Title: Inverse Regression for Text Analysis
Description: Multinomial [inverse] regression inference for text documents and associated attributes. Provides fast sparse multinomial logistic regression for phrase counts. A minimalist partial least squares routine is also included. Note that the topic modeling capability of textir is now a separate package, maptpx.
Author: Matt Taddy <taddy@chicagobooth.edu>
Maintainer: Matt Taddy <taddy@chicagobooth.edu>
Diff between textir versions 2.0-3 dated 2015-04-01 and 2.0-4 dated 2015-08-18
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- NAMESPACE | 2 ++ 3 files changed, 8 insertions(+), 6 deletions(-)
Title: Efficiently Read Sequence Data (VCF Format, BCF Format and METAL
Format) into R
Description: Integrate sequencing data (VCF/BCF) or meta-analysis results in R.
Author: Xiaowei Zhan <zhanxw@gmail.com> and Dajiang Liu
<dajiang.liu@gmail.com>, with contributions from Heng Li
<lh3@live.co.uk> (Heng Li wrote tabix and with MIT license
we include tabix source codes).
Maintainer: Xiaowei Zhan <zhanxw@gmail.com>
Diff between seqminer versions 4.5 dated 2015-06-29 and 4.7 dated 2015-08-18
ChangeLog | 12 ++ DESCRIPTION | 8 - MD5 | 17 ++-- R/genMakefile.R |only R/seqminer.R | 86 +++++++++++++++++++- README.md | 1 inst/CITATION | 8 - src/RangeList.cpp | 8 + src/StringUtil.h | 219 ++++++++++++++++++++++++++-------------------------- src/tabixLoader.cpp | 4 10 files changed, 235 insertions(+), 128 deletions(-)
Title: Classes with Reference Semantics
Description: The R6 package allows the creation of classes with reference
semantics, similar to R's built-in reference classes. Compared to reference
classes, R6 classes are simpler and lighter-weight, and they are not built
on S4 classes so they do not require the methods package. These classes
allow public and private members, and they support inheritance, even when
the classes are defined in different packages.
Author: Winston Chang [aut, cre]
Maintainer: Winston Chang <winston@stdout.org>
Diff between R6 versions 2.1.0 dated 2015-07-03 and 2.1.1 dated 2015-08-18
DESCRIPTION | 6 - MD5 | 18 ++--- NEWS | 9 ++ R/clone.R | 14 ++-- R/print.R | 2 README.md | 7 +- build/vignette.rds |binary inst/doc/Introduction.html | 6 - inst/doc/Performance.html | 143 ++++++++++++++++++++++---------------------- tests/testthat/test-clone.R | 25 +++++++ 10 files changed, 136 insertions(+), 94 deletions(-)
Title: Two-Parameter HMD Model Life Table System
Description: Functions supplied in this package will implement
discriminant analysis to select an appropriate life table
family, select an appropriate alpha level based on a desired
life expectancy at birth, produce a model mortality pattern
based on family and level as well as plot the results.
Author: David J. Sharrow, GUI by Hana Sevcikova
Maintainer: David J. Sharrow <dsharrow@uw.edu>
Diff between LifeTables versions 0.2 dated 2012-08-22 and 1.0 dated 2015-08-18
DESCRIPTION | 16 ++-- MD5 | 43 ++++++------ NAMESPACE | 21 ++++-- R/alpha.e0.R | 2 R/gui.R | 149 ++++++++++++++++++++++----------------------- R/hmd.DA.R | 34 +++++----- R/hmd.DA.mx.R | 23 ++++-- R/lt.mx.R | 108 ++++++++++++++++---------------- R/mod.lt.R | 2 R/mortmod.R | 9 +- data/MLTobs.RData |binary inst |only man/LifeTables-internal.Rd | 6 - man/LifeTables-package.Rd | 10 +-- man/MLTobs.Rd | 32 ++++----- man/alpha.e0.Rd | 4 - man/hmd.DA.Rd | 12 +-- man/hmd.DA.mx.Rd | 42 ++++++++---- man/lt.mx.Rd | 24 ++++--- man/mod.lt.Rd | 21 +++--- man/modelLT.gui.Rd | 2 man/mortmod.Rd | 12 +-- man/plotMLT.Rd | 6 - 23 files changed, 309 insertions(+), 269 deletions(-)
Title: Local Fisher Discriminant Analysis
Description: Functions for performing and visualizing Local Fisher Discriminant Analysis(LFDA), Kernel Fisher Discriminant Analysis(KLFDA), and Semi-supervised Local Fisher Discriminant Analysis(SELF).
Author: Yuan Tang <terrytangyuan@gmail.com> with great contributions from Zachary Deane-Mayer.
Maintainer: Yuan Tang <terrytangyuan@gmail.com>
Diff between lfda versions 1.0.0 dated 2015-08-13 and 1.1.0 dated 2015-08-18
DESCRIPTION | 8 +-- MD5 | 25 +++++++---- NAMESPACE | 7 +++ R/helpers.R | 69 ++++++++++++++++++++++++++------ R/klfda.R | 73 +++++++++++++--------------------- R/lfda.R | 77 +++++++++++++++++++++++------------- R/lfda_visualization.R | 5 ++ R/self.R |only README.md | 50 ++++++++++++++++++++++- man/getAffinityMatrix.Rd |only man/getMetricOfType.Rd |only man/predict.lfda.Rd |only man/print.lfda.Rd |only man/self.Rd |only tests/testthat/test_lfda.R | 6 ++ tests/testthat/test_self.R |only tests/testthat/test_visualization.R | 11 +++++ 17 files changed, 234 insertions(+), 97 deletions(-)
Title: Gamma Lasso Regression
Description: The gamma lasso algorithm provides regularization paths corresponding to a range of non-convex cost functions between L0 and L1 norms. As much as possible, usage for this package is analogous to that for the glmnet package (which does the same thing for penalization between L1 and L2 norms). For details see: Taddy (2015), One-Step Estimator Paths for Concave Regularization, http://arxiv.org/abs/1308.5623.
Author: Matt Taddy <taddy@chicagobooth.edu>
Maintainer: Matt Taddy <taddy@chicagobooth.edu>
Diff between gamlr versions 1.13-1 dated 2015-04-14 and 1.13-2 dated 2015-08-18
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NAMESPACE | 4 ++++ R/cv.gamlr.R | 6 +++--- R/gamlr.R | 2 +- man/hockey.Rd | 2 +- 6 files changed, 18 insertions(+), 14 deletions(-)
Title: Distributed Multinomial Regression
Description: Estimation for a multinomial logistic regression factorized into independent Poisson log regressions. See the textir package for applications in multinomial inverse regression analysis of text.
Author: Matt Taddy <taddy@chicagobooth.edu>
Maintainer: Matt Taddy <taddy@chicagobooth.edu>
Diff between distrom versions 0.3-2 dated 2015-04-01 and 0.3-3 dated 2015-08-18
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- NAMESPACE | 1 + R/dmr.R | 11 +++++++---- 4 files changed, 15 insertions(+), 11 deletions(-)
Title: Circular Visualization in R
Description: Circular layout is an efficient way for the visualization of huge
amounts of information. Here the circlize package provides an implementation
of circular layout generation in R as well as an enhancement of available
software. The flexibility of this package is based on the usage of low-level
graphics functions such that self-defined high-level graphics can be easily
implemented by users for specific purposes. Together with the seamless
connection between the powerful computational and visual environment in R,
circlize gives users more convenience and freedom to design figures for
better understanding complex patterns behind multi-dimensional data.
Author: Zuguang Gu
Maintainer: Zuguang Gu <z.gu@dkfz.de>
Diff between circlize versions 0.3.0 dated 2015-08-01 and 0.3.1 dated 2015-08-18
circlize-0.3.0/circlize/vignettes/Output |only circlize-0.3.1/circlize/DESCRIPTION | 11 circlize-0.3.1/circlize/MD5 | 147 ++++------ circlize-0.3.1/circlize/NAMESPACE | 9 circlize-0.3.1/circlize/NEWS | 9 circlize-0.3.1/circlize/R/chordDiagram.R | 107 +++++-- circlize-0.3.1/circlize/R/link.R | 33 +- circlize-0.3.1/circlize/R/utils.R | 125 +++++--- circlize-0.3.1/circlize/inst/doc/circlize.pdf |binary circlize-0.3.1/circlize/inst/doc/circular_phylogenetic_tree.pdf |binary circlize-0.3.1/circlize/inst/doc/circular_visualization_of_matrix.pdf |binary circlize-0.3.1/circlize/inst/doc/genomic_plot.pdf |binary circlize-0.3.1/circlize/inst/doc/interesting_graphics.pdf |binary circlize-0.3.1/circlize/inst/doc/visualize_relations_by_chord_diagram.pdf |binary circlize-0.3.1/circlize/man/adjacencyList2Matrix.rd | 29 + circlize-0.3.1/circlize/man/chordDiagram.rd | 23 - circlize-0.3.1/circlize/man/chordDiagramFromDataFrame.rd | 20 - circlize-0.3.1/circlize/man/chordDiagramFromMatrix.rd | 17 - circlize-0.3.1/circlize/man/circlize-package.rd | 33 +- circlize-0.3.1/circlize/man/circlize.rd | 8 circlize-0.3.1/circlize/man/circos.axis.rd | 15 - circlize-0.3.1/circlize/man/circos.clear.rd | 18 - circlize-0.3.1/circlize/man/circos.dendrogram.rd | 11 circlize-0.3.1/circlize/man/circos.genomicDensity.rd | 57 ++- circlize-0.3.1/circlize/man/circos.genomicInitialize.rd | 81 ++--- circlize-0.3.1/circlize/man/circos.genomicLines.rd | 117 ++++--- circlize-0.3.1/circlize/man/circos.genomicLink.rd | 55 +-- circlize-0.3.1/circlize/man/circos.genomicPoints.rd | 21 - circlize-0.3.1/circlize/man/circos.genomicPosTransformLines.rd | 21 - circlize-0.3.1/circlize/man/circos.genomicRainfall.rd | 61 ++-- circlize-0.3.1/circlize/man/circos.genomicRect.rd | 21 - circlize-0.3.1/circlize/man/circos.genomicText.rd | 55 +-- circlize-0.3.1/circlize/man/circos.genomicTrack.rd | 13 circlize-0.3.1/circlize/man/circos.genomicTrackPlotRegion.rd | 29 + circlize-0.3.1/circlize/man/circos.info.rd | 51 +-- circlize-0.3.1/circlize/man/circos.initialize.rd | 47 +-- circlize-0.3.1/circlize/man/circos.initializeWithIdeogram.rd | 103 +++---- circlize-0.3.1/circlize/man/circos.lines.rd | 91 +++--- circlize-0.3.1/circlize/man/circos.link.rd | 89 +++--- circlize-0.3.1/circlize/man/circos.par.rd | 21 - circlize-0.3.1/circlize/man/circos.points.rd | 11 circlize-0.3.1/circlize/man/circos.polygon.rd | 59 ++-- circlize-0.3.1/circlize/man/circos.rect.rd | 11 circlize-0.3.1/circlize/man/circos.segments.rd | 6 circlize-0.3.1/circlize/man/circos.text.rd | 95 +++--- circlize-0.3.1/circlize/man/circos.track.rd | 7 circlize-0.3.1/circlize/man/circos.trackHist.rd | 49 +-- circlize-0.3.1/circlize/man/circos.trackLines.rd | 11 circlize-0.3.1/circlize/man/circos.trackPlotRegion.rd | 11 circlize-0.3.1/circlize/man/circos.trackPoints.rd | 11 circlize-0.3.1/circlize/man/circos.trackText.rd | 11 circlize-0.3.1/circlize/man/circos.update.rd | 7 circlize-0.3.1/circlize/man/circos.updatePlotRegion.rd | 13 circlize-0.3.1/circlize/man/colorRamp2.rd | 45 ++- circlize-0.3.1/circlize/man/cytoband.col.rd | 27 + circlize-0.3.1/circlize/man/draw.sector.rd | 89 +++--- circlize-0.3.1/circlize/man/generateRandomBed.rd | 25 - circlize-0.3.1/circlize/man/genomicDensity.rd | 32 +- circlize-0.3.1/circlize/man/get.all.sector.index.rd | 34 +- circlize-0.3.1/circlize/man/get.all.track.index.rd | 34 +- circlize-0.3.1/circlize/man/get.cell.meta.data.rd | 41 +- circlize-0.3.1/circlize/man/get.current.chromosome.rd | 34 +- circlize-0.3.1/circlize/man/getI.rd | 21 - circlize-0.3.1/circlize/man/highlight.chromosome.rd | 21 - circlize-0.3.1/circlize/man/highlight.sector.rd | 43 +- circlize-0.3.1/circlize/man/posTransform.default.rd | 23 - circlize-0.3.1/circlize/man/posTransform.text.rd | 17 - circlize-0.3.1/circlize/man/rainfallTransform.rd | 29 + circlize-0.3.1/circlize/man/rand_color.rd | 7 circlize-0.3.1/circlize/man/read.chromInfo.rd | 18 - circlize-0.3.1/circlize/man/read.cytoband.rd | 32 +- circlize-0.3.1/circlize/man/reverse.circlize.rd | 30 +- circlize-0.3.1/circlize/man/show.index.rd | 16 - 73 files changed, 1338 insertions(+), 1130 deletions(-)
Title: Statistical Shape Analysis
Description: Routines for the statistical analysis of landmark
shapes, including Procrustes analysis, graphical displays, principal
components analysis, permutation and bootstrap tests, thin-plate
spline transformation grids and comparing covariance matrices.
Author: Ian L. Dryden
Maintainer: Ian Dryden <ian.dryden@nottingham.ac.uk>
Diff between shapes versions 1.1-10 dated 2014-09-20 and 1.1-11 dated 2015-08-18
shapes-1.1-10/shapes/man/sooty.dat.Rd |only shapes-1.1-11/shapes/DESCRIPTION | 22 +++---- shapes-1.1-11/shapes/MD5 | 69 +++++++++++++----------- shapes-1.1-11/shapes/NAMESPACE | 6 ++ shapes-1.1-11/shapes/R/shapes.R | 51 +++++++++++++++++ shapes-1.1-11/shapes/data/apes.rda |binary shapes-1.1-11/shapes/data/brains.rda |binary shapes-1.1-11/shapes/data/cortical.rda |only shapes-1.1-11/shapes/data/digit3.dat.rda |binary shapes-1.1-11/shapes/data/dna.dat.rda |binary shapes-1.1-11/shapes/data/gels.rda |only shapes-1.1-11/shapes/data/gorf.dat.rda |binary shapes-1.1-11/shapes/data/gorm.dat.rda |binary shapes-1.1-11/shapes/data/humanmove.rda |only shapes-1.1-11/shapes/data/macaques.rda |binary shapes-1.1-11/shapes/data/macf.dat.rda |binary shapes-1.1-11/shapes/data/macm.dat.rda |binary shapes-1.1-11/shapes/data/mice.rda |binary shapes-1.1-11/shapes/data/nsa.rda |binary shapes-1.1-11/shapes/data/panf.dat.rda |binary shapes-1.1-11/shapes/data/panm.dat.rda |binary shapes-1.1-11/shapes/data/pongof.dat.rda |binary shapes-1.1-11/shapes/data/pongom.dat.rda |binary shapes-1.1-11/shapes/data/protein.rda |binary shapes-1.1-11/shapes/data/qcet2.dat.rda |binary shapes-1.1-11/shapes/data/qlet2.dat.rda |binary shapes-1.1-11/shapes/data/qset2.dat.rda |binary shapes-1.1-11/shapes/data/rats.rda |only shapes-1.1-11/shapes/data/sand.rda |binary shapes-1.1-11/shapes/data/schizophrenia.dat.rda |binary shapes-1.1-11/shapes/data/schizophrenia.rda |binary shapes-1.1-11/shapes/data/shells.rda |only shapes-1.1-11/shapes/data/sooty.dat.rda |binary shapes-1.1-11/shapes/data/sooty.rda |only shapes-1.1-11/shapes/data/steroids.rda |binary shapes-1.1-11/shapes/man/cortical.Rd |only shapes-1.1-11/shapes/man/gels.Rd |only shapes-1.1-11/shapes/man/humanmove.Rd |only shapes-1.1-11/shapes/man/rats.Rd |only shapes-1.1-11/shapes/man/shapes-internal.Rd | 2 shapes-1.1-11/shapes/man/shells.Rd |only shapes-1.1-11/shapes/man/sooty.Rd |only 42 files changed, 108 insertions(+), 42 deletions(-)
Title: Generate Functions to Get or Set Global Options
Description: It provides more controls on the option values such as validation
and filtering on the values, making options invisible or private.
Author: Zuguang Gu
Maintainer: Zuguang Gu <z.gu@dkfz.de>
Diff between GlobalOptions versions 0.0.7 dated 2015-07-07 and 0.0.8 dated 2015-08-18
DESCRIPTION | 8 ++-- MD5 | 22 ++++++------ NAMESPACE | 6 +-- NEWS | 6 +++ R/setGlobalOptions.R | 31 +++++++++++++++++ inst/doc/GlobalOptions.R | 3 + inst/doc/GlobalOptions.Rnw | 3 + inst/doc/GlobalOptions.pdf |binary inst/tests/test.R | 4 ++ man/Assign.GlobalOptionsFun.rd |only man/Subset.GlobalOptionsFun.rd |only man/setGlobalOptions.rd | 72 +++++++++++++++++++---------------------- vignettes/GlobalOptions.Rnw | 3 + 13 files changed, 103 insertions(+), 55 deletions(-)
Title: Functions for a Variety of Stylometric Analyses
Description: A number of functions, supplemented by GUI, to perform various analyses in the field of computational stylistics, authorship attribution, etc.
Author: Maciej Eder, Jan Rybicki, Mike Kestemont
Maintainer: Maciej Eder <maciejeder@gmail.com>
Diff between stylo versions 0.5.9 dated 2015-01-30 and 0.6.0 dated 2015-08-18
DESCRIPTION | 8 - MD5 | 58 +++++++----- NAMESPACE | 16 +++ NEWS | 18 +++ R/assign.plot.colors.R | 16 +-- R/classify.R | 19 ++- R/dist.argamon.R |only R/dist.cosine.R |only R/dist.delta.R |only R/dist.eder.R |only R/dist.simple.R |only R/gui.classify.R | 24 ++--- R/gui.stylo.R | 23 ++-- R/make.frequency.list.R |only R/oppose.R | 32 +++++- R/parse.pos.tags.R |only R/perform.delta.R | 97 +++++++++++--------- R/perform.nsc.R | 16 ++- R/rolling.classify.r | 108 +++++++++++++++++----- R/stylo.R | 187 +++++++++++++++++++++++---------------- R/stylo.default.settings.R | 58 +++++++++--- R/txt.to.words.R | 4 R/txt.to.words.ext.R | 23 ++-- man/delete.stop.words.Rd | 12 ++ man/dist.cosine.Rd |only man/dist.delta.Rd |only man/dist.simple.Rd |only man/make.frequency.list.Rd |only man/make.table.of.frequencies.Rd | 6 - man/parse.pos.tags.Rd |only man/perform.delta.Rd | 16 +-- man/perform.nsc.Rd | 8 + man/rolling.classify.Rd | 23 +++- man/rolling.delta.Rd | 10 +- man/stylo.Rd | 2 man/txt.to.words.Rd | 4 36 files changed, 527 insertions(+), 261 deletions(-)
Title: Bindings for the Geospatial Data Abstraction Library
Description: Provides bindings to Frank Warmerdam's Geospatial Data Abstraction Library (GDAL) (>= 1.6.3) and access to projection/transformation operations from the PROJ.4 library. The GDAL and PROJ.4 libraries are external to the package, and, when installing the package from source, must be correctly installed first. Both GDAL raster and OGR vector map data can be imported into R, and GDAL raster data and OGR vector data exported. Use is made of classes defined in the sp package. Windows and Mac Intel OS X binaries (including GDAL, PROJ.4 and Expat) are provided on CRAN.
Author: Roger Bivand [cre, aut],
Tim Keitt [aut],
Barry Rowlingson [aut],
Edzer Pebesma [ctb],
Michael Sumner [ctb],
Robert Hijmans [ctb],
Even Rouault [ctb]
Maintainer: Roger Bivand <Roger.Bivand@nhh.no>
Diff between rgdal versions 1.0-4 dated 2015-06-23 and 1.0-5 dated 2015-08-18
ChangeLog | 24 ++++++++++++++++++++++++ DESCRIPTION | 9 +++++---- MD5 | 28 +++++++++++++++------------- NAMESPACE | 6 +++++- R/ogr_sp.R | 7 +++++++ build/vignette.rds |binary configure | 18 +++++++++--------- data/GridsDatums.rda |only inst/ChangeLog | 24 ++++++++++++++++++++++++ inst/SVN_VERSION | 2 +- inst/doc/OGR_shape_encoding.pdf |binary man/GridsDatums.Rd |only man/showWKT.Rd | 6 +++++- src/init.c | 1 + src/ogr_proj.cpp | 33 +++++++++++++++++++++++++++++++++ src/rgdal.h | 1 + 16 files changed, 130 insertions(+), 29 deletions(-)
Title: Tools for Polyploid Microsatellite Analysis
Description: A collection of tools to handle microsatellite data of
any ploidy (and samples of mixed ploidy) where allele copy number is not
known in partially heterozygous genotypes. It can import and export data in
ABI 'GeneMapper', 'Structure', 'ATetra', 'Tetrasat'/'Tetra', 'GenoDive', 'SPAGeDi',
'POPDIST', 'STRand', and binary presence/absence formats. It can calculate
pairwise distances between individuals using a stepwise mutation model or
infinite alleles model, with or without taking ploidies and allele frequencies
into account. These distances can be used for the calculation of clonal
diversity statistics or used for further analysis in R. Allelic diversity
statistics are also available. polysat can assist the user in estimating the
ploidy of samples, and it can estimate allele frequencies in
populations, calculate pairwise Fst values based on those frequencies, and
export allele frequencies to 'SPAGeDi' and 'adegenet'. Functions are also
included for assigning alleles to isoloci in cases where one pair of
microsatellite primers amplifies alleles from two or more independently
segregating isoloci.
Author: Lindsay V. Clark [aut, cre]
Maintainer: Lindsay V. Clark <lvclark@illinois.edu>
Diff between polysat versions 1.4-0 dated 2015-06-13 and 1.4-1 dated 2015-08-18
DESCRIPTION | 20 - MD5 | 38 +- NAMESPACE | 2 NEWS | 65 ++-- R/classes_generics_methods.R | 42 ++ R/dataimport.R | 13 build/vignette.rds |binary inst/doc/polysattutorial.R | 616 ++++++++++++++++++++--------------------- inst/doc/polysattutorial.pdf |binary inst/extdata/STRandExample.txt | 18 - man/alleleDiversity.Rd | 148 ++++----- man/catalanAlleles.Rd | 288 +++++++++---------- man/freq.to.genpop.Rd | 2 man/gendata.to.genind.Rd | 148 ++++----- man/mergeAlleleAssignments.Rd | 164 +++++----- man/pld.Rd | 206 ++++++------- man/ploidysuper-class.Rd | 146 ++++----- man/read.STRand.Rd | 174 +++++------ man/reformatPloidies.Rd | 224 +++++++------- vignettes/STRandExample.txt | 18 - 20 files changed, 1195 insertions(+), 1137 deletions(-)
Title: Longitudinal Data
Description: Tools for longitudinal data and joint longitudinal data (used by packages kml and kml3d).
Author: Christophe Genolini [cre, aut],
Bruno Falissard [ctb],
Dai Fang [ctb],
Luke Tierney [ctb]
Maintainer: Christophe Genolini <christophe.genolini@u-paris10.fr>
Diff between longitudinalData versions 2.3 dated 2015-05-19 and 2.4 dated 2015-08-18
longitudinalData-2.3/longitudinalData/R/longDataPlot.r |only longitudinalData-2.3/longitudinalData/man/plotTraj.Rd |only longitudinalData-2.3/longitudinalData/man/plotTraj3d.Rd |only longitudinalData-2.4/longitudinalData/DESCRIPTION | 10 longitudinalData-2.4/longitudinalData/MD5 | 72 longitudinalData-2.4/longitudinalData/NAMESPACE | 22 longitudinalData-2.4/longitudinalData/R/function.r | 20 longitudinalData-2.4/longitudinalData/R/global.r | 8 longitudinalData-2.4/longitudinalData/R/imputCopyMean.R | 100 longitudinalData-2.4/longitudinalData/R/imputCross.R | 172 - longitudinalData-2.4/longitudinalData/R/imputLinearInterpol.R | 76 longitudinalData-2.4/longitudinalData/R/imputTraj.R | 280 +- longitudinalData-2.4/longitudinalData/R/imputation.r | 246 +- longitudinalData-2.4/longitudinalData/R/listPartition.r | 759 +++--- longitudinalData-2.4/longitudinalData/R/longData.r | 39 longitudinalData-2.4/longitudinalData/R/longData3d.r | 88 longitudinalData-2.4/longitudinalData/R/newPlot.r |only longitudinalData-2.4/longitudinalData/R/parLongData.r | 317 +- longitudinalData-2.4/longitudinalData/R/parWindows.r | 252 +- longitudinalData-2.4/longitudinalData/R/partition.r | 1110 +++++----- longitudinalData-2.4/longitudinalData/man/ListPartition-class.Rd | 1 longitudinalData-2.4/longitudinalData/man/LongData-class.Rd | 27 longitudinalData-2.4/longitudinalData/man/LongData3d-class.Rd | 13 longitudinalData-2.4/longitudinalData/man/ParLongData-class.Rd | 2 longitudinalData-2.4/longitudinalData/man/Partition-class.Rd | 1 longitudinalData-2.4/longitudinalData/man/expandParLongData.Rd | 6 longitudinalData-2.4/longitudinalData/man/initializePartition.Rd | 12 longitudinalData-2.4/longitudinalData/man/longData-internal.Rd | 1 longitudinalData-2.4/longitudinalData/man/longData.Rd | 2 longitudinalData-2.4/longitudinalData/man/longData3d.Rd | 10 longitudinalData-2.4/longitudinalData/man/longitudinalData-package.Rd | 10 longitudinalData-2.4/longitudinalData/man/makeLatexFile.Rd | 6 longitudinalData-2.4/longitudinalData/man/parLongData.Rd | 11 longitudinalData-2.4/longitudinalData/man/plot3dPdf.Rd | 2 longitudinalData-2.4/longitudinalData/man/plotTrajMeans.Rd |only longitudinalData-2.4/longitudinalData/man/plotTrajMeans3d.Rd |only longitudinalData-2.4/longitudinalData/man/qualityCriterion.Rd | 6 longitudinalData-2.4/longitudinalData/man/restoreRealData.Rd | 6 longitudinalData-2.4/longitudinalData/man/saveTrianglesAsASY.Rd | 8 longitudinalData-2.4/longitudinalData/man/scale.Rd | 8 40 files changed, 1829 insertions(+), 1874 deletions(-)
More information about longitudinalData at CRAN
Permanent link
Title: K-Means for Longitudinal Data
Description: An implementation of k-means specifically design
to cluster longitudinal data. It provides facilities to deal with missing
value, compute several quality criterion (Calinski and Harabatz,
Ray and Turie, Davies and Bouldin, BIC, ...) and propose a graphical
interface for choosing the 'best' number of clusters.
Author: Christophe Genolini [cre, aut],
Bruno Falissard [ctb]
Maintainer: Christophe Genolini <christophe.genolini@u-paris10.fr>
Diff between kml versions 2.3.1 dated 2015-06-04 and 2.4 dated 2015-08-18
DESCRIPTION | 10 MD5 | 30 - NAMESPACE | 22 - R/clusterLongData.R | 783 ++++++++++++++++---------------------- R/global.R | 20 R/kml.R | 163 +++++-- R/parKml.R | 2 man/ClusterLongData-class.Rd | 6 man/ParKml-class.Rd | 2 man/choice.Rd | 4 man/generateArtificialLongData.Rd | 11 man/kml-internal.Rd | 4 man/kml-package.Rd | 4 man/parKml.Rd | 4 man/plot.Rd | 16 man/plotMeans.Rd |only man/plotTraj.Rd |only 17 files changed, 546 insertions(+), 535 deletions(-)
Title: Dyadic Mixed Model for Pedigree Data
Description: Dyadic mixed model analysis with multi-trait responses and
pedigree-based partitioning of individual variation into a range of
environmental and genetic variance components for individual and
maternal effects.
Author: Neville Jackson
Maintainer: Neville Jackson <nanddjackson@bigpond.com>
Diff between dmm versions 1.6-2 dated 2015-06-27 and 1.6-3 dated 2015-08-18
DESCRIPTION | 9 +++++---- MD5 | 12 ++++++------ NAMESPACE | 3 +++ R/warcolak.convert.R | 2 +- inst/doc/dmmOverview.pdf |binary inst/doc/mods.txt | 5 +++++ man/warcolak.convert.Rd | 11 +++++++++-- 7 files changed, 29 insertions(+), 13 deletions(-)
Title: Hybrid Simulation and Genome Scan for Dominant Markers
Description: Hybrid simulation functions for dominant genetic data and genome scan methods.
Author: Francisco Balao [aut, cre],
Juan Luis García-Castaño [aut]
Maintainer: Francisco Balao <fbalao@us.es>
Diff between AFLPsim versions 0.3-4 dated 2014-12-24 and 0.4-2 dated 2015-08-18
DESCRIPTION | 16 +++++++++------- MD5 | 14 +++++++++----- NAMESPACE | 9 +++++++-- R/sim2genind.R | 2 +- README.md | 7 ++++--- build |only inst/doc |only man/AFLPsim-package.Rd | 8 ++++---- vignettes |only 9 files changed, 34 insertions(+), 22 deletions(-)
Title: Functions to Analyze Single System Data
Description: Functions to visually and statistically analyze single system data.
Author: Charles Auerbach [aut, cre],
Wendy Zeitlin [aut]
Maintainer: Charles Auerbach <auerbach@yu.edu>
Diff between SSDforR versions 1.4.10 dated 2015-07-01 and 1.4.11 dated 2015-08-18
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- NAMESPACE | 2 +- R/ABplot.R | 7 ++++--- 4 files changed, 12 insertions(+), 11 deletions(-)
Title: Spatio-Temporal Bayesian Modelling Using R
Description: Fits, spatially predicts and temporally forecasts large amounts of space-time data using [1] Bayesian Gaussian Process (GP) Models, [2] Bayesian Auto-Regressive (AR) Models, and [3] Bayesian Gaussian Predictive Processes (GPP) based AR Models for spatio-temporal big-n problems.
Author: K. Shuvo Bakar & Sujit K. Sahu
Maintainer: Shuvo Bakar <shuvo.bakar@gmail.com>
Diff between spTimer versions 2.0-0 dated 2015-01-19 and 2.0-1 dated 2015-08-18
DESCRIPTION | 13 MD5 | 14 NAMESPACE | 24 + inst/ChangeLog | 44 ++ src/equation_xb_ar.c | 12 src/equation_xb_gp.c | 35 -- src/equation_xb_gpp.c | 27 - src/prediction_xb_gpp.c | 827 ------------------------------------------------ 8 files changed, 118 insertions(+), 878 deletions(-)
Title: Quantitative Analysis of Textual Data
Description: A fast, flexible toolset for for the management, processing, and
quantitative analysis of textual data in R.
Author: Kenneth Benoit [aut, cre],
Paul Nulty [aut],
Pablo Barberá [ctb],
Kohei Watanabe [ctb],
Benjamin Lauderdale [ctb]
Maintainer: Kenneth Benoit <kbenoit@lse.ac.uk>
Diff between quanteda versions 0.8.2-0 dated 2015-07-31 and 0.8.2-1 dated 2015-08-18
DESCRIPTION | 10 +-- MD5 | 23 ++++---- NAMESPACE | 4 + NEWS | 19 ++++++ R/corpus.R | 128 ++++++++++++++++++++++------------------------- R/dfm-methods.R | 45 ++++++++++++++-- README.md | 124 +++++++++++++++++++++++++++++++++++++++++---- build/vignette.rds |binary inst/doc/quickstart.html | 42 ++++++++------- man/removeFeatures.Rd | 4 + man/sample.Rd |only man/subset.corpus.Rd | 14 +++-- man/trim.Rd | 6 +- 13 files changed, 295 insertions(+), 124 deletions(-)
Title: Utilities and Kinship Information for Research with the NLSY
Description: Utilities and kinship information for behavior genetics and
developmental research using the National Longitudinal Survey of Youth
(NLSY; <http://www.bls.gov/nls/>).
Author: Will Beasley, Joe Rodgers, David Bard, Michael Hunter, S. Mason Garrison, and Kelly
Meredith
Maintainer: Will Beasley <wibeasley@hotmail.com>
Diff between NlsyLinks versions 1.302 dated 2013-12-06 and 2.0.1 dated 2015-08-18
NlsyLinks-1.302/NlsyLinks/inst/tests |only NlsyLinks-1.302/NlsyLinks/tests/DatasetsFixture.R |only NlsyLinks-2.0.1/NlsyLinks/DESCRIPTION | 32 - NlsyLinks-2.0.1/NlsyLinks/MD5 | 150 +++---- NlsyLinks-2.0.1/NlsyLinks/NAMESPACE | 5 NlsyLinks-2.0.1/NlsyLinks/NEWS | 15 NlsyLinks-2.0.1/NlsyLinks/R/AceEstimate.R | 43 -- NlsyLinks-2.0.1/NlsyLinks/R/AceLavaanGroup.R | 40 + NlsyLinks-2.0.1/NlsyLinks/R/AceUnivariate.R | 9 NlsyLinks-2.0.1/NlsyLinks/R/CleanSemAceDataset.R | 12 NlsyLinks-2.0.1/NlsyLinks/R/ColumnUtilities.R | 6 NlsyLinks-2.0.1/NlsyLinks/R/CreateAceEstimate.R | 12 NlsyLinks-2.0.1/NlsyLinks/R/CreatePairLinksDoubleEntered.R | 55 +- NlsyLinks-2.0.1/NlsyLinks/R/CreatePairLinksDoubleEnteredWithNoOutcomes.R | 17 NlsyLinks-2.0.1/NlsyLinks/R/CreatePairLinksSingleEntered.R | 23 - NlsyLinks-2.0.1/NlsyLinks/R/CreateSpatialNeighbours.R | 23 - NlsyLinks-2.0.1/NlsyLinks/R/CreateSubjectTag.R | 15 NlsyLinks-2.0.1/NlsyLinks/R/DeFriesFulker.R | 30 - NlsyLinks-2.0.1/NlsyLinks/R/ExtraOutcomes79Doc.R | 4 NlsyLinks-2.0.1/NlsyLinks/R/Links79PairDoc.R | 2 NlsyLinks-2.0.1/NlsyLinks/R/NlsyLinks.R | 21 NlsyLinks-2.0.1/NlsyLinks/R/RGroupSummary.R | 29 - NlsyLinks-2.0.1/NlsyLinks/R/ReadCsvNlsy79.R | 14 NlsyLinks-2.0.1/NlsyLinks/R/SurveyDateDoc.R |only NlsyLinks-2.0.1/NlsyLinks/R/ValidateOutcomeDataset.R | 26 - NlsyLinks-2.0.1/NlsyLinks/R/ValidatePairLinks.R | 24 - NlsyLinks-2.0.1/NlsyLinks/R/ValidatePairLinksAreSymmetric.R | 11 NlsyLinks-2.0.1/NlsyLinks/README.md |only NlsyLinks-2.0.1/NlsyLinks/build/vignette.rds |binary NlsyLinks-2.0.1/NlsyLinks/data/ExtraOutcomes79.rda |binary NlsyLinks-2.0.1/NlsyLinks/data/Links79Pair.rda |binary NlsyLinks-2.0.1/NlsyLinks/data/Links79PairExpanded.rda |binary NlsyLinks-2.0.1/NlsyLinks/data/SubjectDetails79.rda |binary NlsyLinks-2.0.1/NlsyLinks/data/SurveyDate.rda |only NlsyLinks-2.0.1/NlsyLinks/data/datalist |only NlsyLinks-2.0.1/NlsyLinks/inst/doc/Faq.R | 91 +--- NlsyLinks-2.0.1/NlsyLinks/inst/doc/Faq.Rnw | 56 +- NlsyLinks-2.0.1/NlsyLinks/inst/doc/Faq.pdf |binary NlsyLinks-2.0.1/NlsyLinks/inst/doc/NlsInvestigator.R | 13 NlsyLinks-2.0.1/NlsyLinks/inst/doc/NlsInvestigator.Rnw | 4 NlsyLinks-2.0.1/NlsyLinks/inst/doc/NlsInvestigator.pdf |binary NlsyLinks-2.0.1/NlsyLinks/inst/doc/NlsyAce.R | 127 ++--- NlsyLinks-2.0.1/NlsyLinks/inst/doc/NlsyAce.Rnw | 134 +++--- NlsyLinks-2.0.1/NlsyLinks/inst/doc/NlsyAce.pdf |binary NlsyLinks-2.0.1/NlsyLinks/man/Ace.Rd | 78 +-- NlsyLinks-2.0.1/NlsyLinks/man/AceEstimate-class.Rd | 26 - NlsyLinks-2.0.1/NlsyLinks/man/AceLavaanGroup.Rd | 67 --- NlsyLinks-2.0.1/NlsyLinks/man/CleanSemAceDataset.Rd | 66 +-- NlsyLinks-2.0.1/NlsyLinks/man/ColumnUtilities.Rd | 52 -- NlsyLinks-2.0.1/NlsyLinks/man/CreateAceEstimate.Rd | 43 -- NlsyLinks-2.0.1/NlsyLinks/man/CreatePairLinks.Rd | 86 +--- NlsyLinks-2.0.1/NlsyLinks/man/CreateSpatialNeighbours.Rd | 91 +--- NlsyLinks-2.0.1/NlsyLinks/man/CreateSubjectTag.Rd | 34 - NlsyLinks-2.0.1/NlsyLinks/man/ExtraOutcomes79.Rd | 58 +- NlsyLinks-2.0.1/NlsyLinks/man/GetDetails-methods.Rd | 7 NlsyLinks-2.0.1/NlsyLinks/man/Links79Pair.Rd | 213 ++++------ NlsyLinks-2.0.1/NlsyLinks/man/Links79PairExpanded.Rd | 128 ++---- NlsyLinks-2.0.1/NlsyLinks/man/NlsyLinks-package.Rd | 141 +++--- NlsyLinks-2.0.1/NlsyLinks/man/RGroupSummary.Rd | 95 +--- NlsyLinks-2.0.1/NlsyLinks/man/ReadCsvNlsy79.Rd | 44 -- NlsyLinks-2.0.1/NlsyLinks/man/SubjectDetails79.Rd | 20 NlsyLinks-2.0.1/NlsyLinks/man/SurveyDate.Rd |only NlsyLinks-2.0.1/NlsyLinks/man/ValidateOutcomeDataset.Rd | 49 +- NlsyLinks-2.0.1/NlsyLinks/man/ValidatePairLinks.Rd | 40 - NlsyLinks-2.0.1/NlsyLinks/man/ValidatePairLinksAreSymmetric.Rd | 29 - NlsyLinks-2.0.1/NlsyLinks/tests/test-all.R |only NlsyLinks-2.0.1/NlsyLinks/tests/testthat |only NlsyLinks-2.0.1/NlsyLinks/vignettes/Faq-concordance.tex |only NlsyLinks-2.0.1/NlsyLinks/vignettes/Faq.Rnw | 56 +- NlsyLinks-2.0.1/NlsyLinks/vignettes/NlsInvestigator.Rnw | 4 NlsyLinks-2.0.1/NlsyLinks/vignettes/NlsyAce.Rnw | 134 +++--- 71 files changed, 1182 insertions(+), 1422 deletions(-)