++ man/Titanic.Rd |only man/WVS.Rd | 4 ++++ man/Wells.Rd |only man/effect.Rd | 4 ++-- man/summary.effect.Rd | 12 +++++++++--- 15 files changed, 114 insertions(+), 39 deletions(-)
Author: Jens Henrik Badsberg
Title: Backfitted independent values of Richards curves
Description: Backfitted independent values of Richards curves are
computed and plotted.
Diff between backfitRichards versions 0.4 dated 2008-03-28 and 0.5.0 dated 2009-04-01
DESCRIPTION | 27 ++++++++++-------- R/backConf.R | 8 ++++- R/backFit.R | 60 +++++++++++++++++++++++++++++------------ R/backFits.R | 6 ++-- R/backPlot.R | 42 ++++++++++++++++++++-------- man/backConf.Rd | 6 ++-- man/backFit.Rd | 1 man/backFits.Rd | 5 ++- man/backPlot.Rd | 9 ++++-- man/backfitRichards-package.Rd | 14 ++++++--- 10 files changed, 120 insertions(+), 58 deletions(-)
More information about backfitRichards at CRAN
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Author: Adrian Baddeley
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).
Diff between spatstat versions 1.15-0 dated 2009-03-02 and 1.15-1 dated 2009-04-01
DESCRIPTION | 72 ++-- INDEX | 2 R/Hest.R |only R/Kest.S | 27 + R/as.im.R | 23 - R/breakpts.S | 4 R/clip.psp.R | 8 R/distbdry.S | 6 R/images.R | 2 R/kmrs.S | 3 R/localK.R | 11 R/options.R | 5 R/plot.im.R | 6 R/psp.R | 23 - R/superimpose.R | 24 - R/tess.R | 26 + R/util.S | 4 R/window.S | 148 +++++---- R/xypolygon.S | 51 +++ data/heather.rda |only demo/data.R | 3 demo/spatstat.R | 47 ++- inst/doc/shapefiles.pdf | 727 ++++++++++++++++++++++-------------------------- man/Hest.Rd |only man/Kest.Rd | 64 +++- man/as.im.Rd | 23 - man/as.psp.Rd | 10 man/as.rectangle.Rd | 42 ++ man/distmap.Rd | 9 man/distmap.owin.Rd | 3 man/distmap.ppp.Rd | 1 man/heather.Rd |only man/internal.Rd | 3 man/psp.Rd | 3 man/spatstat.options.Rd | 7 src/poly2im.c |only 36 files changed, 788 insertions(+), 599 deletions(-)
Author: Lukas Meier
Title: Fitting user specified models with Group Lasso penalty
Description: Fits user specified (GLM-) models with Group Lasso penalty
Diff between grplasso versions 0.4-1 dated 2009-03-30 and 0.4-2 dated 2009-04-01
DESCRIPTION | 8 ++--- R/grplasso.R | 35 +++++++++++++++--------- R/helpers.R | 23 ++++++++++------ man/grplasso.Rd | 7 ++-- man/lambdamax.Rd | 7 ++-- tests/test_centerscaling.R | 64 ++++++++++++++++++++++++++++++++++++++++++--- 6 files changed, 110 insertions(+), 34 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 1.0-2 dated 2009-03-16 and 1.0-3 dated 2009-04-01
CHANGES | 8 DESCRIPTION | 8 R/ClassicalTests.R | 17 inst/doc/LegoCondInf.pdf |binary inst/doc/MAXtest.Rnw | 779 +++++++++++++++++++++++++++++---------- inst/doc/MAXtest.pdf |binary inst/doc/coin.pdf |binary inst/doc/coin_implementation.pdf |binary inst/doc/references.bib | 528 +++++++++++++++++--------- man/SymmetryTests.Rd | 15 tests/regtest_2sample.R | 5 tests/regtest_2sample.Rout.save | 9 12 files changed, 990 insertions(+), 379 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 4.1.1 dated 2009-01-27 and 4.2 dated 2009-04-01
CHANGELOG | 2 ++ DESCRIPTION | 21 ++++++++++++--------- R/crps.ensembleBMAnormal.R | 4 ++-- R/ensembleBMAgamma.R | 8 +++++--- R/ensembleBMAgamma0.R | 8 +++++--- R/ensembleBMAnormal.R | 8 +++++--- R/ensembleData.R | 2 +- R/quantileForecast.ensembleBMAnormal.R | 4 ++-- R/trainingData.R | 10 ++++++---- R/verifRank.R | 4 ++-- 10 files changed, 42 insertions(+), 29 deletions(-)
Author: Andrew Gelman
Title: Data Analysis Using Regression and Multilevel/Hierarchical
Models
Description: R functions for processing lm, glm, mer and polr outputs.
Diff between arm versions 1.2-7 dated 2009-03-01 and 1.2-8 dated 2009-04-01
CHANGELOG | 5 ++++ DESCRIPTION | 38 +++++++++++++++++---------------- R/display.R | 64 ++++++++++++++++++++++++++++++++++++++++++--------------- man/display.Rd | 13 ++++++----- 4 files changed, 80 insertions(+), 40 deletions(-)
Author: Valerie Obenchain
Title: Data retrieval from a Labkey database
Description: This package imports data from a labkey database into an R
data frame
Diff between Rlabkey versions 0.0.6 dated 2009-03-25 and 0.0.7 dated 2009-04-01
DESCRIPTION | 8 ++++---- NEWS | 10 +++++----- R/makeDF.R | 14 ++++++++------ man/Rlabkey-package.Rd | 4 ++-- 4 files changed, 19 insertions(+), 17 deletions(-)
Author: Jasjeet Singh Sekhon
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.
Diff between Matching versions 4.7-5 dated 2009-01-13 and 4.7-6 dated 2009-04-01
DESCRIPTION | 25 +++++++++++++++---------- src/scythematrix.cc | 2 ++ src/scythematrix.h | 5 ++++- tests/AbadieImbens.Rout.save | 4 ++-- tests/DehejiaWahba.Rout.save | 4 ++-- tests/GenMatch.Rout.save | 8 ++++---- tests/Matchby.Rout.save | 4 ++-- 7 files changed, 31 insertions(+), 21 deletions(-)