Author: Douglas Bates
Diff between lme4 versions 0.999375-21 dated 2008-07-11 and 0.999375-22 dated 2008-07-12
Title: Linear mixed-effects models using S4 classes
Description: Fit linear and generalized linear mixed-effects models.
ChangeLog | 20 ++++
DESCRIPTION | 6 -
R/lmer.R | 150 +++++++++++++++++++++---------------
inst/doc/Implementation.pdf |binary
inst/doc/PLSvGLS.Rnw | 21 +++++
inst/doc/PLSvGLS.pdf |binary
inst/doc/Theory.pdf |binary
man/lmer.Rd | 15 ++-
src/lmer.c | 3
tests/nlmer.R | 13 +--
tests/nlmer.Rout.save | 180 +++++++++++++++++++++-----------------------
11 files changed, 236 insertions(+), 172 deletions(-)
Author: R. H. Baayen
Title: Data sets and functions with "Analyzing Linguistic Data: A practical introduction to statistics".
Description: Data sets exemplifying statistical methods, and some
facilitatory utility functions used in
"Analyzing Linguistic Data: A practical introduction to
statistics using R", Cambridge University Press, 2008.
Diff between languageR versions 0.94 dated 2008-07-08 and 0.95 dated 2008-07-12
DESCRIPTION | 4 - R/aovlmer.fnc.R | 9 +-- R/preparePredictor.fnc.R | 1 R/pvals.fnc.R | 128 ++++++++++++++++++----------------------------- man/aovlmer.fnc.Rd | 10 +-- man/lexdec.Rd | 4 + man/pvals.fnc.Rd | 9 ++- 7 files changed, 73 insertions(+), 92 deletions(-)
Author: Gabor Csardi
Diff between igraph versions 0.5 dated 2008-02-13 and 0.5.1 dated 2008-07-12
Title: Routines for simple graphs, network analysis.
Description: Routines for simple graphs and network analysis. igraph can
handle large graphs very well and provides functions for generating random
and regular graphs, graph visualization, centrality indices and much more.
ChangeLog | 86 ++++
ChangeLog.orig |only
ChangeLog.rej |only
DESCRIPTION | 6
NAMESPACE | 11
R/CohesiveBlocks.R | 73 ++--
R/auto.R | 51 ++
R/centrality.R | 35 +
R/community.R | 9
R/conversion.R | 193 ++++++++++-
R/games.R | 4
R/layout.R | 156 ++++++++
R/plot.R | 172 +++------
R/plot.common.R | 4
R/plot.shapes.R |only
R/structural.properties.R | 34 +
R/structure.generators.R | 259 +++++++++++++-
configure | 18 -
man/arpack.Rd | 24 +
man/conversion.Rd | 12
man/degree.sequence.game.Rd | 32 +
man/fastgreedy.community.Rd | 11
man/graph.adjacency.Rd | 32 +
man/graph.adjlist.Rd |only
man/graph.constructors.Rd | 15
man/graph.data.frame.Rd |only
man/graphNEL.Rd |only
man/igraph.vertex.shapes.Rd |only
man/is.mutual.Rd |only
man/layout.Rd | 6
man/layout.drl.Rd |only
man/plot.common.Rd | 32 +
man/shortest.paths.Rd | 32 +
man/similarity.Rd | 18 -
man/walktrap.community.Rd | 4
src/DensityGrid.cpp |only
src/DensityGrid.h |only
src/Makevars |only
src/Makevars.win | 2
src/NetDataTypes.cpp | 2
src/NetDataTypes.h | 40 +-
src/NetRoutines.cpp | 8
src/adjlist.c | 14
src/arpack.c | 142 +++++++-
src/arpack.h | 3
src/attributes.h | 4
src/bliss.cc | 4
src/bliss_graph.cc | 11
src/bliss_kqueue.hh | 1
src/bliss_kstack.hh | 1
src/cattributes.c | 24 -
src/centrality.c | 14
src/clustertool.cpp | 14
src/cocitation.c | 115 +++++-
src/community.c | 3
src/components.c | 52 ++
src/drl_Node.h |only
src/drl_graph.cpp |only
src/drl_graph.h |only
src/drl_layout.cpp |only
src/drl_layout.h |only
src/drl_parse.cpp |only
src/drl_parse.h |only
src/dtrexc.c | 2
src/dtrsen.c | 2
src/error.c | 7
src/error.h | 30 +
src/fast_community.c | 25 -
src/flow.c | 125 ++++++-
src/foreign-gml-lexer.c | 58 ++-
src/foreign-graphml.c | 15
src/foreign-lgl-lexer.c | 86 +++-
src/foreign-lgl-parser.c | 35 +
src/foreign-lgl-parser.h | 2
src/foreign-ncol-lexer.c | 84 +++-
src/foreign-ncol-parser.c | 30 -
src/foreign-ncol-parser.h | 2
src/foreign-pajek-lexer.c | 58 ++-
src/foreign-pajek-parser.c | 210 ++++++-----
src/foreign-pajek-parser.h | 2
src/foreign.c | 53 ++-
src/forestfire.c | 6
src/games.c | 353 ++++++++++++++++----
src/gengraph_box_list.cpp |only
src/gengraph_box_list.h |only
src/gengraph_definitions.h |only
src/gengraph_degree_sequence.cpp |only
src/gengraph_degree_sequence.h |only
src/gengraph_graph_molloy_hash.cpp |only
src/gengraph_graph_molloy_hash.h |only
src/gengraph_graph_molloy_optimized.cpp |only
src/gengraph_graph_molloy_optimized.h |only
src/gengraph_hash.h |only
src/gengraph_header.h |only
src/gengraph_mr-connected.cpp |only
src/gengraph_powerlaw.cpp |only
src/gengraph_powerlaw.h |only
src/gengraph_qsort.h |only
src/gengraph_random.cpp |only
src/gengraph_random.h |only
src/gengraph_vertex_cover.h |only
src/heap.c | 2
src/igraph.h | 130 +++++++
src/iterators.c | 4
src/layout.c | 205 ++++++-----
src/matrix.pmt | 2
src/pottsmodel_2.cpp | 23 -
src/random.c | 12
src/random.h | 3
src/rinterface.c | 299 ++++++++++++++++-
src/spmatrix.c | 2
src/structural_properties.c | 561 +++++++++++++++++++++++++++++++-
src/structure_generators.c | 341 +++++++++++++++++++
src/topology.c | 24 +
src/type_indexededgelist.c | 4
src/types.h | 2
src/vector.h | 6
src/vector.pmt | 67 +++
src/walktrap.cpp | 1
src/walktrap_graph.cpp | 1
120 files changed, 3939 insertions(+), 718 deletions(-)
Author: Francois Husson, Julie Josse, Sebastien Le, Jeremy Mazet
Title: Factor Analysis and Data Mining with R
Description: an R package for exploratory data analysis
Diff between FactoMineR versions 1.08 dated 2008-02-22 and 1.09 dated 2008-07-12
DESCRIPTION | 6 +-- NAMESPACE | 2 - R/CA.R | 2 + R/MCA.R | 3 + R/PCA.R | 8 ++-- R/catdes.r | 4 +- R/condes.r |only R/dimdesc.r | 79 +++++++++---------------------------------------- R/graph.var.R | 4 +- R/plot.AFDM.R | 4 +- data/tea.rda |only man/AFDM.Rd | 6 ++- man/CA.Rd | 2 - man/DMFA.Rd | 2 - man/HMFA.Rd | 3 + man/MCA.Rd | 4 +- man/MFA.Rd | 2 - man/PCA.Rd | 2 - man/catdes.Rd | 8 ++-- man/coeffRV.Rd | 2 - man/condes.Rd |only man/coord.ellipse.Rd | 2 - man/dimdesc.Rd | 2 - man/graph.var.Rd | 5 +-- man/plot.AFDM.Rd | 5 +-- man/plot.CA.Rd | 2 - man/plot.DMFA.Rd | 2 - man/plot.GPA.Rd | 2 - man/plot.GPApartial.Rd | 2 - man/plot.HMFA.Rd | 2 - man/plot.MCA.Rd | 2 - man/plot.MFA.Rd | 2 - man/plot.MFApartial.Rd | 2 - man/plot.PCA.Rd | 2 - man/prefpls.Rd | 4 -- man/print.AFDM.Rd | 2 - man/print.CA.Rd | 2 - man/print.GPA.Rd | 2 - man/print.HMFA.Rd | 2 - man/print.MCA.Rd | 2 - man/print.MFA.Rd | 2 - man/print.PCA.Rd | 2 - man/simule.Rd | 2 - man/tea.Rd |only man/textual.Rd | 2 - man/write.infile.Rd | 2 - 46 files changed, 78 insertions(+), 121 deletions(-)
Author: Ken Beath
Diff between randomLCA versions 0.3-2 dated 2008-06-12 and 0.5-1 dated 2008-07-12
Title: Random Effects Latent Class Analysis
Description: Fits random effects latent class models, as well as standard latent class models.
DESCRIPTION | 6 -
R/fit.adapt.random2.randomLCA.R | 156 +++++++------------------------
R/fit.adapt.random2byclass.randomLCA.R | 165 +++++++--------------------------
R/randomLCA.R | 2
R/summary.randomLCA.R | 58 +++++++++--
data/myocardial.rda |only
data/symptoms.RData |only
inst/NEWS | 10 ++
inst/doc/.build.timestamp |only
inst/doc/randomLCA-example.Rnw | 91 ++++++++++++++++++
inst/doc/randomLCA-example.pdf |binary
man/myocardial.Rd |only
man/randomLCA.Rd | 3
man/symptoms.Rd |only
src/bernoulliprobrandom.c | 10 +-
src/bernoulliprobrandom2.c |only
16 files changed, 231 insertions(+), 270 deletions(-)
Author: William Revelle
Diff between psych versions 1.0-42 dated 2008-03-24 and 1.0-51 dated 2008-07-12
Title: Procedures for Personality and Psychological Research
Description: A number of routines for personality, psychometrics and experimental
psychology. Functions are primarily for scale construction using factor analysis, cluster analysis and
reliability analysis, although others provide basic descriptive
statistics. For more information, see the personality-project.org/r.
DESCRIPTION | 8
NAMESPACE | 22
R/ICC.R |only
R/ICLUST.R | 11
R/ICLUST.cluster.R | 69
R/ICLUST.graph.R | 2
R/ICLUST.rgraph.R | 14
R/ICLUST.sort.R | 2
R/SD.R |only
R/VSS.R | 30
R/VSS.simulate.R | 15
R/bartlett.cortest.R |only
R/cluster.cor.R | 6
R/cluster.fit.R | 23
R/cluster.loadings.R | 13
R/cluster.plot.R | 8
R/cluster2keys.R |only
R/comorbidity.R |only
R/congeneric.sim.R | 3
R/describe.R | 8
R/fa.graph.R | 31
R/fa.parallel.R | 48
R/factor.pa.R | 38
R/jennrich.cortest.R |only
R/kappa.R |only
R/kurtosi.R | 6
R/make.keys.R |only
R/mat.cortest.R |only
R/mat.regress.R | 45
R/matrix.addition.R | 7
R/multi.hist.R | 3
R/normal.cortest.R |only
R/omega.R | 13
R/omega.graph.R | 77
R/pairs.panels.R | 38
R/phi.R | 4
R/principal.R | 41
R/read.clipboard.R | 9
R/read.clipboard.lower.R |only
R/rescale.R | 6
R/scaling.fits.R |only
R/schmid.R | 21
R/skew.R | 6
R/smc.R |only
R/structure.graph.R |only
R/test.psych.r | 37
R/thurstone.R |only
R/winsor.R | 38
data/cities.rda |only
data/epi.bfi.rda |only
data/vegetables.rda |only
inst/doc/index.html | 4
inst/doc/psych-manual.pdf |51855 +++++++++++++++++++++++++---------------------
man/00.psych-package.Rd | 55
man/ICC.Rd |only
man/ICLUST.Rd | 27
man/ICLUST.graph.Rd | 2
man/ICLUST.rgraph.Rd | 9
man/SD.Rd |only
man/VSS.Rd | 51
man/VSS.simulate.Rd | 7
man/Yule.Rd | 5
man/bartlett.cortest.Rd |only
man/bfi.Rd | 11
man/circ.tests.Rd | 2
man/cities.Rd |only
man/cluster.plot.Rd | 9
man/cluster2keys.Rd |only
man/comorbidity.Rd |only
man/congeneric.sim.Rd | 10
man/cubits.Rd | 1
man/epi.bfi.Rd |only
man/error.bars.Rd | 1
man/error.crosses.Rd | 24
man/fa.graph.Rd | 6
man/fa.parallel.Rd | 7
man/factor.congruence.Rd | 2
man/factor.pa.Rd | 4
man/heights.Rd | 4
man/kappa.Rd |only
man/make.hierarchical.Rd | 9
man/make.keys.Rd |only
man/mat.cortest.Rd |only
man/mat.regress.Rd | 18
man/matrix.addition.Rd | 6
man/omega.Rd | 11
man/omega.graph.Rd | 18
man/pairs.panels.Rd | 3
man/read.clipboard.Rd | 14
man/rescale.Rd | 10
man/scaling.fits.Rd |only
man/schmid.Rd | 5
man/score.items.Rd | 26
man/smc.Rd |only
man/thurstone.Rd |only
man/tr.Rd |only
man/vegetables.Rd |only
man/winsor.Rd | 19
98 files changed, 29062 insertions(+), 23875 deletions(-)
Author: Søren Højsgaard
Diff between gRbase versions 0.4.1 dated 2008-05-02 and 0.4.2 dated 2008-07-12
Title: A package for graphical modelling in R
Description: This package defines S3-classes gmData (graphical meta data), gModel (graphical model). Several other graphical modelling packages rely on these fundamental constructs. gRbase illustrates how hierarchical log-linear models (hllm) may be implemented.
ChangeLog | 8 ++++++-
DESCRIPTION | 4 +--
R/formulae.R | 53 +++++++++++++++++++++++++++++++++++++++++++------
R/ggm.R | 22 --------------------
R/setopsR.R | 2 -
R/utility.R |only
inst/doc/gRbase.pdf |binary
man/gRbase-internal.Rd | 6 +++++
8 files changed, 63 insertions(+), 32 deletions(-)
Author: Max Kuhn. Contributions from Jed Wing, Steve Weston and Andre Williams
Title: Classification and Regression Training
Description: Misc functions for training and plotting classification and regression models
Diff between caret versions 3.21 dated 2008-06-11 and 3.25 dated 2008-07-12
caret-3.21/caret/inst/doc/caretMisc.tex |only caret-3.21/caret/inst/doc/caretTrain.tex |only caret-3.21/caret/inst/doc/caretVarImp.tex |only caret-3.25/caret/DESCRIPTION | 6 +- caret-3.25/caret/NAMESPACE | 12 ++++ caret-3.25/caret/R/createGrid.R | 9 +-- caret-3.25/caret/R/createModel.R | 43 ++++++++++++++-- caret-3.25/caret/R/extractPrediction.R | 2 caret-3.25/caret/R/extractProb.R | 2 caret-3.25/caret/R/misc.R | 32 +++++++++--- caret-3.25/caret/R/pcaNNet.R |only caret-3.25/caret/R/predictionFunction.R | 11 +++- caret-3.25/caret/R/print.train.R | 4 - caret-3.25/caret/R/probFunction.R | 6 +- caret-3.25/caret/R/rfVarImp.R | 2 caret-3.25/caret/R/selection.R | 6 +- caret-3.25/caret/inst/doc/caretMisc.pdf | 79 ++++++++++++++---------------- caret-3.25/caret/inst/doc/caretTrain.pdf |binary caret-3.25/caret/inst/doc/caretVarImp.pdf |binary caret-3.25/caret/man/pcaNNet.Rd |only caret-3.25/caret/man/selection.Rd | 2 caret-3.25/caret/man/varImp.Rd | 9 +-- 22 files changed, 148 insertions(+), 77 deletions(-)
Author: Richard M. Heiberger, with contributions from Burt Holland.
Title: Rcmdr support for the HH package
Description: Rcmdr menu support for many of the functions in the HH package.
The focus is on menu items for functions we use in our introductory courses.
Diff between RcmdrPlugin.HH versions 1.1-12 dated 2008-03-21 and 1.1-14 dated 2008-07-12
DESCRIPTION | 6 +++--- R/PredictModel.R | 43 ++++++++++++++++++++++++++----------------- R/anovaTableII.R |only inst/etc/menus.txt | 2 +- man/anovaTableI.HH.Rd | 2 ++ 5 files changed, 32 insertions(+), 21 deletions(-)
More information about RcmdrPlugin.HH at CRAN
Permanent link
Author: Richard M. Heiberger
Title: Statistical Analysis and Data Display: Heiberger and Holland
Description: Support software for Statistical Analysis and Data
Display (Springer, ISBN 0-387-40270-5). This contemporary
presentation of statistical methods features extensive use of
graphical displays for exploring data and for displaying the
analysis. The authors demonstrate how to analyze data---showing
code, graphics, and accompanying computer listings---for all the
methods they cover. They emphasize how to construct and
interpret graphs, discuss principles of graphical design, and
show how accompanying traditional tabular results are used to
confirm the visual impressions derived directly from the
graphs. Many of the graphical formats are novel and appear
here for the first time in print. All chapters have exercises.
Diff between HH versions 2.1-12 dated 2008-04-18 and 2.1-13 dated 2008-07-12
DESCRIPTION | 6 +++--- R/norm.curve.R | 20 +++++++++++--------- R/resid.squares.R | 5 ++--- inst/doc |only inst/scripts |only man/resid.squares.Rd | 3 ++- 6 files changed, 18 insertions(+), 16 deletions(-)