Title: Simulating Longitudinal Data with Causal Inference Applications
Description: A flexible tool for simulating complex longitudinal data using
structural equations, with emphasis on problems in causal inference.
Specify interventions and simulate from intervened data generating
distributions. Define and evaluate treatment-specific means, the average
treatment effects and coefficients from working marginal structural models.
User interface designed to facilitate the conduct of transparent and
reproducible simulation studies, and allows concise expression of complex
functional dependencies for a large number of time-varying nodes. See the
package vignette for more information, documentation and examples.
Author: Oleg Sofrygin [aut, cre],
Mark J. van der Laan [aut],
Romain Neugebauer [aut]
Maintainer: Oleg Sofrygin <oleg.sofrygin@gmail.com>
Diff between simcausal versions 0.3.0 dated 2015-08-24 and 0.4.0 dated 2015-09-21
DESCRIPTION | 9 -- MD5 | 51 ++++++------ NAMESPACE | 2 NEWS | 15 +++ R/network.R | 8 + R/parserfunctions_R6.r | 11 ++ R/simcausal-package.r | 1 R/simcausal.r | 18 +++- R/simulation.r | 25 ++++-- R/targetparam.r | 25 +----- README.md | 161 ++++++++++++++++++++++++--------------- build/vignette.rds |binary inst/doc/simcausal_vignette.R | 6 - inst/doc/simcausal_vignette.Rnw | 58 +++++++------- inst/doc/simcausal_vignette.pdf |binary man/NetIndClass.Rd | 4 man/eval.target.Rd | 3 man/plotDAG.Rd | 3 man/set.DAG.Rd | 3 man/sim.Rd | 3 man/simfull.Rd | 3 man/simobs.Rd | 3 tests/RUnit/runittests.R | 8 + tests/bug_networks |only vignettes/R-Pckgs.bib | 5 - vignettes/SimCausal_2014.bib | 9 +- vignettes/simcausal_vignette.Rnw | 58 +++++++------- 27 files changed, 294 insertions(+), 198 deletions(-)
Title: Statistical Toolbox for Sedimentary Provenance Analysis
Description: Bundles a number of established statistical methods to facilitate the visual interpretation of large datasets in sedimentary geology. Includes functionality for adaptive kernel density estimation, multidimensional scaling, generalised procrustes analysis and individual differences scaling using a variety of dissimilarity measures. Univariate provenance proxies, such as single-grain ages or (isotopic) compositions are compared with the Kolmogorov-Smirnov dissimilarity and Sircombe-Hazelton L2-norm. Categorical provenance proxies, such as mineralogical, petrographic or chemical compositions are compared with the Aitchison and Bray-Curtis distances. Also included are tools to plot compositional data on ternary diagrams, to calculate the sample size required for specified levels of statistical precision, and to assess the effects of hydraulic sorting on detrital compositions.
Author: Pieter Vermeesch [aut, cre]
Maintainer: Pieter Vermeesch <p.vermeesch@ucl.ac.uk>
Diff between provenance versions 0.5 dated 2015-09-16 and 0.6 dated 2015-09-21
provenance-0.5/provenance/man/clr.Rd |only provenance-0.6/provenance/DESCRIPTION | 6 provenance-0.6/provenance/MD5 | 38 +- provenance-0.6/provenance/NAMESPACE | 9 provenance-0.6/provenance/R/documentation.R | 25 + provenance-0.6/provenance/R/minsorting.R | 9 provenance-0.6/provenance/R/plot.R | 38 +- provenance-0.6/provenance/R/provenance.R | 152 +++++++++-- provenance-0.6/provenance/data/Namib.rda |binary provenance-0.6/provenance/data/densities.rda |binary provenance-0.6/provenance/inst/densities.csv | 2 provenance-0.6/provenance/man/CLR.Rd |only provenance-0.6/provenance/man/MDS.Rd | 6 provenance-0.6/provenance/man/as.acomp.Rd |only provenance-0.6/provenance/man/as.compositional.Rd |only provenance-0.6/provenance/man/as.data.frame.compositional.Rd |only provenance-0.6/provenance/man/minsorting.Rd | 9 provenance-0.6/provenance/man/plot.INDSCAL.Rd | 2 provenance-0.6/provenance/man/plot.minsorting.Rd | 13 provenance-0.6/provenance/man/provenance.Rd |only provenance-0.6/provenance/man/subset.compositional.Rd | 2 provenance-0.6/provenance/man/subset.distributional.Rd | 2 provenance-0.6/provenance/man/ternary.Rd | 2 23 files changed, 240 insertions(+), 75 deletions(-)
Title: Tools to Create Gene Sets
Description: A set of functions to create SQL tables of gene and SNP information and compose them into a SNP Set, for example for use with the RSNPset package, or to export to a PLINK set.
Author: Chanhee Yi, Alexander Sibley, and Kouros Owzar
Maintainer: Alexander Sibley <alexander.sibley@dm.duke.edu>
Diff between snplist versions 0.13 dated 2014-12-10 and 0.14 dated 2015-09-21
DESCRIPTION | 10 +++++----- MD5 | 19 ++++++++++--------- NEWS |only R/makeGeneSet.R | 4 ++-- R/setSNPTable.R | 4 ++-- build/vignette.rds |binary inst/doc/snplist.R | 9 ++++----- inst/doc/snplist.Rnw | 11 +++++------ inst/doc/snplist.pdf |binary man/snplist-package.Rd | 6 +++--- vignettes/snplist.Rnw | 11 +++++------ 11 files changed, 36 insertions(+), 38 deletions(-)
Title: Empirical Bayes Estimation and Inference in R
Description: Kiefer-Wolfowitz maximum likelihood estimation for mixture models
and some other density estimation and regression methods based on convex
optimization.
Author: Roger Koenker [aut, cre],
Jiaying Gu [ctb],
Ivan Mizera [ctb]
Maintainer: Roger Koenker <rkoenker@uiuc.edu>
Diff between REBayes versions 0.50 dated 2014-09-05 and 0.58 dated 2015-09-21
REBayes-0.50/REBayes/R/TLVmix.R |only REBayes-0.50/REBayes/R/rqss2.R |only REBayes-0.50/REBayes/demo/GLVmix1.R |only REBayes-0.50/REBayes/man/TLVmix.Rd |only REBayes-0.50/REBayes/man/rqss2.Rd |only REBayes-0.58/REBayes/DESCRIPTION | 29 +- REBayes-0.58/REBayes/MD5 | 104 +++++---- REBayes-0.58/REBayes/NAMESPACE | 39 +++ REBayes-0.58/REBayes/R/Bmix.R | 61 +++-- REBayes-0.58/REBayes/R/Cosslett.R |only REBayes-0.58/REBayes/R/GLmix.R | 78 +++++- REBayes-0.58/REBayes/R/GVmix.R | 93 ++++---- REBayes-0.58/REBayes/R/Gammamix.R |only REBayes-0.58/REBayes/R/Gompertzmix.R | 72 ++++-- REBayes-0.58/REBayes/R/KWDual.R | 121 +++++++++- REBayes-0.58/REBayes/R/Pmix.R | 56 +++- REBayes-0.58/REBayes/R/TLmix.R | 64 ++++- REBayes-0.58/REBayes/R/Tncpmix.R |only REBayes-0.58/REBayes/R/WGLVmix.R | 130 ++++++----- REBayes-0.58/REBayes/R/WGVmix.R | 29 ++ REBayes-0.58/REBayes/R/WTLVmix.R | 145 +++++++----- REBayes-0.58/REBayes/R/Weibullmix.R | 72 ++++-- REBayes-0.58/REBayes/R/bball.R |only REBayes-0.58/REBayes/R/flies.R |only REBayes-0.58/REBayes/R/medde.R | 345 ++++++++++++++++++------------ REBayes-0.58/REBayes/R/misc.R | 49 ++++ REBayes-0.58/REBayes/R/predict.R | 20 + REBayes-0.58/REBayes/R/tacks.R |only REBayes-0.58/REBayes/R/tannenbaum.R |only REBayes-0.58/REBayes/data/bball.rda |binary REBayes-0.58/REBayes/demo/00Index | 6 REBayes-0.58/REBayes/demo/Bmix1.R | 3 REBayes-0.58/REBayes/demo/Cosslett1.R |only REBayes-0.58/REBayes/demo/Cosslett2.R |only REBayes-0.58/REBayes/demo/GLmix1.R | 2 REBayes-0.58/REBayes/demo/GLmix2.R |only REBayes-0.58/REBayes/demo/GVmix1.R | 8 REBayes-0.58/REBayes/demo/WGLVmix1.R |only REBayes-0.58/REBayes/demo/WTLVmix1.R |only REBayes-0.58/REBayes/inst/ChangeLog | 29 ++ REBayes-0.58/REBayes/man/Bmix.Rd | 62 +++-- REBayes-0.58/REBayes/man/Cosslett.Rd |only REBayes-0.58/REBayes/man/GLmix.Rd | 111 +++++---- REBayes-0.58/REBayes/man/GVmix.Rd | 67 +++-- REBayes-0.58/REBayes/man/Gammamix.Rd |only REBayes-0.58/REBayes/man/Gompertzmix.Rd | 84 ++++--- REBayes-0.58/REBayes/man/KWDual.Rd | 108 +++++---- REBayes-0.58/REBayes/man/L1norm.Rd | 41 ++- REBayes-0.58/REBayes/man/Pmix.Rd | 65 ++--- REBayes-0.58/REBayes/man/TLmix.Rd | 82 ++++--- REBayes-0.58/REBayes/man/Tncpmix.Rd |only REBayes-0.58/REBayes/man/WGLVmix.Rd | 74 +++--- REBayes-0.58/REBayes/man/WGVmix.Rd | 63 +++-- REBayes-0.58/REBayes/man/WTLVmix.Rd | 74 +++--- REBayes-0.58/REBayes/man/Weibullmix.Rd | 85 +++---- REBayes-0.58/REBayes/man/bball.Rd | 62 ++--- REBayes-0.58/REBayes/man/flies.Rd | 32 +- REBayes-0.58/REBayes/man/medde.Rd | 165 +++++++------- REBayes-0.58/REBayes/man/plot.medde.Rd |only REBayes-0.58/REBayes/man/predict.GLmix.Rd |only REBayes-0.58/REBayes/man/qmedde.Rd |only REBayes-0.58/REBayes/man/rmedde.Rd |only REBayes-0.58/REBayes/man/tacks.Rd | 71 +++--- REBayes-0.58/REBayes/man/tannenbaum.Rd | 25 +- REBayes-0.58/REBayes/man/traprule.Rd | 31 +- 65 files changed, 1780 insertions(+), 1077 deletions(-)
Title: Dynamic Extensions for Network Objects
Description: Simple interface routines to facilitate the handling of network objects with complex intertemporal data. This is a part of the "statnet" suite of packages for network analysis.
Author: Carter T. Butts [aut],
Ayn Leslie-Cook [aut],
Pavel N. Krivitsky [aut],
Skye Bender-deMoll [aut, cre],
Zack Almquist [ctb],
David R. Hunter [ctb],
Li Wang [ctb],
Kirk Li [ctb],
Steven M. Goodreau [ctb],
Jeffrey Horner [ctb],
Martina Morris [ctb]
Maintainer: Skye Bender-deMoll <skyebend@uw.edu>
Diff between networkDynamic versions 0.7.1 dated 2014-12-07 and 0.8.0 dated 2015-09-21
ChangeLog | 7 + DESCRIPTION | 16 +- MD5 | 29 ++-- NAMESPACE | 25 +++ R/access.R | 4 R/age.at.R |only R/utilities.R | 231 ++++++++++++++++++++++++------------ build/vignette.rds |binary inst/doc/networkDynamic.pdf |binary man/Newcomb.Rd | 4 man/age.at.Rd |only man/as.data.frame.networkDynamic.Rd | 2 man/networkDynamic.Rd | 21 ++- tests/age.at_tests.R |only tests/converter_tests.R | 56 ++++++-- tests/query_tests.R | 17 ++ tests/utils_tests.R | 2 17 files changed, 287 insertions(+), 127 deletions(-)
More information about networkDynamic at CRAN
Permanent link
Title: Comprehensive Luminescence Dating Data Analysis
Description: A collection of various R functions for the purpose of Luminescence
dating data analysis. This includes, amongst others, data import, export,
application of age models, curve deconvolution, sequence analysis and
plotting of equivalent dose distributions.
Author: Sebastian Kreutzer [aut, trl, cre],
Michael Dietze [aut],
Christoph Burow [aut],
Margret C. Fuchs [aut],
Christoph Schmidt [aut],
Manfred Fischer [aut, trl],
Rachel K. Smedley [aut],
Markus Fuchs [ths]
Maintainer: Sebastian Kreutzer <sebastian.kreutzer@u-bordeaux-montaigne.fr>
Diff between Luminescence versions 0.4.5 dated 2015-08-10 and 0.4.6 dated 2015-09-21
DESCRIPTION | 8 MD5 | 138 +++++++------- NAMESPACE | 1 NEWS | 280 ------------------------------ R/Luminescence-package.R | 2 R/RLum.Data.Image-class.R | 4 R/analyse_SAR.CWOSL.R | 2 inst/NEWS.Rd | 289 ------------------------------- man/Analyse_SAR.OSLdata.Rd | 2 man/CW2pHMi.Rd | 2 man/CW2pLM.Rd | 2 man/CW2pLMi.Rd | 2 man/CW2pPMi.Rd | 2 man/Luminescence-package.Rd | 2 man/Risoe.BINfileData2RLum.Analysis.Rd | 2 man/Risoe.BINfileData2RLum.Data.Curve.Rd | 2 man/Second2Gray.Rd | 2 man/analyse_IRSAR.RF.Rd | 2 man/analyse_SAR.CWOSL.Rd | 4 man/analyse_SAR.TL.Rd | 2 man/analyse_pIRIRSequence.Rd | 2 man/apply_CosmicRayRemoval.Rd | 2 man/apply_EfficiencyCorrection.Rd | 2 man/calc_AliquotSize.Rd | 2 man/calc_CentralDose.Rd | 2 man/calc_CommonDose.Rd | 2 man/calc_CosmicDoseRate.Rd | 2 man/calc_FadingCorr.Rd | 2 man/calc_FiniteMixture.Rd | 2 man/calc_FuchsLang2001.Rd | 2 man/calc_HomogeneityTest.Rd | 2 man/calc_IEU.Rd | 2 man/calc_MaxDose.Rd | 2 man/calc_MinDose.Rd | 2 man/calc_OSLLxTxRatio.Rd | 2 man/calc_SourceDoseRate.Rd | 2 man/calc_Statistics.Rd | 2 man/calc_TLLxTxRatio.Rd | 2 man/extract_IrradiationTimes.Rd | 2 man/fit_CWCurve.Rd | 2 man/fit_LMCurve.Rd | 2 man/get_Layout.Rd | 2 man/get_Quote.Rd | 2 man/get_RLum.Rd | 2 man/get_Risoe.BINfileData.Rd | 2 man/length_RLum.Rd | 2 man/merge_RLum.Analysis.Rd | 2 man/merge_RLum.Data.Curve.Rd | 2 man/merge_RLum.Rd | 2 man/merge_Risoe.BINfileData.Rd | 2 man/plot_AbanicoPlot.Rd | 2 man/plot_DRTResults.Rd | 2 man/plot_GrowthCurve.Rd | 2 man/plot_Histogram.Rd | 2 man/plot_KDE.Rd | 2 man/plot_RLum.Analysis.Rd | 2 man/plot_RLum.Data.Curve.Rd | 2 man/plot_RLum.Data.Image.Rd | 2 man/plot_RLum.Data.Spectrum.Rd | 2 man/plot_RLum.Rd | 2 man/plot_RLum.Results.Rd | 2 man/plot_RadialPlot.Rd | 2 man/plot_Risoe.BINfileData.Rd | 2 man/readBIN2R.Rd | 2 man/readSPE2R.Rd | 2 man/readXSYG2R.Rd | 2 man/set_RLum.Rd | 2 man/set_Risoe.BINfileData.Rd | 2 man/structure_RLum.Rd | 2 man/writeR2BIN.Rd | 2 70 files changed, 153 insertions(+), 697 deletions(-)
Title: Harrell Miscellaneous
Description: Contains many functions useful for data
analysis, high-level graphics, utility operations, functions for
computing sample size and power, importing and annotating datasets,
imputing missing values, advanced table making, variable clustering,
character string manipulation, conversion of R objects to LaTeX code,
and recoding variables.
Author: Frank E Harrell Jr <f.harrell@vanderbilt.edu>, with
contributions from Charles Dupont and many others.
Maintainer: Frank E Harrell Jr <f.harrell@vanderbilt.edu>
Diff between Hmisc versions 3.16-0 dated 2015-04-30 and 3.17-0 dated 2015-09-21
Hmisc-3.16-0/Hmisc/R/stata.get.s |only Hmisc-3.16-0/Hmisc/inst/NEWS |only Hmisc-3.17-0/Hmisc/DESCRIPTION | 16 Hmisc-3.17-0/Hmisc/MD5 | 57 +- Hmisc-3.17-0/Hmisc/NAMESPACE | 16 Hmisc-3.17-0/Hmisc/NEWS | 20 Hmisc-3.17-0/Hmisc/R/Misc.s | 21 Hmisc-3.17-0/Hmisc/R/ffCompress.r |only Hmisc-3.17-0/Hmisc/R/label.s | 12 Hmisc-3.17-0/Hmisc/R/latex.s | 44 + Hmisc-3.17-0/Hmisc/R/minor.tick.s | 51 -- Hmisc-3.17-0/Hmisc/R/misc.get.s |only Hmisc-3.17-0/Hmisc/R/plsmo.s | 86 ++- Hmisc-3.17-0/Hmisc/R/sas.get.s | 579 -------------------------- Hmisc-3.17-0/Hmisc/R/summaryM.s | 166 +++---- Hmisc-3.17-0/Hmisc/R/summaryS.s | 6 Hmisc-3.17-0/Hmisc/R/tabulr.s | 8 Hmisc-3.17-0/Hmisc/R/transcan.s | 312 ++++++-------- Hmisc-3.17-0/Hmisc/R/upData.s |only Hmisc-3.17-0/Hmisc/README.md | 4 Hmisc-3.17-0/Hmisc/man/Hmisc-internal.Rd | 1 Hmisc-3.17-0/Hmisc/man/ffCompress.Rd |only Hmisc-3.17-0/Hmisc/man/getRs.Rd | 12 Hmisc-3.17-0/Hmisc/man/html.Rd | 10 Hmisc-3.17-0/Hmisc/man/knitrSet.Rd | 3 Hmisc-3.17-0/Hmisc/man/label.Rd | 9 Hmisc-3.17-0/Hmisc/man/minor.tick.Rd | 13 Hmisc-3.17-0/Hmisc/man/plsmo.Rd | 35 + Hmisc-3.17-0/Hmisc/man/string.bounding.box.Rd | 17 Hmisc-3.17-0/Hmisc/man/upData.Rd | 17 Hmisc-3.17-0/Hmisc/tests/aregImpute4.r |only Hmisc-3.17-0/Hmisc/tests/cut2.r |only Hmisc-3.17-0/Hmisc/tests/latex-html.Rmd |only Hmisc-3.17-0/Hmisc/tests/latex.summaryM.Rnw | 7 34 files changed, 528 insertions(+), 994 deletions(-)
Title: Subnetwork Integration for Multi-Modal Signatures
Description: Algorithms to create prognostic biomarkers using biological networks.
Author: Syed Haider, Michal Grzadkowski, Paul C. Boutros
Maintainer: Syed Haider <Syed.Haider@oicr.on.ca>
Diff between SIMMS versions 1.0.1 dated 2015-02-22 and 1.0.2 dated 2015-09-21
DESCRIPTION | 9 +- MD5 | 29 ++++---- NAMESPACE | 32 +++++++++ NEWS | 7 ++ R/create.classifier.multivariate.R | 3 R/fit.coxmodel.R | 4 - R/fit.interaction.model.R | 26 ++++++- R/prepare.training.validation.datasets.R | 33 ++++++++- build/vignette.rds |binary inst/doc/Using-SIMMS.R | 25 +++++++ inst/doc/Using-SIMMS.Rmd | 45 ++++++++++--- inst/doc/Using-SIMMS.html | 106 +++++++++++++++++++++++++++---- inst/programdata/networkdb/HiC.gm06690 |only man/SIMMS.Rd | 2 vignettes/Using-SIMMS.Rmd | 45 ++++++++++--- 15 files changed, 306 insertions(+), 60 deletions(-)
Title: Fitting Linear and Generalized Linear Models to Large Data Sets
Description: Fitting linear models and generalized linear models to large data sets by updating algorithms.
Author: Marco Enea [aut, cre], Ronen Meiri [ctb] (on behalf of DMWay Analytics LTD), Tomer Kalimi [ctb] (on behalf of DMWay Analytics LTD)
Maintainer: Marco Enea <emarco76@libero.it>
Diff between speedglm versions 0.3 dated 2015-05-25 and 0.3-1 dated 2015-09-21
DESCRIPTION | 16 ++++++--- MD5 | 20 ++++++------ NAMESPACE | 14 +++++++- NEWS | 11 ++++++ R/speedglm.r | 21 ++++++++----- R/speedlm.r | 77 +++++++++++++++++++++++++++++++----------------- R/summary.speedglm.r | 33 +++++++++++++++++++- R/summary.speedlm.r | 22 +++++++++++++ man/speedglm-package.rd | 6 +-- man/speedlm.Rd | 10 +++--- man/summary.speedglm.Rd | 7 +++- 11 files changed, 176 insertions(+), 61 deletions(-)
Title: MCMC Generalised Linear Mixed Models
Description: MCMC Generalised Linear Mixed Models.
Author: Jarrod Hadfield
Maintainer: Jarrod Hadfield <j.hadfield@ed.ac.uk>
Diff between MCMCglmm versions 2.21 dated 2014-06-09 and 2.22 dated 2015-09-21
MCMCglmm-2.21/MCMCglmm/R/test.R |only MCMCglmm-2.21/MCMCglmm/R/test2.R |only MCMCglmm-2.21/MCMCglmm/man/leg.Rd |only MCMCglmm-2.22/MCMCglmm/.Rinstignore | 4 MCMCglmm-2.22/MCMCglmm/DESCRIPTION | 12 MCMCglmm-2.22/MCMCglmm/MD5 | 426 MCMCglmm-2.22/MCMCglmm/NAMESPACE | 19 MCMCglmm-2.22/MCMCglmm/R/Ddivergence.R | 8 MCMCglmm-2.22/MCMCglmm/R/Dtensor.R | 62 MCMCglmm-2.22/MCMCglmm/R/KPPM.R | 4 MCMCglmm-2.22/MCMCglmm/R/MCMCglmm.R | 662 MCMCglmm-2.22/MCMCglmm/R/buildV.R |only MCMCglmm-2.22/MCMCglmm/R/buildZ.R | 169 MCMCglmm-2.22/MCMCglmm/R/close.bracket.R |only MCMCglmm-2.22/MCMCglmm/R/find.components.R | 5 MCMCglmm-2.22/MCMCglmm/R/gelman.prior.R | 2 MCMCglmm-2.22/MCMCglmm/R/mterms.R | 28 MCMCglmm-2.22/MCMCglmm/R/path.R |only MCMCglmm-2.22/MCMCglmm/R/plotsubspace.R | 32 MCMCglmm-2.22/MCMCglmm/R/posterior.ante.R |only MCMCglmm-2.22/MCMCglmm/R/posterior.cor.R | 2 MCMCglmm-2.22/MCMCglmm/R/posterior.inverse.R |only MCMCglmm-2.22/MCMCglmm/R/predict.MCMCglmm.R | 391 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|binary MCMCglmm-2.22/MCMCglmm/vignettes/Lecture8.tex | 14 MCMCglmm-2.22/MCMCglmm/vignettes/Lecture9.tex | 89 MCMCglmm-2.22/MCMCglmm/vignettes/Overview.Rnw | 4 MCMCglmm-2.22/MCMCglmm/vignettes/Overview.bib | 33 226 files changed, 11871 insertions(+), 9731 deletions(-)
Title: Cluster Detection with Hypothesis Free Scan Statistic
Description: Multiple scan statistic with variable window for one dimension data and scan statistic based on connected components in 2D or 3D.
Author: Robin Loche, Benoit Giron, David Abrial, Lionel Cucala, Myriam Charras-Garrido, Jocelyn De-Goer
Maintainer: David Abrial <graphscan@clermont.inra.fr>
Diff between graphscan versions 1.0 dated 2015-02-10 and 1.1 dated 2015-09-21
DESCRIPTION | 11 + MD5 | 88 +++++++-------- NAMESPACE | 17 +- R/graphscan.R | 2 R/graphscan_1d.R | 2 R/graphscan_1d_array_function.R | 4 R/graphscan_1d_barplot.cluster.1d.R | 2 R/graphscan_1d_character.R | 2 R/graphscan_1d_dnabin.R | 2 R/graphscan_1d_list.R | 2 R/graphscan_1d_plot.cluster.all.1d.R | 159 ++++++++++++++++++++-------- R/graphscan_1d_plot.cluster.one.1d.R | 2 R/graphscan_1d_plot.cluster.serie.1d.R | 2 R/graphscan_2d_plot.cluster.2d.R | 2 R/graphscan_3d_plot.cluster.3d.R | 2 R/graphscan_3d_plot.cluster.3d.projection.R | 2 R/graphscan_cluster.R | 8 - R/graphscan_get_number_proc.R | 2 R/graphscan_nd.R | 2 R/graphscan_plot.cluster.R | 2 R/graphscan_summary.R | 2 inst/NEWS.Rd |only man/france_two_clusters.Rd | 2 man/graphscan-plot.Rd | 42 +++---- man/graphscan.Rd | 7 - man/graphscan_1d.Rd | 1 man/summary.Rd |only src/2D_detection_cluster.c | 2 src/2D_detection_cluster.h | 2 src/2D_fonction_math.c | 2 src/2D_fonction_math.h | 2 src/2D_types.h | 2 src/Makevars | 2 src/cucala_methode.c | 38 +++--- src/cucala_methode.h | 2 src/detection_agregat.c | 15 +- src/detection_agregat.h | 2 src/fonction_math.c | 4 src/fonction_math.h | 2 src/get_number_proc.c | 2 src/qsort_elem.h | 2 src/rbtree.c | 2 src/rbtree.h | 2 src/types.h | 2 src/unif_aleat.c | 2 src/unif_aleat.h | 2 46 files changed, 270 insertions(+), 188 deletions(-)
Title: Genomic Region Processing using Tools Such as Bedtools, Bedops
and Tabix
Description: Genomic region processing using tools such as bedtools, bedops and tabix.
Author: Daryl Waggott, Syed Haider, Emilie Lalonde, Clement Fung, Paul C. Boutros
Maintainer: Paul Boutros <Paul.Boutros@oicr.on.ca>
Diff between bedr versions 1.0.1 dated 2015-09-05 and 1.0.2 dated 2015-09-21
DESCRIPTION | 8 ++-- MD5 | 12 +++---- NAMESPACE | 2 - NEWS | 7 +++- R/read.vcf.R | 12 +++---- inst/doc/Using-bedr.html | 74 ++++++++++++++++++++++----------------------- man/get.example.regions.Rd | 10 +----- 7 files changed, 62 insertions(+), 63 deletions(-)
Title: Simulation of Synthetic Populations for Survey Data Considering
Auxiliary Information
Description: Tools and methods to simulate populations for surveys based on auxiliary data. The tools include model-based methods, calibration and combinatorial optimization algorithms. The package was developed with support of the International Household Survey Network, DFID Trust Fund TF011722.
Author: Bernhard Meindl, Matthias Templ, Andreas Alfons, Alexander Kowarik, and with contributions from Mathieu Ribatet
Maintainer: Matthias Templ<matthias.templ@gmail.com>
Diff between simPop versions 0.2.12 dated 2015-08-31 and 0.2.13 dated 2015-09-21
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- NEWS | 4 ++++ R/simCategorical.R | 11 ++++++----- R/simContinuous.R | 31 ++++++++++++++++++++----------- R/simStructure.R | 15 +++++++++++---- data/eusilcP.RData |binary data/eusilcS.RData |binary data/ghanaS.RData |binary data/totalsRG.rda |binary data/totalsRGtab.rda |binary 11 files changed, 55 insertions(+), 34 deletions(-)
Title: Fitting Structural Equation Mixture Models
Description: Estimation of structural equation models with nonlinear effects
and underlying nonnormal distributions.
Author: Nora Umbach [aut, cre],
Katharina Naumann [aut],
David Hoppe [aut],
Holger Brandt [aut],
Augustin Kelava [ctb],
Bernhard Schmitz [ctb]
Maintainer: Nora Umbach <nora.umbach@web.de>
Diff between nlsem versions 0.5 dated 2015-09-11 and 0.5.1 dated 2015-09-21
ChangeLog | 8 ++++- DESCRIPTION | 8 ++--- MD5 | 10 +++---- NAMESPACE | 5 +++ R/fscores.R | 80 +++++++++++++++++++++++++++++++++++++++++++++------------ R/s3generics.R | 4 +- 6 files changed, 87 insertions(+), 28 deletions(-)
Title: Tools for Simulating and Plotting Quantities of Interest
Estimated from Cox Proportional Hazards Models
Description: Simulates and plots quantities of interest (relative
hazards, first differences, and hazard ratios) for linear coefficients,
multiplicative interactions, polynomials, penalised splines, and
non-proportional hazards, as well as stratified survival curves from Cox
Proportional Hazard models. It also simulates and plots marginal effects
for multiplicative interactions.
Author: Christopher Gandrud [aut, cre]
Maintainer: Christopher Gandrud <christopher.gandrud@gmail.com>
Diff between simPH versions 1.3.2 dated 2015-05-21 and 1.3.4 dated 2015-09-21
DESCRIPTION | 16 +++---- MD5 | 30 ++++++------- NAMESPACE | 7 ++- NEWS | 27 +++++++++--- R/MinMaxLines.R | 1 R/SPInBounds.R | 91 ++++++++++++++++++++--------------------- R/SmoothSim.R | 2 R/coxsimInteract.R | 95 ++++++++++++++++++++++++------------------- R/coxsimLinear.R | 4 - R/coxsimPoly.R | 5 +- R/coxsimSpline.R | 4 - R/coxsimtvc.R | 2 README.md | 2 build/vignette.rds |binary man/coxsimInteract.Rd | 14 ++++++ vignettes/simPH-overview.Rnw | 6 +- 16 files changed, 179 insertions(+), 127 deletions(-)
Title: Fetch and Analyze Data from WaterML or CUAHSI WaterOneFlow Web
Service
Description: Lets you connect to any CUAHSI WaterOneFlow web service from any hydroserver.
To see list of available hydroservers, see http://hiscentral.cuahsi.org.
The package has five data download functions: GetServices(): show all public
HydroServers from the HIS Central Catalog.
HISCentral_GetSites() and HISCentral_GetSeriesCatalog(): search for sites or time series
from the HIS Central catalog based on geographic bounding box, server, or keyword.
GetVariables(): Show a data.frame with all variables on the server.
GetSites(): Show a data.frame with all sites on the server.
GetSiteInfo(): Show what variables, methods and quality control levels are
available at the specific site. GetValues(): Given a site code, variable code, start time
and endtime, fetch a data.frame of all the observation time series data values.
The data.frame has two columns: time and DataValue. This function has an optional "daily"
parameter, you can set daily="max", daily="min" or daily="mean" to get aggregated daily
values. The GetValues function can also retrieve WaterML 1 or WaterML 2.0 data
from a custom URL or from a local file. The package also has five data upload functions:
AddSites(), AddVariables(), AddMethods(), AddSources(), and AddValues().
These functions can be used for uploading data to a HydroServer Lite ODM database
via the JSON data upload web service interface.
Author: Jiri Kadlec [aut, cre]
Maintainer: Jiri Kadlec <jirikadlec2@gmail.com>
Diff between WaterML versions 1.4.0 dated 2015-09-03 and 1.5.0 dated 2015-09-21
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/GetServices.R | 39 +++++++++++++++++++++++++++++++++++++-- R/GetValues.R | 2 +- 4 files changed, 44 insertions(+), 9 deletions(-)
Title: Paleontological and Phylogenetic Analyses of Evolution
Description: Analyzes, time-scales and simulates phylogenies of extinct/fossil
lineages, along with calculation of diversity curves. Also fits likelihood
models to estimate sampling rates from stratigraphic ranges.
Author: David W. Bapst
Maintainer: David W. Bapst <dwbapst@gmail.com>
Diff between paleotree versions 2.4 dated 2015-05-02 and 2.5 dated 2015-09-21
CHANGELOG | 39 +++++ DESCRIPTION | 11 - MD5 | 156 ++++++++++++---------- NAMESPACE | 26 +++ R/DiversityCurves.R | 47 ++++-- R/SongZhangDicrano.R |only R/binTimeData.R | 6 R/branchClasses.R | 4 R/cal3TimePaleoPhy.R | 166 +++++++++++++++-------- R/communityEcology.R |only R/compareTimescaling.R | 20 +- R/constrainParPaleo.R | 2 R/createMrBayesConstraints.R |only R/dateNodes.R | 12 + R/degradeTree.R | 23 ++- R/depthRainbow.R | 4 R/divCurveFossilRecordSim.R |only R/durationFreq.R | 26 ++- R/equation2function.R |only R/expandTaxonTree.R | 24 ++- R/footeValues.R | 6 R/fourDateFunctions.R | 8 - R/freqRat.R | 4 R/getSampProbDisc.R | 12 - R/getSampRateCont.R | 19 +- R/horizonSampRate.R | 4 R/inverseSurv.R | 7 - R/kanto.R |only R/macroperforateForam.R |only R/makePBDBtaxonTree.R | 33 +++- R/minBranchLength.R | 10 - R/minCharChange.R | 266 +++++++++++++++++++++++++++++++++++--- R/modelMethods.R | 2 R/modifyTerminalBranches.R | 278 +++++++++++++++++++++++++++++++++++----- R/multiDiv.R | 43 ++++-- R/nearestNeighborDist.R | 2 R/occData2timeList.R | 2 R/optimPaleo.R | 2 R/paleotree-package.R | 9 + R/parentChild2taxonTree.R | 164 +++++++++++++++++++---- R/perCapitaRates.R | 28 ++-- R/perfectParsCharTree.R | 4 R/plotTraitgram.R | 5 R/probAnc.R | 14 +- R/resolveTreeChar.R | 23 ++- R/reverseList.R | 2 R/rootSplit.R | 5 R/sampleRanges.R | 22 +-- R/simFossilRecord.R |only R/simFossilRecordInternal.R |only R/simFossilRecordMethods.R |only R/simFossilTaxa.R | 42 +++--- R/simPaleoTrees.R | 11 + R/taxa2cladogram.R | 2 R/taxa2phylo.R | 190 ++++++++++++++++++++++----- R/termTaxa.R | 29 +++- R/testEdgeMat.R | 171 ++++++++++++++++++++---- R/timeLadderTree.R | 31 +++- R/timePaleoPhy.R | 116 +++++++++++----- R/timeSliceTree.R | 4 R/unitLengthTree.R | 4 README | 8 - data/SongZhangDicrano.rdata |only data/kanto.rdata |only data/macroperforateForam.rdata |only man/SongZhangDicrano.Rd |only man/cal3TimePaleoPhy.Rd | 16 +- man/communityEcology.Rd |only man/createMrBayesConstraints.Rd |only man/dateNodes.Rd | 6 man/degradeTree.Rd | 5 man/divCurveFossilRecordSim.Rd |only man/durationFreq.Rd | 7 - man/equation2function.Rd |only man/inverseSurv.Rd | 7 - man/kanto.Rd |only man/macroperforateForam.Rd |only man/makePBDBtaxonTree.Rd | 24 ++- man/minCharChange.Rd | 122 ++++++++++++++++- man/modifyTerminalBranches.Rd | 145 +++++++++++++++++++- man/multiDiv.Rd | 19 ++ man/parentChild2taxonTree.Rd | 24 +++ man/probAnc.Rd | 4 man/resolveTreeChar.Rd | 38 +++++ man/simFossilRecord.Rd |only man/simFossilRecordMethods.Rd |only man/simFossilTaxa.Rd | 7 - man/simPaleoTrees.Rd | 2 man/testEdgeMat.Rd | 5 man/timePaleoPhy.Rd | 26 +++ 90 files changed, 2061 insertions(+), 544 deletions(-)
Title: Matching Algorithms in R and C++
Description: Computes matching algorithms efficiently using Rcpp.
Implements the Gale-Shapley Algorithm to compute the stable matching for
two-sided markets, such as the stable marriage problem and the
college-admissions problem. Implements Irving's Algorithm for
the stable roommate problem. Implements the top trading cycle
algorithm for the indivisible goods trading problem.
Author: Jan Tilly, Nick Janetos
Maintainer: Jan Tilly <jtilly@econ.upenn.edu>
Diff between matchingR versions 1.1 dated 2015-09-14 and 1.1.1 dated 2015-09-21
DESCRIPTION | 13 - MD5 | 38 ++-- NEWS.md | 27 ++ R/RcppExports.R | 19 -- R/matchingR.R | 32 +-- README.md | 110 +++++++++--- inst/doc/matchingR-intro.R | 8 inst/doc/matchingR-intro.Rmd | 15 - inst/doc/matchingR-intro.html | 47 ++--- inst/doc/matchingR-performance.R | 76 ++------ inst/doc/matchingR-performance.Rmd | 82 ++------- inst/doc/matchingR-performance.html | 325 ++++++++++-------------------------- man/checkStabilityRoommate.Rd | 6 man/galeShapleyMatching.Rd | 13 - man/pkg.env.Rd | 2 src/galeshapley.cpp | 13 - src/roommate.cpp | 41 +++- src/roommate.h | 1 vignettes/matchingR-intro.Rmd | 15 - vignettes/matchingR-performance.Rmd | 82 ++------- 20 files changed, 413 insertions(+), 552 deletions(-)
Title: Geometric Morphometric Analyses of 2D/3D Landmark Data
Description: Read, manipulate, and digitize landmark data, generate shape
variables via Procrustes analysis for points, curves and surfaces, perform
shape analyses, and provide graphical depictions of shapes and patterns of
shape variation.
Author: Dean Adams, Michael Collyer, Emma Sherratt
Maintainer: Dean Adams <dcadams@iastate.edu>
Diff between geomorph versions 2.1.6 dated 2015-06-23 and 2.1.7 dated 2015-09-21
geomorph-2.1.6/geomorph/man/define.sliders.2d.Rd |only geomorph-2.1.6/geomorph/man/define.sliders.3d.Rd |only geomorph-2.1.6/geomorph/man/pairwise.slope.test.Rd |only geomorph-2.1.6/geomorph/man/pairwiseD.test.Rd |only geomorph-2.1.7/geomorph/DESCRIPTION | 13 geomorph-2.1.7/geomorph/MD5 | 116 +-- geomorph-2.1.7/geomorph/NAMESPACE | 16 geomorph-2.1.7/geomorph/NEWS | 30 geomorph-2.1.7/geomorph/R/advanced.procD.lm.r | 84 +- geomorph-2.1.7/geomorph/R/bilat.symmetry.r | 136 ++- geomorph-2.1.7/geomorph/R/build.template.r | 4 geomorph-2.1.7/geomorph/R/compare.evol.rates.r | 7 geomorph-2.1.7/geomorph/R/compare.modular.partitions.r | 6 geomorph-2.1.7/geomorph/R/compare.multi.evol.rates.r |only geomorph-2.1.7/geomorph/R/define.links.r | 13 geomorph-2.1.7/geomorph/R/define.sliders.r | 3 geomorph-2.1.7/geomorph/R/digit.fixed.r | 2 geomorph-2.1.7/geomorph/R/digitize2d.r | 2 geomorph-2.1.7/geomorph/R/digitsurface.r | 2 geomorph-2.1.7/geomorph/R/geomorph.support.code.r | 496 +++++++------- geomorph-2.1.7/geomorph/R/globalIntegration.r | 16 geomorph-2.1.7/geomorph/R/morphol.integr.r | 86 +- geomorph-2.1.7/geomorph/R/phylo.pls.R | 77 +- geomorph-2.1.7/geomorph/R/physignal.r | 9 geomorph-2.1.7/geomorph/R/plotAllometry.r | 72 -- geomorph-2.1.7/geomorph/R/plotGMPhyloMorphoSpace.r | 117 ++- geomorph-2.1.7/geomorph/R/plotOutliers.r | 4 geomorph-2.1.7/geomorph/R/plotRefToTarget.r | 50 - geomorph-2.1.7/geomorph/R/procD.lm.r | 44 - geomorph-2.1.7/geomorph/R/procD.pgls.r | 49 - geomorph-2.1.7/geomorph/R/read.ply.r | 49 - geomorph-2.1.7/geomorph/R/readland.nts.r | 6 geomorph-2.1.7/geomorph/R/readland.tps.r | 7 geomorph-2.1.7/geomorph/R/readmulti.nts.r | 2 geomorph-2.1.7/geomorph/R/trajectory.analysis.r | 137 +-- geomorph-2.1.7/geomorph/R/two.b.pls.r | 2 geomorph-2.1.7/geomorph/R/warpRefMesh.r | 13 geomorph-2.1.7/geomorph/R/warpRefOutline.r | 10 geomorph-2.1.7/geomorph/man/advanced.procD.lm.Rd | 9 geomorph-2.1.7/geomorph/man/bilat.symmetry.Rd | 4 geomorph-2.1.7/geomorph/man/buildtemplate.Rd | 4 geomorph-2.1.7/geomorph/man/compare.evol.rates.Rd | 3 geomorph-2.1.7/geomorph/man/compare.modular.partitions.Rd | 4 geomorph-2.1.7/geomorph/man/compare.multi.evol.rates.Rd |only geomorph-2.1.7/geomorph/man/define.links.Rd | 4 geomorph-2.1.7/geomorph/man/define.sliders.Rd | 2 geomorph-2.1.7/geomorph/man/digit.fixed.Rd | 2 geomorph-2.1.7/geomorph/man/digitize2d.Rd | 2 geomorph-2.1.7/geomorph/man/digitsurface.Rd | 2 geomorph-2.1.7/geomorph/man/globalIntegration.Rd | 4 geomorph-2.1.7/geomorph/man/morphol.integr.Rd | 4 geomorph-2.1.7/geomorph/man/phylo.pls.Rd | 4 geomorph-2.1.7/geomorph/man/physignal.Rd | 3 geomorph-2.1.7/geomorph/man/plotGMPhyloMorphoSpace.Rd | 34 geomorph-2.1.7/geomorph/man/plotOutliers.Rd | 4 geomorph-2.1.7/geomorph/man/plotRefToTarget.Rd | 4 geomorph-2.1.7/geomorph/man/procD.lm.Rd | 16 geomorph-2.1.7/geomorph/man/procD.pgls.Rd | 8 geomorph-2.1.7/geomorph/man/readland.tps.Rd | 2 geomorph-2.1.7/geomorph/man/trajectory.analysis.Rd | 26 geomorph-2.1.7/geomorph/man/two.b.pls.Rd | 2 geomorph-2.1.7/geomorph/src/geomorph.c | 31 62 files changed, 1026 insertions(+), 832 deletions(-)
Title: Help to Fit of a Parametric Distribution to Non-Censored or
Censored Data
Description: Extends the fitdistr function (of the MASS package) with several functions to help the fit of a parametric distribution to non-censored or censored data. Censored data may contain left censored, right censored and interval censored values, with several lower and upper bounds. In addition to maximum likelihood estimation (MLE), the package provides moment matching (MME), quantile matching (QME) and maximum goodness-of-fit estimation (MGE) methods (available only for non-censored data). Weighted versions of MLE, MME and QME are available.
Author: Marie Laure Delignette-Muller [aut, cre],
Christophe Dutang [aut],
Regis Pouillot [ctb],
Jean-Baptiste Denis [ctb]
Maintainer: Marie Laure Delignette-Muller <marielaure.delignettemuller@vetagro-sup.fr>
Diff between fitdistrplus versions 1.0-4 dated 2015-02-23 and 1.0-5 dated 2015-09-21
DESCRIPTION | 16 MD5 | 111 +++--- NAMESPACE | 159 ++++----- R/bootdist-graph.R |only R/bootdist.R | 328 ++++++++++--------- R/bootdistcens.R | 277 ++++++++-------- R/cdfcomp.R | 67 ++-- R/cdfcompcens.R | 4 R/denscomp.R | 19 - R/fitdist.R | 99 ++++- R/fitdistcens.R | 325 +++++++++++-------- R/gofstat.R | 6 R/mgedist.R | 614 +++++++++++++++++------------------- R/mledist.R | 195 ++++------- R/mmedist.R | 571 +++++++++++++++++++--------------- R/plotdist.R | 25 + R/plotdistcens.R | 6 R/ppcomp.R | 51 +-- R/qmedist.R | 527 ++++++++++++++----------------- R/qqcomp.R | 32 + R/util-checkparam.R |only R/util-startarg.R |only R/util-wtdstat.R |only build/vignette.rds |binary data/danishmulti.rda |binary data/danishuni.rda |binary data/endosulfan.rda |binary data/fluazinam.rda |binary data/groundbeef.rda |binary data/salinity.rda |binary data/smokedfish.rda |binary data/toxocara.rda |binary inst/NEWS | 16 inst/doc/paper2JSS.R | 6 inst/doc/paper2JSS.Rnw | 6 inst/doc/paper2JSS.pdf |binary man/bootdist.Rd | 335 ++++++++++---------- man/bootdistcens.Rd | 272 ++++++++-------- man/fitdist.Rd | 136 ++++---- man/fitdistcens.Rd | 525 ++++++++++++++++--------------- man/graphcomp.Rd | 43 +- man/mgedist.Rd | 26 - man/mledist.Rd | 430 ++++++++++++++----------- man/mmedist.Rd | 350 +++++++++++---------- man/qmedist.Rd | 296 +++++++++-------- tests/bootdist.R | 397 +++++++++++++---------- tests/bootdistcens.R | 120 ++++--- tests/cdfcomp.R | 377 +++++++++++----------- tests/denscomp.R | 273 ++++++++-------- tests/fitdist.R | 798 ++++++++++++++++++++++++++---------------------- tests/fitdistcens.R |only tests/mgedist.R | 164 +++++---- tests/mledist.R | 603 +++++++++++++++++++++--------------- tests/mmedist.R | 252 ++++++++++----- tests/plotdist.R | 1 tests/ppcomp.R | 20 + tests/qmedist.R | 176 ++++++---- tests/qqcomp.R | 12 vignettes/paper2JSS.Rnw | 6 59 files changed, 4981 insertions(+), 4091 deletions(-)
Title: Covariate Balancing Propensity Score
Description: Implements the covariate balancing propensity score (CBPS) proposed by Imai and Ratkovic (2014; JRSSB). The propensity score is estimated such that it maximizes the resulting covariate balance as well as the prediction of treatment assignment. The method, therefore, avoids an iteration between model fitting and balance checking. The package also implements several extensions of the CBPS beyond the cross-sectional, binary treatment setting. The current version implements the CBPS for longitudinal settings so that it can be used in conjunction with marginal structural models (Imai and Ratkovic, 2014), treatments with three- and four-valued treatment variables, continuous-valued treatments (Fong, Hazlett, and Imai, 2015), and the situation with multiple distinct binary treatments administered simultaneously. In the future it will be extended to other settings including the generalization of experimental and instrumental variable estimates.
Author: Christian Fong <christianfong@stanford.edu>, Marc Ratkovic <ratkovic@princeton.edu>, Chad Hazlett <chazlett@ucla.edu>, Kosuke Imai <kimai@princeton.edu>
Maintainer: Christian Fong <christianfong@stanford.edu>
Diff between CBPS versions 0.9 dated 2014-08-13 and 0.10 dated 2015-09-21
ChangeLog | 3 DESCRIPTION | 14 - MD5 | 35 +- NAMESPACE | 15 + R/BlackwellHelpCode.R | 47 +++ R/CBIV.R |only R/CBMSM.R | 88 +++++-- R/CBPSBinary.R | 594 +++++++++++++++++++++++++------------------------- R/CBPSContinuous.r | 8 R/CBPSMain.R | 457 ++++++++++++++++++++++---------------- R/CBPSMultiTreat.r | 84 ++----- R/npCBPS.R |only data/Blackwell.tab.gz |binary man/Blackwell.Rd | 2 man/CBMSM.Rd | 73 ++++-- man/CBPS.Rd | 103 +++----- man/balance.Rd | 7 man/npCBPS.Rd |only man/plot.CBMSM.Rd | 3 man/plot.CBPS.Rd | 14 - 20 files changed, 845 insertions(+), 702 deletions(-)
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.
Author: Michael Hahsler [aut, cre, cph],
Christian Buchta [aut, cph],
Bettina Gruen [aut, cph],
Kurt Hornik [aut, cph],
Christian Borgelt [ctb, cph]
Maintainer: Michael Hahsler <mhahsler@lyle.smu.edu>
Diff between arules versions 1.2-0 dated 2015-09-15 and 1.2-1 dated 2015-09-21
DESCRIPTION | 8 MD5 | 37 +-- NAMESPACE | 6 R/AllGenerics.R | 2 R/abbreviate.R |only R/addComplement.R | 26 +- R/inspect.R | 2 R/interestMeasures.R | 264 ++++++++++++++++------ data/Mushroom.rda |only data/datalist | 1 inst/NEWS | 9 inst/doc/arules.pdf |binary inst/tests/test-apriori.R | 4 inst/tests/test-itemMatrix.R | 4 inst/tests/test-measures.R | 25 +- inst/tests/test-missing.R |only inst/tests/test-transactions.R | 21 + man/APappearance-class.Rd | 11 man/Mushroom.Rd |only man/abbreviate.Rd |only man/interestMeasure.Rd | 475 ++++++++++++++++++++++++++++++++--------- src/reclat.c | 10 22 files changed, 679 insertions(+), 226 deletions(-)