Author: Edzer J. Pebesma
Diff between sp versions 0.9-32 dated 2009-02-20 and 0.9-34 dated 2009-03-31
Title: classes and methods for spatial data
Description: A package that provides classes and methods for spatial
data. The classes document where the spatial location
information resides, for 2D or 3D data. Utility functions are
provided, e.g. for plotting data as maps, spatial selection, as
well as methods for retrieving coordinates, for subsetting,
print, summary, etc.
sp-0.9-32/sp/rlabs |only
sp-0.9-34/sp/ChangeLog | 207 +
sp-0.9-34/sp/DESCRIPTION | 50
sp-0.9-34/sp/R/overlay.R | 9
sp-0.9-34/sp/R/spsample.R | 11
sp-0.9-34/sp/R/zerodist.R | 10
sp-0.9-34/sp/inst/ChangeLog | 207 +
sp-0.9-34/sp/inst/doc/sp.pdf | 4067 ++++++++++++++++------------------
sp-0.9-34/sp/man/mapasp.Rd | 2
sp-0.9-34/sp/man/zerodist.Rd | 6
sp-0.9-34/sp/tests/zerodist.R | 1
sp-0.9-34/sp/tests/zerodist.Rout.save | 15
12 files changed, 2471 insertions(+), 2114 deletions(-)
Author: Martin Maechler, based on S original by Peter Rousseeuw
Diff between cluster versions 1.11.12 dated 2009-01-07 and 1.11.13 dated 2009-03-31
Title: Cluster Analysis Extended Rousseeuw et al.
Description: Cluster Analysis, extended original from Peter Rousseeuw,
Anja Struyf and Mia Hubert.
cluster-1.11.12/cluster/ChangeLog.2.mine |only
cluster-1.11.12/cluster/ChangeLog.mine |only
cluster-1.11.12/cluster/ChangeLog.r4966 |only
cluster-1.11.12/cluster/ChangeLog.r4967 |only
cluster-1.11.12/cluster/ChangeLog.r5060 |only
cluster-1.11.12/cluster/ChangeLog.r5065 |only
cluster-1.11.12/cluster/DONE-MM |only
cluster-1.11.12/cluster/cluster_references |only
cluster-1.11.12/cluster/src-compiler-warnings |only
cluster-1.11.12/cluster/valgrind-check.log |only
cluster-1.11.13/cluster/ChangeLog | 17 ++++++++++++++++-
cluster-1.11.13/cluster/DESCRIPTION | 19 +++++++++++--------
cluster-1.11.13/cluster/NAMESPACE | 2 ++
cluster-1.11.13/cluster/R/agnes.q | 4 +++-
cluster-1.11.13/cluster/man/daisy.Rd | 2 +-
cluster-1.11.13/cluster/man/plot.agnes.Rd | 14 +++++++++++---
cluster-1.11.13/cluster/tests/agnes-ex.Rout.save | 18 +++++++++---------
17 files changed, 53 insertions(+), 23 deletions(-)
Author: Marc Schwartz
Diff between WriteXLS versions 1.5.0 dated 2009-03-26 and 1.6.0 dated 2009-03-31
Title: Cross-platform Perl based R function to create Excel 2003 (XLS)
files
Description: Cross-platform perl based R function to create Excel (XLS)
files from one or more data frames. Each data frame will be
written to a separate named worksheet in the Excel spreadsheet.
The worksheet name will be the name of the data frame it
contains.
DESCRIPTION | 14 +++++++-------
INSTALL |only
NAMESPACE | 2 ++
R/testPerl.R |only
man/WriteXLS.Rd | 40 +++++++++++++++++++++++++++++-----------
man/testPerl.Rd |only
6 files changed, 38 insertions(+), 18 deletions(-)
Author: Douglas Bates
Diff between Matrix versions 0.999375-22 dated 2009-03-13 and 0.999375-23 dated 2009-03-31
Title: Sparse and Dense Matrix Classes and Methods
Description: Classes and methods for dense and sparse matrices and
operations on them using Lapack and SuiteSparse.
ChangeLog | 29 +
DESCRIPTION | 8
NAMESPACE | 3
R/Auxiliaries.R | 52 ++-
R/CHMfactor.R | 5
R/Ops.R | 2
R/Tsparse.R | 16
R/bandSparse.R | 7
R/dMatrix.R | 7
R/dgeMatrix.R | 5
R/lMatrix.R | 6
R/zzz.R | 25 +
inst/doc/Comparisons.pdf |binary
inst/doc/Design-issues.pdf |binary
inst/doc/Intro2Matrix.pdf | 779 ++++++++++++++++++++++-----------------------
inst/doc/Introduction.pdf |binary
inst/doc/sparseModels.pdf |binary
inst/test-tools.R | 15
man/bandSparse.Rd | 12
src/Mutils.c | 16
src/Mutils.h | 65 +++
src/Tsparse.c | 2
src/chm_common.c | 11
src/cs_utils.c | 3
src/dgCMatrix.c | 4
src/dgeMatrix.c | 2
src/factorizations.c | 2
tests/Class+Meth.R | 67 ++-
28 files changed, 651 insertions(+), 492 deletions(-)
Author: David Meyer and Christian Buchta
Title: Distance and Similarity Measures
Description: Provides an extensible framework for the effcient
calculation of auto- and cross-proximities, along with
implementations of the most popular ones.
Diff between proxy versions 0.4-1 dated 2008-08-29 and 0.4-2 dated 2009-03-31
DESCRIPTION | 15 ++++++++++----- NEWS | 6 +++++- R/dist.R | 24 ++++++++++++++++++++---- inst/NEWS | 6 +++++- man/dist.Rd | 10 +++++----- src/distance.c | 2 +- tests/distcalls.Rout.save | 6 +++--- 7 files changed, 49 insertions(+), 20 deletions(-)
Author: David Meyer
Diff between StatDataML versions 1.0-16 dated 2009-02-05 and 1.0-17 dated 2009-03-31
Title: implementation of the StatDataML proposal
Description: read and write StatDataML files
DESCRIPTION | 15 ++++++++-------
1 file changed, 8 insertions(+), 7 deletions(-)
Author: Stefan Theussl and Kurt Hornik
Title: R/GNU Linear Programming Kit Interface
Description: R interface to the GNU Linear Programing Kit (GLPK version
4.37). GLPK is open source software for solving large-scale
linear programming (LP), mixed integer linear programming
(MILP) and other related problems.
Diff between Rglpk versions 0.2-8 dated 2009-02-07 and 0.2-9 dated 2009-03-31
Rglpk-0.2-8/Rglpk/src/glplpx06.c |only Rglpk-0.2-8/Rglpk/src/glplpx07.c |only Rglpk-0.2-8/Rglpk/src/glplpx08.c |only Rglpk-0.2-8/Rglpk/src/glplpx09.c |only Rglpk-0.2-8/Rglpk/src/glppds.c |only Rglpk-0.2-8/Rglpk/src/glppds.h |only Rglpk-0.2-9/Rglpk/DESCRIPTION | 21 Rglpk-0.2-9/Rglpk/inst/CHANGELOG | 5 Rglpk-0.2-9/Rglpk/src/glpapi.h | 4 Rglpk-0.2-9/Rglpk/src/glpapi08.c | 2 Rglpk-0.2-9/Rglpk/src/glpapi09.c | 5 Rglpk-0.2-9/Rglpk/src/glpapi10.c | 742 ++++++------------- Rglpk-0.2-9/Rglpk/src/glpapi11.c | 1498 +++++++++++++++++++++------------------ Rglpk-0.2-9/Rglpk/src/glpapi12.c | 1086 +++++++++++++++------------- Rglpk-0.2-9/Rglpk/src/glpapi13.c | 680 +++++++++++++---- Rglpk-0.2-9/Rglpk/src/glpapi14.c | 342 +++++++- Rglpk-0.2-9/Rglpk/src/glpapi15.c | 82 +- Rglpk-0.2-9/Rglpk/src/glpapi16.c | 262 +----- Rglpk-0.2-9/Rglpk/src/glpapi17.c | 1178 +++++------------------------- Rglpk-0.2-9/Rglpk/src/glpapi18.c | 109 ++ Rglpk-0.2-9/Rglpk/src/glpapi19.c | 596 ++++----------- Rglpk-0.2-9/Rglpk/src/glpapi20.c | 545 +++++++++++--- Rglpk-0.2-9/Rglpk/src/glpapi21.c |only Rglpk-0.2-9/Rglpk/src/glpios.h | 4 Rglpk-0.2-9/Rglpk/src/glpios03.c | 27 Rglpk-0.2-9/Rglpk/src/glpios10.c |only Rglpk-0.2-9/Rglpk/src/glpk.h | 365 +++++---- Rglpk-0.2-9/Rglpk/src/glplpx01.c | 512 +++++++++++++ Rglpk-0.2-9/Rglpk/src/glplpx03.c | 1291 +++++++++++++++++++++++---------- Rglpk-0.2-9/Rglpk/src/glplpx04.c | 1063 +++++++++++++-------------- Rglpk-0.2-9/Rglpk/src/glplpx05.c | 373 ++++++--- Rglpk-0.2-9/Rglpk/src/glpsds.c |only Rglpk-0.2-9/Rglpk/src/glpspm.c | 18 33 files changed, 5987 insertions(+), 4823 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 1.0-2 dated 2009-02-11 and 1.0-3 dated 2009-03-31
ChangeLog | 6 ++++++ DESCRIPTION | 11 ++++++----- R/compare.R | 26 +++++++++++++++++--------- 3 files changed, 29 insertions(+), 14 deletions(-)
Author: Mark Stevenson
Diff between epiR versions 0.9-14 dated 2008-12-19 and 0.9-15 dated 2009-03-31
Title: Functions for analysing epidemiological data
Description: A package for analysing epidemiological data. Contains
functions for directly and indirectly adjusting measures of
disease frequency, quantifying measures of association on the
basis of single or multiple strata of count data presented in a
contingency table, and computing confidence intervals around
incidence risk and incidence rate estimates. Miscellaneous
functions for use in meta-analysis, diagnostic test
interpretation, and sample size calculations.
DESCRIPTION | 39
R/epi.dms.R | 14
doc/epiR.pdf | 6187 +++++++++++++++++++++++++++-----------------------------
man/epi.2by2.Rd | 2
man/epi.dms.Rd | 6
5 files changed, 3122 insertions(+), 3126 deletions(-)
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 1.1-6 dated 2009-02-11 and 1.1-7 dated 2009-03-30
DESCRIPTION | 26 +++++++++++++++++--------- R/comprisk.r | 2 +- R/new.dynreg.r | 48 ++++++++++++++++++++++++------------------------ R/predict-timereg.r | 2 ++ data/mypbc.txt |only man/additive-lasso.Rd | 19 ++++++++----------- man/dynreg.Rd | 8 ++------ man/internal-addreg.Rd | 1 + man/krylow.pls.Rd | 16 +++++++--------- man/plot.dynreg.Rd | 2 +- man/surv-lars.Rd | 13 +++++++------ 11 files changed, 70 insertions(+), 67 deletions(-)
Author: Robin Nunkesser
Diff between rPorta versions 0.1-8 dated 2009-02-03 and 0.1-9 dated 2009-03-30
Title: R/PORTA interface
Description: An R interface to a modified version of PORTA. For more
information on PORTA see
http://www.zib.de/Optimization/Software/Porta/.
DESCRIPTION | 15 ++++++++++-----
src/printMethods.h | 2 +-
2 files changed, 11 insertions(+), 6 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 0.3-2 dated 2009-02-11 and 0.4-1 dated 2009-03-30
DESCRIPTION | 10 R/grplasso.R | 1191 +++++++++++++++++++++++---------------------- R/helpers.R | 512 +++++++++---------- R/zzz.R | 14 man/grplasso.Rd | 10 man/lambdamax.Rd | 7 tests/test_centerscaling.R |only tests/test_grplasso.R | 4 8 files changed, 907 insertions(+), 841 deletions(-)
Author: Robin K. S. Hankin
Title: ecological drift under the UNTB
Description: A collection of utilities for biodiversity data. Includes
the simulation of ecological drift under Hubbell's Unified
Neutral Theory of Biodiversity, and the calculation of various
diagnostics such as Preston curves.
Diff between untb versions 1.3-3 dated 2009-01-20 and 1.4-2 dated 2009-03-30
DESCRIPTION | 21 ++++++++++++--------- inst |only 2 files changed, 12 insertions(+), 9 deletions(-)
Author: Robin K. S. Hankin
Title: create and investigate magic squares
Description: a collection of efficient, vectorized algorithms for the
creation and investigation of magic squares and hypercubes,
including a variety of functions for the manipulation and
analysis of arbitrarily dimensioned arrays. The package
includes methods for creating normal magic squares of any order
greater than 2. The ultimate intention is for the package to
be a computerized embodiment all magic square knowledge,
including direct numerical verification of properties of magic
squares (such as recent results on the determinant of
odd-ordered semimagic squares). Some antimagic functionality
is included. The package also serves as a rebuttal to the
often-heard comment "I thought R was just for statistics".
Diff between magic versions 1.4-3 dated 2009-01-22 and 1.4-4 dated 2009-03-30
magic-1.4-3/magic/inst/doc/magicpaper.tex |only magic-1.4-4/magic/DESCRIPTION | 30 ++++++++++++----------- magic-1.4-4/magic/inst/doc/magicpaper.pdf | 18 +++++++------- magic-1.4-4/magic/tests/aaa.R | 38 ++++++++++++++++++++---------- 4 files changed, 51 insertions(+), 35 deletions(-)
Author: Robin K. S. Hankin; qrng functions by Duncan Murdoch and
multimin by Andrew Clausen
Title: wrapper for the Gnu Scientific Library
Description: An R wrapper for the special functions and quasi random
number generators of the Gnu Scientific Library
(http://www.gnu.org/software/gsl/). See gsl-package.Rd for
details of overall package organization, and Misc.Rd for some
functions that are widely used in the package.
Diff between gsl versions 1.8-11 dated 2008-08-22 and 1.8-13 dated 2009-03-30
DESCRIPTION | 33 +++++++++++++++++---------------- man/Multimin.Rd | 2 ++ src/Makevars.win | 9 +++++++-- src/multimin.c | 10 ++++++++++ 4 files changed, 36 insertions(+), 18 deletions(-)
Author: Christopher Jackson
Title: Density strips and other methods for compactly illustrating
distributions
Description: Graphical methods for compactly illustrating probability
distributions, including density strips, density regions,
sectioned density plots and varying width strips.
Diff between denstrip versions 1.2 dated 2008-11-03 and 1.3 dated 2009-03-30
ChangeLog | 30 +++++++++++++++++++++++------- DESCRIPTION | 15 ++++++++++----- R/denstrip.R | 11 ++++++++--- inst/NEWS | 10 ++++++++++ man/cistrip.Rd | 14 ++++++++------ man/densregion.Rd | 7 +++++-- man/densregion.survfit.Rd | 6 +++--- man/denstrip.Rd | 2 +- man/denstrip.legend.Rd | 2 +- 9 files changed, 69 insertions(+), 28 deletions(-)
Author: Emmanuel Paradis, Ben Bolker, Julien Claude, Hoa Sien Cuong,
Richard Desper, Benoit Durand, Julien Dutheil, Olivier Gascuel,
Gangolf Jobb, Christoph Heibl, Daniel Lawson, Vincent Lefort,
Pierre Legendre, Jim Lemon, Yvonnick Noel, Johan Nylander,
Rainer Opgen-Rhein, Korbinian Strimmer, Damien de Vienne
Title: Analyses of Phylogenetics and Evolution
Description: ape provides functions for reading, writing, plotting, and
manipulating phylogenetic trees, analyses of comparative data
in a phylogenetic framework, analyses of diversification and
macroevolution, computing distances from allelic and nucleotide
data, reading nucleotide sequences, and several tools such as
Mantel's test, computation of minimum spanning tree, the
population parameter theta based on various approaches,
nucleotide diversity, generalized skyline plots, estimation of
absolute evolutionary rates and clock-like trees using mean
path lengths, non-parametric rate smoothing and penalized
likelihood, classifying genes in trees using the
Klastorin-Misawa-Tajima approach. Phylogeny estimation can be
done with the NJ, BIONJ, and ME methods.
Diff between ape versions 2.2-4 dated 2009-02-09 and 2.3 dated 2009-03-30
ape-2.2-4/ape/data/xenarthra.R |only ape-2.2-4/ape/man/xenarthra.Rd |only ape-2.3/ape/ChangeLog | 43 ++++++++++++++++++++ ape-2.3/ape/DESCRIPTION | 41 ++++++++++--------- ape-2.3/ape/R/CDAM.global.R |only ape-2.3/ape/R/CDAM.post.R |only ape-2.3/ape/R/ace.R | 19 +++++---- ape-2.3/ape/R/drop.tip.R | 15 ++++--- ape-2.3/ape/R/is.ultrametric.R | 6 +- ape-2.3/ape/R/makeNodeLabel.R |only ape-2.3/ape/R/phymltest.R | 12 ++--- ape-2.3/ape/R/plot.phylo.R | 72 +++++++++++++++++------------------ ape-2.3/ape/R/read.tree.R | 27 ++++++++++--- ape-2.3/ape/R/write.tree.R | 80 +++++++++++++++++++++------------------ ape-2.3/ape/R/yule.time.R |only ape-2.3/ape/Thanks | 4 - ape-2.3/ape/data/mat3.RData |only ape-2.3/ape/data/mat5M3ID.RData |only ape-2.3/ape/data/mat5Mrand.RData |only ape-2.3/ape/data/woodmouse.R | 2 ape-2.3/ape/inst/doc/MoranI.pdf |binary ape-2.3/ape/man/CADM.global.Rd |only ape-2.3/ape/man/ace.Rd | 2 ape-2.3/ape/man/corGrafen.Rd | 2 ape-2.3/ape/man/corPagel.Rd | 6 +- ape-2.3/ape/man/makeNodeLabel.Rd |only ape-2.3/ape/man/mat3.Rd |only ape-2.3/ape/man/mat5M3ID.Rd |only ape-2.3/ape/man/mat5Mrand.Rd |only ape-2.3/ape/man/phymltest.Rd | 4 - ape-2.3/ape/man/plot.phylo.Rd | 14 +----- ape-2.3/ape/man/read.tree.Rd | 25 ++++++++---- ape-2.3/ape/man/rotate.Rd | 2 ape-2.3/ape/man/weight.taxo.Rd | 2 ape-2.3/ape/man/write.tree.Rd | 15 +++++-- ape-2.3/ape/man/yule.cov.Rd | 5 -- ape-2.3/ape/man/yule.time.Rd |only 37 files changed, 244 insertions(+), 154 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 0.7-20 dated 2009-02-18 and 0.7-21 dated 2009-03-29
ChangeLog | 24 ++++++++++++++++++++++-- DESCRIPTION | 22 +++++++++++++++++----- LICENSE | 16 ++++++++++------ R/SpatialLines-methods.R | 2 +- R/SpatialPolys-methods.R | 2 +- R/readSplus.R | 8 ++++++++ inst/ChangeLog | 24 ++++++++++++++++++++++-- inst/LICENSE | 6 +----- 8 files changed, 82 insertions(+), 22 deletions(-)
Author: Uwe Ligges
Diff between tuneR versions 0.2-8 dated 2009-01-09 and 0.2-10 dated 2009-03-29
Title: Analysis of music
Description: Collection of tools to analyze music, handling wave files,
transcription, ...
DESCRIPTION | 27 ++++++++++++++++-----------
inst |only
man/MFCC.Rd | 2 +-
man/MonoStereo.Rd | 2 +-
man/WavPlayer.Rd | 2 +-
man/Wave-class.Rd |only
man/Wave.Rd | 28 ++++++----------------------
man/WaveArith.Rd | 2 +-
man/WaveIO.Rd | 2 +-
man/Waveforms.Rd | 2 +-
man/Wspec.Rd | 2 +-
man/bind.Rd | 2 +-
man/channel.Rd | 2 +-
man/downsample.Rd | 2 +-
man/equalWave.Rd | 2 +-
man/extractWave.Rd | 2 +-
man/noSilence.Rd | 2 +-
man/normalize.Rd | 2 +-
man/panorama.Rd | 2 +-
man/periodogram.Rd | 2 +-
man/play.Rd | 2 +-
man/plot-Wave.Rd | 2 +-
man/prepComb.Rd | 2 +-
man/show.Rd | 2 +-
man/summary.Rd | 2 +-
25 files changed, 43 insertions(+), 54 deletions(-)
Author: Karl W Broman
Diff between qtl versions 1.10-27 dated 2009-01-11 and 1.11-12 dated 2009-03-29
Title: Tools for analyzing QTL experiments
Description: Analysis of experimental crosses to identify genes (called
quantitative trait loci, QTLs) contributing to variation in
quantitative traits.
.gitignore |only
DESCRIPTION | 18 +-
R/add.cim.covar.R | 14 +
R/add_threshold.R | 14 +
R/addqtl.R | 22 ++
R/argmax.geno.R | 14 +
R/arithscan.R | 14 +
R/calc.genoprob.R | 14 +
R/calc.pairprob.R | 14 +
R/cim.R | 14 +
R/compareorder.R | 14 +
R/countXO.R | 14 +
R/discan.R | 14 +
R/effectplot.R | 90 +++++++++--
R/effectscan.R | 14 +
R/errorlod.R | 14 +
R/est.map.R | 14 +
R/est.rf.R | 14 +
R/fitqtl.R | 20 ++
R/fitstahl.R | 14 +
R/makeqtl.R | 66 +++++---
R/map_construction.R | 14 +
R/plot.R | 120 +++++++++++----
R/plot.scanone.R | 14 +
R/plot.scantwo.R | 14 +
R/plotModel.R | 14 +
R/plotperm.R | 14 +
R/qtlcart_io.R | 14 +
R/read.cross.R | 14 +
R/read.cross.csv.R | 14 +
R/read.cross.csvs.R | 14 +
R/read.cross.gary.R | 14 +
R/read.cross.karl.R | 14 +
R/read.cross.mm.R | 14 +
R/read.cross.qtx.R | 14 +
R/refineqtl.R | 14 +
R/replacemap.R | 14 +
R/ripple.R | 14 +
R/scanone.R | 14 +
R/scanoneboot.R | 14 +
R/scanqtl.R | 14 +
R/scantwo.R | 14 +
R/sim.geno.R | 14 +
R/sim_ril.R | 14 +
R/simulate.R | 14 +
R/stepwiseqtl.R | 14 +
R/summary.cross.R | 14 +
R/summary.scanone.R | 14 +
R/summary.scantwo.R | 14 +
R/summary.scantwo.old.R | 14 +
R/tryallpositions.R | 14 +
R/util.R | 128 +++++++++++++++-
R/vbscan.R | 14 +
R/write.cross.R | 24 ++-
R/xchr.R | 14 +
R/zzz.R | 14 +
contrib |only
inst/LICENSE.txt | 384 +-----------------------------------------------
inst/README.txt | 12 -
inst/STATUS.txt | 71 ++++++++
inst/TODO.txt | 9 +
inst/docs/rqtltour.R | 4
inst/docs/rqtltour.pdf |binary
inst/docs/rqtltour.tex | 4
man/effectplot.Rd | 9 +
man/qtl-internal.Rd | 4
man/replaceqtl.Rd | 10 -
src/countXO.c | 13 +
src/countXO.h | 13 +
src/discan.c | 13 +
src/discan.h | 13 +
src/discan_covar.c | 13 +
src/discan_covar.h | 13 +
src/effectscan.c | 13 +
src/effectscan.h | 13 +
src/fitqtl_hk.c | 13 +
src/fitqtl_hk.h | 13 +
src/fitqtl_imp.c | 13 +
src/fitqtl_imp.h | 13 +
src/forwsel.c | 13 +
src/forwsel.h | 13 +
src/hmm_4way.c | 13 +
src/hmm_4way.h | 13 +
src/hmm_bc.c | 13 +
src/hmm_bc.h | 13 +
src/hmm_bci.c | 13 +
src/hmm_bci.h | 13 +
src/hmm_cc.c | 13 +
src/hmm_cc.h | 13 +
src/hmm_f2.c | 13 +
src/hmm_f2.h | 13 +
src/hmm_f2i.c | 13 +
src/hmm_f2i.h | 13 +
src/hmm_main.c | 13 +
src/hmm_main.h | 13 +
src/info.c | 13 +
src/info.h | 13 +
src/lapackutil.c | 13 +
src/lapackutil.h | 13 +
src/ripple.c | 13 +
src/ripple.h | 13 +
src/scanone_ehk.c | 13 +
src/scanone_ehk.h | 13 +
src/scanone_em.c | 13 +
src/scanone_em.h | 13 +
src/scanone_em_covar.c | 13 +
src/scanone_em_covar.h | 13 +
src/scanone_hk.c | 13 +
src/scanone_hk.h | 13 +
src/scanone_imp.c | 13 +
src/scanone_imp.h | 13 +
src/scanone_mr.c | 13 +
src/scanone_mr.h | 13 +
src/scanone_np.c | 13 +
src/scanone_np.h | 13 +
src/scantwo_binary_em.c | 13 +
src/scantwo_binary_em.h | 13 +
src/scantwo_em.c | 13 +
src/scantwo_em.h | 13 +
src/scantwo_hk.c | 13 +
src/scantwo_hk.h | 13 +
src/scantwo_imp.c | 13 +
src/scantwo_imp.h | 13 +
src/scantwo_mr.c | 13 +
src/scantwo_mr.h | 13 +
src/simulate.c | 13 +
src/simulate.h | 13 +
src/simulate_cc.c | 13 +
src/simulate_cc.h | 13 +
src/stahl_mf.c | 13 +
src/stahl_mf.h | 13 +
src/summary_scantwo.c | 13 +
src/summary_scantwo.h | 13 +
src/util.c | 13 +
src/util.h | 13 +
src/vbscan.c | 13 +
src/vbscan.h | 13 +
tests/test_io.R | 14 +
tests/test_io.Rout.save | 14 +
139 files changed, 1983 insertions(+), 608 deletions(-)
Author: Marco Scutari
Title: Bayesian network structure learning
Description: Bayesian network structure learning via constraint-based
(also known as 'conditional independence') and score-based
algorithms. This package implements the Grow-Shrink (GS)
algorithm, the Incremental Association (IAMB) algorithm, the
Interleaved-IAMB (Inter-IAMB) algorithm, the Fast-IAMB
(Fast-IAMB) algorithm, the Max-Min Parents and Children (MMPC)
algorithm and the Hill-Climbing (HC) greedy search algorithm
for both discrete and Gaussian networks, along with many score
functions and conditional independence tests. Some utility
functions (model comparison and manipulation, random data
generation, arc orientation testing, simple ad advanced plots)
are also included.
Diff between bnlearn versions 1.2 dated 2009-02-05 and 1.3 dated 2009-03-29
Changelog | 10 + DESCRIPTION | 35 +++--- NAMESPACE | 3 R/arc.operations.R | 2 R/arc.strength.R | 76 +++++++++++++ R/backend-indep.R | 125 +++------------------- R/fast-iamb.R | 24 ++-- R/frontend-amat.R | 2 R/frontend-learning.R | 4 R/frontend-plot.R | 25 ++++ R/frontend-score.R | 14 +- R/frontend-simulation.R | 6 - R/globals.R | 11 + R/graph-generation.R | 238 +++++-------------------------------------- R/graphviz.R | 24 ++-- R/grow-shrink.R | 24 ++-- R/hill-climbing.R | 6 - R/incremental-association.R | 24 ++-- R/inter-iamb.R | 24 ++-- R/learning-algorithms.R | 28 ++--- R/maxmin-pc.R | 38 +++--- R/simulation.R | 14 +- R/test.R | 225 +++++++++++++++++++++++++++++++--------- R/utils-amat.R | 16 -- R/utils-graph.R | 2 R/utils-misc.R | 20 --- R/utils-sanitization.R | 46 +++++++- R/utils-tests.R | 11 - man/00.bnlearn-package.Rd | 62 +++++++---- man/10.gs.Rd | 22 +-- man/11.iamb.Rd | 18 +-- man/12.fast.iamb.Rd | 18 +-- man/13.inter.iamb.Rd | 18 +-- man/14.mmpc.Rd | 29 +---- man/15.hc.Rd | 10 - man/20.mb.Rd | 3 man/22.modelstring.Rd | 48 ++++---- man/24.graphgen.Rd | 53 ++++----- man/30.score.Rd | 26 +--- man/31.ci.test.Rd | 15 -- man/32.choose.direction.Rd | 3 man/40.rbn.Rd | 3 man/51.graphviz.plot.Rd | 19 +-- man/52.strength.plot.Rd |only man/A3.lizards.Rd | 40 +++---- man/B0.bn.class.Rd | 29 +---- man/B1.bn-strength.Rd |only src/Makevars |only src/acyclic.c | 43 +++---- src/allocations.c |only src/bayesian.network.c | 4 src/bn.recovery.c |only src/cache.structure.c | 31 ++--- src/common.c | 20 +++ src/common.h | 63 +++++++++++ src/configurations.c | 6 - src/discrete.loglikelihood.c | 28 +---- src/graph.generation.c |only src/hc.cache.lookup.c | 7 - src/is.dag.c | 120 +++------------------ src/linear.algebra.c |only src/linear.correlation.c |only src/monte.carlo.c |only src/mutual.information.c | 69 ++---------- src/path.c | 62 +++++------ src/pearson.x2.c | 67 ++---------- 66 files changed, 914 insertions(+), 1099 deletions(-)
Author: originally written by Andrew Gelman
Diff between R2WinBUGS versions 2.1-12 dated 2009-02-13 and 2.1-13 dated 2009-03-29
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.
DESCRIPTION | 49 ++++++++++++++++++++++++++-----------------------
R/as.mcmc.list.bugs.R | 15 +++++++--------
R/bugs.R | 2 +-
inst/NEWS | 6 ++++++
inst/doc/R2WinBUGS.pdf | 6 +++---
man/bugs.Rd | 4 ++--
6 files changed, 45 insertions(+), 37 deletions(-)
Author: Eric Lecoutre
Diff between R2HTML versions 1.59 dated 2008-05-25 and 1.59-1 dated 2009-03-29
Title: HTML exportation for R objects
Description: Includes HTML function and methods to write in an HTML
file. Thus, making HTML reports is easy. Includes a function
that allows redirection on the fly, which appears to be very
usefull for teaching purpose, as the student can keep a copy of
the produced output to keep all that he did during the course.
Package comes with a vignette describing how to write HTML
reports for statistical analysis. Finally, a driver for Sweave
allows to parse HTML flat files containing R code and to
automatically write the corresponding outputs (tables and
graphs).
DESCRIPTION | 30 +
R/HTMLcore.R | 922 ++++++++++++++++++++++++-------------------------
man/HTML.data.frame.Rd | 172 ++++-----
man/HTMLStart.Rd | 161 ++++----
4 files changed, 650 insertions(+), 635 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{cricketers} (handedness, British first class cricketers
born before 1961 whose handedness was specified),
\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 0.7-4 dated 2009-01-12 and 0.7-5 dated 2009-03-29
DESCRIPTION | 44 ++++++++++++++++++++++++-------------------- data/SOI.RData |binary data/cricketers.RData |only man/SOI.Rd | 4 ++-- man/cricketers.Rd |only 5 files changed, 26 insertions(+), 22 deletions(-)
Author: Andrea Peters and Torsten Hothorn
Title: Improved Predictors
Description: Improved predictive models by indirect classification and
bagging for classification, regression and survival problems as
well as resampling based estimators of prediction error.
Diff between ipred versions 0.8-6 dated 2008-08-07 and 0.8-7 dated 2009-03-28
CHANGES | 6 + DESCRIPTION | 14 +-- R/predict.bagging.R | 4 R/sbrier.R | 4 inst/doc/ipred-examples.pdf |binary man/DLBCL.Rd | 2 man/GBSG2.Rd | 2 man/sbrier.Rd | 8 - tests/ipred-bugs.Rout.save | 11 +- tests/ipred-segfault.R | 2 tests/ipred-segfault.Rout.save | 179 ++++++++++++++++------------------------ tests/ipred-smalltest.Rout.save |only tests/ipred-tests.R | 12 +- tests/ipred-tests.Rout.save | 23 ++--- 14 files changed, 122 insertions(+), 145 deletions(-)
Author: Adrian Dusa
Diff between QCA versions 0.5-2 dated 2009-02-09 and 0.5-3 dated 2009-03-28
Title: Qualitative Comparative Analysis
Description: Performs the Quine-McCluskey algorithm for Qualitative
Comparative Analysis, as described in Ragin, Charles C. 1987
"The Comparative Method. Moving beyond qualitative and
quantitative strategies", Berkeley: University of California
Press. In the classical approach it currently handles about 15
conditions and one outcome, but since version 0.4-5 the package
has an enhanced, faster function that obtains the same exact
solutions with a substantially lower memory consumption, and it
handles even more causal conditions. The next versions of this
algorithm will be oriented towards multi-value and fuzzy-set
functions. Also, in the near future the current functions will
deal with missing values in the data
DESCRIPTION | 21 +++++++++++++++++----
R/truthTable.R | 18 ++++++++++--------
R/verifyQCA.R | 8 --------
inst/CHANGES | 13 ++++++++++---
man/QCA.package.Rd | 4 ++--
5 files changed, 39 insertions(+), 25 deletions(-)
Author: Markus Gesmann
Title: Mack-, Bootstrap and Munich-chain-ladder methods for insurance
claims reserving
Description: The package contains the Mack-, Munich-, and Bootstrap
chain-ladder methods which are used in insurance claims
reserving.
Diff between ChainLadder versions 0.1.2-10 dated 2009-03-27 and 0.1.2-11 dated 2009-03-28
DESCRIPTION | 8 ++++---- NEWS | 10 ++++++++-- R/MackChainLadderFunctions.R | 11 +++++++---- man/MackChainLadder.Rd | 2 +- 4 files changed, 20 insertions(+), 11 deletions(-)
Author: Matti Pastell
Diff between Animal versions 1.0 dated 2009-03-18 and 1.01 dated 2009-03-28
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 purpose.
DESCRIPTION | 26 ++++++++++++++++----------
R/bouts.RIC.R |only
R/clean.RIC.R |only
R/daily.R |only
R/day.R |only
R/day.string.R |only
R/hour.R |only
R/hourly.R |only
R/label.data.R |only
R/month.R |only
R/monthly.R |only
R/nunique.R |only
R/partOfDay.R |only
R/read.RIC.R |only
R/week.R |only
R/weekly.R |only
data |only
inst |only
man/RIC.Rd |only
man/bouts.RIC.Rd |only
man/clean.RIC.Rd |only
man/cowAnalyze.Rd | 21 ++++++++++-----------
man/daily.Rd |only
man/day.Rd |only
man/day.string.Rd |only
man/hour.Rd |only
man/hourly.Rd |only
man/label.data.Rd |only
man/month.Rd |only
man/monthly.Rd |only
man/nunique.Rd |only
man/partOfDay.Rd |only
man/read.RIC.Rd |only
man/week.Rd |only
man/weekly.Rd |only
35 files changed, 26 insertions(+), 21 deletions(-)
Author: Andrej-Nikolai Spiess
Diff between qpcR versions 1.1-7 dated 2008-12-16 and 1.1-8 dated 2009-03-27
Title: Modelling and analysis of real-time PCR data
Description: Model fitting, optimal model selection and calculation of
various features that are essential in the analysis of
quantitative real-time polymerase chain reaction (qPCR).
qpcR-1.1-7/qpcR/man/qpcR.Rd |only
qpcR-1.1-8/qpcR/DESCRIPTION | 32 ++++++++++++++++++--------------
qpcR-1.1-8/qpcR/NAMESPACE | 6 +++---
qpcR-1.1-8/qpcR/R/REST.r |only
qpcR-1.1-8/qpcR/R/calib.R | 2 +-
qpcR-1.1-8/qpcR/R/calib2.r |only
qpcR-1.1-8/qpcR/R/confband.R | 7 ++++---
qpcR-1.1-8/qpcR/R/drmfit.r |only
qpcR-1.1-8/qpcR/R/expcomp.R | 2 +-
qpcR-1.1-8/qpcR/R/expfit.R | 4 ++--
qpcR-1.1-8/qpcR/R/modlist.R | 2 +-
qpcR-1.1-8/qpcR/R/pcrbatch.R | 2 +-
qpcR-1.1-8/qpcR/R/pcrfit.R | 2 +-
qpcR-1.1-8/qpcR/R/pcropt1.R | 2 +-
qpcR-1.1-8/qpcR/man/AICc.Rd | 2 +-
qpcR-1.1-8/qpcR/man/LR.Rd | 3 ---
qpcR-1.1-8/qpcR/man/PRESS.Rd | 2 +-
qpcR-1.1-8/qpcR/man/REST.rd |only
qpcR-1.1-8/qpcR/man/RMSE.Rd | 2 +-
qpcR-1.1-8/qpcR/man/RSS.Rd | 2 +-
qpcR-1.1-8/qpcR/man/Rsq.Rd | 2 +-
qpcR-1.1-8/qpcR/man/S27.Rd | 9 ++-------
qpcR-1.1-8/qpcR/man/akaike.weights.Rd | 2 +-
qpcR-1.1-8/qpcR/man/calib.Rd | 13 +++++++------
qpcR-1.1-8/qpcR/man/calib2.rd |only
qpcR-1.1-8/qpcR/man/confband.Rd | 2 +-
qpcR-1.1-8/qpcR/man/drmfit.rd |only
qpcR-1.1-8/qpcR/man/eff.Rd | 2 +-
qpcR-1.1-8/qpcR/man/efficiency.Rd | 10 +++++-----
qpcR-1.1-8/qpcR/man/evidence.Rd | 4 ++--
qpcR-1.1-8/qpcR/man/expcomp.Rd | 2 +-
qpcR-1.1-8/qpcR/man/expfit.Rd | 2 +-
qpcR-1.1-8/qpcR/man/mchoice.Rd | 2 +-
qpcR-1.1-8/qpcR/man/pcrGOF.Rd | 2 +-
qpcR-1.1-8/qpcR/man/pcrfit.Rd | 6 ++++--
qpcR-1.1-8/qpcR/man/pcropt1.Rd | 4 ++--
qpcR-1.1-8/qpcR/man/pcrplot.Rd | 4 ++--
qpcR-1.1-8/qpcR/man/pcrpred.Rd | 2 +-
qpcR-1.1-8/qpcR/man/ratiocalc.Rd | 3 ++-
qpcR-1.1-8/qpcR/man/repform.Rd | 5 ++---
qpcR-1.1-8/qpcR/man/reps.Rd | 4 ++--
qpcR-1.1-8/qpcR/man/reps2.Rd | 7 ++++---
qpcR-1.1-8/qpcR/man/reps3.Rd | 7 ++++---
qpcR-1.1-8/qpcR/man/resVar.Rd | 2 +-
qpcR-1.1-8/qpcR/man/rutledge.Rd | 5 ++---
qpcR-1.1-8/qpcR/man/sliwin.Rd | 2 +-
46 files changed, 88 insertions(+), 87 deletions(-)
Author: Torsten Hothorn, Kurt Hornik, Carolin Strobl and Achim Zeileis
Title: A Laboratory for Recursive Partytioning
Description: A computational toolbox for recursive partitioning. The
core of the package is ctree(), an implementation of
conditional inference trees which embed tree-structured
regression models into a well defined theory of conditional
inference procedures. This non-parametric class of regression
trees is applicable to all kinds of regression problems,
including nominal, ordinal, numeric, censored as well as
multivariate response variables and arbitrary measurement
scales of the covariates. Based on conditional inference trees,
cforest() provides an implementation of Breiman's random
forests. The function mob() implements an algorithm for
recursive partitioning based on parametric models (e.g. linear
models, GLMs or survival regression) employing parameter
instability tests for split selection. Extensible functionality
for visualizing tree-structured regression models is available.
Diff between party versions 0.9-995 dated 2009-02-23 and 0.9-996 dated 2009-03-27
CHANGES | 5 DESCRIPTION | 42 +-- R/ConditionalTree.R | 5 R/Plot.R | 4 R/RandomForest.R | 4 R/Utils.R | 11 inst/doc/MOB.pdf | 354 +++++++++++++++---------------- inst/doc/party.pdf |binary tests/Distributions.Rout.save | 2 tests/IndependenceTest-regtest.Rout.save | 10 tests/LinearStatistic-regtest.Rout.save | 2 tests/Node-regtest.Rout.save | 2 tests/Predict-regtest.Rout.save | 2 tests/RandomForest-regtest.Rout.save | 18 - tests/Splits-regtest.Rout.save | 2 tests/TestStatistic-regtest.Rout.save | 2 tests/TreeGrow-regtest.Rout.save | 17 - tests/Utils-regtest.Rout.save | 2 tests/bugfixes.Rout.save | 10 tests/codetools-checks.Rout.save | 16 - tests/mob.Rout.save | 20 - 21 files changed, 272 insertions(+), 258 deletions(-)
Author: Torsten Hothorn, Peter Buhlmann, Thomas Kneib, Matthias Schmid
and Benjamin Hofner
Title: Model-Based Boosting
Description: Functional gradient descent algorithms (boosting) for
optimizing general loss functions utilizing componentwise least
squares, either of parametric linear form or smoothing splines,
or regression trees as base learners for fitting generalized
linear, additive and interaction models to potentially
high-dimensional data.
Diff between mboost versions 1.0-6 dated 2009-01-09 and 1.1-0 dated 2009-03-27
mboost-1.0-6/mboost/svn-commit.tmp |only mboost-1.0-6/mboost/tests/setup.Rout.save |only mboost-1.1-0/mboost/DESCRIPTION | 28 +-- mboost-1.1-0/mboost/R/blackboost.R | 1 mboost-1.1-0/mboost/R/gamboost.R | 11 - mboost-1.1-0/mboost/R/glmboost.R | 2 mboost-1.1-0/mboost/R/helpers.R | 2 mboost-1.1-0/mboost/R/methods.R | 15 + mboost-1.1-0/mboost/R/xsp.R | 122 +++++++++------ mboost-1.1-0/mboost/inst/CHANGES | 15 + mboost-1.1-0/mboost/inst/CITATION |only mboost-1.1-0/mboost/inst/doc/SurvivalEnsembles.pdf |binary mboost-1.1-0/mboost/inst/doc/mboost_illustrations.Rnw | 4 mboost-1.1-0/mboost/inst/doc/mboost_illustrations.pdf |binary mboost-1.1-0/mboost/man/baselearners.Rd | 5 mboost-1.1-0/mboost/man/gamboost.Rd | 5 mboost-1.1-0/mboost/man/methods.Rd | 10 - mboost-1.1-0/mboost/tests/bugfixes.R | 23 ++ mboost-1.1-0/mboost/tests/bugfixes.Rout.save | 37 +++- mboost-1.1-0/mboost/tests/codetools-checks.Rout.save | 6 mboost-1.1-0/mboost/tests/mboost_illustrations.R | 4 mboost-1.1-0/mboost/tests/mboost_illustrations.Rout.save | 8 mboost-1.1-0/mboost/tests/regtest-blackboost.Rout.save | 6 mboost-1.1-0/mboost/tests/regtest-gamboost.R | 24 +- mboost-1.1-0/mboost/tests/regtest-gamboost.Rout.save | 40 +--- mboost-1.1-0/mboost/tests/regtest-glmboost.Rout.save | 4 mboost-1.1-0/mboost/tests/regtest-hatmatrix.Rout.save | 4 mboost-1.1-0/mboost/to_do_list.txt | 1 28 files changed, 239 insertions(+), 138 deletions(-)
Author: Jan Graffelman
Diff between HardyWeinberg versions 1.2 dated 2008-04-22 and 1.3 dated 2009-03-27
Title: Graphical tests for Hardy-Weinberg equilibrium
Description: Package HardyWeinberg is a package for exploring
bi-allelic marker data. It focuses on the graphical
representation of the results of tests for Hardy-Weinberg
equlibrium in a ternary plot. Routines for several tests for
Hardy-Weinberg equilibrium are included in the package.
HardyWeinberg-1.2/HardyWeinberg/inst/doc/HardyWeinberg-008.eps |only
HardyWeinberg-1.2/HardyWeinberg/inst/doc/HardyWeinberg-008.pdf |only
HardyWeinberg-1.2/HardyWeinberg/inst/doc/HardyWeinberg.aux |only
HardyWeinberg-1.2/HardyWeinberg/inst/doc/HardyWeinberg.dvi |only
HardyWeinberg-1.2/HardyWeinberg/inst/doc/HardyWeinberg.log |only
HardyWeinberg-1.2/HardyWeinberg/inst/doc/HardyWeinberg.out |only
HardyWeinberg-1.2/HardyWeinberg/inst/doc/HardyWeinberg.tex |only
HardyWeinberg-1.2/HardyWeinberg/inst/doc/Rplots.ps |only
HardyWeinberg-1.3/HardyWeinberg/DESCRIPTION | 34
HardyWeinberg-1.3/HardyWeinberg/NAMESPACE | 2
HardyWeinberg-1.3/HardyWeinberg/R/CritSam.R | 5
HardyWeinberg-1.3/HardyWeinberg/R/HWCondProbAB.R |only
HardyWeinberg-1.3/HardyWeinberg/R/HWExact.R |only
HardyWeinberg-1.3/HardyWeinberg/R/HWTernaryPlot.R | 106
HardyWeinberg-1.3/HardyWeinberg/inst/doc/HardyWeinberg.Snw | 348
HardyWeinberg-1.3/HardyWeinberg/inst/doc/HardyWeinberg.pdf | 4186 +++++-----
HardyWeinberg-1.3/HardyWeinberg/inst/doc/Rplots.pdf |only
HardyWeinberg-1.3/HardyWeinberg/man/HWCondProbAB.Rd |only
HardyWeinberg-1.3/HardyWeinberg/man/HWExact.Rd |only
HardyWeinberg-1.3/HardyWeinberg/man/HWTernaryPlot.Rd | 25
HardyWeinberg-1.3/HardyWeinberg/man/HardyWeinberg-package.Rd | 8
21 files changed, 2525 insertions(+), 2189 deletions(-)
Author: Jerome Sueur
Diff between seewave versions 1.5.2 dated 2009-01-03 and 1.5.4 dated 2009-03-27
Title: Time wave analysis and graphical representation
Description: seewave provides functions for analysing, manipulating,
displaying, editing and synthesizing time waves (particularly
sound). This package processes time analysis (oscillograms and
envelopes), spectral content, resonance quality factor,
entropy, cross correlation and autocorrelation, zero-crossing,
dominant frequency, analytic signal, frequency coherence, 2D
and 3D spectrograms and many other analyses.
DESCRIPTION | 45
R/seewave.r | 8103 ++++++++++++++++++++++++------------------------
inst/doc/seewave_IO.pdf | 1888 +++++------
inst/doc/seewave_IO.rnw | 75
man/H.Rd | 2
man/afilter.Rd | 2
man/diffenv.Rd | 6
man/diffspec.Rd | 5
man/diffwave.Rd | 5
man/dynspec.rd | 2
man/rmnoise.Rd |only
man/seewave.package.Rd | 9
man/spectro.Rd | 2
man/spectro3D.Rd | 3
man/symba.Rd | 2
man/wf.Rd |only
16 files changed, 5277 insertions(+), 4872 deletions(-)
Author: Wacek Kusnierczyk
Diff between rbenchmark versions 0.1 dated 2009-03-20 and 0.2 dated 2009-03-27
Title: Benchmarking routine for R
Description: rbenchmark is inspired by the Perl module Benchmark, and
is intended to facilitate benchmarking of arbitrary R code. The
library consists of just one function, benchmark, which is a
simple wrapper around system.time. Given a specification of
the benchmarking process (counts of replications, evaluation
environment) and an arbitrary number of expressions, benchmark
evaluates each of the expressions in the specified environment,
replicating the evaluation as many times as specified, and
returning the results conveniently wrapped into a data frame.
DESCRIPTION | 8 ++++----
R/benchmark.R | 5 ++++-
man/benchmark-package.Rd | 6 +++---
man/benchmark.Rd | 2 +-
4 files changed, 12 insertions(+), 9 deletions(-)
Author: Thomas Lumley
Title: analysis of complex survey samples
Description: Summary statistics, generalised linear models, Cox models,
loglinear models, and general maximum pseudolikelihood
estimation for multistage stratified, cluster-sampled,
unequally weighted survey samples. Variances by Taylor series
linearisation or replicate weights. Post-stratification,
calibration, and raking. Two-phase designs. Graphics.
Diff between survey versions 3.12 dated 2009-03-22 and 3.13 dated 2009-03-27
DESCRIPTION | 6 +-- NAMESPACE | 1 R/multistage.R | 1 R/survey.R | 23 ++++++++--- R/surveyrep.R | 2 + R/svykm.R | 92 +++++++++++++++++++++++++++++++++++++++-------- R/svyttest.R | 1 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 man/bootweights.Rd | 2 - man/svyby.Rd | 2 - man/svykm.Rd | 28 ++++++++++---- man/svymle.Rd | 2 - man/svyratio.Rd | 9 ++++ tests/domain.R | 2 - tests/domain.Rout.save | 22 +++++++---- tests/quantile.Rout.save | 4 +- 21 files changed, 165 insertions(+), 47 deletions(-)
Author: Sandy Eckel, Roger D. Peng
Title: A Set of Tools for Administering SHared Repositories
Description: A Set of Tools for Administering SHared Repositories
Diff between stashR versions 0.3-2 dated 2008-05-02 and 0.3-3 dated 2009-03-27
DESCRIPTION | 29 +++++++++++++++-------------- tests/tests.Rout.save | 20 +++++++++++--------- 2 files changed, 26 insertions(+), 23 deletions(-)
Author: William Revelle
Diff between psych versions 1.0-65 dated 2009-02-08 and 1.0-67 dated 2009-03-27
Title: Procedures for Psychological, Psychometric, and Personality
Research
Description: A number of routines for personality, psychometrics and
experimental psychology. Functions are primarily for scale
construction using factor analysis, cluster analysis and
reliability analysis, although others provide basic descriptive
statistics. Functions for simulating particular item and test
structures are included. Several functions serve as a useful
front end for structural equation modeling. For more
information, see the personality-project.org/r webpage.
psych-1.0-65/psych/inst/doc/index.html |only
psych-1.0-65/psych/inst/psych.Rnw |only
psych-1.0-67/psych/CHANGES | 21
psych-1.0-67/psych/DESCRIPTION | 26
psych-1.0-67/psych/NAMESPACE | 3
psych-1.0-67/psych/R/ICLUST.R | 22
psych-1.0-67/psych/R/ICLUST.sort.R | 2
psych-1.0-67/psych/R/VSS.R | 3
psych-1.0-67/psych/R/alpha.R | 19
psych-1.0-67/psych/R/alpha.scale.R | 60
psych-1.0-67/psych/R/cluster.cor.R | 7
psych-1.0-67/psych/R/cluster.loadings.R | 39
psych-1.0-67/psych/R/corr.test.R |only
psych-1.0-67/psych/R/cortest.R | 5
psych-1.0-67/psych/R/cortest.mat.R | 4
psych-1.0-67/psych/R/cortest.normal.R | 4
psych-1.0-67/psych/R/count.pairwise.R | 31
psych-1.0-67/psych/R/describe.R | 31
psych-1.0-67/psych/R/describe.by.R | 41
psych-1.0-67/psych/R/error.bars.R | 21
psych-1.0-67/psych/R/error.bars.by.R | 52
psych-1.0-67/psych/R/error.crosses.R | 15
psych-1.0-67/psych/R/factor.congruence.R | 21
psych-1.0-67/psych/R/factor.rotate.R | 4
psych-1.0-67/psych/R/guttman.R | 41
psych-1.0-67/psych/R/mat.regress.R | 34
psych-1.0-67/psych/R/plot.psych.R | 4
psych-1.0-67/psych/R/print.psych.R | 184
psych-1.0-67/psych/R/r.test.R | 12
psych-1.0-67/psych/R/read.clipboard.lower.R | 4
psych-1.0-67/psych/R/score.items.R | 67
psych-1.0-67/psych/R/sim.congeneric.R | 5
psych-1.0-67/psych/R/sim.structural.R | 34
psych-1.0-67/psych/R/smc.R | 11
psych-1.0-67/psych/R/structure.graph.R | 5
psych-1.0-67/psych/R/structure.sem.R | 4
psych-1.0-67/psych/R/summary.psych.R | 43
psych-1.0-67/psych/data/bifactor.rda |binary
psych-1.0-67/psych/inst/NEWS | 17
psych-1.0-67/psych/inst/doc/all.bib |only
psych-1.0-67/psych/inst/doc/overview.Rnw |only
psych-1.0-67/psych/inst/doc/overview.pdf |only
psych-1.0-67/psych/inst/doc/psych_for_sem.Rnw |only
psych-1.0-67/psych/inst/doc/psych_for_sem.pdf |16827 +++---
psych-1.0-67/psych/inst/doc/psych_manual.pdf |65025 ++++++++++++++------------
psych-1.0-67/psych/man/00.psych-package.Rd | 13
psych-1.0-67/psych/man/ICLUST.Rd | 2
psych-1.0-67/psych/man/ICLUST.rgraph.Rd | 2
psych-1.0-67/psych/man/VSS.Rd | 6
psych-1.0-67/psych/man/alpha.Rd | 7
psych-1.0-67/psych/man/bifactor.Rd | 37
psych-1.0-67/psych/man/cluster.loadings.Rd | 9
psych-1.0-67/psych/man/corr.test.Rd |only
psych-1.0-67/psych/man/describe.Rd | 11
psych-1.0-67/psych/man/describe.by.Rd | 6
psych-1.0-67/psych/man/error.bars.Rd | 13
psych-1.0-67/psych/man/error.bars.by.Rd | 20
psych-1.0-67/psych/man/factor.congruence.Rd | 10
psych-1.0-67/psych/man/omega.Rd | 2
psych-1.0-67/psych/man/print.psych.Rd | 4
psych-1.0-67/psych/man/r.test.Rd | 23
psych-1.0-67/psych/man/read.clipboard.Rd | 11
psych-1.0-67/psych/man/score.items.Rd | 9
psych-1.0-67/psych/man/sim.Rd | 26
psych-1.0-67/psych/man/sim.structural.Rd | 2
psych-1.0-67/psych/man/smc.Rd | 7
psych-1.0-67/psych/man/structure.graph.Rd | 2
67 files changed, 45036 insertions(+), 37934 deletions(-)
Author: Max Kuhn. Contributions from Jed Wing, Steve Weston and Andre
Williams
Title: Classification and Regression Training
Description: Misc functions for training and plotting classification
and regression models
Diff between caret versions 4.08 dated 2009-02-19 and 4.10 dated 2009-03-27
DESCRIPTION | 23 + R/createGrid.R | 75 +++-- R/createModel.R | 63 ++++ R/misc.R | 82 +++++ R/predictionFunction.R | 91 +++++- R/probFunction.R | 2 R/selection.R | 10 inst/CHANGES | 19 + inst/doc/caretMisc.pdf | 701 +++++++++++++++++++++++------------------------ inst/doc/caretTrain.Rnw | 26 + inst/doc/caretTrain.pdf |binary inst/doc/caretVarImp.pdf |binary man/confusionMatrix.Rd | 2 man/train.Rd | 6 14 files changed, 695 insertions(+), 405 deletions(-)
Author: Markus Gesmann
Title: Mack-, Bootstrap and Munich-chain-ladder methods for insurance
claims reserving
Description: The package contains the Mack-, Munich-, and Bootstrap
chain-ladder methods which are used in insurance claims
reserving.
Diff between ChainLadder versions 0.1.2-9 dated 2009-02-01 and 0.1.2-10 dated 2009-03-27
DESCRIPTION | 31 +++-- NEWS | 13 ++ R/MackChainLadderFunctions.R | 246 +++++++++++++++++++++++------------------- R/zzz.R | 5 THANKS | 3 data/M3IR5.Rdata |only inst/Experimental/M3IR5.Rd |only inst/Experimental/M3IR5.Rdata |only inst/Experimental/chris.RData |only inst/Experimental/chris.Rd |only man/BootChainLadder.Rd | 4 man/MackChainLadder.Rd | 66 +++++++---- 12 files changed, 216 insertions(+), 152 deletions(-)
Author: Simon Wood
Diff between mgcv versions 1.5-1 dated 2009-03-17 and 1.5-2 dated 2009-03-26
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.
mgcv-1.5-1/mgcv/man/gam.setup.Rd |only
mgcv-1.5-1/mgcv/man/gamm.setup.Rd |only
mgcv-1.5-2/mgcv/DESCRIPTION | 8
mgcv-1.5-2/mgcv/NAMESPACE | 52 ++-
mgcv-1.5-2/mgcv/R/gamm.r | 12
mgcv-1.5-2/mgcv/R/mgcv.r | 198 +++++++++----
mgcv-1.5-2/mgcv/changeLog | 22 +
mgcv-1.5-2/mgcv/man/Predict.matrix.Rd | 9
mgcv-1.5-2/mgcv/man/Predict.matrix.cr.smooth.Rd |only
mgcv-1.5-2/mgcv/man/full.score.Rd | 2
mgcv-1.5-2/mgcv/man/gam.control.Rd | 7
mgcv-1.5-2/mgcv/man/gam.fit.Rd | 32 ++
mgcv-1.5-2/mgcv/man/gam.outer.Rd | 2
mgcv-1.5-2/mgcv/man/gam.side.Rd | 2
mgcv-1.5-2/mgcv/man/gamObject.Rd | 20 +
mgcv-1.5-2/mgcv/man/gamm.Rd | 2
mgcv-1.5-2/mgcv/man/pdIdnot.Rd | 4
mgcv-1.5-2/mgcv/man/pdTens.Rd | 3
mgcv-1.5-2/mgcv/man/print.gam.Rd | 22 +
mgcv-1.5-2/mgcv/man/smooth.construct.Rd | 1
mgcv-1.5-2/mgcv/man/smooth.construct.tensor.smooth.spec.Rd |only
mgcv-1.5-2/mgcv/man/vis.gam.Rd | 21 -
22 files changed, 313 insertions(+), 106 deletions(-)
Author: Matthias Wangler
Diff between changeLOS versions 2.0.9-1 dated 2009-02-01 and 2.0.9-2 dated 2009-03-26
Title: Change in LOS
Description: Change in length of hospital stay (LOS) is frequently used
to assess the impact and the costs of hospital-acquired
complications. In order to compute the attributable change in
LOS, it is crucial to account for the timing of events: A
complication can only have an effect on LOS, once it has
occured. These temporal dynamics can be adequately handled by
multistate models; however, there is few software for such
models available. We introduce an R-package "changeLOS" for
computing change in LOS based on methods described in Schulgen
and Schumacher (1996). We will illustrate the program on data
from a prospective cohort study on hospital-acquired
infections. Main features of the R-package "changeLOS" are
R-methods to: (1) describe the multi-state model. (2) compute
the Aalen-Johansen estimator for the matrix of transition
probabilities P(u-, u) for all observed transition times u.(3)
compute the Aalen-Johansen estimator for the matrix of
transition probabilities P(s,t); the estimator is a finite
matrix product of matrices P(u-,u) for every observed event
time in the interval(s,t]. (4) visualize the temporal dynamics
of the data, illustrated by transition probabilities. (5)
compute and visualize change in LOS. (6) compute bootstrap
variances for change in LOS.
DESCRIPTION | 32 ++++++++++++++++++++++++++++----
R/clos.R | 2 +-
2 files changed, 29 insertions(+), 5 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 0.6-6 dated 2009-01-14 and 0.6-7 dated 2009-03-26
DESCRIPTION | 23 +++++++++++++---------- R/HOMTESTS.R | 19 +++++++++++++++---- man/HOMTESTS.Rd | 12 +++++++++--- 3 files changed, 37 insertions(+), 17 deletions(-)
Author: Alberto Viglione
Title: Homogeneity tests for Regional Frequency Analysis
Description: A collection of homogeneity tests described in: Viglione
A., Laio F., Claps P. (2007) ``A comparison of homogeneity
tests for regional frequency analysis'', Water Resources
Research, 43, W03428, doi:10.1029/2006WR005095. More on
Regional Frequency Analysis can be found in package nsRFA.
Diff between homtest versions 1.0-2 dated 2007-10-03 and 1.0-4 dated 2009-03-26
DESCRIPTION | 19 ++++++++++++------- R/HOMTESTS.R | 6 ++++-- 2 files changed, 16 insertions(+), 9 deletions(-)
Author: Rasmus E. Benestad
Diff between clim.pact versions 2.2-30 dated 2009-03-04 and 2.2-31 dated 2009-03-26
Title: Climate analysis and empirical-statistical downscaling (ESD)
package for monthly and daily data.
Description: The package contains R functions for retrieving data,
making climate analysis and downscaling of monthly mean and
daily mean global climate scenarios. (Windows-users may need to
obtain the 'ncdf' package from URL
'http://www.stats.ox.ac.uk/pub/RWin/' to get clim.pact to
work). The package is also described in the book
'Empirical-Statistical Downscaling
(http://www.worldscibooks.com/environsci/6908.html)
DESCRIPTION | 22 ++++++++++++++++------
R/extras.R | 6 ------
R/map.eof.R | 2 +-
R/retrieve.nc.R | 33 +++++++++++++++++++++++----------
man/map.eof.Rd | 16 +++++++---------
5 files changed, 47 insertions(+), 32 deletions(-)
Author: Michael Lawrence
Title: Cairo-based cross-platform antialiased graphics device driver.
Description: Cairo/GTK graphics device driver with output to screen,
file (png, svg, pdf, and ps) or memory (arbitrary GdkDrawable
or Cairo context). The screen device may be embedded into RGtk2
interfaces. Supports all interactive features of other graphics
devices, including getGraphicsEvent().
Diff between cairoDevice versions 2.9-2 dated 2008-10-07 and 2.10 dated 2009-03-26
DESCRIPTION | 23 +++++++++++--------- R/cairoDevice.R | 26 ++++++++++++++++++----- man/asCairoDevice.Rd | 43 +++++++++++++++++++++++--------------- src/Makevars | 2 - src/cairoDevice.c | 57 ++++++++++++++++++++++++++++++++++----------------- src/cairoDevice.h | 11 ++------- 6 files changed, 102 insertions(+), 60 deletions(-)
Author: Michael Lawrence
Diff between RGtk2 versions 2.12.9 dated 2009-02-20 and 2.12.10 dated 2009-03-26
Title: R bindings for Gtk 2.8.0 and above
Description: Facilities in the R language for programming graphical
interfaces using Gtk, the Gimp Tool Kit.
DESCRIPTION | 18 +++++++++++-------
src/Makevars | 2 +-
src/pangoManuals.c | 6 ++++++
3 files changed, 18 insertions(+), 8 deletions(-)
Author: Chandra Erdman and John W. Emerson
Title: A Package for Performing a Bayesian Analysis of Change Point
Problems
Description: An implementation of the Barry and Hartigan (1993) product
partition model for the standard change point problem using
Markov Chain Monte Carlo.
Diff between bcp versions 2.1 dated 2008-07-16 and 2.1.1 dated 2009-03-25
DESCRIPTION | 15 ++++++++++----- man/interval.prob.Rd | 2 +- src/Cbcp.cpp | 4 ++-- 3 files changed, 13 insertions(+), 8 deletions(-)
Author: Paul Gilbert
Diff between TSpadi versions 2009.3-1 dated 2009-03-22 and 2009.3-2 dated 2009-03-25
Title: Time Series Database Interface extensions for PADI Time Series
Server
Description: Provides methods for generics in the TSdbi package to
connect through a protocol for application database interface
(PADI) to a time series database (e.g. Fame).
DESCRIPTION | 14 ++++++++------
inst/doc/TSpadiFame.pdf |binary
tests/0serviceCheck.R | 2 +-
3 files changed, 9 insertions(+), 7 deletions(-)
Author: Paul Gilbert
Diff between TSodbc versions 2009.3-1 dated 2009-03-22 and 2009.3-2 dated 2009-03-25
Title: Time Series Database Interface extensions for ODBC
Description: TSodbc provides a ODBC interface for TSdbi.
DESCRIPTION | 12 +++--
NEWS | 12 +++++
inst/doc/TSodbc.Stex | 106 ++++++++++++++++++++++++++++++++++++++++----------
inst/doc/TSodbc.pdf |binary
tests/0serviceCheck.R | 7 +--
tests/Rodbc.R | 4 -
6 files changed, 110 insertions(+), 31 deletions(-)
Author: Paul Gilbert
Diff between TSPostgreSQL versions 2009.3-1 dated 2009-03-22 and 2009.3-2 dated 2009-03-25
Title: Time Series Database Interface extensions for PostgreSQL
Description: TSPostgreSQL provides a PostgreSQL interface for TSdbi.
DESCRIPTION | 12 +++++----
NEWS | 6 ++++
inst/doc/TSPostgreSQL.Stex | 59 ++++++++++++++++++++++++++++++++-------------
inst/doc/TSPostgreSQL.pdf |binary
tests/0serviceCheck.R | 8 +++---
tests/RPostgreSQL.R | 18 ++++++-------
6 files changed, 67 insertions(+), 36 deletions(-)
Author: Paul Gilbert
Diff between TSMySQL versions 2009.3-1 dated 2009-03-22 and 2009.3-2 dated 2009-03-25
Title: Time Series Database Interface extensions for MySQL
Description: TSMySQL provides a MySQL interface for TSdbi.
DESCRIPTION | 12 +++++++-----
NEWS | 6 ++++++
inst/doc/TSMySQL.Stex | 42 ++++++++++++++++++++++++++++++------------
inst/doc/TSMySQL.pdf |binary
tests/0serviceCheck.R | 2 +-
tests/RMySQL.R | 2 +-
6 files changed, 45 insertions(+), 19 deletions(-)
Author: Mario Hasler
Title: Simultaneous Comparisons for Multiple Endpoints
Description: Simultaneous tests and confidence intervals for general
linear hypotheses when there is more than one primary response
variable (endpoint). The procedure of Hasler (2009) is applied
for differences or ratios of means of normally distributed
data. The covariance matrices (containing the covariances
between the endpoints) may be assumed to be equal or possibly
unequal for the different groups.
Diff between SimComp versions 1.2 dated 2008-11-25 and 1.3 dated 2009-03-25
DESCRIPTION | 39 ++++++++++++++++++++------------------- R/SimTestDiffHet.R | 3 ++- R/SimTestDiffHom.R | 3 ++- R/SimTestRatHet.R | 3 ++- R/SimTestRatHom.R | 3 ++- man/SimCiDiff.Rd | 9 ++++++--- man/SimCiRat.Rd | 9 ++++++--- man/SimComp-package.Rd | 12 ++++++++---- man/SimTestDiff.Rd | 9 ++++++--- man/SimTestRat.Rd | 9 ++++++--- 10 files changed, 60 insertions(+), 39 deletions(-)
Author: Hans Peter Wolf
Diff between relax versions 1.1 dated 2008-12-01 and 1.2.1 dated 2009-03-25
Title: relax -- R Editor for Literate Analysis and lateX
Description: package relax contains some functions for report writing,
presentation, and programming: relax(), tangleR(), weaveR(),
slider(). "relax" is written in R and Tcl/Tk. relax creates a
new window (top level Tcl/Tk widget) that consists of two text
fields and some buttons and menus. Text (chunks) and code
(chunks) are inserted in the upper text field (report field).
Code chunks are evaluated by clicking on EvalRCode. Results are
shown in the lower text field (output field) and will be
transfered to the report field by pressing on Insert. In this
way you get correct reports. These reports can be loaded again
in cause of presentation, modification and result checking.
tangleR() and weaveR() implement a plain kind of tangling and
weaving. slider() is designed to define sliders for interactive
experiments in a simple way. The syntax rules of code chunks
and text chunks are defined by the noweb system proposed by
Norman Ramsey
(http://www.eecs.harvard.edu/~nr/noweb/intro.html). For
integrating jpeg graphics into the text field you need the
Tcl/Tk Img package of Jan Nijtmans (see:
http://members.chello.nl/~j.nijtmans/img.html,
http://home.kpnplanet.nl/~J.Nijtmans@kpnplanet.nl/img.html or
http://tkimg.sourceforge.net/, the package is found on
http://sourceforge.net/projects/tkimg). If an Img version is
integrated in the relax package the license terms concerning
the img package will be found in the source file of the
package, for example in: relax/src/tkimg1.3.tar.gz. Older
windows versions of relax contain the Tcl/Tk img package, so no
further installations have to be done.
DESCRIPTION | 68 +-
R/relax.R | 120 ++++-
R/slider.R | 3
R/tangleR.R | 10
R/weaveR.R | 296 +++++++++++-
R/weaveRhtml.R | 98 ++--
inst/config/settings.init | 1
inst/config/settings.relax | 1
inst/lib/LaTeX-head.tex | 4
inst/src/relax.rev | 137 ++++-
inst/src/webR.pdf |binary
inst/src/webR.rev | 1060 ++++++++++++++++++++++++++++++++++++++-------
man/slider.Rd | 20
man/tangleR.Rd | 8
man/weaveR.Rd | 42 +
man/weaveRhtml.Rd | 42 +
16 files changed, 1573 insertions(+), 337 deletions(-)
Author: Christian Ritz
Diff between nlrwr versions 1.0-5 dated 2009-01-07 and 1.0-6 dated 2009-03-25
Title: Nonlinear regression with R
Description: Datasets and functions for nonlinear regression. Support
software for the book "Nonlinear regression with R".
nlrwr-1.0-5/nlrwr/data/algae.rda |only
nlrwr-1.0-5/nlrwr/man/algae.Rd |only
nlrwr-1.0-6/nlrwr/CHANGES |only
nlrwr-1.0-6/nlrwr/DESCRIPTION | 30 +++++++++++++++++-------------
4 files changed, 17 insertions(+), 13 deletions(-)
Author: Ottar N. Bjornstad
Diff between ncf versions 1.1-2 dated 2009-02-18 and 1.1-3 dated 2009-03-25
Title: spatial nonparametric covariance functions
Description: R functions for analyzing spatial (cross-)covariance: the
nonparametric (cross-)covariance, the spline correlogram, the
nonparametric phase coherence function, and related.
DESCRIPTION | 8 +++++---
R/ncf.R | 4 ++--
changes | 2 ++
3 files changed, 9 insertions(+), 5 deletions(-)
Author: Christian Ritz
Diff between drc versions 1.6-0 dated 2009-03-24 and 1.6-1 dated 2009-03-25
Title: Analysis of dose-response curves
Description: Analysis of one or multiple curves with focus on
concentration-response, dose-response and time-response curves
used, for example in biology, environmental sciences, medicine,
pharmacology, toxicology.
drc-1.6-0/drc/CHANGES |only
drc-1.6-0/drc/R/plotraw.R |only
drc-1.6-0/drc/R/ssf.LL.R |only
drc-1.6-0/drc/man/plotraw.Rd |only
drc-1.6-1/drc/DESCRIPTION | 6
drc-1.6-1/drc/NAMESPACE | 2
drc-1.6-1/drc/NEWS |only
drc-1.6-1/drc/R/drm.R | 2
drc-1.6-1/drc/R/llogistic.R | 401 ++++++++++++++++++++++------------------
drc-1.6-1/drc/R/llogistic.ssf.R |only
drc-1.6-1/drc/R/multdrc.R |only
drc-1.6-1/drc/data/algae.rda |only
drc-1.6-1/drc/man/algae.Rd |only
drc-1.6-1/drc/man/drm.Rd | 1
drc-1.6-1/drc/man/plot.drc.Rd | 2
drc-1.6-1/drc/man/weibull1.Rd | 4
drc-1.6-1/drc/tests/test1.R | 3
17 files changed, 241 insertions(+), 180 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 0.0.5 dated 2009-01-12 and 0.0.6 dated 2009-03-25
DESCRIPTION | 14 +++++++++----- NEWS | 21 +++++++++++++++++++++ R/ifcookie.R | 11 ++++++++++- R/labkey.deleteRows.R | 7 +++---- R/labkey.executeSql.R | 14 +++++--------- R/labkey.insertRows.R | 6 +++--- R/labkey.selectRows.R | 16 +++++----------- R/labkey.updateRows.R | 6 +++--- R/makeDF.R | 8 ++++---- R/makeFilter.R | 28 +++++++++++++--------------- man/Rlabkey-package.Rd | 4 ++-- man/labkey.deleteRows.Rd | 7 +++---- man/labkey.executeSql.Rd | 21 ++++++++++++--------- man/labkey.insertRows.Rd | 8 ++++---- man/labkey.selectRows.Rd | 12 ++++++------ man/labkey.updateRows.Rd | 6 ++---- man/makeFilter.Rd | 31 ++++++++++++++++++++++--------- 17 files changed, 127 insertions(+), 93 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.
Diff between ISOcodes versions 0.2-1 dated 2009-03-17 and 0.2-3 dated 2009-03-25
DESCRIPTION | 8 ++++---- data/ISO_639_5.rda |only man/ISO_639.Rd | 31 +++++++++++++++++++++++++++---- 3 files changed, 31 insertions(+), 8 deletions(-)
Author: Andrew O. Finley
Diff between spBayes versions 0.1-1 dated 2009-03-03 and 0.1-2 dated 2009-03-24
Title: Univariate and Multivariate Spatial Modeling
Description: spBayes fits univariate and multivariate models with
Markov chain Monte Carlo (MCMC).
DESCRIPTION | 15 ++++++++++-----
R/spPredict.R | 10 +++++-----
inst/doc/spBayes-vignette.pdf |binary
src/adaptMetropGibbs.cpp | 4 ++--
4 files changed, 17 insertions(+), 12 deletions(-)
Author: Michael Hahsler, Christian Buchta and Kurt Hornik
Title: Infrastructure for seriation
Description: Infrastructure for seriation with an implementation of
several seriation/sequencing techniques to reorder matrices,
dissimilarity matrices, and dendrograms. Also contains some
visualizations techniques based on seriation.
Diff between seriation versions 0.1-6 dated 2008-09-29 and 1.0-0 dated 2009-03-24
DESCRIPTION | 29 +++++++++++++++++------------ R/dissplot.R | 39 ++++++++++++++++++++++++--------------- inst/doc/seriation.pdf |binary man/dissplot.Rd | 3 ++- man/seriate.Rd | 25 +++++-------------------- 5 files changed, 48 insertions(+), 48 deletions(-)
Author: Carsten F. Dormann and Bernd Gruber, with additional code from
Jochen Fruend, also based on C-code developed by Nils Bluethgen
and by Miguel Rodriguez-Girones.
Title: Visualising bipartite networks and calculating some ecological
indices.
Description: Bipartite provides functions to viualise webs and
calculate a series of indices commonly used to describe pattern
in ecological webs. It focusses on webs consisting of only two
trophic levels, e.g. pollination webs or predator-prey-webs.
Visualisation is important to get an idea of what we are
actually looking at, while the indices summarise different
aspects of the webs topology.
Diff between bipartite versions 0.85 dated 2009-03-11 and 0.90 dated 2009-03-24
bipartite-0.85/bipartite/R/compart.R |only bipartite-0.90/bipartite/.hg |only bipartite-0.90/bipartite/DESCRIPTION | 16 +++- bipartite-0.90/bipartite/R/compart.r |only bipartite-0.90/bipartite/R/networklevel.R | 6 - bipartite-0.90/bipartite/R/plotweb.R | 74 +++++++++++++++------- bipartite-0.90/bipartite/R/sortweb.r |only bipartite-0.90/bipartite/R/visweb.R | 21 ++++-- bipartite-0.90/bipartite/R/zzz.R | 5 + bipartite-0.90/bipartite/Wishlist.txt |only bipartite-0.90/bipartite/data/inouye1988.rda |only bipartite-0.90/bipartite/man/bipartite-package.Rd | 16 ++++ bipartite-0.90/bipartite/man/compart.Rd | 13 +-- bipartite-0.90/bipartite/man/inouye1988.Rd |only bipartite-0.90/bipartite/man/networklevel.Rd | 5 + bipartite-0.90/bipartite/man/sortweb.Rd |only bipartite-0.90/bipartite/man/vazquez.example.rd |only bipartite-0.90/bipartite/man/visweb.Rd | 26 ++++++- 18 files changed, 130 insertions(+), 52 deletions(-)
Author: Michael Hahsler, Christian Buchta, Bettina Gruen and Kurt
Hornik
Title: Mining Association Rules and Frequent Itemsets
Description: Provides the infrastructure for representing, manipulating
and analyzing transaction data and patterns (frequent itemsets
and association rules). Also provides interfaces to C
implementations of the association mining algorithms Apriori
and Eclat by C. Borgelt.
Diff between arules versions 0.6-8 dated 2009-01-16 and 1.0-0 dated 2009-03-24
arules-0.6-8/arules/COPYRIGHT |only arules-1.0-0/arules/DESCRIPTION | 32 arules-1.0-0/arules/R/itemCoding.R | 4 arules-1.0-0/arules/inst/doc/arules.Rnw | 4 arules-1.0-0/arules/inst/doc/arules.pdf | 1546 +++++++++++++++----------------- 5 files changed, 791 insertions(+), 795 deletions(-)
Author: Paulino Perez Rodriguez
Diff between ars versions 0.3 dated 2009-01-26 and 0.4 dated 2009-03-24
Title: Adaptive Rejection Sampling
Description: Adaptive Rejection Sampling, Original version
DESCRIPTION | 24 ++++++++++++++----------
R/ars.R | 4 ++--
2 files changed, 16 insertions(+), 12 deletions(-)
Author: Michael Hahsler and Kurt Hornik
Title: Traveling Salesperson Problem (TSP)
Description: Basic infrastructure and some algorithms for the traveling
salesperson problem (TSP). The package provides some simple
algorithms and an interface to Concorde, the currently fastest
TSP solver. Concorde itself is not included in the package and
has to be obtained separately.
Diff between TSP versions 0.2-6 dated 2009-02-07 and 1.0-0 dated 2009-03-24
TSP-0.2-6/TSP/COPYRIGHT |only TSP-1.0-0/TSP/DESCRIPTION | 20 TSP-1.0-0/TSP/inst/doc/TSP.pdf | 1049 ++++++++++++++++++++--------------------- 3 files changed, 530 insertions(+), 539 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 dated 2009-03-11 and 0.9-1 dated 2009-03-24
DESCRIPTION | 36 ++++++++++++++++++++++++------------ R/FrF2.R | 2 +- R/pb.R | 2 +- R/util.R | 6 +++--- inst/NEWS | 15 +++++++++++++++ man/CatalogueAccessors.Rd | 8 +++++--- man/FrF2.Rd | 4 ++++ man/utilitiesPB.Rd | 8 ++++++-- 8 files changed, 59 insertions(+), 22 deletions(-)
Author: Roger Bivand and Danlin Yu
Title: Geographically weighted regression
Description: Functions for computing geographically weighted
regressions based on work by Chris Brunsdon, Martin Charlton
and Stewart Fortheringham, http://ncg.nuim.ie/ncg/GWR/index.htm
Diff between spgwr versions 0.5-5 dated 2009-01-14 and 0.5-7 dated 2009-03-24
ChangeLog | 12 +++++++++++- DESCRIPTION | 15 ++++++++------- R/gwr.R | 8 ++++---- R/gwr.whole.test.R | 16 ++++++++-------- inst/ChangeLog | 12 +++++++++++- man/gwr.Rd | 2 +- 6 files changed, 43 insertions(+), 22 deletions(-)
Author: David B. Dahl
Diff between xtable versions 1.5-4 dated 2008-10-05 and 1.5-5 dated 2009-03-24
Title: Export tables to LaTeX or HTML
Description: Coerce data to LaTeX and HTML tables
DESCRIPTION | 9 +++++----
R/print.xtable.R | 5 +++--
R/xtable.R | 2 ++
inst/doc/xtableGallery.pdf |binary
man/print.xtable.Rd | 7 ++++---
man/xtable.Rd | 2 +-
6 files changed, 15 insertions(+), 10 deletions(-)
Author: Andrew Balemi, James Curran, Brant Deppa, Mike Forster,
Charlotte Maia, Chris Wild
Title: Stats 20x
Description: Stats 20x functions.
Diff between s20x versions 3.1-4 dated 2009-02-23 and 3.1-5 dated 2009-03-24
DESCRIPTION | 21 ++-- R/boxqq.r | 21 +++- R/crossFactors.R | 27 +++++- R/onewayPlot.R | 206 ++++++++++++++++++++++++++--------------------- R/stripqq.r | 83 ++++++++++-------- R/summary1way.R | 25 ++--- man/autocor.plot.Rd | 4 man/boxqq.Rd | 12 +- man/ciReg.Rd | 4 man/cooks20x.Rd | 4 man/crossFactors.Rd | 28 +++++- man/estimateContrasts.Rd | 6 - man/freq1way.Rd | 7 - man/interactionPlots.Rd | 7 - man/layout20x.Rd | 6 - man/multipleComp.Rd | 4 man/onewayPlot.Rd | 25 +++-- man/pairs20x.Rd | 5 - man/residPlot.Rd | 4 man/rowdistr.Rd | 7 - man/skewness.Rd | 4 man/stripqq.Rd | 12 +- man/summary2way.Rd | 2 man/trendscatter.Rd | 4 24 files changed, 308 insertions(+), 220 deletions(-)
Author: Graham Williams
Diff between rattle versions 2.4.47 dated 2009-03-16 and 2.4.54 dated 2009-03-24
Title: A graphical user interface for data mining in R using GTK
Description: Rattle (the R Analytic Tool To Learn Easily) provides a
Gnome (RGtk2) based interface to R functionality for data
mining. The aim is to provide a simple and intuitive interface
that allows a user to quickly load data from a CSV file (or via
ODBC), transform and explore the data, build and evaluate
models, and export models as PMML (predictive modelling markup
language) or as scores. All of this with knowing little about
R. All R commands are logged and commented through the log tab
and so available to the user as a script file or as an aide to
the user to interact directly with R itself. Rattle also
exports a number of utility functions and the graphical user
interface, invoked as rattle(), does not need to be run to
deploy these.
DESCRIPTION | 8
NAMESPACE | 1
R/ada.R | 6
R/associate.R | 21
R/ctree.R | 12
R/data.R | 170 +++----
R/evaluate.R | 104 ++--
R/export.R | 6
R/hclust.R | 15
R/kmeans.R | 22
R/model.R | 28 -
R/nnet.R | 6
R/projects.R | 159 +++---
R/random_forest.R | 8
R/rattle.R | 353 ++++++++-------
R/rpart.R | 12
R/textminer.R | 12
R/transform.R | 219 ++++-----
R/zzz.R | 64 +-
inst/etc/rattle.glade | 1076 +++++++++++++++++++++++-----------------------
inst/odt/data_summary.odt |binary
man/internal.Rd | 2
man/listVersions.Rd |only
23 files changed, 1183 insertions(+), 1121 deletions(-)
Author: Christian Ritz
Diff between drc versions 1.5-5 dated 2009-02-08 and 1.6-0 dated 2009-03-24
Title: Analysis of dose-response curves
Description: Analysis of one or multiple curves with focus on
concentration-response, dose-response and time-response curves
used, for example in biology, environmental sciences, medicine,
pharmacology, toxicology.
drc-1.5-5/drc/R/colFct.R |only
drc-1.5-5/drc/R/drmBoxcox.R |only
drc-1.5-5/drc/R/drmBoxcoxCI.R |only
drc-1.5-5/drc/R/mdControl.R |only
drc-1.5-5/drc/R/mdrcBinomial.R |only
drc-1.5-5/drc/R/mdrcBoxcoxCI.R |only
drc-1.5-5/drc/R/mdrcConvertParm.R |only
drc-1.5-5/drc/R/mdrcDeriv.R |only
drc-1.5-5/drc/R/mdrcHetVar.R |only
drc-1.5-5/drc/R/mdrcLs.R |only
drc-1.5-5/drc/R/mdrcOpt.R |only
drc-1.5-5/drc/R/mdrcParNames.R |only
drc-1.5-5/drc/R/mdrcRobust.R |only
drc-1.5-5/drc/R/mdrcScaleDose.R |only
drc-1.5-5/drc/R/mdrcSign.R |only
drc-1.5-5/drc/R/mdrcVp.R |only
drc-1.5-5/drc/R/multdrc.R |only
drc-1.5-5/drc/R/richards.R |only
drc-1.5-5/drc/man/colFct.Rd |only
drc-1.5-5/drc/man/mdControl.Rd |only
drc-1.5-5/drc/man/multdrc.Rd |only
drc-1.5-5/drc/man/richards.Rd |only
drc-1.6-0/drc/CHANGES |only
drc-1.6-0/drc/DESCRIPTION | 33
drc-1.6-0/drc/NAMESPACE | 6
drc-1.6-0/drc/R/CRS.6.R | 11
drc-1.6-0/drc/R/ED.drc.R | 47 -
drc-1.6-0/drc/R/MAX.R | 4
drc-1.6-0/drc/R/anova.drc.R | 254 +++---
drc-1.6-0/drc/R/anova.drclist.R | 117 ++-
drc-1.6-0/drc/R/boxcox.drc.R | 133 ++-
drc-1.6-0/drc/R/braincousens.R | 63 -
drc-1.6-0/drc/R/cedergreen.R | 53 -
drc-1.6-0/drc/R/drm.R | 1291 ++++++++++++++++++++---------------
drc-1.6-0/drc/R/drmConvertParm.R | 2
drc-1.6-0/drc/R/drmEMbinomial.r | 16
drc-1.6-0/drc/R/drmEMls.R | 15
drc-1.6-0/drc/R/drmOpt.R | 9
drc-1.6-0/drc/R/drmPoisson.R | 4
drc-1.6-0/drc/R/drmc.R | 9
drc-1.6-0/drc/R/genRetFct.R |only
drc-1.6-0/drc/R/gompertz.R | 10
drc-1.6-0/drc/R/hewlett.R | 67 +
drc-1.6-0/drc/R/llogistic.R | 191 +++--
drc-1.6-0/drc/R/llogistic2.R | 15
drc-1.6-0/drc/R/lnormal.R | 3
drc-1.6-0/drc/R/mixdrc.R | 20
drc-1.6-0/drc/R/mixture.R | 282 ++-----
drc-1.6-0/drc/R/modelFit.R |only
drc-1.6-0/drc/R/mrdrm.R | 86 +-
drc-1.6-0/drc/R/mselect.R | 38 -
drc-1.6-0/drc/R/plot.drc.R | 80 +-
drc-1.6-0/drc/R/predict.drc.R | 11
drc-1.6-0/drc/R/print.summary.drc.R | 13
drc-1.6-0/drc/R/searchdrc.R | 26
drc-1.6-0/drc/R/ssf.LL.R |only
drc-1.6-0/drc/R/ucedergreen.R | 22
drc-1.6-0/drc/R/voelund.R | 60 -
drc-1.6-0/drc/R/weibull1.R | 31
drc-1.6-0/drc/R/weibull2.R | 27
drc-1.6-0/drc/R/yieldLoss.R |only
drc-1.6-0/drc/man/BC.5.Rd | 50 -
drc-1.6-0/drc/man/CRS.4a.Rd | 28
drc-1.6-0/drc/man/CRS.5a.Rd | 2
drc-1.6-0/drc/man/ED.drc.Rd | 61 -
drc-1.6-0/drc/man/G.aparine.Rd | 14
drc-1.6-0/drc/man/H.virescens.Rd | 7
drc-1.6-0/drc/man/LL.2.Rd | 11
drc-1.6-0/drc/man/LL.3.Rd | 22
drc-1.6-0/drc/man/LL.4.Rd | 6
drc-1.6-0/drc/man/LL.5.Rd | 10
drc-1.6-0/drc/man/M.bahia.Rd | 10
drc-1.6-0/drc/man/MAX.Rd | 22
drc-1.6-0/drc/man/MM.Rd | 2
drc-1.6-0/drc/man/O.mykiss.Rd | 8
drc-1.6-0/drc/man/PR.Rd | 6
drc-1.6-0/drc/man/RScompetition.Rd | 3
drc-1.6-0/drc/man/S.alba.Rd | 9
drc-1.6-0/drc/man/S.capricornutum.Rd | 9
drc-1.6-0/drc/man/W2.Rd | 10
drc-1.6-0/drc/man/W3.Rd | 8
drc-1.6-0/drc/man/W4.Rd | 12
drc-1.6-0/drc/man/acidiq.Rd | 32
drc-1.6-0/drc/man/anova.drc.Rd | 28
drc-1.6-0/drc/man/auxins.Rd | 62 -
drc-1.6-0/drc/man/barley.Rd | 14
drc-1.6-0/drc/man/boxcox.drc.Rd | 11
drc-1.6-0/drc/man/braincousens.Rd | 38 -
drc-1.6-0/drc/man/bread.drc.Rd | 2
drc-1.6-0/drc/man/cedergreen.Rd | 58 -
drc-1.6-0/drc/man/coef.drc.Rd | 15
drc-1.6-0/drc/man/compParm.Rd | 2
drc-1.6-0/drc/man/comped.Rd | 10
drc-1.6-0/drc/man/confint.drc.Rd | 12
drc-1.6-0/drc/man/daphnids.Rd | 29
drc-1.6-0/drc/man/deguelin.Rd | 2
drc-1.6-0/drc/man/drm.Rd | 55 -
drc-1.6-0/drc/man/drmc.Rd | 6
drc-1.6-0/drc/man/earthworms.Rd | 19
drc-1.6-0/drc/man/fitted.drc.Rd | 6
drc-1.6-0/drc/man/glymet.Rd | 30
drc-1.6-0/drc/man/gompGrowth.Rd | 2
drc-1.6-0/drc/man/gompertzd.Rd | 12
drc-1.6-0/drc/man/isobole.Rd | 4
drc-1.6-0/drc/man/lepidium.Rd | 2
drc-1.6-0/drc/man/lettuce.Rd | 5
drc-1.6-0/drc/man/llogistic.Rd | 13
drc-1.6-0/drc/man/lnormal.Rd | 3
drc-1.6-0/drc/man/logLik.drc.Rd | 13
drc-1.6-0/drc/man/logistic.Rd | 22
drc-1.6-0/drc/man/mecter.Rd | 32
drc-1.6-0/drc/man/mixdrc.Rd | 29
drc-1.6-0/drc/man/mixture.Rd | 49 -
drc-1.6-0/drc/man/modelFit.Rd |only
drc-1.6-0/drc/man/mrdrm.Rd | 16
drc-1.6-0/drc/man/mselect.Rd | 34
drc-1.6-0/drc/man/nasturtium.Rd | 2
drc-1.6-0/drc/man/plot.drc.Rd | 20
drc-1.6-0/drc/man/plotraw.Rd | 3
drc-1.6-0/drc/man/print.drc.Rd | 9
drc-1.6-0/drc/man/residuals.drc.Rd | 9
drc-1.6-0/drc/man/secalonic.Rd | 15
drc-1.6-0/drc/man/summary.drc.Rd | 10
drc-1.6-0/drc/man/terbuthylazin.Rd | 4
drc-1.6-0/drc/man/vcov.drc.Rd | 13
drc-1.6-0/drc/man/vinclozolin.Rd | 2
drc-1.6-0/drc/man/weibull1.Rd | 38 -
drc-1.6-0/drc/man/yieldLoss.Rd |only
drc-1.6-0/drc/tests/test3.R | 8
129 files changed, 2261 insertions(+), 1898 deletions(-)
Author: Andy Bunn
Title: Dendrochronology Program Library in R
Description: This package contains functions for performing some
standard tree-ring analyses.
Diff between dplR versions 1.1.7 dated 2009-03-13 and 1.1.8 dated 2009-03-24
DESCRIPTION | 8 ++++---- R/read.rwl.R | 13 +++++++++---- R/write.rwl.R | 9 ++++----- 3 files changed, 17 insertions(+), 13 deletions(-)
Author: Charles J. Geyer
Diff between aster versions 0.7-6 dated 2009-01-12 and 0.7-7 dated 2009-03-24
Title: Aster Models
Description: functions and datasets for Aster modeling (forest graph
exponential family conditional or unconditional canonical
statistic models for life history analysis)
CHANGES | 1 +
DESCRIPTION | 12 +++++++-----
data/sim.rda |only
inst/doc/Rplots.pdf | 4 ++--
man/aster.Rd | 12 ++++++++++++
man/sim.Rd |only
6 files changed, 22 insertions(+), 7 deletions(-)
Author: D.J.J. Walvoort, D.J. Brus, and J.J. de Gruijter
Title: Spatial Coverage Sampling
Description: Spatial coverage sampling and random sampling from compact
geographical strata created by k-means.
Diff between spcosa versions 0.1-1 dated 2009-03-13 and 0.1-2 dated 2009-03-23
DESCRIPTION | 8 R/method_plot-SamplingPatternPriorPoints.R | 2 R/method_stratify-SpatialPixels.R | 3 inst/doc/spcosa.pdf | 1002 ++++++++++++++--------------- tests/unitTests/runit_stratify.R | 13 5 files changed, 523 insertions(+), 505 deletions(-)
Author: Jan de Leeuw, Patrick Mair
Title: Aspects of Multivariables
Description: This package consists of two main functions: The first
function is corAspect() performs optimal scaling by maximizing
an aspect (i.e. target function such as sum eigenvalues, sum of
squared correlations, squared multiple correlations, etc.) of
the corresponding correlation matrix. The second function is
lineals() which performs optimal scaling by mimimization a
non-correlational aspect based on pairwise correlations and
correlation ratios. The resulting correlation matrix and
category scores can be used for further multivariate methods
such as SEM. A platform including related PsychoR packages is
provided on R-forge.
Diff between aspect versions 0.8-0 dated 2009-03-14 and 0.8-1 dated 2009-03-23
DESCRIPTION | 28 ++++++++++++++-------------- data/wurzer.rda |only inst |only man/aspect-package.Rd | 4 ++-- man/wurzer.Rd |only 5 files changed, 16 insertions(+), 16 deletions(-)
Author: Stephen Milborrow
Title: Plot principal component histograms around a scatter plot.
Description: Plot principal component histograms around a bivariate
scatter plot.
Diff between plotpc versions 1.0-1 dated 2009-03-10 and 1.0-2 dated 2009-03-23
DESCRIPTION | 23 +++++++++++++---------- NEWS | 5 +++++ R/plotld.R | 5 ++++- man/plotld.Rd | 11 ++++++++--- man/plotpc.Rd | 21 ++++++++++++--------- tests/tests/test.plotpc.R | 3 ++- tests/tests/test.plotpc.Rout.save | 5 +++-- 7 files changed, 47 insertions(+), 26 deletions(-)
Author: Stephen Milborrow derived from mda:mars by Trevor Hastie and
Rob Tibshirani.
Title: Multivariate Adaptive Regression Spline Models
Description: Build regression models using the techniques in Friedman's
papers "Fast MARS" and "Multivariate Adaptive Regression
Splines". (The term "MARS" is copyrighted and thus not used in
the name of the package.)
Diff between earth versions 2.3-1 dated 2009-02-26 and 2.3-2 dated 2009-03-23
DESCRIPTION | 29 NEWS | 4 R/earth.R | 43 R/earthlib.R | 71 - R/plotd.R | 833 ++++++++--- man/earth.Rd | 44 man/format.earth.Rd | 10 man/mars.to.earth.Rd | 8 man/model.matrix.earth.Rd | 7 man/plot.earth.Rd | 5 man/plot.evimp.Rd | 2 man/plotd.Rd | 382 +++-- man/plotmo.Rd | 9 man/predict.earth.Rd | 7 man/print.evimp.Rd | 2 src/tests/test.earth.big.Rout.save | 416 ++--- src/tests/test.earth.cv.Rout.save | 2534 ++++++++++++++++++------------------ src/tests/test.earth.full.Rout.save | 1034 +++++++------- src/tests/test.earth.glm.R | 22 src/tests/test.earth.glm.Rout.save | 32 src/tests/test.plotd.R | 430 ++++-- src/tests/test.plotd.Rout.save | 770 +++++++--- 22 files changed, 3898 insertions(+), 2796 deletions(-)
More information about HadoopStreaming at CRAN
Permanent link
Author: Charlotte Maia
Title: Random Time Variable Objects
Description: An R package for conveniently representing and
manipulating realisations of random time variables.
Diff between rtv versions 0.2.0 dated 2009-03-19 and 0.2.2 dated 2009-03-23
rtv-0.2.0/rtv/inst/doc/rtv_userguide.pdf |only rtv-0.2.2/rtv/DESCRIPTION | 8 ++++---- rtv-0.2.2/rtv/R/crtv.r | 4 ++-- rtv-0.2.2/rtv/R/rtv.r | 17 ++++++++++++++++- rtv-0.2.2/rtv/R/timeplot.r | 12 ++++++++---- rtv-0.2.2/rtv/inst/doc/rtv.pdf |only rtv-0.2.2/rtv/inst/doc/rtv.rnw |only rtv-0.2.2/rtv/man/as.rtv.Rd | 6 ++++-- rtv-0.2.2/rtv/man/crtv.Rd | 5 +++-- rtv-0.2.2/rtv/man/timeaxis.Rd | 2 +- rtv-0.2.2/rtv/man/timebox.Rd | 2 +- 11 files changed, 39 insertions(+), 17 deletions(-)
Author: Thomas Lumley
Title: analysis of complex survey samples
Description: Summary statistics, generalised linear models, Cox models,
loglinear models, and general maximum pseudolikelihood
estimation for multistage stratified, cluster-sampled,
unequally weighted survey samples. Variances by Taylor series
linearisation or replicate weights. Post-stratification,
calibration, and raking. Two-phase designs. Graphics.
Diff between survey versions 3.11-2 dated 2009-02-24 and 3.12 dated 2009-03-22
DESCRIPTION | 16 ++++++++++++---- NAMESPACE | 11 ++++++++++- R/DBI.R | 3 ++- R/dbiupdate.R | 5 ++++- R/regtest.R | 6 +++++- R/surveyby.R | 19 +++++++++++++++++-- R/svyttest.R |only THANKS | 2 ++ inst/NEWS | 20 ++++++++++++++++++++ inst/doc/domain.pdf |binary inst/doc/epi.pdf |binary inst/doc/phase1.pdf |binary inst/doc/survey.pdf |binary man/surveysummary.Rd | 13 +++++++++++-- man/svyby.Rd | 13 ++++++++++--- man/svyciprop.Rd |only man/svycoxph.Rd | 10 ++++++---- man/svydesign.Rd | 8 +++++++- man/svyglm.Rd | 12 ++++++++---- man/svykm.Rd | 10 +++++----- man/svymle.Rd | 19 +++++++++++++------ man/svyquantile.Rd | 6 ++++-- man/svyratio.Rd | 2 +- man/svyrecvar.Rd | 4 ++++ man/svyttest.Rd |only man/twophase.Rd | 5 ++--- tests/twophase.R | 9 +++++---- tests/twophase.Rout.save | 28 ++++++++++++++++++---------- 28 files changed, 166 insertions(+), 55 deletions(-)
Author: Adelchi Azzalini
Diff between sn versions 0.4-11 dated 2009-01-30 and 0.4-12 dated 2009-03-22
Title: The skew-normal and skew-t distributions
Description: Functions for manipulating skew-normal and skew-t
probability distributions, and for fitting them to data, in the
scalar and in the multivariate case.
DESCRIPTION | 14 ++++++++------
R/sn.R | 6 +++---
man/sn.Rd | 3 ++-
3 files changed, 13 insertions(+), 10 deletions(-)
Author: Brian S. Yandell
Diff between qtlbim versions 1.9.2 dated 2009-02-28 and 1.9.3 dated 2009-03-22
Title: QTL Bayesian Interval Mapping
Description: Functions for model selection for genetic architecture.
DESCRIPTION | 20
R/close.R | 22
inst/doc/bpPDF/slide-15-6.pdf | 192
inst/doc/bpPDF/slide1hpd.pdf | 30
inst/doc/bpPDF/slide2LOD-1.pdf | 6
inst/doc/prototype.qtl.hyper.slides.pdf | 2221 -
inst/doc/qtlbim.pdf |binary
inst/doc/qtlbimPDF/FIG-QBBF.pdf | 78
inst/doc/qtlbimPDF/FIG-QBCODA.pdf | 32
inst/doc/qtlbimPDF/FIG-QBDIAG.pdf | 28
inst/doc/qtlbimPDF/FIG-QBEPI.pdf | 6204 ++---
inst/doc/qtlbimPDF/FIG-QBHPD.pdf | 30
inst/doc/qtlbimPDF/FIG-QBLOCI34.pdf | 7474 +++---
inst/doc/qtlbimPDF/FIG-Scanone-HyperLPD.pdf | 26
inst/doc/qtlbimPDF/FIG-Scanone-HyperSubset.pdf | 26
inst/doc/qtlbimPDF/FIG-Scantwo-HyperData.pdf | 12
inst/doc/qtlbimPDF/besthc.pdf | 24
inst/doc/qtlbimPDF/bestmds.pdf | 24
inst/doc/qtlbimPDF/closenqtl.pdf | 6
inst/doc/qtlbimPDF/closepat.pdf | 6
inst/doc/qtlbimPDF/mult.pdf |28810 ++++++++++++-------------
inst/doc/qtlbimPDF/multmerge.pdf |15182 ++++++-------
inst/doc/qtlbimPDF/one.pdf | 26
23 files changed, 30246 insertions(+), 30233 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 1.1 dated 2009-02-16 and 1.3 dated 2009-03-22
DESCRIPTION | 17 ++++++++++------- NEWS | 12 +++++++++++- R/nleqslv.R | 2 +- man/nleqslv.Rd | 2 +- src/lixtra.f | 42 ++++++++++++++++++++++-------------------- src/nleqslv.c | 32 +++++++++++++++++++++++--------- src/nwbrdn.f | 12 +++++++----- src/nwnleq.f | 36 +++++++++++++++++++++++++++++++----- src/nwnwtn.f | 22 +++++++++++++--------- 9 files changed, 119 insertions(+), 58 deletions(-)
Author: S original by Kenneth Hess,
Diff between muhaz versions 1.2.3 dated 2006-04-09 and 1.2.4 dated 2009-03-22
Title: Hazard Function Estimation in Survival Analysis
Description: A package for producing a smooth estimate of the hazard
function for censored data.
muhaz-1.2.3/muhaz/INDEX |only
muhaz-1.2.3/muhaz/R/zzz.R |only
muhaz-1.2.4/muhaz/DESCRIPTION | 18 +++++++++++-------
muhaz-1.2.4/muhaz/NAMESPACE |only
muhaz-1.2.4/muhaz/R/all.R | 2 +-
muhaz-1.2.4/muhaz/man/kphaz.plot.Rd | 2 +-
muhaz-1.2.4/muhaz/man/muhaz.Rd | 2 +-
muhaz-1.2.4/muhaz/man/pehaz.Rd | 2 +-
muhaz-1.2.4/muhaz/man/plot.muhaz.Rd | 18 +++++++++---------
muhaz-1.2.4/muhaz/man/plot.pehaz.Rd | 6 +++---
muhaz-1.2.4/muhaz/man/summary.muhaz.Rd | 6 +++---
11 files changed, 30 insertions(+), 26 deletions(-)
Author: Paul Gilbert
Diff between TSpadi versions 2008.11-1 dated 2008-11-03 and 2009.3-1 dated 2009-03-22
Title: Time Series Database Interface extensions for PADI Time Series
Server
Description: Provides methods for generics in the TSdbi package to
connect through a protocol for application database interface
(PADI) to a time series database (e.g. Fame).
DESCRIPTION | 22 ++++++++++++++--------
Makefile |only
NEWS | 5 +++++
R/padi.R | 6 +++---
Rbuildignore |only
exec/getpadi |only
exec/getpwuid |only
exec/objectinfo |only
exec/padi_simple_svc |only
exec/putpadi |only
exec/x11arima |only
inst/doc/TSpadiFame.Stex | 28 +++++++++++++++++++++-------
inst/doc/TSpadiFame.pdf |binary
src/Makefile | 5 ++++-
src/padiutil.c | 2 +-
src/putpadi.c | 2 +-
tests |only
17 files changed, 49 insertions(+), 21 deletions(-)
Author: Paul Gilbert
Diff between TSodbc versions 2008.11-1 dated 2008-11-03 and 2009.3-1 dated 2009-03-22
Title: Time Series Database Interface extensions for ODBC
Description: TSodbc provides a ODBC interface for TSdbi.
TSodbc-2008.11-1/TSodbc/Rplots.pdf |only
TSodbc-2009.3-1/TSodbc/DESCRIPTION | 13 +++++++-----
TSodbc-2009.3-1/TSodbc/Makefile |only
TSodbc-2009.3-1/TSodbc/NEWS |only
TSodbc-2009.3-1/TSodbc/R/TSdbiMethods.R | 12 +++++------
TSodbc-2009.3-1/TSodbc/Rbuildignore |only
TSodbc-2009.3-1/TSodbc/inst/doc/TSodbc.Stex | 29 +++++++++++++++++-----------
TSodbc-2009.3-1/TSodbc/inst/doc/TSodbc.pdf |binary
TSodbc-2009.3-1/TSodbc/tests |only
9 files changed, 32 insertions(+), 22 deletions(-)
Author: Paul Gilbert
Diff between TSfame versions 2008.11-1 dated 2008-11-03 and 2009.3-1 dated 2009-03-22
Title: Time Series Database Interface extensions for fame
Description: TSfame provides a fame interface for TSdbi.
TSfame-2008.11-1/TSfame/Rplots.pdf |only
TSfame-2008.11-1/TSfame/testFame.db |only
TSfame-2009.3-1/TSfame/DESCRIPTION | 11 +-
TSfame-2009.3-1/TSfame/Makefile |only
TSfame-2009.3-1/TSfame/NEWS |only
TSfame-2009.3-1/TSfame/R/TSdbiMethods.R | 16 +--
TSfame-2009.3-1/TSfame/Rbuildignore |only
TSfame-2009.3-1/TSfame/inst/doc/TSfame.Stex | 115 +++++++++++++++++++++++++++-
TSfame-2009.3-1/TSfame/inst/doc/TSfame.pdf |binary
TSfame-2009.3-1/TSfame/tests |only
10 files changed, 129 insertions(+), 13 deletions(-)
Author: Paul Gilbert
Diff between TSSQLite versions 2008.11-1 dated 2008-11-03 and 2009.3-1 dated 2009-03-22
Title: Time Series Database Interface extentions for SQLite
Description: TSSQLite provides a SQLite interface for TSdbi.
TSSQLite-2008.11-1/TSSQLite/Rplots.pdf |only
TSSQLite-2008.11-1/TSSQLite/ets |only
TSSQLite-2008.11-1/TSSQLite/test |only
TSSQLite-2009.3-1/TSSQLite/DESCRIPTION | 13 ++++++++-----
TSSQLite-2009.3-1/TSSQLite/Makefile |only
TSSQLite-2009.3-1/TSSQLite/NEWS |only
TSSQLite-2009.3-1/TSSQLite/R/TSdbiMethods.R | 10 +++++-----
TSSQLite-2009.3-1/TSSQLite/Rbuildignore |only
TSSQLite-2009.3-1/TSSQLite/inst/doc/TSSQLite.Stex | 7 +++++--
TSSQLite-2009.3-1/TSSQLite/inst/doc/TSSQLite.pdf |binary
TSSQLite-2009.3-1/TSSQLite/tests/0serviceCheck.R |only
TSSQLite-2009.3-1/TSSQLite/tests/RSQLite.R | 5 +++--
12 files changed, 21 insertions(+), 14 deletions(-)
Author: Paul Gilbert
Diff between TSPostgreSQL versions 2008.11-1 dated 2008-11-03 and 2009.3-1 dated 2009-03-22
Title: Time Series Database Interface extensions for PostgreSQL
Description: TSPostgreSQL provides a PostgreSQL interface for TSdbi.
TSPostgreSQL-2008.11-1/TSPostgreSQL/Rplots.pdf |only
TSPostgreSQL-2009.3-1/TSPostgreSQL/DESCRIPTION | 13 ++++++----
TSPostgreSQL-2009.3-1/TSPostgreSQL/Makefile |only
TSPostgreSQL-2009.3-1/TSPostgreSQL/NEWS |only
TSPostgreSQL-2009.3-1/TSPostgreSQL/R/TSdbiMethods.R | 10 +++----
TSPostgreSQL-2009.3-1/TSPostgreSQL/Rbuildignore |only
TSPostgreSQL-2009.3-1/TSPostgreSQL/inst/doc/TSPostgreSQL.Stex | 13 +++++++---
TSPostgreSQL-2009.3-1/TSPostgreSQL/inst/doc/TSPostgreSQL.pdf |binary
TSPostgreSQL-2009.3-1/TSPostgreSQL/tests |only
9 files changed, 23 insertions(+), 13 deletions(-)
Author: Paul Gilbert
Diff between TSMySQL versions 2008.11-1 dated 2008-11-03 and 2009.3-1 dated 2009-03-22
Title: Time Series Database Interface extensions for MySQL
Description: TSMySQL provides a MySQL interface for TSdbi.
TSMySQL-2008.11-1/TSMySQL/Rplots.pdf |only
TSMySQL-2009.3-1/TSMySQL/DESCRIPTION | 11 +++++++----
TSMySQL-2009.3-1/TSMySQL/Makefile |only
TSMySQL-2009.3-1/TSMySQL/NEWS |only
TSMySQL-2009.3-1/TSMySQL/R/TSdbiMethods.R | 10 +++++-----
TSMySQL-2009.3-1/TSMySQL/Rbuildignore |only
TSMySQL-2009.3-1/TSMySQL/inst/doc/TSMySQL.Stex | 12 +++++++++---
TSMySQL-2009.3-1/TSMySQL/inst/doc/TSMySQL.pdf |binary
TSMySQL-2009.3-1/TSMySQL/tests |only
9 files changed, 21 insertions(+), 12 deletions(-)
Author: Fortran code by Alan Genz, R code by Adelchi Azzalini
Title: The multivariate normal and t distributions
Description: This package provides functions for computing the density
and the distribution function of, and for generating random
vectors from the multivariate normal and multivariate t
distributions. It provides functions similar in scope to those
of the package 'mvtnorm', but with some differences; one of
these is that probabilities are computed via a non-Monte Carlo
method.
Diff between mnormt versions 1.3-2 dated 2009-01-30 and 1.3-3 dated 2009-03-21
DESCRIPTION | 27 +++++++++++++++------------ R/mnormt.R | 2 -- history.txt | 3 ++- 3 files changed, 17 insertions(+), 15 deletions(-)
Author: The Institute of Statistical Mathematics
Title: TIMe Series Analysis and Control package
Description: Time series analysis and control program package TIMSAC.
Diff between timsac versions 1.1.3 dated 2007-07-07 and 1.2.1 dated 2009-03-21
CONTENTS | 8 DESCRIPTION | 13 - INDEX | 24 +- NAMESPACE | 2 R/timsac.R | 482 ++++++++++++++++++++++++++++++++++++++++++++++++--- data/LaborData.R |only inst/doc/changes.txt | 23 ++ inst/doc/index.html | 302 +++++++++++++++---------------- man/LaborData.Rd |only man/baysea.Rd |only man/bispecData.Rd | 2 man/canarm.Rd | 121 ++++++------ man/canoca.Rd | 8 man/decomp.Rd | 17 - man/mfilter.Rd | 2 man/mulnos.Rd | 2 man/raspec.Rd | 2 man/wnoise.Rd | 2 src/arma.c | 6 src/auspec.c | 7 src/autarm.c | 6 src/autarmf.f | 4 src/autcor.c | 6 src/baysea.c |only src/bayseaf.f |only src/bispec.c | 6 src/bispecf.f | 2 src/blocar.c | 6 src/blomar.c | 8 src/bsubst.c | 6 src/bsubstf.f | 4 src/canarm.c | 7 src/canarmf.f | 20 +- src/canoca.c | 6 src/canocaf.f | 12 - src/comsub.f | 2 src/covgen.c | 6 src/decomp6.c | 7 src/exsar.c | 6 src/fftcor.c | 6 src/fpeaut.c | 6 src/fpec.c | 6 src/markov.c | 6 src/markovf.f | 2 src/mlocar.c | 6 src/mlomar.c | 6 src/mulbar.c | 6 src/mulcor.c | 6 src/mulfre.c | 5 src/mulmar.c | 6 src/mulnos.c | 6 src/mulrsp.c | 5 src/mulspe.c | 6 src/ngsmth.c | 6 src/nonst.c | 6 src/nonstf.f | 4 src/optdes.c | 6 src/optsim.c | 6 src/perars.c | 6 src/prdctr.c | 6 src/raspec.c | 6 src/sglfre.c | 6 src/simcon.c | 6 src/smooth.c | 6 src/spgrh.c |only src/spgrhf.f |only src/thirmo.c | 6 src/tvar.c | 6 src/tvspc.c | 8 src/tvvar.c | 6 src/unibar.c | 6 src/unimar.c | 6 src/wnoise.c | 6 src/xsarma.c | 6 74 files changed, 936 insertions(+), 393 deletions(-)
Author: Andrew Gelman
Diff between mi versions 0.04-4 dated 2009-03-11 and 0.04-5 dated 2009-03-21
Title: Missing Data Imputation and Model Checking
Description: Missing-data imputation and model checking
CHANGELOG | 5 ++++-
DESCRIPTION | 8 ++++----
R/mi.R | 4 ++--
3 files changed, 10 insertions(+), 7 deletions(-)
Author: Original S code by Richard A. Becker and Allan R. Wilks. R
version by Ray Brownrigg
Diff between maps versions 2.0-40 dated 2008-04-17 and 2.1-0 dated 2009-03-21
Title: Draw Geographical Maps
Description: Display of maps. Projection code and larger maps are in
separate packages (mapproj and mapdata).
DESCRIPTION | 18 ++++++++++--------
man/map.axes.Rd | 2 --
src/Makefile.win | 30 +++++++++++-------------------
src/README | 10 +++++-----
4 files changed, 26 insertions(+), 34 deletions(-)
Author: Original S code by Richard A. Becker and Allan R. Wilks. R
version by Ray Brownrigg
Diff between mapdata versions 2.0-23 dated 2007-10-14 and 2.1-0 dated 2009-03-21
Title: Extra Map Databases
Description: Supplement to maps package, providing the larger and/or
higher-resolution databases.
DESCRIPTION | 18
src/Makefile.win | 47
src/README | 10
src/nzHires.gon | 3641 +++++++++++++++++++++------------------------------
src/nzHires.gonstats | 2
src/nzHires.line | 251 +--
src/nzHires.name | 2597 ++++++++++++++----------------------
7 files changed, 2743 insertions(+), 3823 deletions(-)
Author: Tom Radivoyevitch
Title: Combinatorially Complex Equilibrium Model Selection
Description: Dissociation constants of quasi-equilibriums of enzymes
and protein-ligand binding equilibriums in general are
systematically scanned though possibilities of being infinity
and/or equal to others. The automatically generated space of
models is then fitted to data.
Diff between ccems versions 1.01 dated 2009-03-14 and 1.02 dated 2009-03-21
DESCRIPTION | 8 - R/ems.R | 6 - R/mkGrids.R | 23 ++-- R/mkKd2Kj.R | 4 R/mkModel.R | 7 - R/mkSpurs.R | 22 ++-- R/mkg.R | 13 +- R/simulateData.R | 213 +++++++++++++++++++++++----------------------- inst/doc/ccems.pdf |binary inst/doc/versionNotes.txt | 25 ++++- inst/papers/BMCsysBio08 |only inst/papers/RX/RX.r | 6 - inst/papers/TK1/TK1.r | 171 ++++++++++++++++++++++-------------- man/TK1.Rd | 111 +++++++++++++++++++++-- man/ccems-package.Rd | 2 man/ems.Rd | 8 - man/mkGrids.Rd | 6 - man/mkModel.Rd | 3 man/mkSpurs.Rd | 6 - man/mkg.Rd | 8 - 20 files changed, 399 insertions(+), 243 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 2.35-2 dated 2009-03-20 and 2.35-3 dated 2009-03-20
DESCRIPTION | 6 +++--- NAMESPACE | 1 + R/format.Surv.S | 8 +++++--- 3 files changed, 9 insertions(+), 6 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 2.34-1 dated 2008-04-02 and 2.35-2 dated 2009-03-20
survival-2.34-1/survival/Changelog |only survival-2.34-1/survival/Examples |only survival-2.34-1/survival/R/Surv.s |only survival-2.34-1/survival/R/agexact.fit.s |only survival-2.34-1/survival/R/agreg.fit.s |only survival-2.34-1/survival/R/anova.survreg.s |only survival-2.34-1/survival/R/anova.survreglist.s |only survival-2.34-1/survival/R/cluster.s |only survival-2.34-1/survival/R/cox.zph.s |only survival-2.34-1/survival/R/coxpenal.df.s |only survival-2.34-1/survival/R/coxpenal.fit.s |only survival-2.34-1/survival/R/coxph.control.s |only survival-2.34-1/survival/R/coxph.detail.s |only survival-2.34-1/survival/R/coxph.fit.s |only survival-2.34-1/survival/R/coxph.getdata.s |only survival-2.34-1/survival/R/coxph.s |only survival-2.34-1/survival/R/coxph.wtest.s |only survival-2.34-1/survival/R/date.POSIXdate.R |only survival-2.34-1/survival/R/date.R |only survival-2.34-1/survival/R/format.Surv.s |only survival-2.34-1/survival/R/frailty.brent.s |only survival-2.34-1/survival/R/frailty.controlaic.s |only survival-2.34-1/survival/R/frailty.controldf.s |only survival-2.34-1/survival/R/frailty.controlgam.s |only survival-2.34-1/survival/R/frailty.controlgauss.s |only survival-2.34-1/survival/R/frailty.gamma.s |only survival-2.34-1/survival/R/frailty.gammacon.s |only survival-2.34-1/survival/R/frailty.gaussian.s |only survival-2.34-1/survival/R/frailty.s |only survival-2.34-1/survival/R/frailty.t.s |only survival-2.34-1/survival/R/is.na.coxph.penalty.s |only survival-2.34-1/survival/R/is.ratetable.s |only survival-2.34-1/survival/R/labels.survreg.s |only survival-2.34-1/survival/R/lines.survfit.s |only survival-2.34-1/survival/R/match.ratetable.s |only survival-2.34-1/survival/R/model.frame.coxph.s |only survival-2.34-1/survival/R/model.frame.survreg.s |only survival-2.34-1/survival/R/model.newframe.s |only survival-2.34-1/survival/R/plot.cox.zph.s |only survival-2.34-1/survival/R/plot.survfit.s |only survival-2.34-1/survival/R/points.survfit.s |only survival-2.34-1/survival/R/predict.coxph.penal.s |only survival-2.34-1/survival/R/predict.coxph.s |only survival-2.34-1/survival/R/predict.survreg.penal.s |only survival-2.34-1/survival/R/predict.survreg.s |only survival-2.34-1/survival/R/print.cox.zph.s |only survival-2.34-1/survival/R/print.coxph.null.s |only survival-2.34-1/survival/R/print.coxph.penal.s |only survival-2.34-1/survival/R/print.coxph.s |only survival-2.34-1/survival/R/print.summary.survfit.s |only survival-2.34-1/survival/R/print.summary.survreg.s |only survival-2.34-1/survival/R/print.survdiff.s |only survival-2.34-1/survival/R/print.survexp.s |only survival-2.34-1/survival/R/print.survfit.s |only survival-2.34-1/survival/R/print.survreg.penal.s |only survival-2.34-1/survival/R/print.survreg.s |only survival-2.34-1/survival/R/pspline.s |only survival-2.34-1/survival/R/pyears.s |only survival-2.34-1/survival/R/ratetable.s |only survival-2.34-1/survival/R/residuals.coxph.null.s |only survival-2.34-1/survival/R/residuals.coxph.penal.s |only survival-2.34-1/survival/R/residuals.coxph.s |only survival-2.34-1/survival/R/residuals.survreg.penal.s |only survival-2.34-1/survival/R/residuals.survreg.s |only survival-2.34-1/survival/R/ridge.s |only survival-2.34-1/survival/R/strata.s |only survival-2.34-1/survival/R/summary.coxph.penal.s |only survival-2.34-1/survival/R/summary.coxph.s |only survival-2.34-1/survival/R/summary.ratetable.s |only survival-2.34-1/survival/R/summary.survfit.s |only survival-2.34-1/survival/R/summary.survreg.s |only survival-2.34-1/survival/R/survdiff.fit.s |only survival-2.34-1/survival/R/survdiff.s |only survival-2.34-1/survival/R/survexp.cfit.s |only survival-2.34-1/survival/R/survexp.fit.s |only survival-2.34-1/survival/R/survexp.s |only survival-2.34-1/survival/R/survfit.coxph.null.s |only survival-2.34-1/survival/R/survfit.coxph.s |only survival-2.34-1/survival/R/survfit.km.s |only survival-2.34-1/survival/R/survfit.s |only survival-2.34-1/survival/R/survobrien.s |only survival-2.34-1/survival/R/survpenal.fit.s |only survival-2.34-1/survival/R/survreg.control.s |only survival-2.34-1/survival/R/survreg.distributions.s |only survival-2.34-1/survival/R/survreg.fit.s |only survival-2.34-1/survival/R/survreg.old.s |only survival-2.34-1/survival/R/survreg.s |only survival-2.34-1/survival/R/tcut.s |only survival-2.34-1/survival/R/untangle.specials.s |only survival-2.34-1/survival/Rchangelog |only survival-2.34-1/survival/Readme.SPLUS |only survival-2.34-1/survival/data/aml.rda |only survival-2.34-1/survival/data/ratetables.rda |only survival-2.34-1/survival/inst |only survival-2.34-1/survival/man/as.date.Rd |only survival-2.34-1/survival/man/date.ddmmmyy.Rd |only survival-2.34-1/survival/man/date.mdy.Rd |only survival-2.34-1/survival/man/date.mmddyy.Rd |only survival-2.34-1/survival/man/date.mmddyyyy.Rd |only survival-2.34-1/survival/man/date.object.Rd |only survival-2.34-1/survival/man/mdy.date.Rd |only survival-2.34-1/survival/man/survreg.old.Rd |only survival-2.34-1/survival/src/agfit2.c |only survival-2.34-1/survival/src/agfit_null.c |only survival-2.34-1/survival/src/char_date.c |only survival-2.34-1/survival/src/init.c |only survival-2.34-1/survival/src/surv_callback.c |only survival-2.34-1/survival/src/survfit2.c |only survival-2.34-1/survival/src/survfit3.c |only survival-2.34-1/survival/src/survindex2.c |only survival-2.34-1/survival/src/survindex3.c |only survival-2.34-1/survival/src/survreg2.c |only survival-2.34-1/survival/src/survreg3.c |only survival-2.34-1/survival/src/survreg4.c |only survival-2.34-1/survival/src/survreg5.c |only survival-2.35-2/survival/Changelog.09 |only survival-2.35-2/survival/DESCRIPTION | 19 survival-2.35-2/survival/INDEX | 10 survival-2.35-2/survival/NAMESPACE | 102 ++-- survival-2.35-2/survival/R/Surv.S |only survival-2.35-2/survival/R/aareg.S |only survival-2.35-2/survival/R/aareg.taper.S |only survival-2.35-2/survival/R/agexact.fit.S |only survival-2.35-2/survival/R/agreg.fit.S |only survival-2.35-2/survival/R/anova.coxph.S |only survival-2.35-2/survival/R/anova.coxphlist.S |only survival-2.35-2/survival/R/anova.survreg.S |only survival-2.35-2/survival/R/anova.survreglist.S |only survival-2.35-2/survival/R/attrassign.R | 29 - survival-2.35-2/survival/R/basehaz.S |only survival-2.35-2/survival/R/cch.R | 4 survival-2.35-2/survival/R/cluster.S |only survival-2.35-2/survival/R/cox.zph.S |only survival-2.35-2/survival/R/coxpenal.df.S |only survival-2.35-2/survival/R/coxpenal.fit.R |only survival-2.35-2/survival/R/coxph.S |only survival-2.35-2/survival/R/coxph.control.S |only survival-2.35-2/survival/R/coxph.detail.S |only survival-2.35-2/survival/R/coxph.fit.S |only survival-2.35-2/survival/R/coxph.getdata.S |only survival-2.35-2/survival/R/coxph.rvar.S |only survival-2.35-2/survival/R/coxph.wtest.S |only survival-2.35-2/survival/R/dsurvreg.S |only survival-2.35-2/survival/R/format.Surv.S |only survival-2.35-2/survival/R/frailty.S |only survival-2.35-2/survival/R/frailty.brent.S |only survival-2.35-2/survival/R/frailty.controlaic.S |only survival-2.35-2/survival/R/frailty.controldf.S |only survival-2.35-2/survival/R/frailty.controlgam.S |only survival-2.35-2/survival/R/frailty.controlgauss.S |only survival-2.35-2/survival/R/frailty.gamma.S |only survival-2.35-2/survival/R/frailty.gammacon.S |only survival-2.35-2/survival/R/frailty.gaussian.S |only survival-2.35-2/survival/R/frailty.t.S |only survival-2.35-2/survival/R/is.na.coxph.penalty.S |only survival-2.35-2/survival/R/is.ratetable.S |only survival-2.35-2/survival/R/labels.survreg.S |only survival-2.35-2/survival/R/lines.aareg.S |only survival-2.35-2/survival/R/lines.survfit.S |only survival-2.35-2/survival/R/lines.survfit.coxph.S |only survival-2.35-2/survival/R/match.ratetable.S |only survival-2.35-2/survival/R/model.frame.coxph.S |only survival-2.35-2/survival/R/model.frame.survreg.S |only survival-2.35-2/survival/R/model.newframe.S |only survival-2.35-2/survival/R/plot.aareg.S |only survival-2.35-2/survival/R/plot.cox.zph.S |only survival-2.35-2/survival/R/plot.survfit.S |only survival-2.35-2/survival/R/points.survfit.S |only survival-2.35-2/survival/R/predict.coxph.S |only survival-2.35-2/survival/R/predict.coxph.penal.S |only survival-2.35-2/survival/R/predict.survreg.S |only survival-2.35-2/survival/R/predict.survreg.penal.S |only survival-2.35-2/survival/R/print.aareg.S |only survival-2.35-2/survival/R/print.cox.zph.S |only survival-2.35-2/survival/R/print.coxph.S |only survival-2.35-2/survival/R/print.coxph.null.S |only survival-2.35-2/survival/R/print.coxph.penal.S |only survival-2.35-2/survival/R/print.ratetable.S |only survival-2.35-2/survival/R/print.summary.coxph.S |only survival-2.35-2/survival/R/print.summary.survfit.S |only survival-2.35-2/survival/R/print.summary.survreg.S |only survival-2.35-2/survival/R/print.survdiff.S |only survival-2.35-2/survival/R/print.survexp.S |only survival-2.35-2/survival/R/print.survfit.S |only survival-2.35-2/survival/R/print.survreg.S |only survival-2.35-2/survival/R/print.survreg.penal.S |only survival-2.35-2/survival/R/pspline.S |only survival-2.35-2/survival/R/pyears.S |only survival-2.35-2/survival/R/ratetable.S |only survival-2.35-2/survival/R/ratetableDate.S |only survival-2.35-2/survival/R/residuals.coxph.S |only survival-2.35-2/survival/R/residuals.coxph.null.S |only survival-2.35-2/survival/R/residuals.coxph.penal.S |only survival-2.35-2/survival/R/residuals.survreg.S |only survival-2.35-2/survival/R/residuals.survreg.penal.S |only survival-2.35-2/survival/R/ridge.S |only survival-2.35-2/survival/R/strata.S |only survival-2.35-2/survival/R/summary.aareg.S |only survival-2.35-2/survival/R/summary.coxph.S |only survival-2.35-2/survival/R/summary.coxph.penal.S |only survival-2.35-2/survival/R/summary.pyears.S |only survival-2.35-2/survival/R/summary.ratetable.S |only survival-2.35-2/survival/R/summary.survfit.S |only survival-2.35-2/survival/R/summary.survreg.S |only survival-2.35-2/survival/R/survConcordance.S |only survival-2.35-2/survival/R/survcallback.S |only survival-2.35-2/survival/R/survdiff.S |only survival-2.35-2/survival/R/survdiff.fit.S |only survival-2.35-2/survival/R/survexp.S |only survival-2.35-2/survival/R/survexp.cfit.S |only survival-2.35-2/survival/R/survexp.fit.S |only survival-2.35-2/survival/R/survfit.S |only survival-2.35-2/survival/R/survfit.coxph.S |only survival-2.35-2/survival/R/survfit.coxph.null.S |only survival-2.35-2/survival/R/survfit.formula.S |only survival-2.35-2/survival/R/survfitCI.S |only survival-2.35-2/survival/R/survfitKM.S |only survival-2.35-2/survival/R/survfitTurnbull.S |only survival-2.35-2/survival/R/survobrien.S |only survival-2.35-2/survival/R/survpenal.fit.S |only survival-2.35-2/survival/R/survreg.S |only survival-2.35-2/survival/R/survreg.control.S |only survival-2.35-2/survival/R/survreg.distributions.S |only survival-2.35-2/survival/R/survreg.fit.S |only survival-2.35-2/survival/R/survreg.old.S |only survival-2.35-2/survival/R/survregDtest.S |only survival-2.35-2/survival/R/tcut.S |only survival-2.35-2/survival/R/untangle.specials.S |only survival-2.35-2/survival/R/xtras.R | 113 ---- survival-2.35-2/survival/data/bladder.rda |binary survival-2.35-2/survival/data/cgd.rda |only survival-2.35-2/survival/data/heart.rda |binary survival-2.35-2/survival/data/leukemia.dat |only survival-2.35-2/survival/data/leukemia.rda |binary survival-2.35-2/survival/data/mgus.rda |only survival-2.35-2/survival/data/minn2000.dat |only survival-2.35-2/survival/data/minn2004.dat |only survival-2.35-2/survival/data/minndecennial.dat |only survival-2.35-2/survival/data/minnpred.dat |only survival-2.35-2/survival/data/pbc.rda |binary survival-2.35-2/survival/data/pbcseq.dat |only survival-2.35-2/survival/data/survexp.mn.R |only survival-2.35-2/survival/data/survexp.us.R |only survival-2.35-2/survival/data/us1996.dat |only survival-2.35-2/survival/data/us1997.dat |only survival-2.35-2/survival/data/us1998.dat |only survival-2.35-2/survival/data/us1999.dat |only survival-2.35-2/survival/data/us2000.dat |only survival-2.35-2/survival/data/us2001.dat |only survival-2.35-2/survival/data/us2002.dat |only survival-2.35-2/survival/data/us2003.dat |only survival-2.35-2/survival/data/us2004.dat |only survival-2.35-2/survival/data/usdecennial.dat |only survival-2.35-2/survival/data/usinfant.dat |only survival-2.35-2/survival/man/Surv.Rd | 114 ++-- survival-2.35-2/survival/man/aareg.Rd |only survival-2.35-2/survival/man/aml.Rd | 5 survival-2.35-2/survival/man/anova.coxph.Rd | 7 survival-2.35-2/survival/man/attrassign.Rd | 37 + survival-2.35-2/survival/man/basehaz.Rd |only survival-2.35-2/survival/man/bladder.Rd | 41 + survival-2.35-2/survival/man/cch.Rd | 2 survival-2.35-2/survival/man/cgd.Rd |only survival-2.35-2/survival/man/clogit.Rd | 2 survival-2.35-2/survival/man/cluster.Rd | 46 - survival-2.35-2/survival/man/colon.Rd | 4 survival-2.35-2/survival/man/cox.zph.Rd | 97 ++- survival-2.35-2/survival/man/coxph.Rd | 284 ++++++----- survival-2.35-2/survival/man/coxph.control.Rd |only survival-2.35-2/survival/man/coxph.detail.Rd | 99 ++-- survival-2.35-2/survival/man/coxph.object.Rd | 82 +-- survival-2.35-2/survival/man/dsurvreg.Rd |only survival-2.35-2/survival/man/frailty.Rd | 161 ++++-- survival-2.35-2/survival/man/is.ratetable.Rd | 34 - survival-2.35-2/survival/man/kidney.Rd | 12 survival-2.35-2/survival/man/lines.survfit.Rd | 108 ++-- survival-2.35-2/survival/man/lung.Rd | 13 survival-2.35-2/survival/man/mgus.Rd |only survival-2.35-2/survival/man/pbc.Rd | 59 +- survival-2.35-2/survival/man/pbcseq.Rd |only survival-2.35-2/survival/man/plot.aareg.Rd |only survival-2.35-2/survival/man/plot.cox.zph.Rd | 61 +- survival-2.35-2/survival/man/plot.survfit.Rd | 264 +++++----- survival-2.35-2/survival/man/predict.coxph.Rd | 65 +- survival-2.35-2/survival/man/predict.survreg.Rd | 73 +-- survival-2.35-2/survival/man/print.aareg.Rd |only survival-2.35-2/survival/man/print.summary.coxph.Rd |only survival-2.35-2/survival/man/print.summary.survfit.Rd |only survival-2.35-2/survival/man/print.survfit.Rd | 120 ++-- survival-2.35-2/survival/man/pspline.Rd | 67 ++ survival-2.35-2/survival/man/pyears.Rd | 268 ++++++----- survival-2.35-2/survival/man/ratetable.Rd | 13 survival-2.35-2/survival/man/rats.Rd | 2 survival-2.35-2/survival/man/ridge.Rd | 1 survival-2.35-2/survival/man/strata.Rd | 41 - survival-2.35-2/survival/man/summary.aareg.Rd |only survival-2.35-2/survival/man/summary.coxph.Rd |only survival-2.35-2/survival/man/summary.survfit.Rd | 144 +++-- survival-2.35-2/survival/man/survConcordance.Rd |only survival-2.35-2/survival/man/survexp.Rd | 208 ++++---- survival-2.35-2/survival/man/survexp.fit.Rd | 79 +-- survival-2.35-2/survival/man/survexp.us.Rd | 1 survival-2.35-2/survival/man/survfit.Rd | 438 ++++++++++-------- survival-2.35-2/survival/man/survfit.coxph.Rd |only survival-2.35-2/survival/man/survfit.object.Rd | 106 ++-- survival-2.35-2/survival/man/survival-internal.Rd | 7 survival-2.35-2/survival/man/survobrien.Rd | 62 +- survival-2.35-2/survival/man/survreg.Rd | 103 ++-- survival-2.35-2/survival/man/survreg.control.Rd | 16 survival-2.35-2/survival/man/survreg.distributions.Rd | 102 ++-- survival-2.35-2/survival/man/survregDtest.Rd |only survival-2.35-2/survival/man/tcut.Rd | 7 survival-2.35-2/survival/src/agexact.c | 18 survival-2.35-2/survival/src/agfit3.c | 48 + survival-2.35-2/survival/src/agfit5.c | 99 ++-- survival-2.35-2/survival/src/agmart.c | 6 survival-2.35-2/survival/src/agmart2.c | 8 survival-2.35-2/survival/src/agscore.c | 10 survival-2.35-2/survival/src/agsurv1.c | 12 survival-2.35-2/survival/src/agsurv2.c | 52 +- survival-2.35-2/survival/src/agsurv3.c | 36 - survival-2.35-2/survival/src/chinv2.c | 3 survival-2.35-2/survival/src/chinv3.c | 2 survival-2.35-2/survival/src/cholesky2.c | 3 survival-2.35-2/survival/src/cholesky3.c | 2 survival-2.35-2/survival/src/chsolve2.c | 3 survival-2.35-2/survival/src/chsolve3.c | 2 survival-2.35-2/survival/src/cox_Rcallback.c | 2 survival-2.35-2/survival/src/coxdetail.c | 40 + survival-2.35-2/survival/src/coxfit2.c | 26 - survival-2.35-2/survival/src/coxfit5.c | 73 +-- survival-2.35-2/survival/src/coxmart.c | 9 survival-2.35-2/survival/src/coxph_wtest.c | 4 survival-2.35-2/survival/src/coxscho.c | 9 survival-2.35-2/survival/src/coxscore.c | 11 survival-2.35-2/survival/src/dmatrix.c | 4 survival-2.35-2/survival/src/doloop.c | 3 survival-2.35-2/survival/src/pyears1.c | 50 +- survival-2.35-2/survival/src/pyears2.c | 44 + survival-2.35-2/survival/src/pyears3.c | 33 - survival-2.35-2/survival/src/pystep.c | 11 survival-2.35-2/survival/src/survConcordance.c |only survival-2.35-2/survival/src/survS.h | 78 ++- survival-2.35-2/survival/src/survdiff2.c | 8 survival-2.35-2/survival/src/survfit4.c |only survival-2.35-2/survival/src/survpenal.c |only survival-2.35-2/survival/src/survproto.h | 359 ++++++-------- survival-2.35-2/survival/src/survreg6.c |only survival-2.35-2/survival/src/survreg7.c |only survival-2.35-2/survival/src/survregc1.c |only survival-2.35-2/survival/src/survregc2.c |only survival-2.35-2/survival/tests |only 352 files changed, 2688 insertions(+), 2112 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 dated 2009-02-16 and 1.0-1 dated 2009-03-20
DESCRIPTION | 12 ++++++++---- R/vowels.R | 2 +- man/vowels-package.Rd | 4 ++-- 3 files changed, 11 insertions(+), 7 deletions(-)
Author: Tomas Johannesson & Halldor Bjornsson, Icelandic Met. Office;
Gabor Grothendieck
Title: Stineman, a consistently well behaved method of interpolation
Description: A consistently well behaved method of interpolation based
on piecewise rational functions using Stineman's algorithm
Diff between stinepack versions 1.2 dated 2008-08-21 and 1.3 dated 2009-03-20
DESCRIPTION | 12 ++++++++---- R/parabolaSlopes.R | 4 +++- 2 files changed, 11 insertions(+), 5 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 1.0-12 dated 2008-10-30 and 1.2-0 dated 2009-03-20
rscproxy-1.0-12/rscproxy/inst/include/bdx_com.h |only rscproxy-1.0-12/rscproxy/src/bdx_com.c |only rscproxy-1.2-0/rscproxy/DESCRIPTION | 25 +++--- rscproxy-1.2-0/rscproxy/NAMESPACE | 2 rscproxy-1.2-0/rscproxy/R/convert.R | 26 +++++- rscproxy-1.2-0/rscproxy/R/rscproxy-internal.R | 3 rscproxy-1.2-0/rscproxy/inst/include/SC_proxy.h | 23 ++--- rscproxy-1.2-0/rscproxy/inst/include/SC_system.h | 23 ++--- rscproxy-1.2-0/rscproxy/inst/include/bdx.h | 39 +++++---- rscproxy-1.2-0/rscproxy/inst/include/bdx_SEXP.h | 26 ++---- rscproxy-1.2-0/rscproxy/inst/include/bdx_util.h | 26 ++---- rscproxy-1.2-0/rscproxy/inst/include/com_util.h | 25 ++---- rscproxy-1.2-0/rscproxy/inst/include/rproxy.h | 23 ++--- rscproxy-1.2-0/rscproxy/man/as.data.frame.rcomdata.Rd |only rscproxy-1.2-0/rscproxy/src/Makevars | 6 - rscproxy-1.2-0/rscproxy/src/Makevars.win | 6 - rscproxy-1.2-0/rscproxy/src/bdx_SEXP.c | 74 +++++++++++------- rscproxy-1.2-0/rscproxy/src/bdx_util.c | 28 +++--- rscproxy-1.2-0/rscproxy/src/com_util.c | 25 ++---- rscproxy-1.2-0/rscproxy/src/rproxy.c | 36 +++----- rscproxy-1.2-0/rscproxy/src/rproxy_dev.c | 23 ++--- rscproxy-1.2-0/rscproxy/src/rproxy_impl.c | 34 +++++--- rscproxy-1.2-0/rscproxy/src/rproxy_impl.h | 23 ++--- 23 files changed, 260 insertions(+), 236 deletions(-)
Author: Christian Kleiber, Achim Zeileis
Title: Applied Econometrics with R
Description: Functions, data sets, examples, demos, and vignettes for
the book Christian Kleiber and Achim Zeileis (2008), Applied
Econometrics with R, Springer-Verlag, New York. ISBN
978-0-387-77316-2. (See the vignette for a package overview.)
Diff between AER versions 1.1-1 dated 2009-03-08 and 1.1-2 dated 2009-03-19
DESCRIPTION | 25 ++++++++++++++----------- NEWS | 18 ++++++++++++++++++ R/tobit.R | 6 ++++-- data/Parade2005.rda |binary inst/doc/AER.Rnw | 20 +++++++++++++------- inst/doc/AER.pdf |binary inst/doc/Sweave-journals.pdf | 10 +++++----- inst/doc/aer.bib | 8 ++++++++ man/CigarettesSW.Rd | 11 +++++++---- man/SIC33.Rd | 1 + man/StockWatson2007.Rd | 34 +++++++++++++++++----------------- 11 files changed, 87 insertions(+), 46 deletions(-)
Author: Owen Jones, Robert Maillardet, Andrew Robinson, Olga Borovkova,
and Steven Carnie
Title: Functions and Datasets for "An Introduction to Scientific
Programming and Simulation, Using R".
Description: This package provides functions and datasets from the book
"An Introduction to Scientific Programming and Simulation,
Using R".
Diff between spuRs versions 1.0.1 dated 2009-03-15 and 1.0.2 dated 2009-03-19
spuRs-1.0.1/spuRs/resources |only spuRs-1.0.2/spuRs/DESCRIPTION | 8 ++++---- spuRs-1.0.2/spuRs/inst |only 3 files changed, 4 insertions(+), 4 deletions(-)
Author: Jim Lemon,Ben Bolker,Sander Oom, Eduardo Klein,Barry
Rowlingson, Hadley Wickham,Anupam Tyagi, Olivier
Eterradossi,Gabor Grothendieck, Michael Toews,John Kane,Mike
Cheetham, Rolf Turner,Carl Witthoft,Julian Stander, Thomas
Petzoldt,Remko Duursma,Elisa Biancotto, Ofir Levy
Title: Various plotting functions
Description: Lots of plots, various labeling, axis and color scaling
functions.
Diff between plotrix versions 2.5-3 dated 2009-03-16 and 2.5-4 dated 2009-03-19
DESCRIPTION | 6 +++--- R/dotplot.mtb.R | 1 - demo/plotrix.R | 2 -- man/dotplot.mtb.Rd | 2 +- 4 files changed, 4 insertions(+), 7 deletions(-)
Author: Reinhard Harter, Kurt Hornik and Stefan Theussl
Title: Symphony in R
Description: An R interface to the SYMPHONY MILP solver (version
5.1.10).
Diff between Rsymphony versions 0.1-7 dated 2009-02-06 and 0.1-8 dated 2009-03-19
DESCRIPTION | 13 ++++++++----- configure | 13 ++++++++++--- src/Makevars.in | 5 ++++- 3 files changed, 22 insertions(+), 9 deletions(-)
Author: Charlotte Maia
Title: Random Time Variable Objects
Description: An R package for conveniently representing and
manipulating realisations of random time variables.
Diff between rtv versions 0.1.0 dated 2009-02-08 and 0.2.0 dated 2009-03-19
rtv-0.1.0/rtv/inst/doc/rtv-main-reference.pdf |only rtv-0.1.0/rtv/man/unit.string.Rd |only rtv-0.2.0/rtv/DESCRIPTION | 13 ++-- rtv-0.2.0/rtv/NAMESPACE | 71 ++++++++++++++++---------- rtv-0.2.0/rtv/R/calendar.r | 2 rtv-0.2.0/rtv/R/crtv.r | 20 +++++-- rtv-0.2.0/rtv/R/drtv.r | 6 +- rtv-0.2.0/rtv/R/format.r | 25 ++++----- rtv-0.2.0/rtv/R/options.r | 13 ++-- rtv-0.2.0/rtv/R/rtv.cp.r |only rtv-0.2.0/rtv/R/rtv.r | 14 ++--- rtv-0.2.0/rtv/R/time.aggregate.r |only rtv-0.2.0/rtv/R/time.frame.r |only rtv-0.2.0/rtv/R/timeplot.r |only rtv-0.2.0/rtv/inst/doc/rtv_userguide.pdf |only rtv-0.2.0/rtv/man/as.rtv.Rd | 18 ++---- rtv-0.2.0/rtv/man/calendar.Rd | 24 ++++---- rtv-0.2.0/rtv/man/crtv.Rd | 23 ++++---- rtv-0.2.0/rtv/man/drtv.Rd | 13 ++-- rtv-0.2.0/rtv/man/format.rtv.Rd | 15 +---- rtv-0.2.0/rtv/man/is.rtv.Rd | 8 +- rtv-0.2.0/rtv/man/round.rtv.Rd | 2 rtv-0.2.0/rtv/man/rtv.Rd | 52 +++++++++++++++++-- rtv-0.2.0/rtv/man/rtv.cp.Rd |only rtv-0.2.0/rtv/man/rtv.incr.Rd |only rtv-0.2.0/rtv/man/rtv.reset.Rd |only rtv-0.2.0/rtv/man/time.aggregate.Rd |only rtv-0.2.0/rtv/man/time.frame.Rd |only rtv-0.2.0/rtv/man/timeaxis.Rd | 9 +-- rtv-0.2.0/rtv/man/timebox.Rd |only rtv-0.2.0/rtv/man/timeplot.Rd |only rtv-0.2.0/rtv/man/timeplot.multicycle.Rd |only rtv-0.2.0/rtv/man/timeseq.Rd | 14 ++--- rtv-0.2.0/rtv/man/timestring.Rd |only rtv-0.2.0/rtv/man/timesweep.Rd | 49 +---------------- rtv-0.2.0/rtv/man/unitstring.Rd |only rtv-0.2.0/rtv/man/when.Rd |only rtv-0.2.0/rtv/man/whichperiod.Rd |only 38 files changed, 205 insertions(+), 186 deletions(-)
Author: Steven Kembel
Diff between picante versions 0.6-0 dated 2009-02-25 and 0.6-1 dated 2009-03-19
Title: R tools for integrating phylogenies and ecology
Description: Phylocom integration, community analyses, null-models,
traits and evolution in R
DESCRIPTION | 18 +++++++++++++-----
R/color.plot.phylo.R | 4 ++--
R/cor.table.R | 23 ++++++++++++-----------
R/phylodiversity.R | 2 +-
man/color.plot.phylo.Rd | 14 ++++++++++----
man/cor.table.Rd | 3 ++-
man/phylosor.Rd | 2 +-
man/phylosor.rnd.Rd | 2 +-
man/picante-package.Rd | 4 ++--
9 files changed, 44 insertions(+), 28 deletions(-)
Author: Michael Donohue, Ronghui Xu
Title: Proportional Hazards Mixed-effects Model (PHMM)
Description: Fits proportional hazards model incorporating random
effects using an EM agorithm using Markov Chain Monte Carlo at
E-step.
Diff between phmm versions 0.4 dated 2009-03-16 and 0.5 dated 2009-03-19
phmm-0.4/phmm/INDEX.txt |only phmm-0.5/phmm/DESCRIPTION | 12 ++++++------ phmm-0.5/phmm/INDEX |only phmm-0.5/phmm/R/phmm.R | 5 ++--- phmm-0.5/phmm/man/cAIC.Rd | 2 +- phmm-0.5/phmm/man/phmm-package.Rd | 5 +---- phmm-0.5/phmm/man/phmm.Rd | 9 +++------ phmm-0.5/phmm/man/phmm.cond.loglik.Rd | 2 +- phmm-0.5/phmm/man/pseudoPoisPHMM.Rd | 2 +- phmm-0.5/phmm/man/traceHat.Rd | 4 +++- 10 files changed, 18 insertions(+), 23 deletions(-)
Author: Pedro Brasil
Diff between DiagnosisMed versions 0.1.2.1 dated 2009-03-06 and 0.1.2.3 dated 2009-03-19
Title: Diagnostic test accuracy evaluation for medical professionals.
Description: DiagnosisMed is a package to analyze data from diagnostic
test accuracy evaluating health conditions. It is being built
to be used by health professionals. This package is - or soon
will be - able to estimate sample size for common situations in
diagnostic test accuracy, estimate sensitivity and specificity
from categorical and continuous test results including some
evaluations of indeterminate results, or compare different
analysis strategies into measures commonly used by health
professionals.
DESCRIPTION | 32 +++++++++++++++++++++-----------
R/ROC.r | 9 ++++-----
man/ROC.Rd | 6 ++++--
3 files changed, 29 insertions(+), 18 deletions(-)
Author: Alan Genz, Frank Bretz, Tetsuhisa Miwa, Xuefei Mi, Friedrich
Leisch, Fabian Scheipl, Torsten Hothorn
Title: Multivariate Normal and t Distributions
Description: Computes multivariate normal and t probabilities,
quantiles, random deviates and densities.
Diff between mvtnorm versions 0.9-4 dated 2009-01-21 and 0.9-5 dated 2009-03-17
CHANGES | 7 ++++++- DESCRIPTION | 16 +++++++++------- R/mvt.R | 2 +- inst/CHANGES | 7 ++++++- inst/doc/MVT_Rnews.pdf |binary src/mvt.f | 4 ++-- tests/bugfix-tests.R | 3 +++ tests/bugfix-tests.Rout.save | 8 ++++++-- 8 files changed, 33 insertions(+), 14 deletions(-)
Author: Simon Wood
Diff between mgcv versions 1.5-0 dated 2009-03-03 and 1.5-1 dated 2009-03-17
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.
DESCRIPTION | 13 +-
R/gam.fit3.r | 31 ++++---
R/mgcv.r | 5 -
R/smooth.r | 240 ++++++++++++++++++++++++++++++++++++++++++++++++++++++-
changeLog | 29 ++++++
man/gam.Rd | 2
man/gam.fit3.Rd | 8 -
man/gam.outer.Rd | 3
man/gamm.Rd | 2
src/gdi.c | 47 +++++++---
10 files changed, 337 insertions(+), 43 deletions(-)
Author: Fang Chang
Diff between clues versions 0.3.1 dated 2009-02-16 and 0.3.2 dated 2009-03-17
Title: Clustering Method Based on Local Shrinking
Description: The package contains functions for automatically
estimating the number of clusters and geting the final cluster
partition without any input parameter except the stopping rule
for convergence. The package also provides functions to
evaluate and compare the performances of partitions of a data
set both numerically and graphically.
DESCRIPTION | 42 ++++++++++++++++++++++--------------------
R/clues.R | 2 +-
R/clues.sil.R | 4 ++--
R/compClust.R | 10 +++++-----
R/shrinking.R | 2 +-
man/Get.CH.Rd | 4 +++-
man/Get.Silhouette.Rd | 4 +++-
man/clues.Rd | 6 ++++--
man/clustering.Rd | 4 +++-
man/compClust.Rd | 3 ++-
man/plotAvgCurves.Rd | 4 +++-
man/plotClusters.Rd | 4 +++-
man/plotCurves.Rd | 4 +++-
man/shrinking.Rd | 2 +-
14 files changed, 56 insertions(+), 39 deletions(-)
Author: Nicolas Bortolussi
Diff between apTreeshape versions 1.4-0 dated 2007-04-25 and 1.4-1 dated 2009-03-17
Title: Analyses of Phylogenetic Treeshape
Description: apTreeshape is mainly dedicated to simulation and analysis
of phylogenetic tree topologies using statistical indices. It
is a companion library of the 'ape' package. It provides
additional functions for reading, plotting, manipulating
phylogenetic trees. It also offers convenient web-access to
public databases, and enables testing null models of
macroevolution using corrected test statistics. Trees of class
"phylo" (from 'ape' package) can be converted easily.
DESCRIPTION | 26 ++++++++++++++++++--------
R/pandit.R | 23 +++++++++++------------
R/treebase.R | 1 -
man/aldous.test.Rd | 19 ++++++++++---------
man/dbtrees.Rd | 13 ++++++++-----
man/rtreeshape.Rd | 4 ++--
6 files changed, 49 insertions(+), 37 deletions(-)
Author: Jarrod Hadfield
Title: MCMC Generalised Linear Mixed Models
Description: MCMC Generalised Linear Mixed Models
Diff between MCMCglmm versions 1.05 dated 2009-03-06 and 1.06 dated 2009-03-17
DESCRIPTION | 17 ++++++++++------- R/MCMCglmm.R | 8 +++++++- inst/doc/Tutorial.pdf |binary man/MCMCglmm.Rd | 6 +++--- 4 files changed, 20 insertions(+), 11 deletions(-)
Author: Stef van Buuren
Diff between mice versions 1.16 dated 2007-06-25 and 1.21 dated 2009-03-17
Title: Multivariate Imputation by Chained Equations
Description: Multiple imputation of multivariate incomplete data by
Fully Conditional Specification
mice-1.16/mice/..Rcheck |only
mice-1.16/mice/man/..Rcheck |only
mice-1.21/mice/DESCRIPTION | 28 +-
mice-1.21/mice/R/mice.R | 247 +++++++++++------------
mice-1.21/mice/inst/ChangeLog | 16 +
mice-1.21/mice/man/complete.Rd | 93 ++++----
mice-1.21/mice/man/glm.mids.Rd | 60 +----
mice-1.21/mice/man/lm.mids.Rd | 18 +
mice-1.21/mice/man/mice-internal.Rd | 41 ++-
mice-1.21/mice/man/mice.Rd | 257 +++++++++++++++---------
mice-1.21/mice/man/mice.impute.lda.Rd | 25 +-
mice-1.21/mice/man/mice.impute.logreg.Rd | 5
mice-1.21/mice/man/mice.impute.logreg2.Rd | 12 -
mice-1.21/mice/man/mice.impute.mean.Rd | 6
mice-1.21/mice/man/mice.impute.norm.Rd | 13 -
mice-1.21/mice/man/mice.impute.norm.improper.Rd | 4
mice-1.21/mice/man/mice.impute.passive.Rd | 22 +-
mice-1.21/mice/man/mice.impute.pmm.Rd | 24 +-
mice-1.21/mice/man/mice.impute.polyreg.Rd | 28 +-
mice-1.21/mice/man/mice.impute.sample.Rd | 10
mice-1.21/mice/man/mice.mids.Rd | 32 +-
mice-1.21/mice/man/mids.Rd | 49 +---
mice-1.21/mice/man/mipo.Rd | 36 +--
mice-1.21/mice/man/mira.Rd | 29 +-
mice-1.21/mice/man/nhanes.Rd | 28 +-
mice-1.21/mice/man/nhanes2.Rd | 31 ++
mice-1.21/mice/man/pool.Rd | 15 -
27 files changed, 629 insertions(+), 500 deletions(-)
Author: Elizabeth Freeman
Diff between PresenceAbsence versions 1.1.2 dated 2008-03-28 and 1.1.3 dated 2009-03-17
More information about PresenceAbsence at CRAN
Title: Presence-Absence Model Evaluation
Description: This package provides a set of functions useful when
evaluating the results of presence-absence models. Package
includes functions for calculating threshold dependant measures
such as confusion matrices, pcc, sensitivity, specificity, and
Kappa, and produces plots of each measure as the threshold is
varied. It will calculate optimal threshold choice according to
a choice of optimization criteria. It also includes functions
to plot the threshold independent ROC curves along with the
associated AUC (area under the curve).
DESCRIPTION | 32 +++++++++++++++++++++-----------
R/optimal.thresholds.R | 12 +++++++++---
man/PresenceAbsence.package.Rd | 4 ++--
man/SIM3DATA.Rd | 2 +-
man/error.threshold.plot.Rd | 5 +++--
5 files changed, 36 insertions(+), 19 deletions(-)
Permanent link
Author: Christian Buchta and Kurt Hornik
Title: Selected ISO codes
Description: ISO language, territory, currency, script and character
codes. Provides ISO 639 language codes, ISO 3166 territory
codes, ISO 4217 currency codes, ISO 15924 script codes, and the
ISO 8859 and ISO 10646 character codes as well as the Unicode
data table.
Diff between ISOcodes versions 0.1-1 dated 2008-04-27 and 0.2-1 dated 2009-03-17
DESCRIPTION | 17 +++-- data/ISO_15924.rda |binary data/ISO_3166_1.rda |binary data/ISO_3166_2.rda |binary data/ISO_3166_3.rda |binary data/ISO_4217.rda |binary data/ISO_4217_Historic.rda |binary data/ISO_639_2.rda |binary data/ISO_639_3.rda |binary data/ISO_639_3_Retirements.rda |binary man/Unicode.Rd | 131 +++++++++++++++++++++++++++++++++++++---- 11 files changed, 130 insertions(+), 18 deletions(-)
Author: J. R. M. Hosking
Title: L-moments
Description: Functions related to L-moments: computation of L-moments
of distributions and data samples; parameter estimation;
L-moment ratio diagram; plot vs. quantiles of an extreme-value
distribution.
Diff between lmom versions 1.1 dated 2008-12-30 and 1.2 dated 2009-03-16
DESCRIPTION | 25 ++++++++++++++----------- NEWS | 9 +++++++++ R/lmom.r | 8 ++++---- man/0-lmom.Rd | 6 +++--- man/cdfln3.Rd | 2 +- man/cdfwei.Rd | 6 +++--- man/evplot.Rd | 4 ++-- man/lmrp.Rd | 2 +- man/samlmu.Rd | 2 +- 9 files changed, 38 insertions(+), 26 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 1.0-1 dated 2009-01-09 and 1.0-2 dated 2009-03-16
CHANGES | 6 +++ DESCRIPTION | 19 +++++++---- R/Confints.R | 8 ++-- ToDoList | 3 + inst/doc/LegoCondInf.pdf |binary inst/doc/MAXtest.pdf |binary inst/doc/coin.pdf |binary inst/doc/coin_implementation.pdf |binary tests/bugfixes.R | 13 ++++++++ tests/bugfixes.Rout.save | 63 ++++++++++++++++++++++++++++++++++++++- 10 files changed, 100 insertions(+), 12 deletions(-)
Author: Alejandro Jara
Diff between DPpackage versions 1.0-6 dated 2008-07-14 and 1.0-7 dated 2009-03-16
Title: Bayesian Nonparametric and Semiparametric Analysis
Description: This package contains functions to perform inference via
simulation from the posterior distributions for Bayesian
nonparametric and semiparametric models. Although the name of
the package was motivated by the Dirichlet Process prior, the
package considers and will consider other priors on functional
spaces. So far, DPpackage includes models considering Dirichlet
Processes, Dependent Dirichlet Processes, Polya Trees, Mixtures
of Triangular distributions, and Random Bernstein polynomials
priors. The package also includes models considering Penalized
B-Splines. Currently the package includes semiparametric models
for marginal and conditional density estimation, ROC curve
analysis, interval censored data, binary regression models,
generalized linear mixed models, IRT type models, and
generalized additive models. The package also contains
functions to compute Pseudo-Bayes factors for model comparison,
and to elicitate the precision parameter of the Dirichlet
Process. To maximize computational efficiency, the actual
sampling for each model is done in compiled FORTRAN. The
functions return objects which can be subsequently analyzed
with functions provided in the coda package.
DPpackage-1.0-6/DPpackage/R/HDPdensity.R |only
DPpackage-1.0-6/DPpackage/man/HDPdensity.Rd |only
DPpackage-1.0-6/DPpackage/man/predict.HDPdensity.Rd |only
DPpackage-1.0-6/DPpackage/src/DDPrasch.f |only
DPpackage-1.0-6/DPpackage/src/HDPdensity.c |only
DPpackage-1.0-6/DPpackage/src/HDPdensity.h |only
DPpackage-1.0-6/DPpackage/src/ToolsBayes.c |only
DPpackage-1.0-6/DPpackage/src/ToolsBayes.h |only
DPpackage-1.0-6/DPpackage/src/ToolsCCdflib.c |only
DPpackage-1.0-6/DPpackage/src/ToolsCCdflib.h |only
DPpackage-1.0-6/DPpackage/src/ToolsCMatrix.c |only
DPpackage-1.0-6/DPpackage/src/ToolsCMatrix.h |only
DPpackage-1.0-6/DPpackage/src/ToolsCom.c |only
DPpackage-1.0-6/DPpackage/src/ToolsFortif.c |only
DPpackage-1.0-6/DPpackage/src/ToolsFortif.h |only
DPpackage-1.0-6/DPpackage/src/ToolsGiis.h |only
DPpackage-1.0-6/DPpackage/src/ToolsInterface.c |only
DPpackage-1.0-6/DPpackage/src/ToolsInterface.h |only
DPpackage-1.0-6/DPpackage/src/ToolsIpmpar.c |only
DPpackage-1.0-6/DPpackage/src/ToolsMathconst.h |only
DPpackage-1.0-6/DPpackage/src/ToolsMess.c |only
DPpackage-1.0-6/DPpackage/src/ToolsMess.h |only
DPpackage-1.0-6/DPpackage/src/ToolsNrutil.c |only
DPpackage-1.0-6/DPpackage/src/ToolsNrutil.h |only
DPpackage-1.0-6/DPpackage/src/ToolsPredictN.c |only
DPpackage-1.0-6/DPpackage/src/ToolsRand-nr.c |only
DPpackage-1.0-6/DPpackage/src/ToolsRand-nr.h |only
DPpackage-1.0-6/DPpackage/src/ToolsRand.c |only
DPpackage-1.0-6/DPpackage/src/ToolsRand.h |only
DPpackage-1.0-6/DPpackage/src/ToolsRanlib.c |only
DPpackage-1.0-6/DPpackage/src/ToolsRanlib.h |only
DPpackage-1.0-6/DPpackage/src/ToolsRegr.c |only
DPpackage-1.0-6/DPpackage/src/ToolsRegr.h |only
DPpackage-1.0-6/DPpackage/src/ToolsUnixrep.c |only
DPpackage-1.0-6/DPpackage/src/ToolsUnixrep.h |only
DPpackage-1.0-6/DPpackage/src/ToolsVector.c |only
DPpackage-1.0-6/DPpackage/src/ToolsVector.h |only
DPpackage-1.0-7/DPpackage/DESCRIPTION | 66 -
DPpackage-1.0-7/DPpackage/NAMESPACE | 50 -
DPpackage-1.0-7/DPpackage/R/BDPdensity.R | 19
DPpackage-1.0-7/DPpackage/R/CSDPbinary.R | 19
DPpackage-1.0-7/DPpackage/R/DPMglmm.R | 19
DPpackage-1.0-7/DPpackage/R/DPMlmm.R | 19
DPpackage-1.0-7/DPpackage/R/DPMmeta.R | 19
DPpackage-1.0-7/DPpackage/R/DPMolmm.R | 19
DPpackage-1.0-7/DPpackage/R/DPMrandom.R | 19
DPpackage-1.0-7/DPpackage/R/DPbetabinom.R |only
DPpackage-1.0-7/DPpackage/R/DPbinary.R | 19
DPpackage-1.0-7/DPpackage/R/DPcaterpillar.R | 19
DPpackage-1.0-7/DPpackage/R/DPcdensity.R | 69 -
DPpackage-1.0-7/DPpackage/R/DPdensity.R | 94 +
DPpackage-1.0-7/DPpackage/R/DPelicit.R | 19
DPpackage-1.0-7/DPpackage/R/DPglmm.R | 23
DPpackage-1.0-7/DPpackage/R/DPlmm.R | 19
DPpackage-1.0-7/DPpackage/R/DPmeta.R | 19
DPpackage-1.0-7/DPpackage/R/DPmultmeta.R | 19
DPpackage-1.0-7/DPpackage/R/DPolmm.R | 19
DPpackage-1.0-7/DPpackage/R/DPpsBF.R | 19
DPpackage-1.0-7/DPpackage/R/DPrandom.R | 19
DPpackage-1.0-7/DPpackage/R/DPrasch.R | 19
DPpackage-1.0-7/DPpackage/R/DPraschpoisson.R | 19
DPpackage-1.0-7/DPpackage/R/DProc.R | 18
DPpackage-1.0-7/DPpackage/R/DPsurvint.R | 19
DPpackage-1.0-7/DPpackage/R/FPTbinary.R | 19
DPpackage-1.0-7/DPpackage/R/FPTrasch.R | 21
DPpackage-1.0-7/DPpackage/R/FPTraschpoisson.R | 19
DPpackage-1.0-7/DPpackage/R/LDDPdensity.R | 526 +++++-----
DPpackage-1.0-7/DPpackage/R/LDDPsurvival.R |only
DPpackage-1.0-7/DPpackage/R/PSgam.R | 44
DPpackage-1.0-7/DPpackage/R/PTdensity.R | 20
DPpackage-1.0-7/DPpackage/R/PTglmm.R |only
DPpackage-1.0-7/DPpackage/R/PTlm.R | 19
DPpackage-1.0-7/DPpackage/R/PTlmm.R |only
DPpackage-1.0-7/DPpackage/R/PTmeta.R | 19
DPpackage-1.0-7/DPpackage/R/PTolmm.R |only
DPpackage-1.0-7/DPpackage/R/PTrandom.R | 284 ++++-
DPpackage-1.0-7/DPpackage/R/Pbinary.R | 19
DPpackage-1.0-7/DPpackage/R/Plm.R |only
DPpackage-1.0-7/DPpackage/R/TDPdensity.R | 19
DPpackage-1.0-7/DPpackage/R/hidden.R | 12
DPpackage-1.0-7/DPpackage/R/ps.R | 19
DPpackage-1.0-7/DPpackage/data/rolling.rda |only
DPpackage-1.0-7/DPpackage/man/BDPdensity.Rd | 2
DPpackage-1.0-7/DPpackage/man/CSDPbinary.Rd | 2
DPpackage-1.0-7/DPpackage/man/DPMglmm.Rd | 5
DPpackage-1.0-7/DPpackage/man/DPMlmm.Rd | 6
DPpackage-1.0-7/DPpackage/man/DPMmeta.Rd | 2
DPpackage-1.0-7/DPpackage/man/DPMolmm.Rd | 5
DPpackage-1.0-7/DPpackage/man/DPMrandom.Rd | 6
DPpackage-1.0-7/DPpackage/man/DPbetabinom.Rd |only
DPpackage-1.0-7/DPpackage/man/DPbinary.Rd | 2
DPpackage-1.0-7/DPpackage/man/DPcaterpillar.Rd | 5
DPpackage-1.0-7/DPpackage/man/DPcdensity.Rd | 26
DPpackage-1.0-7/DPpackage/man/DPdensity.Rd | 2
DPpackage-1.0-7/DPpackage/man/DPelicit.Rd | 2
DPpackage-1.0-7/DPpackage/man/DPglmm.Rd | 5
DPpackage-1.0-7/DPpackage/man/DPlmm.Rd | 5
DPpackage-1.0-7/DPpackage/man/DPmeta.Rd | 2
DPpackage-1.0-7/DPpackage/man/DPmultmeta.Rd | 2
DPpackage-1.0-7/DPpackage/man/DPolmm.Rd | 5
DPpackage-1.0-7/DPpackage/man/DPpsBF.Rd | 6
DPpackage-1.0-7/DPpackage/man/DPrandom.Rd | 5
DPpackage-1.0-7/DPpackage/man/DPrasch.Rd | 6
DPpackage-1.0-7/DPpackage/man/DPraschpoisson.Rd | 8
DPpackage-1.0-7/DPpackage/man/DProc.Rd | 2
DPpackage-1.0-7/DPpackage/man/DPsurvint.Rd | 4
DPpackage-1.0-7/DPpackage/man/FPTbinary.Rd | 2
DPpackage-1.0-7/DPpackage/man/FPTrasch.Rd | 8
DPpackage-1.0-7/DPpackage/man/FPTraschpoisson.Rd | 8
DPpackage-1.0-7/DPpackage/man/LDDPdensity.Rd | 161 +--
DPpackage-1.0-7/DPpackage/man/LDDPsurvival.Rd |only
DPpackage-1.0-7/DPpackage/man/PSgam.Rd | 6
DPpackage-1.0-7/DPpackage/man/PTdensity.Rd | 2
DPpackage-1.0-7/DPpackage/man/PTglmm.Rd |only
DPpackage-1.0-7/DPpackage/man/PTlm.Rd | 2
DPpackage-1.0-7/DPpackage/man/PTlmm.Rd |only
DPpackage-1.0-7/DPpackage/man/PTmeta.Rd | 2
DPpackage-1.0-7/DPpackage/man/PTolmm.Rd |only
DPpackage-1.0-7/DPpackage/man/PTrandom.Rd | 10
DPpackage-1.0-7/DPpackage/man/Pbinary.Rd | 2
DPpackage-1.0-7/DPpackage/man/Plm.Rd |only
DPpackage-1.0-7/DPpackage/man/TDPdensity.Rd | 2
DPpackage-1.0-7/DPpackage/man/predict.DPsurvint.Rd | 2
DPpackage-1.0-7/DPpackage/man/ps.Rd | 3
DPpackage-1.0-7/DPpackage/man/rolling.Rd |only
DPpackage-1.0-7/DPpackage/src/BDPdensity.f | 47
DPpackage-1.0-7/DPpackage/src/CSDPbinaryl.f | 50 -
DPpackage-1.0-7/DPpackage/src/DPMglmmgam.f | 68 -
DPpackage-1.0-7/DPpackage/src/DPMglmmlogit.f | 58 -
DPpackage-1.0-7/DPpackage/src/DPMglmmpois.f | 60 -
DPpackage-1.0-7/DPpackage/src/DPMglmmprob.f | 58 -
DPpackage-1.0-7/DPpackage/src/DPMlm.f | 46
DPpackage-1.0-7/DPpackage/src/DPMlmm.f | 54 -
DPpackage-1.0-7/DPpackage/src/DPMmeta.f | 48 -
DPpackage-1.0-7/DPpackage/src/DPMolmmp.f | 62 -
DPpackage-1.0-7/DPpackage/src/DPbetabinom.f |only
DPpackage-1.0-7/DPpackage/src/DPbinaryc.f | 52 -
DPpackage-1.0-7/DPpackage/src/DPbinaryl.f | 52 -
DPpackage-1.0-7/DPpackage/src/DPbinaryp.f | 52 -
DPpackage-1.0-7/DPpackage/src/DPbivdensityg.f | 62 -
DPpackage-1.0-7/DPpackage/src/DPbivdensityn.f | 60 -
DPpackage-1.0-7/DPpackage/src/DPdensityg.f | 58 -
DPpackage-1.0-7/DPpackage/src/DPdensityn.f | 57 -
DPpackage-1.0-7/DPpackage/src/DPdensityreg.f | 486 ++++++----
DPpackage-1.0-7/DPpackage/src/DPglmmgam.f | 110 +-
DPpackage-1.0-7/DPpackage/src/DPglmmlogit.f | 72 -
DPpackage-1.0-7/DPpackage/src/DPglmmlogita.f | 110 +-
DPpackage-1.0-7/DPpackage/src/DPglmmpois.f | 94 -
DPpackage-1.0-7/DPpackage/src/DPglmmprob.f | 78 -
DPpackage-1.0-7/DPpackage/src/DPlmm.f | 64 -
DPpackage-1.0-7/DPpackage/src/DPmeta.f | 50 -
DPpackage-1.0-7/DPpackage/src/DPmultmeta.f | 47
DPpackage-1.0-7/DPpackage/src/DPolmmp.f | 60 -
DPpackage-1.0-7/DPpackage/src/DPrasch.f | 32
DPpackage-1.0-7/DPpackage/src/DPraschpoisson.f | 32
DPpackage-1.0-7/DPpackage/src/DPsurvint.f | 50 -
DPpackage-1.0-7/DPpackage/src/FPTbinaryl.f | 46
DPpackage-1.0-7/DPpackage/src/FPTrasch.f | 36
DPpackage-1.0-7/DPpackage/src/FPTraschpoisson.f | 52 -
DPpackage-1.0-7/DPpackage/src/LDDPdensity.f | 959 +++++++++++++++-----
DPpackage-1.0-7/DPpackage/src/LDDPsurvival.f |only
DPpackage-1.0-7/DPpackage/src/PSgamgam.f | 60 -
DPpackage-1.0-7/DPpackage/src/PSgamgauss.f | 73 -
DPpackage-1.0-7/DPpackage/src/PSgamlogit.f | 56 -
DPpackage-1.0-7/DPpackage/src/PSgampois.f | 56 -
DPpackage-1.0-7/DPpackage/src/PSgamprob.f | 72 -
DPpackage-1.0-7/DPpackage/src/PTglmmgam.f |only
DPpackage-1.0-7/DPpackage/src/PTglmmlogit.f |only
DPpackage-1.0-7/DPpackage/src/PTglmmpois.f |only
DPpackage-1.0-7/DPpackage/src/PTglmmprob.f |only
DPpackage-1.0-7/DPpackage/src/PTlm.f | 44
DPpackage-1.0-7/DPpackage/src/PTlmm.f |only
DPpackage-1.0-7/DPpackage/src/PTlmp.f | 44
DPpackage-1.0-7/DPpackage/src/PTmdensity.f | 31
DPpackage-1.0-7/DPpackage/src/PTmdensityp.f | 29
DPpackage-1.0-7/DPpackage/src/PTmeta.f | 58 -
DPpackage-1.0-7/DPpackage/src/PTolmmp.f |only
DPpackage-1.0-7/DPpackage/src/PTsurv.f | 58 -
DPpackage-1.0-7/DPpackage/src/PTudensity.f | 22
DPpackage-1.0-7/DPpackage/src/PTudensityp.f | 44
DPpackage-1.0-7/DPpackage/src/Pbinary.f | 24
DPpackage-1.0-7/DPpackage/src/Plm.f |only
DPpackage-1.0-7/DPpackage/src/TDPdensity.f | 44
DPpackage-1.0-7/DPpackage/src/TDPdensitypl.f | 44
DPpackage-1.0-7/DPpackage/src/ToolsARS.f | 58 -
DPpackage-1.0-7/DPpackage/src/ToolsBDP.f | 12
DPpackage-1.0-7/DPpackage/src/ToolsCdflib.f | 31
DPpackage-1.0-7/DPpackage/src/ToolsDDP.f | 15
DPpackage-1.0-7/DPpackage/src/ToolsDP.f | 47
DPpackage-1.0-7/DPpackage/src/ToolsDPM.f | 41
DPpackage-1.0-7/DPpackage/src/ToolsDistributions.f | 44
DPpackage-1.0-7/DPpackage/src/ToolsHMM.f | 23
DPpackage-1.0-7/DPpackage/src/ToolsMatrix.f | 338 +++----
DPpackage-1.0-7/DPpackage/src/ToolsPT.f | 641 ++++++++++++-
DPpackage-1.0-7/DPpackage/src/ToolsPolynomials.f | 12
DPpackage-1.0-7/DPpackage/src/ToolsRandlib.f | 30
DPpackage-1.0-7/DPpackage/src/ToolsRnumbers.f | 376 ++++++-
DPpackage-1.0-7/DPpackage/src/ToolsSlice.f | 14
DPpackage-1.0-7/DPpackage/src/ToolsSparseMatrix.f | 40
DPpackage-1.0-7/DPpackage/src/ToolsSplines.f | 12
DPpackage-1.0-7/DPpackage/src/ToolsSweep.f | 11
DPpackage-1.0-7/DPpackage/src/ToolsTDP.f | 11
202 files changed, 4914 insertions(+), 2969 deletions(-)
Author: Jim Lemon,Ben Bolker,Sander Oom, Eduardo Klein,Barry
Rowlingson, Hadley Wickham,Anupam Tyagi, Olivier
Eterradossi,Gabor Grothendieck, Michael Toews,John Kane,Mike
Cheetham, Rolf Turner,Carl Witthoft,Julian Stander, Thomas
Petzoldt,Remko Duursma,Elisa Biancotto, Ofir Levy
Title: Various plotting functions
Description: Lots of plots, various labeling, axis and color scaling
functions.
Diff between plotrix versions 2.5-2 dated 2009-02-18 and 2.5-3 dated 2009-03-16
plotrix-2.5-2/plotrix/R/corner.loc.R |only plotrix-2.5-2/plotrix/man/corner.loc.Rd |only plotrix-2.5-3/plotrix/DESCRIPTION | 23 ++++++++++++----------- plotrix-2.5-3/plotrix/INDEX | 4 +++- plotrix-2.5-3/plotrix/R/corner.label.R |only plotrix-2.5-3/plotrix/R/dotplot.mtb.R | 4 ++++ plotrix-2.5-3/plotrix/R/hierobarp.R |only plotrix-2.5-3/plotrix/R/qt.plot.R | 4 +++- plotrix-2.5-3/plotrix/demo/plotrix.R | 8 ++++++++ plotrix-2.5-3/plotrix/man/brkdnCrawler.Rd |only plotrix-2.5-3/plotrix/man/corner.label.Rd |only plotrix-2.5-3/plotrix/man/diamondplot.Rd | 4 ++-- plotrix-2.5-3/plotrix/man/dotplot.mtb.Rd | 24 ++++++++++++------------ plotrix-2.5-3/plotrix/man/hierobarp.Rd |only plotrix-2.5-3/plotrix/man/hierobrk.Rd |only plotrix-2.5-3/plotrix/man/qt.plot.Rd | 5 ++++- 16 files changed, 48 insertions(+), 28 deletions(-)
Author: Jim Lemon
Diff between clinsig versions 1.0 dated 2009-01-20 and 1.0-1 dated 2009-03-16
Title: Clinical significance functions.
Description: Functions for calculating clinical significance.
DESCRIPTION | 8 +++--
INDEX | 1
R/clinsig.R | 73 +++++++++++++++++++++++++--------------------------
R/spreadout.R |only
man/clinsig.Rd | 71 +++++++++++++++++++++++++------------------------
man/hist.clinsig.Rd | 22 ++++++++++-----
man/plot.clinsig.Rd | 12 ++++----
man/print.clinsig.Rd | 10 +++---
man/spreadout.Rd |only
9 files changed, 105 insertions(+), 92 deletions(-)
Author: Andreas Ruckstuhl, Thomas Unternaehrer, Rene Locher
Title: Utilities of Institute of Data Analyses and Process Design
(www.idp.zhaw.ch)
Description: The IDPmisc package contains different high-level graphics
functions for displaying large datasets, displaying circular
data in a very flexible way, finding local maxima, brewing
color ramps, drawing nice arrows, zooming 2D-plots, creating
figures with differently colored margin and plot region. In
addition, the package contains auxiliary functions for data
manipulation like omitting observations with irregular values
or selecting data by logical vectors, which include NAs. Other
functions are especially useful in spectroscopy and analyses of
environmental data: robust baseline fitting, finding peaks in
spectra.
Diff between IDPmisc versions 0.9.9 dated 2008-07-28 and 1.0.01 dated 2009-03-16
IDPmisc-0.9.9/IDPmisc/R/LegendAndTitle.R |only IDPmisc-0.9.9/IDPmisc/R/inf.omit.R |only IDPmisc-0.9.9/IDPmisc/man/ixyplot-deprecated.Rd |only IDPmisc-0.9.9/IDPmisc/man/longts.plot-deprecated.Rd |only IDPmisc-1.0.01/IDPmisc/ChangeLog | 205 +++++++---- IDPmisc-1.0.01/IDPmisc/DESCRIPTION | 43 +- IDPmisc-1.0.01/IDPmisc/NAMESPACE | 6 IDPmisc-1.0.01/IDPmisc/R/Arrows.R | 16 IDPmisc-1.0.01/IDPmisc/R/IDPcolorRamp.R | 10 IDPmisc-1.0.01/IDPmisc/R/Image.R | 8 IDPmisc-1.0.01/IDPmisc/R/NaRV.omit.R | 6 IDPmisc-1.0.01/IDPmisc/R/cart2clock.R | 4 IDPmisc-1.0.01/IDPmisc/R/clock2cart.R | 6 IDPmisc-1.0.01/IDPmisc/R/col2hsv.R | 2 IDPmisc-1.0.01/IDPmisc/R/data.sheet.R | 10 IDPmisc-1.0.01/IDPmisc/R/draw.leg.R | 108 +++--- IDPmisc-1.0.01/IDPmisc/R/general.control.R | 11 IDPmisc-1.0.01/IDPmisc/R/getXY.R | 14 IDPmisc-1.0.01/IDPmisc/R/grid.control.R | 5 IDPmisc-1.0.01/IDPmisc/R/ilagplot.R | 108 ++++-- IDPmisc-1.0.01/IDPmisc/R/ipairs.R | 187 ++++++---- IDPmisc-1.0.01/IDPmisc/R/ipanel.smooth.R | 6 IDPmisc-1.0.01/IDPmisc/R/iplot.R | 140 ++++--- IDPmisc-1.0.01/IDPmisc/R/iplotLegend.R |only IDPmisc-1.0.01/IDPmisc/R/iplotMain.R |only IDPmisc-1.0.01/IDPmisc/R/itermplot.R | 8 IDPmisc-1.0.01/IDPmisc/R/key.control.R | 4 IDPmisc-1.0.01/IDPmisc/R/longts.plot.R | 150 -------- IDPmisc-1.0.01/IDPmisc/R/longtsPlot.R | 36 +- IDPmisc-1.0.01/IDPmisc/R/ok.R | 4 IDPmisc-1.0.01/IDPmisc/R/peaks.R | 2 IDPmisc-1.0.01/IDPmisc/R/plot.page.R | 256 +++++++------- IDPmisc-1.0.01/IDPmisc/R/plot.rose.R |only IDPmisc-1.0.01/IDPmisc/R/plotdat.R | 44 +- IDPmisc-1.0.01/IDPmisc/R/poster.plot.R | 2 IDPmisc-1.0.01/IDPmisc/R/rfbaseline.R | 43 +- IDPmisc-1.0.01/IDPmisc/R/rfbaselineScale.R | 2 IDPmisc-1.0.01/IDPmisc/R/rose.R | 356 -------------------- IDPmisc-1.0.01/IDPmisc/R/rose.grob.R | 12 IDPmisc-1.0.01/IDPmisc/R/showColors.R | 21 - IDPmisc-1.0.01/IDPmisc/R/title.control.R | 3 IDPmisc-1.0.01/IDPmisc/R/val.rose.R |only IDPmisc-1.0.01/IDPmisc/R/zoom.R | 16 IDPmisc-1.0.01/IDPmisc/R/zzz.R | 8 IDPmisc-1.0.01/IDPmisc/man/IDPcolorRamp.Rd | 31 + IDPmisc-1.0.01/IDPmisc/man/IDPmisc-package.Rd | 12 IDPmisc-1.0.01/IDPmisc/man/Image.Rd | 51 +- IDPmisc-1.0.01/IDPmisc/man/MS.Rd | 13 IDPmisc-1.0.01/IDPmisc/man/NaRV.omit.Rd | 1 IDPmisc-1.0.01/IDPmisc/man/cart2clock.Rd | 16 IDPmisc-1.0.01/IDPmisc/man/clock2cart.Rd | 14 IDPmisc-1.0.01/IDPmisc/man/draw.leg.Rd | 21 - IDPmisc-1.0.01/IDPmisc/man/general.control.Rd | 12 IDPmisc-1.0.01/IDPmisc/man/getXY.Rd | 14 IDPmisc-1.0.01/IDPmisc/man/ilagplot.Rd | 42 +- IDPmisc-1.0.01/IDPmisc/man/ipairs.Rd | 88 +++- IDPmisc-1.0.01/IDPmisc/man/ipanel.smooth.Rd | 25 - IDPmisc-1.0.01/IDPmisc/man/iplot.Rd | 71 ++- IDPmisc-1.0.01/IDPmisc/man/iplotLegend.Rd |only IDPmisc-1.0.01/IDPmisc/man/ixyplot-defunct.Rd |only IDPmisc-1.0.01/IDPmisc/man/longts.plot-defunct.Rd |only IDPmisc-1.0.01/IDPmisc/man/longtsPlot.Rd | 50 +- IDPmisc-1.0.01/IDPmisc/man/peaks.Rd | 36 -- IDPmisc-1.0.01/IDPmisc/man/pkg-internal.Rd | 14 IDPmisc-1.0.01/IDPmisc/man/plot.rose.Rd | 32 - IDPmisc-1.0.01/IDPmisc/man/poster.plot.Rd | 15 IDPmisc-1.0.01/IDPmisc/man/rose-class.Rd | 5 IDPmisc-1.0.01/IDPmisc/man/rose.Rd | 35 + IDPmisc-1.0.01/IDPmisc/man/showColors.Rd | 5 IDPmisc-1.0.01/IDPmisc/man/title.control.Rd | 5 70 files changed, 1162 insertions(+), 1308 deletions(-)
Author: Graham Williams
Diff between rattle versions 2.4.45 dated 2009-03-14 and 2.4.47 dated 2009-03-16
Title: A graphical user interface for data mining in R using GTK
Description: Rattle (the R Analytic Tool To Learn Easily) provides a
Gnome (RGtk2) based interface to R functionality for data
mining. The aim is to provide a simple and intuitive interface
that allows a user to quickly load data from a CSV file (or via
ODBC), transform and explore the data, build and evaluate
models, and export models as PMML (predictive modelling markup
language) or as scores. All of this with knowing little about
R. All R commands are logged and commented through the log tab
and so available to the user as a script file or as an aide to
the user to interact directly with R itself. Rattle also
exports a number of utility functions and the graphical user
interface, invoked as rattle(), does not need to be run to
deploy these.
DESCRIPTION | 8 ++---
R/data.R | 72 ++++++++++++++++++++++++++++++++++----------------
R/rattle.R | 22 +++++++++++----
R/zzz.R | 10 ------
inst/etc/rattle.glade | 27 ++++++++++++------
5 files changed, 88 insertions(+), 51 deletions(-)
Author: Jonathan M. Lees
Title: Seismic Time Series Analysis Tools
Description: Multiple interactive codes to analyze seismic data, via,
spectrum analysis, wavelet transforms, particle motion,
hodograms.
Diff between RSEIS versions 2.1-1 dated 2009-02-06 and 2.1-4 dated 2009-03-16
DESCRIPTION | 10 ++- R/CHOP.SEISN.R | 12 +++ R/DUMPLOC.R | 39 ++++++++++-- R/EPOCHday.R | 23 ++----- R/EPOCHyear.R | 12 +++ R/Mine.seis.R | 11 +++ R/PICK.GEN.R | 164 ++++++++++++++++++++++++++++++++++----------------- R/PLOT.SEISN.R | 91 ++++++++++++++++++++++++---- R/PreSet.Instr.R | 33 +++++++++- R/SEISNtime.R |only R/SPECT.drive.R | 2 R/colorwig.R |only R/filedatetime.R |only R/getGHtime.R |only R/makeDB.R |only R/plotDB.R |only R/plotseis24.R | 132 +++++++++++++++++++++++++++++++++-------- R/seiscols.R |only R/varsquig.R |only R/varsquiggle.R |only R/wlet.drive.R | 2 inst/doc/hodo.pdf |binary inst/doc/rseis.pdf |binary man/DUMPLOC.Rd | 34 ++++++---- man/EPOCHday.Rd | 6 - man/EPOCHyear.Rd | 7 +- man/PLOT.SEISN.Rd | 49 +++++++++++++-- man/RSEIS-package.Rd | 2 man/SEISNtime.Rd |only man/colorwig.Rd |only man/filedatetime.Rd |only man/getGHtime.Rd |only man/makeDB.Rd |only man/plotDB.Rd |only man/seiscols.Rd |only man/setupDB.Rd | 2 man/varsquig.Rd |only man/varsquiggle.Rd |only 38 files changed, 485 insertions(+), 146 deletions(-)
Author: Richard M. Heiberger
Title: Statistical Analysis and Data Display: Heiberger and Holland
Description: Support software for Statistical Analysis and Data Display
(Springer, ISBN 0-387-40270-5). This contemporary presentation
of statistical methods features extensive use of graphical
displays for exploring data and for displaying the analysis.
The authors demonstrate how to analyze data---showing code,
graphics, and accompanying computer listings---for all the
methods they cover. They emphasize how to construct and
interpret graphs, discuss principles of graphical design, and
show how accompanying traditional tabular results are used to
confirm the visual impressions derived directly from the
graphs. Many of the graphical formats are novel and appear here
for the first time in print. All chapters have exercises.
Diff between HH versions 2.1-24 dated 2009-02-28 and 2.1-25 dated 2009-03-16
DESCRIPTION | 50 ++++++++------- R/glht.mmc.R | 19 ++++- R/glht.new.R |only R/lmatRows.R |only R/mcp.993.R | 2 R/multicomp.mmc.R | 38 ++++++----- R/panel.interaction2wt.R | 8 +- R/plot.multicomp.R | 57 ++++++++++++++--- R/position.R | 1 demo/MMC.WoodEnergy.R | 58 ++++-------------- demo/MMC.apple.R | 34 ++-------- demo/MMC.catalystm.R | 48 +++++++-------- demo/MMC.cc176.R | 43 +++++-------- man/aov.sufficient.Rd | 42 ++++--------- man/as.multicomp.Rd | 2 man/cp.Rd | 3 man/glht.mcp.993.Rd | 22 ++++++ man/hov.Rd | 2 man/lm.regsubsets.Rd | 2 man/lmatRows.Rd |only man/mmc.Rd | 147 +++++++++++++++++++++------------------------- man/mmc.mean.Rd | 14 +--- man/plot.hov.Rd | 4 - man/plot.mmc.multicomp.Rd | 64 ++++++-------------- man/plot.multicomp.Rd | 17 ++++- man/position.Rd | 2 man/vif.Rd | 16 ++--- man/xysplom.Rd | 13 ---- 28 files changed, 337 insertions(+), 371 deletions(-)
Author: Owen Jones, Robert Maillardet, Andrew Robinson, Olga Borovkova,
and Steven Carnie
Title: Functions and Datasets for "An Introduction to Scientific
Programming and Simulation, Using R".
Description: This package provides functions and datasets from the book
"An Introduction to Scientific Programming and Simulation,
Using R".
Diff between spuRs versions 1.0 dated 2009-03-13 and 1.0.1 dated 2009-03-15
spuRs-1.0.1/spuRs/DESCRIPTION | 8 ++++---- spuRs-1.0.1/spuRs/man/transectHolder.Rd | 6 +++--- spuRs-1.0/spuRs/resources/data/data2.txt |only spuRs-1.0/spuRs/resources/data/data3.txt |only spuRs-1.0/spuRs/resources/data/data3freq.txt |only spuRs-1.0/spuRs/resources/data/gutten.csv |only spuRs-1.0/spuRs/resources/data/stage.csv |only spuRs-1.0/spuRs/resources/scripts/InsuranceRiskFig.r |only spuRs-1.0/spuRs/resources/scripts/InsuranceRiskFig2.r |only spuRs-1.0/spuRs/resources/scripts/NRfig.r |only spuRs-1.0/spuRs/resources/scripts/Rosenbrock_soln.r |only spuRs-1.0/spuRs/resources/scripts/SIR.r |only spuRs-1.0/spuRs/resources/scripts/SIR2_fig.r |only spuRs-1.0/spuRs/resources/scripts/SIR3_fig.r |only spuRs-1.0/spuRs/resources/scripts/SIR_fig.r |only spuRs-1.0/spuRs/resources/scripts/SIRplot.r |only spuRs-1.0/spuRs/resources/scripts/ascent_fig.r |only spuRs-1.0/spuRs/resources/scripts/basic_mc.r |only spuRs-1.0/spuRs/resources/scripts/bin_sim.r |only spuRs-1.0/spuRs/resources/scripts/binomial.plot.r |only spuRs-1.0/spuRs/resources/scripts/buffon_fig.r |only spuRs-1.0/spuRs/resources/scripts/cltbinfig.r |only spuRs-1.0/spuRs/resources/scripts/cltpoisfig.r |only spuRs-1.0/spuRs/resources/scripts/congen.r |only spuRs-1.0/spuRs/resources/scripts/dam_part1.r |only spuRs-1.0/spuRs/resources/scripts/dam_part2.r |only spuRs-1.0/spuRs/resources/scripts/deriv3_ex.r |only spuRs-1.0/spuRs/resources/scripts/drv.inversion_fig.r |only spuRs-1.0/spuRs/resources/scripts/empirical.cdf.pdf.r |only spuRs-1.0/spuRs/resources/scripts/exponential.r |only spuRs-1.0/spuRs/resources/scripts/fixedpoint_fig.r |only spuRs-1.0/spuRs/resources/scripts/flag.r |only spuRs-1.0/spuRs/resources/scripts/fmin_nm.r |only spuRs-1.0/spuRs/resources/scripts/fmin_nm_fig.r |only spuRs-1.0/spuRs/resources/scripts/fmin_sd.r |only spuRs-1.0/spuRs/resources/scripts/fmin_sd_fig.r |only spuRs-1.0/spuRs/resources/scripts/freqcount.r |only spuRs-1.0/spuRs/resources/scripts/gasket.r |only spuRs-1.0/spuRs/resources/scripts/geometric.plot.r |only spuRs-1.0/spuRs/resources/scripts/glidergun_fig.r |only spuRs-1.0/spuRs/resources/scripts/globalmax.r |only spuRs-1.0/spuRs/resources/scripts/goldenratio_fig.r |only spuRs-1.0/spuRs/resources/scripts/hit_miss_fig.r |only spuRs-1.0/spuRs/resources/scripts/hit_miss_fig2.r |only spuRs-1.0/spuRs/resources/scripts/inf_mean.r |only spuRs-1.0/spuRs/resources/scripts/input.r |only spuRs-1.0/spuRs/resources/scripts/inventory.r |only spuRs-1.0/spuRs/resources/scripts/inventory_fig.r |only spuRs-1.0/spuRs/resources/scripts/inversionexp.r |only spuRs-1.0/spuRs/resources/scripts/inversionunif.r |only spuRs-1.0/spuRs/resources/scripts/lattice_fig.r |only spuRs-1.0/spuRs/resources/scripts/life_complete.r |only spuRs-1.0/spuRs/resources/scripts/merging_thinning_fig.r |only spuRs-1.0/spuRs/resources/scripts/negbinomial.plot.r |only spuRs-1.0/spuRs/resources/scripts/newton_fig.r |only spuRs-1.0/spuRs/resources/scripts/normalppoint.r |only spuRs-1.0/spuRs/resources/scripts/normppoint.r |only spuRs-1.0/spuRs/resources/scripts/pascal.r |only spuRs-1.0/spuRs/resources/scripts/pmf.plot.r |only spuRs-1.0/spuRs/resources/scripts/pmfex.r |only spuRs-1.0/spuRs/resources/scripts/poisproc_fig.r |only spuRs-1.0/spuRs/resources/scripts/poisson.plot.r |only spuRs-1.0/spuRs/resources/scripts/quadrootfinder.r |only spuRs-1.0/spuRs/resources/scripts/quadsimpson.r |only spuRs-1.0/spuRs/resources/scripts/regress_to_mean.r |only spuRs-1.0/spuRs/resources/scripts/rejectionidea.r |only spuRs-1.0/spuRs/resources/scripts/rnorm.test.r |only spuRs-1.0/spuRs/resources/scripts/roots_fig.r |only spuRs-1.0/spuRs/resources/scripts/secant_fig.r |only spuRs-1.0/spuRs/resources/scripts/status.r |only spuRs-1.0/spuRs/resources/scripts/status.testBW.r |only spuRs-1.0/spuRs/resources/scripts/sum.normals.r |only spuRs-1.0/spuRs/resources/scripts/tdensities.r |only spuRs-1.0/spuRs/resources/scripts/transect_fig.r |only spuRs-1.0/spuRs/resources/scripts/transforms_fig.r |only spuRs-1.0/spuRs/resources/scripts/trapezoid_fig.r |only spuRs-1.0/spuRs/resources/scripts/treegrowth.r |only spuRs-1.0/spuRs/resources/scripts/treegrowth_plot.r |only spuRs-1.0/spuRs/resources/scripts/trees.r |only spuRs-1.0/spuRs/resources/scripts/truncnorm.r |only spuRs-1.0/spuRs/resources/scripts/truncnormfit.r |only spuRs-1.0/spuRs/resources/scripts/variance_fig.r |only 82 files changed, 7 insertions(+), 7 deletions(-)
Author: Daniel Adler
Diff between rgl versions 0.83-3 dated 2009-02-24 and 0.84 dated 2009-03-15
Title: 3D visualization device system (OpenGL)
Description: 3D visualization device (OpenGL)
rgl-0.83-3/rgl/R/cube3d.R |only
rgl-0.83-3/rgl/R/qmesh3d.R |only
rgl-0.83-3/rgl/R/subdivision.qmesh3d.R |only
rgl-0.83-3/rgl/man/qmesh3d.Rd |only
rgl-0.84/rgl/DESCRIPTION | 16 ++++++++-----
rgl-0.84/rgl/NAMESPACE | 40 +++++++++++++++++++++------------
rgl-0.84/rgl/R/ellipse3d.R | 6 ++--
rgl-0.84/rgl/R/mesh3d.R |only
rgl-0.84/rgl/R/plot3d.R | 2 -
rgl-0.84/rgl/R/shapelist3d.R |only
rgl-0.84/rgl/R/solids3d.R |only
rgl-0.84/rgl/R/subdivision.mesh3d.R |only
rgl-0.84/rgl/inst/NEWS | 8 ++++++
rgl-0.84/rgl/man/ellipse3d.Rd | 2 -
rgl-0.84/rgl/man/matrices.Rd | 2 -
rgl-0.84/rgl/man/mesh3d.Rd |only
rgl-0.84/rgl/man/plot3d.Rd | 6 ++--
rgl-0.84/rgl/man/r3d.Rd | 5 ++--
rgl-0.84/rgl/man/shapelist3d.Rd |only
rgl-0.84/rgl/man/subdivision3d.Rd | 34 ++++++++++++++--------------
rgl-0.84/rgl/src/Material.cpp | 4 ++-
21 files changed, 76 insertions(+), 49 deletions(-)
More information about TeachingSampling at CRAN
Permanent link
Author: Kurt Hornik
Title: Harvest Metadata Using OAI-PMH v2.0
Description: Harvest metadata using the Open Archives Initiative
Protocol for Metadata Harvesting (OAI-PMH) version 2.0.
Diff between OAIHarvester versions 0.0-2 dated 2009-03-05 and 0.0-3 dated 2009-03-14
DESCRIPTION | 13 +++++++------ NAMESPACE | 3 ++- R/apply.R |only R/harvest.R |only R/pmh.R | 11 ++++++++++- R/transform.R | 6 ++++-- R/utils.R | 26 ++++++++++++++++++++++++++ inst/doc/oaih.Rnw | 9 ++++++--- inst/doc/oaih.pdf |binary man/harvest.Rd |only man/transform.Rd | 15 ++++++++------- man/verb.Rd | 4 ++-- 12 files changed, 65 insertions(+), 22 deletions(-)
Author: Tom Radivoyevitch
Title: Combinatorially Complex Equilibrium Model Selection
Description: Dissociation constants of quasi-equilibriums of enzymes
and protein-ligand binding equilibriums in general are
systematically scanned though possibilities of being infinity
and/or equal to others. The automatically generated space of
models is then fitted to data.
Diff between ccems versions 1.0 dated 2009-03-06 and 1.01 dated 2009-03-14
DESCRIPTION | 41 +- R/ems.R | 82 +++-- R/fitModel.R | 10 R/mkEq.R |only R/mkGrids.R | 635 ++++++++++++++++++++++------------------------ R/mkHTML.R | 6 R/mkKd2Kj.R | 4 R/mkModel.R | 5 R/mkSingleThread.R |only R/mkSpurs.R | 69 ++++ R/mkg.R | 81 +++++ R/simulateData.R | 20 + data/TK1.rda |binary inst/doc/ccems.pdf |binary inst/doc/versionNotes.txt |only inst/papers/RX/RX.r | 10 inst/papers/RX/fig5fit.r | 42 ++- inst/papers/TK1 |only man/RNR.Rd | 7 man/TK1.Rd | 10 man/ccems-package.Rd | 158 ++++++----- man/ems.Rd | 68 ++-- man/fitModel.Rd | 31 +- man/mkEq.Rd |only man/mkGrids.Rd | 101 ++++--- man/mkHTML.Rd | 6 man/mkKd2Kj.Rd | 105 +++---- man/mkModel.Rd | 73 +++-- man/mkSingleThread.Rd |only man/mkSpurs.Rd | 61 ++-- man/mkg.Rd | 57 ++-- man/simulateData.Rd | 66 +++- man/testgC.Rd | 10 33 files changed, 1029 insertions(+), 729 deletions(-)
Author: Graham Williams
Diff between rattle versions 2.4.41 dated 2009-03-04 and 2.4.45 dated 2009-03-14
Title: A graphical user interface for data mining in R using GTK
Description: Rattle (the R Analytic Tool To Learn Easily) provides a
Gnome (RGtk2) based interface to R functionality for data
mining. The aim is to provide a simple and intuitive interface
that allows a user to quickly load data from a CSV file (or via
ODBC), transform and explore the data, build and evaluate
models, and export models as PMML (predictive modelling markup
language) or as scores. All of this with knowing little about
R. All R commands are logged and commented through the log tab
and so available to the user as a script file or as an aide to
the user to interact directly with R itself. Rattle also
exports a number of utility functions and the graphical user
interface, invoked as rattle(), does not need to be run to
deploy these.
DESCRIPTION | 46 -
NAMESPACE | 1
R/audit.R |only
R/ctree.R | 14
R/data.R | 249 ++++----
R/evaluate.R | 88 +--
R/execute.R | 4
R/export.R | 4
R/hclust.R | 4
R/kmeans.R | 4
R/log.R | 6
R/model.R | 42 -
R/projects.R | 12
R/rattle.R | 282 ++++-----
R/rpart.R | 14
R/transform.R | 3
R/zzz.R | 85 ++
data/audit.RData |binary
inst/etc/rattle.glade | 1168 +++++++++++++++++++---------------------
man/acquireAuditData.Rd |only
man/audit.Rd | 81 ++
man/overwritePackageFunction.Rd | 2
man/rattle.Rd | 8
man/weather.Rd | 54 +
24 files changed, 1113 insertions(+), 1058 deletions(-)
Author: Semagul Aklan, Emine Altindas, Rabiye Macit, Senay Umar, Hatice
Unal
Title: Fuzzy numbers and the main mathematical operations
Description: This package contains functions which allow the depiction
of fuzzy numbers. Besides, the main arithmetic operations are
applied to fuzzy numbers and the extension principle for
continuous functions can be applied and plotted.
Diff between fuzzyOP versions 1.0 dated 2008-07-07 and 1.1 dated 2009-03-14
DESCRIPTION | 29 +++++++++++++++++------------ man/fuzzyOP-package.Rd | 8 ++++---- man/fuzzycheck.Rd | 2 +- man/fuzzydeltacut.Rd | 2 +- man/fuzzyfunction.Rd | 2 +- man/fuzzymax.Rd | 2 +- man/fuzzymean.Rd | 2 +- man/fuzzymin.Rd | 2 +- man/fuzzynumber.Rd | 2 +- man/fuzzypower.Rd | 2 +- man/fuzzyproduct.Rd | 2 +- man/fuzzyscalar.Rd | 2 +- man/fuzzysum.Rd | 2 +- 13 files changed, 32 insertions(+), 27 deletions(-)
Author: Tristan Senga Kiess\'{e}, Silvio S. Zocchi, C\'{e}lestin C.
Kokonendji
Title: Discrete triangular distributions
Description: This is a package for discrete triangular distributions
which complete the classical discrete distributions like
binomial, Poisson and Negative binomial.
Diff between TRIANG versions 1.0 dated 2009-03-08 and 1.1 dated 2009-03-14
DESCRIPTION | 17 ++++--- R/dtrg.R | 92 +++++++++++++++++++++++++------------- man/PackageTRIANG-package.Rd | 4 - man/dtrg.Rd | 104 ++++++++++++++++++++++++++++++------------- 4 files changed, 148 insertions(+), 69 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 0.5 dated 2008-02-04 and 0.7.1 dated 2009-03-13
DESCRIPTION | 31 ++++--- NAMESPACE | 10 +- NEWS | 3 R/aaa-biclust.r | 65 ++++++++++----- R/bimax.r | 24 ++++- R/clustmember.r |only R/drawHeatmap.r | 112 +++++++++++++------------- R/drawHeatmap2.r |only R/gibbs.r |only R/helpers.r | 192 ++++++++++++++++++++++++++++++++++++++++++++- R/parallelCoordinates.r | 97 +++++++++++++++++----- R/qhb.r |only R/questmotif.r |only R/spectral.r | 8 - man/BCBimax.rd | 4 man/BCQuest.rd |only man/BCSpectral.Rd | 10 +- man/Biclust.rd | 2 man/BiclustMethod.rd | 6 - man/biclust-method.rd | 2 man/binarize.Rd | 8 + man/bubbleplot.Rd | 6 - man/clustmember.rd |only man/drawHeatmap.Rd | 19 +++- man/parallelCoordinates.Rd | 22 +++-- man/plotclust.rd |only man/writeclust.rd |only 27 files changed, 469 insertions(+), 152 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 0.7-0 dated 2009-02-20 and 0.7-1 dated 2009-03-13
DESCRIPTION | 41 ++++++++-------- inst/CHANGES | 10 +++- inst/etc/menus.txt | 19 ------- inst/po/fr |only inst/po/pt_BR/LC_MESSAGES/R-RcmdrPlugin.survival.mo |binary inst/po/ru |only man/RcmdrPlugin.survival-package.Rd | 10 ++-- po/R-RcmdrPlugin.survival.pot | 50 +++++++++++++++++++- po/R-fr.po |only po/R-pt_BR.po | 47 ++++++++++++++++++ po/R-ru.po |only 11 files changed, 132 insertions(+), 45 deletions(-)
More information about RcmdrPlugin.survival at CRAN
Permanent link
Author: John Fox
Diff between Rcmdr versions 1.4-7 dated 2009-01-08 and 1.4-8 dated 2009-03-13
Title: R Commander
Description: A platform-independent basic-statistics GUI (graphical
user interface) for R, based on the tcltk package.
DESCRIPTION | 40 +++++++++++++--------
R/commander.R | 13 +++----
R/data-menu.R | 86 +++++++++++++++++++++++++----------------------
R/utilities.R | 76 ++++++++++++++++++++++++++++++++++-------
inst/CHANGES | 12 ++++++
inst/etc/Rcmdr-menus.txt | 6 +--
inst/etc/linux |only
man/Commander.Rd | 7 +--
man/Rcmdr-package.Rd | 4 +-
9 files changed, 161 insertions(+), 83 deletions(-)
Author: Walter R. Mebane, Jr.
Diff between rgenoud versions 5.4-7 dated 2008-01-07 and 5.5-1 dated 2009-03-13
Title: R version of GENetic Optimization Using Derivatives
Description: A genetic algorithm plus derivative optimizer
DESCRIPTION | 14 +-
man/genoud.Rd | 341 +++++++++++++++++++++++++-------------------------
src/evaluate.cpp | 12 -
tests/tests.Rout.save | 44 +++---
4 files changed, 209 insertions(+), 202 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 0.22-5 dated 2009-02-04 and 0.22-6 dated 2009-03-13
DESCRIPTION | 13 ++++++++----- data/ou2.rda |binary inst/CITATION |only inst/ChangeLog | 10 +++++++++- inst/doc/Rplots.pdf | 4 ++-- inst/doc/compiled_code_in_pomp.pdf |binary inst/doc/intro_to_pomp.pdf |binary man/eulermultinom.Rd | 5 +++-- src/eulermultinom.c | 4 ++-- 9 files changed, 24 insertions(+), 12 deletions(-)
Author: Aaron A. King
Diff between ouch versions 2.5-3 dated 2009-01-30 and 2.5-4 dated 2009-03-13
Title: Ornstein-Uhlenbeck models for phylogenetic comparative
hypotheses
Description: Fit and compare Ornstein-Uhlenbeck models for evolution
along a phylogenetic tree.
DESCRIPTION | 19 ++++++++++++-------
inst/CITATION | 8 ++++----
inst/ChangeLog | 11 +++++++++++
man/hansen.Rd | 31 +++++++++++++++++++++++--------
man/hansentree-methods.Rd | 4 ++--
5 files changed, 52 insertions(+), 21 deletions(-)
Author: John Verzani. Based on the iwidgets code of Simon Urbanek and
suggestions by Simon Urbanek, Philippe Grosjean and Michael
Lawrence
Title: gWidgets API for building toolkit-independent, interactive GUIs
Description: gWidgets provides a toolkit-independent API for building
interactive GUIs. Atleast one of the gWidgetsXXX packages, such
as gWidgetstcltk, needs to be installed. Some icons are on loan
from the scigraphica project
http://scigraphica.sourceforge.net.
Diff between gWidgets versions 0.0-32 dated 2008-12-18 and 0.0-35 dated 2009-03-13
gWidgets-0.0-32/gWidgets/inst/doc/addingToolkit.pdf.r207 |only gWidgets-0.0-32/gWidgets/inst/doc/addingToolkit.pdf.r214 |only gWidgets-0.0-32/gWidgets/inst/doc/gWidgets.pdf.r207 |only gWidgets-0.0-32/gWidgets/inst/doc/gWidgets.pdf.r214 |only gWidgets-0.0-35/gWidgets/ChangeLog | 18 gWidgets-0.0-35/gWidgets/DESCRIPTION | 16 gWidgets-0.0-35/gWidgets/R/aaaGenerics.R | 10 gWidgets-0.0-35/gWidgets/R/gcommandline.R | 123 - gWidgets-0.0-35/gWidgets/R/ggenericwidget.R | 46 gWidgets-0.0-35/gWidgets/R/zzz.R | 7 gWidgets-0.0-35/gWidgets/TODO.txt | 3 gWidgets-0.0-35/gWidgets/inst/doc/addingToolkit.pdf |binary gWidgets-0.0-35/gWidgets/inst/doc/gWidgets.pdf | 1197 +++++++-------- gWidgets-0.0-35/gWidgets/inst/doc/gWidgets.pdf.3.mine |only gWidgets-0.0-35/gWidgets/man/gWidgets-handlers.Rd | 4 gWidgets-0.0-35/gWidgets/man/gWidgets-methods.Rd | 433 ++--- gWidgets-0.0-35/gWidgets/man/gdf.Rd | 2 gWidgets-0.0-35/gWidgets/man/ggenericwidget.Rd | 3 gWidgets-0.0-35/gWidgets/man/gmenu.Rd | 2 19 files changed, 964 insertions(+), 900 deletions(-)
Author: Andy Bunn
Title: Dendrochronology Program Library in R
Description: This package contains functions for performing some
standard tree-ring analyses.
Diff between dplR versions 1.1.6 dated 2009-01-01 and 1.1.7 dated 2009-03-13
DESCRIPTION | 27 +++++++++++++++------------ R/read.rwl.R | 18 ++++++++++++++---- 2 files changed, 29 insertions(+), 16 deletions(-)
Author: Douglas Bates
Diff between Matrix versions 0.999375-21 dated 2009-02-15 and 0.999375-22 dated 2009-03-13
Title: Sparse and Dense Matrix Classes and Methods
Description: Classes and methods for dense and sparse matrices and
operations on them using Lapack and SuiteSparse.
ChangeLog | 73 ++++
DESCRIPTION | 22 -
Done | 6
NAMESPACE | 1
R/Auxiliaries.R | 5
R/Csparse.R | 2
R/Matrix.R | 32 +-
R/Ops.R | 134 +++++---
R/Tsparse.R | 9
R/bandSparse.R |only
R/dMatrix.R | 44 +-
R/ddenseMatrix.R | 5
R/dgeMatrix.R | 2
R/diagMatrix.R | 51 ++-
R/sparseMatrix.R | 5
TODO | 10
inst/doc/Comparisons.pdf |binary
inst/doc/DSC2009_abstract.txt |only
inst/doc/Design-issues.pdf |binary
inst/doc/Intro2Matrix.pdf | 573 ++++++++++++++++++-------------------
inst/doc/Introduction.pdf |binary
inst/doc/sparseModels.pdf |binary
inst/test-tools.R | 28 +
man/Diagonal.Rd | 7
man/Matrix.Rd | 5
man/band.Rd | 11
man/bandSparse.Rd |only
man/bdiag.Rd | 5
man/lsparseMatrix-classes.Rd | 4
man/sparseMatrix.Rd | 2
src/CHOLMOD/Include/cholmod_blas.h | 6
src/dense.c | 2
src/dgeMatrix.c | 17 -
src/dgeMatrix.h | 4
src/init.c | 2
tests/Simple.R | 55 ++-
tests/indexing.R | 6
tests/indexing.Rout.save | 40 +-
38 files changed, 728 insertions(+), 440 deletions(-)
Author: R-core members, Saikat DebRoy
Diff between foreign versions 0.8-33 dated 2009-02-18 and 0.8-34 dated 2009-03-12
Title: Read Data Stored by Minitab, S, SAS, SPSS, Stata, Systat, dBase,
...
Description: Functions for reading and writing data stored by
statistical packages such as Minitab, S, SAS, SPSS, Stata,
Systat, ..., and for reading and writing .dbf (dBase) files.
ChangeLog | 17 ++
DESCRIPTION | 23 ++-
R/read.dta.R | 6 +
R/spss.R | 6 +
man/read.dta.Rd | 7 +
man/read.spss.Rd | 7 +
src/avl.c | 299 +++------------------------------------------------
src/avl.h | 67 ++---------
src/file-handle.c | 10 -
src/pfm-read.c | 4
src/sfm-read.c | 26 ++--
src/spss.c | 10 -
tests/download.R |only
tests/spss.R | 1
tests/spss.Rout.save | 4
15 files changed, 114 insertions(+), 373 deletions(-)
Author: S original
Diff between boot versions 1.2-35 dated 2009-01-04 and 1.2-36 dated 2009-03-12
Title: Bootstrap R (S-Plus) Functions (Canty)
Description: functions and datasets for bootstrapping from the book
"Bootstrap Methods and Their Applications" by A. C. Davison and
D. V. Hinkley (1997, CUP).
ChangeLog | 4 ++++
DESCRIPTION | 20 +++++++++++---------
R/bootfuns.q | 20 ++++++++++----------
R/zzz.R | 2 ++
man/simplex.object.Rd | 2 +-
5 files changed, 28 insertions(+), 20 deletions(-)
Author: Miika Ahdesmaki and Korbinian Strimmer
Title: Shrinkage Discriminant Analysis and Feature Selection
Description: This package provides an efficient framework for
high-dimensional linear and diagonal discriminant analysis with
feature selection. The classifier is trained using Stein-type
shrinkage estimators and features are ranked using
correlation-adjusted t-scores. Feature selection is controlled
using false non-discovery rates or higher criticism scores.
Diff between sda versions 1.0.3 dated 2008-12-08 and 1.1.0 dated 2009-03-12
DESCRIPTION | 24 ++++++---- NEWS | 10 ++++ R/centroids.R | 16 +++++- R/predict.sda.R | 15 ++++-- R/sda.R | 73 ++----------------------------- R/sda.ranking.R |only data/khan2001.rda |binary data/singh2002.rda |only man/centroids.Rd | 3 - man/khan2001.Rd | 35 +++++++++------ man/predict.sda.Rd |only man/sda.Rd | 122 ++++++++++++++++++++++++----------------------------- man/sda.package.Rd | 28 +++++++----- man/sda.ranking.Rd |only man/singh2002.Rd |only 15 files changed, 149 insertions(+), 177 deletions(-)
Author: Petr Savicky
Diff between rngwell19937 versions 0.5-0 dated 2009-03-05 and 0.5-1 dated 2009-03-12
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
(MT), is slightly slower than MT, has better equidistribution
than MT and faster recovery from states with prevailing zeros.
The output function may be set to provide numbers with 53 or 32
random bits.
CHANGELOG |only
DESCRIPTION | 20 ++++++++++++++------
R/validate.R | 5 ++++-
3 files changed, 18 insertions(+), 7 deletions(-)
Author: Jelle Goeman
Diff between penalized versions 0.9-22 dated 2008-09-29 and 0.9-23 dated 2009-03-12
Title: L1 (lasso) and L2 (ridge) penalized estimation in GLMs and in
the Cox model
Description: A package for fitting possibly high dimensional penalized
regression models. The penalty structure can be any combination
of an L1 penalty (lasso), an L2 penalty (ridge) and a
positivity constraint on the regression coefficients. The
supported regression models are linear, logistic and poisson
regression and the Cox Proportional Hazards model.
Cross-validation routines allow optimization of the tuning
parameters.
penalized-0.9-22/penalized/inst/doc/penalized-breslowplot.eps |only
penalized-0.9-22/penalized/inst/doc/penalized-breslowplot.pdf |only
penalized-0.9-22/penalized/inst/doc/penalized-positivestepsplot.eps |only
penalized-0.9-22/penalized/inst/doc/penalized-positivestepsplot.pdf |only
penalized-0.9-22/penalized/inst/doc/penalized-profpathplot.eps |only
penalized-0.9-22/penalized/inst/doc/penalized-profpathplot.pdf |only
penalized-0.9-22/penalized/inst/doc/penalized-profplot1.eps |only
penalized-0.9-22/penalized/inst/doc/penalized-profplot1.pdf |only
penalized-0.9-22/penalized/inst/doc/penalized-profplot2.eps |only
penalized-0.9-22/penalized/inst/doc/penalized-profplot2.pdf |only
penalized-0.9-22/penalized/inst/doc/penalized-stepsplot.eps |only
penalized-0.9-22/penalized/inst/doc/penalized-stepsplot.pdf |only
penalized-0.9-22/penalized/inst/doc/penalized.aux |only
penalized-0.9-22/penalized/inst/doc/penalized.log |only
penalized-0.9-22/penalized/inst/doc/penalized.tex |only
penalized-0.9-22/penalized/inst/doc/penalized.toc |only
penalized-0.9-23/penalized/DESCRIPTION | 43
penalized-0.9-23/penalized/NAMESPACE | 2
penalized-0.9-23/penalized/R/checkinput.R | 30
penalized-0.9-23/penalized/R/core.R | 57
penalized-0.9-23/penalized/R/cox.R | 78
penalized-0.9-23/penalized/R/cvl.R | 21
penalized-0.9-23/penalized/R/linear.R | 7
penalized-0.9-23/penalized/R/logit.R | 10
penalized-0.9-23/penalized/R/penalized.R | 53
penalized-0.9-23/penalized/R/penfit.R | 31
penalized-0.9-23/penalized/R/poisson.R | 9
penalized-0.9-23/penalized/changelog.txt | 13
penalized-0.9-23/penalized/inst/doc/Rplots.pdf |only
penalized-0.9-23/penalized/inst/doc/Rplots.ps |35090 ++++------
penalized-0.9-23/penalized/inst/doc/penalized.Rnw | 7
penalized-0.9-23/penalized/inst/doc/penalized.bib | 282
penalized-0.9-23/penalized/inst/doc/penalized.pdf |binary
penalized-0.9-23/penalized/man/cvl.Rd | 2
penalized-0.9-23/penalized/man/penalized.Rd | 2
penalized-0.9-23/penalized/man/plotpath.Rd | 2
36 files changed, 17876 insertions(+), 17863 deletions(-)
Author: David Scott
Diff between HyperbolicDist versions 0.5-2 dated 2008-04-29 and 0.5-3 dated 2009-03-12
More information about HyperbolicDist at CRAN
Title: The hyperbolic distribution
Description: This package provides functions for the hyperbolic and
related distributions. Density, distribution and quantile
functions and random number generation are provided for the
hyperbolic distribution, the generalized hyperbolic
distribution, the generalized inverse Gaussian distribution and
the skew-Laplace distribution. Additional functionality is
provided for the hyperbolic distribution, including fitting of
the hyperbolic to data.
ChangeLog | 40 ++++++++++++++-
DESCRIPTION | 38 ++++++++------
R/hyperbCvMTest.R | 37 +++++++-------
R/hyperbFit.R | 54 ++++++++++----------
R/summary.hyperbFit.R | 84 ++++++++++++++++----------------
man/HyperbolicDistribution.Rd | 25 ++++-----
man/RLambda.Rd | 17 +++---
man/dghyp.Rd | 106 ++++++++++++++++++++--------------------
man/dgig.Rd | 110 +++++++++++++++++++++---------------------
man/dhyperb.Rd | 47 ++++++++---------
man/ghypCalcRange.Rd | 2
man/ghypChangePars.Rd | 28 +++++-----
man/gigCalcRange.Rd | 5 +
man/gigChangePars.Rd | 20 +++----
man/gigMean.Rd | 15 +++--
man/hyperbCalcRange.Rd | 2
man/hyperbChangePars.Rd | 32 ++++++------
man/hyperbCvMTest.Rd | 44 ++++++++--------
man/hyperbFit.Rd | 14 ++---
man/hyperbFitStart.Rd | 17 +++---
man/hyperbMean.Rd | 30 ++++++-----
man/hyperbWSqTable.Rd | 21 ++++----
man/logHist.Rd | 2
man/summary.hyperbFit.Rd | 27 ++++------
24 files changed, 433 insertions(+), 384 deletions(-)
Permanent link
Author: Andrew Gelman
Diff between mi versions 0.04-3 dated 2009-03-11 and 0.04-4 dated 2009-03-11
Title: Missing Data Imputation and Model Checking
Description: Missing-data imputation and model checking
CHANGELOG | 5 +++++
DESCRIPTION | 32 ++++++++++++++++----------------
R/mi.R | 14 +++++++-------
man/mi.Rd | 7 ++++---
4 files changed, 32 insertions(+), 26 deletions(-)
Author: Carsten F. Dormann and Bernd Gruber, with additional code from
Jochen Fruend, also based on C-code developed by Nils Bluethgen
and by Miguel Rodriguez-Girones.
Title: Visualising bipartite networks and calculating some ecological
indices.
Description: See bipartite-package for more details.
Diff between bipartite versions 0.84 dated 2009-02-25 and 0.85 dated 2009-03-11
DESCRIPTION | 27 ++++++++++++++++----------- R/plotweb.R | 37 ++++++++++++++++++++++++++----------- man/bipartite-package.Rd | 6 +++++- man/plotweb.Rd | 12 ++++++++++-- 4 files changed, 57 insertions(+), 25 deletions(-)
Author: Yu-Sung Su
Diff between R2jags versions 0.01-20 dated 2009-03-10 and 0.01-21 dated 2009-03-11
Title: A Package for Running jags from R
Description: Using this package to call jags from R.
CHANGELOG | 4 ++++
DESCRIPTION | 26 ++++++++++++++------------
R/autojags.R | 10 +++++++---
R/jags.R | 12 +++++++-----
R/jags2.R | 4 ++--
R/recompile.R | 7 ++++---
R/update.R | 6 ++++--
man/autojags.Rd | 13 ++++++++++---
man/jags.Rd | 16 +++++++++++-----
man/recompile.Rd | 12 +++++++++---
10 files changed, 72 insertions(+), 38 deletions(-)
Author: Ignacio González, Sébastien Déjean
Title: Canonical correlation analysis
Description: The package provide a set of functions that extend the
cancor function with new numerical and graphical outputs. It
also include a regularized extension of the cannonical
correlation analysis to deal with datasets with more variables
than observations.
Diff between CCA versions 1.1 dated 2007-03-20 and 1.2 dated 2009-03-11
DESCRIPTION | 20 +++++++++++++------- man/CCA-package.Rd | 1 + man/cc.Rd | 2 +- man/comput.Rd | 3 ++- man/estim.regul.Rd | 5 ++--- man/img.estim.regul.Rd | 4 +--- man/img.matcor.Rd | 2 +- man/loo.Rd | 2 +- man/matcor.Rd | 5 +---- man/nutrimouse.Rd | 7 +++++-- man/plt.cc.Rd | 3 ++- man/plt.indiv.Rd | 3 ++- man/plt.var.Rd | 1 + man/rcc.Rd | 2 +- 14 files changed, 34 insertions(+), 26 deletions(-)
Author: Tarn Duong
Diff between ks versions 1.6.1 dated 2009-02-16 and 1.6.2 dated 2009-03-11
Title: Kernel smoothing
Description: Kernel density estimators and kernel discriminant analysis
for multivariate data
DESCRIPTION | 17 ++++++++++-------
R/prelim.R | 1 +
R/selector.R | 22 +++++++++++-----------
inst/doc/kde.pdf |binary
4 files changed, 22 insertions(+), 18 deletions(-)
Author: Marek Walesiak
Diff between clusterSim versions 0.36-3 dated 2008-10-14 and 0.36-4 dated 2009-03-11
Title: Searching for optimal clustering procedure for a data set
Description: GDM Distance, Sokal-Michener Distance, Bray-Curtis
Distance, Calinski-Harabasz Index, G2 Index, G3 Index,
Silhouette Index, Krzanowski-Lai Index, Hartigan Index, Gap
Index, DB Index, Data Normalization, HINoV method, Replication
analysis for cluster validation, Clustering with several
algorithms, distances, normalizations and icq indices, Symbolic
interval distances, Plot functions, Random cluster generation
DESCRIPTION | 50 +++++++++++++++++++++-----------------------------
R/index.G1.r | 14 +++++++++++---
R/index.H.r | 19 ++++++++++++++++---
3 files changed, 48 insertions(+), 35 deletions(-)
Author: Thomas Hoffmann
Diff between fbati versions 0.6.1 dated 2009-03-10 and 0.6.2 dated 2009-03-11
Title: Gene by Environment Interaction and Conditional Gene Tests for
Nuclear Families
Description: Does family-based gene by environment interaction tests,
joint gene, gene-environment interaction test, and a test of a
set of genes conditional on another set of genes.
DESCRIPTION | 13 ++-
src/cgFbat.cpp | 187 ++++++++++++++++++++++++++++-----------------------------
2 files changed, 103 insertions(+), 97 deletions(-)
Author: Hans Bruun Nielsen and Stig Bousgaard Mortensen
Title: General-purpose unconstrained non-linear optimization
Description: An algorithm for general-purpose unconstrained non-linear optimization.
The algorithm is of quasi-Newton type with BFGS updating of the inverse
Hessian and soft line search with a trust region type monitoring of the
input to the line search algorithm. The interface of 'ucminf' is
designed for easy interchange with 'optim'.
Diff between ucminf versions 1.0-4 dated 2009-03-03 and 1.0-5 dated 2009-03-11
DESCRIPTION | 6 +++--- R/ucminf.R | 11 ++++++++--- man/ucminf.Rd | 6 ++++-- 3 files changed, 15 insertions(+), 8 deletions(-)
Author:
Andrew Gelman
Diff between mi versions 0.04-2 dated 2009-03-06 and 0.04-3 dated 2009-03-11
Title: Missing Data Imputation and Model Checking
Description: Missing-data imputation and model checking
CHANGELOG | 10 ++++++++++
DESCRIPTION | 6 +++---
R/AllClass.R | 4 ++--
R/mi.R | 43 +++++++++++++++++++------------------------
R/mi.categorical.R | 11 ++++++++---
R/mi.continuous.R | 19 ++++++++++++-------
R/mi.dichotomous.R | 27 ++++++++++++++++-----------
R/mi.polr.R | 12 ++++++++----
R/missing.pattern.plot.R | 33 ++++++++++++++++-----------------
9 files changed, 94 insertions(+), 71 deletions(-)
Author: Pierre Chausse
Diff between gmm versions 1.0-3 dated 2009-03-09 and 1.0-4 dated 2009-03-11
Title: Generalized Method of Moments and Generalized Empirical Likelihood
Description: It is a complete suite to estimate models based on moment conditions. It includes the two step Generalized method of moments (GMM) of Hansen(1982), the iterated GMM and continuous updated estimator (CUE) of Hansen-Eaton-Yaron(1996) and several methods that belong to the Generalized Empirical Likelihood (GEL) family of estimators, as presented by Smith(1997), Kitamura(1997), Newey-Smith(2004) and Anatolyev(2005).
DESCRIPTION | 8 ++++----
NEWS |only
data |only
inst |only
man/Finance.Rd |only
5 files changed, 4 insertions(+), 4 deletions(-)
Author: Thomas Hoffmann
Diff between fgui versions 0.3.1 dated 2009-02-23 and 0.3.2 dated 2009-03-11
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.
DESCRIPTION | 26 +++++++++++++-------------
1 file changed, 13 insertions(+), 13 deletions(-)
Author: Nema Dean
Diff between clustvarsel versions 1.1 dated 2006-11-30 and 1.2 dated 2009-03-11
Title: Variable Selection for Model-Based Clustering
Description: The selection method uses either a greedy search or headlong search. The greedy search at each step either checks all variables not currently included in the set of clustering variables singly for inclusion into the set or checks all variables in the set of clustering variables singly for exclusion.The headlong search only checks until a variable is included or excluded (i.e. does not necessarily check all possible variables for inclusion/exclusion at each step) and any variable with evidence of clustering below a certain level at any stage is removed from consideration for the remainder of the algorithm. Each variable's evidence for being useful to the clustering given the currently selected clustering variables is given by the difference between the BIC for the model with clustering (allowed to vary over 2 to a maximum number of groups and any of the different covariance parameterizations allowed in mclust) using the set of clustering variables including the variable being checked and the sum of BICs for the model with clustering (allowed to vary over 2 to a maximum number of groups and any of the different covariance parameterizations allowed in mclust) using the set of clustering variables without the variable being checked and the model for the variable being checked being conditionally independent of the clustering given the other clustering variables (this is modeled as a regression of the variable being checked on the other clustering variables).
clustvarsel-1.1/clustvarsel/inst/doc/clustvarsel.Rcheck |only
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clustvarsel-1.1/clustvarsel/inst/doc/varsel.vignette.toc |only
clustvarsel-1.2/clustvarsel/DESCRIPTION | 8 ++++----
clustvarsel-1.2/clustvarsel/R/clvarselnosampgr.R | 6 +++---
clustvarsel-1.2/clustvarsel/R/clvarselnosamphl.R | 6 +++---
clustvarsel-1.2/clustvarsel/R/clvarselsampgr.R | 6 +++---
clustvarsel-1.2/clustvarsel/R/clvarselsamphl.R | 6 +++---
clustvarsel-1.2/clustvarsel/inst/doc/varsel.vignette.pdf |binary
13 files changed, 16 insertions(+), 16 deletions(-)
Author: Yihui Xie
Title: Demonstrate Animations in Statistics
Description: This package consists of various functions for animations in
statistics, covering many areas such as probability theory, mathematical
statistics, multivariate statistics, nonparametric statistics, sampling
survey, linear models, time series, computational statistics, data mining
and machine learning. These functions might be of help in teaching
statistics and data analysis.
Diff between animation versions 1.0-3 dated 2009-02-15 and 1.0-4 dated 2009-03-11
DESCRIPTION | 8 ++++---- R/flip.coin.R | 2 +- R/saveMovie.R | 7 ++++--- R/saveSWF.r | 10 ++++++---- R/tidy.source2.r |only demo/00Index | 1 + demo/busybees.r |only inst/NEWS | 16 ++++++++++++++++ man/tidy.source.Rd | 7 ++++--- man/tidy.source2.Rd |only 10 files changed, 36 insertions(+), 15 deletions(-)
Author: Erin Hodgess
Diff between RcmdrPlugin.epack versions 1.1-3 dated 2008-08-09 and 1.1-4 dated 2009-03-11
More information about RcmdrPlugin.epack at CRAN
Title: Rcmdr plugin for time series
Description: This package provides an Rcmdr "plug-in" based on the
time series functions. Contributors: G. Jay Kerns, John Fox, and Richard Heiberger.
DESCRIPTION | 6 +++---
R/RcmdrPlugin.epack.R | 9 ++++++---
2 files changed, 9 insertions(+), 6 deletions(-)
Permanent link
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 0.8 dated 2008-02-17 and 0.9 dated 2009-03-11
FrF2-0.8/FrF2/inst/doc/ChangeLog.pdf |only FrF2-0.9/FrF2/DESCRIPTION | 12 +++--- FrF2-0.9/FrF2/NAMESPACE | 7 +++- FrF2-0.9/FrF2/R/FrF2.R |only FrF2-0.9/FrF2/R/pb.R |only FrF2-0.9/FrF2/R/sysdata.rda |only FrF2-0.9/FrF2/R/util.R |only FrF2-0.9/FrF2/R/words.R |only FrF2-0.9/FrF2/inst/NEWS |only FrF2-0.9/FrF2/man/CatalogueAccessors.Rd |only FrF2-0.9/FrF2/man/FrF2-package.Rd | 56 +++++++++++++++++++++----------- FrF2-0.9/FrF2/man/FrF2.Rd |only FrF2-0.9/FrF2/man/IAPlot.Rd | 2 - FrF2-0.9/FrF2/man/pb.Rd |only FrF2-0.9/FrF2/man/utilitiesCat.Rd |only FrF2-0.9/FrF2/man/utilitiesPB.Rd |only 16 files changed, 50 insertions(+), 27 deletions(-)
Author: Martyn Plummer
Title: Bayesian graphical models using MCMC
Description: Interface to the JAGS MCMC library
Diff between rjags versions 1.0.3-7 dated 2009-03-06 and 1.0.3-8 dated 2009-03-10
DESCRIPTION | 6 +++--- NAMESPACE | 3 ++- R/dic.R | 4 ++-- R/jags.R | 16 ++++++++-------- R/jags.object.R | 23 +++++++++++++---------- man/adapt.Rd |only man/coda.samples.Rd | 4 +++- man/dic.samples.Rd | 4 +++- man/jags.model.Rd | 7 +++---- man/jags.object.Rd | 34 ++++------------------------------ man/model.samples.Rd | 4 +++- man/update.Rd |only 12 files changed, 44 insertions(+), 61 deletions(-)
Author: Thomas Hoffmann
Diff between pbatR versions 2.1.2.1 dated 2009-02-23 and 2.1.4 dated 2009-03-10
Title: P2BAT
Description: This package provides data analysis via the pbat program, and an alternative internal implementation of the power calculations via simulation only. For analysis, this package provides a frontend to the PBAT software, automatically reading in the output from the pbat program and displaying the corresponding figure when appropriate (i.e. PBAT-logrank). It includes support for multiple processes and clusters. For analysis, users must download PBAT (developed by Christoph Lange) and accept it's license, available on the PBAT webpage. Both the data analysis and power calculations have command line and graphical interfaces using tcltk.
DESCRIPTION | 14 +++----
NAMESPACE | 2 +
R/cped.R | 16 +++++++-
R/createCommandfile.R | 4 ++
R/ped.R | 13 ++++++
man/cped.Rd | 93 +++++++++++++++++++++++++++++++++++++++++---------
man/ped.Rd | 5 ++
man/power.Rd | 6 +--
8 files changed, 125 insertions(+), 28 deletions(-)
Author: Thomas Hoffmann
Diff between fbati versions 0.5.2.1 dated 2009-02-23 and 0.6.1 dated 2009-03-10
Title: Gene by Environment Interaction and Conditional Gene Tests for Nuclear Families
Description: Does family-based gene by environment interaction tests, joint gene, gene-environment interaction test, and a test of a set of genes conditional on another set of genes.
.project |only
DESCRIPTION | 18 +++++++++---------
NAMESPACE | 5 +++++
R/cgFbatCode.R |only
R/cgFbatInstall.R |only
R/cgFbatRun.R |only
R/fbatShell.R |only
R/fbatcStrategyStep.R |only
R/ibatGUI.R | 2 +-
R/jbatGUI.R | 2 +-
R/launchPad.R | 10 ++++++++++
R/namespc.R | 2 +-
man/fbatc.Rd |only
man/fbatcStrategyStep.Rd |only
man/fbati.Rd | 2 +-
man/fbatj.Rd | 2 +-
man/launchpad.Rd | 2 +-
man/strataReduce.Rd | 21 +++++++++++++++++----
src/cgFbat.cpp |only
src/datamatrix.cpp | 4 ++--
src/datamatrix.h | 2 +-
src/defines.h | 6 +++++-
src/fbati.cpp | 11 +++++++++--
src/joint.cpp | 13 ++++++++-----
src/rmatrix.cpp | 12 ++++++------
src/rmatrix.h | 4 ++--
src/rvector.cpp | 12 ++++++------
src/rvector.h | 4 ++--
28 files changed, 88 insertions(+), 46 deletions(-)
Author: Gavin L. Simpson, Jari Oksanen
Title: Analogue and weighted averaging methods for palaeoecology
Description: Fits Modern Analogue Technique and Weighted Averaging transfer
function models for prediction of environmental data from species
data, and related methods used in palaeoecology.
Diff between analogue versions 0.5-2 dated 2008-05-13 and 0.6-6 dated 2009-03-10
DESCRIPTION | 10 + R/Stratiplot.R |only R/Stratiplot.formula.R |only R/analog.R | 43 +++---- R/bayesF.R | 125 +++++++++++------------ R/dissimilarities.R | 4 R/distance.R | 40 +++---- R/fuse.R |only R/fuse.dist.R |only R/fuse.matrix.R |only R/head.join.R |only R/internal.R | 28 +++++ R/logitreg.R |only R/logitreg.analog.R |only R/mat.R | 37 +++--- R/optima.R |only R/panel.Loess.R |only R/panel.Stratiplot.R |only R/plot.bayesF.R | 66 ++++++++++-- R/plot.logitreg.R |only R/plot.mcarlo.R | 110 ++++++++++---------- R/plot.roc.R | 226 +++++++++++++++++++++--------------------- R/predict.wa.R | 48 ++++++++ R/print.roc.R |only R/print.summary.roc.R |only R/reconPlot.R | 49 ++++----- R/roc.R | 189 +++++++++++++++-------------------- R/summary.logitreg.R |only R/summary.mat.R | 4 R/summary.roc.R |only R/tail.join.R |only R/tolerance.R |only R/tran.R |only R/wa.R | 61 ++++++++++- R/wa.formula.R | 4 R/zzz.R | 9 - data/Biome.rda |only data/Climate.rda |only data/ImbrieKipp.rda |only data/Location.rda |only data/Pollen.rda |only data/Salinity.rda |only data/SumSST.rda |only data/V12.122.rda |only data/WinSST.rda |only inst/CITATION | 33 ++++-- inst/ChangeLog | 163 ++++++++++++++++++++++++++++++ inst/THANKS | 16 ++ inst/TODO | 14 +- inst/doc/analogue_methods.pdf |binary man/ImbrieKipp.Rd |only man/Pollen.Rd |only man/Stratiplot.Rd |only man/analogue-internal.Rd | 2 man/bayesF.Rd | 42 ++++--- man/bootstrap.Rd | 16 +- man/bootstrapObject.Rd | 55 +++++----- man/dissimilarities.Rd | 12 +- man/distance.Rd | 25 ++-- man/fuse.Rd |only man/getK.Rd | 12 -- man/join.Rd | 35 ++++++ man/logitreg.Rd |only man/mat.Rd | 39 ++++--- man/mcarlo.Rd | 13 +- man/minDC.Rd | 16 +- man/optima.Rd |only man/panel.Loess.Rd |only man/panel.Stratiplot.Rd |only man/plot.logitreg.Rd |only man/plot.mat.Rd | 14 +- man/plot.roc.Rd | 5 man/predict.wa.Rd | 20 ++- man/roc.Rd | 77 ++++++++------ man/summary.bootstrap.mat.Rd | 102 ++++++++++-------- man/tran.Rd |only man/wa.Rd | 60 ++++++++++- 77 files changed, 1158 insertions(+), 666 deletions(-)
Author: Yu-Sung Su
Diff between R2jags versions 0.01-18 dated 2009-03-08 and 0.01-20 dated 2009-03-10
Title: A Package for Running jags from R
Description: Using this package to call jags from R.
CHANGELOG | 13 +++++++++----
DESCRIPTION | 8 ++++----
R/autojags.R | 6 +++---
R/jags.R | 12 +++++++-----
R/jags2.R | 2 +-
R/recompile.R | 6 +++---
R/update.R | 4 ++--
man/autojags.Rd | 5 +++--
man/jags.Rd | 2 +-
man/recompile.Rd | 5 +++--
10 files changed, 36 insertions(+), 27 deletions(-)
Author: S. Déjean and S. Cohen
Title: Simulation of Lévy motions
Description: The functions provided in FracSim perform simulation of one- and two-dimensional fractional and multifractional Lévy motions
Diff between FracSim versions 0.2 dated 2005-12-02 and 0.3 dated 2009-03-10
DESCRIPTION | 7 ++++--- man/fracsim.1d.Rd | 1 + man/fracsim.2d.Rd | 3 ++- 3 files changed, 7 insertions(+), 4 deletions(-)
Author: Jan de Leeuw, Patrick Mair
Title: smacof for Multidimensional Scaling.
Description: This package provides the following approaches of multidimensional scaling (MDS) based on stress minimization by means of majorization (smacof): Simple smacof on symmetric dissimilarity matrices, smacof for rectangular matrices (unfolding models), smacof with constraints on the configuration, three-way smacof for individual differences (including constraints for idioscal, indscal, and identity), and spherical smacof (primal and dual algorithm). Each of these approaches is implemented in a metric and nonmetric manner including primary, secondary, and tertiary approaches for tie handling.
Diff between smacof versions 0.9-3 dated 2009-02-07 and 0.9-5 dated 2009-03-10
DESCRIPTION | 6 +++--- NAMESPACE | 2 ++ R/plot.smacof.R | 5 ++--- R/plot.smacofID.r | 8 +++----- R/plot3d.smacof.r | 2 +- R/plot3d.smacofID.r | 2 +- R/plot3d.smacofR.r | 2 +- R/print.smacofID.R | 1 - R/smacofConstraint.R | 14 ++++++++++---- R/smacofIndDiff.R | 24 ++++++++++++++++++------ R/smacofRect.R | 13 +++++++++++-- R/smacofSphere.dual.R | 17 +++++++++++++---- R/smacofSphere.primal.R | 12 +++++++++--- R/smacofSym.R | 17 ++++++++++++----- inst |only man/plot.smacof.rd | 5 ++--- man/plot3d.smacof.rd | 10 +++++----- man/smacof-package.Rd | 4 ++-- man/smacofIndDiff.Rd | 1 - man/smacofSphere.dual.rd | 1 + 20 files changed, 96 insertions(+), 50 deletions(-)
More information about spatialsegregation at CRAN
Permanent link
Author: Terry M Therneau and Beth Atkinson
Diff between rpart versions 3.1-42 dated 2008-10-20 and 3.1-43 dated 2009-03-10
Title: Recursive Partitioning
Description: Recursive partitioning and regression trees
ChangeLog | 9 +++++++--
DESCRIPTION | 6 +++---
R/plotcp.s | 6 +++---
R/rpart.s | 12 +++++++++---
man/rpart.control.Rd | 2 +-
man/snip.rpart.Rd | 2 +-
tests/testall.Rout.save | 2 +-
7 files changed, 25 insertions(+), 14 deletions(-)
Author: S. M. Iacus
Title: Iterated Function Systems
Description: Iterated Function Systems
Diff between ifs versions 0.1-2 dated 2006-09-19 and 0.1-3 dated 2009-03-10
DESCRIPTION | 8 ++++---- 1 file changed, 4 insertions(+), 4 deletions(-)
Author: Chong Gu
Diff between gss versions 1.0-4 dated 2009-03-06 and 1.0-5 dated 2009-03-10
Title: General Smoothing Splines
Description: A comprehensive package for structural multivariate
function estimation using smoothing splines.
ChangeLog | 6 ++++++
DESCRIPTION | 4 ++--
R/rkpk.R | 16 ++++++++--------
3 files changed, 16 insertions(+), 10 deletions(-)
Author: S original by Venables & Ripley.
R port by Brian Ripley
Diff between VR versions 7.2-45 dated 2008-12-10 and 7.2-46 dated 2009-03-10
Bundle: VR
Contains: MASS class nnet spatial
DESCRIPTION | 8
MASS/NAMESPACE | 3
MASS/R/add.R | 84 ++---
MASS/R/boxcox.R | 20 -
MASS/R/confint.R | 6
MASS/R/contr.sdif.R | 10
MASS/R/corresp.R | 70 ++--
MASS/R/cov.trob.R | 3
MASS/R/dose.p.R | 4
MASS/R/eqscplot.R | 22 -
MASS/R/fitdistr.R | 22 -
MASS/R/fractions.R | 2
MASS/R/gamma.shape.R | 4
MASS/R/glmmPQL.R | 14
MASS/R/hist.scott.R | 4
MASS/R/isoMDS.R | 2
MASS/R/kde2d.R | 10
MASS/R/lda.R | 88 +++---
MASS/R/lm.gls.R | 2
MASS/R/lm.ridge.R | 4
MASS/R/loglm.R | 78 ++---
MASS/R/logtrans.R | 20 -
MASS/R/lqs.R | 20 -
MASS/R/mca.R | 22 -
MASS/R/misc.R | 8
MASS/R/mvrnorm.R | 4
MASS/R/neg.bin.R | 24 +
MASS/R/negbin.R | 54 ++-
MASS/R/negexp.R | 18 -
MASS/R/parcoord.R | 10
MASS/R/polr.R | 92 +++---
MASS/R/profiles.R | 30 +-
MASS/R/qda.R | 56 +--
MASS/R/rlm.R | 52 +--
MASS/R/rms.curv.R | 10
MASS/R/stepAIC.R | 32 +-
MASS/R/truehist.R | 6
MASS/R/write.matrix.R | 10
MASS/inst/NEWS | 1
MASS/man/Insurance.Rd | 8
MASS/man/VA.Rd | 2
MASS/man/glm.nb.Rd | 2
MASS/man/loglm.Rd | 2
MASS/man/rlm.Rd | 2
MASS/man/whiteside.Rd | 2
MASS/tests/glm.nb.R | 9
WHATS.NEW | 2
class/R/SOM.R | 6
class/R/lvq.R | 4
nnet/R/multinom.R | 702 +++++++++++++++++++++++++-------------------------
nnet/R/nnet.R | 6
nnet/R/vcovmultinom.R | 14
nnet/inst/NEWS | 1
nnet/man/nnet.Rd | 2
spatial/R/kr.R | 10
spatial/R/pp.R | 4
56 files changed, 886 insertions(+), 821 deletions(-)
Author: Harold C. Doran
Title: Miscellaneous Psychometrics
Description: Computes statistical analyses useful for applied psychometricians
Diff between MiscPsycho versions 1.3 dated 2008-10-02 and 1.4 dated 2009-03-10
MiscPsycho-1.3/MiscPsycho/inst/doc/Levenshtein.pdf |only MiscPsycho-1.4/MiscPsycho/DESCRIPTION | 6 ++--- MiscPsycho-1.4/MiscPsycho/R/cheat.R |only MiscPsycho-1.4/MiscPsycho/man/cheat.Rd |only MiscPsycho-1.4/MiscPsycho/man/class.acc.Rd | 23 ++++++++++++--------- MiscPsycho-1.4/MiscPsycho/man/pb.Rd | 2 - MiscPsycho-1.4/MiscPsycho/man/posterior.Rd | 19 ++++++++++------- MiscPsycho-1.4/MiscPsycho/man/stringMatch.Rd | 2 - 8 files changed, 31 insertions(+), 21 deletions(-)
Author: Yuanhui Xiao
Diff between CvM2SL2Test versions 0.0-1 dated 2008-08-08 and 0.0-2 dated 2009-03-10
Title: Cramer-von Mises Two Sample Tests
Description: The package contains two functions: one computes the Cramer-von Mises
two sample test scores, the other cmoputes the exact p-value(s) for given
Cramer-von Mises two-sample test score(s) under the assumption that
the populations under comparison have the same probability distribution.
Like Kolmogorov-Smirnov two-sample test, Cramer-von Mises test
is also distribution free. In certain cases, the Cramer-von Mises test
is more powerful than the Kolmogorov-Smirnov test, but it is less widely
used than the latter.
DESCRIPTION | 8 ++++----
NAMESPACE | 2 +-
man/cvmts.pval.Rd | 5 ++---
man/cvmts.test.Rd | 2 +-
src/CvM2SL2Test.cc | 3 ++-
src/XCVM.cc | 6 +++---
src/XCVM.h | 9 +++++----
src/XCVMTailProb.cc | 2 +-
src/XCVMTailProb.h | 2 +-
src/XCVMTailProb_EQ.cc | 6 +++---
src/XCVMTailProb_EQ.h | 2 +-
src/XCVMTailProb_NE1.cc | 4 ++--
src/XCVMTailProb_NE1.h | 2 +-
src/XCVMTailProb_NE2.cc | 2 +-
src/XCVMTailProb_NE2.h | 2 +-
src/XCvMTest.cc | 2 +-
src/XFreqFunct.cc | 25 +++++++++++++------------
src/XFreqFunct.h | 27 ++++++++++++++-------------
18 files changed, 57 insertions(+), 54 deletions(-)
Author: Arne Henningsen
Title: Microeconomic Analysis and Modelling
Description: Tools for microeconomic analysis and microeconomic modelling
Diff between micEcon versions 0.5-12 dated 2009-02-26 and 0.5-14 dated 2009-03-09
DESCRIPTION | 6 +++--- R/compPlot.R | 2 +- R/quadFuncCalc.R | 12 +++--------- R/quadFuncCheckCoefNames.R |only R/quadFuncDeriv.R | 10 ++++------ R/quadFuncEla.R | 10 +++------- tests/quadFunc.R | 10 +++++----- tests/quadFunc.Rout.save | 20 ++++++++++---------- tests/translog.R | 10 +++++----- tests/translog.Rout.save | 18 +++++++++--------- 10 files changed, 43 insertions(+), 55 deletions(-)
Author: Vinzenz Erhardt
Title: Zero Inflated Generalized Poisson (ZIGP) regression models
Description: Fit and analyze and compare GP, ZIP and ZIGP regression models
Diff between ZIGP versions 3.2 dated 2009-01-05 and 3.3 dated 2009-03-09
DESCRIPTION | 6 +- R/clarke.r | 103 +++++++++++++++++++++++++++++++++++++++----------- R/vuong.r | 88 +++++++++++++++++++++++++++++++++++------- inst |only man/ZIGP-package.rd | 10 ++-- man/clarke.rd | 74 ++++++++++++++++++----------------- man/vuong.rd | 107 ++++++++++++++++++++++++++-------------------------- 7 files changed, 257 insertions(+), 131 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 0.1-2 dated 2009-03-08 and 0.1-3 dated 2009-03-09
DESCRIPTION | 6 +++--- src/Makevars.in | 6 +----- src/Makevars.win | 2 +- 3 files changed, 5 insertions(+), 9 deletions(-)
Author: David Meyer, Achim Zeileis, Kurt Hornik
Title: Visualizing Categorical Data
Description: Visualization techniques, data sets, summary and inference
procedures aimed particularly at categorical data. Special
emphasis is given to highly extensible grid graphics. The
package was inspired by the book "Visualizing Categorical Data"
by Michael Friendly.
Diff between vcd versions 1.2-2 dated 2009-02-05 and 1.2-3 dated 2009-03-09
vcd-1.2-2/vcd/inst/doc/hcl-colors.pdf |only vcd-1.2-3/vcd/DESCRIPTION | 6 +++--- vcd-1.2-3/vcd/NEWS | 4 ++++ vcd-1.2-3/vcd/inst/NEWS | 4 ++++ vcd-1.2-3/vcd/inst/doc/residual-shadings.pdf | 26 +++++++++++++------------- vcd-1.2-3/vcd/inst/doc/strucplot.pdf |binary 6 files changed, 24 insertions(+), 16 deletions(-)
Author: Hsin-ya Lee
Diff between bear versions 2.2.0 dated 2009-02-12 and 2.3.0 dated 2009-03-09
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 2-treatment, 2-sequence, 1-period parallel ABE study (2x2x1).
DESCRIPTION | 10
R/ARS.r | 247 +++++-------
R/BANOVA.r | 744 +++++++++++++++----------------------
R/BANOVAanalyze.r | 30 +
R/BANOVAcsv.r | 118 +++++
R/BANOVAdata.r | 82 +++-
R/BANOVAoutput.r | 62 ++-
R/BANOVAplot.r | 104 +++--
R/Multiplemenu.r | 9
R/Multiplestatmenu.r | 11
R/NCA.BANOVAanalyze.r | 6
R/NCA.BANOVAcsv.r | 219 +++++++---
R/NCA.BANOVAdata.r | 52 +-
R/NCA.r | 208 ++++------
R/NCAanalyze.r | 111 ++++-
R/NCAcsv.r | 160 ++++++-
R/NCAdata.r | 37 +
R/NCAmenu.r | 40 +
R/NCAoutput.r | 87 +++-
R/NCAplot.r | 170 ++++++--
R/NCAsave.r | 17
R/NCAselect.r | 85 ++--
R/NCAselectsave.r | 24 +
R/ParaAIC.MIX.r |only
R/ParaAIC.r |only
R/ParaAICdemo.r |only
R/ParaAICoutput.r |only
R/ParaARS.MIX.r |only
R/ParaARS.r |only
R/ParaARSdemo.r |only
R/ParaARSoutput.r |only
R/ParaMIX.r |only
R/ParaMIXanalyze.r |only
R/ParaMIXcsv.r |only
R/ParaMIXdata.r |only
R/ParaMIXmenu.r |only
R/ParaMIXoutput.r |only
R/ParaNCA.MIX.r |only
R/ParaNCA.MIXanalyze.r |only
R/ParaNCA.MIXcsv.r |only
R/ParaNCA.MIXdata.r |only
R/ParaNCA.MIXmenu.r |only
R/ParaNCA.r |only
R/ParaNCAanalyze.r |only
R/ParaNCAcsv.r |only
R/ParaNCAdata.r |only
R/ParaNCAdemo.MIX.r |only
R/ParaNCAdemo.r |only
R/ParaNCAoutput.r |only
R/ParaNCAplot.r |only
R/ParaNCAsave.r |only
R/ParaNCAselect.MIX.r |only
R/ParaNCAselect.r |only
R/ParaNCAselectdemo.MIX.r |only
R/ParaNCAselectdemo.r |only
R/ParaNCAselectsave.MIX.r |only
R/ParaNCAselectsave.r |only
R/ParaTTT.MIX.r |only
R/ParaTTT.r |only
R/ParaTTTAIC.MIX.r |only
R/ParaTTTAIC.r |only
R/ParaTTTAICdemo.r |only
R/ParaTTTAICoutput.r |only
R/ParaTTTARS.MIX.r |only
R/ParaTTTARS.r |only
R/ParaTTTARSdemo.r |only
R/ParaTTTARSoutput.r |only
R/ParaTTTdemo.r |only
R/ParaTTToutput.r |only
R/ParademoMIX.r |only
R/Parademomenu.r |only
R/Parademomenu1.r |only
R/Paramenu.r |only
R/RepAICoutput.r | 4
R/RepARS.r | 3
R/RepARSoutput.r | 4
R/RepMIX.r | 291 ++++++++++++--
R/RepMIXanalyze.r | 60 ++
R/RepMIXcsv.r | 2
R/RepMIXdata.r | 2
R/RepMIXmenu.r | 14
R/RepMIXoutput.r | 102 ++++-
R/RepNCA.MIX.r | 3
R/RepNCA.MIXanalyze.r | 1
R/RepNCA.MIXcsv.r | 3
R/RepNCA.MIXdata.r | 4
R/RepNCA.MIXmenu.r | 21 -
R/RepNCAanalyze.r | 13
R/RepNCAdata.r | 2
R/RepNCAoutput.r | 3
R/RepNCAplot.r | 2
R/RepNCAsave.r | 2
R/RepNCAselect.MIX.r | 3
R/RepNCAselect.r | 2
R/RepNCAselectdemo.MIX.r | 1
R/RepNCAselectsave.r | 2
R/RepTTT.r | 2
R/RepTTTAIC.r | 2
R/RepTTTAICoutput.r | 2
R/RepTTTARS.r | 3
R/RepTTTARSoutput.r | 2
R/RepTTToutput.r | 2
R/Repaic.r | 2
R/RepdemoMIX.r | 3
R/Repdemomenu1.r | 3
R/Repmenu.r | 31 -
R/TTT.r | 240 +++++------
R/TTTAIC.r | 231 +++++------
R/TTTARS.r | 235 +++++------
R/aic.r | 254 +++++-------
R/demoBANOVA.r | 59 ++
R/demomenu.r | 130 +++++-
R/demomenu1.r | 149 ++++++-
R/description_NCAcsv.r | 43 +-
R/description_NCAinput.r | 15
R/description_ParaMIX.r |only
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R/description_ParaNCAinput.r |only
R/description_RepMIX.r | 2
R/description_RepNCAcsv.r | 2
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R/description_TOST1_lnAUC0INF.r |only
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R/description_plot.r | 7
R/description_size.r | 13
R/description_version.r | 4
R/logdata.r | 116 +++--
R/plotsingle.Rep.r |only
R/plotsingle.para.r |only
R/plotsingle.r |only
R/prdcount.r | 79 +++
R/sizemenu.r | 10
R/statmenu.r | 9
R/zzz.R | 8
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data/TotalSingledata.r | 2
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man/Paramenu.rd |only
man/RepAICdemo.rd | 2
man/RepARS.MIX.rd | 2
man/RepMIX.rd | 2
man/RepMIXanalyze.rd | 4
man/RepMIXdata.rd | 2
man/RepNCA.MIX.rd | 2
man/RepNCA.MIXdata.rd | 2
man/RepNCAselectdemo.MIX.rd | 2
man/RepNCAselectsave.rd | 2
man/demosize.rd | 2
man/description_ParaMIX.rd |only
man/description_ParaNCAcsv.rd |only
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man/description_RepMIX.rd | 2
man/description_TOST1_lnAUC0INF.rd |only
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man/description_TOST1_lnCmax.rd |only
man/description_TOST_lnAUC0INF.rd |only
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man/description_size.rd | 2
man/logdata.rd | 2
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217 files changed, 3150 insertions(+), 1736 deletions(-)
Author: Juan R González, Lluís Armengol, Elisabet Guinó, Xavier Solé, and Víctor Moreno
Title: SNPs-based whole genome association studies
Description: This package carries out most common analysis when performing whole genome association studies. These analyses include descriptive statistics and exploratory analysis of missing values, calculation of Hardy-Weinberg equilibrium, analysis of association based on generalized linear models (either for quantitative or binary traits), and analysis of multiple SNPs (haplotype and epistasis analysis). Permutation test and related tests (sum statistic and truncated product) are also implemented.
Diff between SNPassoc versions 1.5-7 dated 2009-03-04 and 1.5-8 dated 2009-03-09
DESCRIPTION | 6 +++--- NAMESPACE | 5 +++++ R/plot.permTest.R | 6 ++---- inst/docs/changelog.txt | 4 ++++ 4 files changed, 14 insertions(+), 7 deletions(-)
Author: S-PLUS original by Phil Everson; R port by Roger D. Peng
Diff between tlnise versions 0.2-7 dated 2008-03-26 and 1.0 dated 2009-03-09
Title: Two-level normal independent sampling estimation
Description: Functions for two level normal models as described in Everson and Morris (2000). J. R. Statist. Soc. B, 62 prt 2, pp.399--412.
DESCRIPTION | 10 +++++-----
inst/LICENSE |only
man/tlnise.Rd | 10 ++++++----
tests/reg-tests.Rout.save | 14 +++++++-------
4 files changed, 18 insertions(+), 16 deletions(-)
Author: Matthias Templ, Berhard Meindl
Title: Statistical Disclosure Control methods for the generation of public- and scientific-use files.
Description: Data from statistical agencies and other institutions are mostly confidential. This package can be used for the generation of save (micro)data, i.e. for the generation of public- and scientific-use files.
Diff between sdcMicro versions 2.5.7 dated 2009-02-10 and 2.5.8 dated 2009-03-09
DESCRIPTION | 10 +- R/addNoise.r | 2 R/microaggregation.R | 10 +- R/plot.indivRisk.r | 9 + R/summary.micro.R | 8 - R/valTable.R | 8 - R/zzz.R | 4 inst/doc/Rplots.pdf | 218 +++++++++++++++++++++++++++++++++------------ inst/doc/sdcMicroPaper.pdf |binary man/addNoise.Rd | 2 10 files changed, 187 insertions(+), 84 deletions(-)
Author: Graham Williams, Michael Hahsler (arules), Zementis Inc,
Hemant Ishwaran, Udaya B. Kogalur, Rajarshi Guha
Title: Generate PMML for various models
Description: The Predictive Modelling Markup Language (PMML) is a language
for representing models, in an application independent way. Such models
can then be loaded into other applications supporting PMML, including
ADAPA from Zementis, Teradata Warehouse Miner and IBM's DB2.
The package provides a generic pmml function to generate pmml for an
object. Using a S3 generic function the approriate method for the
class of the supplied object is dispatched.
The package currently supports the export of PMML for linear
regression, SVMs, rpart classification trees,
randomSurvivalForest forest models, and kmeans clusters.
This package is part of the Rattle toolkit.
Diff between pmml versions 1.2.9 dated 2009-03-06 and 1.2.10 dated 2009-03-09
DESCRIPTION | 6 ++--- R/pmml.R | 63 +++++++++++++++++++++++++++--------------------------- R/pmml.lm.R | 4 +-- man/pmml.Rd | 7 ++++++ man/pmml.lm.Rd | 7 ++++++ man/pmml.rpart.Rd | 4 +-- tests |only 7 files changed, 53 insertions(+), 38 deletions(-)
Author: Bernhard Pfaff
Title: Generalized Orthogonal GARCH (GO-GARCH) models
Description: Implementation of the GO-GARCH model class
Diff between gogarch versions 0.6-7 dated 2009-02-24 and 0.6-8 dated 2009-03-09
DESCRIPTION | 8 ++++---- R/Functions.R | 7 ++++--- inst/ChangeLog | 4 ++++ 3 files changed, 12 insertions(+), 7 deletions(-)
Author: Pierre Chausse
Diff between gmm versions 1.0-2 dated 2009-03-05 and 1.0-3 dated 2009-03-09
Title: Generalized Method of Moments and Generalized Empirical Likelihood
Description: It is a complete suite to estimate models based on moment conditions. It includes the two step Generalized method of moments (GMM) of Hansen(1982), the iterated GMM and continuous updated estimator (CUE) of Hansen-Eaton-Yaron(1996) and several methods that belong to the Generalized Empirical Likelihood (GEL) family of estimators, as presented by Smith(1997), Kitamura(1997), Newey-Smith(2004) and Anatolyev(2005).
DESCRIPTION | 6 +++---
R/gel.R | 4 ++--
2 files changed, 5 insertions(+), 5 deletions(-)
Author: Garrett M. Dancik
Title: Maximum Likelihood Estimates of Gaussian Processes
Description: Maximum likelihood Gaussian process modeling for univariate and multi-dimensional outputs with diagnostic plots and sensitivity analysis.
Diff between mlegp versions 2.2.5 dated 2008-12-21 and 2.2.6 dated 2009-03-08
CHANGES | 3 DESCRIPTION | 6 READ_ME | 3 inst/doc/Rplots.ps |only inst/doc/gp_ex-003.eps |only inst/doc/gp_ex-003.pdf | 285 +++++++++++++++++++++--------------------- inst/doc/gp_ex.tex |only man/CV.Rd | 2 man/FANOVADecomposition.Rd | 2 man/FANOVAFunctions.Rd | 2 man/createGP.Rd | 2 man/createWindow.Rd | 2 man/gp.list.Rd | 2 man/is.gp.Rd | 2 man/mlegp-internal.Rd | 2 man/mlegp-naming-functions.Rd | 2 man/mlegp-package.Rd | 2 man/mlegp-sa-internal.Rd | 2 man/mlegp-svd-functions.Rd | 2 man/mlegp.Rd | 2 man/nice.Rd | 2 man/nugget.Rd | 2 man/paramLookup.Rd | 2 man/plot.gp.Rd | 3 man/plot.gp.list.Rd | 2 man/plotInteractionEffect.Rd | 2 man/plotMainEffects.Rd | 21 +-- man/plotObservedEffects.Rd | 2 man/predict.gp.Rd | 2 man/print.gp.Rd | 2 man/print.gp.list.Rd | 2 man/summary.gp.Rd | 2 man/summary.gp.list.Rd | 2 src/Makevars.win | 4 34 files changed, 187 insertions(+), 186 deletions(-)
Author: Russell V. Lenth
Title: Response-surface analysis
Description: Provides functions to
generate response-surface designs,
fit first- and second-order response-surface models,
make contour plots, obtain the path of steepest ascent,
and do canonical analysis.
Diff between rsm versions 1.10 dated 2008-12-31 and 1.11 dated 2009-03-08
DESCRIPTION | 6 +++--- R/contour-lm.R | 9 +++++++-- R/sysdata.rda |binary inst/NEWS | 8 ++++++++ inst/doc/rsm.Rtex | 2 +- inst/doc/rsm.pdf |binary man/heli.Rd | 8 +++++--- 7 files changed, 24 insertions(+), 9 deletions(-)
Author: Ken Beath
Diff between randomLCA versions 0.6-1 dated 2008-11-09 and 0.6-2 dated 2009-03-08
Title: Random Effects Latent Class Analysis
Description: Fits random effects latent class models, as well as standard latent class models.
DESCRIPTION | 8 +--
R/bestlca.R | 8 ++-
R/fit.fixed.randomLCA.R | 15 ++++--
R/norm.gauss.hermite.R | 96 +++++++++++++++++++++++++++++++++++++++--
R/randomLCA.R | 16 +++++-
data/genderrole.rda |only
inst/NEWS | 12 +++++
inst/doc/randomLCA-example.Rnw | 59 +++++++++++++++++--------
inst/doc/randomLCA-example.pdf |binary
man/genderrole.Rd |only
man/hivtests.Rd | 2
man/randomLCA.Rd | 6 +-
src/bernoulliprob.c | 1
src/fixednlm.c |only
14 files changed, 184 insertions(+), 39 deletions(-)
Author: Yves Croissant
Diff between plm versions 1.1-0 dated 2009-02-25 and 1.1-1 dated 2009-03-08
Title: Linear models for panel data
Description: A set of estimators and tests for panel data
plm-1.1-0/plm/inst/doc/ldvm.bib |only
plm-1.1-0/plm/inst/doc/ldvm.tex |only
plm-1.1-1/plm/DESCRIPTION | 6
plm-1.1-1/plm/NAMESPACE | 2
plm-1.1-1/plm/R/fixef.R | 15
plm-1.1-1/plm/R/plm.formula.R | 27
plm-1.1-1/plm/R/plm.model.R | 6
plm-1.1-1/plm/R/pserial.R | 2
plm-1.1-1/plm/R/ptest.R | 4
plm-1.1-1/plm/R/pvcovHC.R | 4
plm-1.1-1/plm/changelog | 29
plm-1.1-1/plm/inst/doc/plm.pdf | 7101 +++++++++++++++++++++++++---------------
plm-1.1-1/plm/man/fixef.plm.Rd | 2
plm-1.1-1/plm/man/plm.Rd | 8
plm-1.1-1/plm/man/vcovHC.Rd | 1
15 files changed, 4583 insertions(+), 2624 deletions(-)
Author: C. Fraley and A.E. Raftery, Dept. of Statistics,
University of Washington.
R port by Ron Wehrens.
Title: Model-based cluster analysis (older version)
Description: Model-based cluster analysis: the 2002 version of MCLUST
Diff between mclust02 versions 2.1-17 dated 2008-05-16 and 2.1-18 dated 2009-03-08
CHANGELOG |only DESCRIPTION | 6 +++--- LICENSE | 8 +++++--- R/mclust02.R | 19 ++++--------------- man/density.Rd | 4 +--- man/estep.Rd | 10 +++++----- man/estepE.Rd | 14 +++++--------- man/me.Rd | 4 ++-- man/meE.Rd | 11 ++++++----- man/mstep.Rd | 9 +++++---- man/mstepE.Rd | 9 +++++---- man/plot.Mclust.Rd | 2 +- man/plot.mclustDA.Rd | 2 +- man/sim.Rd | 2 +- man/simE.Rd | 2 ++ man/summary.EMclust.Rd | 2 +- man/summary.EMclustN.Rd | 2 +- man/summary.Mclust.Rd | 2 +- man/summary.mclustDAtest.Rd | 2 +- man/summary.mclustDAtrain.Rd | 2 +- 20 files changed, 51 insertions(+), 61 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 dated 2008-11-30 and 3.1-10.3 dated 2009-03-08
CHANGELOG | 9 DESCRIPTION | 6 LICENSE | 8 man/mstep.Rd | 12 man/mstepE.Rd | 10 man/priorControl.Rd | 1 src/mclust.f | 1703 ++-------------------------------------------------- 7 files changed, 101 insertions(+), 1648 deletions(-)
Author: Zachariah Gompert, C. Alex Buerkle
Title: introgress
Description: introgress provides functions for analyzing introgression of genotypes between divergent, hybridizing lineages, including estimating genomic clines from multi-locus genotype data and testing for deviations from neutral expectations. Functions are also provided for maximum likelihood estimation of molecular hybrid index and graphical analysis.
Diff between introgress versions 1.0 dated 2009-02-25 and 1.1 dated 2009-03-08
DESCRIPTION | 4 R/clines.plot.R | 9 +- R/fit.c.clines.R | 29 ------ R/fit.invariant.clines.R |only R/genomic.clines.R | 185 +++++++++++++++++++++++++------------------- R/per.locus.like.R | 17 +++- data/LociDataSim1.rda |binary data/LociDataSim2.rda |binary man/AdmixDataSim1.Rd | 4 man/AdmixDom.Rd | 2 man/LociD.Rd | 2 man/LociDataSim1.Rd | 2 man/clines.plot.Rd | 7 - man/compare.clines.Rd | 6 - man/est.h.Rd | 4 man/fit.invariant.clines.Rd |only man/genomic.clines.Rd | 6 + man/introgress-package.Rd | 4 man/prepare.data.Rd | 6 - 19 files changed, 153 insertions(+), 134 deletions(-)
Author: Mark S. Handcock
Diff between ergm versions 2.2-0 dated 2009-03-01 and 2.2-1 dated 2009-03-08
Title: Fit, Simulate and Diagnose Exponential-Family Models for Networks
Description: An integrated set of tools to analyze and simulate networks based on exponential-family random graph models (ERGM). "ergm" is a part of the "statnet" suite of packages for network analysis. For a list of functions type: help(package='ergm')
DESCRIPTION | 6 +++---
R/ergm.getMCMCsample.R | 31 +++++++++++++++----------------
R/ergm.mainfitloop.R | 11 +++--------
R/mcmc.diagnostics.ergm.R | 8 ++++++--
R/print.summary.ergm.R | 16 ++++------------
5 files changed, 31 insertions(+), 41 deletions(-)
Author: Luke Tierney
Diff between codetools versions 0.2-1 dated 2008-04-02 and 0.2-2 dated 2009-03-08
Title: Code Analysis Tools for R
Description: Code analysis tools for R
DESCRIPTION | 4 ++--
R/codetools.R | 7 +++++--
2 files changed, 7 insertions(+), 4 deletions(-)
Author: Heather Stoll
Diff between WhatIf versions 1.5-4 dated 2007-10-14 and 1.5-5 dated 2009-03-08
Title: WhatIf: Software for Evaluating Counterfactuals
Description: Inferences about counterfactuals are essential for prediction,
answering what if questions, and estimating causal effects.
However, when the counterfactuals posed are too far from the data at
hand, conclusions drawn from well-specified statistical analyses
become based largely on speculation hidden in convenient modeling
assumptions that few would be willing to defend. Unfortunately,
standard statistical approaches assume the veracity of the model
rather than revealing the degree of model-dependence, which makes this
problem hard to detect. WhatIf offers easy-to-apply methods to
evaluate counterfactuals that do not require sensitivity testing over
specified classes of models. If an analysis fails the tests offered
here, then we know that substantive inferences will be sensitive to at
least some modeling choices that are not based on empirical evidence,
no matter what method of inference one chooses to use. WhatIf
implements the methods for evaluating counterfactuals discussed in
Gary King and Langche Zeng, 2006, "The Dangers of Extreme
Counterfactuals," Political Analysis 14 (2); and Gary
King and Langche Zeng, 2007, "When Can History Be Our Guide? The
Pitfalls of Counterfactual Inference," International Studies
Quarterly 51 (March).
DESCRIPTION | 6
inst/doc/index.shtml | 2
inst/doc/whatif.aux | 2
inst/doc/whatif.bbl | 17
inst/doc/whatif.blg | 26
inst/doc/whatif.log | 22
inst/doc/whatif.pdf | 1435 +++++++++++++++++++++++++--------------------------
inst/doc/whatif.tex | 2
8 files changed, 766 insertions(+), 746 deletions(-)
Author: Yu-Sung Su
Diff between R2jags versions 0.01-17 dated 2009-03-05 and 0.01-18 dated 2009-03-08
Title: A Package for Running jags from R
Description: Using this package to call jags from R.
CHANGELOG | 5 +++++
DESCRIPTION | 8 ++++----
R/autojags.R | 14 +++++++-------
R/jags2.R | 7 ++++---
R/recompile.R | 6 +++---
R/update.R | 2 +-
man/jags.Rd | 3 ++-
man/jags2bugs.Rd | 2 +-
man/recompile.Rd | 5 +++--
9 files changed, 30 insertions(+), 22 deletions(-)
Author: Jon T. Schnute
Diff between PBSmodelling versions 2.01 dated 2008-10-26 and 2.06 dated 2009-03-08
Title: PBS Modelling 2.06
Description: PBS Modelling provides software to facilitate the design,
testing, and operation of computer models. It focuses particularly on
tools that make it easy to construct and edit a customized graphical
user interface (GUI). Although it depends heavily on the R interface
to the Tcl/Tk package, a user does not need to know Tcl/Tk. The
package contains examples that illustrate models built with other R
packages, including PBSmapping, deSolve, PBSddesolve, and BRugs.
It also serves as a convenient prototype for building new R packages,
along with instructions and batch files to facilitate that process.
The R directory '.../library/PBSmodelling/doc' includes a complete user
guide PBSmodelling-UG.pdf. To use this package effectively,
please consult the guide.
PBSmodelling-2.01/PBSmodelling/inst/examples/YPRWin.txt |only
PBSmodelling-2.06/PBSmodelling/DESCRIPTION | 14
PBSmodelling-2.06/PBSmodelling/NAMESPACE | 3
PBSmodelling-2.06/PBSmodelling/R/guiFuns.r | 160
PBSmodelling-2.06/PBSmodelling/R/listFuns.r |only
PBSmodelling-2.06/PBSmodelling/R/plotFuns.r |only
PBSmodelling-2.06/PBSmodelling/R/projectFuns.r | 30
PBSmodelling-2.06/PBSmodelling/R/supportFuns.r | 2023 ++--------
PBSmodelling-2.06/PBSmodelling/R/widgetDefs.r | 4
PBSmodelling-2.06/PBSmodelling/R/zzz.r | 4
PBSmodelling-2.06/PBSmodelling/inst/PBStools/RPaths.bat | 2
PBSmodelling-2.06/PBSmodelling/inst/PBStools/RmakePDF3.bat |only
PBSmodelling-2.06/PBSmodelling/inst/doc/00ReadMe.txt | 22
PBSmodelling-2.06/PBSmodelling/inst/doc/ChangeLog.txt | 48
PBSmodelling-2.06/PBSmodelling/inst/doc/PBSmodelling-UG.pdf |binary
PBSmodelling-2.06/PBSmodelling/inst/doc/PBSmodelling-Updates.pdf |only
PBSmodelling-2.06/PBSmodelling/inst/doc/PBSmodellingIntro.pdf |binary
PBSmodelling-2.06/PBSmodelling/inst/doc/index.html | 2
PBSmodelling-2.06/PBSmodelling/inst/examples/CCA.r | 6
PBSmodelling-2.06/PBSmodelling/inst/examples/SGM.r | 2
PBSmodelling-2.06/PBSmodelling/inst/examples/TestFuns.r | 6
PBSmodelling-2.06/PBSmodelling/inst/examples/TestFunsWin.txt | 4
PBSmodelling-2.06/PBSmodelling/inst/examples/YPR.r | 2
PBSmodelling-2.06/PBSmodelling/inst/examples/runExamplesWin.txt | 2
PBSmodelling-2.06/PBSmodelling/inst/examples/yprWin.txt |only
PBSmodelling-2.06/PBSmodelling/man/cleanProj.Rd | 5
PBSmodelling-2.06/PBSmodelling/man/cleanWD.Rd |only
PBSmodelling-2.06/PBSmodelling/man/convSlashes.Rd |only
PBSmodelling-2.06/PBSmodelling/man/doAction.Rd |only
PBSmodelling-2.06/PBSmodelling/man/evalCall.Rd |only
PBSmodelling-2.06/PBSmodelling/man/getPrefix.Rd |only
PBSmodelling-2.06/PBSmodelling/man/getSuffix.Rd |only
PBSmodelling-2.06/PBSmodelling/man/packList.Rd |only
PBSmodelling-2.06/PBSmodelling/man/plotBubbles.Rd | 14
PBSmodelling-2.06/PBSmodelling/man/readList.Rd | 2
PBSmodelling-2.06/PBSmodelling/man/runDemos.Rd | 4
PBSmodelling-2.06/PBSmodelling/man/showArgs.Rd | 18
PBSmodelling-2.06/PBSmodelling/man/showPacks.Rd |only
PBSmodelling-2.06/PBSmodelling/man/testAlpha.Rd |only
PBSmodelling-2.06/PBSmodelling/man/viewCode.Rd |only
PBSmodelling-2.06/PBSmodelling/man/writeList.Rd | 11
41 files changed, 652 insertions(+), 1736 deletions(-)
Author: Christian Kleiber, Achim Zeileis
Title: Applied Econometrics with R
Description: Functions, data sets, examples, demos, and vignettes for the book
Christian Kleiber and Achim Zeileis (2008),
Applied Econometrics with R, Springer-Verlag, New York.
ISBN 978-0-387-77316-2. (See the vignette for a package overview.)
Diff between AER versions 1.1-0 dated 2009-02-05 and 1.1-1 dated 2009-03-08
DESCRIPTION | 6 +++--- NEWS | 11 +++++++++++ inst/doc/AER.Rnw | 17 +++++++++++++---- inst/doc/AER.pdf |binary inst/doc/Sweave-journals.pdf | 10 +++++----- inst/doc/aer.bib | 2 +- man/Baltagi2002.Rd | 3 +-- man/CigarettesB.Rd | 3 +-- man/Fatalities.Rd | 18 +++++++++--------- man/Grunfeld.Rd | 6 +++--- man/OECDGas.Rd | 7 +++---- man/StockWatson2007.Rd | 18 +++++++++--------- man/TravelMode.Rd | 8 +++----- tests/Ch-Basics.Rout.save | 8 ++++++++ tests/Ch-Intro.Rout.save | 8 ++++++++ tests/Ch-LinearRegression.Rout.save | 34 +++++++++++++++++++++++++--------- tests/Ch-Microeconometrics.Rout.save | 8 ++++++++ tests/Ch-Programming.Rout.save | 8 ++++++++ tests/Ch-TimeSeries.Rout.save | 8 ++++++++ tests/Ch-Validation.Rout.save | 8 ++++++++ 20 files changed, 135 insertions(+), 56 deletions(-)
Author: Duncan Temple Lang (duncan@wald.ucdavis.edu)
Title: Tools for parsing and generating XML within R and S-Plus.
Description: This package provides many approaches for both reading and creating XML (and HTML)
documents (including DTDs), both local and accessible via HTTP or FTP. It also offers
access to an XPath "interpreter".
Diff between XML versions 2.1-0 dated 2009-02-19 and 2.3-0 dated 2009-03-06
XML-2.1-0/XML/inst/expat |only XML-2.1-0/XML/inst/libxml |only XML-2.3-0/XML/Changes | 23 XML-2.3-0/XML/DESCRIPTION | 5 XML-2.3-0/XML/INSTALL | 2 XML-2.3-0/XML/NAMESPACE | 6 XML-2.3-0/XML/R/XMLClasses.R | 7 XML-2.3-0/XML/R/hashTree.R | 2 XML-2.3-0/XML/R/parseDTD.R | 2 XML-2.3-0/XML/R/summary.R | 3 XML-2.3-0/XML/R/tree.R | 2 XML-2.3-0/XML/R/xmlInternalSource.R | 17 XML-2.3-0/XML/R/xmlNodes.R | 104 XML-2.3-0/XML/configure | 5120 +++++++++++--------- XML-2.3-0/XML/configure.win | 8 XML-2.3-0/XML/inst/exampleData/functionTemplate.xml |only XML-2.3-0/XML/inst/exampleData/generalInfo.xml |only XML-2.3-0/XML/man/ensureNamespace.Rd |only XML-2.3-0/XML/man/findXInclude.Rd |only XML-2.3-0/XML/man/getLineNumber.Rd |only XML-2.3-0/XML/man/parseDTD.Rd | 2 XML-2.3-0/XML/man/xmlChildren.Rd | 9 XML-2.3-0/XML/man/xmlValue.Rd | 1 XML-2.3-0/XML/src/DocParse.c | 14 XML-2.3-0/XML/src/RUtils.c | 10 XML-2.3-0/XML/src/Utils.h | 2 XML-2.3-0/XML/src/XMLEventParse.c | 3 XML-2.3-0/XML/src/XMLTree.c | 10 28 files changed, 3017 insertions(+), 2335 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 2.41 dated 2008-12-04 and 2.42 dated 2009-03-06
MasterBayes-2.41/MasterBayes/R/order.ped.R |only MasterBayes-2.41/MasterBayes/man/order.ped.Rd |only MasterBayes-2.42/MasterBayes/DESCRIPTION | 8 ++-- MasterBayes-2.42/MasterBayes/NAMESPACE | 2 - MasterBayes-2.42/MasterBayes/R/ErrorCheck.R | 2 - MasterBayes-2.42/MasterBayes/R/MCMCped.R | 4 +- MasterBayes-2.42/MasterBayes/R/getXlist.R | 34 --------------------- MasterBayes-2.42/MasterBayes/R/getsPandtP.R | 4 +- MasterBayes-2.42/MasterBayes/R/legalG.R | 2 - MasterBayes-2.42/MasterBayes/R/orderPed.R |only MasterBayes-2.42/MasterBayes/inst/CITATION |only MasterBayes-2.42/MasterBayes/inst/doc/Tutorial.pdf |binary MasterBayes-2.42/MasterBayes/man/MasterBayes.Rd | 2 - MasterBayes-2.42/MasterBayes/man/getXlist.Rd | 3 - MasterBayes-2.42/MasterBayes/man/legalG.Rd | 2 - MasterBayes-2.42/MasterBayes/man/orderPed.Rd |only MasterBayes-2.42/MasterBayes/man/priorPed.Rd | 2 - MasterBayes-2.42/MasterBayes/src/MCMCped.cc | 8 ++-- MasterBayes-2.42/MasterBayes/src/SampD.cc | 4 +- MasterBayes-2.42/MasterBayes/src/SampG.cc | 14 ++++---- MasterBayes-2.42/MasterBayes/src/SampS.cc | 4 +- MasterBayes-2.42/MasterBayes/src/calcX_Gcervus.cc | 9 +---- 22 files changed, 33 insertions(+), 71 deletions(-)
Author: Matthias Templ, Karel Hron, Peter Filzmoser
Title: Robust Estimation for Compositional Data.
Description: This first version of the package includes methods for imputation
of compositional data including robust methods.
The package will be enhanced with other multivariate methods for compositional
data in near future.
Diff between robCompositions versions 1.0.1 dated 2009-01-20 and 1.2 dated 2009-03-06
DESCRIPTION | 27 NAMESPACE | 3 R/adjust.R | 16 R/alrEM.R |only R/impCoda.R | 52 + R/zzz.R | 6 inst/doc/Rplots.pdf |only inst/doc/bxp.pdf |only inst/doc/imputation-boxplot.eps |only inst/doc/imputation-boxplot.pdf | 300 +++++++- inst/doc/imputation-plot-acomp.eps |only inst/doc/imputation-plot-acomp.pdf |only inst/doc/imputation.Rnw | 29 inst/doc/imputation.log |only inst/doc/imputation.pdf | 1277 +++++++++++++++++++++---------------- inst/doc/imputation.tex |only inst/doc/refPCSn.bib |only man/alrEM.Rd |only man/impCoda.Rd | 7 19 files changed, 1121 insertions(+), 596 deletions(-)
More information about robCompositions at CRAN
Permanent link
Author: Martyn Plummer
Title: Bayesian graphical models using MCMC
Description: Interface to the JAGS MCMC library
Diff between rjags versions 1.0.3-6 dated 2009-03-06 and 1.0.3-7 dated 2009-03-06
rjags-1.0.3-6/rjags/NAMESPACE.keep |only rjags-1.0.3-7/rjags/DESCRIPTION | 6 +++--- rjags-1.0.3-7/rjags/R/dic.R | 2 +- 3 files changed, 4 insertions(+), 4 deletions(-)
Author: Graham Williams, Michael Hahsler (arules), Zementis Inc,
Hemant Ishwaran, Udaya B. Kogalur, Rajarshi Guha
Title: Generate PMML for various models
Description: The Predictive Modelling Markup Language (PMML) is a language
for representing models, in an application independent way. Such models
can then be loaded into other applications supporting PMML, including
ADAPA from Zementis, Teradata Warehouse Miner and IBM's DB2.
The package provides a generic pmml function to generate pmml for an
object. Using a S3 generic function the approriate method for the
class of the supplied object is dispatched.
The package currently supports the export of PMML for linear
regression, SVMs, rpart classification trees,
randomSurvivalForest forest models, and kmeans clusters.
This package is part of the Rattle toolkit.
Diff between pmml versions 1.2.8 dated 2009-03-03 and 1.2.9 dated 2009-03-06
DESCRIPTION | 6 +-- R/pmml.R | 5 +-- R/pmml.lm.R | 93 ++++++++++++++++++++++++++++++++++++++---------------------- 3 files changed, 65 insertions(+), 39 deletions(-)
Author: Markus Kalisch, Martin Maechler
Title: Estimating the skeleton and equivalence class of a DAG
Description: Standard and robust estimation of the skeleton (ugraph)
and the equivalence class of a Directed Acyclic Graph (DAG) via the
PC-Algorithm. The equivalence class is represented by its (unique)
Completetd Partially Directed Acyclic Graph (CPDAG). The
function pcSelect implements variable selection techniques. beta.special
computes the "causal" effect (see Description).
Diff between pcalg versions 0.1-7 dated 2008-04-16 and 0.1-8 dated 2009-03-06
pcalg-0.1-7/pcalg/inst/doc/Sweave-pcalg.aux |only pcalg-0.1-7/pcalg/inst/doc/Sweave-pcalg.log |only pcalg-0.1-7/pcalg/inst/doc/Sweave-pcalg.tex |only pcalg-0.1-8/pcalg/DESCRIPTION | 13 pcalg-0.1-8/pcalg/NAMESPACE | 13 pcalg-0.1-8/pcalg/R/pcalg.R | 1410 ++++++++++++++++++++++++---- pcalg-0.1-8/pcalg/inst/doc/Sweave-pcalg.pdf |binary pcalg-0.1-8/pcalg/man/beta.special.Rd |only pcalg-0.1-8/pcalg/man/beta.special.pcObj.Rd |only pcalg-0.1-8/pcalg/man/decHeur.Rd | 12 pcalg-0.1-8/pcalg/man/pcAlgo.Rd | 42 pcalg-0.1-8/pcalg/man/pcalg-internal.Rd | 8 pcalg-0.1-8/pcalg/man/pdag2dag.Rd | 7 pcalg-0.1-8/pcalg/man/shd.Rd | 2 pcalg-0.1-8/pcalg/man/udag2pdag.Rd | 33 pcalg-0.1-8/pcalg/man/udag2pdagRelaxed.Rd |only pcalg-0.1-8/pcalg/man/udag2pdagSpecial.Rd |only 17 files changed, 1319 insertions(+), 221 deletions(-)
Author: Patrick Mair, Reinhold Hatzinger
Title: Extended Rasch Modeling.
Description: eRm fits Rasch models (RM), linear logistic test models (LLTM), rating scale model (RSM), linear rating scale models (LRSM), partial credit models (PCM), and linear partial credit models (LPCM). Missing values are allowed in the data matrix. Additional features are the ML estimation of the person parameters, Andersen's LR-test, item-specific Wald test, itemfit and personfit statistics including infit and outfit measures, various ICC and related plots, automated stepwise item elimination, simulation module for various binary data matrices. An eRm platform is provided at R-forge (see URL).
Diff between eRm versions 0.10-1 dated 2008-07-20 and 0.10-2 dated 2009-03-06
DESCRIPTION | 7 ++++--- inst/doc/eRmvig.pdf |binary man/eRm-package.Rd | 4 ++-- man/plotICC.Rd | 7 +++---- 4 files changed, 9 insertions(+), 9 deletions(-)
Author: Jarrod Hadfield
Title: MCMC Generalised Linear Mixed Models
Description: MCMC Generalised Linear Mixed Models
Diff between MCMCglmm versions 1.04 dated 2009-03-03 and 1.05 dated 2009-03-06
DESCRIPTION | 6 +++--- R/MCMCglmm.R | 18 +++++++++--------- inst/doc/Figures/Tutorial.Rnw | 2 +- inst/doc/Tutorial.Rnw | 2 +- inst/doc/Tutorial.pdf |binary 5 files changed, 14 insertions(+), 14 deletions(-)
Author: Pedro Brasil
Diff between DiagnosisMed versions 0.1.2 dated 2008-10-15 and 0.1.2.1 dated 2009-03-06
Title: Diagnostic test accuracy evaluation for medical professionals.
Description: DiagnosisMed is a package to analyze data from diagnostic test accuracy evaluating health conditions. It is being built to be used by health professionals. This package is - or soon will be - able to estimate sample size for common situations in diagnostic test accuracy, estimate sensitivity and specificity from categorical and continuous test results including some evaluations of indeterminate results, or compare different analysis strategies into measures commonly used by health professionals.
DESCRIPTION | 7 +--
R/ROC.r | 106 ++++++++++++++++++++++++----------------------------
man/ROC.Rd | 37 ++++++++++--------
man/diagnosis.Rd | 6 +-
man/interact.ROC.Rd | 24 ++++++++---
man/plot.diag.Rd | 6 +-
6 files changed, 98 insertions(+), 88 deletions(-)
Author: Mark Bravington, Karen Martien, Dave Gregovich
Title: Testing of Spatial Structure Methods
Description: Provides a framework under which methods of detecting and managing genetic spatial structure in populations can be tested.
Diff between tossm versions 1.1 dated 2009-01-05 and 1.2 dated 2009-03-06
tossm-1.1/tossm/R/TAC.split.by.f.R |only tossm-1.1/tossm/R/abind.mvb.R |only tossm-1.1/tossm/R/adjust.pop.dyn.R |only tossm-1.1/tossm/R/agg.gs.series.R |only tossm-1.1/tossm/R/as.smat.R |only tossm-1.1/tossm/R/breed.grow.die.R |only tossm-1.1/tossm/R/count.whales.b.R |only tossm-1.1/tossm/R/divvy.catch.R |only tossm-1.1/tossm/R/fast.trans.R |only tossm-1.1/tossm/R/fixed.MU.BSA.R |only tossm-1.1/tossm/R/get.SRM.R |only tossm-1.1/tossm/R/harvest.R |only tossm-1.1/tossm/R/in.gpc.R |only tossm-1.1/tossm/R/km.simple.demo.R |only tossm-1.1/tossm/R/old.bgd.R |only tossm-1.1/tossm/R/poly.intersect.R |only tossm-1.1/tossm/R/poly.union.R |only tossm-1.1/tossm/R/prepare.rland.R |only tossm-1.1/tossm/R/print.printinfo.R |only tossm-1.1/tossm/R/print.tossm.obj.R |only tossm-1.1/tossm/R/rsample.R |only tossm-1.1/tossm/R/set.interval.polys.R |only tossm-1.1/tossm/R/sim.abund.est.R |only tossm-1.1/tossm/R/single.MU.BSA.R |only tossm-1.1/tossm/R/sqr.R |only tossm-1.1/tossm/R/structure.batch.BSA.R |only tossm-1.1/tossm/R/zzz.R |only tossm-1.1/tossm/data/rland.end.rda |only tossm-1.1/tossm/inst/TOSSM_user_manual.pdf |only tossm-1.1/tossm/man/internal.Rd |only tossm-1.1/tossm/man/rland.end.Rd |only tossm-1.2/tossm/DESCRIPTION | 11 +++++----- tossm-1.2/tossm/NAMESPACE |only tossm-1.2/tossm/R/CLA.R | 3 +- tossm-1.2/tossm/R/MU.poly.generator.R | 6 +++-- tossm-1.2/tossm/R/PBR.R | 5 ++-- tossm-1.2/tossm/R/TOSSM.utils.R |only tossm-1.2/tossm/R/agg.gs.to.gtypes.R | 4 +-- tossm-1.2/tossm/R/agg.gs.tseries.R | 25 +++++++++++++++++++++++- tossm-1.2/tossm/R/breed.grow.die.funcs.R |only tossm-1.2/tossm/R/calc.effort.R | 3 +- tossm-1.2/tossm/R/count.alleles.by.f.R |only tossm-1.2/tossm/R/def.depleter.R | 6 +---- tossm-1.2/tossm/R/def.genetic.sampler.R | 3 +- tossm-1.2/tossm/R/def.make.schedule.R | 3 +- tossm-1.2/tossm/R/def.set.coords.R | 3 +- tossm-1.2/tossm/R/divvy.BPs.R | 6 +---- tossm-1.2/tossm/R/fixed.BSA.R |only tossm-1.2/tossm/R/generate.coords.R | 6 +---- tossm-1.2/tossm/R/get.FIMA.R |only tossm-1.2/tossm/R/humpbackism.R |only tossm-1.2/tossm/R/hyptest.network.BSA.R | 5 +--- tossm-1.2/tossm/R/hyptest.seq.BSA.R |only tossm-1.2/tossm/R/index.to.state.R | 2 - tossm-1.2/tossm/R/mixmat.R |only tossm-1.2/tossm/R/new.harvest.R |only tossm-1.2/tossm/R/randomism.R |only tossm-1.2/tossm/R/run.mvb.example2.R |only tossm-1.2/tossm/R/run.tossm.R | 3 +- tossm-1.2/tossm/R/sysdata.rda |binary tossm-1.2/tossm/R/tossm.diagnostics.R | 4 +-- tossm-1.2/tossm/R/tossm.plotter.R | 5 ++-- tossm-1.2/tossm/R/wombsoft.BSA.R | 6 +---- tossm-1.2/tossm/R/write.mainparams.R | 5 ++-- tossm-1.2/tossm/data/example.landscape.rda |only tossm-1.2/tossm/inst/TOSSM_dataset_handbook.pdf |binary tossm-1.2/tossm/inst/TOSSM_users_guide.pdf |only tossm-1.2/tossm/man/00tossm-package.Rd | 5 +--- tossm-1.2/tossm/man/MU.poly.generator.Rd | 2 - tossm-1.2/tossm/man/def.genetic.sampler.Rd | 2 - tossm-1.2/tossm/man/def.make.schedule.Rd | 8 ++++--- tossm-1.2/tossm/man/example.historic.polys.Rd | 2 - tossm-1.2/tossm/man/example.landscape.Rd |only tossm-1.2/tossm/man/hyptest.network.BSA.Rd | 9 +++----- tossm-1.2/tossm/man/run.tossm.Rd | 6 ++--- tossm-1.2/tossm/src/MANAGE-D.f | 2 - 76 files changed, 88 insertions(+), 62 deletions(-)
Author:
Andrew Gelman
Diff between mi versions 0.02-03 dated 2009-01-07 and 0.04-2 dated 2009-03-06
Title: Missing Data Imputation and Model Checking
Description: Missing-data imputation and model checking
mi-0.02-03/mi/R/mi.logcontinuous.R |only
mi-0.02-03/mi/R/mi.mixed.R |only
mi-0.02-03/mi/R/mi.sqrtcontinuous.R |only
mi-0.02-03/mi/R/mi.start.R |only
mi-0.02-03/mi/man/mi.logcontinuous.Rd |only
mi-0.02-03/mi/man/mi.mixed.Rd |only
mi-0.02-03/mi/man/mi.sqrtcontinuous.Rd |only
mi-0.02-03/mi/man/mi.start.Rd |only
mi-0.04-2/mi/CHANGELOG | 53 ++
mi-0.04-2/mi/DESCRIPTION | 8
mi-0.04-2/mi/NAMESPACE | 80 +--
mi-0.04-2/mi/R/AllClass.R | 124 +++---
mi-0.04-2/mi/R/AllGeneric.R | 115 ++++-
mi-0.04-2/mi/R/AllInternal.R | 146 ++++++-
mi-0.04-2/mi/R/coef.R | 60 +-
mi-0.04-2/mi/R/display.R | 12
mi-0.04-2/mi/R/fitted.R | 30 -
mi-0.04-2/mi/R/glm.mi.R | 25 -
mi-0.04-2/mi/R/imputation.models.R | 50 +-
mi-0.04-2/mi/R/imputed.R | 23 -
mi-0.04-2/mi/R/lm.mi.R | 18
mi-0.04-2/mi/R/load.first.R | 4
mi-0.04-2/mi/R/mi.R | 635 +++++++++++++++++++++----------
mi-0.04-2/mi/R/mi.categorical.R | 178 ++------
mi-0.04-2/mi/R/mi.completed.R | 57 +-
mi-0.04-2/mi/R/mi.continuous.R | 118 ++---
mi-0.04-2/mi/R/mi.count.R |only
mi-0.04-2/mi/R/mi.dichotomous.R | 161 ++++---
mi-0.04-2/mi/R/mi.fixed.R | 48 +-
mi-0.04-2/mi/R/mi.hist.R | 128 ------
mi-0.04-2/mi/R/mi.info.R | 458 +++++++++++++---------
mi-0.04-2/mi/R/mi.mean.R | 13
mi-0.04-2/mi/R/mi.median.R | 13
mi-0.04-2/mi/R/mi.pmm.R | 69 +--
mi-0.04-2/mi/R/mi.polr.R | 136 ++----
mi-0.04-2/mi/R/mi.preprocess.R | 541 +++++++++++++++++---------
mi-0.04-2/mi/R/mi.scatterplot.R | 6
mi-0.04-2/mi/R/plot.R | 315 ++-------------
mi-0.04-2/mi/R/print.R | 31 -
mi-0.04-2/mi/R/resid.R | 142 +++---
mi-0.04-2/mi/R/se.coef.R |only
mi-0.04-2/mi/R/sigma.hat.R | 16
mi-0.04-2/mi/R/typecast.R | 153 ++-----
mi-0.04-2/mi/TODO |only
mi-0.04-2/mi/man/CHAIN.Rd | 8
mi-0.04-2/mi/man/convergence.plot.Rd | 2
mi-0.04-2/mi/man/glm.mi.Rd | 16
mi-0.04-2/mi/man/lm.mi.Rd | 13
mi-0.04-2/mi/man/mi.Rd | 199 +++++----
mi-0.04-2/mi/man/mi.categorical.Rd | 14
mi-0.04-2/mi/man/mi.completed.Rd | 55 +-
mi-0.04-2/mi/man/mi.count.Rd |only
mi-0.04-2/mi/man/mi.dichotomous.Rd | 16
mi-0.04-2/mi/man/mi.fixed.Rd | 17
mi-0.04-2/mi/man/mi.hist.Rd | 21 -
mi-0.04-2/mi/man/mi.info.Rd | 7
mi-0.04-2/mi/man/mi.info.update.Rd | 73 ++-
mi-0.04-2/mi/man/mi.method.Rd | 40 +
mi-0.04-2/mi/man/mi.polr.Rd | 8
mi-0.04-2/mi/man/mi.preprocess.Rd |only
mi-0.04-2/mi/man/mi.scatterplot.Rd | 15
mi-0.04-2/mi/man/missing.pattern.plot.Rd | 16
mi-0.04-2/mi/man/plot.mi.Rd | 40 -
mi-0.04-2/mi/man/prior.control.Rd |only
mi-0.04-2/mi/man/random.imp.Rd | 21 -
mi-0.04-2/mi/man/type.models.Rd | 2
mi-0.04-2/mi/man/typecast.Rd | 35 +
67 files changed, 2494 insertions(+), 2090 deletions(-)
Author: Chong Gu
Diff between gss versions 1.0-3 dated 2009-03-04 and 1.0-4 dated 2009-03-06
Title: General Smoothing Splines
Description: A comprehensive package for structural multivariate
function estimation using smoothing splines.
ChangeLog | 11 ++++++
DESCRIPTION | 4 +-
INDEX | 1
R/grkpk.R | 36 ++--------------------
R/predict.ssanova.R | 26 +++-------------
R/rkpk.R | 82 ++++++++++++++++++++++++++++++++--------------------
man/rkpk.Rd | 7 ++++
7 files changed, 81 insertions(+), 86 deletions(-)
Author: M. Höhle with contributions from T. Correa, M. Hofmann, C. Lang, M. Paul, A. Riebler and V. Wimmer
Title: Outbreak detection algorithms for surveillance data
Description: A package implementing statistical methods for the surveillance of infectious diseases. This boils down to modelling and outbreak detection of univariate and multivariate time series of counts resulting from routinely collected public health surveillance data. Currently the package contains an implementation of the typically outbreak detection procedures such as Stroup et. al (1989), Farrington et. al (1996), Rossi et al (1999), Rogerson and Yamada (2001), a Bayesian approach and a detector based on generalized likelihood ratios (GLR). Furthermore, inference methods for the infectious disease model in Held et al (2005) are provided. The package contains several real-world datasets and the ability to simulate outbreak data.
Diff between surveillance versions 0.9-9 dated 2008-01-21 and 1.0-2 dated 2009-03-06
surveillance-0.9-9/surveillance/inst/doc/vignette.aux |only surveillance-0.9-9/surveillance/inst/doc/vignette.bbl |only surveillance-0.9-9/surveillance/inst/doc/vignette.blg |only surveillance-0.9-9/surveillance/inst/doc/vignette.log |only surveillance-0.9-9/surveillance/inst/doc/vignette.out |only surveillance-1.0-2/surveillance/DESCRIPTION | 10 surveillance-1.0-2/surveillance/NEWS | 48 surveillance-1.0-2/surveillance/R/AllGeneric.R | 3 surveillance-1.0-2/surveillance/R/algo_farrington.R | 10 surveillance-1.0-2/surveillance/R/algo_glrnb.R | 43 surveillance-1.0-2/surveillance/R/algo_hhh.R | 491 surveillance-1.0-2/surveillance/R/algo_rogerson.R | 24 surveillance-1.0-2/surveillance/R/algo_twins.R |only surveillance-1.0-2/surveillance/R/plot_multi.R | 11 surveillance-1.0-2/surveillance/R/sts.R | 303 surveillance-1.0-2/surveillance/R/wrap_univariate.R | 56 surveillance-1.0-2/surveillance/THANKS | 2 surveillance-1.0-2/surveillance/data/hepatitisA.RData |only surveillance-1.0-2/surveillance/inst/CITATION |only surveillance-1.0-2/surveillance/inst/doc/.Rresults |binary surveillance-1.0-2/surveillance/inst/doc/Rplots.pdf |only surveillance-1.0-2/surveillance/inst/doc/Rplots.ps |72081 ++++------ surveillance-1.0-2/surveillance/inst/doc/apalike.bst |only surveillance-1.0-2/surveillance/inst/doc/comment.sty |only surveillance-1.0-2/surveillance/inst/doc/figs/vignette-002.eps | 5616 surveillance-1.0-2/surveillance/inst/doc/figs/vignette-002.pdf | 159 surveillance-1.0-2/surveillance/inst/doc/figs/vignette-003.eps |10405 - 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Author: Martyn Plummer
Title: Bayesian graphical models using MCMC
Description: Interface to the JAGS MCMC library
Diff between rjags versions 1.0.3-5 dated 2009-02-23 and 1.0.3-6 dated 2009-03-06
DESCRIPTION | 6 +-- NAMESPACE | 13 +++++-- NAMESPACE.keep |only R/jags.R | 56 ++++++++-------------------------- R/jags.object.R | 72 +++++++++++++++++++++++++++++++++++++++++-- R/unix/progress.bar.R |only R/unix/zzz.R.in | 5 +++ R/windows/progress.bar.R |only R/windows/zzz.R | 5 +++ configure.win |only man/jags.model.Rd | 7 +--- man/jags.object.Rd | 31 ++++++++++++------ src/jags.cc | 77 ----------------------------------------------- 13 files changed, 127 insertions(+), 145 deletions(-)
Author: Martin Elff
Title: Tools for Management of Survey Data, Graphics, Programming, Statistics, and Simulation
Description: One of the aims of this package is to make life easier for useRs
who deal with survey data sets. It provides an infrastructure for the management of
survey data including value labels, definable missing values, recoding of variables,
production of code books, and import of (subsets of) SPSS and Stata files.
Further, it provides functionality to produce tables and data frames of
arbitrary descriptive statistics and (almost) publication-ready tables
of regression model estimates. Also some convenience tools for
graphics, programming, and simulation are provided.
Diff between memisc versions 0.95-16 dated 2009-02-19 and 0.95-17 dated 2009-03-06
DESCRIPTION | 6 +++--- R/tolatex-ftable.R | 9 ++++----- inst/doc/anes48.pdf |binary 3 files changed, 7 insertions(+), 8 deletions(-)
Author: Lester L. Yuan
Title: Compute biological inferences
Description: Imports benthic count data, reformats this data, and computes environmental inferences from this data.
Diff between bio.infer versions 1.2-2 dated 2009-02-19 and 1.2-3 dated 2009-03-06
DESCRIPTION | 6 +++--- R/get.taxonomic.R | 16 +++++++++------- 2 files changed, 12 insertions(+), 10 deletions(-)
Author: Daniel P Gaile
Diff between sendplot versions 3.0.0 dated 2009-03-03 and 3.0.2 dated 2009-03-05
Title: Tool for sending interactive plots with tool-tip content.
Description: A tool for visualizing data
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Author: Valentin Todorov
Diff between rrcov versions 0.4-08 dated 2009-01-16 and 0.5-01 dated 2009-03-05
Title: Scalable Robust Estimators with High Breakdown Point
Description: Robust Location and Scatter Estimation and Robust Multivariate Analysis with High Breakdown Point.
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91 files changed, 518 insertions(+), 825 deletions(-)
Author: Pierre Chausse
Diff between gmm versions 1.0-1 dated 2009-02-04 and 1.0-2 dated 2009-03-05
Title: Generalized Method of Moments and Generalized Empirical Likelihood
Description: It is a complete suite to estimate models based on moment conditions. It includes the two step Generalized method of moments (GMM) of Hansen(1982), the iterated GMM and continuous updated estimator (CUE) of Hansen-Eaton-Yaron(1996) and several methods that belong to the Generalized Empirical Likelihood (GEL) family of estimators, as presented by Smith(1997), Kitamura(1997), Newey-Smith(2004) and Anatolyev(2005).
DESCRIPTION | 6 +++---
R/gmm.R | 15 ++++-----------
man/gmm.Rd | 4 ++--
3 files changed, 9 insertions(+), 16 deletions(-)
Author: Jan de Leeuw, Patrick Mair
Title: Simple and Canonical Correspondence Analysis.
Description: This package performs simple and canonical CA (covariates on rows/columns) on a two-way frequency table (with missings) by means of SVD. Different scaling methods (standard, centroid, Benzecri, Goodman) as well as various plots including confidence ellipsoids are provided.
Diff between anacor versions 0.9-4 dated 2008-10-12 and 0.9-8 dated 2009-03-05
anacor-0.9-4/anacor/inst/doc/anacor.bbl |only anacor-0.9-4/anacor/inst/doc/anacor.blg |only anacor-0.9-8/anacor/DESCRIPTION | 9 anacor-0.9-8/anacor/R/acovuv.r | 15 anacor-0.9-8/anacor/R/anacor.R | 86 + anacor-0.9-8/anacor/R/plot.anacor.R | 78 + anacor-0.9-8/anacor/R/plot3d.anacor.R | 2 anacor-0.9-8/anacor/R/plot3dstatic.R | 2 anacor-0.9-8/anacor/R/plot3dstatic.anacor.R | 2 anacor-0.9-8/anacor/inst/doc/anacor.Rnw | 152 +-- anacor-0.9-8/anacor/inst/doc/anacor.bib | 72 + anacor-0.9-8/anacor/inst/doc/anacor.pdf |binary anacor-0.9-8/anacor/inst/doc/glassreg2.pdf | 538 +++++++----- anacor-0.9-8/anacor/inst/doc/jss1.bst |only anacor-0.9-8/anacor/inst/doc/jss1.cls |only anacor-0.9-8/anacor/inst/doc/maxord.pdf |only anacor-0.9-8/anacor/inst/doc/tochergraph.pdf | 317 ++++--- anacor-0.9-8/anacor/inst/doc/tocherjoint.pdf | 1200 ++++++++++++++------------- anacor-0.9-8/anacor/man/anacor-package.Rd | 8 anacor-0.9-8/anacor/man/anacor.Rd | 3 anacor-0.9-8/anacor/man/burtTable.Rd | 2 anacor-0.9-8/anacor/man/expandFrame.Rd | 2 anacor-0.9-8/anacor/man/mkIndiList.Rd | 2 anacor-0.9-8/anacor/man/plot.anacor.Rd | 12 24 files changed, 1465 insertions(+), 1037 deletions(-)
Author: Yu-Sung Su
Diff between R2jags versions 0.01-16 dated 2009-02-23 and 0.01-17 dated 2009-03-05
Title: A Package for Running jags from R
Description: Using this package to call jags from R.
CHANGELOG | 6 ++++++
DESCRIPTION | 6 +++---
R/as.bugs.array2.R |only
R/mcmc2bugs.R | 4 ++--
R/update.R | 4 ++--
5 files changed, 13 insertions(+), 7 deletions(-)
Author: Kurt Hornik
Title: Harvest Metadata Using OAI-PMH v2.0
Description:
Harvest metadata using the Open Archives Initiative Protocol for Metadata
Harvesting (OAI-PMH) version 2.0.
Diff between OAIHarvester versions 0.0-1 dated 2009-03-03 and 0.0-2 dated 2009-03-05
DESCRIPTION | 6 +++--- R/utils.R | 14 +++++++++++++- inst/doc/oaih.Rnw | 1 + inst/doc/oaih.pdf |binary man/transform.Rd | 30 ++++++++++++++---------------- man/verb.Rd | 30 ++++++++++++++---------------- 6 files changed, 45 insertions(+), 36 deletions(-)
Author: Andrew O. Finley
Diff between MBA versions 0.0-4 dated 2008-03-21 and 0.0-5 dated 2009-03-05
Title: Multilevel B-spline Approximation
Description: Scattered data interpolation with Multilevel B-Splines
DESCRIPTION | 11 ++++++-----
R/mba.surf.R | 24 ++++++++++++++++++++----
man/mba.surf.Rd | 20 +++++++++++++++++---
3 files changed, 43 insertions(+), 12 deletions(-)
Author: Matthew K. Lau
Title: Dunnett-Tukey-Kramer Pairwise Multiple Comparison Test Adjusted for Unequal Variances and Unequal Sample Sizes
Description: Functions for conducting and plotting Dunnett's modified Tukey-Kramer pairwise multiple comparison test accounting for unequal variance and unequal sample sizes.
Diff between DTK versions 1.1 dated 2009-03-03 and 2.1 dated 2009-03-05
DESCRIPTION | 6 +++--- R/DTK.plot.R | 5 +---- man/DTK-package.Rd | 4 ++-- 3 files changed, 6 insertions(+), 9 deletions(-)
Author: Graham Williams
Diff between rattle versions 2.4.40 dated 2009-03-03 and 2.4.41 dated 2009-03-04
Title: A graphical user interface for data mining in R using GTK
Description: Rattle (the R Analytic Tool To Learn Easily) provides a
Gnome (RGtk2) based interface to R functionality for data mining.
The aim is to provide a simple and intuitive interface
that allows a user to quickly load data from a CSV file
(or via ODBC), transform and explore the data,
build and evaluate models, and export models as PMML (predictive
modelling markup language) or as scores. All of this with knowing little
about R. All R commands are logged and commented through the log tab
and so available to the user as a script file or as an aide to the user to
interact directly with R itself. Rattle also exports a number of utility
functions and the graphical user interface, invoked as rattle(), does
not need to be run to deploy these.
DESCRIPTION | 6 +++---
R/rattle.R | 2 +-
man/rattle.Rd | 7 ++++++-
3 files changed, 10 insertions(+), 5 deletions(-)
Author: Kaspar Rufibach
Diff between modehunt versions 1.0.3 dated 2008-08-25 and 1.0.4 dated 2009-03-04
Title: Multiscale Analysis for Density Functions
Description: Given independent and identically distributed observations X(1), ..., X(n) from a density f,
this package provides five methods to perform a multiscale analysis about f as well as the necessary critical
values. The first method, introduced in Duembgen and Walther (2008), provides simultaneous confidence statements
for the existence and location of local increases (or decreases) of f, based on all intervals I(all) spanned by
any two observations X(j), X(k). The second method approximates the latter approach by using only a subset of
I(all) and is therefore computationally much more efficient, but asymptotically equivalent. Omitting the additive
correction term Gamma in either method offers another two approaches which are more powerful on small scales and
less powerful on large scales, however, not asymptotically minimax optimal anymore. Finally, the block procedure is a
compromise between adding Gamma or not, having intermediate power properties. The latter is again asymptotically
equivalent to the first and was introduced in Rufibach and Walther (2007).
CHANGES | 9 +++++++--
DESCRIPTION | 10 +++++-----
man/cvModeAll.Rd | 2 +-
man/cvModeApprox.Rd | 2 +-
man/cvModeBlock.Rd | 2 +-
man/minimalIntervals.Rd | 2 +-
man/modeHunting.Rd | 4 ++--
man/modeHuntingApprox.Rd | 4 ++--
man/modeHuntingBlock.Rd | 4 ++--
man/modehunt-package.Rd | 8 ++++----
10 files changed, 26 insertions(+), 21 deletions(-)
Author: Oscar Rueda
Diff between RJaCGH versions 1.5.7 dated 2008-10-22 and 2.0.0 dated 2009-03-04
Title: Reversible Jump MCMC for the analysis of CGH arrays.
Description: Bayesian analysis of CGH microarrays fitting Hidden Markov Chain models.
The selection of the number of states is made via their posterior probability
computed by Reversible Jump Markov Chain Monte Carlo Methods. Also
returns probabilistic common regions for gains/losses.
RJaCGH-1.5.7/RJaCGH/man/chainsSelect.Rd |only
RJaCGH-1.5.7/RJaCGH/man/collapseChain.Rd |only
RJaCGH-1.5.7/RJaCGH/man/gelman.rubin.plot.Rd |only
RJaCGH-1.5.7/RJaCGH/man/genome.plot.Rd |only
RJaCGH-1.5.7/RJaCGH/man/model.averaging.Rd |only
RJaCGH-2.0.0/RJaCGH/Changes | 7
RJaCGH-2.0.0/RJaCGH/DESCRIPTION | 14
RJaCGH-2.0.0/RJaCGH/NAMESPACE | 39
RJaCGH-2.0.0/RJaCGH/R/RJaCGH.R | 3988 +++++-----
RJaCGH-2.0.0/RJaCGH/inst/doc/Implementing_pREC_in_C.pdf |binary
RJaCGH-2.0.0/RJaCGH/inst/doc/RJaCGH.pdf |binary
RJaCGH-2.0.0/RJaCGH/inst/doc/Recurrent-regions-COBRA-reprint.pdf |only
RJaCGH-2.0.0/RJaCGH/man/Q.NH.Rd | 8
RJaCGH-2.0.0/RJaCGH/man/RJaCGH.Rd | 46
RJaCGH-2.0.0/RJaCGH/man/genomePlot.Rd |only
RJaCGH-2.0.0/RJaCGH/man/modelAveraging.Rd |only
RJaCGH-2.0.0/RJaCGH/man/normal.HMM.likelihood.NH.C.Rd | 2
RJaCGH-2.0.0/RJaCGH/man/pREC_A.Rd | 21
RJaCGH-2.0.0/RJaCGH/man/pREC_S.Rd | 17
RJaCGH-2.0.0/RJaCGH/man/plot.Q.NH.Rd | 4
RJaCGH-2.0.0/RJaCGH/man/plot.RJaCGH.Rd | 71
RJaCGH-2.0.0/RJaCGH/man/plot.pREC_S.Rd | 2
RJaCGH-2.0.0/RJaCGH/man/print.pREC_A.Rd | 4
RJaCGH-2.0.0/RJaCGH/man/print.pREC_S.Rd | 2
RJaCGH-2.0.0/RJaCGH/man/print.summary.RJaCGH.Rd | 12
RJaCGH-2.0.0/RJaCGH/man/relabelStates.Rd | 29
RJaCGH-2.0.0/RJaCGH/man/smoothMeans.Rd | 35
RJaCGH-2.0.0/RJaCGH/man/snijders.Rd | 10
RJaCGH-2.0.0/RJaCGH/man/states.Rd | 19
RJaCGH-2.0.0/RJaCGH/man/summary.RJaCGH.Rd | 42
RJaCGH-2.0.0/RJaCGH/man/trace.plot.Rd | 25
RJaCGH-2.0.0/RJaCGH/src/nnhl.c | 233
32 files changed, 2344 insertions(+), 2286 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 1.0-1 dated 2009-02-13 and 1.0-2 dated 2009-03-04
ChangeLog | 4 DESCRIPTION | 6 R/analysisMM.R | 2 inst/doc/MCPMod.pdf | 2302 +++++++++++++++++++++++++------------------------- man/MCPMod-package.Rd | 4 5 files changed, 1170 insertions(+), 1148 deletions(-)
Author: Kaspar Rufibach
Diff between logcondens versions 1.3.2 dated 2008-07-16 and 1.3.3 dated 2009-03-04
Title: Estimate a Log-Concave Probability Density from iid Observations
Description: Given independent and identically distributed observations X(1), ..., X(n), this package allows to
compute a concave, piecewise linear function phi on [X(1), X(n)] with knots only in {X(1), X(2), ..., X(n)}
such that L(phi) = sum_{i=1}^n W(i)*phi(X(i)) - int_{X(1)}^{X(n)} exp(phi(x)) dx is maximal, for some
weights W(1), ..., W(n) s.t. sum_{i=1}^n W(i) = 1. According to the results in Duembgen and Rufibach (2009),
this function phi maximizes the ordinary log-likelihood sum_{i=1}^n W(i)*phi(X(i))
under the constraint that phi is concave. The corresponding function exp(phi) is a log-concave probability density.
Two algorithms are offered: An active set algorithm and one based on the pool-adjacent-violaters algorithm.
CHANGES | 9
DESCRIPTION | 8
inst/doc/logcondens_vignette.pdf | 1163 ++++++++++++++++++++-------------------
man/activeSetLogCon.Rd | 4
man/icmaLogCon.Rd | 1
man/intECDF.Rd | 8
man/intF.Rd | 8
man/logcondens-package.Rd | 12
man/robust.Rd | 1
9 files changed, 643 insertions(+), 571 deletions(-)
Author: Ismail Ahmed & Antoine Poncet
Title: Pharmacovigilance signal detection methods extended to the multiple comparison setting.
Description: PhViD proposes the main pharmacovigilance signal detection methods extended to the multiple comparison setting. Those functions can be used as standard R functions or through an user friendly interface (PhViD.gui)
Diff between PhViD versions 1.0 dated 2009-03-03 and 1.0.1 dated 2009-03-04
DESCRIPTION | 6 +++--- 1 file changed, 3 insertions(+), 3 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 0.2-6 dated 2009-02-25 and 0.2-8 dated 2009-03-04
DESCRIPTION | 12 +++++++----- man/Cartographie.Rd | 4 ++-- man/copie.Rd | 2 +- man/copie.proptab.Rd | 2 +- 4 files changed, 11 insertions(+), 9 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 1.0.1 dated 2008-11-13 and 1.0.2 dated 2009-03-04
CHANGES | 13 ++++ DESCRIPTION | 6 +- R/NAtoCategory.R | 10 ++- R/displayCI.R | 6 +- R/displayKbyC.R | 4 - R/eliminateNA.R | 11 +--- R/tableContinuous.R | 123 ++++++++++++++++++++++++++++++--------------- R/tableDate.R | 29 +++++----- R/tableNominal.R | 19 +++--- R/transformVarNames.R | 2 man/checkDateSuccession.Rd | 4 - man/displayCI.Rd | 10 ++- man/displayKbyC.Rd | 12 ++-- man/reporttools-package.Rd | 12 ++-- man/tableContinuous.Rd | 48 +++++++++++++---- man/tableDate.Rd | 30 ++++++---- man/tableNominal.Rd | 14 ++--- 17 files changed, 224 insertions(+), 129 deletions(-)
Author: Petr Savicky
Diff between pspearman versions 0.1-9 dated 2009-02-11 and 0.1-10 dated 2009-03-04
Title: Spearman's rank correlation test
Description: Spearman's rank correlation test with improved accuracy
CHANGELOG |only
DESCRIPTION | 6 +++---
R/spearman.test.R | 2 +-
3 files changed, 4 insertions(+), 4 deletions(-)
Author: Chong Gu
Diff between gss versions 1.0-2 dated 2008-09-07 and 1.0-3 dated 2009-03-04
Title: General Smoothing Splines
Description: A comprehensive package for structural multivariate
function estimation using smoothing splines.
ChangeLog | 7 +++++++
DESCRIPTION | 4 ++--
R/grkpk.R | 40 +++++++++++++++++++++++++++++++++-------
R/mkterm.R | 8 ++++----
R/predict.ssanova.R | 17 ++++++-----------
R/rkpk.R | 40 +++++++++++++++++++++++++++++++++-------
6 files changed, 85 insertions(+), 31 deletions(-)
Author: K. Gerald van den Boogaart
Diff between compositions versions 0.91-6 dated 2007-04-13 and 1.01-1 dated 2009-03-04
Title: Compositional Data Analysis
Description: The package provides functions for the consistent analysis of
compositional data (e.g. portions of substances) and positive numbers
(e.g. concentrations) in the way proposed by Aitchison and Pawlowsky-Glahn.
ChangeLog | 28
DESCRIPTION | 13
INDEX | 95
NAMESPACE |only
R/3d.R | 40
R/FunctionOutliers.R |only
R/OldStuff.R |only
R/and.R |only
R/binary.R |only
R/codadendrogram.R | 39
R/compositions.R | 4454 ++++++++++++++++++++++++++-----------
R/robust.R |only
R/zerotreatment.R |only
R/zzz.R | 34
data/SimulatedAmounts.RData |binary
inst/doc/UsingCompositions.aux | 12
inst/doc/UsingCompositions.dvi |binary
inst/doc/UsingCompositions.log | 1852 ++++++++++++++-
inst/doc/UsingCompositions.pdf |binary
inst/doc/UsingCompositions.tex | 14
inst/doc/UsingCompositions.tex.flc | 6
man/Activity10.Rd | 1
man/Activity31.Rd | 1
man/AnimalVegetation.Rd | 1
man/ArcticLake.Rd | 3
man/Bayesite.Rd | 1
man/Blood23.Rd | 1
man/Boxite.Rd | 1
man/ClamEast.Rd | 3
man/ClamWest.Rd | 3
man/Coxite.Rd | 1
man/DiagnosticProb.Rd | 1
man/Firework.Rd | 5
man/Glacial.Rd | 1
man/Hongite.Rd | 1
man/Kongite.Rd | 1
man/Metabolites.Rd | 7
man/PogoJump.Rd | 3
man/Sediments.Rd | 13
man/SerumProtein.Rd | 12
man/ShiftOperators.Rd | 1
man/SimulatedAmounts.Rd | 53
man/Skulls.Rd | 1
man/SkyeAFM.Rd | 1
man/Supervisor.Rd | 15
man/WhiteCells.Rd | 11
man/Yatquat.Rd | 3
man/acomp.Rd | 12
man/acompmargin.Rd | 14
man/alr.Rd | 12
man/aplus.Rd | 7
man/apt.Rd | 15
man/asdataframe.Rd | 2
man/balancebase.Rd |only
man/barplot.Rd | 32
man/binary.Rd |only
man/boxplot.Rd | 57
man/cdt.Rd | 40
man/clo.Rd | 1
man/clr.Rd | 12
man/clr2ilr.Rd | 11
man/clusterfinder.Rd |only
man/codadendrogram.Rd | 27
man/coloredbiplot.Rd |only
man/colorsforoutliers.Rd |only
man/compmiss.Rd | 159 -
man/compositions.Rd | 37
man/cor.Rd | 21
man/cpt.Rd | 18
man/dist.Rd | 13
man/ellipses.Rd | 61
man/endmemberCoordinates.Rd | 4
man/geometricmean.Rd | 24
man/getdetectionlimit.Rd | 10
man/groupparts.Rd | 8
man/gsiadd.Rd | 26
man/gsiaddclass.Rd | 4
man/gsicall.Rd | 6
man/gsiclosespread.Rd | 8
man/gsicoorinfo.Rd | 26
man/gsicsum.Rd | 26
man/gsidiagExtract.Rd | 10
man/gsidiagGenerate.Rd | 6
man/gsidrop.Rd | 9
man/gsieps.Rd | 4
man/gsieq.Rd | 8
man/gsiexpandrcomp.Rd | 4
man/gsifiltercall.Rd | 16
man/gsigetD.Rd | 6
man/gsigetbalstruct.Rd |only
man/gsiinternal.Rd | 19
man/gsiinvperm.Rd | 6
man/gsiisSingleRow.Rd | 4
man/gsimap01.Rd | 13
man/gsimargin.Rd | 9
man/gsimerge2signary.Rd | 4
man/gsipairrelativeMatrix.Rd | 9
man/gsipairs.Rd | 7
man/gsiplain.Rd | 10
man/gsiplotmargin.Rd | 8
man/gsirecode.Rd | 11
man/gsireset3d.Rd | 6
man/gsisimshape.Rd | 12
man/gsispreadToIsoSpace.Rd | 8
man/gsisvdsolve.Rd | 21
man/gsitextpanel.Rd | 7
man/gsivarwithlosts.Rd |only
man/idt.Rd | 44
man/iit.Rd | 14
man/ilr.Rd | 10
man/ilrBase.Rd | 4
man/ilt.Rd | 13
man/ipt.Rd | 23
man/isAcomp.Rd | 2
man/ismahalanobisoutlier.Rd |only
man/lines.Rd | 21
man/mahalanobisdist.Rd |only
man/meanAcomp.Rd | 25
man/meanrow.Rd | 16
man/missingProjector.Rd | 4
man/missingsummary.Rd | 5
man/mix2compositions.Rd | 4
man/mixRead.Rd | 16
man/mvar.Rd | 3
man/norm.Rd | 1
man/oneOrDataset.Rd | 2
man/outlierclassifier.Rd |only
man/outlierplot.Rd |only
man/outliers.Rd |only
man/pairwisePlot.Rd |only
man/perturbe.Rd | 2
man/plot.Rd | 73
man/plot3d.Rd | 6
man/plot3dacomp.Rd | 14
man/plot3daplus.Rd | 3
man/plot3drmult.Rd | 3
man/plot3drplus.Rd | 4
man/plotpos.Rd | 50
man/powerofmatrix.Rd | 7
man/princompacomp.Rd | 9
man/princompaplus.Rd | 8
man/princomprcomp.Rd | 12
man/princomprmult.Rd | 13
man/princomprplus.Rd | 8
man/print.Rd |only
man/rDirichlet.Rd | 2
man/rcomp.Rd | 12
man/rcompmargin.Rd | 11
man/readgeoeas.Rd | 15
man/replot.Rd |only
man/rmahalanobis.Rd |only
man/rnorm.Rd | 2
man/robustness.Rd |only
man/rplus.Rd | 7
man/runif.Rd | 2
man/scalar.Rd | 2
man/scale.Rd | 40
man/segments.Rd | 15
man/simplemissingplot.Rd |only
man/simulatemissing.Rd | 2
man/straight.Rd | 12
man/summaryAcomp.Rd | 5
man/summaryAplus.Rd | 21
man/summaryRcomp.Rd | 7
man/sumprojector.Rd | 3
man/ternaryAxis.Rd |only
man/totals.Rd | 2
man/ult.Rd | 12
man/varAcomp.Rd | 34
man/variation.Rd | 17
man/zeroreplace.Rd | 4
tests/CheckGeometry.R |only
tests/CheckGeometry.Rout |only
tests/RobustTest.R |only
tests/RobustTest.Rout |only
tests/TAGS |only
tests/TestMissing.R | 38
tests/TestMissing.Rout |only
tests/TestSimp.R | 54
tests/TestSimp.Rout |only
tests/acheck.R |only
tests/missings.R | 2
tests/missings.Rout |only
tests/myfirst.kin |only
tests/quickcheck.R |only
185 files changed, 6221 insertions(+), 2161 deletions(-)
Author: Rasmus E. Benestad
Diff between clim.pact versions 2.2-29 dated 2009-02-04 and 2.2-30 dated 2009-03-04
Title: Climate analysis and empirical-statistical downscaling (ESD) package for monthly and daily data.
Description: The package contains R functions for retrieving data, making climate analysis and downscaling of monthly mean and daily mean global climate scenarios. (Windows-users may need to obtain the 'ncdf' package from URL 'http://www.stats.ox.ac.uk/pub/RWin/' to get clim.pact to work). The package is also described in the book 'Empirical-Statistical Downscaling (http://www.worldscibooks.com/environsci/6908.html)
DESCRIPTION | 6 +++---
R/cdfcont.R | 2 +-
R/retrieve.nc.R | 19 +++++++++++++++----
R/upper.case.R | 1 +
4 files changed, 20 insertions(+), 8 deletions(-)
Author: Juan R González, Lluís Armengol, Elisabet Guinó, Xavier Solé, and Víctor Moreno
Title: SNPs-based whole genome association studies
Description: This package carries out most common analysis when performing whole genome association studies. These analyses include descriptive statistics and exploratory analysis of missing values, calculation of Hardy-Weinberg equilibrium, analysis of association based on generalized linear models (either for quantitative or binary traits), and analysis of multiple SNPs (haplotype and epistasis analysis). Permutation test and related tests (sum statistic and truncated product) are also implemented.
Diff between SNPassoc versions 1.5-6 dated 2009-02-06 and 1.5-7 dated 2009-03-04
DESCRIPTION | 6 ++-- R/LD.R | 60 ------------------------------------------------ R/print.LD.R |only inst/docs/changelog.txt | 4 +++ 4 files changed, 7 insertions(+), 63 deletions(-)
Author: Dirk Eddelbuettel
Diff between RQuantLib versions 0.2.10 dated 2008-12-04 and 0.2.11 dated 2009-03-04
Title: R interface to the QuantLib library
Description: The RQuantLib package makes selected parts of QuantLib
visible to the R user. Currently some basic option pricing
functions are included, as well as fixed-income functions that
can be used for interest rate curve construction and Bermuda
swaption pricing. Further software contributions are welcome.
The QuantLib project aims to provide a comprehensive software
framework for quantitative finance. The goal is to provide a
standard open source library for quantitative analysis,
modeling, trading, and risk management of financial
assets.
The Windows binary version is self-contained and does not require
a QuantLib (or Boost) installation.
RQuantLib use the Rcpp R/C++ interface class library. See the Rcpp
package on CRAN (or R-Forge) for more information on Rcpp.
Note that while RQuantLib's code is licensed under the GPL (v2 or
later), QuantLib itself is released under a somewhat less
restrictive Open Source license (see QuantLib-License.txt).
RQuantLib-0.2.10/RQuantLib/inst/Rcpp-license.txt |only
RQuantLib-0.2.11/RQuantLib/DESCRIPTION | 10 +++++-----
RQuantLib-0.2.11/RQuantLib/configure.in | 6 +++---
RQuantLib-0.2.11/RQuantLib/inst/ChangeLog | 10 ++++++++++
RQuantLib-0.2.11/RQuantLib/src/barrier_binary.cpp | 16 ++++++++--------
RQuantLib-0.2.11/RQuantLib/src/bermudan.cpp | 15 ++++++++-------
RQuantLib-0.2.11/RQuantLib/src/curves.cpp | 19 ++++++++++---------
RQuantLib-0.2.11/RQuantLib/src/discount.cpp | 11 ++++++-----
RQuantLib-0.2.11/RQuantLib/src/implieds.cpp | 8 ++++----
RQuantLib-0.2.11/RQuantLib/src/rquantlib.hpp | 14 +++++++-------
RQuantLib-0.2.11/RQuantLib/src/utils.cpp | 4 ++--
RQuantLib-0.2.11/RQuantLib/src/vanilla.cpp | 8 ++++----
12 files changed, 67 insertions(+), 54 deletions(-)
Author: Ramon Diaz-Uriarte
Diff between varSelRF versions 0.6-5 dated 2008-04-17 and 0.7-1 dated 2009-03-03
Title: Variable selection using random forests
Description: Variable selection from random forests
using both backwards variable elimination (for the selection of
small sets of non-redundant variables) and selection based on the
importance spectrum (somewhat similar to scree plots; for the
selection of large, potentially highly-correlated variables).
Main applications in high-dimensional data
(e.g., microarray data, and other genomics and proteomics
applications). You can use rpvm instead of Rmpi if you want
but I've only tested with Rmpi.
Changes | 6 +++
DESCRIPTION | 10 ++---
R/varSelRF.R | 76 ++++++++++++++++++++++++++------------------
TO-DO |only
man/basicClusterInit.Rd | 2 -
man/plot.varSelRF.Rd | 11 +++---
man/plot.varSelRFBoot.Rd | 6 +--
man/randomVarImpsRF.Rd | 2 -
man/randomVarImpsRFplot.Rd | 11 ++----
man/selProbPlot.Rd | 2 -
man/summary.varSelRFBoot.Rd | 5 +-
man/varSelImpSpecRF.Rd | 2 -
man/varSelRF.Rd | 4 +-
man/varSelRFBoot.Rd | 8 ++--
14 files changed, 82 insertions(+), 63 deletions(-)
Author: Hans Bruun Nielsen and Stig Bousgaard Mortensen
Title: General-purpose unconstrained non-linear optimization
Description: An algorithm for general-purpose unconstrained non-linear optimization.
The algorithm is of quasi-Newton type with BFGS updating of the inverse
Hessian and soft line search with a trust region type monitoring of the
input to the line search algorithm. The interface of 'ucminf' is
designed for easy interchange with 'optim'.
Diff between ucminf versions 1.0-3 dated 2009-02-24 and 1.0-4 dated 2009-03-03
DESCRIPTION | 6 +++--- R/ucminf.R | 11 ++++++----- man/ucminf.Rd | 4 ---- 3 files changed, 9 insertions(+), 12 deletions(-)
Author: Daniel P Gaile
Diff between sendplot versions 2.1.2 dated 2009-01-26 and 3.0.0 dated 2009-03-03
Title: Tool for sending interactive plots with tool-tip content.
Description: A tool for visualizing data
sendplot-2.1.2/sendplot/R/getPlotsBounds.R |only
sendplot-2.1.2/sendplot/inst/doc/FirstLookEx.png |only
sendplot-2.1.2/sendplot/inst/doc/Oldsendplot.tex |only
sendplot-2.1.2/sendplot/inst/doc/exHeat.html |only
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sendplot-2.1.2/sendplot/inst/doc/exPlotImage.html |only
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sendplot-2.1.2/sendplot/inst/doc/testXY.png |only
sendplot-2.1.2/sendplot/inst/doc/testXY.ps |only
sendplot-2.1.2/sendplot/man/getPlotsBounds.Rd |only
sendplot-3.0.0/sendplot/DESCRIPTION | 7 +-
sendplot-3.0.0/sendplot/R/addBounding.R | 2
sendplot-3.0.0/sendplot/R/automapPts.R | 13 +++-
sendplot-3.0.0/sendplot/R/heatmap.send.R | 2
sendplot-3.0.0/sendplot/R/initSplot.R | 2
sendplot-3.0.0/sendplot/R/makeImageDF.R | 2
sendplot-3.0.0/sendplot/R/makeSplot.R | 48 +++++++++++++++---
sendplot-3.0.0/sendplot/R/mapMethod.R | 2
sendplot-3.0.0/sendplot/R/sendplot.R | 5 +
sendplot-3.0.0/sendplot/R/writeDefault.R | 12 ++--
sendplot-3.0.0/sendplot/inst/doc/Oldsendplot.pdf |binary
sendplot-3.0.0/sendplot/inst/doc/sendplot.R | 2
sendplot-3.0.0/sendplot/inst/doc/sendplot.Rnw | 5 +
sendplot-3.0.0/sendplot/inst/doc/sendplot.dvi |binary
sendplot-3.0.0/sendplot/inst/doc/sendplot.pdf |binary
sendplot-3.0.0/sendplot/man/HeatmapWrapper.Rd | 6 +-
sendplot-3.0.0/sendplot/man/aCGHex.Rd | 4 -
sendplot-3.0.0/sendplot/man/addDefault.Rd | 4 -
sendplot-3.0.0/sendplot/man/heatmap.send.Rd | 6 +-
sendplot-3.0.0/sendplot/man/imagesend.Rd | 6 +-
sendplot-3.0.0/sendplot/man/initSplot.Rd | 6 +-
sendplot-3.0.0/sendplot/man/makeImageDF.Rd | 6 +-
sendplot-3.0.0/sendplot/man/makePolyDF.Rd | 6 +-
sendplot-3.0.0/sendplot/man/makeRectDF.Rd | 6 +-
sendplot-3.0.0/sendplot/man/makeScatterDF.Rd | 6 +-
sendplot-3.0.0/sendplot/man/makeSplot.Rd | 6 +-
sendplot-3.0.0/sendplot/man/sendimage.Rd | 4 -
sendplot-3.0.0/sendplot/man/sendplot-package.Rd | 6 +-
sendplot-3.0.0/sendplot/man/sendplot.Rd | 6 +-
sendplot-3.0.0/sendplot/man/sendxy.Rd | 4 -
sendplot-3.0.0/sendplot/man/sp.header.Rd | 4 -
sendplot-3.0.0/sendplot/man/writeArea.Rd | 4 -
sendplot-3.0.0/sendplot/man/writeDefault.Rd | 4 -
sendplot-3.0.0/sendplot/man/writeToHTML.Rd | 4 -
sendplot-3.0.0/sendplot/man/xy.send.Rd | 4 -
77 files changed, 124 insertions(+), 80 deletions(-)
Author: Graham Williams
Diff between rattle versions 2.4.0 dated 2009-01-04 and 2.4.40 dated 2009-03-03
Title: A graphical user interface for data mining in R using GTK
Description: Rattle (the R Analytic Tool To Learn Easily) provides a
Gnome (RGtk2) based interface to R functionality for data mining.
The aim is to provide a simple and intuitive interface
that allows a user to quickly load data from a CSV file
(or via ODBC), transform and explore the data,
build and evaluate models, and export models as PMML (predictive
modelling markup language) or as scores. All of this with knowing little
about R. All R commands are logged and commented through the log tab
and so available to the user as a script file or as an aide to the user to
interact directly with R itself. Rattle also exports a number of utility
functions and the graphical user interface, invoked as rattle(), does
not need to be run to deploy these.
rattle-2.4.0/rattle/man/RStat.Rd |only
rattle-2.4.0/rattle/man/write.rstat.Rd |only
rattle-2.4.40/rattle/DESCRIPTION | 6
rattle-2.4.40/rattle/NAMESPACE | 5
rattle-2.4.40/rattle/R/ada.R | 6
rattle-2.4.40/rattle/R/associate.R | 7
rattle-2.4.40/rattle/R/cluster.R | 4
rattle-2.4.40/rattle/R/ctree.R | 2
rattle-2.4.40/rattle/R/data.R | 155 -
rattle-2.4.40/rattle/R/evaluate.R | 398 ---
rattle-2.4.40/rattle/R/export.R | 149 +
rattle-2.4.40/rattle/R/hclust.R | 60
rattle-2.4.40/rattle/R/help.R | 409 ++-
rattle-2.4.40/rattle/R/kmeans.R | 41
rattle-2.4.40/rattle/R/log.R | 15
rattle-2.4.40/rattle/R/model.R | 217 -
rattle-2.4.40/rattle/R/nnet.R | 7
rattle-2.4.40/rattle/R/projects.R | 94
rattle-2.4.40/rattle/R/random_forest.R | 32
rattle-2.4.40/rattle/R/rattle.R | 2076 +++----------------
rattle-2.4.40/rattle/R/rpart.R | 74
rattle-2.4.40/rattle/R/test.R | 183 +
rattle-2.4.40/rattle/R/textminer.R | 4
rattle-2.4.40/rattle/R/textview.R | 67
rattle-2.4.40/rattle/R/tooltips.R |only
rattle-2.4.40/rattle/R/transform.R |only
rattle-2.4.40/rattle/R/zzz.R | 68
rattle-2.4.40/rattle/data/weather.RData |binary
rattle-2.4.40/rattle/inst/arff/weather.arff | 16
rattle-2.4.40/rattle/inst/csv/weather.csv | 16
rattle-2.4.40/rattle/inst/etc/rattle.glade | 1587 +++++++-------
rattle-2.4.40/rattle/inst/etc/textviews.xml |only
rattle-2.4.40/rattle/inst/etc/tooltips.xml |only
rattle-2.4.40/rattle/man/internal.Rd | 18
rattle-2.4.40/rattle/man/overwritePackageFunction.Rd |only
rattle-2.4.40/rattle/man/rattle.Rd | 5
rattle-2.4.40/rattle/man/weather.Rd | 89
37 files changed, 2377 insertions(+), 3433 deletions(-)
Author: Graham Williams, Michael Hahsler (arules), Zementis Inc,
Hemant Ishwaran, Udaya B. Kogalur, Rajarshi Guha
Title: Generate PMML for various models
Description: The Predictive Modelling Markup Language (PMML) is a language
for representing models, in an application independent way. Such models
can then be loaded into other applications supporting PMML, including
ADAPA from Zementis, Teradata Warehouse Miner and IBM's DB2.
The package provides a generic pmml function to generate pmml for an
object. Using a S3 generic function the approriate method for the
class of the supplied object is dispatched.
The package currently supports the export of PMML for linear
regression, SVMs, rpart classification trees,
randomSurvivalForest forest models, and kmeans clusters.
This package is part of the Rattle toolkit.
Diff between pmml versions 1.2.0 dated 2009-01-05 and 1.2.8 dated 2009-03-03
DESCRIPTION | 6 +- NAMESPACE | 2 R/pmml.R | 155 ++++++++++++++++++++++++++++++++++++++++++++++++++++-- R/pmml.hclust.R | 14 ++-- R/pmml.kmeans.R | 13 ++-- R/pmml.lm.R | 52 ++++++++++-------- R/pmml.multinom.R | 39 +++++++++---- R/pmml.rpart.R | 63 ++++++++++++++++----- R/pmmltoc.R |only man/pmmltoc.Rd |only 10 files changed, 273 insertions(+), 71 deletions(-)
Author: Simon Wood
Diff between mgcv versions 1.4-2 dated 2009-02-13 and 1.5-0 dated 2009-03-03
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.
mgcv-1.4-2/mgcv/man/gam.method.Rd |only
mgcv-1.5-0/mgcv/DESCRIPTION | 10
mgcv-1.5-0/mgcv/NAMESPACE | 11
mgcv-1.5-0/mgcv/R/gam.fit3.r | 1307 +++++-
mgcv-1.5-0/mgcv/R/gam.sim.r | 7
mgcv-1.5-0/mgcv/R/gamm.r | 4
mgcv-1.5-0/mgcv/R/mgcv.r | 830 ++--
mgcv-1.5-0/mgcv/R/smooth.r | 328 +
mgcv-1.5-0/mgcv/changeLog | 103
mgcv-1.5-0/mgcv/inst/CITATION | 2
mgcv-1.5-0/mgcv/man/Tweedie.Rd |only
mgcv-1.5-0/mgcv/man/anova.gam.Rd | 13
mgcv-1.5-0/mgcv/man/choose.k.Rd | 8
mgcv-1.5-0/mgcv/man/fix.family.link.Rd | 31
mgcv-1.5-0/mgcv/man/formula.gam.Rd | 2
mgcv-1.5-0/mgcv/man/full.score.Rd | 2
mgcv-1.5-0/mgcv/man/gam.Rd | 96
mgcv-1.5-0/mgcv/man/gam.control.Rd | 9
mgcv-1.5-0/mgcv/man/gam.convergence.Rd | 23
mgcv-1.5-0/mgcv/man/gam.fit3.Rd | 39
mgcv-1.5-0/mgcv/man/gam.models.Rd | 27
mgcv-1.5-0/mgcv/man/gam.outer.Rd | 19
mgcv-1.5-0/mgcv/man/gam.selection.Rd | 136
mgcv-1.5-0/mgcv/man/gam.side.Rd | 8
mgcv-1.5-0/mgcv/man/gamObject.Rd | 20
mgcv-1.5-0/mgcv/man/gamSim.Rd | 3
mgcv-1.5-0/mgcv/man/ldTweedie.Rd |only
mgcv-1.5-0/mgcv/man/linear.functional.terms.Rd | 14
mgcv-1.5-0/mgcv/man/magic.Rd | 15
mgcv-1.5-0/mgcv/man/magic.post.proc.Rd | 10
mgcv-1.5-0/mgcv/man/mgcv-package.Rd | 8
mgcv-1.5-0/mgcv/man/mgcv.Rd | 2
mgcv-1.5-0/mgcv/man/negbin.Rd | 27
mgcv-1.5-0/mgcv/man/pcls.Rd | 62
mgcv-1.5-0/mgcv/man/plot.gam.Rd | 5
mgcv-1.5-0/mgcv/man/residuals.gam.Rd | 3
mgcv-1.5-0/mgcv/man/smooth.construct.Rd | 13
mgcv-1.5-0/mgcv/man/smooth.construct.ad.smooth.spec.Rd | 37
mgcv-1.5-0/mgcv/man/smooth.construct.cr.smooth.spec.Rd | 24
mgcv-1.5-0/mgcv/man/smooth.construct.ps.smooth.spec.Rd | 17
mgcv-1.5-0/mgcv/man/smooth.construct.tp.smooth.spec.Rd | 18
mgcv-1.5-0/mgcv/man/smoothCon.Rd | 6
mgcv-1.5-0/mgcv/man/sp.vcov.Rd |only
mgcv-1.5-0/mgcv/man/step.gam.Rd | 61
mgcv-1.5-0/mgcv/man/summary.gam.Rd | 40
mgcv-1.5-0/mgcv/man/te.Rd | 2
mgcv-1.5-0/mgcv/man/vcov.gam.Rd | 2
mgcv-1.5-0/mgcv/src/gdi.c | 3333 ++++++++++++-----
mgcv-1.5-0/mgcv/src/init.c | 9
mgcv-1.5-0/mgcv/src/magic.c | 277 -
mgcv-1.5-0/mgcv/src/mat.c | 140
mgcv-1.5-0/mgcv/src/mgcv.h | 36
mgcv-1.5-0/mgcv/src/misc.c |only
53 files changed, 5158 insertions(+), 2041 deletions(-)
Author: Guido Schwarzer
Diff between meta versions 0.9-17 dated 2009-01-29 and 0.9-18 dated 2009-03-03
Title: Meta-Analysis
Description: Fixed and random effects meta-analysis. Functions for tests of bias, forest and funnel plot.
DESCRIPTION | 6 +++---
R/print.meta.R | 1 -
2 files changed, 3 insertions(+), 4 deletions(-)
Author: Gregoire Pau
Diff between hwriter versions 1.0 dated 2009-02-08 and 1.1 dated 2009-03-03
Title: HTML Writer - Outputs R objects in HTML format
Description: Easy-to-use and versatile functions to output R objects in HTML format
DESCRIPTION | 4 ++--
DONE | 3 +++
R/example.R | 22 +++++++++-------------
build.sh | 7 +++----
inst/doc/hwriter.pdf |binary
man/hwriter-package.Rd | 5 +++--
6 files changed, 20 insertions(+), 21 deletions(-)
Author: Michael Lawrence, John Verzani
Title: Toolkit implementation of gWidgets for RGtk2
Description: Port of gWidgets API to RGtk2
Diff between gWidgetsRGtk2 versions 0.0-50 dated 2009-02-13 and 0.0-51 dated 2009-03-03
ChangeLog | 5 +++++ DESCRIPTION | 4 ++-- NEWS | 5 +++++ R/gvarbrowser.R | 11 ++++++----- 4 files changed, 18 insertions(+), 7 deletions(-)
Author: Jarrod Hadfield
Title: MCMC Generalised Linear Mixed Models
Description: MCMC Generalised Linear Mixed Models
Diff between MCMCglmm versions 1.03 dated 2009-02-24 and 1.04 dated 2009-03-03
DESCRIPTION | 6 - R/MCMCglmm.R | 217 +++++++++++++++++++++++++++++++++++--------------- R/rbv.R | 8 - inst/doc/Tutorial.pdf |binary src/MCMCglmm.cc | 122 ++++++++++++++++++---------- src/rbv.cc | 4 6 files changed, 243 insertions(+), 114 deletions(-)
Author: Andrew O. Finley
Diff between spBayes versions 0.1-0 dated 2008-06-09 and 0.1-1 dated 2009-03-03
Title: Univariate and Multivariate Spatial Modeling
Description: spBayes fits univariate and multivariate models with Markov chain Monte Carlo (MCMC).
spBayes-0.1-0/spBayes/R/BayesianRegression.R |only
spBayes-0.1-0/spBayes/R/BayesianUtilities.R |only
spBayes-0.1-0/spBayes/R/ggtsp.R |only
spBayes-0.1-0/spBayes/R/sp.predict.R |only
spBayes-0.1-0/spBayes/R/splm.R |only
spBayes-0.1-0/spBayes/inst/doc/spBayes-vignette.aux |only
spBayes-0.1-0/spBayes/inst/doc/spBayes-vignette.log |only
spBayes-0.1-0/spBayes/inst/doc/spBayes-vignette.tex |only
spBayes-0.1-0/spBayes/man/bayes.geostat.exact.Rd |only
spBayes-0.1-0/spBayes/man/bayes.lm.conjugate.Rd |only
spBayes-0.1-0/spBayes/man/bayes.lm.ref.Rd |only
spBayes-0.1-0/spBayes/man/ggt.sp.Rd |only
spBayes-0.1-0/spBayes/man/mk.mv.X.Rd |only
spBayes-0.1-0/spBayes/man/rf.n200.dat.Rd |only
spBayes-0.1-0/spBayes/man/rf.n500.dat.Rd |only
spBayes-0.1-0/spBayes/man/sp.DIC.Rd |only
spBayes-0.1-0/spBayes/man/sp.lm.Rd |only
spBayes-0.1-0/spBayes/man/sp.predict.Rd |only
spBayes-0.1-0/spBayes/src/splm.cpp |only
spBayes-0.1-0/spBayes/src/splmPredict.cpp |only
spBayes-0.1-1/spBayes/DESCRIPTION | 10
spBayes-0.1-1/spBayes/NAMESPACE | 27 -
spBayes-0.1-1/spBayes/R/adaptMetropGibbs.R |only
spBayes-0.1-1/spBayes/R/bayesRegression.R |only
spBayes-0.1-1/spBayes/R/bayesUtilities.R |only
spBayes-0.1-1/spBayes/R/covGivens.R |only
spBayes-0.1-1/spBayes/R/covInvLogDet.R |only
spBayes-0.1-1/spBayes/R/dic.R | 457 +++++++++++++++++++-
spBayes-0.1-1/spBayes/R/hexGrid.R |only
spBayes-0.1-1/spBayes/R/idist.R |only
spBayes-0.1-1/spBayes/R/mkMatUtil.R | 30 -
spBayes-0.1-1/spBayes/R/mvCovInvLogDet.R |only
spBayes-0.1-1/spBayes/R/pointsInPoly.R |only
spBayes-0.1-1/spBayes/R/priors.R | 2
spBayes-0.1-1/spBayes/R/spGGT.R |only
spBayes-0.1-1/spBayes/R/spGLM.R |only
spBayes-0.1-1/spBayes/R/spLM.R |only
spBayes-0.1-1/spBayes/R/spMvGLM.R |only
spBayes-0.1-1/spBayes/R/spMvLM.R |only
spBayes-0.1-1/spBayes/R/spMvPredict.R |only
spBayes-0.1-1/spBayes/R/spPredict.R |only
spBayes-0.1-1/spBayes/data/WEF.dat.csv |only
spBayes-0.1-1/spBayes/data/Zurich.dat.tab |only
spBayes-0.1-1/spBayes/inst/doc/spBayes-vignette.pdf |binary
spBayes-0.1-1/spBayes/inst/name-change.txt |only
spBayes-0.1-1/spBayes/man/BEF.dat.Rd | 3
spBayes-0.1-1/spBayes/man/WEF.dat.Rd |only
spBayes-0.1-1/spBayes/man/Zurich.dat.Rd |only
spBayes-0.1-1/spBayes/man/adaptMetropGibbs.Rd |only
spBayes-0.1-1/spBayes/man/bayesGeostatExact.Rd |only
spBayes-0.1-1/spBayes/man/bayesLMConjugate.Rd |only
spBayes-0.1-1/spBayes/man/bayesLMRef.Rd |only
spBayes-0.1-1/spBayes/man/covGivens.Rd |only
spBayes-0.1-1/spBayes/man/covInvLogDet.Rd |only
spBayes-0.1-1/spBayes/man/hexGrid.Rd |only
spBayes-0.1-1/spBayes/man/iDist.Rd |only
spBayes-0.1-1/spBayes/man/mkMvX.Rd |only
spBayes-0.1-1/spBayes/man/mvCovInvLogDet.Rd |only
spBayes-0.1-1/spBayes/man/pointsInPoly.Rd |only
spBayes-0.1-1/spBayes/man/prior.Rd | 14
spBayes-0.1-1/spBayes/man/rf.n1000.dat.Rd | 12
spBayes-0.1-1/spBayes/man/spDIC.Rd |only
spBayes-0.1-1/spBayes/man/spGGT.Rd |only
spBayes-0.1-1/spBayes/man/spGLM.Rd |only
spBayes-0.1-1/spBayes/man/spLM.Rd |only
spBayes-0.1-1/spBayes/man/spMvGLM.Rd |only
spBayes-0.1-1/spBayes/man/spMvLM.Rd |only
spBayes-0.1-1/spBayes/man/spPredict.Rd |only
spBayes-0.1-1/spBayes/src/Makevars | 2
spBayes-0.1-1/spBayes/src/adaptMetropGibbs.cpp |only
spBayes-0.1-1/spBayes/src/bdimm.f |only
spBayes-0.1-1/spBayes/src/covGivens.cpp |only
spBayes-0.1-1/spBayes/src/covInvDet.h |only
spBayes-0.1-1/spBayes/src/hex_grid.cpp |only
spBayes-0.1-1/spBayes/src/hex_utils.cpp |only
spBayes-0.1-1/spBayes/src/hex_utils.h |only
spBayes-0.1-1/spBayes/src/idist.cpp |only
spBayes-0.1-1/spBayes/src/mPPCov.cpp |only
spBayes-0.1-1/spBayes/src/mPPCovInvDet.cpp |only
spBayes-0.1-1/spBayes/src/mPPCovInvDet_wrap.cpp |only
spBayes-0.1-1/spBayes/src/mvCov.cpp |only
spBayes-0.1-1/spBayes/src/mvCovInvDet.cpp |only
spBayes-0.1-1/spBayes/src/mvCovInvDet_wrap.cpp |only
spBayes-0.1-1/spBayes/src/mvMPPCov.cpp |only
spBayes-0.1-1/spBayes/src/mvMPPCovInvDet.cpp |only
spBayes-0.1-1/spBayes/src/mvMPPCovInvDet_wrap.cpp |only
spBayes-0.1-1/spBayes/src/mvPPCov.cpp |only
spBayes-0.1-1/spBayes/src/mvPPCovInvDet.cpp |only
spBayes-0.1-1/spBayes/src/mvPPCovInvDet_wrap.cpp |only
spBayes-0.1-1/spBayes/src/pPCov.cpp |only
spBayes-0.1-1/spBayes/src/pPCovInvDet.cpp |only
spBayes-0.1-1/spBayes/src/pPCovInvDet_wrap.cpp |only
spBayes-0.1-1/spBayes/src/ptsInPoly.cpp |only
spBayes-0.1-1/spBayes/src/spGLM.cpp |only
spBayes-0.1-1/spBayes/src/spGLMPredict.cpp |only
spBayes-0.1-1/spBayes/src/spLM.cpp |only
spBayes-0.1-1/spBayes/src/spLMPredict.cpp |only
spBayes-0.1-1/spBayes/src/spMPPMvDIC.cpp |only
spBayes-0.1-1/spBayes/src/spMvDIC.cpp |only
spBayes-0.1-1/spBayes/src/spMvGLM.cpp |only
spBayes-0.1-1/spBayes/src/spMvGLMPredict.cpp |only
spBayes-0.1-1/spBayes/src/spMvLM.cpp |only
spBayes-0.1-1/spBayes/src/spMvLMPredict.cpp |only
spBayes-0.1-1/spBayes/src/spPPGLM.cpp |only
spBayes-0.1-1/spBayes/src/spPPLM.cpp |only
spBayes-0.1-1/spBayes/src/spPPMvGLM.cpp |only
spBayes-0.1-1/spBayes/src/spPPMvLM.cpp |only
spBayes-0.1-1/spBayes/src/splmDIC.cpp | 182 ++++---
spBayes-0.1-1/spBayes/src/util.cpp | 233 ++++++++++
spBayes-0.1-1/spBayes/src/util.h | 31 +
110 files changed, 855 insertions(+), 148 deletions(-)
Author: Dan Kelley
Diff between oce versions 0.1-75 dated 2009-01-07 and 0.1-76 dated 2009-03-03
Title: Analysis of Oceanographic data
Description: Supports the analysis of Oceanographic data,
including CTD measurements, sea-level timeseries, coastline
files, etc. Also includes functions for calculating
seawater properties such as density, and derived properties
such as buoyancy frequency.
oce-0.1-75/oce/svn-commit.2.tmp |only
oce-0.1-75/oce/svn-commit.3.tmp |only
oce-0.1-75/oce/svn-commit.4.tmp |only
oce-0.1-76/oce/DESCRIPTION | 6
oce-0.1-76/oce/NAMESPACE | 23
oce-0.1-76/oce/NEWS | 15
oce-0.1-76/oce/R/ctd.trim.R | 37
oce-0.1-76/oce/R/decimate.R |only
oce-0.1-76/oce/R/fill.gap.R |only
oce-0.1-76/oce/R/make.filter.R |only
oce-0.1-76/oce/R/oce.edit.R | 19
oce-0.1-76/oce/R/oce.write.table.R |only
oce-0.1-76/oce/R/plot.TS.R | 8
oce-0.1-76/oce/R/plot.coastline.R | 25
oce-0.1-76/oce/R/plot.ctd.R | 123
oce-0.1-76/oce/R/plot.ctd.scan.R | 9
oce-0.1-76/oce/R/plot.profile.R | 72
oce-0.1-76/oce/R/plot.section.R | 12
oce-0.1-76/oce/R/plot.tdr.R | 8
oce-0.1-76/oce/R/plot.topo.R | 8
oce-0.1-76/oce/R/read.ctd.R | 123
oce-0.1-76/oce/R/read.sealevel.R | 14
oce-0.1-76/oce/R/read.tdr.R | 24
oce-0.1-76/oce/R/read.topo.R | 8
oce-0.1-76/oce/R/summary.ctd.R | 2
oce-0.1-76/oce/R/summary.lobo.R | 4
oce-0.1-76/oce/R/summary.tdr.R | 4
oce-0.1-76/oce/R/summary.tide.R | 14
oce-0.1-76/oce/R/summary.topo.R | 6
oce-0.1-76/oce/R/sw.N2.R | 9
oce-0.1-76/oce/R/tidem.R | 29
oce-0.1-76/oce/R/zzz.R | 8
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oce-0.1-76/oce/inst/doc/oce.pdf | 5376 +++++++++++++--------------
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oce-0.1-76/oce/man/coastline.hal.Rd | 2
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oce-0.1-76/oce/man/plot.ctd.scan.Rd | 5
oce-0.1-76/oce/man/plot.profile.Rd | 19
oce-0.1-76/oce/man/plot.tdr.Rd | 13
oce-0.1-76/oce/man/plot.topo.Rd | 2
oce-0.1-76/oce/man/read.ctd.Rd | 4
oce-0.1-76/oce/man/read.sealevel.Rd | 7
oce-0.1-76/oce/man/read.tdr.Rd | 26
oce-0.1-76/oce/man/read.topo.Rd | 6
oce-0.1-76/oce/man/section.Rd | 6
oce-0.1-76/oce/man/summary.tdr.Rd | 4
oce-0.1-76/oce/man/summary.tide.Rd | 6
oce-0.1-76/oce/man/summary.topo.Rd | 2
oce-0.1-76/oce/man/sw.N2.Rd | 22
oce-0.1-76/oce/man/tdr.Rd | 8
oce-0.1-76/oce/man/tdr.patm.Rd | 4
oce-0.1-76/oce/man/tdr.trim.Rd | 9
oce-0.1-76/oce/man/tidem.Rd | 44
oce-0.1-76/oce/src/sw_spice.c | 2
oce-0.1-76/oce/src/sw_svel.c | 1
oce-0.1-76/oce/tests/ctd.cnv |only
80 files changed, 3395 insertions(+), 3069 deletions(-)
Author: John Verzani
Title: Toolkit implementation of gWidgets for www
Description: Port of gWidgets API to www using Rpad to link R with a web page and Ext to create widgets.
Processing code from http://ejohn.org/blog/processingjs
Diff between gWidgetsWWW versions 0.0-5 dated 2009-02-10 and 0.0-6 dated 2009-03-03
DESCRIPTION | 5 - NAMESPACE | 6 - NEWS | 16 +++ R/aaa.R | 155 +++++++++++++++++++++++----------- R/common.R | 2 R/dialogs.R | 36 ++++---- R/gcheckboxgroup.R | 4 R/gcombobox.R | 29 +++--- R/gedit.R | 4 R/ggroup.R | 33 +++++-- R/ghtml.R | 3 R/glayout.R | 2 R/gnotebook.R | 1 R/gprocessingjs.R |only R/gradio.R | 2 R/gstatusbar.R | 4 R/gtable.R | 2 R/gtext.R | 14 ++- R/gwindow.R | 12 +- R/icons.R | 2 TODO.txt | 11 +- inst/Examples/ex-actions.R | 2 inst/Examples/ex-actions.html | 56 ++++++++---- inst/Examples/ex-buttons.R | 2 inst/Examples/ex-buttons.html | 44 +++++++-- inst/Examples/ex-editdata.R |only inst/Examples/ex-editdata.html |only inst/Examples/ex-form.R | 4 inst/Examples/ex-form.html | 48 +++++++--- inst/Examples/ex-gcombobox.R | 14 +-- inst/Examples/ex-gcombobox.html | 44 +++++++-- inst/Examples/ex-ggooglemaps.html | 84 +++++++----------- inst/Examples/ex-ghtml.R | 2 inst/Examples/ex-ghtml.html | 49 +++++++--- inst/Examples/ex-gprocessingjs.R |only inst/Examples/ex-gprocessingjs.html |only inst/Examples/ex-gui-plots.R | 10 +- inst/Examples/ex-gui.R | 23 ++--- inst/Examples/ex-gui.html | 42 +++++++-- inst/Examples/ex-index.R | 34 +++++-- inst/Examples/ex-index.html | 41 +++++++-- inst/Examples/ex-layouts.R | 36 ++++---- inst/Examples/ex-layouts.html | 42 +++++++-- inst/Examples/ex-t-test.R | 20 ++-- inst/Examples/ex-t-test.html | 55 ++++++++---- inst/Examples/ex-widgets.R | 3 inst/Examples/ex-widgets.html | 161 ++++++++---------------------------- inst/Examples/ex-windows.R | 2 inst/Examples/ex-windows.html | 42 +++++++-- inst/doc |only inst/javascript |only man/gWidgetsWWW-undocumented.Rd | 1 man/ggooglemaps.Rd | 6 - man/gprocessingjs.Rd |only 54 files changed, 722 insertions(+), 488 deletions(-)
Author: Rob Goedman
Diff between Ryacas versions 0.2-7 dated 2007-09-09 and 0.2-9 dated 2009-03-03
Title: R interface to the yacas computer algebra system
Description: An interface to the yacas computer algebra system.
Ryacas-0.2-7/Ryacas/inst/doc/Ryacas.toc |only
Ryacas-0.2-9/Ryacas/DESCRIPTION | 14
Ryacas-0.2-9/Ryacas/inst/NEWS | 10
Ryacas-0.2-9/Ryacas/inst/THANKS | 1
Ryacas-0.2-9/Ryacas/inst/doc/Ryacas-raw | 10
Ryacas-0.2-9/Ryacas/inst/doc/Ryacas.pdf | 611 ++++++++++++++----------------
Ryacas-0.2-9/Ryacas/man/Ryacas-package.Rd | 6
Ryacas-0.2-9/Ryacas/man/yacas.Rd | 6
Ryacas-0.2-9/Ryacas/man/yacasInstall.Rd | 2
9 files changed, 337 insertions(+), 323 deletions(-)
Author: Matthew K. Lau
Title: Dunnett-Tukey-Kramer Pairwise Multiple Comparison Test Adjusted for Unequal Variances and Unequal Sample Sizes
Description: Functions for conducting and plotting Dunnett's modified Tukey-Kramer pairwise multiple comparison test accounting for unequal variance and unequal sample sizes.
Diff between DTK versions 1.0 dated 2009-02-27 and 1.1 dated 2009-03-03
DESCRIPTION | 8 ++++---- man/DTK-package.Rd | 4 ++-- 2 files changed, 6 insertions(+), 6 deletions(-)
Author: Adrian Baddeley
Diff between spatstat versions 1.14-10 dated 2009-02-03 and 1.15-0 dated 2009-03-02
Title: Spatial Point Pattern analysis, model-fitting, simulation, tests
Description: A package for analysing spatial data,
mainly Spatial Point Patterns, including multitype/marked points
and spatial covariates, in any two-dimensional spatial region.
Contains functions for plotting spatial data,
exploratory data analysis, model-fitting, simulation,
spatial sampling, model diagnostics,
and formal inference. Data types include point patterns,
line segment patterns, spatial windows, and
pixel images. Point process models can be
fitted to point pattern data. Cluster type models are fitted
by the method of minimum contrast. Very general Gibbs point
process models can be fitted to point pattern data
using a function ppm similar to lm or glm. Models may
include dependence on covariates, interpoint interaction
and dependence on marks. Fitted models can be simulated automatically.
Also provides facilities for formal inference (such as chi-squared
tests) and model diagnostics (including simulation
envelopes, residuals, residual plots and Q-Q plots).
.Rbuildindex.5392 |only
DESCRIPTION | 6
INDEX | 3
R/affine.S | 36 +++--
R/alltypes.R | 35 +++--
R/colour.R |only
R/deldir.R | 116 ++++++++++++++----
R/envelope.R | 29 ++--
R/plot.owin.S | 25 +++
R/plot.ppp.S | 27 ++--
R/ripras.S | 6
R/rotate.S | 15 +-
R/tess.R | 29 +++-
R/window.S | 88 ++++++--------
R/wingeom.S | 31 +++-
R/xypolygon.S | 33 +++--
data/amacrine.rda |binary
data/anemones.rda |binary
data/ants.rda |binary
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data/betacells.rda |binary
data/bramblecanes.rda |binary
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data/urkiola.rda |binary
demo/spatstat.R | 50 ++++++-
inst/doc/shapefiles.Rnw | 301 ++++++++++++++++++++++++++++++++++++++----------
inst/doc/shapefiles.pdf |binary
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man/internal.Rd | 14 ++
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src/trigraf.c |only
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Author: Dimitris Rizopoulos
Diff between ltm versions 0.8-9 dated 2009-01-08 and 0.9-0 dated 2009-03-02
Title: Latent Trait Models under IRT
Description: Analysis of multivariate dichotomous and polytomous data using latent trait models under the Item Response Theory approach. It includes the Rasch, the Two-Parameter Logistic, the Birnbaum's Three-Parameter, the Graded Response, and the Generalized Partial Credit Models.
ltm-0.8-9/ltm/man/GoF.rasch.Rd |only
ltm-0.9-0/ltm/DESCRIPTION | 10 +++---
ltm-0.9-0/ltm/NAMESPACE | 40 +++++++++++++++++--------
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ltm-0.9-0/ltm/R/fitted.ltm.R | 1
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ltm-0.9-0/ltm/R/fitted.tpm.R | 1
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ltm-0.9-0/ltm/R/plot.grm.R | 14 +++++----
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ltm-0.9-0/ltm/man/coef.Rd | 5 ++-
ltm-0.9-0/ltm/man/factor.scores.Rd | 13 +++++---
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ltm-0.9-0/ltm/man/item.fit.Rd | 3 +
ltm-0.9-0/ltm/man/ltm-package.Rd | 11 +++----
ltm-0.9-0/ltm/man/ltm.Rd | 4 +-
ltm-0.9-0/ltm/man/margins.Rd | 13 +++-----
ltm-0.9-0/ltm/man/mult.choice.Rd | 13 ++++----
ltm-0.9-0/ltm/man/person.fit.Rd | 3 +
ltm-0.9-0/ltm/man/plot.Rd | 17 +++++++++--
ltm-0.9-0/ltm/man/plot.fscores.Rd | 2 -
ltm-0.9-0/ltm/man/residuals.Rd | 6 +++
ltm-0.9-0/ltm/man/rmvlogis.Rd | 38 ++++++++++++++++--------
ltm-0.9-0/ltm/man/summary.Rd | 9 ++++-
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ltm-0.9-0/ltm/man/vcov.Rd | 14 +++++----
68 files changed, 247 insertions(+), 111 deletions(-)
Author: J. O. Ramsay
Diff between fda versions 2.1.0 dated 2009-01-03 and 2.1.1 dated 2009-03-02
Title: Functional Data Analysis
Description: These functions were developed to support
functional data analysis as described in Ramsay, J. O.
and Silverman, B. W. (2005) Functional Data Analysis.
New York: Springer. They were ported from earlier
versions in Matlab and S-PLUS. A manual that describes
the use of these functions is available in this
library. The library also contains a number of the
data sets used in the book along with R code for the
analyses that produced many of the figures in the book.
DESCRIPTION | 4
NEWS | 19 +
R/AmpPhaseDecomp.R |only
R/df.residual.fRegress.R |only
R/eigen.pda.R | 36 +++
R/fRegress.CV.R | 113 +++++++---
R/fRegress.numeric.R | 20 +
R/fdPar.R | 8
R/inprod.R | 30 +-
R/lmWinsor.R | 373 +++++++++++++++++++++++++++--------
R/pda.overlay.r |only
R/predict.fRegress.R |only
R/predict.lmWinsor.R | 53 +++-
R/subscript.R | 6
R/varmx.pca.fd.R | 2
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data/ReginaPrecip.rda |only
data/StatSciChinese.rda |only
data/dateAccessories.rda |binary
data/infantGrowth.rda |only
data/pinchraw.rda |only
demo/weatherlm.R | 3
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man/predict.lmWinsor.Rd | 52 ++++
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56 files changed, 858 insertions(+), 287 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 0.6.3 dated 2009-01-11 and 0.6.4 dated 2009-03-02
Rcpp-0.6.3/Rcpp/debian |only Rcpp-0.6.3/Rcpp/src/Makefile.win |only Rcpp-0.6.4/Rcpp/DESCRIPTION | 6 Rcpp-0.6.4/Rcpp/cleanup | 3 Rcpp-0.6.4/Rcpp/doxyfile |only Rcpp-0.6.4/Rcpp/inst/ChangeLog | 55 +++- Rcpp-0.6.4/Rcpp/inst/doc/RcppAPI.pdf |binary Rcpp-0.6.4/Rcpp/inst/doc/html |only Rcpp-0.6.4/Rcpp/inst/doc/latex |only Rcpp-0.6.4/Rcpp/inst/doc/man |only Rcpp-0.6.4/Rcpp/src/Makevars.win |only Rcpp-0.6.4/Rcpp/src/Rcpp.cpp | 478 +++++++++++++++++------------------ Rcpp-0.6.4/Rcpp/src/Rcpp.h | 165 ++++++------ Rcpp-0.6.4/Rcpp/src/RcppExample.cpp | 50 +-- 14 files changed, 395 insertions(+), 362 deletions(-)
Author: Mark S. Handcock
Diff between ergm versions 2.1 dated 2008-04-28 and 2.2-0 dated 2009-03-01
Title: Fit, Simulate and Diagnose Exponential-Family Models for Networks
Description: An integrated set of tools to analyze and simulate networks based on exponential-family random graph models (ERGM). "ergm" is a part of the "statnet" suite of packages for network analysis. For a list of functions type: help(package='ergm')
ergm-2.1/ergm/.atexfile |only
ergm-2.1/ergm/LICENSE.122207 |only
ergm-2.1/ergm/LICENSE.2006 |only
ergm-2.1/ergm/R/ergm.geodist.R |only
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ergm-2.1/ergm/inst/license.statnet.R |only
ergm-2.2-0/ergm/DESCRIPTION | 9
ergm-2.2-0/ergm/R/InitConstraint.R | 24
ergm-2.2-0/ergm/R/InitErgm.R | 649 ++++----
ergm-2.2-0/ergm/R/InitErgmTerm.R | 626 ++++++-
ergm-2.2-0/ergm/R/InitMHP.R | 14
ergm-2.2-0/ergm/R/anova.ergm.R | 14
ergm-2.2-0/ergm/R/anova.ergmlist.R | 16
ergm-2.2-0/ergm/R/as.directed.R | 14
ergm-2.2-0/ergm/R/as.edgelist.R | 14
ergm-2.2-0/ergm/R/as.network.numeric.R | 14
ergm-2.2-0/ergm/R/check.ErgmTerm.R | 31
ergm-2.2-0/ergm/R/coef.ergm.R | 14
ergm-2.2-0/ergm/R/control.ergm.R | 22
ergm-2.2-0/ergm/R/control.gof.R | 14
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ergm-2.2-0/ergm/R/ergm.MCMCacf.R | 14
ergm-2.2-0/ergm/R/ergm.MCMCse.R | 68
ergm-2.2-0/ergm/R/ergm.R | 153 +
ergm-2.2-0/ergm/R/ergm.bounddeg.R | 14
ergm-2.2-0/ergm/R/ergm.check.R | 14
ergm-2.2-0/ergm/R/ergm.curved.R | 14
ergm-2.2-0/ergm/R/ergm.curved.statsmatrix.R | 14
ergm-2.2-0/ergm/R/ergm.curved.update.R | 14
ergm-2.2-0/ergm/R/ergm.degeneracy.R | 14
ergm-2.2-0/ergm/R/ergm.degenerate.R | 14
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ergm-2.2-0/ergm/R/ergm.estimate.R | 80
ergm-2.2-0/ergm/R/ergm.eta.R | 14
ergm-2.2-0/ergm/R/ergm.etagrad.R | 14
ergm-2.2-0/ergm/R/ergm.etagradmult.R | 14
ergm-2.2-0/ergm/R/ergm.etamap.R | 14
ergm-2.2-0/ergm/R/ergm.geodistn.R | 83 -
ergm-2.2-0/ergm/R/ergm.getMCMCsample.R | 84 -
ergm-2.2-0/ergm/R/ergm.getglobalstats.R | 229 --
ergm-2.2-0/ergm/R/ergm.getmodel.R | 49
ergm-2.2-0/ergm/R/ergm.getnetwork.R | 26
ergm-2.2-0/ergm/R/ergm.getterms.R | 14
ergm-2.2-0/ergm/R/ergm.independencemodel.R | 14
ergm-2.2-0/ergm/R/ergm.initialfit.R | 48
ergm-2.2-0/ergm/R/ergm.llik.R | 14
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ergm-2.2-0/ergm/R/ergm.logitreg.R | 14
ergm-2.2-0/ergm/R/ergm.mainfitloop.R | 54
ergm-2.2-0/ergm/R/ergm.mple.R | 43
ergm-2.2-0/ergm/R/ergm.pen.glm.R | 50
ergm-2.2-0/ergm/R/ergm.phase12.R | 18
ergm-2.2-0/ergm/R/ergm.pl.R | 62
ergm-2.2-0/ergm/R/ergm.revisetheta0.R | 14
ergm-2.2-0/ergm/R/ergm.robmon.R | 24
ergm-2.2-0/ergm/R/ergm.san.R |only
ergm-2.2-0/ergm/R/ergm.stocapprox.R | 22
ergm-2.2-0/ergm/R/ergm.sufftoprob.R | 14
ergm-2.2-0/ergm/R/ergm.utility.R | 26
ergm-2.2-0/ergm/R/get.node.attr.R | 14
ergm-2.2-0/ergm/R/getMHproposal.R | 22
ergm-2.2-0/ergm/R/gof.ergm.R | 35
ergm-2.2-0/ergm/R/license.statnet.R | 14
ergm-2.2-0/ergm/R/mcmc.diagnostics.ergm.R | 14
ergm-2.2-0/ergm/R/midarrow.R | 14
ergm-2.2-0/ergm/R/mixingmatrix.R | 14
ergm-2.2-0/ergm/R/network.update.R | 14
ergm-2.2-0/ergm/R/plot.ergm.R | 14
ergm-2.2-0/ergm/R/print.ergm.R | 14
ergm-2.2-0/ergm/R/print.network.series.R | 14
ergm-2.2-0/ergm/R/print.summary.ergm.R | 14
ergm-2.2-0/ergm/R/robust.inverse.R | 14
ergm-2.2-0/ergm/R/simulate.ergm.R | 262 +--
ergm-2.2-0/ergm/R/statnetShowDoc.R | 14
ergm-2.2-0/ergm/R/summary.ergm.R | 16
ergm-2.2-0/ergm/R/summary.network.series.R | 14
ergm-2.2-0/ergm/R/summary.statistics.network.R | 18
ergm-2.2-0/ergm/R/zzz.R | 13
ergm-2.2-0/ergm/inst/CITATION | 83 -
ergm-2.2-0/ergm/man/Getting.Started.Rd | 103 -
ergm-2.2-0/ergm/man/anova.ergm.Rd | 12
ergm-2.2-0/ergm/man/as.network.numeric.Rd | 12
ergm-2.2-0/ergm/man/coef.ergm.Rd | 12
ergm-2.2-0/ergm/man/control.ergm.Rd | 62
ergm-2.2-0/ergm/man/control.gof.Rd | 12
ergm-2.2-0/ergm/man/control.simulate.Rd | 12
ergm-2.2-0/ergm/man/edgelist.ergm.Rd |only
ergm-2.2-0/ergm/man/ergm-internal.Rd | 34
ergm-2.2-0/ergm/man/ergm-package.Rd | 94 -
ergm-2.2-0/ergm/man/ergm-terms.Rd | 647 ++++----
ergm-2.2-0/ergm/man/ergm.Rd | 139 +
ergm-2.2-0/ergm/man/ergmuserterms.Rd | 45
ergm-2.2-0/ergm/man/faux.magnolia.high.Rd | 12
ergm-2.2-0/ergm/man/faux.mesa.high.Rd | 200 +-
ergm-2.2-0/ergm/man/flobusiness.Rd | 12
ergm-2.2-0/ergm/man/flomarriage.Rd | 12
ergm-2.2-0/ergm/man/florentine.Rd | 12
ergm-2.2-0/ergm/man/g4.Rd | 12
ergm-2.2-0/ergm/man/gof.ergm.Rd | 12
ergm-2.2-0/ergm/man/mcmc.diagnostics.ergm.Rd | 12
ergm-2.2-0/ergm/man/molecule.Rd | 12
ergm-2.2-0/ergm/man/network.update.Rd | 12
ergm-2.2-0/ergm/man/plot.ergm.Rd | 12
ergm-2.2-0/ergm/man/plot.gofobject.Rd | 12
ergm-2.2-0/ergm/man/print.ergm.Rd | 12
ergm-2.2-0/ergm/man/samplk.Rd | 12
ergm-2.2-0/ergm/man/sampson.Rd | 12
ergm-2.2-0/ergm/man/simulate.ergm.Rd | 18
ergm-2.2-0/ergm/man/summary.ergm.Rd | 12
ergm-2.2-0/ergm/man/summary.gofobject.Rd | 12
ergm-2.2-0/ergm/man/summary.statistics.Rd | 13
ergm-2.2-0/ergm/src/MCMC.c | 15
ergm-2.2-0/ergm/src/MCMC.h | 15
ergm-2.2-0/ergm/src/MHproposals.c | 26
ergm-2.2-0/ergm/src/MHproposals.h | 15
ergm-2.2-0/ergm/src/MHproposals_bipartite.c | 15
ergm-2.2-0/ergm/src/MHproposals_bipartite.h | 15
ergm-2.2-0/ergm/src/MPLE.c | 19
ergm-2.2-0/ergm/src/MPLE.h | 15
ergm-2.2-0/ergm/src/SAN.c |only
ergm-2.2-0/ergm/src/SAN.h |only
ergm-2.2-0/ergm/src/changestats.c | 2007 +++++++++++++++++--------
ergm-2.2-0/ergm/src/changestats.h | 29
ergm-2.2-0/ergm/src/edgetree.c | 46
ergm-2.2-0/ergm/src/edgetree.h | 25
ergm-2.2-0/ergm/src/geodist.c | 16
ergm-2.2-0/ergm/src/geodist.h | 16
ergm-2.2-0/ergm/src/model.c | 15
ergm-2.2-0/ergm/src/model.h | 15
ergm-2.2-0/ergm/src/netstats.c | 39
ergm-2.2-0/ergm/src/netstats.h | 15
ergm-2.2-0/ergm/src/wtedgetree.c |only
ergm-2.2-0/ergm/src/wtedgetree.h |only
ergm-2.2-0/ergm/tests/ALLTERMTESTS | 1
ergm-2.2-0/ergm/tests/constrain_observed.R |only
ergm-2.2-0/ergm/tests/hamming_termtests.R |only
140 files changed, 5352 insertions(+), 2123 deletions(-)
Author: Gopal, V. and Fuentes, C. and Casella, G.
Title: Tests/Searches for significant clusters in genetic data.
Description: Bayes Clustering Package
Diff between bayesclust versions 1.1 dated 2009-02-03 and 2.1 dated 2009-03-01
DESCRIPTION | 6 ++-- R/cluster.optimal.R | 68 ++++++++++++++++++++-------------------------- R/cluster.test.R | 11 +++---- R/fdr.test.R | 11 +++---- R/nulldensity.R | 4 -- man/bayesclust-package.Rd | 2 - man/cluster.optimal.Rd | 4 +- man/cluster.test.Rd | 4 +- man/fdr.test.Rd | 9 ++---- man/nulldensity.Rd | 8 ++--- src/GroupMH.c | 40 ++++----------------------- src/nullsum.c | 19 +----------- 12 files changed, 64 insertions(+), 122 deletions(-)
Author: Yaqian Guo
Diff between rda versions 1.0 dated 2006-02-14 and 1.0.1 dated 2009-03-01
Title: Shrunken Centroids Regularized Discriminant Analysis
Description: Shrunken Centroids Regularized Discriminant Analysis
for the classification purpose in high dimensional data.
DESCRIPTION | 8 ++++----
1 file changed, 4 insertions(+), 4 deletions(-)
Author: Stefan Hengl
Title: Mean Optimal Transformation Approach
Description: Detect nonlinear functional relations. This package was originally
designed for the identifiability analysis of nonlinear dynamical models. However,
the concept is very general and allows to detect groups of functionally related
variables whenever there are multiple estimates for each variable, which can be written
in matrix K. The essence of the algorithm is the calculation of mean optimal
transformations estimated from bootstrap samples drawn from K.
Diff between mota versions 1.2 dated 2007-09-07 and 1.2.1 dated 2009-03-01
DESCRIPTION | 8 ++++---- 1 file changed, 4 insertions(+), 4 deletions(-)
Author: Amy Kapp
Diff between clusterRepro versions 0.5-1 dated 2006-02-22 and 0.5-1.1 dated 2009-03-01
Title: Reproducibility of gene expression clusters
Description: A function for validating microarry clusters via reproducibility
DESCRIPTION | 8 ++++----
1 file changed, 4 insertions(+), 4 deletions(-)
Author: Andrew Gelman
Diff between arm versions 1.2-6 dated 2009-02-28 and 1.2-7 dated 2009-03-01
Title: Data Analysis Using Regression and Multilevel/Hierarchical Models
Description: R functions for processing lm, glm, mer and polr outputs.
CHANGELOG | 5 +++++
DESCRIPTION | 7 +++----
R/display.R | 24 +++++++++++++++++-------
3 files changed, 25 insertions(+), 11 deletions(-)