Title: Reproducible, Accessible & Shareable Species Distribution
Modelling
Description: Reproducible and remixable species distribution modelling. The
package reads user submitted modules from an online repository, runs full
SDM workflows and returns output that is fully reproducible.
Author: Tim Lucas, Nick Golding, Tom August, Greg McInerny, Emiel van Loon
Maintainer: Tom August <tomaug@ceh.ac.uk>
Diff between zoon versions 0.4.23 dated 2016-03-11 and 0.5 dated 2016-06-13
zoon-0.4.23/zoon/README.md |only zoon-0.4.23/zoon/inst/doc/Building_a_module.R |only zoon-0.4.23/zoon/inst/doc/basic-zoon-usage.R |only zoon-0.4.23/zoon/inst/doc/interactive_zoon_usage.R |only zoon-0.5/zoon/DESCRIPTION | 12 zoon-0.5/zoon/MD5 | 147 + zoon-0.5/zoon/NAMESPACE | 15 zoon-0.5/zoon/R/BuildModule.R | 44 zoon-0.5/zoon/R/ChangeWorkflow.R | 24 zoon-0.5/zoon/R/DoModuleFunctions.R | 332 +++ zoon-0.5/zoon/R/GetPackage.R | 30 zoon-0.5/zoon/R/HelpFunctions.R | 2 zoon-0.5/zoon/R/Replicate.R |only zoon-0.5/zoon/R/RerunWorkflow.R | 21 zoon-0.5/zoon/R/ZoonCitation.R |only zoon-0.5/zoon/R/ZoonModuleParse.R |only zoon-0.5/zoon/R/accessors.R |only zoon-0.5/zoon/R/print.zoonCitation.R |only zoon-0.5/zoon/R/test_module.R |only zoon-0.5/zoon/R/test_outputs.R |only zoon-0.5/zoon/R/test_parameters.R |only zoon-0.5/zoon/R/workflow.R |only zoon-0.5/zoon/R/zoon.R | 238 -- zoon-0.5/zoon/R/zoonHelpers.R | 88 - zoon-0.5/zoon/R/zzz.R | 12 zoon-0.5/zoon/build/vignette.rds |binary zoon-0.5/zoon/inst/doc/Building_a_module.Rmd | 425 +++-- zoon-0.5/zoon/inst/doc/Building_a_module.html | 1089 +++++++------ zoon-0.5/zoon/inst/doc/basic-zoon-usage.Rmd | 460 +++++ zoon-0.5/zoon/inst/doc/basic-zoon-usage.html | 453 +++-- zoon-0.5/zoon/inst/doc/interactive_zoon_usage.Rmd | 85 - zoon-0.5/zoon/inst/doc/interactive_zoon_usage.html | 177 +- zoon-0.5/zoon/inst/extdata |only zoon-0.5/zoon/man/BuildModule.Rd | 9 zoon-0.5/zoon/man/ChangeWorkflow.Rd | 2 zoon-0.5/zoon/man/GetPackage.Rd | 3 zoon-0.5/zoon/man/Occurrence.Rd |only zoon-0.5/zoon/man/Replicate.Rd |only zoon-0.5/zoon/man/RerunWorkflow.Rd | 2 zoon-0.5/zoon/man/ZoonCitation.Rd |only zoon-0.5/zoon/man/ZoonModuleParse.Rd |only zoon-0.5/zoon/man/print.zoonCitation.Rd |only zoon-0.5/zoon/man/workflow.Rd | 16 zoon-0.5/zoon/tests/test-all.R | 2 zoon-0.5/zoon/tests/testthat/Rplots.pdf |binary zoon-0.5/zoon/tests/testthat/testBuildModule.R | 52 zoon-0.5/zoon/tests/testthat/testChangeWorkflow.R |only zoon-0.5/zoon/tests/testthat/testCheckModList.R | 13 zoon-0.5/zoon/tests/testthat/testGetMaxEnt.R |only zoon-0.5/zoon/tests/testthat/testGetPackage.R |only zoon-0.5/zoon/tests/testthat/testLapplyGetModule.R | 2 zoon-0.5/zoon/tests/testthat/testModuleHelp.R | 79 zoon-0.5/zoon/tests/testthat/testReplicate.R |only zoon-0.5/zoon/tests/testthat/testRerunWorkflow.R |only zoon-0.5/zoon/tests/testthat/testRunModules.R |only zoon-0.5/zoon/tests/testthat/testWholeWorkflows.R |only zoon-0.5/zoon/tests/testthat/testZoonCitation.R |only zoon-0.5/zoon/tests/testthat/testaccessors.R |only zoon-0.5/zoon/tests/testthat/testcall_path.R |only zoon-0.5/zoon/tests/testthat/testplot.zoonCitation.R |only zoon-0.5/zoon/tests/testthat/testplot.zoonWorkflow.r |only zoon-0.5/zoon/tests/testthat/testprint.zoonSummary.R |only zoon-0.5/zoon/tests/testthat/testprint.zoonWorkflow.R |only zoon-0.5/zoon/tests/testthat/testsummary.zoonWorkflow.R |only zoon-0.5/zoon/tests/testthat/testtestModule.R |only zoon-0.5/zoon/vignettes/Building_a_module.Rmd | 425 +++-- zoon-0.5/zoon/vignettes/basic-zoon-usage.Rmd | 460 +++++ zoon-0.5/zoon/vignettes/basic_11-1.png |only zoon-0.5/zoon/vignettes/basic_11-2.png |only zoon-0.5/zoon/vignettes/basic_12-1.png |only zoon-0.5/zoon/vignettes/basic_12-2.png |only zoon-0.5/zoon/vignettes/basic_12-3.png |only zoon-0.5/zoon/vignettes/basic_15-1.png |only zoon-0.5/zoon/vignettes/basic_5-1.png |only zoon-0.5/zoon/vignettes/building_cov4-1.png |only zoon-0.5/zoon/vignettes/building_cov5-1.png |only zoon-0.5/zoon/vignettes/building_cov5-2.png |only zoon-0.5/zoon/vignettes/building_cov5-3.png |only zoon-0.5/zoon/vignettes/building_cov5-4.png |only zoon-0.5/zoon/vignettes/building_mod6-1.png |only zoon-0.5/zoon/vignettes/building_mod6-2.png |only zoon-0.5/zoon/vignettes/building_mod6-3.png |only zoon-0.5/zoon/vignettes/building_mod6-4.png |only zoon-0.5/zoon/vignettes/building_mod7-1.png |only zoon-0.5/zoon/vignettes/building_occ6-1.png |only zoon-0.5/zoon/vignettes/building_occ7-1.png |only zoon-0.5/zoon/vignettes/building_occ7-2.png |only zoon-0.5/zoon/vignettes/building_out7-1.png |only zoon-0.5/zoon/vignettes/building_out7-2.png |only zoon-0.5/zoon/vignettes/building_out8-1.png |only zoon-0.5/zoon/vignettes/building_out8-2.png |only zoon-0.5/zoon/vignettes/building_out8-3.png |only zoon-0.5/zoon/vignettes/building_out9-1.png |only zoon-0.5/zoon/vignettes/building_out9-2.png |only zoon-0.5/zoon/vignettes/building_pro1-1.png |only zoon-0.5/zoon/vignettes/building_pro5-1.png |only zoon-0.5/zoon/vignettes/building_pro6-1.png |only zoon-0.5/zoon/vignettes/building_pro6-2.png |only zoon-0.5/zoon/vignettes/building_pro6-3.png |only zoon-0.5/zoon/vignettes/building_pro6-4.png |only zoon-0.5/zoon/vignettes/building_pro6-5.png |only zoon-0.5/zoon/vignettes/building_pro6-6.png |only zoon-0.5/zoon/vignettes/building_pro6-7.png |only zoon-0.5/zoon/vignettes/building_pro6-8.png |only zoon-0.5/zoon/vignettes/building_pro6-9.png |only zoon-0.5/zoon/vignettes/building_pro7-1.png |only zoon-0.5/zoon/vignettes/buliding_pro1a-1.png |only zoon-0.5/zoon/vignettes/interactive_cross_validation-1.png |only zoon-0.5/zoon/vignettes/interactive_noninteractive-1.png |only zoon-0.5/zoon/vignettes/interactive_output-1.png |only zoon-0.5/zoon/vignettes/interactive_zoon_usage.Rmd | 85 - 111 files changed, 3367 insertions(+), 1437 deletions(-)
Title: A Toolbox for Multivariate Meta-Analysis
Description: A toolbox for meta-analysis. This package includes a collection of functions for (1) implementing robust multivariate meta-analysis of continuous or binary outcomes; and (2) testing and correcting of publication bias in multivariate meta-analysis settings.
Author: Yong Chen [aut, cre],
Chuan Hong [aut],
Haitao Chu [ctb],
Yulun Liu [ctb]
Maintainer: Yong Chen <ychen.upenn@gmail.com>
Diff between xmeta versions 1.0-2 dated 2015-11-10 and 1.1-1 dated 2016-06-13
DESCRIPTION | 20 ++++++++++++++------ MD5 | 4 ++-- man/xmeta-package.Rd | 6 +++--- 3 files changed, 19 insertions(+), 11 deletions(-)
Title: Common Infrastructure for Extensions of Exponential Random Graph
Models
Description: Datasets and definitions of generic functions used in dependencies of the xergm package.
Author: Philip Leifeld [aut, cre],
Skyler J. Cranmer [ctb],
Bruce A. Desmarais [ctb]
Maintainer: Philip Leifeld <philip.leifeld@glasgow.ac.uk>
Diff between xergm.common versions 1.7.1 dated 2016-02-19 and 1.7.3 dated 2016-06-13
DESCRIPTION | 12 ++++++------ MD5 | 4 ++-- R/preprocess.R | 2 +- 3 files changed, 9 insertions(+), 9 deletions(-)
Title: Wavelet Methods for Time Series Analysis
Description: Software to book Wavelet Methods for Time Series Analysis,
Donald B. Percival and Andrew T. Walden, Cambridge University
Press, 2000.
Author: William Constantine [cre, aut],
Donald Percival [aut]
Maintainer: William Constantine <wlbconstan@gmail.com>
Diff between wmtsa versions 2.0-1 dated 2016-05-20 and 2.0-2 dated 2016-06-13
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/wav_xform.R | 4 ++-- 3 files changed, 7 insertions(+), 7 deletions(-)
Title: A MediaWiki API Wrapper
Description: A wrapper for the MediaWiki API, aimed particularly at the
Wikimedia 'production' wikis, such as Wikipedia. It can be used to retrieve
page text, information about users or the history of pages, and elements of
the category tree.
Author: Oliver Keyes [aut, cre], Brock Tilbert [ctb]
Maintainer: Oliver Keyes <ironholds@gmail.com>
Diff between WikipediR versions 1.3.0 dated 2016-01-13 and 1.4.0 dated 2016-06-13
WikipediR-1.3.0/WikipediR/man/WikipediR-package.Rd |only WikipediR-1.4.0/WikipediR/DESCRIPTION | 12 ++++----- WikipediR-1.4.0/WikipediR/MD5 | 27 ++++++++++----------- WikipediR-1.4.0/WikipediR/NEWS | 14 ++++++++++ WikipediR-1.4.0/WikipediR/R/WikipediR.R |only WikipediR-1.4.0/WikipediR/R/content.R | 21 +++++++++++----- WikipediR-1.4.0/WikipediR/R/metadata.R | 6 +++- WikipediR-1.4.0/WikipediR/R/query.R | 2 - WikipediR-1.4.0/WikipediR/README.md | 7 ++--- WikipediR-1.4.0/WikipediR/build/vignette.rds |binary WikipediR-1.4.0/WikipediR/inst/doc/WikipediR.Rmd | 2 - WikipediR-1.4.0/WikipediR/inst/doc/WikipediR.html | 2 - WikipediR-1.4.0/WikipediR/man/WikipediR.Rd |only WikipediR-1.4.0/WikipediR/man/page_backlinks.Rd | 5 +++ WikipediR-1.4.0/WikipediR/man/random_page.Rd | 5 +++ WikipediR-1.4.0/WikipediR/vignettes/WikipediR.Rmd | 2 - 16 files changed, 67 insertions(+), 38 deletions(-)
Title: API Client Library for 'Wikidata'
Description: An API client for the Wikidata <http://wikidata.org/> store of
semantic data.
Author: Oliver Keyes [aut, cre], Christian Graul [ctb]
Maintainer: Oliver Keyes <ironholds@gmail.com>
Diff between WikidataR versions 1.0.1 dated 2016-01-14 and 1.1.0 dated 2016-06-13
DESCRIPTION | 8 ++++---- MD5 | 24 ++++++++++++------------ NEWS | 3 +++ R/gets.R | 22 ++++++++-------------- R/prints.R | 32 ++++++++++++++++++-------------- R/utils.R | 28 ++++++++++++++-------------- README.md | 8 ++++++-- build/vignette.rds |binary inst/doc/Introduction.R | 9 ++++++++- inst/doc/Introduction.Rmd | 14 ++++++++++++-- inst/doc/Introduction.html | 11 ++++++++++- man/get_random.Rd | 6 ++++-- vignettes/Introduction.Rmd | 14 ++++++++++++-- 13 files changed, 111 insertions(+), 68 deletions(-)
Title: Statistical Inference of Vine Copulas
Description: Provides tools for the statistical analysis of vine copula models.
The package includes tools for parameter estimation, model selection,
simulation, goodness-of-fit tests, and visualization. Tools for estimation,
selection and exploratory data analysis of bivariate copula models are also
provided.
Author: Ulf Schepsmeier [aut],
Jakob Stoeber [aut],
Eike Christian Brechmann [aut],
Benedikt Graeler [aut],
Thomas Nagler [aut, cre],
Tobias Erhardt [aut],
Carlos Almeida [ctb],
Aleksey Min [ctb, ths],
Claudia Czado [ctb, ths],
Mathias Hofmann [ctb],
Matthias Killiches [ctb],
Harry Joe [ctb]
Maintainer: Thomas Nagler <thomas.nagler@tum.de>
Diff between VineCopula versions 1.6-1 dated 2015-11-09 and 2.0.1 dated 2016-06-13
VineCopula-1.6-1/VineCopula/R/BetaMatrix.r |only VineCopula-1.6-1/VineCopula/R/BiCopCDF.r |only VineCopula-1.6-1/VineCopula/R/BiCopChiPlot.r |only VineCopula-1.6-1/VineCopula/R/BiCopDeriv.r |only VineCopula-1.6-1/VineCopula/R/BiCopDeriv2.r |only VineCopula-1.6-1/VineCopula/R/BiCopEst.r |only VineCopula-1.6-1/VineCopula/R/BiCopGofTest.r |only VineCopula-1.6-1/VineCopula/R/BiCopHfunc.r |only VineCopula-1.6-1/VineCopula/R/BiCopHfuncDeriv.r |only VineCopula-1.6-1/VineCopula/R/BiCopHfuncDeriv2.r |only VineCopula-1.6-1/VineCopula/R/BiCopIndTest.r |only VineCopula-1.6-1/VineCopula/R/BiCopLambda.r |only VineCopula-1.6-1/VineCopula/R/BiCopMetaContour.r |only VineCopula-1.6-1/VineCopula/R/BiCopName.r |only VineCopula-1.6-1/VineCopula/R/BiCopPDF.r |only VineCopula-1.6-1/VineCopula/R/BiCopPar2Beta.r |only VineCopula-1.6-1/VineCopula/R/BiCopPar2TailDep.r |only VineCopula-1.6-1/VineCopula/R/BiCopPar2Tau.r |only VineCopula-1.6-1/VineCopula/R/BiCopSelect.r |only VineCopula-1.6-1/VineCopula/R/BiCopTau2Par.r |only VineCopula-1.6-1/VineCopula/R/BiCopVuongClarke.r |only VineCopula-1.6-1/VineCopula/R/C2RVine.r |only VineCopula-1.6-1/VineCopula/R/D2RVine.r |only VineCopula-1.6-1/VineCopula/R/RVineAIC.r |only VineCopula-1.6-1/VineCopula/R/RVineCopSelect.r |only VineCopula-1.6-1/VineCopula/R/RVineGofTest3.r |only VineCopula-1.6-1/VineCopula/R/RVineGrad.r |only VineCopula-1.6-1/VineCopula/R/RVineHessian.r |only VineCopula-1.6-1/VineCopula/R/RVineLogLik.r |only VineCopula-1.6-1/VineCopula/R/RVinePIT.r |only VineCopula-1.6-1/VineCopula/R/RVinePar2Beta.r |only VineCopula-1.6-1/VineCopula/R/RVinePar2Tau.r |only VineCopula-1.6-1/VineCopula/R/RVineStdError.r |only VineCopula-1.6-1/VineCopula/R/RVineStructureSelect.r |only VineCopula-1.6-1/VineCopula/R/RVineTreePlot.r |only VineCopula-1.6-1/VineCopula/R/TauMatrix.r |only VineCopula-1.6-1/VineCopula/R/gof_ECP.r |only VineCopula-1.6-1/VineCopula/R/gof_PIT.r |only VineCopula-1.6-1/VineCopula/R/gof_White.r |only VineCopula-1.6-1/VineCopula/inst |only VineCopula-1.6-1/VineCopula/man/RVineAICBIC.Rd |only VineCopula-1.6-1/VineCopula/man/RVineStdError.rd |only VineCopula-1.6-1/VineCopula/man/RvineMatrixCheck.Rd |only VineCopula-1.6-1/VineCopula/man/dduCopula.Rd |only VineCopula-1.6-1/VineCopula/tests/Examples |only VineCopula-1.6-1/VineCopula/tests/additonalExampleRuns.Rout.save |only VineCopula-2.0.1/VineCopula/DESCRIPTION | 53 VineCopula-2.0.1/VineCopula/MD5 | 351 - VineCopula-2.0.1/VineCopula/NAMESPACE | 247 VineCopula-2.0.1/VineCopula/NEWS.md |only VineCopula-2.0.1/VineCopula/R/0_prep_object.R | 544 + VineCopula-2.0.1/VineCopula/R/BB1copula.R | 123 VineCopula-2.0.1/VineCopula/R/BB6copula.R | 134 VineCopula-2.0.1/VineCopula/R/BB7copula.R | 128 VineCopula-2.0.1/VineCopula/R/BB8copula.R | 126 VineCopula-2.0.1/VineCopula/R/BetaMatrix.R |only VineCopula-2.0.1/VineCopula/R/BiCop.R | 328 - VineCopula-2.0.1/VineCopula/R/BiCopCDF.R |only VineCopula-2.0.1/VineCopula/R/BiCopCheck.R |only VineCopula-2.0.1/VineCopula/R/BiCopChiPlot.R |only VineCopula-2.0.1/VineCopula/R/BiCopCompare.R |only VineCopula-2.0.1/VineCopula/R/BiCopCondSim.R |only VineCopula-2.0.1/VineCopula/R/BiCopDeriv.R |only VineCopula-2.0.1/VineCopula/R/BiCopDeriv2.R |only VineCopula-2.0.1/VineCopula/R/BiCopEst.R |only VineCopula-2.0.1/VineCopula/R/BiCopEstList.R |only VineCopula-2.0.1/VineCopula/R/BiCopGofTest.R |only VineCopula-2.0.1/VineCopula/R/BiCopHfunc.R |only VineCopula-2.0.1/VineCopula/R/BiCopHfuncDeriv.R |only VineCopula-2.0.1/VineCopula/R/BiCopHfuncDeriv2.R |only VineCopula-2.0.1/VineCopula/R/BiCopHinv.R |only VineCopula-2.0.1/VineCopula/R/BiCopIndTest.R |only VineCopula-2.0.1/VineCopula/R/BiCopKDE.R |only VineCopula-2.0.1/VineCopula/R/BiCopLambda.R |only VineCopula-2.0.1/VineCopula/R/BiCopMetaContour.R |only VineCopula-2.0.1/VineCopula/R/BiCopName.R |only VineCopula-2.0.1/VineCopula/R/BiCopPDF.R |only VineCopula-2.0.1/VineCopula/R/BiCopPar2Beta.R |only VineCopula-2.0.1/VineCopula/R/BiCopPar2TailDep.R |only VineCopula-2.0.1/VineCopula/R/BiCopPar2Tau.R |only VineCopula-2.0.1/VineCopula/R/BiCopSelect.R |only VineCopula-2.0.1/VineCopula/R/BiCopSim.R | 256 VineCopula-2.0.1/VineCopula/R/BiCopTau2Par.R |only VineCopula-2.0.1/VineCopula/R/BiCopVuongClarke.R |only VineCopula-2.0.1/VineCopula/R/C2RVine.R |only VineCopula-2.0.1/VineCopula/R/ClaytonGumbelCopula.R | 222 VineCopula-2.0.1/VineCopula/R/D2RVine.R |only VineCopula-2.0.1/VineCopula/R/RVineAIC.R |only VineCopula-2.0.1/VineCopula/R/RVineClarkeTest.R | 172 VineCopula-2.0.1/VineCopula/R/RVineCopSelect.R |only VineCopula-2.0.1/VineCopula/R/RVineGofTest3.R |only VineCopula-2.0.1/VineCopula/R/RVineGrad.R |only VineCopula-2.0.1/VineCopula/R/RVineHessian.R |only VineCopula-2.0.1/VineCopula/R/RVineLogLik.R |only VineCopula-2.0.1/VineCopula/R/RVineMLE.R | 431 - VineCopula-2.0.1/VineCopula/R/RVineMatrix.R | 1438 ++-- VineCopula-2.0.1/VineCopula/R/RVinePIT.R |only VineCopula-2.0.1/VineCopula/R/RVinePar2Beta.R |only VineCopula-2.0.1/VineCopula/R/RVinePar2Tau.R |only VineCopula-2.0.1/VineCopula/R/RVinePartialcorr.R | 532 - VineCopula-2.0.1/VineCopula/R/RVineSeqEst.R | 446 - VineCopula-2.0.1/VineCopula/R/RVineSim.R | 56 VineCopula-2.0.1/VineCopula/R/RVineStdError.R |only VineCopula-2.0.1/VineCopula/R/RVineStructureSelect.R |only VineCopula-2.0.1/VineCopula/R/RVineTreePlot.R |only VineCopula-2.0.1/VineCopula/R/RVineVuongTest.R | 179 VineCopula-2.0.1/VineCopula/R/TauMatrix.R |only VineCopula-2.0.1/VineCopula/R/VineCopula-package.R |only VineCopula-2.0.1/VineCopula/R/as.copuladata.R | 28 VineCopula-2.0.1/VineCopula/R/contour.RVineMatrix.R |only VineCopula-2.0.1/VineCopula/R/gof_ECP.R |only VineCopula-2.0.1/VineCopula/R/gof_PIT.R |only VineCopula-2.0.1/VineCopula/R/gof_White.R |only VineCopula-2.0.1/VineCopula/R/joeBiCopula.R | 149 VineCopula-2.0.1/VineCopula/R/pairs.R | 360 - VineCopula-2.0.1/VineCopula/R/plot.BiCop.R | 361 - VineCopula-2.0.1/VineCopula/R/plot.RVineMatrix.R |only VineCopula-2.0.1/VineCopula/R/pobs.R |only VineCopula-2.0.1/VineCopula/R/preprocessors.R |only VineCopula-2.0.1/VineCopula/R/tawnCopula.R | 327 - VineCopula-2.0.1/VineCopula/R/vineCopulas.R | 88 VineCopula-2.0.1/VineCopula/README.md |only VineCopula-2.0.1/VineCopula/man/BB1Copula-class.Rd | 136 VineCopula-2.0.1/VineCopula/man/BB1Copula.Rd | 97 VineCopula-2.0.1/VineCopula/man/BB6Copula-class.Rd | 102 VineCopula-2.0.1/VineCopula/man/BB6Copula.Rd | 92 VineCopula-2.0.1/VineCopula/man/BB7Copula-class.Rd | 102 VineCopula-2.0.1/VineCopula/man/BB7Copula.Rd | 92 VineCopula-2.0.1/VineCopula/man/BB8Copula-class.Rd | 103 VineCopula-2.0.1/VineCopula/man/BB8Copula.Rd | 92 VineCopula-2.0.1/VineCopula/man/BetaMatrix.Rd | 83 VineCopula-2.0.1/VineCopula/man/BiCop.Rd | 201 VineCopula-2.0.1/VineCopula/man/BiCopCDF.Rd | 214 VineCopula-2.0.1/VineCopula/man/BiCopCheck.Rd |only VineCopula-2.0.1/VineCopula/man/BiCopChiPlot.Rd | 215 VineCopula-2.0.1/VineCopula/man/BiCopCompare.Rd |only VineCopula-2.0.1/VineCopula/man/BiCopCondSim.Rd |only VineCopula-2.0.1/VineCopula/man/BiCopDeriv.Rd | 190 VineCopula-2.0.1/VineCopula/man/BiCopDeriv2.Rd | 203 VineCopula-2.0.1/VineCopula/man/BiCopEst.Rd | 327 - VineCopula-2.0.1/VineCopula/man/BiCopEstList.Rd |only VineCopula-2.0.1/VineCopula/man/BiCopGofTest.Rd | 311 - VineCopula-2.0.1/VineCopula/man/BiCopHfunc.Rd | 247 VineCopula-2.0.1/VineCopula/man/BiCopHfuncDeriv.Rd | 185 VineCopula-2.0.1/VineCopula/man/BiCopHfuncDeriv2.Rd | 197 VineCopula-2.0.1/VineCopula/man/BiCopHinv.Rd |only VineCopula-2.0.1/VineCopula/man/BiCopIndTest.Rd | 132 VineCopula-2.0.1/VineCopula/man/BiCopKDE.Rd |only VineCopula-2.0.1/VineCopula/man/BiCopKPlot.Rd | 176 VineCopula-2.0.1/VineCopula/man/BiCopLambda.Rd | 258 VineCopula-2.0.1/VineCopula/man/BiCopMetaContour.Rd | 301 - VineCopula-2.0.1/VineCopula/man/BiCopName.Rd | 178 VineCopula-2.0.1/VineCopula/man/BiCopPDF.Rd | 203 VineCopula-2.0.1/VineCopula/man/BiCopPar2Beta.Rd | 195 VineCopula-2.0.1/VineCopula/man/BiCopPar2TailDep.Rd | 285 VineCopula-2.0.1/VineCopula/man/BiCopPar2Tau.Rd | 523 - VineCopula-2.0.1/VineCopula/man/BiCopSelect.Rd | 354 - VineCopula-2.0.1/VineCopula/man/BiCopSim.Rd | 180 VineCopula-2.0.1/VineCopula/man/BiCopTau2Par.Rd | 236 VineCopula-2.0.1/VineCopula/man/BiCopVuongClarke.Rd | 278 VineCopula-2.0.1/VineCopula/man/C2RVine.Rd | 175 VineCopula-2.0.1/VineCopula/man/D2RVine.Rd | 176 VineCopula-2.0.1/VineCopula/man/RVineAIC.Rd |only VineCopula-2.0.1/VineCopula/man/RVineClarkeTest.Rd | 188 VineCopula-2.0.1/VineCopula/man/RVineCopSelect.Rd | 283 VineCopula-2.0.1/VineCopula/man/RVineCor2pcor.Rd | 121 VineCopula-2.0.1/VineCopula/man/RVineGofTest.Rd | 433 - VineCopula-2.0.1/VineCopula/man/RVineGrad.Rd | 266 VineCopula-2.0.1/VineCopula/man/RVineHessian.Rd | 228 VineCopula-2.0.1/VineCopula/man/RVineLogLik.Rd | 246 VineCopula-2.0.1/VineCopula/man/RVineMLE.Rd | 265 VineCopula-2.0.1/VineCopula/man/RVineMatrix.Rd | 308 - VineCopula-2.0.1/VineCopula/man/RVineMatrixCheck.Rd |only VineCopula-2.0.1/VineCopula/man/RVineMatrixNormalize.Rd | 85 VineCopula-2.0.1/VineCopula/man/RVinePDF.Rd | 190 VineCopula-2.0.1/VineCopula/man/RVinePIT.Rd | 138 VineCopula-2.0.1/VineCopula/man/RVinePar2Beta.Rd | 134 VineCopula-2.0.1/VineCopula/man/RVinePar2Tau.Rd | 132 VineCopula-2.0.1/VineCopula/man/RVineSeqEst.Rd | 217 VineCopula-2.0.1/VineCopula/man/RVineSim.Rd | 148 VineCopula-2.0.1/VineCopula/man/RVineStdError.Rd |only VineCopula-2.0.1/VineCopula/man/RVineStructureSelect.Rd | 328 - VineCopula-2.0.1/VineCopula/man/RVineTreePlot.Rd | 155 VineCopula-2.0.1/VineCopula/man/RVineVuongTest.Rd | 180 VineCopula-2.0.1/VineCopula/man/TauMatrix.Rd | 82 VineCopula-2.0.1/VineCopula/man/VineCopula-package.Rd | 296 - VineCopula-2.0.1/VineCopula/man/as.copuladata.Rd | 81 VineCopula-2.0.1/VineCopula/man/copulaFromFamilyIndex.Rd | 71 VineCopula-2.0.1/VineCopula/man/daxreturns.Rd | 56 VineCopula-2.0.1/VineCopula/man/ddCopula.Rd |only VineCopula-2.0.1/VineCopula/man/joeBiCopula-class.Rd | 107 VineCopula-2.0.1/VineCopula/man/joeBiCopula.Rd | 90 VineCopula-2.0.1/VineCopula/man/pairs.copuladata.Rd | 231 VineCopula-2.0.1/VineCopula/man/plot.BiCop.Rd | 106 VineCopula-2.0.1/VineCopula/man/plot.RVineMatrix.Rd |only VineCopula-2.0.1/VineCopula/man/pobs.Rd | 123 VineCopula-2.0.1/VineCopula/man/surClaytonCopula-class.Rd | 122 VineCopula-2.0.1/VineCopula/man/surClaytonCopula.Rd | 70 VineCopula-2.0.1/VineCopula/man/surGumbelCopula-class.Rd | 122 VineCopula-2.0.1/VineCopula/man/surGumbelCopula.Rd | 70 VineCopula-2.0.1/VineCopula/man/tawnT1Copula-class.Rd | 126 VineCopula-2.0.1/VineCopula/man/tawnT1Copula.Rd | 92 VineCopula-2.0.1/VineCopula/man/tawnT2Copula-class.Rd | 126 VineCopula-2.0.1/VineCopula/man/tawnT2Copula.Rd | 92 VineCopula-2.0.1/VineCopula/man/vineCopula-class.Rd | 82 VineCopula-2.0.1/VineCopula/man/vineCopula.Rd | 76 VineCopula-2.0.1/VineCopula/src/cdvine.c | 14 VineCopula-2.0.1/VineCopula/src/deriv.c | 47 VineCopula-2.0.1/VineCopula/src/deriv2.c | 80 VineCopula-2.0.1/VineCopula/src/evCopula.c | 123 VineCopula-2.0.1/VineCopula/src/gof.c | 27 VineCopula-2.0.1/VineCopula/src/hfunc.c | 2342 +++---- VineCopula-2.0.1/VineCopula/src/hfuncderiv.c | 31 VineCopula-2.0.1/VineCopula/src/hfuncderiv2.c | 49 VineCopula-2.0.1/VineCopula/src/include/deriv.h | 6 VineCopula-2.0.1/VineCopula/src/include/deriv2.h | 11 VineCopula-2.0.1/VineCopula/src/include/hfunc.h | 4 VineCopula-2.0.1/VineCopula/src/include/likelihood.h | 1 VineCopula-2.0.1/VineCopula/src/include/logderiv.h | 3 VineCopula-2.0.1/VineCopula/src/include/tcopuladeriv.h | 1 VineCopula-2.0.1/VineCopula/src/include/tcopuladeriv_new.h | 10 VineCopula-2.0.1/VineCopula/src/incompleteBeta.c | 15 VineCopula-2.0.1/VineCopula/src/likelihood.c | 2932 ++++------ VineCopula-2.0.1/VineCopula/src/logderiv.c | 125 VineCopula-2.0.1/VineCopula/src/rvine.c | 40 VineCopula-2.0.1/VineCopula/src/rvinederiv.c | 96 VineCopula-2.0.1/VineCopula/src/rvinederiv2.c | 177 VineCopula-2.0.1/VineCopula/src/tcopuladeriv.c | 16 VineCopula-2.0.1/VineCopula/src/tcopuladeriv_new.c | 325 - VineCopula-2.0.1/VineCopula/src/tools.c | 3 VineCopula-2.0.1/VineCopula/tests/additonalExampleRuns.R | 328 - 231 files changed, 14232 insertions(+), 12758 deletions(-)
Title: Functions for Robust Variable Handling
Description: Variables are the fundamental parts of each programming language but handling them might be frustrating for programmers from time to time. This package contains some functions to help user (especially data explorers) to make more sense of their variables and take the most out of variables as well as their hardware. These functions are written, collected and crafted over some years of experience in statistical data analysis and for each of them there was a need. Functions in this package are suppose to be efficient and easy to use, hence they will be frequently updated to make them more convenient.
Author: Mehrad Mahmoudian [aut, cre]
Maintainer: Mehrad Mahmoudian <m.mahmoudian@gmail.com>
Diff between varhandle versions 1.0.0 dated 2015-09-03 and 2.0.0 dated 2016-06-13
DESCRIPTION | 9 +-- MD5 | 22 ++++--- NAMESPACE | 4 + R/check.numeric.R | 130 +++++++++++++++++++++++++++++++++-------------- R/inspect.na.R |only R/pin.na.R | 18 +++--- R/rm.all.but.R | 101 +++++++++++++++++++++++++----------- R/unfactor.R | 9 +-- man/check.numeric.Rd | 96 +++++++++++++++++++++------------- man/inspect.na.Rd |only man/pin.na.Rd | 19 +++--- man/rm.all.but.Rd | 12 +++- man/varhandle-package.Rd | 4 - 13 files changed, 279 insertions(+), 145 deletions(-)
Title: US Vaccine Adverse Event Reporting System (VAERS) Vaccine Data
for Present
Description: US VAERS vaccine data for 01/01/2016 - 04/14/2016. If you want to
explore the full VAERS data for 1990 - Present (data, symptoms, and
vaccines), then check out the 'vaers' package from the URL below. The URL
and BugReports below correspond to the 'vaers' package, of which 'vaersvax'
is a small subset (2016 only). 'vaers' is not hosted on CRAN due to the
large size of the data set. "VAERS is a national vaccine safety
surveillance program co-sponsored by the US Centers for Disease Control and
Prevention (CDC) and the US Food and Drug Administration (FDA). VAERS is a
post-marketing safety surveillance program, collecting information about
adverse events (possible side effects) that occur after the administration
of vaccines licensed for use in the United States." For more information
about the data, visit https://vaers.hhs.gov/index. For information about
vaccination/immunization hazards, visit
http://www.questionuniverse.com/rethink.html/#vaccine.
Author: Irucka Embry [aut, cre]
Maintainer: Irucka Embry <iembry@ecoccs.com>
Diff between vaersvax versions 1.0.0 dated 2016-04-23 and 1.0.1 dated 2016-06-13
DESCRIPTION | 12 ++++++------ MD5 | 8 ++++---- NEWS.md | 7 ++++++- README.md | 2 +- data/vaersvax.RData |binary 5 files changed, 17 insertions(+), 12 deletions(-)
Title: Non-Domestic Vaccine Adverse Event Reporting System (VAERS)
Vaccine Data for Present
Description: Non-Domestic VAERS vaccine data for 01/01/2016 - 04/14/2016. If
you want to explore the full VAERS data for 1990 - Present (data, symptoms,
and vaccines), then check out the 'vaersND' package from the URL below. The
URL and BugReports below correspond to the 'vaersND' package, of which
'vaersNDvax' is a small subset (2016 only). 'vaersND' is not hosted on CRAN
due to the large size of the data set. "VAERS is a national vaccine safety
surveillance program co-sponsored by the US Centers for Disease Control and
Prevention (CDC) and the US Food and Drug Administration (FDA). VAERS is a
post-marketing safety surveillance program, collecting information about
adverse events (possible side effects) that occur after the administration
of vaccines licensed for use in the United States." For more information
about the data, visit https://vaers.hhs.gov/index. For information about
vaccination/immunization hazards, visit
http://www.questionuniverse.com/rethink.html/#vaccine.
Author: Irucka Embry [aut, cre]
Maintainer: Irucka Embry <iembry@ecoccs.com>
Diff between vaersNDvax versions 1.0.0 dated 2016-04-23 and 1.0.1 dated 2016-06-13
DESCRIPTION | 12 ++++++------ MD5 | 8 ++++---- NEWS.md | 7 ++++++- README.md | 2 +- data/vaersNDvax.RData |binary 5 files changed, 17 insertions(+), 12 deletions(-)
Title: Statistical Exploration of Landscapes of Phylogenetic Trees
Description: Tools for the exploration of distributions of phylogenetic trees.
This package includes a shiny interface which can be started from R using
'treescapeServer()'.
Author: Thibaut Jombart [aut],
Michelle Kendall [aut, cre],
Jacob Almagro-Garcia [aut],
Caroline Colijn [aut]
Maintainer: Michelle Kendall <m.kendall@imperial.ac.uk>
Diff between treescape versions 1.9.16 dated 2016-05-25 and 1.9.17 dated 2016-06-13
DESCRIPTION | 6 - MD5 | 56 ++++----- NAMESPACE | 2 R/treescape.R | 21 ++- README.md | 30 +++-- data/DengueSeqs.RData |binary inst/doc/DengueVignette.R | 91 ++++++++++++--- inst/doc/DengueVignette.Rmd | 112 ++++++++++++++----- inst/shiny/server.R | 23 --- inst/shiny/ui.R | 15 +- man/treescape.Rd | 7 - vignettes/DengueVignette.Rmd | 112 ++++++++++++++----- vignettes/figs/distances_readme-1.png |binary vignettes/figs/distances_readme-2.png |binary vignettes/figs/findgroves-with-emphasis_readme-1.png |binary vignettes/figs/plotgroves2_readme-1.png |binary vignettes/figs/plotgroves2_readme-2.png |binary vignettes/figs/plotgroves2_readme-3.png |binary vignettes/figs/plotgroves_readme-1.png |binary vignettes/figs/scree_plot-1.png |binary vignettes/figs/see_ML_boots-1.png |only vignettes/figs/see_NJ_boots-1.png |only vignettes/figs/woodmice-tip-emphasis_readme-1.png |binary vignettes/figs/woodmiceCluster1_readme-1.png |binary vignettes/figs/woodmiceMedian_readme-1.png |binary vignettes/figs/woodmicePlots_readme-1.png |binary vignettes/figs/woodmicePlots_readme-2.png |binary vignettes/figs/woodmicePlots_readme-3.png |binary vignettes/figs/woodmice_plotTreeDiff_readme-1.png |binary vignettes/figs/woodmice_plotTreeDiff_readme-2.png |binary 30 files changed, 331 insertions(+), 144 deletions(-)
Title: 'TRFLP' Analysis and Matching Package for R
Description: Matching terminal restriction fragment length
polymorphism ('TRFLP') profiles between unknown samples and a
database of known samples. TRAMPR facilitates analysis of
many unknown profiles at once, and provides tools for working
directly with electrophoresis output through to generating
summaries suitable for community analyses with R's rich set of
statistical functions. TRAMPR also resolves the issues of
multiple 'TRFLP' profiles within a species, and shared 'TRFLP'
profiles across species.
Author: Rich FitzJohn & Ian Dickie
Maintainer: Rich FitzJohn <rich.fitzjohn@gmail.com>
Diff between TRAMPR versions 1.0-7 dated 2012-03-23 and 1.0-8 dated 2016-06-13
TRAMPR-1.0-7/TRAMPR/vignettes/TRAMPRdemo.R |only TRAMPR-1.0-8/TRAMPR/ChangeLog | 7 +++++- TRAMPR-1.0-8/TRAMPR/DESCRIPTION | 29 ++++++++++++++-------------- TRAMPR-1.0-8/TRAMPR/MD5 | 11 +++++----- TRAMPR-1.0-8/TRAMPR/NAMESPACE | 6 +++++ TRAMPR-1.0-8/TRAMPR/build |only TRAMPR-1.0-8/TRAMPR/inst/doc/TRAMPRdemo.R |only TRAMPR-1.0-8/TRAMPR/inst/doc/TRAMPRdemo.pdf |binary 8 files changed, 33 insertions(+), 20 deletions(-)
Title: Read, Manipulate and Visualise Magnetic Resonance Images
Description: Functions for working with magnetic resonance images. Analyze,
NIfTI-1, NIfTI-2 and MGH format images can be read and written; DICOM files
can only be read.
Author: Jon Clayden
Maintainer: Jon Clayden <code@clayden.org>
Diff between tractor.base versions 3.0.0 dated 2016-05-09 and 3.0.2 dated 2016-06-13
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/10_mri_image.R | 5 +++-- R/dicom_dir.R | 12 +++++++++--- man/sortDicomDirectories.Rd | 6 +++++- 5 files changed, 25 insertions(+), 14 deletions(-)
Title: Easily Tidy Data with `spread()` and `gather()` Functions
Description: An evolution of 'reshape2'. It's designed specifically for data
tidying (not general reshaping or aggregating) and works well with
'dplyr' data pipelines.
Author: Hadley Wickham [aut, cre],
RStudio [cph]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between tidyr versions 0.4.1 dated 2016-02-05 and 0.5.0 dated 2016-06-13
tidyr-0.4.1/tidyr/src/matrixToDataFrame.cpp |only tidyr-0.5.0/tidyr/DESCRIPTION | 10 +- tidyr-0.5.0/tidyr/MD5 | 97 ++++++++++++-------- tidyr-0.5.0/tidyr/NAMESPACE | 13 ++ tidyr-0.5.0/tidyr/NEWS.md | 51 ++++++++++ tidyr-0.5.0/tidyr/R/RcppExports.R | 4 tidyr-0.5.0/tidyr/R/complete.R | 8 + tidyr-0.5.0/tidyr/R/data.R |only tidyr-0.5.0/tidyr/R/expand.R | 7 - tidyr-0.5.0/tidyr/R/extract.R | 8 - tidyr-0.5.0/tidyr/R/gather.R | 13 -- tidyr-0.5.0/tidyr/R/id.R | 5 + tidyr-0.5.0/tidyr/R/nest.R | 13 ++ tidyr-0.5.0/tidyr/R/replace_na.R | 2 tidyr-0.5.0/tidyr/R/separate-rows.R |only tidyr-0.5.0/tidyr/R/separate.R | 6 - tidyr-0.5.0/tidyr/R/seq.R | 25 ++++- tidyr-0.5.0/tidyr/R/spread.R | 44 ++++++--- tidyr-0.5.0/tidyr/R/unite.R | 6 - tidyr-0.5.0/tidyr/R/unnest.R | 70 ++++++++++++--- tidyr-0.5.0/tidyr/R/utils.R | 20 +++- tidyr-0.5.0/tidyr/README.md | 10 +- tidyr-0.5.0/tidyr/build/vignette.rds |binary tidyr-0.5.0/tidyr/data |only tidyr-0.5.0/tidyr/inst/doc/tidy-data.html | 98 ++++++++++----------- tidyr-0.5.0/tidyr/man/complete.Rd | 4 tidyr-0.5.0/tidyr/man/population.Rd |only tidyr-0.5.0/tidyr/man/separate_rows.Rd |only tidyr-0.5.0/tidyr/man/separate_rows_.Rd |only tidyr-0.5.0/tidyr/man/smiths.Rd |only tidyr-0.5.0/tidyr/man/spread.Rd | 7 + tidyr-0.5.0/tidyr/man/spread_.Rd | 7 + tidyr-0.5.0/tidyr/man/table1.Rd |only tidyr-0.5.0/tidyr/man/unnest.Rd | 17 +++ tidyr-0.5.0/tidyr/man/unnest_.Rd | 10 +- tidyr-0.5.0/tidyr/man/who.Rd |only tidyr-0.5.0/tidyr/src/RcppExports.cpp | 11 -- tidyr-0.5.0/tidyr/src/melt.cpp | 14 ++- tidyr-0.5.0/tidyr/src/simplifyPieces.cpp | 8 + tidyr-0.5.0/tidyr/tests/testthat/test-complete.R | 11 ++ tidyr-0.5.0/tidyr/tests/testthat/test-expand.R | 12 +- tidyr-0.5.0/tidyr/tests/testthat/test-extract.R | 4 tidyr-0.5.0/tidyr/tests/testthat/test-fill.R | 14 +-- tidyr-0.5.0/tidyr/tests/testthat/test-full_seq.R |only tidyr-0.5.0/tidyr/tests/testthat/test-gather.R | 19 ++-- tidyr-0.5.0/tidyr/tests/testthat/test-nest.R | 16 ++- tidyr-0.5.0/tidyr/tests/testthat/test-replace_na.R | 4 tidyr-0.5.0/tidyr/tests/testthat/test-separate.R | 65 ++++++++++++- tidyr-0.5.0/tidyr/tests/testthat/test-spread.R | 26 ++++- tidyr-0.5.0/tidyr/tests/testthat/test-unite.R | 15 ++- tidyr-0.5.0/tidyr/tests/testthat/test-unnest.R | 72 ++++++++++++--- 51 files changed, 603 insertions(+), 243 deletions(-)
Title: Write Formatted Tables in Excel Workbooks
Description: Some functions are included in this package for writing tables in Excel format suitable for distribution.
Author: Jesus Maria Rodriguez Rodriguez
Maintainer: Jesus Maria Rodriguez Rodriguez <jesusmro@ono.com>
Diff between tablaxlsx versions 1.1.0 dated 2016-05-02 and 1.2.0 dated 2016-06-13
DESCRIPTION | 8 +++--- MD5 | 10 +++---- R/escribirTabla.R | 67 +++++++++++++++++++++++++++++++-------------------- data/estilosDGE.rda |binary man/escribirTabla.Rd | 10 +++++-- man/estilosDGE.Rd | 6 ++-- 6 files changed, 61 insertions(+), 40 deletions(-)
Title: Sequential Parameter Optimization Toolbox
Description: The Sequential Parameter Optimization Toolbox provides a set of
tools for Parameter-tuning, based on modelling techniques, DoE and statistical
methods.
Author: Thomas Bartz-Beielstein [aut],
Martin Zaefferer [cre, ctb],
Joerg Ziegenhirt [ctb],
Wolfgang Konen [ctb],
Oliver Flasch [ctb],
Patrick Koch [ctb],
Martina Friese [ctb]
Maintainer: Martin Zaefferer <martin.zaefferer@gmx.de>
Diff between SPOT versions 1.0.5543 dated 2015-04-27 and 1.1.0 dated 2016-06-13
DESCRIPTION | 28 + MD5 | 488 +++++++++++++++---------------- NAMESPACE | 8 NEWS | 6 R/spot.R | 13 R/spotAlgStartEs.R | 1 R/spotCreateDesignLhd.R | 4 R/spotGetOptions.R | 35 +- R/spotOcba.R | 1 R/spotOptim.R | 2 R/spotOptimEs.R | 2 R/spotOptimizationFunctions.R | 8 R/spotPredictCoForrester.R | 2 R/spotPredictDace.R | 32 +- R/spotPredictForrester.R | 17 - R/spotReport3d.R | 16 - R/spotReportContour.R | 10 R/spotStatistics.R | 1 inst/demo17Rgp/rgp0001.roi | 2 inst/demoMixedModelAnalysis/glges02.aroi |only inst/demoMixedModelAnalysis/glges02.bst |only inst/demoMixedModelAnalysis/glges02.des |only inst/demoMixedModelAnalysis/glges02.res |only inst/doc/SPOT.pdf |binary man/SPOT-package.Rd | 17 - man/Testfunctions.Rd | 6 man/corrcubic.Rd | 4 man/correxp.Rd | 4 man/correxpg.Rd | 4 man/corrgauss.Rd | 4 man/corrkriging.Rd | 6 man/corrlin.Rd | 4 man/corrnoisygauss.Rd | 6 man/corrnoisykriging.Rd | 6 man/corrspherical.Rd | 4 man/corrspline.Rd | 4 man/daceBuilder.Rd | 7 man/daceEvalFit.Rd | 2 man/daceFixTheta.Rd | 10 man/daceGetFit.Rd | 4 man/daceLikelihood.Rd | 2 man/daceObjfunc.Rd | 6 man/dacePredictor.Rd | 9 man/dacePrepareFit.Rd | 4 man/daceStartParameters.Rd | 2 man/forrBuilder.Rd | 11 man/forrCoBuilder.Rd | 79 ++--- man/forrCoLikelihood.Rd | 2 man/forrCoModel.Rd | 2 man/forrCoRegPredictor.Rd | 2 man/forrIF.Rd | 2 man/forrRegLikelihood.Rd | 2 man/forrRegPredictor.Rd | 2 man/forrReintPredictor.Rd | 3 man/predict.forr.Rd | 3 man/print.Rd | 2 man/regpoly0.Rd | 4 man/regpoly1.Rd | 10 man/regpoly2.Rd | 8 man/repmat.Rd | 2 man/spot.Rd | 8 man/spotAlgEs.Rd | 2 man/spotAlgEsDominantReco.Rd | 2 man/spotAlgEsGetSuccessRate.Rd | 2 man/spotAlgEsHps.Rd | 2 man/spotAlgEsIndividualInitial.Rd | 2 man/spotAlgEsInitParentPop.Rd | 2 man/spotAlgEsInterReco.Rd | 2 man/spotAlgEsInterRecoBeSw02.Rd | 2 man/spotAlgEsMarriage.Rd | 2 man/spotAlgEsMarriageWithReplace.Rd | 2 man/spotAlgEsObjMutation.Rd | 2 man/spotAlgEsQuickTest.Rd | 2 man/spotAlgEsSelection.Rd | 2 man/spotAlgEsStratMutation.Rd | 2 man/spotAlgEsTermination.Rd | 2 man/spotAlgStartEs.Rd | 4 man/spotAlgStartEsGlg.Rd | 2 man/spotAlgStartEsVar.Rd | 4 man/spotAlgStartRgp.Rd | 2 man/spotAlgStartSann.Rd | 4 man/spotAlgStartSannVar.Rd | 4 man/spotAlgStartSmsEmoaGlg.Rd | 2 man/spotCalcNoise.Rd | 2 man/spotCallCoFunction.Rd | 2 man/spotCodeFormulas.Rd | 9 man/spotCreateDesignBasicDoe.Rd | 8 man/spotCreateDesignFactors.Rd | 4 man/spotCreateDesignFrF2.Rd | 6 man/spotCreateDesignLhd.Rd | 4 man/spotCreateDesignLhs.Rd | 4 man/spotCreateDesignLhsOpt.Rd | 4 man/spotEnsembleMinimum.Rd | 2 man/spotEnsembleModelBuilding.Rd | 2 man/spotEnsembleModelEvaluate.Rd | 2 man/spotEnsembleMultiAlternate.Rd | 6 man/spotEnsembleMultiAverage.Rd | 16 - man/spotEnsembleMultiChoose.Rd | 16 - man/spotEnsembleMultiRank.Rd | 4 man/spotEnsembleMultiRankWeighted.Rd | 2 man/spotEnsembleSingleBLAbern.Rd | 12 man/spotEnsembleSingleBLAnorm.Rd | 12 man/spotEnsembleSingleEpsGreedy.Rd | 16 - man/spotEnsembleSinglePOKER.Rd | 16 - man/spotEnsembleSingleRoundSearch.Rd | 12 man/spotEnsembleSingleSoftMax.Rd | 14 man/spotEnsembleSingleUCB1.Rd | 12 man/spotEnsembleStatsMin.Rd | 2 man/spotEnsembleStatsSd.Rd | 2 man/spotEnsembleSubdesigns.Rd | 2 man/spotEnsembleSummedRank.Rd | 2 man/spotEnsembleSummedRankWeighted.Rd | 2 man/spotExiPsi.Rd | 2 man/spotFeedback.Rd | 4 man/spotForceFactorDesign.Rd | 8 man/spotForceFactorX.Rd | 8 man/spotFuncStartBranin.Rd | 2 man/spotFuncStartDisBranin.Rd | 2 man/spotFuncStartMexicanHat.Rd | 2 man/spotFuncStartRastrigin.Rd | 2 man/spotFuncStartRosenbrock.Rd | 2 man/spotFuncStartSixHump.Rd | 2 man/spotFuncStartSphere.Rd | 2 man/spotGenerateSequentialDesign.Rd | 10 man/spotGetAllRepeats.Rd | 2 man/spotGetMergedDataMatrixB.Rd | 4 man/spotGetOptions.Rd | 44 +- man/spotGetRawDataMatrixB.Rd | 4 man/spotGetRawResData.Rd | 4 man/spotGetRepeats.Rd | 2 man/spotGlgCore.Rd | 2 man/spotGlgCreate.Rd | 11 man/spotGlgCreateN.Rd | 4 man/spotGlgCreateRot.Rd | 4 man/spotGlgCreateRotSearched.Rd | 2 man/spotGlgEval.Rd | 11 man/spotGlgEvalN.Rd | 4 man/spotGlgEvalRot.Rd | 4 man/spotGlgInit.Rd | 11 man/spotGlgInitN.Rd | 4 man/spotGui.Rd | 2 man/spotHelpBslash.Rd | 2 man/spotHlpF.norm.Rd | 2 man/spotHlpF.norminv.Rd | 2 man/spotInfillExpImp.Rd | 2 man/spotInfillHyperVolume.Rd | 2 man/spotInfillLcbHyperVolume.Rd | 2 man/spotInfillLcbMulti.Rd | 2 man/spotInfillLcbSingle.Rd | 2 man/spotInfillProbImp.Rd | 2 man/spotInfillSD.Rd | 2 man/spotInfillSExI2d.Rd | 2 man/spotInitializePredictor.Rd | 8 man/spotInstAndLoadPackages.Rd | 10 man/spotInvChisq.Rd | 2 man/spotMcoCrowdTournament.Rd | 4 man/spotMcoSelectionHypervol.Rd | 8 man/spotMcoSort.Rd | 8 man/spotMcoTournament.Rd | 4 man/spotMetaFlattenFbsRow.Rd | 2 man/spotModel.func.Rd | 11 man/spotModel.predict.Rd | 11 man/spotModel.train.Rd | 11 man/spotModelDescentLm.Rd | 10 man/spotModelOptim.Rd | 23 - man/spotModelParetoOptim.Rd | 13 man/spotNormDesign.Rd | 4 man/spotNormalizeMatrix.Rd | 2 man/spotNormalizeMatrix2.Rd | 4 man/spotOcba.Rd | 2 man/spotOptim.Rd | 6 man/spotOptimEs.Rd | 8 man/spotOptimInterface.Rd | 2 man/spotOptimLHS.Rd | 12 man/spotOptimizationInterface.Rd | 18 - man/spotOptimizationInterfaceMco.Rd | 8 man/spotParetoOptMulti.Rd | 8 man/spotPenalizeMissingValues.Rd | 2 man/spotPlotBst.Rd | 6 man/spotPredictCoForrester.Rd | 12 man/spotPredictDace.Rd | 18 - man/spotPredictDice.Rd | 12 man/spotPredictEarth.Rd | 12 man/spotPredictEsvm.Rd | 12 man/spotPredictForrester.Rd | 12 man/spotPredictGausspr.Rd | 12 man/spotPredictKrig.Rd | 12 man/spotPredictKsvm.Rd | 12 man/spotPredictLm.Rd | 14 man/spotPredictLmFactor.Rd | 12 man/spotPredictMCO.Rd | 12 man/spotPredictMLP.Rd | 12 man/spotPredictMlegp.Rd | 16 - man/spotPredictNeuralnet.Rd | 12 man/spotPredictOptMulti.Rd | 8 man/spotPredictQrnn.Rd | 12 man/spotPredictRandomForest.Rd | 25 - man/spotPredictRandomForestMlegp.Rd | 18 - man/spotPredictTest.Rd | 12 man/spotPredictTgp.Rd | 12 man/spotPredictTree.Rd | 18 - man/spotPrepare.Rd | 4 man/spotPrepareData.Rd | 18 - man/spotPrepareDataAsMatrixC.Rd | 4 man/spotPrepareResult.Rd | 2 man/spotPrint.Rd | 4 man/spotROI.Rd | 2 man/spotReadBstFile.Rd | 10 man/spotReadRoi.Rd | 2 man/spotRepairMissingValues.Rd | 2 man/spotRepairMissingValuesCoKriging.Rd | 2 man/spotRepeats.Rd | 2 man/spotRepeatsOcba.Rd | 2 man/spotReport3d.Rd | 12 man/spotReport3dMulti.Rd | 10 man/spotReportContour.Rd | 12 man/spotReportContourMulti.Rd | 8 man/spotReportDefault.Rd | 2 man/spotReportEarth.Rd | 2 man/spotReportMAMP.Rd | 2 man/spotReportMetaDefault.Rd | 4 man/spotReportSAMP.Rd | 2 man/spotReportSens.Rd | 6 man/spotReportSensY.Rd | 2 man/spotReverseNormalizeMatrix.Rd | 2 man/spotRgpTargetFunction.Rd | 4 man/spotSExI2d.Rd | 5 man/spotSelectionCriteria.Rd | 2 man/spotSeqDesignIncreaseMultTwo.Rd | 2 man/spotSeqDesignIncreasePlusOne.Rd | 2 man/spotSmsEmoa.Rd | 2 man/spotSmsEmoaKriging.Rd | 2 man/spotStepAutoOpt.Rd | 4 man/spotStepInitial.Rd | 10 man/spotStepMetaOpt.Rd | 4 man/spotStepReport.Rd | 4 man/spotStepRunAlg.Rd | 12 man/spotStepSequential.Rd | 2 man/spotSurf3d.Rd | 3 man/spotSurfContour.Rd | 3 man/spotVersion.Rd | 4 man/spotWriteAroi.Rd | 7 man/spotWriteBest.Rd | 6 man/spotWriteDes.Rd | 4 man/spotWriteLines.Rd | 4 man/spotWriteRes.Rd | 2 man/spotWriteRoiFileForRepeats.Rd | 2 247 files changed, 1086 insertions(+), 995 deletions(-)
Title: Spatial Position Models
Description: Computes spatial position models: Stewart potentials, Reilly
catchment areas, Huff catchment areas.
Author: Timothée Giraud [cre, aut],
Hadrien Commenges [aut],
Joël Boulier [ctb]
Maintainer: Timothée Giraud <timothee.giraud@ums-riate.fr>
Diff between SpatialPosition versions 1.1 dated 2016-03-18 and 1.1.1 dated 2016-06-13
DESCRIPTION | 12 +++--- MD5 | 60 +++++++++++++++++----------------- NAMESPACE | 1 NEWS | 10 +++++ R/contourStewart.R | 5 +- R/gridandmat.R | 25 ++++++++------ R/huff.R | 60 +++++++++++++++++----------------- R/quickStewart.R | 9 ++--- R/rasterToContourPoly.R | 74 ++++++++++++++++++++++++++++++++++-------- R/reilly.R | 58 +++++++++++++++++--------------- R/stewart.R | 67 ++++++++++++++++++-------------------- build/vignette.rds |binary inst/doc/SpatialPosition.R | 6 +-- inst/doc/SpatialPosition.Rmd | 6 +-- inst/doc/SpatialPosition.html | 23 ++++++------- inst/doc/StewartExample.html | 19 +++++----- man/CreateDistMatrix.Rd | 14 +++---- man/CreateGrid.Rd | 2 - man/contourStewart.Rd | 5 +- man/huff.Rd | 32 +++++++++--------- man/plotHuff.Rd | 14 ++++--- man/plotReilly.Rd | 11 +++--- man/plotStewart.Rd | 14 +++++-- man/quickStewart.Rd | 9 ++--- man/rasterHuff.Rd | 8 ++-- man/rasterReilly.Rd | 8 ++-- man/rasterStewart.Rd | 11 +++--- man/rasterToContourPoly.Rd | 5 +- man/reilly.Rd | 36 +++++++++----------- man/stewart.Rd | 32 +++++++----------- vignettes/SpatialPosition.Rmd | 6 +-- 31 files changed, 354 insertions(+), 288 deletions(-)
More information about SpatialPosition at CRAN
Permanent link
Title: A Package for Sparse VAR/VECM Estimation
Description: A wrapper for sparse VAR/VECM time series models estimation
using penalties like ENET, SCAD and MCP.
Author: Simone Vazzoler [aut, cre],
Lorenzo Frattarolo [aut],
Monica Billio [aut]
Maintainer: Simone Vazzoler <svazzole@gmail.com>
Diff between sparsevar versions 0.0.3 dated 2016-05-04 and 0.0.5 dated 2016-06-13
sparsevar-0.0.3/sparsevar/man/svar.Rd |only sparsevar-0.0.5/sparsevar/DESCRIPTION | 18 - sparsevar-0.0.5/sparsevar/MD5 | 43 ++-- sparsevar-0.0.5/sparsevar/NEWS.md |only sparsevar-0.0.5/sparsevar/R/createSparseMatrix.R | 19 + sparsevar-0.0.5/sparsevar/R/estimateVAR.R | 103 ++++++++-- sparsevar-0.0.5/sparsevar/R/estimateVECM.R | 1 sparsevar-0.0.5/sparsevar/R/simulateVAR.R | 6 sparsevar-0.0.5/sparsevar/R/sparsevar.R | 6 sparsevar-0.0.5/sparsevar/README.md | 52 ++++- sparsevar-0.0.5/sparsevar/build/vignette.rds |binary sparsevar-0.0.5/sparsevar/inst/doc/sparsevar.R | 2 sparsevar-0.0.5/sparsevar/inst/doc/sparsevar.Rmd | 25 +- sparsevar-0.0.5/sparsevar/inst/doc/sparsevar.pdf |binary sparsevar-0.0.5/sparsevar/man/createSparseMatrix.Rd | 5 sparsevar-0.0.5/sparsevar/man/estimateVAR.Rd | 30 ++ sparsevar-0.0.5/sparsevar/man/sparsevar.Rd |only sparsevar-0.0.5/sparsevar/vignettes/sparsevar.Rmd | 25 +- sparsevar-0.0.5/sparsevar/vignettes/sparsevar_cache/latex/unnamed-chunk-4_f7d305e79d84d32f93ae57234afe0dc3.RData |binary sparsevar-0.0.5/sparsevar/vignettes/sparsevar_cache/latex/unnamed-chunk-4_f7d305e79d84d32f93ae57234afe0dc3.rdb |binary sparsevar-0.0.5/sparsevar/vignettes/sparsevar_cache/latex/unnamed-chunk-4_f7d305e79d84d32f93ae57234afe0dc3.rdx |binary sparsevar-0.0.5/sparsevar/vignettes/sparsevar_cache/latex/unnamed-chunk-5_c90b120099ce22671265f5d2ede22219.RData |binary sparsevar-0.0.5/sparsevar/vignettes/sparsevar_cache/latex/unnamed-chunk-5_c90b120099ce22671265f5d2ede22219.rdb |binary sparsevar-0.0.5/sparsevar/vignettes/sparsevar_cache/latex/unnamed-chunk-5_c90b120099ce22671265f5d2ede22219.rdx |binary 24 files changed, 245 insertions(+), 90 deletions(-)
Title: SPecies Association Analysis
Description: Miscellaneous functions for analysing species association
and niche overlap.
Author: Jinlong Zhang [aut, cre]
Maintainer: Jinlong Zhang <jinlongzhang01@gmail.com>
Diff between spaa versions 0.2.1 dated 2013-08-23 and 0.2.2 dated 2016-06-13
DESCRIPTION | 13 ++++--- MD5 | 25 +++++++-------- NAMESPACE | 3 + R/add.col.R | 34 ++++++++++---------- R/niche.overlap.R | 72 ++++++++++++++++++++++---------------------- R/niche.overlap.boot.R | 4 +- R/niche.overlap.boot.pair.R | 8 ++-- R/niche.overlap.pair.R | 12 +++---- R/niche.width.R | 44 +++++++++++++------------- R/plotlowertri.R | 32 +++++++++---------- R/plotnetwork.R | 72 ++++++++++++++++++++++---------------------- R/sp.pair.R | 26 +++++++-------- R/sub.sp.matrix.R | 14 ++++---- README.md |only 14 files changed, 183 insertions(+), 176 deletions(-)
Title: Functions for Soil Texture Plot, Classification and
Transformation
Description: "The Soil Texture Wizard" is a set of R functions designed to produce texture triangles (also called texture plots, texture diagrams, texture ternary plots), classify and transform soil textures data. These functions virtually allows to plot any soil texture triangle (classification) into any triangle geometry (isosceles, right-angled triangles, etc.). This set of function is expected to be useful to people using soil textures data from different soil texture classification or different particle size systems. Many (> 15) texture triangles from all around the world are predefined in the package. A simple text based graphical user interface is provided: soiltexture_gui().
Author: Julien Moeys [aut, cre], Wei Shangguan [ctb], Rainer Petzold [ctb], Budiman Minasny [ctb], Bogdan Rosca [ctb], Nic Jelinski [ctb], Wiktor Zelazny [ctb], Rodolfo Marcondes Silva Souza [ctb], Jose Lucas Safanelli [ctb], Alexandre ten Caten [ctb]
Maintainer: Julien Moeys <jules_m78-soiltexture@yahoo.fr>
Diff between soiltexture versions 1.3.3 dated 2015-05-26 and 1.4.1 dated 2016-06-13
DESCRIPTION | 12 +++--- MD5 | 68 +++++++++++++++++++------------------- NAMESPACE | 36 +++++++++++++++----- NEWS | 6 +++ R/onAttach.R | 2 - R/soiltexture_text_gui.R | 4 +- build/vignette.rds |binary inst/SVN_VERSION | 2 - inst/doc/soiltexture_vignette.pdf |binary man/TT.axis.arrows.Rd | 9 ++--- man/TT.baseplot.Rd | 11 +++--- man/TT.classes.Rd | 9 ++--- man/TT.contour.Rd | 16 +++++--- man/TT.css2xy.Rd | 5 +- man/TT.data.test.Rd | 4 +- man/TT.data.test.X.Rd | 4 +- man/TT.edges.Rd | 5 +- man/TT.grid.Rd | 7 ++- man/TT.image.Rd | 11 +++--- man/TT.iwd.Rd | 7 ++- man/TT.kde2d.Rd | 7 ++- man/TT.lines.Rd | 9 ++--- man/TT.locator.Rd | 6 +-- man/TT.mahalanobis.Rd | 7 ++- man/TT.plot.Rd | 24 +++++++------ man/TT.points.Rd | 16 +++++--- man/TT.points.in.classes.Rd | 3 + man/TT.switch.Rd | 5 +- man/TT.text.Rd | 14 ++++--- man/TT.text.transf.Rd | 7 ++- man/TT.text.transf.X.Rd | 5 +- man/TT.ticks.Rd | 6 +-- man/TT.ticks.lab.Rd | 6 +-- man/TT.vertices.plot.Rd | 7 ++- man/TT.xy2css.Rd | 5 +- 35 files changed, 198 insertions(+), 147 deletions(-)
Title: SIMulated Structural Equation Modeling
Description: Provides an easy framework for Monte Carlo simulation in structural equation modeling, which can be used for various purposes, such as such as model fit evaluation, power analysis, or missing data handling and planning.
Author: Sunthud Pornprasertmanit [aut, cre],
Patrick Miller [aut],
Alexander Schoemann [aut],
Corbin Quick [ctb],
Terry Jorgensen [ctb]
Maintainer: Sunthud Pornprasertmanit <psunthud@gmail.com>
Diff between simsem versions 0.5-12 dated 2016-02-29 and 0.5-13 dated 2016-06-13
DESCRIPTION | 8 +++--- MD5 | 14 +++++------ R/generate.R | 6 ++--- R/sim.R | 13 +++++----- R/summarySimResult.R | 61 +++++++++++++++++++++++++++++++++++---------------- R/validate.R | 7 ++++- man/setPopulation.Rd | 4 +-- man/sim.Rd | 2 - 8 files changed, 72 insertions(+), 43 deletions(-)
Title: Structure for Organizing Monte Carlo Simulation Designs
Description: Provides tools to help safely and efficiently organize Monte Carlo simulations in R.
The package controls the structure and back-end of Monte Carlo simulations
by utilizing a general generate-analyse-summarise strategy. The functions provided control
common simulation issues such as re-simulating non-convergent results, support parallel
back-end and MPI distributed computations, save and restore temporary files,
aggregate results across independent nodes, and provide native support for debugging.
Author: Phil Chalmers [aut, cre]
Maintainer: Phil Chalmers <rphilip.chalmers@gmail.com>
Diff between SimDesign versions 0.9 dated 2016-04-27 and 1.0 dated 2016-06-13
DESCRIPTION | 10 - MD5 | 52 ++++---- NAMESPACE | 2 R/Attach.R |only R/SimAnova.R | 4 R/SimClean.R | 8 - R/SimDesign.R | 4 R/SimFunctions.R | 11 - R/aggregate_simulations.R | 54 +++++++- R/analysis.R | 55 ++++---- R/functions.R | 119 ++++++++----------- R/runSimulation.R | 267 ++++++++++++++++++++++++------------------ R/summary_functions.R | 8 + build/vignette.rds |binary man/Analyse.Rd | 20 +-- man/Attach.Rd |only man/BF_sim.Rd | 2 man/BF_sim_alternative.Rd | 2 man/EDR.Rd | 4 man/Generate.Rd | 44 +++---- man/RMSE.Rd | 2 man/SimAnova.Rd | 4 man/SimClean.Rd | 6 man/SimFunctions.Rd | 3 man/Summarise.Rd | 31 +--- man/aggregate_simulations.Rd | 29 +++- man/runSimulation.Rd | 268 ++++++++++++++++++++++--------------------- tests/tests/test-SimDesign.R | 132 +++++++++++++++++---- 28 files changed, 666 insertions(+), 475 deletions(-)
Title: Spatially Explicit Structural Equation Modeling
Description: Structural equation modeling is a powerful statistical approach for the testing of networks of direct and indirect theoretical causal relationships in complex data sets with inter-correlated dependent and independent variables. Here we implement a simple method for spatially explicit structural equation modeling based on the analysis of variance co-variance matrices calculated across a range of lag distances. This method provides readily interpreted plots of the change in path coefficients across scale.
Author: Eric Lamb [aut, cre],
Kerrie Mengersen [aut],
Katherine Stewart [aut],
Udayanga Attanayake [aut],
Steven Siciliano [aut]
Maintainer: Eric Lamb <eric.lamb@usask.ca>
Diff between sesem versions 1.0.1 dated 2014-03-04 and 1.0.2 dated 2016-06-13
sesem-1.0.1/sesem/R/sesem1.0.1.r |only sesem-1.0.2/sesem/DESCRIPTION | 21 ++++-------- sesem-1.0.2/sesem/MD5 | 38 +++++++++++----------- sesem-1.0.2/sesem/NAMESPACE | 13 +++++++ sesem-1.0.2/sesem/R/sesem1.0.2.r |only sesem-1.0.2/sesem/inst/NEWS.Rd | 9 +++-- sesem-1.0.2/sesem/inst/doc/SESEM_examplescripts.r | 13 ++++--- sesem-1.0.2/sesem/man/avg.modindices.Rd | 2 - sesem-1.0.2/sesem/man/bin.results.Rd | 2 - sesem-1.0.2/sesem/man/bin.rsquare.Rd | 2 - sesem-1.0.2/sesem/man/calc.dist.Rd | 2 - sesem-1.0.2/sesem/man/gam.path.Rd | 2 - sesem-1.0.2/sesem/man/make.bin.Rd | 2 - sesem-1.0.2/sesem/man/make.covar.Rd | 2 - sesem-1.0.2/sesem/man/modelsummary.Rd | 2 - sesem-1.0.2/sesem/man/plotbin.Rd | 2 - sesem-1.0.2/sesem/man/plotmodelfit.Rd | 2 - sesem-1.0.2/sesem/man/plotpath.Rd | 2 - sesem-1.0.2/sesem/man/runModels.Rd | 4 +- sesem-1.0.2/sesem/man/sesem-package.Rd | 4 +- sesem-1.0.2/sesem/man/truelove.Rd | 4 +- 21 files changed, 70 insertions(+), 58 deletions(-)
Title: Biological Sequences Retrieval and Analysis
Description: Exploratory data analysis and data visualization
for biological sequence (DNA and protein) data. Includes also
utilities for sequence data management under the ACNUC system.
Author: Delphine Charif [aut], Olivier Clerc [ctb], Carolin Frank [ctb], Jean R. Lobry [aut], Anamaria Necşulea [ctb], Leonor Palmeira [ctb], Simon Penel [cre], Guy Perrière [ctb]
Maintainer: Simon Penel <simon.penel@univ-lyon1.fr>
Diff between seqinr versions 3.1-3 dated 2014-12-17 and 3.1-5 dated 2016-06-13
DESCRIPTION | 29 ++-- MD5 | 263 ++++++++++++++++++++-------------------- NAMESPACE | 78 +++++++++++ R/comp.R | 4 R/extract.breakpoints.R | 4 R/getLength.R | 11 + R/oriloc.R | 4 R/read.fasta.R | 2 R/rearranged.oriloc.R | 4 R/synonymous.R | 2 data/AnoukResult.RData |binary data/ECH.RData |binary data/EXP.RData |binary data/JLO.RData |binary data/SEQINR.UTIL.RData |binary data/aacost.RData |binary data/aaindex.RData |binary data/caitab.RData |binary data/chargaff.RData |binary data/clustal.RData |binary data/dinucl.RData |binary data/ec999.RData |binary data/fasta.RData |binary data/gs500liz.RData |binary data/identifiler.RData |binary data/m16j.RData |binary data/mase.RData |binary data/msf.RData |binary data/pK.RData |binary data/phylip.RData |binary data/prochlo.RData |binary data/revaligntest.RData |binary data/sysdata.rda |binary data/toyaa.RData |binary data/toycodon.RData |binary data/waterabs.RData |binary inst/sequences/ct.fasta.gz |only inst/sequences/ct.predict |only inst/sequences/smallAA.fasta.gz |only man/AAstat.Rd | 2 man/AnoukResult.Rd | 2 man/EXP.Rd | 2 man/GC.Rd | 2 man/SeqAcnucWeb.Rd | 2 man/SeqFastaAA.Rd | 2 man/SeqFrag.Rd | 2 man/a.Rd | 2 man/aaa.Rd | 2 man/acnucopen.Rd | 2 man/alllistranks.Rd | 6 man/amb.Rd | 2 man/as.alignment.Rd | 2 man/autosocket.Rd | 2 man/bma.Rd | 2 man/c2s.Rd | 2 man/chargaff.Rd | 2 man/choosebank.Rd | 6 man/comp.Rd | 2 man/computePI.Rd | 2 man/consensus.Rd | 2 man/count.Rd | 2 man/countfreelists.Rd | 2 man/countsubseqs.Rd | 2 man/crelistfromclientdata.Rd | 8 - man/dia.bactgensize.Rd | 8 - man/dist.alignment.Rd | 2 man/dotchart.uco.Rd | 4 man/draw.oriloc.Rd | 2 man/draw.rearranged.oriloc.Rd | 8 - man/draw.recstat.Rd | 8 - man/extract.breakpoints.Rd | 9 - man/extractseqs.Rd | 4 man/fasta.Rd | 2 man/fastacc.Rd | 4 man/gb2fasta.Rd | 2 man/gbk2g2.Rd | 2 man/gbk2g2.euk.Rd | 2 man/get.db.growth.Rd | 2 man/get.ncbi.Rd | 2 man/getAnnot.Rd | 2 man/getFrag.Rd | 2 man/getKeyword.Rd | 2 man/getLength.Rd | 2 man/getLocation.Rd | 2 man/getName.Rd | 2 man/getSequence.Rd | 2 man/getTrans.Rd | 2 man/getType.Rd | 2 man/getlistrank.Rd | 2 man/getliststate.Rd | 4 man/gfrag.Rd | 2 man/ghelp.Rd | 2 man/isenum.Rd | 2 man/kaks.Rd | 2 man/knowndbs.Rd | 4 man/lseqinr.Rd | 4 man/modifylist.Rd | 2 man/move.Rd | 2 man/n2s.Rd | 2 man/oriloc.Rd | 16 +- man/pK.Rd | 4 man/permutation.Rd | 2 man/plot.SeqAcnucWeb.Rd | 4 man/pmw.Rd | 2 man/prepgatannots.Rd | 2 man/prettyseq.Rd | 2 man/query.Rd | 6 man/read.alignment.Rd | 2 man/read.fasta.Rd | 17 +- man/readfirstrec.Rd | 2 man/readsmj.Rd | 2 man/rearranged.oriloc.Rd | 19 +- man/recstat.Rd | 8 - man/residuecount.Rd | 4 man/reverse.align.Rd | 2 man/s2c.Rd | 2 man/savelist.Rd | 4 man/seqinr-package.Rd | 8 - man/setlistname.Rd | 4 man/splitseq.Rd | 2 man/swap.Rd | 2 man/syncodons.Rd | 2 man/synsequence.Rd | 2 man/tablecode.Rd | 2 man/test.co.recstat.Rd | 8 - man/test.li.recstat.Rd | 8 - man/translate.Rd | 2 man/uco.Rd | 10 - man/ucoweight.Rd | 2 man/where.is.this.acc.Rd | 2 man/words.Rd | 2 man/words.pos.Rd | 2 man/write.fasta.Rd | 2 man/zscore.Rd | 23 +-- 134 files changed, 418 insertions(+), 337 deletions(-)
Title: Useful Tools for Structural Equation Modeling
Description: Provides useful tools for structural equation modeling packages.
Author: Sunthud Pornprasertmanit [aut, cre],
Patrick Miller [aut],
Alexander Schoemann [aut],
Yves Rosseel [aut],
Corbin Quick [ctb],
Mauricio Garnier-Villarreal [ctb],
James Selig [ctb],
Aaron Boulton [ctb],
Kristopher Preacher [ctb],
Donna Coffman [ctb],
Mijke Rhemtulla [ctb],
Alexander Robitzsch [ctb],
Craig Enders [ctb],
Ruber Arslan [ctb],
Bell Clinton [ctb],
Pavel Panko [ctb],
Edgar Merkle [ctb],
Terry Jorgensen [ctb],
Steven Chesnut [ctb],
Jarrett Byrnes [ctb],
Jason Rights [ctb],
Ylenio Longo [ctb]
Maintainer: Sunthud Pornprasertmanit <psunthud@gmail.com>
Diff between semTools versions 0.4-11 dated 2016-03-01 and 0.4-12 dated 2016-06-13
DESCRIPTION | 12 MD5 | 58 +- NAMESPACE | 9 R/NET.R | 42 +- R/auxiliary.R | 349 +++++++++++------ R/dataDiagnosis.R | 16 R/efa.R | 9 R/htmt.R |only R/imposeStart.R | 4 R/longInvariance.R | 18 R/measurementInvariance.R | 14 R/measurementInvarianceCat.R | 79 +--- R/missingBootstrap.R | 8 R/partialInvariance.R | 4 R/partialInvarianceCat.R | 3 R/permuteMeasEq.R | 845 ++++++++++++++++++++++++++++++++----------- R/poolMAlloc.R |only R/reliability.R | 21 - R/runMI.R | 175 +++++--- man/PAVranking.Rd | 4 man/bsBootMiss.Rd | 2 man/htmt.Rd |only man/lavaanStar-class.Rd | 4 man/mardiaKurtosis.Rd | 5 man/mardiaSkew.Rd | 5 man/measurementInvariance.Rd | 6 man/parcelAllocation.Rd | 3 man/permuteMeasEq-class.Rd | 22 - man/permuteMeasEq.Rd | 208 +++++++++- man/poolMAlloc.Rd |only man/reliability.Rd | 8 man/runMI.Rd | 13 32 files changed, 1354 insertions(+), 592 deletions(-)
Title: Tools for Post-Selection Inference
Description: New tools for post-selection inference, for use
with forward stepwise regression, least angle regression, the
lasso, and the many means problem. The lasso function implements Gaussian, logistic and Cox survival models.
Author: Ryan Tibshirani, Rob Tibshirani, Jonathan Taylor,
Joshua Loftus, Stephen Reid
Maintainer: Rob Tibshirani <tibs@stanford.edu>
Diff between selectiveInference versions 1.1.3 dated 2016-02-09 and 1.2.0 dated 2016-06-13
DESCRIPTION | 12 +++--- MD5 | 19 ++++++---- NAMESPACE | 9 ++++- R/funs.fixed.R | 33 ++++++++++++++++-- R/funs.fixedCox.R |only R/funs.fixedLogit.R |only R/funs.inf.R | 53 ++++++++++++++++++++++++++++++ R/funs.quadratic.R | 3 + man/fixedLassoInf.Rd | 80 ++++++++++++++++++++++++++++++++++++++++++---- man/fsInf.Rd | 2 - man/selectiveInference.Rd | 60 ++++++++++++++++++++++++++++++++-- src/truncnorm.c |only 12 files changed, 240 insertions(+), 31 deletions(-)
More information about selectiveInference at CRAN
Permanent link
Title: A Tool Set for Analyzing Political Behavior Data
Description: Provide functions for analyzing political behavior data, including
measures of political fragmentation, seat apportionment, and options for small
data visualization.
Author: Daniel Marcelino [aut, cre]
Maintainer: Daniel Marcelino <dmarcelino@live.com>
Diff between SciencesPo versions 1.3.9 dated 2016-01-22 and 1.4.0 dated 2016-06-13
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Title: Sampling Variance Estimation
Description: Functions to calculate some point estimators and estimating their variance under unequal probability sampling without replacement. Single and two stage sampling designs are considered. Some approximations for the second order inclusion probabilities are also available (sample and population based). A variety of Jackknife variance estimators are implemented.
Author: Emilio Lopez Escobar [aut, cre, cph] <emilio@numerika.mx>,
Ernesto Barrios Zamudio [ctb] <ebarrios@itam.mx>,
Juan Francisco Munoz Rosas [ctb] <jfmunoz@go.ugr.es>
Maintainer: Emilio Lopez Escobar <emilio@numerika.mx>
Diff between samplingVarEst versions 1.0-1 dated 2016-01-03 and 1.0-2 dated 2016-06-13
ChangeLog | 8 ++ DESCRIPTION | 10 +- MD5 | 130 +++++++++++++++++++------------------- R/Pk_PropNorm_U.R | 4 - README | 2 man/Est_Corr_Hajek.rd | 6 - man/Est_Corr_NHT.rd | 6 - man/Est_EmpDistFunc_Hajek.rd | 4 - man/Est_EmpDistFunc_NHT.rd | 4 - man/Est_Mean_Hajek.rd | 4 - man/Est_Mean_NHT.rd | 4 - man/Est_Ratio.rd | 6 - man/Est_RegCoI_Hajek.rd | 6 - man/Est_RegCo_Hajek.rd | 6 - man/Est_Total_Hajek.rd | 4 - man/Est_Total_NHT.rd | 4 - man/Pk_PropNorm_U.rd | 2 man/Pkl_Hajek_U.rd | 2 man/Pkl_Hajek_s.rd | 2 man/VE_EB_HT_Mean_Hajek.rd | 8 +- man/VE_EB_HT_Ratio.rd | 10 +- man/VE_EB_HT_Total_Hajek.rd | 8 +- man/VE_EB_SYG_Mean_Hajek.rd | 8 +- man/VE_EB_SYG_Ratio.rd | 10 +- man/VE_EB_SYG_Total_Hajek.rd | 8 +- man/VE_HT_Mean_NHT.rd | 6 - man/VE_HT_Total_NHT.rd | 6 - man/VE_Hajek_Mean_NHT.rd | 4 - man/VE_Hajek_Total_NHT.rd | 4 - man/VE_Jk_B_Corr_Hajek.rd | 6 - man/VE_Jk_B_Mean_Hajek.rd | 4 - man/VE_Jk_B_Ratio.rd | 6 - man/VE_Jk_B_RegCoI_Hajek.rd | 6 - man/VE_Jk_B_RegCo_Hajek.rd | 6 - man/VE_Jk_B_Total_Hajek.rd | 4 - man/VE_Jk_CBS_HT_Corr_Hajek.rd | 8 +- man/VE_Jk_CBS_HT_Mean_Hajek.rd | 6 - man/VE_Jk_CBS_HT_Ratio.rd | 8 +- man/VE_Jk_CBS_HT_RegCoI_Hajek.rd | 8 +- man/VE_Jk_CBS_HT_RegCo_Hajek.rd | 8 +- man/VE_Jk_CBS_HT_Total_Hajek.rd | 6 - man/VE_Jk_CBS_SYG_Corr_Hajek.rd | 8 +- man/VE_Jk_CBS_SYG_Mean_Hajek.rd | 6 - man/VE_Jk_CBS_SYG_Ratio.rd | 8 +- man/VE_Jk_CBS_SYG_RegCoI_Hajek.rd | 8 +- man/VE_Jk_CBS_SYG_RegCo_Hajek.rd | 8 +- man/VE_Jk_CBS_SYG_Total_Hajek.rd | 6 - man/VE_Jk_EB_SW2_Corr_Hajek.rd | 8 +- man/VE_Jk_EB_SW2_Mean_Hajek.rd | 6 - man/VE_Jk_EB_SW2_Ratio.rd | 8 +- man/VE_Jk_EB_SW2_RegCoI_Hajek.rd | 8 +- man/VE_Jk_EB_SW2_RegCo_Hajek.rd | 8 +- man/VE_Jk_EB_SW2_Total_Hajek.rd | 6 - man/VE_Jk_Tukey_Corr_Hajek.rd | 6 - man/VE_Jk_Tukey_Corr_NHT.rd | 6 - man/VE_Jk_Tukey_Mean_Hajek.rd | 4 - man/VE_Jk_Tukey_Ratio.rd | 6 - man/VE_Jk_Tukey_RegCoI_Hajek.rd | 6 - man/VE_Jk_Tukey_RegCo_Hajek.rd | 6 - man/VE_Jk_Tukey_Total_Hajek.rd | 4 - man/VE_Lin_HT_Ratio.rd | 8 +- man/VE_Lin_SYG_Ratio.rd | 8 +- man/VE_SYG_Mean_NHT.rd | 6 - man/VE_SYG_Total_NHT.rd | 6 - man/oaxaca.rd | 4 - man/samplingVarEst-package.rd | 4 - 66 files changed, 267 insertions(+), 257 deletions(-)
More information about samplingVarEst at CRAN
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Title: R/Weka Interface
Description: An R interface to Weka (Version 3.9.0).
Weka is a collection of machine learning algorithms for data mining
tasks written in Java, containing tools for data pre-processing,
classification, regression, clustering, association rules, and
visualization. Package 'RWeka' contains the interface code, the
Weka jar is in a separate package 'RWekajars'. For more information
on Weka see <http://www.cs.waikato.ac.nz/ml/weka/>.
Author: Kurt Hornik [aut, cre],
Christian Buchta [ctb],
Torsten Hothorn [ctb],
Alexandros Karatzoglou [ctb],
David Meyer [ctb],
Achim Zeileis [ctb]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between RWeka versions 0.4-28 dated 2016-06-04 and 0.4-29 dated 2016-06-13
CHANGELOG | 5 + DESCRIPTION | 6 +- MD5 | 14 ++-- R/wpm.R | 153 +++++++++++++++++++++++++++------------------------- inst/doc/RWeka.Rnw | 2 inst/doc/RWeka.pdf |binary man/WPM.Rd | 17 +++-- vignettes/RWeka.Rnw | 2 8 files changed, 109 insertions(+), 90 deletions(-)
Title: Raster Time Series Analysis
Description: This framework aims to provide classes and methods for manipulating and processing of raster time series data (e.g. a time series of satellite images).
Author: Babak Naimi
Maintainer: Babak Naimi <naimi.b@gmail.com>
Diff between rts versions 1.0-10 dated 2015-08-03 and 1.0-11 dated 2016-06-13
DESCRIPTION | 12 ++++++------ MD5 | 4 ++-- R/ModisDownload.R | 4 ++-- 3 files changed, 10 insertions(+), 10 deletions(-)
Title: STK++ Core Library Integration to R using Rcpp
Description: STK++ (http://www.stkpp.org) is a collection of
C++ classes for statistics, clustering, linear algebra, arrays (with an
Eigen-like API), regression, dimension reduction, etc. The integration of
the library to R is using Rcpp.
The rtkore package includes the header files from the STK++ core library.
All files contain only templated classes and/or inlined functions.
STK++ is licensed under the GNU LGPL version 2 or later. rtkore
(the stkpp integration into R) is licensed under the
GNU GPL version 2 or later. See file LICENSE.note for details.
Author: Serge Iovleff [aut, cre],
Parmeet Bhatia [ctb]
Maintainer: Serge Iovleff <serge.iovleff@stkpp.org>
Diff between rtkore versions 1.0.1 dated 2015-11-24 and 1.1.0 dated 2016-06-13
rtkore-1.0.1/rtkore/.Rinstignore |only rtkore-1.1.0/rtkore/DESCRIPTION | 18 rtkore-1.1.0/rtkore/LICENSE.note | 2 rtkore-1.1.0/rtkore/MD5 | 384 +++++----- rtkore-1.1.0/rtkore/build/vignette.rds |binary rtkore-1.1.0/rtkore/inst/NEWS.Rd | 10 rtkore-1.1.0/rtkore/inst/doc/rtkpp-introduction.pdf |binary rtkore-1.1.0/rtkore/inst/include/Algebra.h | 2 rtkore-1.1.0/rtkore/inst/include/Analysis.h | 2 rtkore-1.1.0/rtkore/inst/include/Arrays.h | 2 rtkore-1.1.0/rtkore/inst/include/DManager.h | 7 rtkore-1.1.0/rtkore/inst/include/STKernel.h | 2 rtkore-1.1.0/rtkore/inst/include/STKpp.h | 6 rtkore-1.1.0/rtkore/inst/include/STatistiK.h | 4 rtkore-1.1.0/rtkore/inst/include/Sdk.h | 2 rtkore-1.1.0/rtkore/inst/include/StatModels.h | 6 rtkore-1.1.0/rtkore/inst/projects/Algebra/include/STK_Algebra_Util.h | 2 rtkore-1.1.0/rtkore/inst/projects/Algebra/include/STK_Givens.h | 2 rtkore-1.1.0/rtkore/inst/projects/Algebra/include/STK_GramSchmidt.h | 2 rtkore-1.1.0/rtkore/inst/projects/Algebra/include/STK_Householder.h | 2 rtkore-1.1.0/rtkore/inst/projects/Algebra/include/STK_ILeastSquare.h | 2 rtkore-1.1.0/rtkore/inst/projects/Algebra/include/STK_IQr.h | 2 rtkore-1.1.0/rtkore/inst/projects/Algebra/include/STK_ISvd.h | 2 rtkore-1.1.0/rtkore/inst/projects/Algebra/include/STK_ISymEigen.h | 2 rtkore-1.1.0/rtkore/inst/projects/Algebra/include/STK_MultiLeastSquare.h | 2 rtkore-1.1.0/rtkore/inst/projects/Algebra/include/STK_Qr.h | 2 rtkore-1.1.0/rtkore/inst/projects/Algebra/include/STK_Svd.h | 2 rtkore-1.1.0/rtkore/inst/projects/Algebra/include/STK_SymEigen.h | 2 rtkore-1.1.0/rtkore/inst/projects/Algebra/include/STK_WeightedSvd.h | 2 rtkore-1.1.0/rtkore/inst/projects/Algebra/include/STK_lapack_MultiLeastSquare.h | 2 rtkore-1.1.0/rtkore/inst/projects/Algebra/include/STK_lapack_Qr.h | 2 rtkore-1.1.0/rtkore/inst/projects/Algebra/include/STK_lapack_Svd.h | 2 rtkore-1.1.0/rtkore/inst/projects/Algebra/include/STK_lapack_SymEigen.h | 2 rtkore-1.1.0/rtkore/inst/projects/Algebra/include/STK_lapack_Util.h | 2 rtkore-1.1.0/rtkore/inst/projects/Analysis/include/STK_Algo.h | 2 rtkore-1.1.0/rtkore/inst/projects/Analysis/include/STK_Algo_FindZero.h | 2 rtkore-1.1.0/rtkore/inst/projects/Analysis/include/STK_Const_Math.h | 2 rtkore-1.1.0/rtkore/inst/projects/Analysis/include/STK_Const_Sequences.h | 2 rtkore-1.1.0/rtkore/inst/projects/Analysis/include/STK_Funct_Util.h | 2 rtkore-1.1.0/rtkore/inst/projects/Analysis/include/STK_Funct_betaRatio.h | 2 rtkore-1.1.0/rtkore/inst/projects/Analysis/include/STK_Funct_gamma.h | 2 rtkore-1.1.0/rtkore/inst/projects/Analysis/include/STK_Funct_gammaRatio.h | 2 rtkore-1.1.0/rtkore/inst/projects/Analysis/include/STK_Funct_raw.h | 2 rtkore-1.1.0/rtkore/inst/projects/Analysis/include/STK_IFunction.h | 2 rtkore-1.1.0/rtkore/inst/projects/Analysis/include/STK_ISerie.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_AllocatorBase.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_Array1D.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_Array2D.h | 4 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_Array2DDiagonal.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_Array2DLowerTriangular.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_Array2DNumber.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_Array2DPoint.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_Array2DSquare.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_Array2DUpperTriangular.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_Array2DVector.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_Array2D_Functors.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_ArrayBase.h | 5 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_ArrayBaseApplier.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_ArrayBaseAssign.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_ArrayBaseInitializer.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_Arrays_Util.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_CAllocator.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_CArray.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_CArrayNumber.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_CArrayPoint.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_CArraySquare.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_CArrayVector.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_Const_Arrays.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_Display.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_ExprBase.h | 28 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_ExprBaseDot.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_ExprBaseFunctors.h | 10 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_ExprBaseProduct.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_ExprBaseVisitor.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_IArray1D.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_IArray2D.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_IArray2DBase.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_ICArray.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_ITContainer.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_ITContainer1D.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_ITContainer2D.h | 7 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_Iterators.h |only rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_SparseMatrix.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/STK_Traits.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/operators/STK_BinaryOperators.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/operators/STK_DiagonalOperator.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/operators/STK_DotOperators.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/operators/STK_SlicingOperators.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/operators/STK_TransposeOperator.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/operators/STK_UnaryOperators.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/products/STK_ArrayByArrayProduct.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/products/STK_ArrayByVectorProduct.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/products/STK_ProductDispatcher.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/products/STK_ProductOperators.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/products/STK_ProductRaw.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/visitors/STK_SlicingVisitors.h | 8 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/visitors/STK_VisitorSelector.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/visitors/STK_Visitors.h | 2 rtkore-1.1.0/rtkore/inst/projects/Arrays/include/visitors/STK_VisitorsImpl.h | 2 rtkore-1.1.0/rtkore/inst/projects/DManager/include/STK_CsvToArray.h | 2 rtkore-1.1.0/rtkore/inst/projects/DManager/include/STK_DManager_Util.h | 2 rtkore-1.1.0/rtkore/inst/projects/DManager/include/STK_DataBridge.h | 191 ++++ rtkore-1.1.0/rtkore/inst/projects/DManager/include/STK_DataFrame.h | 2 rtkore-1.1.0/rtkore/inst/projects/DManager/include/STK_DataFrameToArray2D.h | 2 rtkore-1.1.0/rtkore/inst/projects/DManager/include/STK_DataHandler.h | 16 rtkore-1.1.0/rtkore/inst/projects/DManager/include/STK_DataHandlerBase.h | 21 rtkore-1.1.0/rtkore/inst/projects/DManager/include/STK_ExportToCsv.h | 2 rtkore-1.1.0/rtkore/inst/projects/DManager/include/STK_IDataBridge.h | 16 rtkore-1.1.0/rtkore/inst/projects/DManager/include/STK_IDataHandler.h | 4 rtkore-1.1.0/rtkore/inst/projects/DManager/include/STK_IPage.h | 2 rtkore-1.1.0/rtkore/inst/projects/DManager/include/STK_IVariable.h | 2 rtkore-1.1.0/rtkore/inst/projects/DManager/include/STK_ImportFromCsv.h | 2 rtkore-1.1.0/rtkore/inst/projects/DManager/include/STK_Import_Util.h | 2 rtkore-1.1.0/rtkore/inst/projects/DManager/include/STK_List1D.h | 2 rtkore-1.1.0/rtkore/inst/projects/DManager/include/STK_ReadWriteCsv.h | 2 rtkore-1.1.0/rtkore/inst/projects/DManager/include/STK_Variable.h | 2 rtkore-1.1.0/rtkore/inst/projects/Rtkpp/include/STK_RMatrix.h | 15 rtkore-1.1.0/rtkore/inst/projects/Rtkpp/include/STK_RVector.h | 3 rtkore-1.1.0/rtkore/inst/projects/STKernel/include/STK_Arithmetic.h | 2 rtkore-1.1.0/rtkore/inst/projects/STKernel/include/STK_Char.h | 2 rtkore-1.1.0/rtkore/inst/projects/STKernel/include/STK_Chrono.h | 2 rtkore-1.1.0/rtkore/inst/projects/STKernel/include/STK_Constants.h | 2 rtkore-1.1.0/rtkore/inst/projects/STKernel/include/STK_Exceptions.h | 2 rtkore-1.1.0/rtkore/inst/projects/STKernel/include/STK_Functors.h | 194 ++--- rtkore-1.1.0/rtkore/inst/projects/STKernel/include/STK_Integer.h | 2 rtkore-1.1.0/rtkore/inst/projects/STKernel/include/STK_Misc.h | 2 rtkore-1.1.0/rtkore/inst/projects/STKernel/include/STK_Proxy.h | 2 rtkore-1.1.0/rtkore/inst/projects/STKernel/include/STK_Range.h | 2 rtkore-1.1.0/rtkore/inst/projects/STKernel/include/STK_Real.h | 2 rtkore-1.1.0/rtkore/inst/projects/STKernel/include/STK_Stream.h | 2 rtkore-1.1.0/rtkore/inst/projects/STKernel/include/STK_String.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Kernel_Exponential.h | 35 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Kernel_Gaussian.h | 37 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Kernel_Hamming.h |only rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Kernel_IKernelBase.h | 87 +- rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Kernel_Linear.h | 37 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Kernel_Polynomial.h | 38 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Kernel_RationalQuadratic.h | 37 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Kernel_Util.h | 36 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Law_Bernoulli.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Law_Beta.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Law_Binomial.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Law_Categorical.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Law_Cauchy.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Law_ChiSquared.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Law_Exponential.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Law_FisherSnedecor.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Law_Gamma.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Law_Geometric.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Law_HyperGeometric.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Law_ILawBase.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Law_IUnivLaw.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Law_LogNormal.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Law_Logistic.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Law_NegativeBinomial.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Law_Normal.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Law_Poisson.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Law_Student.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Law_Uniform.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Law_UniformDiscrete.h | 16 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Law_Util.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Law_Weibull.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_MultiLaw_IMultiLaw.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_MultiLaw_JointBernoulli.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_MultiLaw_JointCauchy.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_MultiLaw_JointGamma.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_MultiLaw_JointNormal.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_MultiLaw_Normal.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_RandBase.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Stat_Bivariate.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Stat_BivariateRealReal.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Stat_Factor.h |only rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Stat_Functors.h | 230 ++--- rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Stat_Multivariate.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Stat_MultivariateReal.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Stat_Online.h | 23 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Stat_Transform.h | 2 rtkore-1.1.0/rtkore/inst/projects/STatistiK/include/STK_Stat_UnivariateReal.h | 58 + rtkore-1.1.0/rtkore/inst/projects/Sdk/include/STK_IRecursiveTemplate.h | 2 rtkore-1.1.0/rtkore/inst/projects/Sdk/include/STK_IRunner.h | 2 rtkore-1.1.0/rtkore/inst/projects/Sdk/include/STK_Macros.h | 2 rtkore-1.1.0/rtkore/inst/projects/Sdk/include/STK_MetaTemplate.h | 2 rtkore-1.1.0/rtkore/inst/projects/Sdk/include/STK_StaticAssert.h | 4 rtkore-1.1.0/rtkore/inst/projects/StatModels/include/STK_BernoulliModel.h | 2 rtkore-1.1.0/rtkore/inst/projects/StatModels/include/STK_GaussianModel.h | 38 rtkore-1.1.0/rtkore/inst/projects/StatModels/include/STK_IGaussianModel.h | 37 rtkore-1.1.0/rtkore/inst/projects/StatModels/include/STK_IMultiStatModel.h | 192 ++--- rtkore-1.1.0/rtkore/inst/projects/StatModels/include/STK_IStatModel.h | 64 - rtkore-1.1.0/rtkore/inst/projects/StatModels/include/STK_IStatModelBase.h | 22 rtkore-1.1.0/rtkore/inst/projects/StatModels/include/STK_IUnivStatModel.h | 2 rtkore-1.1.0/rtkore/inst/projects/StatModels/include/STK_ModelBernoulli_pj.h |only rtkore-1.1.0/rtkore/inst/projects/StatModels/include/STK_ModelDiagGaussian_muj_sj.h |only rtkore-1.1.0/rtkore/inst/projects/StatModels/include/STK_ModelGamma_aj_bj.h |only rtkore-1.1.0/rtkore/inst/projects/StatModels/include/STK_Model_Util.h | 42 - rtkore-1.1.0/rtkore/inst/projects/StatModels/include/STK_PenCriterion.h | 2 rtkore-1.1.0/rtkore/man/rtkore-package.Rd | 2 rtkore-1.1.0/rtkore/man/rtkoreFlags.Rd | 2 197 files changed, 1270 insertions(+), 1018 deletions(-)
Title: Solvers for Large Scale Eigenvalue and SVD Problems
Description: R interface to the 'Spectra' library
<http://yixuan.cos.name/spectra/> for large scale eigenvalue and SVD
problems. It is typically used to compute a few
eigenvalues/vectors of an n by n matrix, e.g., the k largest eigenvalues,
which is usually more efficient than eigen() if k << n. This package
provides the 'eigs()' function which does the similar job as in 'Matlab',
'Octave', 'Python SciPy' and 'Julia'. It also provides the 'svds()' function
to calculate the largest k singular values and corresponding
singular vectors of a real matrix. Matrices can be given in either dense
or sparse form.
Author: Yixuan Qiu [aut, cre],
Jiali Mei [aut] (Function interface of matrix operation),
Gael Guennebaud [ctb] (Eigenvalue solvers from the 'Eigen' library),
Jitse Niesen [ctb] (Eigenvalue solvers from the 'Eigen' library)
Maintainer: Yixuan Qiu <yixuan.qiu@cos.name>
Diff between RSpectra versions 0.11-0 dated 2016-02-29 and 0.12-0 dated 2016-06-13
DESCRIPTION | 10 +- MD5 | 78 +++++++++++----------- NAMESPACE | 1 R/00_eigs.R | 76 +++++++++------------ R/10_eigs_real_gen.R | 34 ++++----- R/20_eigs_real_sym.R | 32 ++++----- R/30_svds.R | 81 +++++++++++++++++++---- R/40_svds_real_gen.R | 32 +++++---- R/50_svds_real_sym.R | 22 ++---- README.md | 13 +++ build |only inst/NEWS.Rd | 15 +++- inst/doc |only inst/include/RMatOp/ComplexShift.h | 6 - inst/include/RMatOp/ComplexShift_matrix.h | 10 +- inst/include/RMatOp/ComplexShift_sparseMatrix.h | 12 +-- inst/include/RMatOp/MatProd.h | 8 +- inst/include/RMatOp/MatProd_function.h | 43 +++++++----- inst/include/RMatOp/MatProd_matrix.h | 22 +++--- inst/include/RMatOp/MatProd_sparseMatrix.h | 10 +- inst/include/RMatOp/MatProd_sym_matrix.h | 18 ++--- inst/include/RMatOp/MatProd_sym_sparseMatrix.h | 14 +-- inst/include/RMatOp/RealShift.h | 6 - inst/include/RMatOp/RealShift_matrix.h | 10 +- inst/include/RMatOp/RealShift_sparseMatrix.h | 10 +- inst/include/RMatOp/RealShift_sym_matrix.h | 10 +- inst/include/RMatOp/RealShift_sym_sparseMatrix.h | 14 +-- inst/include/RMatOp/SVDOp.h | 32 ++++----- inst/include/Spectra/SymEigsSolver.h | 4 - inst/include/SpectraC.h | 60 ++++++++--------- man/eigs.Rd | 20 ++--- man/svds.Rd | 64 +++++++++++++++++- src/eigs_gen.cpp | 18 ++--- src/eigs_sym.cpp | 16 ++-- src/matops.cpp | 15 ++-- src/matops.h | 8 +- src/matops_c.h | 20 ++--- src/register_routines.c | 3 src/svds.cpp | 11 +-- vignettes |only 40 files changed, 503 insertions(+), 355 deletions(-)
Title: Analyse Sentiment of English Sentences
Description: Analyses sentiment of a sentence in English and assigns score to it. It can classify sentences to the following categories of sentiments:- Positive, Negative, very Positive, very negative,
Neutral or Sarcasm. For a vector of sentences, it counts the number of sentences in each
category of sentiment.In calculating the score, negation and various degrees
of adjectives are taken into consideration. It deals only with English sentences.
Author: Subhasree Bose <subhasree10.7@gmail.com> with contributons from Saptarsi Goswami.
Maintainer: Subhasree Bose <subhasree10.7@gmail.com>
Diff between RSentiment versions 1.0.4 dated 2016-05-04 and 2.0 dated 2016-06-13
DESCRIPTION | 8 +- MD5 | 14 +-- R/test.R | 18 +++- build/vignette.rds |binary inst/doc/introduction.R | 12 +-- inst/doc/introduction.Rmd | 4 - inst/doc/introduction.html | 171 ++++++++++++++++++++++----------------------- vignettes/introduction.Rmd | 4 - 8 files changed, 122 insertions(+), 109 deletions(-)
Title: Plot 'rpart' Models: An Enhanced Version of 'plot.rpart'
Description: Plot 'rpart' models. Extends plot.rpart() and text.rpart()
in the 'rpart' package.
Author: Stephen Milborrow
Maintainer: Stephen Milborrow <milbo@sonic.net>
Diff between rpart.plot versions 1.5.3 dated 2015-10-01 and 2.0.0 dated 2016-06-13
rpart.plot-1.5.3/rpart.plot/.Rinstignore |only rpart.plot-2.0.0/rpart.plot/DESCRIPTION | 6 rpart.plot-2.0.0/rpart.plot/MD5 | 47 rpart.plot-2.0.0/rpart.plot/NAMESPACE | 7 rpart.plot-2.0.0/rpart.plot/NEWS | 28 rpart.plot-2.0.0/rpart.plot/R/as.char.R |only rpart.plot-2.0.0/rpart.plot/R/check.index.R |only rpart.plot-2.0.0/rpart.plot/R/describe.col.R |only rpart.plot-2.0.0/rpart.plot/R/layout.R | 7 rpart.plot-2.0.0/rpart.plot/R/lib.R | 1216 +++++++--- rpart.plot-2.0.0/rpart.plot/R/lib.rpart.plot.R |only rpart.plot-2.0.0/rpart.plot/R/node.labs.R | 126 - rpart.plot-2.0.0/rpart.plot/R/palette.R |only rpart.plot-2.0.0/rpart.plot/R/prp.R | 183 + rpart.plot-2.0.0/rpart.plot/R/rounded.rect.R | 13 rpart.plot-2.0.0/rpart.plot/R/snip.R | 34 rpart.plot-2.0.0/rpart.plot/R/yes.no.R | 141 - rpart.plot-2.0.0/rpart.plot/inst/doc/index.html | 2 rpart.plot-2.0.0/rpart.plot/inst/doc/prp.pdf |binary rpart.plot-2.0.0/rpart.plot/inst/slowtests/make.bat | 2 rpart.plot-2.0.0/rpart.plot/inst/slowtests/test.imports.R |only rpart.plot-2.0.0/rpart.plot/inst/slowtests/test.na.R |only rpart.plot-2.0.0/rpart.plot/inst/slowtests/test.palette.R |only rpart.plot-2.0.0/rpart.plot/inst/slowtests/test.prp.R | 130 - rpart.plot-2.0.0/rpart.plot/inst/slowtests/test.prp.Rout.save | 544 +++- rpart.plot-2.0.0/rpart.plot/inst/slowtests/user-manual-figs.R | 133 - rpart.plot-2.0.0/rpart.plot/man/prp.Rd | 223 + rpart.plot-2.0.0/rpart.plot/man/ptitanic.Rd | 2 rpart.plot-2.0.0/rpart.plot/man/rpart.plot.Rd | 538 ++-- rpart.plot-2.0.0/rpart.plot/man/rpart.plot.version1.Rd |only 30 files changed, 2337 insertions(+), 1045 deletions(-)
Title: Access WHO Global Health Observatory Data from R
Description: Access WHO Global Health Observatory
data from R via the Athena web service,
an application program interface providing
a simple query interface to the World
Health Organization's data and statistics content.
Author: Antoine Filipovic-Pierucci [aut,cre]
Maintainer: Antoine Filipovic-Pierucci <pierucci@gmail.com>
Diff between rgho versions 0.0.1 dated 2016-03-19 and 0.1.0 dated 2016-06-13
DESCRIPTION | 6 - MD5 | 21 +++--- NEWS.md |only R/get_attrs.R | 2 R/get_data.R | 11 ++- R/get_gho.R | 33 ++++++++-- README.md | 7 -- build/vignette.rds |binary inst/doc/codes-gho.html | 153 +++++++++++++++++++++++++++++++++++++++-------- inst/doc/dimensions.html | 19 +++-- inst/doc/intro.html | 126 ++++++++++++++++++-------------------- man/get_gho_.Rd | 8 +- 12 files changed, 262 insertions(+), 124 deletions(-)
More information about RmarineHeatWaves at CRAN
Permanent link
Title: Empirical Orthogonal Teleconnections in R
Description: Empirical orthogonal teleconnections in R.
'remote' is short for 'R(-based) EMpirical Orthogonal TEleconnections'.
It implements a collection of functions to facilitate empirical
orthogonal teleconnection analysis. Empirical Orthogonal Teleconnections
(EOTs) denote a regression based approach to decompose spatio-temporal
fields into a set of independent orthogonal patterns. They are quite
similar to Empirical Orthogonal Functions (EOFs) with EOTs producing
less abstract results. In contrast to EOFs, which are orthogonal in both
space and time, EOT analysis produces patterns that are orthogonal in
either space or time.
Author: Tim Appelhans, Florian Detsch, Thomas Nauss
Maintainer: Tim Appelhans <tim.appelhans@gmail.com>
Diff between remote versions 1.0.0 dated 2015-06-12 and 1.2.0 dated 2016-06-13
DESCRIPTION | 34 ++-- MD5 | 84 +++++------ NAMESPACE | 23 ++- R/anomalize.R | 4 R/deseason.R | 110 ++++++++++---- R/eot.R | 208 +++++++++++++-------------- R/longtermMeans.R |only R/nXplain.R | 2 R/plot.R | 350 +++++++++++++++++++++++++---------------------- R/predict.R | 3 R/remote-package.R | 6 R/subset.R | 11 - R/writeEot.R | 17 +- README.md | 12 + data/australiaGPCP.RData |binary data/pacificSST.RData |binary data/vdendool.RData |binary inst/CITATION | 42 ++--- man/EotCycle.Rd | 10 - man/EotMode-class.Rd | 2 man/EotStack-class.Rd | 2 man/anomalize.Rd | 6 man/australiaGPCP.Rd | 8 - man/calcVar.Rd | 4 man/covWeight.Rd | 4 man/cutStack.Rd | 7 man/deg2rad.Rd | 3 man/denoise.Rd | 14 - man/deseason.Rd | 32 ++-- man/eot.Rd | 84 +++++------ man/geoWeight.Rd | 4 man/getWeights.Rd | 5 man/lagalize.Rd | 3 man/longtermMeans.Rd |only man/nXplain.Rd | 15 +- man/names.Rd | 5 man/nmodes.Rd | 3 man/pacificSST.Rd | 4 man/plot.Rd | 29 ++- man/predict.Rd | 17 +- man/remote-package.Rd | 6 man/subset.Rd | 13 - man/vdendool.Rd | 4 man/writeEot.Rd | 29 ++- 44 files changed, 666 insertions(+), 553 deletions(-)
Title: Performs Regularization on Structural Equation Models
Description: Uses both ridge and lasso penalties (and extensions) to penalize
specific parameters in structural equation models. The package offers additional
cost functions, cross validation, and other extensions beyond traditional SEM.
Author: Ross Jacobucci[aut,cre]
Maintainer: Ross Jacobucci <rcjacobuc@gmail.com>
Diff between regsem versions 0.1.2 dated 2016-04-18 and 0.1.3 dated 2016-06-13
DESCRIPTION | 10 MD5 | 65 - NAMESPACE | 41 - R/RAMmult.R | 56 - R/RcppExports.R | 104 +- R/cv_regsem.R | 314 ++++---- R/extractMatrices.R | 590 ++++++++-------- R/fiml_calc.R | 132 ++- R/fit_fun.R | 140 +-- R/fit_indices.R | 357 +++++----- R/grad_fun.R | 192 ++--- R/grad_ram.R | 192 ++--- R/grad_ram_wMean.R | 194 ++--- R/hess_ram.R | 112 +-- R/hess_ramParallel.R | 138 +-- R/hessian.R | 60 - R/hessian_parallel.R | 80 +- R/multi_optim.R | 464 ++++++------- R/optim_rj.R | 128 +-- R/ram_calc.R | 154 ++-- R/regsem.R | 1718 +++++++++++++++++++++++++------------------------ R/ret_hess.R | 16 R/summary.R | 46 - R/trace.R | 8 README.md |only man/cv_regsem.Rd | 184 ++--- man/extractMatrices.Rd | 57 - man/fit_indices.Rd | 64 - man/multi_optim.Rd | 206 ++--- man/rcpp_RAMmult.Rd | 62 - man/rcpp_fit_fun.Rd | 50 - man/rcpp_grad_ram.Rd | 76 +- man/regsem.Rd | 308 ++++---- man/summary.regsem.Rd | 34 34 files changed, 3253 insertions(+), 3099 deletions(-)
Title: Compute the Rectangular Statistical Cartogram
Description: Provides an interface and a C++ implementation
of the RecMap MP2 construction heuristic (see 'citation("recmap")'
for details). This algorithm draws maps according to a given statistical
value (e. g. election results, population or epidemiological data).
The basic idea of the RecMap algorithm is that each map region
(e. g. different countries) is represented by a rectangle. The area of
each rectangle represents the statistical value given as input
(maintain zero cartographic error).
Documentation about 'RecMap' is provided by a vignette included in this
package and a 'RecMap gallery' site at
<http://cartodraw.science/recmap/gallery>.
Author: Christian Panse
Maintainer: Christian Panse <Christian.Panse@gmail.com>
Diff between recmap versions 0.3.0 dated 2016-05-30 and 0.4.0 dated 2016-06-13
DESCRIPTION | 6 MD5 | 27 - NAMESPACE | 1 R/recmap.R | 9 README.md | 30 - inst/NEWS.Rd | 30 + inst/doc/recmap.R | 77 ++- inst/doc/recmap.Rmd | 96 +++- inst/doc/recmap.html | 74 ++- man/recmap.Rd | 84 ++-- src/Rrecmap.cpp | 107 +++-- src/recmap.h | 749 ++++++++++++++++++------------------ tests/testthat/test-topoloy_error.R |only vignettes/recmap.Rmd | 96 +++- vignettes/recmap.bib | 29 + 15 files changed, 836 insertions(+), 579 deletions(-)
Title: R Interface to CPLEX
Description: R interface to CPLEX solvers for linear, quadratic, and (linear and quadratic) mixed integer programs. Support for quadratically constrained programming is available. See the file "INSTALL" for details on how to install the Rcplex package in Linux/Unix-like and Windows systems. Support for sparse matrices is provided by an S3-style class "simple_triplet_matrix" from package slam and by objects from the Matrix package class hierarchy.
Author: Hector Corrada Bravo [aut],
Kurt Hornik [ctb],
Stefan Theussl [aut, cre]
Maintainer: Stefan Theussl <Stefan.Theussl@R-project.org>
Diff between Rcplex versions 0.3-2 dated 2014-07-01 and 0.3-3 dated 2016-06-13
DESCRIPTION | 27 +++++++++++++++------------ MD5 | 19 ++++++++++--------- NAMESPACE | 3 ++- R/quadratic_constraint.R | 12 +++++++----- inst/INSTALL | 46 +++++++++++++++++++++++++++++----------------- inst/NEWS | 5 +++++ inst/README | 24 +++++++++++++----------- man/Rcplex.Rd | 4 ++-- man/Rcplex_solve_QCP.Rd |only src/Makevars.win | 9 +++++++-- src/Rcplex_QCP.c | 24 ++++++++++++------------ 11 files changed, 102 insertions(+), 71 deletions(-)
Title: Fits Psychometric Functions for Multiple Groups
Description: Quickly fits and plots psychometric functions (normal, logistic,
Weibull or any or any function defined by the user) for multiple groups.
Author: Linares Daniel [aut, cre],
López-Moliner Joan [aut]
Maintainer: Linares Daniel <danilinares@gmail.com>
Diff between quickpsy versions 0.1.2 dated 2015-11-30 and 0.1.3 dated 2016-06-13
quickpsy-0.1.2/quickpsy/R/one_bootstrap.R |only quickpsy-0.1.2/quickpsy/README.md |only quickpsy-0.1.3/quickpsy/DESCRIPTION | 10 +- quickpsy-0.1.3/quickpsy/MD5 | 85 +++++++++++++------- quickpsy-0.1.3/quickpsy/NAMESPACE | 20 ++++ quickpsy-0.1.3/quickpsy/R/aic.R |only quickpsy-0.1.3/quickpsy/R/avbootstrap.R |only quickpsy-0.1.3/quickpsy/R/create_full_nll.R |only quickpsy-0.1.3/quickpsy/R/create_nllsaturated.R |only quickpsy-0.1.3/quickpsy/R/deviance.R |only quickpsy-0.1.3/quickpsy/R/devianceboot.R |only quickpsy-0.1.3/quickpsy/R/deviancep.R |only quickpsy-0.1.3/quickpsy/R/fitpsy.R | 2 quickpsy-0.1.3/quickpsy/R/logliks.R | 7 - quickpsy-0.1.3/quickpsy/R/logliksboot.R |only quickpsy-0.1.3/quickpsy/R/logliksbootsaturated.R |only quickpsy-0.1.3/quickpsy/R/loglikssaturated.R |only quickpsy-0.1.3/quickpsy/R/one_aic.R |only quickpsy-0.1.3/quickpsy/R/one_bootstrapav.R |only quickpsy-0.1.3/quickpsy/R/one_deviance.R |only quickpsy-0.1.3/quickpsy/R/one_deviancep.R |only quickpsy-0.1.3/quickpsy/R/one_loglik.R | 2 quickpsy-0.1.3/quickpsy/R/one_logliksaturated.R |only quickpsy-0.1.3/quickpsy/R/one_parameters.R | 1 quickpsy-0.1.3/quickpsy/R/one_parcomparisons.R | 4 quickpsy-0.1.3/quickpsy/R/one_sse.R | 2 quickpsy-0.1.3/quickpsy/R/parbootstrap.R | 32 +++---- quickpsy-0.1.3/quickpsy/R/plotcurves.R | 2 quickpsy-0.1.3/quickpsy/R/plotcurves_.R | 11 +- quickpsy-0.1.3/quickpsy/R/plotpar_.R | 23 ++--- quickpsy-0.1.3/quickpsy/R/plotthresholds.R | 4 quickpsy-0.1.3/quickpsy/R/plotthresholds_.R | 36 +++----- quickpsy-0.1.3/quickpsy/R/quickpsy.R | 20 +++- quickpsy-0.1.3/quickpsy/R/quickpsy_.R | 42 +++++---- quickpsy-0.1.3/quickpsy/R/quickreadfiles.R | 19 +++- quickpsy-0.1.3/quickpsy/man/aic.Rd |only quickpsy-0.1.3/quickpsy/man/avbootstrap.Rd |only quickpsy-0.1.3/quickpsy/man/create_full_nll.Rd |only quickpsy-0.1.3/quickpsy/man/create_nllsaturated.Rd |only quickpsy-0.1.3/quickpsy/man/deviance.Rd |only quickpsy-0.1.3/quickpsy/man/devianceboot.Rd |only quickpsy-0.1.3/quickpsy/man/deviancep.Rd |only quickpsy-0.1.3/quickpsy/man/logliks.Rd | 10 -- quickpsy-0.1.3/quickpsy/man/logliksboot.Rd |only quickpsy-0.1.3/quickpsy/man/logliksbootsaturated.Rd |only quickpsy-0.1.3/quickpsy/man/loglikssaturated.Rd |only quickpsy-0.1.3/quickpsy/man/one_aic.Rd |only quickpsy-0.1.3/quickpsy/man/one_deviance.Rd |only quickpsy-0.1.3/quickpsy/man/one_deviancep.Rd |only quickpsy-0.1.3/quickpsy/man/one_logliksaturated.Rd |only quickpsy-0.1.3/quickpsy/man/parbootstrap.Rd | 17 ---- quickpsy-0.1.3/quickpsy/man/parn.Rd | 10 +- quickpsy-0.1.3/quickpsy/man/plotcurves.Rd | 2 quickpsy-0.1.3/quickpsy/man/plotcurves_.Rd | 2 quickpsy-0.1.3/quickpsy/man/plotthresholds.Rd | 2 quickpsy-0.1.3/quickpsy/man/plotthresholds_.Rd | 3 quickpsy-0.1.3/quickpsy/man/quickpsy.Rd | 18 ++-- quickpsy-0.1.3/quickpsy/man/quickpsy_.Rd | 12 -- quickpsy-0.1.3/quickpsy/man/quickreadfiles.Rd | 4 59 files changed, 215 insertions(+), 187 deletions(-)
Title: Quantile Regression
Description: Estimation and inference methods for models of conditional quantiles:
Linear and nonlinear parametric and non-parametric (total variation penalized) models
for conditional quantiles of a univariate response and several methods for handling
censored survival data. Portfolio selection methods based on expected shortfall
risk are also included.
Author: Roger Koenker [cre, aut],
Stephen Portnoy [ctb] (Contributions to Censored QR code),
Pin Tian Ng [ctb] (Contributions to Sparse QR code),
Achim Zeileis [ctb] (Contributions to dynrq code essentially identical
to his dynlm code),
Philip Grosjean [ctb] (Contributions to nlrq code),
Brian D Ripley [trl, ctb] (Initial (2001) R port from S (to my
everlasting shame -- how could I have been so slow to adopt R!) and
for numerous other suggestions and useful advice)
Maintainer: Roger Koenker <rkoenker@illinois.edu>
Diff between quantreg versions 5.24 dated 2016-05-13 and 5.26 dated 2016-06-13
quantreg-5.24/quantreg/src/ratfor/sboot.r |only quantreg-5.24/quantreg/src/ratfor/spwy.R |only quantreg-5.26/quantreg/DESCRIPTION | 6 ++--- quantreg-5.26/quantreg/MD5 | 30 ++++++++++++------------- quantreg-5.26/quantreg/NAMESPACE | 2 - quantreg-5.26/quantreg/R/boot.R | 36 +++++++++++++++++++++++++++--- quantreg-5.26/quantreg/R/quantreg.R | 20 ++++++++++++++-- quantreg-5.26/quantreg/R/rqss.R | 10 ++++---- quantreg-5.26/quantreg/demo/00Index | 1 quantreg-5.26/quantreg/demo/Polson.R |only quantreg-5.26/quantreg/demo/rqsslasso.R | 2 - quantreg-5.26/quantreg/inst/ChangeLog | 16 +++++++++++++ quantreg-5.26/quantreg/man/boot.rq.Rd | 14 ++++++++++- quantreg-5.26/quantreg/man/plot.rqss.Rd | 6 +++-- quantreg-5.26/quantreg/man/summary.rq.Rd | 5 ++-- quantreg-5.26/quantreg/src/ratfor/README | 5 ++++ quantreg-5.26/quantreg/src/ratfor/spwy.r |only quantreg-5.26/quantreg/src/srqfn.f | 4 +-- 18 files changed, 119 insertions(+), 38 deletions(-)
Title: (Randomized) Quasi-Random Number Generators
Description: Functionality for generating (randomized) quasi-random numbers in
high dimensions.
Author: Marius Hofert [aut, cre], Christiane Lemieux [aut]
Maintainer: Marius Hofert <marius.hofert@uwaterloo.ca>
Diff between qrng versions 0.0-2 dated 2015-05-05 and 0.0-3 dated 2016-06-13
qrng-0.0-2/qrng/TODO |only qrng-0.0-3/qrng/DESCRIPTION | 6 ++-- qrng-0.0-3/qrng/MD5 | 21 +++++++------- qrng-0.0-3/qrng/NAMESPACE | 3 +- qrng-0.0-3/qrng/R/qrng.R | 35 ++++++++++++++++++++---- qrng-0.0-3/qrng/demo/test_functions.R | 35 +++++++++++------------- qrng-0.0-3/qrng/man/qrng.Rd | 49 ++++++++++++++++++++++------------ qrng-0.0-3/qrng/src/ghalton.c | 49 ---------------------------------- qrng-0.0-3/qrng/src/ghalton.h | 48 +++++++++++++++++++++++++++++++++ qrng-0.0-3/qrng/src/init.c | 2 + qrng-0.0-3/qrng/src/korobov.c | 5 --- qrng-0.0-3/qrng/src/sobol.c |only qrng-0.0-3/qrng/src/sobol.h |only 13 files changed, 145 insertions(+), 108 deletions(-)
Title: Fast & Easy Quality Control of EWAS Results Files
Description: Tools for (automated and manual) quality control of
the results of Epigenome-Wide Association Studies.
Author: Peter J. van der Most, Leanne K. Kupers, Ilja M. Nolte
Maintainer: Peter J. van der Most <p.j.van.der.most@umcg.nl>
Diff between QCEWAS versions 1.0-6 dated 2016-05-24 and 1.0-7 dated 2016-06-13
QCEWAS-1.0-6/QCEWAS/R/script_v10-6_package.R |only QCEWAS-1.0-7/QCEWAS/DESCRIPTION | 8 ++++---- QCEWAS-1.0-7/QCEWAS/MD5 | 18 +++++++++--------- QCEWAS-1.0-7/QCEWAS/NAMESPACE | 12 ++++++------ QCEWAS-1.0-7/QCEWAS/R/script_v10-7_package.R |only QCEWAS-1.0-7/QCEWAS/man/EWAS_QC.Rd | 10 ++++++---- QCEWAS-1.0-7/QCEWAS/man/EWAS_series.Rd | 22 +++++++++++++--------- QCEWAS-1.0-7/QCEWAS/man/P_correlation.Rd | 2 +- QCEWAS-1.0-7/QCEWAS/man/P_lambda.Rd | 1 + QCEWAS-1.0-7/QCEWAS/man/QCEWAS-package.Rd | 6 +++--- QCEWAS-1.0-7/QCEWAS/man/translate_header.Rd | 16 ++++++++++------ 11 files changed, 53 insertions(+), 42 deletions(-)
Title: Genetic Analysis of Populations with Mixed Reproduction
Description: Population genetic analyses for hierarchical analysis of partially
clonal populations built upon the architecture of the 'adegenet' package.
Author: Zhian N. Kamvar [cre, aut],
Javier F. Tabima [aut],
Sydney E. Everhart [ctb, dtc],
Jonah C. Brooks [aut],
Stacy A. Krueger-Hadfield [ctb],
Erik Sotka [ctb],
Brian J. Knaus [ctb],
Niklaus J. Grunwald [ths]
Maintainer: Zhian N. Kamvar <kamvarz@science.oregonstate.edu>
Diff between poppr versions 2.1.1 dated 2016-03-15 and 2.2.0 dated 2016-06-13
poppr-2.1.1/poppr/R/deprecated.R |only poppr-2.1.1/poppr/inst/doc/how_to_migrate.R |only poppr-2.1.1/poppr/inst/doc/how_to_migrate.Rnw |only poppr-2.1.1/poppr/inst/doc/how_to_migrate.pdf |only poppr-2.1.1/poppr/man/deprecated.Rd |only poppr-2.1.1/poppr/tests/testthat/test-deprecated.R |only poppr-2.1.1/poppr/vignettes/how_to_migrate.Rnw |only poppr-2.2.0/poppr/DESCRIPTION | 13 - poppr-2.2.0/poppr/MD5 | 116 ++++----- poppr-2.2.0/poppr/NAMESPACE | 14 - poppr-2.2.0/poppr/NEWS | 47 +++ poppr-2.2.0/poppr/R/Index_calculations.r | 35 +- poppr-2.2.0/poppr/R/aaaMLGmethods.R | 2 poppr-2.2.0/poppr/R/bitwise.r | 43 ++- poppr-2.2.0/poppr/R/check_data.R |only poppr-2.2.0/poppr/R/classes.r | 6 poppr-2.2.0/poppr/R/data_subset.r | 40 +-- poppr-2.2.0/poppr/R/filter_stats.R | 25 -- poppr-2.2.0/poppr/R/internal.r | 243 ++++++++++++++++---- poppr-2.2.0/poppr/R/internal_methods.R | 30 +- poppr-2.2.0/poppr/R/messages.r | 41 ++- poppr-2.2.0/poppr/R/methods.r | 151 ++++++++---- poppr-2.2.0/poppr/R/mlg.r | 6 poppr-2.2.0/poppr/R/pipe.R |only poppr-2.2.0/poppr/R/poppr.R | 38 --- poppr-2.2.0/poppr/R/print_methods.r | 6 poppr-2.2.0/poppr/R/round_robin.R | 178 +++++--------- poppr-2.2.0/poppr/R/visualizations.r | 48 ++- poppr-2.2.0/poppr/README.md | 1 poppr-2.2.0/poppr/build/vignette.rds |binary poppr-2.2.0/poppr/inst/doc/algo.pdf |binary poppr-2.2.0/poppr/inst/doc/mlg.R | 48 ++- poppr-2.2.0/poppr/inst/doc/mlg.Rmd | 117 +++++---- poppr-2.2.0/poppr/inst/doc/mlg.html | 182 +++++++++----- poppr-2.2.0/poppr/inst/doc/poppr_manual.pdf |binary poppr-2.2.0/poppr/inst/shiny/utils.R | 3 poppr-2.2.0/poppr/man/cutoff_predictor.Rd | 7 poppr-2.2.0/poppr/man/filter_stats.Rd | 9 poppr-2.2.0/poppr/man/genclone-class.Rd | 6 poppr-2.2.0/poppr/man/genotype_curve.Rd | 32 +- poppr-2.2.0/poppr/man/grapes-greater-than-grapes.Rd |only poppr-2.2.0/poppr/man/ia.Rd | 24 + poppr-2.2.0/poppr/man/incomp.Rd |only poppr-2.2.0/poppr/man/mlg.Rd | 6 poppr-2.2.0/poppr/man/mlg.filter.Rd | 149 ++++++++---- poppr-2.2.0/poppr/man/pgen.Rd | 31 +- poppr-2.2.0/poppr/man/poppr-package.Rd | 40 --- poppr-2.2.0/poppr/man/poppr.amova.Rd | 22 + poppr-2.2.0/poppr/man/private_alleles.Rd | 5 poppr-2.2.0/poppr/man/psex.Rd | 13 - poppr-2.2.0/poppr/man/rare_allele_correction.Rd | 93 +++---- poppr-2.2.0/poppr/man/rraf.Rd | 18 - poppr-2.2.0/poppr/man/samp.ia.Rd | 21 + poppr-2.2.0/poppr/src/bitwise_distance.c | 8 poppr-2.2.0/poppr/tests/testthat/test-MLG-class.R | 5 poppr-2.2.0/poppr/tests/testthat/test-filter.R | 13 - poppr-2.2.0/poppr/tests/testthat/test-incomp.R |only poppr-2.2.0/poppr/tests/testthat/test-locustable.R | 2 poppr-2.2.0/poppr/tests/testthat/test-mlg.R | 28 ++ poppr-2.2.0/poppr/tests/testthat/test-msn.R | 4 poppr-2.2.0/poppr/tests/testthat/test-plots.R | 6 poppr-2.2.0/poppr/tests/testthat/test-polyploids.R | 13 + poppr-2.2.0/poppr/tests/testthat/test-poppr.R | 6 poppr-2.2.0/poppr/tests/testthat/test-values.R | 61 +++++ poppr-2.2.0/poppr/vignettes/mlg.Rmd | 117 +++++---- 65 files changed, 1372 insertions(+), 800 deletions(-)
Title: Phylogenetic Monte Carlo
Description: Monte Carlo based model choice for applied phylogenetics of
continuous traits. Method described in Carl Boettiger, Graham Coop,
Peter Ralph (2012) Is your phylogeny informative? Measuring
the power of comparative methods, Evolution 66 (7)
2240-51. doi:10.1111/j.1558-5646.2011.01574.x.
Author: Carl Boettiger [aut, cre]
Maintainer: Carl Boettiger <cboettig@gmail.com>
Diff between pmc versions 1.0.1 dated 2015-09-14 and 1.0.2 dated 2016-06-13
DESCRIPTION | 9 +-- MD5 | 32 +++++------ NAMESPACE | 2 NEWS | 7 ++ R/pmc.R | 8 +- README.md | 29 ++++++++-- build/vignette.rds |binary inst/doc/pmc_tutorial.html | 126 ++++++++++++++++++++++++++------------------- man/anoles.Rd | 2 man/pmc.Rd | 8 +- man/pmc_fit.Rd | 4 - man/simulate.gfit.Rd | 2 man/tree.Rd | 2 man/update.gfit.Rd | 2 tests/testthat/test_ouch.R | 5 + tests/testthat/test_pmc.R | 2 vignettes/pmc_tutorial.Rmd | 2 17 files changed, 149 insertions(+), 93 deletions(-)
Title: Tools for Splitting, Applying and Combining Data
Description: A set of tools that solves a common set of problems: you
need to break a big problem down into manageable pieces, operate on each
piece and then put all the pieces back together. For example, you might
want to fit a model to each spatial location or time point in your study,
summarise data by panels or collapse high-dimensional arrays to simpler
summary statistics. The development of 'plyr' has been generously supported
by 'Becton Dickinson'.
Author: Hadley Wickham [aut, cre]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between plyr versions 1.8.3 dated 2015-06-12 and 1.8.4 dated 2016-06-13
DESCRIPTION | 9 - MD5 | 220 ++++++++++++++++++++--------------------- NAMESPACE | 3 R/l_ply.r | 2 R/llply.r | 2 R/loop_apply.R | 3 R/progress-time.r | 6 - R/progress.r | 12 +- R/quote.r | 2 R/rbind-fill-matrix.r | 2 R/rbind-fill.r | 2 R/vaggregate.r | 2 README.md | 5 man/a_ply.Rd | 8 - man/aaply.Rd | 10 - man/adply.Rd | 10 - man/alply.Rd | 10 - man/amv_dim.Rd | 2 man/amv_dimnames.Rd | 2 man/arrange.Rd | 2 man/as.data.frame.function.Rd | 2 man/as.list.split.Rd | 2 man/as.quoted.Rd | 2 man/baseball.Rd | 2 man/colwise.Rd | 2 man/compact.Rd | 2 man/count.Rd | 2 man/create_progress_bar.Rd | 2 man/d_ply.Rd | 8 - man/daply.Rd | 10 - man/ddply.Rd | 10 - man/defaults.Rd | 2 man/desc.Rd | 2 man/dims.Rd | 2 man/dlply.Rd | 10 - man/each.Rd | 2 man/empty.Rd | 2 man/eval.quoted.Rd | 2 man/failwith.Rd | 2 man/get-split.Rd | 2 man/here.Rd | 2 man/id.Rd | 2 man/id_var.Rd | 2 man/idata.frame.Rd | 2 man/indexed_array.Rd | 2 man/indexed_df.Rd | 2 man/is.discrete.Rd | 2 man/is.formula.Rd | 2 man/isplit2.Rd | 2 man/join.Rd | 2 man/join.keys.Rd | 2 man/join_all.Rd | 2 man/l_ply.Rd | 6 - man/laply.Rd | 8 - man/ldply.Rd | 8 - man/liply.Rd | 2 man/list_to_array.Rd | 4 man/list_to_dataframe.Rd | 4 man/list_to_vector.Rd | 4 man/llply.Rd | 8 - man/loop_apply.Rd | 2 man/m_ply.Rd | 8 - man/maply.Rd | 10 - man/mapvalues.Rd | 4 man/match_df.Rd | 2 man/mdply.Rd | 10 - man/mlply.Rd | 10 - man/mutate.Rd | 2 man/name_rows.Rd | 2 man/names.quoted.Rd | 2 man/nunique.Rd | 2 man/ozone.Rd | 2 man/plyr-deprecated.Rd | 2 man/plyr.Rd | 2 man/print.quoted.Rd | 2 man/print.split.Rd | 2 man/progress_none.Rd | 6 - man/progress_text.Rd | 6 - man/progress_time.Rd | 6 - man/progress_tk.Rd | 6 - man/progress_win.Rd | 6 - man/quickdf.Rd | 2 man/quoted.Rd | 2 man/r_ply.Rd | 2 man/raply.Rd | 2 man/rbind.fill.Rd | 2 man/rbind.fill.matrix.Rd | 2 man/rdply.Rd | 2 man/reduce_dim.Rd | 2 man/rename.Rd | 2 man/revalue.Rd | 4 man/rlply.Rd | 2 man/round_any.Rd | 2 man/splat.Rd | 2 man/split_indices.Rd | 2 man/split_labels.Rd | 2 man/splitter_a.Rd | 2 man/splitter_d.Rd | 2 man/strip_splits.Rd | 2 man/summarise.Rd | 2 man/take.Rd | 2 man/true.Rd | 2 man/try_default.Rd | 2 man/tryapply.Rd | 2 man/unrowname.Rd | 2 man/vaggregate.Rd | 4 src/loop_apply.c | 2 tests/testthat/test-array.r | 7 - tests/testthat/test-parallel.r | 14 +- tests/testthat/test-rbind.r | 2 tests/testthat/test-revalue.r | 18 +-- 111 files changed, 325 insertions(+), 318 deletions(-)
Title: A GUI to View, Design and Export Various Graphs of Data
Description: Provides a graphical user interface for viewing and designing various types of graphs of the data. The graphs can be saved in different formats of an image.
Author: Dhammapal Bharne, Vaibhav Vindal
Maintainer: Dhammapal Bharne <dhammapalb@uohyd.ac.in>
Diff between plfMA versions 1.0.2 dated 2016-01-25 and 1.0.3 dated 2016-06-13
DESCRIPTION | 8 - MD5 | 8 - R/plfMA.R | 250 ++++++++++++++++++++++++--------------------------- man/plfMA-package.Rd | 4 man/plfMA.Rd | 2 5 files changed, 133 insertions(+), 139 deletions(-)
Title: Analysis of Large-Scale Pharmacogenomic Data
Description: Contains a set of functions to perform large-scale analysis of pharmacogenomic data.
Author: Petr Smirnov, Zhaleh Safikhani, Benjamin Haibe-Kains
Maintainer: Benjamin Haibe-Kains <benjamin.haibe.kains@utoronto.ca>
Diff between PharmacoGx versions 1.1.5 dated 2016-05-17 and 1.1.6 dated 2016-06-13
PharmacoGx-1.1.5/PharmacoGx/vignettes/CreatingPharmacoSet-concordance.tex |only PharmacoGx-1.1.5/PharmacoGx/vignettes/CreatingPharmacoSet.tex |only PharmacoGx-1.1.6/PharmacoGx/DESCRIPTION | 6 +- PharmacoGx-1.1.6/PharmacoGx/MD5 | 14 ++---- PharmacoGx-1.1.6/PharmacoGx/R/computeDrugSensitivity.R | 5 +- PharmacoGx-1.1.6/PharmacoGx/R/intersectPSets.R | 22 ++++++++-- PharmacoGx-1.1.6/PharmacoGx/build/vignette.rds |binary PharmacoGx-1.1.6/PharmacoGx/inst/doc/CreatingPharmacoSet.pdf |binary PharmacoGx-1.1.6/PharmacoGx/inst/doc/PharmacoGx.pdf |binary 9 files changed, 31 insertions(+), 16 deletions(-)
Title: Regularization Paths for SCAD and MCP Penalized Regression
Models
Description: Efficient algorithms for fitting regularization paths for linear or
logistic regression models penalized by MCP or SCAD, with optional additional
L2 penalty.
Author: Patrick Breheny [aut,cre], Sangin Lee [ctb]
Maintainer: Patrick Breheny <patrick-breheny@uiowa.edu>
Diff between ncvreg versions 3.5-2 dated 2016-04-08 and 3.6-0 dated 2016-06-13
ncvreg-3.5-2/ncvreg/inst/interactive-tests |only ncvreg-3.5-2/ncvreg/inst/tests/Rplots.pdf |only ncvreg-3.6-0/ncvreg/DESCRIPTION | 19 ++++---- ncvreg-3.6-0/ncvreg/MD5 | 64 +++++++++++++++------------ ncvreg-3.6-0/ncvreg/NAMESPACE | 3 - ncvreg-3.6-0/ncvreg/NEWS | 9 +++ ncvreg-3.6-0/ncvreg/R/ncvreg.R | 4 - ncvreg-3.6-0/ncvreg/R/ncvsurv.R | 2 ncvreg-3.6-0/ncvreg/R/predict.surv.R | 2 ncvreg-3.6-0/ncvreg/R/setupLambdaCox.R | 9 ++- ncvreg-3.6-0/ncvreg/R/std.R |only ncvreg-3.6-0/ncvreg/build |only ncvreg-3.6-0/ncvreg/inst/doc |only ncvreg-3.6-0/ncvreg/inst/tests/coerce.R |only ncvreg-3.6-0/ncvreg/inst/tests/cv.ncvreg.R | 7 -- ncvreg-3.6-0/ncvreg/inst/tests/cv.ncvsurv.R | 1 ncvreg-3.6-0/ncvreg/inst/tests/fir.R | 1 ncvreg-3.6-0/ncvreg/inst/tests/ncvreg.R | 46 ++++++++----------- ncvreg-3.6-0/ncvreg/inst/tests/ncvsurv.R | 1 ncvreg-3.6-0/ncvreg/inst/tests/parallel.R | 30 ++++++------ ncvreg-3.6-0/ncvreg/inst/tests/standardize.R | 10 ++++ ncvreg-3.6-0/ncvreg/man/auc.Rd | 4 - ncvreg-3.6-0/ncvreg/man/cv.ncvreg.Rd | 5 -- ncvreg-3.6-0/ncvreg/man/cv.ncvsurv.Rd | 7 ++ ncvreg-3.6-0/ncvreg/man/ncvreg-package.Rd | 29 ++++-------- ncvreg-3.6-0/ncvreg/man/plot.fir.Rd | 8 ++- ncvreg-3.6-0/ncvreg/man/std.Rd |only ncvreg-3.6-0/ncvreg/src/cox-dh.c | 61 ++++++++++--------------- ncvreg-3.6-0/ncvreg/src/ncvreg.c | 2 ncvreg-3.6-0/ncvreg/tests |only ncvreg-3.6-0/ncvreg/vignettes |only 31 files changed, 161 insertions(+), 163 deletions(-)
Title: Discovering Multiple, Statistically-Equivalent Signatures
Description: Feature selection methods for identifying minimal, statistically-equivalent and equally-predictive feature subsets. Bayesian network algorithms and related functions are also included. The package name 'MXM' stands for "Mens eX Machina", meaning "Mind from the Machine" in Latin.
Author: Ioannis Tsamardinos, Vincenzo Lagani, Giorgos Athineou, Michail Tsagris, Giorgos Borboudakis, Anna Roumpelaki
Maintainer: Michail Tsagris <mtsagris@csd.uoc.gr>
Diff between MXM versions 0.8.7 dated 2016-05-23 and 0.8.8 dated 2016-06-13
DESCRIPTION | 8 ++++---- MD5 | 42 ++++++++++++++++++++++-------------------- NAMESPACE | 4 ++-- R/MMPC.temporal.R | 4 ++-- R/SES.temporal.R | 4 ++-- R/bic.fsreg.R | 25 ++++++++++++------------- R/bic.glm.fsreg.R | 18 ++++++++++-------- R/glm.bsreg.R | 10 ++++++++++ R/pc.con.R | 12 +++++++++++- R/pc.skel.R | 30 +++++++++++++++++++++++++++++- R/tc.plot.R |only R/testIndGLMM.R | 31 ++++++++++++++++--------------- man/MXM-package.Rd | 4 ++-- man/MXMCondIndTests.Rd | 2 +- man/SES.temporal.Rd | 17 ++++++++--------- man/bic.fsreg.Rd | 3 +-- man/bic.glm.fsreg.Rd | 5 ++++- man/pc.skel.Rd | 1 + man/rdag.Rd | 13 +++++++++++-- man/tc.plot.Rd |only man/testIndLogistic.Rd | 1 - man/testIndReg.Rd | 3 +-- man/testIndSpeedglm.Rd | 13 ------------- 23 files changed, 149 insertions(+), 101 deletions(-)
Title: Influence Measures and Diagnostic Plots for Multivariate Linear
Models
Description: Computes regression deletion diagnostics for multivariate linear models and provides some associated
diagnostic plots. The diagnostic measures include hat-values (leverages), generalized Cook's distance, and
generalized squared 'studentized' residuals. Several types of plots to detect influential observations are
provided.
Author: Michael Friendly
Maintainer: Michael Friendly <friendly@yorku.ca>
Diff between mvinfluence versions 0.6 dated 2012-12-21 and 0.8 dated 2016-06-13
DESCRIPTION | 20 +++++++++++--------- MD5 | 22 +++++++++++++--------- NAMESPACE | 37 ++++++++++++++++++++++++++++++++++++- NEWS | 11 +++++++++++ R/infIndexPlot.R |only R/influencePlot.mlm.R | 18 +++++++++++------- R/lrPlot.R | 5 +++-- data |only man/Fertilizer.Rd |only man/infIndexPlot.mlm.Rd |only man/influence.measures.Rd | 1 + man/influencePlot.mlm.Rd | 21 ++++++++++++--------- man/lrPlot.Rd | 10 +++++++--- man/mvinfluence-package.Rd | 4 ++-- 14 files changed, 107 insertions(+), 42 deletions(-)
More information about multipanelfigure at CRAN
Permanent link
Title: Automating Mplus Model Estimation and Interpretation
Description: Leverages the R language to automate latent variable model estimation
and interpretation using Mplus, a powerful latent variable modeling program
developed by Muthen and Muthen (www.statmodel.com). Specifically, this package
provides routines for creating related groups of models, running batches of
models, and extracting and tabulating model parameters and fit statistics.
Author: Michael Hallquist [aut, cre],
Joshua Wiley [aut]
Maintainer: Michael Hallquist <michael.hallquist@gmail.com>
Diff between MplusAutomation versions 0.6-3 dated 2014-10-10 and 0.6-4 dated 2016-06-13
DESCRIPTION | 20 MD5 | 207 ++++---- NAMESPACE | 14 NEWS | 467 +++++++++--------- R/MplusAutomation.R | 5 R/compareModels.R | 14 R/createModels.R | 130 +++-- R/extractAuxDis.R | 177 ++++-- R/extractModIndices.R | 115 +++- R/extractParameters.R | 176 ++++-- R/extractSaveData.R | 18 R/graphModels.R | 474 +++++++++--------- R/methods.R | 2 R/mplus.R | 67 ++ R/parseOutput.R | 407 ++++++--------- R/runModels.R | 920 ++++++++++++++++++------------------ R/summary.R |only R/utilityFunctions.R | 69 ++ build/vignette.rds |binary man/HTMLSummaryTable.Rd | 3 man/LatexSummaryTable.Rd | 3 man/MplusAutomation.Rd | 7 man/SummaryTable.Rd |only man/addHeaderToSavedata.Rd | 3 man/addNode.Rd | 5 man/cd.Rd | 3 man/classifyTags.Rd | 3 man/clipString.Rd | 3 man/coef.mplus.model.Rd | 13 man/compareModels.Rd | 4 man/connectNodes.Rd | 3 man/createModels.Rd | 3 man/createSyntax.Rd | 8 man/createVarSyntax.Rd | 3 man/divideIntoFields.Rd | 3 man/evaluateConditional.Rd | 3 man/extract.Rd | 24 man/extractAux.Rd | 7 man/extractClassCounts.Rd | 5 man/extractFacScoreStats.Rd | 3 man/extractFreeFile.Rd | 3 man/extractInput_1file.Rd | 3 man/extractModIndices.Rd | 9 man/extractModIndices_1chunk.Rd |only man/extractModIndices_1file.Rd | 7 man/extractModelParameters.Rd | 13 man/extractModelSummaries.Rd | 7 man/extractParameters_1chunk.Rd | 11 man/extractParameters_1file.Rd | 9 man/extractParameters_1section.Rd | 9 man/extractResiduals.Rd | 3 man/extractSummaries_1file.Rd | 3 man/extractSummaries_1plan.Rd | 3 man/extractSummaries_1section.Rd | 3 man/extractTech1.Rd | 3 man/extractTech10.Rd | 3 man/extractTech12.Rd | 3 man/extractTech3.Rd | 3 man/extractTech4.Rd | 3 man/extractTech7.Rd | 3 man/extractTech9.Rd | 3 man/extractValue.Rd | 3 man/extractWarningsErrors_1file.Rd | 3 man/finalizeInitCollection.Rd | 3 man/getInitTags.Rd | 3 man/getMultilineSection.Rd | 7 man/getSavedata_Bparams.Rd | 3 man/getSavedata_Data.Rd | 3 man/getSavedata_Fileinfo.Rd | 3 man/graphModel.Rd | 3 man/l_getSavedata_Bparams.Rd | 3 man/l_getSavedata_Fileinfo.Rd | 5 man/l_getSavedata_readRawFile.Rd | 5 man/lookupSimpleTags.Rd | 3 man/lookupTech1Parameter.Rd | 3 man/lookupValue.Rd | 7 man/matrixExtract.Rd | 3 man/mplus.traceplot.Rd | 3 man/mplusModeler.Rd | 10 man/mplusObject.Rd | 15 man/mplusRcov.Rd | 3 man/paramExtract.Rd | 3 man/parseMplus.Rd | 4 man/parseTags.Rd | 3 man/plot.mplusObject.Rd | 3 man/prepareMplusData.Rd | 9 man/prepareMplusData_Mat.Rd | 3 man/print.MplusRstructure.Rd | 10 man/processConditionalTags.Rd | 3 man/processInit.Rd | 3 man/readModels.Rd | 11 man/recurseReplace.Rd | 3 man/replaceBodyTags.Rd | 7 man/replaceInitTags.Rd | 3 man/rmVarWarnings.Rd | 3 man/runModels.Rd | 5 man/runModels_Interactive.Rd | 3 man/showSummaryTable.Rd | 3 man/splitDFByRow.Rd | 3 man/subsetModelList.Rd | 3 man/summary.mplusObject.Rd | 9 man/testBParamCompoundConstraint.Rd | 3 man/testBParamConstraint.Rd | 3 man/unlabeledMatrixExtract.Rd | 3 man/update.mplusObject.Rd | 3 man/updateCurrentValues.Rd | 3 106 files changed, 2039 insertions(+), 1656 deletions(-)
More information about MplusAutomation at CRAN
Permanent link
Title: Visualizing and Analyzing Animal Track Data
Description: Contains functions to access movement data stored in movebank.org
as well as tools to visualize and statistically analyze animal movement data,
among others functions to calculate dynamic Brownian Bridge Movement Models.
Move helps addressing movement ecology questions.
Author: Bart Kranstauber <bart.kranstauber@ieu.uzh.ch>, Marco Smolla
<marco.smolla@postgrad.manchester.ac.uk>
Maintainer: Bart Kranstauber <bart.kranstauber@ieu.uzh.ch>
Diff between move versions 1.6.541 dated 2016-02-08 and 2.0.0 dated 2016-06-13
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Title: Process and Analyze Mouse-Tracking Data
Description: Mouse-tracking, the analysis of mouse movements in computerized
experiments, is a method that is becoming increasingly popular in the
cognitive sciences. The mousetrap package offers functions for importing,
preprocessing, analyzing, aggregating, and visualizing mouse-tracking data.
Author: Pascal J. Kieslich [aut, cre],
Felix Henninger [aut]
Maintainer: Pascal J. Kieslich <kieslich@psychologie.uni-mannheim.de>
Diff between mousetrap versions 1.0.0 dated 2016-03-19 and 1.1.0 dated 2016-06-13
DESCRIPTION | 10 +- MD5 | 28 ++++---- NEWS.md |only R/check.R | 30 +++++++- R/import.R | 146 +++++++++++++++++++++++++++++++------------ R/measures.R | 2 R/mousetrap.R | 2 R/riverbed.R |only R/visualize.R | 141 +++-------------------------------------- README.md | 2 man/mousetrap.Rd | 2 man/mt_calculate_measures.Rd | 2 man/mt_check_resolution.Rd | 6 + man/mt_import_mousetrap.Rd | 35 ++++++---- man/mt_plot.Rd | 14 +++- man/mt_plot_riverbed.Rd | 78 ++++++++++++---------- 16 files changed, 255 insertions(+), 243 deletions(-)
Title: MOdelling Tools for Reproduction and Survival Data in
Ecotoxicology
Description: Tools for ecotoxicologists and regulators dedicated to the
mathematical and statistical modelling of bioassay data. They use advanced and
innovative methods for a valuable quantitative environmental risk assessment.
Author: Marie Laure Delignette-Muller [aut], Philippe Ruiz [aut], Sandrine
Charles [aut], Wandrille Duchemin [ctb], Christelle Lopes [ctb], Guillaume Kon-
Kam-king [ctb], Philippe Veber [aut]
Maintainer: Philippe Veber <philippe.veber@univ-lyon1.fr>
Diff between morse versions 2.1.1 dated 2015-12-21 and 2.2.0 dated 2016-06-13
DESCRIPTION | 16 MD5 | 150 +++-- NAMESPACE | 127 ++-- NEWS | 219 ++++---- R/as.survData.R | 52 + R/errorTable.R | 72 +- R/morse-internal.R | 434 ++++++++-------- R/morse.R | 556 +++++++++++--------- R/plot.reproData.R | 338 +++--------- R/plot.reproFitTT.R | 812 +++++++++++++++--------------- R/plot.survData.R | 786 ++++++++++------------------- R/plot.survFitTKTD.R |only R/plot.survFitTT.R | 1011 ++++++++++++++++++-------------------- R/plotDoseResponse.R |only R/plotDoseResponse.reproData.R |only R/plotDoseResponse.survData.R |only R/ppc.R | 24 R/ppc.reproFitTT.R | 180 +++--- R/ppc.survFitTKTD.R |only R/ppc.survFitTT.R | 390 ++++++-------- R/print.reproFitTT.R | 90 +-- R/print.survFitTKTD.R |only R/print.survFitTT.R | 90 +-- R/reproData.R | 117 ++-- R/reproDataCheck.R | 240 ++++----- R/reproFitTT.R | 970 +++++++++++++++++------------------- R/summary.reproData.R | 83 +-- R/summary.reproFitTT.R | 211 +++---- R/summary.survData.R | 90 +-- R/summary.survFitTKTD.R |only R/summary.survFitTT.R | 193 +++---- R/survData.R | 164 +++--- R/survDataCheck.R | 352 ++++++------- R/survFitTKTD.R |only R/survFitTT.R | 606 ++++++++++------------ README.md |only build/vignette.rds |binary data/dichromate.rda |only data/propiconazole.rda |only inst/doc/modelling.Snw | 675 +++++++++++++++---------- inst/doc/modelling.pdf |binary inst/doc/tutorial.R | 227 ++++---- inst/doc/tutorial.Rmd | 636 ++++++++++++----------- inst/doc/tutorial.html | 774 +++++++++++++++-------------- man/as.survData.Rd | 57 +- man/cadmium1.Rd | 74 +- man/cadmium2.Rd | 82 +-- man/chlordan.Rd | 70 +- man/copper.Rd | 70 +- man/dichromate.Rd |only man/morse-package.Rd | 160 +++--- man/plot.reproData.Rd | 132 ++-- man/plot.reproFitTT.Rd | 143 +++-- man/plot.survData.Rd | 136 ++--- man/plot.survFitTKTD.Rd |only man/plot.survFitTT.Rd | 166 +++--- man/plotDoseResponse.Rd |only man/plotDoseResponse.reproData.Rd |only man/plotDoseResponse.survData.Rd |only man/ppc.Rd | 36 - man/ppc.reproFitTT.Rd | 88 +-- man/ppc.survFitTKTD.Rd |only man/ppc.survFitTT.Rd | 87 +-- man/print.reproFitTT.Rd | 79 +- man/print.survFitTKTD.Rd |only man/print.survFitTT.Rd | 79 +- man/propiconazole.Rd |only man/reproData.Rd | 89 +-- man/reproDataCheck.Rd | 122 ++-- man/reproFitTT.Rd | 175 +++--- man/summary.reproData.Rd | 78 +- man/summary.reproFitTT.Rd | 94 +-- man/summary.survData.Rd | 77 +- man/summary.survFitTKTD.Rd |only man/summary.survFitTT.Rd | 94 +-- man/survData.Rd | 108 ++-- man/survDataCheck.Rd | 116 ++-- man/survFitTKTD.Rd |only man/survFitTT.Rd | 167 ++---- man/zinc.Rd | 70 +- tests/testthat.R | 8 tests/testthat/test-repro.R | 208 +++---- tests/testthat/test-surv.R | 296 +++++------ vignettes/biblio.bib | 84 +-- vignettes/clean.sh |only vignettes/modelling.Snw | 675 +++++++++++++++---------- vignettes/tutorial.Rmd | 636 ++++++++++++----------- 87 files changed, 7732 insertions(+), 7509 deletions(-)
Title: In-Process Version of MonetDB for R
Description: An in-process version of MonetDB, a relational database focused on analytical tasks. Similar to SQLite, the database runs entirely inside the R shell, with the main difference that queries complete much faster thanks to MonetDB's columnar architecture.
Author: Hannes Muehleisen [aut, cre], Anthony Damico [aut], Mark Raasveldt [ctb], Thomas Lumley [ctb], MonetDB Development Team [ctb]
Maintainer: Hannes Muehleisen <hannes@cwi.nl>
Diff between MonetDBLite versions 0.2.2 dated 2016-04-23 and 0.3.0 dated 2016-06-13
MonetDBLite-0.2.2/MonetDBLite/R/monetdb.R |only MonetDBLite-0.2.2/MonetDBLite/man/embedded.Rd |only MonetDBLite-0.2.2/MonetDBLite/src/COPYING |only MonetDBLite-0.2.2/MonetDBLite/src/HowToStart.rst |only MonetDBLite-0.2.2/MonetDBLite/src/Makefile.ag |only MonetDBLite-0.2.2/MonetDBLite/src/Makefile.in-e |only MonetDBLite-0.2.2/MonetDBLite/src/Makefile.msc |only MonetDBLite-0.2.2/MonetDBLite/src/MonetDB.spec |only MonetDBLite-0.2.2/MonetDBLite/src/README |only MonetDBLite-0.2.2/MonetDBLite/src/buildtools/Makefile.ag |only MonetDBLite-0.2.2/MonetDBLite/src/buildtools/Makefile.in-e |only MonetDBLite-0.2.2/MonetDBLite/src/buildtools/Makefile.msc |only MonetDBLite-0.2.2/MonetDBLite/src/buildtools/conf/Makefile.ag |only MonetDBLite-0.2.2/MonetDBLite/src/buildtools/conf/Makefile.in-e |only MonetDBLite-0.2.2/MonetDBLite/src/buildtools/conf/Makefile.msc |only MonetDBLite-0.2.2/MonetDBLite/src/buildtools/doc |only MonetDBLite-0.2.2/MonetDBLite/src/clients |only MonetDBLite-0.2.2/MonetDBLite/src/common/Makefile.ag |only MonetDBLite-0.2.2/MonetDBLite/src/common/Makefile.in-e |only MonetDBLite-0.2.2/MonetDBLite/src/common/Makefile.msc |only MonetDBLite-0.2.2/MonetDBLite/src/common/options/Makefile.ag |only MonetDBLite-0.2.2/MonetDBLite/src/common/options/Makefile.in-e |only MonetDBLite-0.2.2/MonetDBLite/src/common/options/Makefile.msc |only MonetDBLite-0.2.2/MonetDBLite/src/common/stream/Makefile.ag |only MonetDBLite-0.2.2/MonetDBLite/src/common/stream/Makefile.in-e |only MonetDBLite-0.2.2/MonetDBLite/src/common/stream/Makefile.msc |only MonetDBLite-0.2.2/MonetDBLite/src/common/utils/Makefile.ag |only MonetDBLite-0.2.2/MonetDBLite/src/common/utils/Makefile.in-e |only MonetDBLite-0.2.2/MonetDBLite/src/common/utils/Makefile.msc |only MonetDBLite-0.2.2/MonetDBLite/src/common/utils/msabaoth.c |only MonetDBLite-0.2.2/MonetDBLite/src/common/utils/msabaoth.h |only MonetDBLite-0.2.2/MonetDBLite/src/configure.ag |only 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MonetDBLite-0.3.0/MonetDBLite/MD5 | 912 MonetDBLite-0.3.0/MonetDBLite/NAMESPACE | 29 MonetDBLite-0.3.0/MonetDBLite/R/control.R |only MonetDBLite-0.3.0/MonetDBLite/R/dbapply.R |only MonetDBLite-0.3.0/MonetDBLite/R/dbi.R |only MonetDBLite-0.3.0/MonetDBLite/R/dplyr.R |only MonetDBLite-0.3.0/MonetDBLite/R/embedded.R |only MonetDBLite-0.3.0/MonetDBLite/R/mapi.R |only MonetDBLite-0.3.0/MonetDBLite/configure | 13 MonetDBLite-0.3.0/MonetDBLite/configure.win | 37 MonetDBLite-0.3.0/MonetDBLite/man/MonetDB.R.Rd |only MonetDBLite-0.3.0/MonetDBLite/man/MonetDBLite.Rd |only MonetDBLite-0.3.0/MonetDBLite/man/control.Rd |only MonetDBLite-0.3.0/MonetDBLite/man/dbApply.Rd |only MonetDBLite-0.3.0/MonetDBLite/man/dbSendUpdate.Rd |only MonetDBLite-0.3.0/MonetDBLite/man/dbTransaction.Rd |only MonetDBLite-0.3.0/MonetDBLite/man/mc.Rd |only MonetDBLite-0.3.0/MonetDBLite/man/ml.Rd |only MonetDBLite-0.3.0/MonetDBLite/man/monetdb.read.csv.Rd |only MonetDBLite-0.3.0/MonetDBLite/man/monetdbRtype.Rd |only 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MonetDBLite-0.3.0/MonetDBLite/src/gdk/gdk_utils.c | 2628 +- MonetDBLite-0.3.0/MonetDBLite/src/gdk/libbat.rc | 8 MonetDBLite-0.3.0/MonetDBLite/src/install.lst | 111 MonetDBLite-0.3.0/MonetDBLite/src/libtool |only MonetDBLite-0.3.0/MonetDBLite/src/libversions | 8 MonetDBLite-0.3.0/MonetDBLite/src/mal |only MonetDBLite-0.3.0/MonetDBLite/src/mapisplit |only MonetDBLite-0.3.0/MonetDBLite/src/monetdb_config.h.in | 11 MonetDBLite-0.3.0/MonetDBLite/src/sql/ChangeLog-Archive | 13 MonetDBLite-0.3.0/MonetDBLite/src/sql/ChangeLog.Jun2016 | 13 MonetDBLite-0.3.0/MonetDBLite/src/sql/Makefile.am | 36 MonetDBLite-0.3.0/MonetDBLite/src/sql/Makefile.in | 53 MonetDBLite-0.3.0/MonetDBLite/src/sql/backends/monet5/Makefile.am | 80 MonetDBLite-0.3.0/MonetDBLite/src/sql/backends/monet5/Makefile.in | 85 MonetDBLite-0.3.0/MonetDBLite/src/sql/backends/monet5/rel_bin.c | 1 MonetDBLite-0.3.0/MonetDBLite/src/sql/backends/monet5/sql.c | 58 MonetDBLite-0.3.0/MonetDBLite/src/sql/backends/monet5/sql_execute.c | 3 MonetDBLite-0.3.0/MonetDBLite/src/sql/backends/monet5/sql_gencode.c | 12 MonetDBLite-0.3.0/MonetDBLite/src/sql/backends/monet5/sql_optimizer.c | 10 MonetDBLite-0.3.0/MonetDBLite/src/sql/backends/monet5/sql_scenario.c | 27 MonetDBLite-0.3.0/MonetDBLite/src/sql/backends/monet5/sql_upgrades.c | 17 MonetDBLite-0.3.0/MonetDBLite/src/sql/backends/monet5/sql_user.c | 1 MonetDBLite-0.3.0/MonetDBLite/src/sql/common/Makefile.am | 14 MonetDBLite-0.3.0/MonetDBLite/src/sql/common/Makefile.in | 14 MonetDBLite-0.3.0/MonetDBLite/src/sql/common/sql_types.c | 11 MonetDBLite-0.3.0/MonetDBLite/src/sql/include/Makefile.am | 2 MonetDBLite-0.3.0/MonetDBLite/src/sql/include/Makefile.in | 2 MonetDBLite-0.3.0/MonetDBLite/src/sql/include/sql_query.h |only MonetDBLite-0.3.0/MonetDBLite/src/sql/scripts/Makefile.am | 51 MonetDBLite-0.3.0/MonetDBLite/src/sql/scripts/Makefile.in | 48 MonetDBLite-0.3.0/MonetDBLite/src/sql/server/Makefile.am | 102 MonetDBLite-0.3.0/MonetDBLite/src/sql/server/Makefile.in | 102 MonetDBLite-0.3.0/MonetDBLite/src/sql/server/rel_optimizer.c | 9 MonetDBLite-0.3.0/MonetDBLite/src/sql/server/rel_partition.c | 2 MonetDBLite-0.3.0/MonetDBLite/src/sql/server/rel_partition.h | 2 MonetDBLite-0.3.0/MonetDBLite/src/sql/server/rel_rel.c | 4 MonetDBLite-0.3.0/MonetDBLite/src/sql/server/rel_schema.c | 4 MonetDBLite-0.3.0/MonetDBLite/src/sql/server/rel_select.c | 7 MonetDBLite-0.3.0/MonetDBLite/src/sql/server/rel_updates.c | 52 MonetDBLite-0.3.0/MonetDBLite/src/sql/server/sql_mvc.c | 26 MonetDBLite-0.3.0/MonetDBLite/src/sql/server/sql_mvc.h | 5 MonetDBLite-0.3.0/MonetDBLite/src/sql/server/sql_parser.tab.c |10785 +++++----- MonetDBLite-0.3.0/MonetDBLite/src/sql/server/sql_parser.tab.h | 94 MonetDBLite-0.3.0/MonetDBLite/src/sql/server/sql_parser.y | 26 MonetDBLite-0.3.0/MonetDBLite/src/sql/server/sql_qc.c | 6 MonetDBLite-0.3.0/MonetDBLite/src/sql/server/sql_scan.c | 2 MonetDBLite-0.3.0/MonetDBLite/src/sql/storage/bat/Makefile.am | 10 MonetDBLite-0.3.0/MonetDBLite/src/sql/storage/bat/Makefile.in | 10 MonetDBLite-0.3.0/MonetDBLite/src/sql/storage/bat/bat_storage.c | 21 MonetDBLite-0.3.0/MonetDBLite/src/sql/storage/bat/bat_table.c | 55 MonetDBLite-0.3.0/MonetDBLite/src/sql/storage/store.c | 11 MonetDBLite-0.3.0/MonetDBLite/src/stamp-h1 |only MonetDBLite-0.3.0/MonetDBLite/tests |only 185 files changed, 8718 insertions(+), 8413 deletions(-)
Title: Performing Continuous-Time Microsimulation
Description: This entry-level toolkit allows performing continuous-time microsimulation for a wide range of demographic applications. Individual life-courses are specified by a continuous-time multi-state model.
Author: Sabine Zinn
Maintainer: Sabine Zinn <sabine.zinn@lifbi.de>
Diff between MicSim versions 1.0.11 dated 2016-02-08 and 1.0.12 dated 2016-06-13
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/micSim.r | 6 +++--- inst/NEWS.Rd | 5 +++++ man/MicSim-package.Rd | 4 ++-- 5 files changed, 18 insertions(+), 13 deletions(-)
Title: Multi-Group Sparse Discriminant Analysis
Description: Implements Multi-Group Sparse Discriminant Analysis proposal of I.Gaynanova, J.Booth and M.Wells (2015), Simultaneous sparse estimation of canonical vectors in the p>>N setting, JASA, to appear,[DOI:10.1080/01621459.2015.1034318].
Author: Irina Gaynanova
Maintainer: Irina Gaynanova <irinag@stat.tamu.edu>
Diff between MGSDA versions 1.3 dated 2016-05-12 and 1.4 dated 2016-06-13
DESCRIPTION | 10 +-- MD5 | 14 ++-- R/classifyV.R | 24 +++---- R/cv.dLDA.R | 163 ++++++++++++++++----------------------------------- R/dLDA.R | 68 ++++++++------------- man/MGSDA-package.Rd | 4 - man/cv.dLDA.Rd | 11 +-- man/dLDA.Rd | 4 - 8 files changed, 112 insertions(+), 186 deletions(-)
Title: Matrix-Based Partial Least Squares Estimation
Description: Partial Least Squares Path Modeling
algorithm and related algorithms. The algorithm implementations aim for
computational efficiency using matrix algebra and covariance data. The
package is designed toward Monte Carlo simulations and includes functions
to perform simple Monte Carlo simulations.
Author: Mikko Rönkkö [aut, cre]
Maintainer: Mikko Rönkkö <mikko.ronkko@aalto.fi>
Diff between matrixpls versions 0.7.0 dated 2016-02-01 and 1.0.0 dated 2016-06-13
matrixpls-0.7.0/matrixpls/R/matrixpls.blindfold.R |only matrixpls-0.7.0/matrixpls/R/matrixpls.convergenceCheck.R |only matrixpls-0.7.0/matrixpls/R/matrixpls.estimators.R |only matrixpls-0.7.0/matrixpls/R/matrixpls.inner.R |only matrixpls-0.7.0/matrixpls/R/matrixpls.outer.R |only matrixpls-0.7.0/matrixpls/R/matrixpls.params.R |only matrixpls-0.7.0/matrixpls/R/matrixpls.reliability.R |only matrixpls-0.7.0/matrixpls/R/matrixpls.signAmbiquityCorrection.R |only matrixpls-0.7.0/matrixpls/R/matrixpls.signChangeCorrection.R |only matrixpls-0.7.0/matrixpls/R/matrixpls.weights.R |only matrixpls-0.7.0/matrixpls/man/convergenceCheck.Rd |only matrixpls-0.7.0/matrixpls/man/innerEstimators.Rd |only matrixpls-0.7.0/matrixpls/man/loadings.matrixpls.Rd |only matrixpls-0.7.0/matrixpls/man/matrixpls.blindfold.Rd |only matrixpls-0.7.0/matrixpls/man/optimCriterion.Rd |only matrixpls-0.7.0/matrixpls/man/outerEstimators.Rd |only matrixpls-0.7.0/matrixpls/man/parameterEstimators.Rd |only matrixpls-0.7.0/matrixpls/man/params.separate.Rd |only matrixpls-0.7.0/matrixpls/man/reliability.weightLoadingProduct.Rd |only matrixpls-0.7.0/matrixpls/man/signAmbiquityCorrection.Rd |only matrixpls-0.7.0/matrixpls/man/signChangeCorrection.Rd |only matrixpls-0.7.0/matrixpls/man/weightAlgorithms.Rd |only matrixpls-1.0.0/matrixpls/DESCRIPTION | 27 matrixpls-1.0.0/matrixpls/MD5 | 104 +-- matrixpls-1.0.0/matrixpls/NAMESPACE | 43 - matrixpls-1.0.0/matrixpls/R/convCheck.R |only matrixpls-1.0.0/matrixpls/R/estimator.R |only matrixpls-1.0.0/matrixpls/R/innerEstim.R |only matrixpls-1.0.0/matrixpls/R/matrixpls.R | 121 ++-- matrixpls-1.0.0/matrixpls/R/matrixpls.boot.R | 292 +++++----- matrixpls-1.0.0/matrixpls/R/matrixpls.crossvalidate.R |only matrixpls-1.0.0/matrixpls/R/matrixpls.optim.R | 62 -- matrixpls-1.0.0/matrixpls/R/matrixpls.plspm.R | 22 matrixpls-1.0.0/matrixpls/R/matrixpls.postestimation.R | 120 +--- matrixpls-1.0.0/matrixpls/R/matrixpls.predict.R |only matrixpls-1.0.0/matrixpls/R/matrixpls.sempls.R | 20 matrixpls-1.0.0/matrixpls/R/matrixpls.sim.R | 36 - matrixpls-1.0.0/matrixpls/R/matrixpls.util.R | 52 + matrixpls-1.0.0/matrixpls/R/outerEstim.R |only matrixpls-1.0.0/matrixpls/R/paramEstimator.R |only matrixpls-1.0.0/matrixpls/R/reliabilityEstim.R |only matrixpls-1.0.0/matrixpls/R/signChange.R |only matrixpls-1.0.0/matrixpls/R/weightFun.R |only matrixpls-1.0.0/matrixpls/R/weightSign.R |only matrixpls-1.0.0/matrixpls/build |only matrixpls-1.0.0/matrixpls/inst/doc |only matrixpls-1.0.0/matrixpls/man/GSCA.Rd | 30 - matrixpls-1.0.0/matrixpls/man/ave.Rd | 5 matrixpls-1.0.0/matrixpls/man/convCheck.Rd |only matrixpls-1.0.0/matrixpls/man/cr.Rd | 5 matrixpls-1.0.0/matrixpls/man/effects.matrixpls.Rd | 2 matrixpls-1.0.0/matrixpls/man/estimator.Rd |only matrixpls-1.0.0/matrixpls/man/fitSummary.Rd | 2 matrixpls-1.0.0/matrixpls/man/fitted.matrixpls.Rd | 4 matrixpls-1.0.0/matrixpls/man/gof.Rd | 2 matrixpls-1.0.0/matrixpls/man/htmt.Rd | 2 matrixpls-1.0.0/matrixpls/man/innerEstim.Rd |only matrixpls-1.0.0/matrixpls/man/loadings.Rd |only matrixpls-1.0.0/matrixpls/man/matrixpls-functions.Rd |only matrixpls-1.0.0/matrixpls/man/matrixpls-package.Rd | 26 matrixpls-1.0.0/matrixpls/man/matrixpls.Rd | 35 - matrixpls-1.0.0/matrixpls/man/matrixpls.boot.Rd | 16 matrixpls-1.0.0/matrixpls/man/matrixpls.crossvalidate.Rd |only matrixpls-1.0.0/matrixpls/man/optimCrit.Rd |only matrixpls-1.0.0/matrixpls/man/outerEstim.Rd |only matrixpls-1.0.0/matrixpls/man/parameterEstim.Rd |only matrixpls-1.0.0/matrixpls/man/predict.matrixpls.Rd | 18 matrixpls-1.0.0/matrixpls/man/q2.Rd | 20 matrixpls-1.0.0/matrixpls/man/r2.Rd | 3 matrixpls-1.0.0/matrixpls/man/reliabilityEstim.Rd |only matrixpls-1.0.0/matrixpls/man/residuals.matrixpls.Rd | 6 matrixpls-1.0.0/matrixpls/man/signChange.Rd |only matrixpls-1.0.0/matrixpls/man/weightFun.Rd |only matrixpls-1.0.0/matrixpls/man/weightSign.Rd |only matrixpls-1.0.0/matrixpls/vignettes |only 75 files changed, 546 insertions(+), 529 deletions(-)
Title: Multivariate ARIMA and ARIMA-X Analysis
Description: Multivariate arima and arima-x estimation using Spliid's algorithm (marima) and simulation (marima.sim).
Author: Henrik Spliid
Maintainer: Henrik Spliid <hspl@dtu.dk>
Diff between marima versions 1.4 dated 2016-04-18 and 1.5 dated 2016-06-13
DESCRIPTION | 11 +- MD5 | 50 +++++----- NAMESPACE | 4 R/Data.R | 4 R/arma.forecasting.R | 36 +++---- R/defining.programs.R | 237 +++++++++++++++++++++++++------------------------- R/marima.R | 50 +++++----- R/marima.sim.R |only R/mat.polyn.R | 59 ++++++------ man/arma.filter.Rd | 14 +- man/arma.forecast.Rd | 26 ++--- man/austr.Rd | 8 - man/check.one.Rd | 9 + man/define.dif.Rd | 30 +++--- man/define.model.Rd | 77 ++++++++-------- man/define.sum.Rd | 19 ++-- man/forec.var.Rd | 20 ++-- man/inverse.form.Rd | 15 +-- man/marima.Rd | 44 +++++---- man/marima.sim.Rd |only man/pol.inv.Rd | 17 ++- man/pol.mul.Rd | 9 + man/pol.order.Rd | 13 +- man/print.marima.Rd | 2 man/rand.shock.Rd | 9 + man/season.lagging.Rd | 15 +-- man/short.form.Rd | 15 +-- 27 files changed, 420 insertions(+), 373 deletions(-)
Title: Interactive Viewing of Spatial Objects in R
Description: Methods to view spatial objects interactively.
Author: Tim Appelhans [cre, aut],
Florian Detsch [aut],
Christoph Reudenbach [aut],
Stefan Woellauer [aut],
Spaska Forteva [ctb],
Thomas Nauss [ctb],
Edzer Pebesma [ctb],
Kenton Russell [ctb],
Environmental Informatics Marburg [ctb]
Maintainer: Tim Appelhans <admin@environmentalinformatics-marburg.de>
Diff between mapview versions 1.0.0 dated 2015-12-15 and 1.1.0 dated 2016-06-13
mapview-1.0.0/mapview/R/list2Polygons.R |only mapview-1.0.0/mapview/R/mapviewTheme.R |only mapview-1.0.0/mapview/R/useCase.R |only mapview-1.0.0/mapview/README |only mapview-1.0.0/mapview/data/datalist |only mapview-1.0.0/mapview/data/hillshadeCHE.rda |only mapview-1.0.0/mapview/data/tmeanCHE.rda |only mapview-1.0.0/mapview/inst/htmlwidgets/lib/leaflet/CONTRIBUTING.md |only mapview-1.0.0/mapview/inst/htmlwidgets/lib/leaflet/FAQ.md |only mapview-1.0.0/mapview/inst/htmlwidgets/lib/leaflet/PLUGIN-GUIDE.md |only mapview-1.0.0/mapview/inst/htmlwidgets/lib/leaflet/README.md |only mapview-1.0.0/mapview/inst/htmlwidgets/lib/leaflet/geojson-vt-dev-README.md |only mapview-1.0.0/mapview/inst/htmlwidgets/lib/leaflet/images/cancel.png |only mapview-1.0.0/mapview/inst/htmlwidgets/lib/leaflet/images/cancel_@2X.png |only mapview-1.0.0/mapview/inst/htmlwidgets/lib/leaflet/images/check.png |only mapview-1.0.0/mapview/inst/htmlwidgets/lib/leaflet/images/check_@2X.png |only mapview-1.0.0/mapview/inst/htmlwidgets/lib/leaflet/images/focus.png |only mapview-1.0.0/mapview/inst/htmlwidgets/lib/leaflet/images/focus_@2X.png |only mapview-1.0.0/mapview/inst/htmlwidgets/lib/leaflet/images/rulers.png |only mapview-1.0.0/mapview/inst/htmlwidgets/lib/leaflet/images/rulers_@2X.png |only mapview-1.0.0/mapview/inst/htmlwidgets/lib/leaflet/images/start.png |only mapview-1.0.0/mapview/inst/htmlwidgets/lib/leaflet/images/start_@2X.png |only mapview-1.0.0/mapview/inst/htmlwidgets/lib/leaflet/images/trash.png |only mapview-1.0.0/mapview/inst/htmlwidgets/lib/leaflet/images/trash_@2X.png |only mapview-1.0.0/mapview/inst/htmlwidgets/lib/leaflet/leaflet-ajax-README.md |only mapview-1.0.0/mapview/inst/htmlwidgets/lib/leaflet/leaflet-measure.min.js |only mapview-1.0.0/mapview/inst/htmlwidgets/lib/leaflet/leaflet-providers-CONTRIBUTING.md |only mapview-1.0.0/mapview/inst/htmlwidgets/lib/leaflet/leaflet-providers-README.md |only mapview-1.0.0/mapview/inst/htmlwidgets/lib/leaflet/leaflet.ajax.js |only mapview-1.0.0/mapview/inst/htmlwidgets/lib/leaflet/leaflet.ajax.min.js |only mapview-1.0.0/mapview/inst/htmlwidgets/lib/leaflet/map-box-README.md |only mapview-1.0.0/mapview/inst/htmlwidgets/lib/leaflet/r-tree-README.md |only mapview-1.0.0/mapview/man/hillshadeCHE.Rd |only mapview-1.0.0/mapview/man/mapviewTheme.Rd |only mapview-1.0.0/mapview/man/spplot.Rd |only mapview-1.0.0/mapview/man/tmeanCHE.Rd |only mapview-1.0.0/mapview/vignettes |only mapview-1.1.0/mapview/DESCRIPTION | 15 mapview-1.1.0/mapview/MD5 | 159 - mapview-1.1.0/mapview/NAMESPACE | 29 mapview-1.1.0/mapview/NEWS |only mapview-1.1.0/mapview/R/addMouseCoordinates.R |only mapview-1.1.0/mapview/R/brewControls.R | 8 mapview-1.1.0/mapview/R/coords2JSON.R | 15 mapview-1.1.0/mapview/R/coords2Lines.R |only mapview-1.1.0/mapview/R/coords2Polygons.R |only mapview-1.1.0/mapview/R/createLegend.R |only mapview-1.1.0/mapview/R/cubeView.R |only mapview-1.1.0/mapview/R/latticeView.R |only mapview-1.1.0/mapview/R/leafletControls.R | 167 + mapview-1.1.0/mapview/R/leafletView.R | 991 +++++++--- mapview-1.1.0/mapview/R/mapView.R | 278 +- mapview-1.1.0/mapview/R/mapViewPalette.R | 55 mapview-1.1.0/mapview/R/mapshot.R |only mapview-1.1.0/mapview/R/mapview-package.R | 33 mapview-1.1.0/mapview/R/mapviewColors.R | 68 mapview-1.1.0/mapview/R/mapviewControls.R |only mapview-1.1.0/mapview/R/mapviewOptions.R | 170 + mapview-1.1.0/mapview/R/plainView.R | 40 mapview-1.1.0/mapview/R/plus.R | 12 mapview-1.1.0/mapview/R/popupGraph.R |only mapview-1.1.0/mapview/R/popupImage.R |only mapview-1.1.0/mapview/R/popupTable.R |only mapview-1.1.0/mapview/R/print-methods.R |only mapview-1.1.0/mapview/R/print.R | 9 mapview-1.1.0/mapview/R/show.R | 2 mapview-1.1.0/mapview/R/slideView.R | 4 mapview-1.1.0/mapview/R/spplot.R | 247 +- mapview-1.1.0/mapview/R/viewExtent.R | 49 mapview-1.1.0/mapview/R/viewRGB.R | 6 mapview-1.1.0/mapview/R/xvecView.R | 45 mapview-1.1.0/mapview/README.md | 28 mapview-1.1.0/mapview/data/atlStorms2005.rda |binary mapview-1.1.0/mapview/data/breweries91.rda |binary mapview-1.1.0/mapview/data/gadmCHE.rda |binary mapview-1.1.0/mapview/data/poppendorf.rda |binary mapview-1.1.0/mapview/inst/extdata |only mapview-1.1.0/mapview/inst/htmlwidgets/cubeView.js |only mapview-1.1.0/mapview/inst/htmlwidgets/cubeView.yaml |only mapview-1.1.0/mapview/inst/htmlwidgets/fpView.js | 4 mapview-1.1.0/mapview/inst/htmlwidgets/fpView.yaml | 12 mapview-1.1.0/mapview/inst/htmlwidgets/lib/Leaflet.Sync |only mapview-1.1.0/mapview/inst/htmlwidgets/lib/TrackballControls-r74 |only mapview-1.1.0/mapview/inst/htmlwidgets/lib/cubeView_style |only mapview-1.1.0/mapview/inst/htmlwidgets/lib/glify/leaflet.glify.js | 525 ----- mapview-1.1.0/mapview/inst/htmlwidgets/lib/leaflet/leaflet.css | 9 mapview-1.1.0/mapview/inst/htmlwidgets/lib/leaflet/leaflet.js | 8 mapview-1.1.0/mapview/inst/htmlwidgets/lib/three.js-r74 |only mapview-1.1.0/mapview/man/addMouseCoordinates.Rd |only mapview-1.1.0/mapview/man/coords2Lines.Rd |only mapview-1.1.0/mapview/man/coords2Polygons.Rd |only mapview-1.1.0/mapview/man/cubeView.Rd |only mapview-1.1.0/mapview/man/cubeViewOutput.Rd |only mapview-1.1.0/mapview/man/gadmCHE.Rd | 4 mapview-1.1.0/mapview/man/knit_print.mapview.Rd |only mapview-1.1.0/mapview/man/latticeView.Rd |only mapview-1.1.0/mapview/man/mapView.Rd | 143 - mapview-1.1.0/mapview/man/mapshot.Rd |only mapview-1.1.0/mapview/man/mapviewColors.Rd | 15 mapview-1.1.0/mapview/man/mapviewOptions.Rd | 29 mapview-1.1.0/mapview/man/mapviewOutput.Rd |only mapview-1.1.0/mapview/man/mapviewPalette.Rd | 15 mapview-1.1.0/mapview/man/plainView.Rd | 27 mapview-1.1.0/mapview/man/plus.Rd | 4 mapview-1.1.0/mapview/man/poppendorf.Rd | 2 mapview-1.1.0/mapview/man/popupGraph.Rd |only mapview-1.1.0/mapview/man/popupImage.Rd |only mapview-1.1.0/mapview/man/popupTable.Rd |only mapview-1.1.0/mapview/man/print-mapview-method.Rd |only mapview-1.1.0/mapview/man/renderCubeView.Rd |only mapview-1.1.0/mapview/man/renderMapview.Rd |only mapview-1.1.0/mapview/man/slideView.Rd | 4 mapview-1.1.0/mapview/man/viewExtent.Rd | 2 mapview-1.1.0/mapview/man/viewRGB.Rd | 8 mapview-1.1.0/mapview/src/brewCppFun.cpp | 13 115 files changed, 1862 insertions(+), 1392 deletions(-)
Title: QA Machina Indicators
Description: Performs QA on Machina (see <https://machi.na/> for more information) algebraic indicators 'sma' (simple moving average), 'wavg' (weighted average),'xavg' (exponential moving average), 'hma' (Hull moving average), 'adma' (adaptive moving average), 'tsi' (true strength index), 'rsi' (relative strength index), 'gauss' (Gaussian elimination), 'momo' (momentum), 't3' (triple exponential moving average), 'macd' (moving average convergence divergence).
Author: Norton Tim [aut, cre]
Maintainer: Norton Tim <tnorton@machi.na>
Diff between machQA versions 0.1.1 dated 2016-06-06 and 0.1.2 dated 2016-06-13
DESCRIPTION | 12 +++++------- MD5 | 6 +++--- R/machQA.R | 29 ++++++++++++++++++++++------- R/versions.R | 2 ++ 4 files changed, 32 insertions(+), 17 deletions(-)
Title: Financial and Actuarial Mathematics for Life Contingencies
Description: Classes and methods that allow the user to manage life table,
actuarial tables (also multiple decrement tables). Moreover, functions to easily
perform demographic, financial and actuarial mathematics on life contingencies
insurances calculations are contained therein.
Author: Giorgio Alfredo Spedicato [cre,aut], Reinhold Kainhofer [ctb], Kevin J.
Owens [ctb], Christophe Dutang [ctb], Ernesto Schirmacher[ctb]
Maintainer: Giorgio Alfredo Spedicato <spedicato_giorgio@yahoo.it>
Diff between lifecontingencies versions 1.1.12 dated 2016-05-12 and 1.2 dated 2016-06-13
ChangeLog | 5 DESCRIPTION | 12 - MD5 | 23 +-- NEWS | 4 R/0_lifetableAndActuarialtableClassesAndMethods.R | 106 ++++++++++++-- R/5_actuarialFunctions.R | 2 inst/doc/an_introduction_to_lifecontingencies_package.pdf |binary inst/doc/introToLifecontingencies.pdf |binary man/actuarialtable-class.Rd | 1 man/lifetable-class.Rd | 1 tests/testthat/testActuarialMathematics.R | 64 ++++++++ tests/testthat/testDemography.R | 23 +++ tests/testthat/testObjectInitialization.R |only 13 files changed, 208 insertions(+), 33 deletions(-)
More information about lifecontingencies at CRAN
Permanent link
Title: Lazy (Non-Standard) Evaluation
Description: An alternative approach to non-standard evaluation using
formulas. Provides a full implementation of LISP style 'quasiquotation',
making it easier to generate code with other code.
Author: Hadley Wickham [aut, cre],
RStudio [cph]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between lazyeval versions 0.1.10 dated 2015-01-02 and 0.2.0 dated 2016-06-13
lazyeval-0.1.10/lazyeval/R/as-lazy.R |only lazyeval-0.1.10/lazyeval/R/eval.R |only lazyeval-0.1.10/lazyeval/R/interp.R |only lazyeval-0.1.10/lazyeval/R/make-call.R |only lazyeval-0.1.10/lazyeval/R/names.R |only lazyeval-0.1.10/lazyeval/R/promise.R |only lazyeval-0.1.10/lazyeval/inst/doc/benchmark.R |only lazyeval-0.1.10/lazyeval/inst/doc/benchmark.Rmd |only lazyeval-0.1.10/lazyeval/inst/doc/benchmark.html |only lazyeval-0.1.10/lazyeval/inst/doc/chained-promises.R |only lazyeval-0.1.10/lazyeval/inst/doc/chained-promises.Rmd |only lazyeval-0.1.10/lazyeval/inst/doc/chained-promises.html |only lazyeval-0.1.10/lazyeval/src/make_call.c |only lazyeval-0.1.10/lazyeval/src/promises.c |only lazyeval-0.1.10/lazyeval/vignettes/benchmark.Rmd |only lazyeval-0.1.10/lazyeval/vignettes/chained-promises.Rmd |only lazyeval-0.2.0/lazyeval/DESCRIPTION | 23 lazyeval-0.2.0/lazyeval/MD5 | 116 +- lazyeval-0.2.0/lazyeval/NAMESPACE | 68 + lazyeval-0.2.0/lazyeval/NEWS.md |only lazyeval-0.2.0/lazyeval/R/ast.R |only lazyeval-0.2.0/lazyeval/R/call.R |only lazyeval-0.2.0/lazyeval/R/complain.R |only lazyeval-0.2.0/lazyeval/R/expr.R |only lazyeval-0.2.0/lazyeval/R/f-capture.R |only lazyeval-0.2.0/lazyeval/R/f-eval.R |only lazyeval-0.2.0/lazyeval/R/f-interp.R |only lazyeval-0.2.0/lazyeval/R/formula.R |only lazyeval-0.2.0/lazyeval/R/function.R |only lazyeval-0.2.0/lazyeval/R/language.R |only lazyeval-0.2.0/lazyeval/R/lazy-as.R |only lazyeval-0.2.0/lazyeval/R/lazy-call.R |only lazyeval-0.2.0/lazyeval/R/lazy-dots.R | 7 lazyeval-0.2.0/lazyeval/R/lazy-eval.R |only lazyeval-0.2.0/lazyeval/R/lazy-interp.R |only lazyeval-0.2.0/lazyeval/R/lazy-names.R |only lazyeval-0.2.0/lazyeval/R/utils.R | 36 lazyeval-0.2.0/lazyeval/README.md | 39 lazyeval-0.2.0/lazyeval/build/vignette.rds |binary lazyeval-0.2.0/lazyeval/inst/doc/lazyeval-old.R |only lazyeval-0.2.0/lazyeval/inst/doc/lazyeval-old.Rmd |only lazyeval-0.2.0/lazyeval/inst/doc/lazyeval-old.html |only lazyeval-0.2.0/lazyeval/inst/doc/lazyeval.R | 342 ++++++- lazyeval-0.2.0/lazyeval/inst/doc/lazyeval.Rmd | 628 +++++++++++-- lazyeval-0.2.0/lazyeval/inst/doc/lazyeval.html | 701 +++++++++++---- lazyeval-0.2.0/lazyeval/man/all_dots.Rd | 4 lazyeval-0.2.0/lazyeval/man/as.lazy.Rd | 4 lazyeval-0.2.0/lazyeval/man/as_name.Rd |only lazyeval-0.2.0/lazyeval/man/ast_.Rd |only lazyeval-0.2.0/lazyeval/man/auto_name.Rd | 4 lazyeval-0.2.0/lazyeval/man/call_modify.Rd |only lazyeval-0.2.0/lazyeval/man/call_new.Rd |only lazyeval-0.2.0/lazyeval/man/common_env.Rd | 4 lazyeval-0.2.0/lazyeval/man/expr_label.Rd |only lazyeval-0.2.0/lazyeval/man/f_capture.Rd |only lazyeval-0.2.0/lazyeval/man/f_eval.Rd |only lazyeval-0.2.0/lazyeval/man/f_interp.Rd |only lazyeval-0.2.0/lazyeval/man/f_list.Rd |only lazyeval-0.2.0/lazyeval/man/f_new.Rd |only lazyeval-0.2.0/lazyeval/man/f_rhs.Rd |only lazyeval-0.2.0/lazyeval/man/f_text.Rd |only lazyeval-0.2.0/lazyeval/man/f_unwrap.Rd |only lazyeval-0.2.0/lazyeval/man/function_new.Rd |only lazyeval-0.2.0/lazyeval/man/interp.Rd | 6 lazyeval-0.2.0/lazyeval/man/is_formula.Rd |only lazyeval-0.2.0/lazyeval/man/is_lang.Rd |only lazyeval-0.2.0/lazyeval/man/lazy_.Rd | 2 lazyeval-0.2.0/lazyeval/man/lazy_dots.Rd | 6 lazyeval-0.2.0/lazyeval/man/lazy_eval.Rd | 4 lazyeval-0.2.0/lazyeval/man/make_call.Rd | 4 lazyeval-0.2.0/lazyeval/man/missing_arg.Rd | 7 lazyeval-0.2.0/lazyeval/src/expr.c |only lazyeval-0.2.0/lazyeval/src/interp.c |only lazyeval-0.2.0/lazyeval/src/lazy.c | 46 lazyeval-0.2.0/lazyeval/src/name.c |only lazyeval-0.2.0/lazyeval/src/utils.c |only lazyeval-0.2.0/lazyeval/src/utils.h |only lazyeval-0.2.0/lazyeval/tests/testthat/ast-irregular.txt |only lazyeval-0.2.0/lazyeval/tests/testthat/ast-sample.txt |only lazyeval-0.2.0/lazyeval/tests/testthat/test-ast.R |only lazyeval-0.2.0/lazyeval/tests/testthat/test-call.R |only lazyeval-0.2.0/lazyeval/tests/testthat/test-complain.R |only lazyeval-0.2.0/lazyeval/tests/testthat/test-dots.R |only lazyeval-0.2.0/lazyeval/tests/testthat/test-expr.R |only lazyeval-0.2.0/lazyeval/tests/testthat/test-f-capture.R |only lazyeval-0.2.0/lazyeval/tests/testthat/test-f-eval.R |only lazyeval-0.2.0/lazyeval/tests/testthat/test-f-interp.R |only lazyeval-0.2.0/lazyeval/tests/testthat/test-f-list.R |only lazyeval-0.2.0/lazyeval/tests/testthat/test-f-unwrap.R |only lazyeval-0.2.0/lazyeval/tests/testthat/test-formula.R |only lazyeval-0.2.0/lazyeval/tests/testthat/test-function.R |only lazyeval-0.2.0/lazyeval/tests/testthat/test-language.R |only lazyeval-0.2.0/lazyeval/tests/testthat/test-lazy.R |only lazyeval-0.2.0/lazyeval/vignettes/lazyeval-old.Rmd |only lazyeval-0.2.0/lazyeval/vignettes/lazyeval.Rmd | 628 +++++++++++-- lazyeval-0.2.0/lazyeval/vignettes/lazyeval.nb.html |only 96 files changed, 2195 insertions(+), 484 deletions(-)
Title: K-Sample Rank Tests and their Combinations
Description: Compares k samples using the Anderson-Darling test, Kruskal-Wallis type tests
with different rank score criteria, Steel's multiple comparison test, and the
Jonckheere-Terpstra (JT) test. It computes asymptotic, simulated or (limited) exact
P-values, all valid under randomization, with or without ties, or conditionally
under random sampling from populations, given the observed tie pattern. Except for
Steel's test and the JT test it also combines these tests across several blocks of
samples. Also analyzed are 2 x t contingency tables and their blocked combinations
using the Kruskal-Wallis criterion. Steel's test is inverted to provide simultaneous
confidence bounds for shift parameters. A plotting function compares tail probabilities
obtained under asymptotic approximation with those obtained via simulation or exact
calculations.
Author: Fritz Scholz [aut, cre],
Angie Zhu [aut]
Maintainer: Fritz Scholz <fscholz@u.washington.edu>
Diff between kSamples versions 1.2-3 dated 2016-02-17 and 1.2-4 dated 2016-06-13
DESCRIPTION | 8 +++--- MD5 | 8 +++--- R/ad.test.R | 60 ++++++++++++++++++++++++++++++------------------ R/ad.test.combined.R | 15 +++++++++--- man/kSamples-package.Rd | 4 +-- 5 files changed, 60 insertions(+), 35 deletions(-)
Title: Time Series Analysis Toolkit Based on Symbolic Aggregate
Dicretization, i.e. SAX
Description: Implements time series z-normalization, SAX, HOT-SAX, VSM, SAX-VSM, RePair, and RRA
algorithms facilitating time series motif (i.e., recurrent pattern), discord (i.e., anomaly),
and characteristic pattern discovery along with interpretable time series classification.
Author: Pavel Senin [aut, cre]
Maintainer: Pavel Senin <seninp@gmail.com>
Diff between jmotif versions 1.0.2 dated 2015-12-08 and 1.0.2.900 dated 2016-06-13
jmotif-1.0.2.900/jmotif/DESCRIPTION | 17 jmotif-1.0.2.900/jmotif/MD5 | 113 jmotif-1.0.2.900/jmotif/NAMESPACE | 7 jmotif-1.0.2.900/jmotif/R/RcppExports.R | 281 +- jmotif-1.0.2.900/jmotif/README.md | 331 ++ jmotif-1.0.2.900/jmotif/inst |only jmotif-1.0.2.900/jmotif/man/CBF.Rd | 2 jmotif-1.0.2.900/jmotif/man/Gun_Point.Rd | 2 jmotif-1.0.2.900/jmotif/man/alphabet_to_cuts.Rd | 2 jmotif-1.0.2.900/jmotif/man/bags_to_tfidf.Rd | 2 jmotif-1.0.2.900/jmotif/man/cosine_dist.Rd | 2 jmotif-1.0.2.900/jmotif/man/cosine_sim.Rd | 8 jmotif-1.0.2.900/jmotif/man/early_abandoned_dist.Rd | 2 jmotif-1.0.2.900/jmotif/man/ecg0606.Rd | 2 jmotif-1.0.2.900/jmotif/man/euclidean_dist.Rd | 2 jmotif-1.0.2.900/jmotif/man/find_discords_brute_force.Rd | 2 jmotif-1.0.2.900/jmotif/man/find_discords_hotsax.Rd |only jmotif-1.0.2.900/jmotif/man/find_discords_rra.Rd |only jmotif-1.0.2.900/jmotif/man/idx_to_letter.Rd | 2 jmotif-1.0.2.900/jmotif/man/is_equal_mindist.Rd | 2 jmotif-1.0.2.900/jmotif/man/is_equal_str.Rd | 2 jmotif-1.0.2.900/jmotif/man/letter_to_idx.Rd | 2 jmotif-1.0.2.900/jmotif/man/letters_to_idx.Rd | 2 jmotif-1.0.2.900/jmotif/man/manyseries_to_wordbag.Rd | 2 jmotif-1.0.2.900/jmotif/man/min_dist.Rd | 2 jmotif-1.0.2.900/jmotif/man/paa.Rd | 2 jmotif-1.0.2.900/jmotif/man/sax_by_chunking.Rd | 2 jmotif-1.0.2.900/jmotif/man/sax_distance_matrix.Rd | 2 jmotif-1.0.2.900/jmotif/man/sax_via_window.Rd | 2 jmotif-1.0.2.900/jmotif/man/series_to_chars.Rd | 2 jmotif-1.0.2.900/jmotif/man/series_to_string.Rd | 2 jmotif-1.0.2.900/jmotif/man/series_to_wordbag.Rd | 2 jmotif-1.0.2.900/jmotif/man/str_to_repair_grammar.Rd |only jmotif-1.0.2.900/jmotif/man/subseries.Rd | 2 jmotif-1.0.2.900/jmotif/man/znorm.Rd | 13 jmotif-1.0.2.900/jmotif/src/Makevars |only jmotif-1.0.2.900/jmotif/src/RcppExports.cpp | 210 - jmotif-1.0.2.900/jmotif/src/discord.cpp |only jmotif-1.0.2.900/jmotif/src/distance.cpp |only jmotif-1.0.2.900/jmotif/src/hot-sax.cpp |only jmotif-1.0.2.900/jmotif/src/jmotif.cpp | 1277 ---------- jmotif-1.0.2.900/jmotif/src/paa.cpp |only jmotif-1.0.2.900/jmotif/src/repair.cpp |only jmotif-1.0.2.900/jmotif/src/repair_digram.cpp |only jmotif-1.0.2.900/jmotif/src/repair_guard.cpp |only jmotif-1.0.2.900/jmotif/src/repair_priority_queue.cpp |only jmotif-1.0.2.900/jmotif/src/repair_rule.cpp |only jmotif-1.0.2.900/jmotif/src/repair_symbol.cpp |only jmotif-1.0.2.900/jmotif/src/repair_symbol_record.cpp |only jmotif-1.0.2.900/jmotif/src/rra.cpp |only jmotif-1.0.2.900/jmotif/src/sax-vsm.cpp |only jmotif-1.0.2.900/jmotif/src/sax.cpp |only jmotif-1.0.2.900/jmotif/src/string.cpp |only jmotif-1.0.2.900/jmotif/src/utils.cpp |only jmotif-1.0.2.900/jmotif/src/visit_registry.cpp |only jmotif-1.0.2.900/jmotif/src/znorm.cpp |only jmotif-1.0.2.900/jmotif/tests/testthat/test_PAA.R | 18 jmotif-1.0.2.900/jmotif/tests/testthat/test_RePair_in_Paper.R |only jmotif-1.0.2.900/jmotif/tests/testthat/test_RePair_via_decompression.R |only jmotif-1.0.2.900/jmotif/tests/testthat/test_SAX_simple.R | 6 jmotif-1.0.2.900/jmotif/tests/testthat/test_cosine_sim.R | 2 jmotif-1.0.2.900/jmotif/tests/testthat/test_discord_brute_force.R | 20 jmotif-1.0.2.900/jmotif/tests/testthat/test_discord_hot_sax.R | 22 jmotif-1.0.2.900/jmotif/tests/testthat/test_discord_rra.R |only jmotif-1.0.2.900/jmotif/tests/testthat/test_euclidean_dist.R | 4 jmotif-1.0.2.900/jmotif/tests/testthat/test_min_dist_equal.R | 6 jmotif-1.0.2.900/jmotif/tests/testthat/test_tfidf.R | 4 jmotif-1.0.2.900/jmotif/tests/testthat/test_wordbag.R | 3 jmotif-1.0.2.900/jmotif/tests/testthat/test_znorm.R | 18 jmotif-1.0.2/jmotif/man/col_means.Rd |only jmotif-1.0.2/jmotif/man/find_discords_hot_sax.Rd |only jmotif-1.0.2/jmotif/tests/testthat/test_col_means.R |only 72 files changed, 761 insertions(+), 1647 deletions(-)
Title: Interpreting Time Series and Autocorrelated Data Using GAMMs
Description: GAMM (Generalized Additive Mixed Modeling; Lin & Zhang, 1999)
as implemented in the R package 'mgcv' (Wood, S.N., 2006; 2011) is a nonlinear
regression analysis which is particularly useful for time course data such as
EEG, pupil dilation, gaze data (eye tracking), and articulography recordings,
but also for behavioral data such as reaction times and response data. As time
course measures are sensitive to autocorrelation problems, GAMMs implements
methods to reduce the autocorrelation problems. This package includes functions
for the evaluation of GAMM models (e.g., model comparisons, determining regions
of significance, inspection of autocorrelational structure in residuals)
and interpreting of GAMMs (e.g., visualization of complex interactions, and
contrasts).
Author: Jacolien van Rij [aut, cre],
Martijn Wieling [aut],
R. Harald Baayen [aut],
Hedderik van Rijn [ctb]
Maintainer: Jacolien van Rij <vanrij.jacolien@gmail.com>
Diff between itsadug versions 2.1 dated 2016-05-28 and 2.2 dated 2016-06-13
DESCRIPTION | 8 +- MD5 | 22 +++--- R/inspect.R | 20 +++--- R/itsadug.R | 2 R/plot.R | 92 ++++++++++++++++++--------- R/test.R | 4 - inst/NEWS | 13 +++ inst/doc/acf.html | 34 +++++----- inst/doc/inspect.html | 166 +++++++++++++++++++++++++------------------------- inst/doc/test.html | 4 - man/fadeRug.Rd | 55 ++++++++++------ man/plot_smooth.Rd | 10 ++- 12 files changed, 250 insertions(+), 180 deletions(-)
Title: Check, Install and Load CRAN & USGS GRAN Packages
Description: Checks the local R library(ies) to see if the required
package(s) is/are installed or not. If the package(s) is/are
not installed, then the package(s) will be installed along with
the required dependency(ies). This function pulls source or
binary packages from the Rstudio-sponsored CRAN mirror and/or
the USGS GRAN Repository. Lastly, the chosen package(s)
is/are loaded.
Author: maloneypatr [aut, cre] (Author of original install_load function, see
http://stackoverflow.com/questions/15155814/
check-if-r-package-is-installed-then-load-library), Irucka Embry [aut, ctb]
Maintainer: Irucka Embry <iembry@ecoccs.com>
Diff between install.load versions 1.0.4 dated 2016-02-03 and 1.1.1 dated 2016-06-13
DESCRIPTION | 19 +++++++++---------- MD5 | 14 ++++++++------ NAMESPACE | 1 + NEWS.md | 17 +++++++++++++++-- R/install_load.R | 6 +++--- R/load_package.R |only README.md | 18 +++++++++++++++++- man/install_load.Rd | 3 +-- man/load_package.Rd |only 9 files changed, 54 insertions(+), 24 deletions(-)
Title: Finds the Inflection Point of a Curve
Description: Implementation of methods Extremum Surface Estimator and Extremum Distance Estimator for identifying the inflection point of a convex/concave curve.
Author: Demetris T. Christopoulos
Maintainer: Demetris T. Christopoulos <dchristop@econ.uoa.gr>
Diff between inflection versions 1.1 dated 2013-04-04 and 1.2 dated 2016-06-13
inflection-1.1/inflection/R/eixf.R |only inflection-1.1/inflection/man/eixf.Rd |only inflection-1.2/inflection/DESCRIPTION | 16 inflection-1.2/inflection/MD5 | 34 + inflection-1.2/inflection/NAMESPACE | 5 inflection-1.2/inflection/R/bede.R |only inflection-1.2/inflection/R/bese.R |only inflection-1.2/inflection/R/ede.R |only inflection-1.2/inflection/R/edeci.R |only inflection-1.2/inflection/R/ese.R |only inflection-1.2/inflection/R/findipiterplot.R | 401 +++++++++++--------- inflection-1.2/inflection/R/findipl.R | 41 -- inflection-1.2/inflection/R/findiplist.R | 52 -- inflection-1.2/inflection/README |only inflection-1.2/inflection/inst |only inflection-1.2/inflection/man/bede.Rd |only inflection-1.2/inflection/man/bese.Rd |only inflection-1.2/inflection/man/ede.Rd |only inflection-1.2/inflection/man/edeci.Rd |only inflection-1.2/inflection/man/ese.Rd |only inflection-1.2/inflection/man/findipiterplot.Rd | 111 ++--- inflection-1.2/inflection/man/findipl.Rd | 44 +- inflection-1.2/inflection/man/findiplist.Rd | 73 +-- inflection-1.2/inflection/man/inflection-package.Rd | 139 +++--- inflection-1.2/inflection/man/lin2.Rd | 2 25 files changed, 464 insertions(+), 454 deletions(-)
Title: Imputation Methods for Multivariate Multinomial Data
Description: Implements imputation methods using EM and Data Augmentation for
multinomial data following the work of Schafer 1997 <ISBN: 978-0-412-04061-0>.
Author: Alex Whitworth [aut, cre]
Maintainer: Alex Whitworth <whitworth.alex@gmail.com>
Diff between imputeMulti versions 0.4.6 dated 2016-05-26 and 0.5.2 dated 2016-06-13
DESCRIPTION | 11 ++++++----- MD5 | 13 ++++++++----- R/int-count_levels.R | 11 ++++++++--- R/int-search_z_Os_y.R |only R/multinomial_data_aug.R | 7 ++----- R/multinomial_em.R | 7 ++----- R/multinomial_impute.R | 21 +++++++++++++-------- tests/testthat/test-multinomial_stats.R |only tests/testthat/test-search_z_Os_y.R |only 9 files changed, 39 insertions(+), 31 deletions(-)
Title: Irucka Embry's Miscellaneous Data Collection
Description: Miscellaneous data sets [Environmental/Water Resources
Engineering].
Author: Irucka Embry [aut, cre]
Maintainer: Irucka Embry <iembry@ecoccs.com>
Diff between iemiscdata versions 0.5.1 dated 2016-05-30 and 0.5.2 dated 2016-06-13
DESCRIPTION | 12 +++--- MD5 | 21 ++++++------ NEWS.md | 6 ++- README.md | 50 ++++++++++++----------------- build/vignette.rds |binary inst/doc/Mannings-n-examples-vignette.R |only inst/doc/Mannings-n-examples-vignette.Rmd | 4 +- inst/doc/Mannings-n-examples-vignette.html | 34 ++++++++++++++++++- inst/doc/View-PDF-table-vignette.Rmd | 8 ++++ inst/doc/View-PDF-table-vignette.html | 6 ++- vignettes/Mannings-n-examples-vignette.Rmd | 4 +- vignettes/View-PDF-table-vignette.Rmd | 8 ++++ 12 files changed, 97 insertions(+), 56 deletions(-)
Title: Irucka Embry's Miscellaneous Functions
Description: A collection of Irucka Embry's miscellaneous functions
(Engineering Economics, Environmental/Water Resources Engineering,
Geometry, Statistics, GNU Octave length functions, etc.).
Author: Irucka Embry [aut, cre], Felix Andrews [aut, ctb] (zoo), Hans Werner
Borchers [aut, ctb] (pracma), Samit Basu [aut, ctb] (FreeMat)
Maintainer: Irucka Embry <iembry@ecoccs.com>
Diff between iemisc versions 0.6.2 dated 2016-05-30 and 0.9.0 dated 2016-06-13
DESCRIPTION | 15 +- MD5 | 35 +++--- NEWS.md | 15 +- R/Manningcirc.R | 206 ++++++++++++++++++++++++++++++--------- R/Manningpara.R | 259 +++++++++++++++++++++++++++++++++++++++---------- R/Manningrect.R | 253 +++++++++++++++++++++++++++++++++++++----------- R/Manningtrap.R | 265 ++++++++++++++++++++++++++++++++++++++------------- R/Manningtri.R | 241 +++++++++++++++++++++++++++++++++++----------- R/iemisc.R | 4 R/size.R | 9 - man/Manningcirc.Rd | 80 ++++++++++++--- man/Manningpara.Rd | 52 +++++++--- man/Manningrect.Rd | 78 ++++++++++----- man/Manningtrap.Rd | 64 ++++++++---- man/Manningtri.Rd | 69 +++++++++---- man/iemisc.Rd | 2 man/length_octave.Rd | 1 man/numel.Rd | 3 vignettes |only 19 files changed, 1240 insertions(+), 411 deletions(-)
Title: Models for Health Economic Evaluation
Description: Health Economic Evaluation Modelling.
Markov models (homogeneous and non-homogeneous)
for health economic evaluation. Model comparison,
sensitivity and probabilistic analysis.
Author: Kevin Zarca [aut], Antoine Filipovic-Pierucci [aut,cre]
Maintainer: Antoine Filipovic-Pierucci <pierucci@gmail.com>
Diff between heemod versions 0.3.1 dated 2016-04-04 and 0.3.2 dated 2016-06-13
heemod-0.3.1/heemod/tests/testthat/Rplots.pdf |only heemod-0.3.2/heemod/COPYING | 30 heemod-0.3.2/heemod/DESCRIPTION | 6 heemod-0.3.2/heemod/MD5 | 237 +-- heemod-0.3.2/heemod/NAMESPACE | 188 +- heemod-0.3.2/heemod/R/density.R | 150 +- heemod-0.3.2/heemod/R/efficiency_frontier.R | 42 heemod-0.3.2/heemod/R/gho_mortality.R | 196 +- heemod-0.3.2/heemod/R/imports.R | 122 - heemod-0.3.2/heemod/R/matrix_define.R | 258 +-- heemod-0.3.2/heemod/R/matrix_eval.R | 166 +- heemod-0.3.2/heemod/R/matrix_plot.R | 112 - heemod-0.3.2/heemod/R/model_define.R | 180 +- heemod-0.3.2/heemod/R/model_eval.R | 360 ++--- heemod-0.3.2/heemod/R/model_print.R | 148 +- heemod-0.3.2/heemod/R/newdata.R | 220 +-- heemod-0.3.2/heemod/R/param_define.R | 234 +-- heemod-0.3.2/heemod/R/param_eval.R | 56 heemod-0.3.2/heemod/R/param_print.R | 22 heemod-0.3.2/heemod/R/resamp_define.R | 364 ++--- heemod-0.3.2/heemod/R/resamp_eval.R | 222 +-- heemod-0.3.2/heemod/R/resamp_print.R | 158 +- heemod-0.3.2/heemod/R/run_model_define.R | 406 ++--- heemod-0.3.2/heemod/R/run_model_summary.R | 229 +-- heemod-0.3.2/heemod/R/sensitivity_define.R | 94 - 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Title: Retrieves Data from Google Maps APIs
Description: Retrieves data from six Google Maps APIs: directions, distances, elevation, geocode, reverse geocode and timezone. Also able to decode encoded location data.
Author: David Cooley [aut, cre],
Paulo Barcelos [ctb] (Author of c++ decode_pl)
Maintainer: David Cooley <dcooley@symbolix.com.au>
Diff between googleway versions 0.2.0 dated 2016-05-30 and 1.0.0 dated 2016-06-13
googleway-0.2.0/googleway/DESCRIPTION |only googleway-0.2.0/googleway/MD5 |only googleway-0.2.0/googleway/NAMESPACE |only googleway-0.2.0/googleway/NEWS.md |only googleway-0.2.0/googleway/R |only googleway-0.2.0/googleway/build |only googleway-0.2.0/googleway/inst/doc/googleway-vignette.Rmd |only googleway-0.2.0/googleway/man |only googleway-0.2.0/googleway/src |only googleway-0.2.0/googleway/tests |only googleway-0.2.0/googleway/vignettes |only googleway-1.0.0/googleway/inst/doc/googleway-vignette.R | 10 - googleway-1.0.0/googleway/inst/doc/googleway-vignette.html | 85 ++----------- 13 files changed, 18 insertions(+), 77 deletions(-)
Title: Goodness-of-Fit Tests for Copulae
Description: Several GoF tests for Copulae are provided. A new hybrid test is implemented which supports all of the individual tests. Estimation methods for the margins are provided. All the tests support parameter estimation and predefined values. The parameters are estimated by pseudo maximum likelihood but if it fails the estimation switches automatically to inversion of Kendall's tau.
Author: Ostap Okhrin <ostap.okhrin@tu-dresden.de>,
Simon Trimborn <simon.trimborn@wiwi.hu-berlin.de>,
Shulin Zhang <slzhang@swufe.edu.cn>,
Qian M. Zhou <qmzhou@sfu.ca>
Maintainer: Simon Trimborn <simon.trimborn@wiwi.hu-berlin.de>
Diff between gofCopula versions 0.1-2 dated 2016-01-27 and 0.1-3 dated 2016-06-13
gofCopula |only 1 file changed
Title: Genome-Wide Haplotyping
Description: Haplotype calling from phased SNP data.
Author: Yuri Tani Utsunomiya, Marco Milanesi
Maintainer: Yuri Tani Utsunomiya <ytutsunomiya@gmail.com>
Diff between GHap versions 1.2.0 dated 2016-05-03 and 1.2.1 dated 2016-06-13
GHap-1.2.0/GHap/inst/vignette.Rmd |only GHap-1.2.1/GHap/DESCRIPTION | 10 +- GHap-1.2.1/GHap/MD5 | 42 +++++++---- GHap-1.2.1/GHap/NAMESPACE | 4 - GHap-1.2.1/GHap/R/assoc.R | 137 +++++++++++++++++++++++++++++++++----- GHap-1.2.1/GHap/R/blmm.R | 75 +++++++++++--------- GHap-1.2.1/GHap/R/blup.R | 25 ++++-- GHap-1.2.1/GHap/R/haplotyping.R | 6 + GHap-1.2.1/GHap/R/kinship.R | 42 ++++------- GHap-1.2.1/GHap/R/lmm.R |only GHap-1.2.1/GHap/R/mme.R |only GHap-1.2.1/GHap/R/onload.R |only GHap-1.2.1/GHap/R/profile.R | 1 GHap-1.2.1/GHap/R/simpheno.R | 31 +++++--- GHap-1.2.1/GHap/build |only GHap-1.2.1/GHap/inst/doc |only GHap-1.2.1/GHap/inst/updates.txt |only GHap-1.2.1/GHap/man/assoc.Rd | 26 ++++--- GHap-1.2.1/GHap/man/blmm.Rd | 6 - GHap-1.2.1/GHap/man/blup.Rd | 23 ++++-- GHap-1.2.1/GHap/man/kinship.Rd | 4 - GHap-1.2.1/GHap/man/lmm.Rd |only GHap-1.2.1/GHap/man/mme.Rd |only GHap-1.2.1/GHap/man/profile.Rd | 4 - GHap-1.2.1/GHap/man/simpheno.Rd | 15 ++-- GHap-1.2.1/GHap/vignettes |only 26 files changed, 299 insertions(+), 152 deletions(-)
Title: Visually Exploring Random Forests
Description: Graphic elements for exploring Random Forests using the 'randomForest' or
'randomForestSRC' package for survival, regression and classification forests and
'ggplot2' package plotting.
Author: John Ehrlinger <john.ehrlinger@gmail.com>
Maintainer: John Ehrlinger <john.ehrlinger@gmail.com>
Diff between ggRandomForests versions 1.2.1 dated 2015-12-12 and 2.0.0 dated 2016-06-13
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ggRandomForests-2.0.0/ggRandomForests/man/plot.gg_partial_list.Rd | 294 - ggRandomForests-2.0.0/ggRandomForests/man/plot.gg_rfsrc.Rd | 192 ggRandomForests-2.0.0/ggRandomForests/man/plot.gg_roc.Rd | 124 ggRandomForests-2.0.0/ggRandomForests/man/plot.gg_survival.Rd | 112 ggRandomForests-2.0.0/ggRandomForests/man/plot.gg_variable.Rd | 278 - ggRandomForests-2.0.0/ggRandomForests/man/plot.gg_vimp.Rd | 172 ggRandomForests-2.0.0/ggRandomForests/man/print.gg_minimal_depth.Rd | 114 ggRandomForests-2.0.0/ggRandomForests/man/quantile_pts.Rd | 88 ggRandomForests-2.0.0/ggRandomForests/man/rfsrc_data.Rd | 360 - ggRandomForests-2.0.0/ggRandomForests/man/shift.Rd | 68 ggRandomForests-2.0.0/ggRandomForests/man/surface_matrix.Rd | 124 ggRandomForests-2.0.0/ggRandomForests/man/varsel_data.Rd | 350 - ggRandomForests-2.0.0/ggRandomForests/tests/test-all.R | 6 ggRandomForests-2.0.0/ggRandomForests/tests/testthat/test_cache_rfsrc_datasets.R |only ggRandomForests-2.0.0/ggRandomForests/tests/testthat/test_gg_error.R | 325 - 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More information about ggRandomForests at CRAN
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Title: Genetic Class Association Testing
Description: Implementation of the genetic class level association testing (GenCAT) method from SNP level association data. Refer to: "Qian J, Nunez S, Reed E, Reilly MP, Foulkes AS (2016) <DOI:10.1371/journal.pone.0148218> A Simple Test of Class-Level Genetic Association Can Reveal Novel Cardiometabolic Trait Loci. PLoS ONE 11(2): e0148218".
Author: Eric Reed, Sara Nunez, Jing Qian, Andrea Foulkes
Maintainer: Eric Reed <reeder@bu.edu>
Diff between GenCAT versions 1.0.2 dated 2016-02-17 and 1.0.3 dated 2016-06-13
DESCRIPTION | 12 ++--- MD5 | 22 ++++----- build/partial.rdb |binary inst/doc/GenCAT-vignette.Rmd | 4 - inst/doc/GenCAT-vignette.html | 95 ++++++++++++++++++++++++++++++++++-------- man/CardioData.Rd | 2 man/CardioMapped.Rd | 2 man/GenCAT-package.Rd | 8 +-- man/GenCAT.Rd | 2 man/coords.Rd | 2 man/geno.Rd | 2 vignettes/GenCAT-vignette.Rmd | 4 - 12 files changed, 107 insertions(+), 48 deletions(-)
Title: Genetic Algorithms
Description: An R package for optimisation using genetic algorithms. The package provides a flexible general-purpose set of tools for implementing genetic algorithms search in both the continuous and discrete case, whether constrained or not. Users can easily define their own objective function depending on the problem at hand. Several genetic operators are available and can be combined to explore the best settings for the current task. Furthermore, users can define new genetic operators and easily evaluate their performances. Local search using general-purpose optimisation algorithms can be applied stochastically to exploit interesting regions. GAs can be run sequentially or in parallel, using an explicit master-slave parallelisation or a coarse-grain islands approach.
Author: Luca Scrucca [aut, cre]
Maintainer: Luca Scrucca <luca.scrucca@unipg.it>
Diff between GA versions 3.0.1 dated 2016-05-16 and 3.0.2 dated 2016-06-13
DESCRIPTION | 11 +++++---- MD5 | 18 +++++++-------- R/ga.R | 61 ++++++++++++++++++++++++++--------------------------- R/gaIslands.R | 8 +++--- R/miscfun.R | 7 ++++++ inst/NEWS | 6 +++++ inst/doc/GA.html | 49 +++++++++++++++++++++--------------------- man/GA-internal.Rd | 2 + man/ga.Rd | 6 +++-- man/gaisl.Rd | 6 +++-- 10 files changed, 97 insertions(+), 77 deletions(-)
Title: Avoid the Typical Working Directory Pain When Using 'knitr'
Description: An extension of 'knitr' that adds flexibility in several
ways. One common source of frustration with 'knitr' is that it assumes
the directory where the source file lives should be the working directory,
which is often not true. 'ezknitr' addresses this problem by giving you
complete control over where all the inputs and outputs are, and adds several
other convenient features to make rendering markdown/HTML documents easier.
Author: Dean Attali [aut, cre]
Maintainer: Dean Attali <daattali@gmail.com>
Diff between ezknitr versions 0.3.1 dated 2016-01-06 and 0.4 dated 2016-06-13
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- NEWS.md | 5 +++++ R/core.R | 26 ++++++++++++++++++++------ build/vignette.rds |binary inst/doc/overview.html | 18 +++++++++++------- man/ezknitr_core.Rd | 8 +++++++- tests/testthat/test-ezknitr.R | 15 +++++++++++++++ 8 files changed, 68 insertions(+), 24 deletions(-)
Title: Easy Interface to Effective Concentration Calculations
Description: Because fungicide resistance is an important phenotypic trait for
fungi and oomycetes, it is necessary to have a standardized method of
statistically analyzing the Effective Concentration (EC) values. This
package is designed for those who are not terribly familiar with R to be
able to analyze and plot an entire set of isolates using the 'drc' package.
Author: Zhian N. Kamvar [cre, aut],
Niklaus J. Grunwald [ths, ctb]
Maintainer: Zhian N. Kamvar <kamvarz@science.oregonstate.edu>
Diff between ezec versions 0.1.0 dated 2015-11-30 and 1.0.0 dated 2016-06-13
DESCRIPTION | 10 ++- MD5 | 22 ++++--- NEWS |only R/EC-table.R | 12 ++-- R/get-ec.R | 12 ++-- README.md | 1 build/vignette.rds |binary inst/doc/getting_started.R | 13 ++-- inst/doc/getting_started.Rmd | 22 +++++-- inst/doc/getting_started.html | 125 ++++++++++++++++++++++++------------------ tests/testthat/Rplots.pdf |only tests/testthat/test-tables.R | 27 +++++++-- vignettes/getting_started.Rmd | 22 +++++-- 13 files changed, 168 insertions(+), 98 deletions(-)
Title: Access to Dataverse 3 APIs
Description: Provides access to Dataverse version 3 APIs, enabling access to archived data (and metadata), and the ability to create and manipulate studies in a user's dataverse(s). For Dataverse server versions >= 4.0, please use the dataverse package <https://github.com/IQSS/dataverse-client-r> instead.
Author: Thomas J. Leeper
Maintainer: Thomas J. Leeper <thosjleeper@gmail.com>
Diff between dvn versions 0.3.3 dated 2013-12-02 and 0.3.5 dated 2016-06-13
DESCRIPTION | 18 ++-- MD5 | 57 ++++++++------- NAMESPACE | 3 NEWS | 7 + R/dvAddFile.r | 48 ++++++++++--- R/dvBuildMetadata.r | 170 ++++++++++++++++++++++++++++++++++++++--------- R/dvDeleteStudy.r | 2 R/dvDepositQuery.r | 5 - R/dvEditStudy.r | 2 R/dvExtractUNF.r |only R/dvMetadata.r | 4 - R/dvMetadataFormats.r | 4 - R/dvQuery.r | 4 - R/dvReleaseStudy.r | 2 R/dvStudyAtom.r | 2 R/dvStudyStatement.r | 2 R/onLoad.r | 14 +++ README.md | 48 ++++++++++--- man/dvAddFile.Rd | 6 + man/dvBuildMetadata.Rd | 16 ---- man/dvCreateStudy.Rd | 7 - man/dvDeleteStudy.Rd | 2 man/dvDepositQuery.Rd | 2 man/dvEditStudy.Rd | 9 -- man/dvMetadata.Rd | 2 man/dvMetadataFormats.Rd | 2 man/dvReleaseStudy.Rd | 2 man/dvStudyAtom.Rd | 2 man/dvStudyStatement.Rd | 2 man/dvn-package.Rd | 27 +------ 30 files changed, 312 insertions(+), 159 deletions(-)
Title: Command-Line Interface Specification Language
Description: Define a command-line interface by just giving it
a description in the specific format.
Author: Edwin de Jonge (edwindjonge@gmail.com)
Maintainer: Edwin de Jonge <edwindjonge@gmail.com>
Diff between docopt versions 0.4.3.3 dated 2015-05-04 and 0.4.5 dated 2016-06-13
docopt-0.4.3.3/docopt/tests/testthat/test_issues.R |only docopt-0.4.3.3/docopt/tests/testthat/test_specs.R |only docopt-0.4.5/docopt/DESCRIPTION | 9 docopt-0.4.5/docopt/LICENSE | 4 docopt-0.4.5/docopt/MD5 | 50 docopt-0.4.5/docopt/NAMESPACE | 5 docopt-0.4.5/docopt/NEWS | 35 docopt-0.4.5/docopt/R/Pattern.R | 958 ++++---- docopt-0.4.5/docopt/R/Tokens.R | 236 +- docopt-0.4.5/docopt/R/docopt.R | 321 +- docopt-0.4.5/docopt/R/parse.R | 2 docopt-0.4.5/docopt/R/pkg.R | 1 docopt-0.4.5/docopt/README.md | 171 - docopt-0.4.5/docopt/inst/example.R |only docopt-0.4.5/docopt/inst/paper/docopt.bib | 64 docopt-0.4.5/docopt/inst/paper/docopt.tex | 160 - docopt-0.4.5/docopt/inst/spec/README.md | 14 docopt-0.4.5/docopt/inst/spec/docopt.py | 1162 +++++----- docopt-0.4.5/docopt/inst/spec/generate_tests.R | 178 - docopt-0.4.5/docopt/inst/spec/testcases.docopt | 1914 ++++++++--------- docopt-0.4.5/docopt/man/as.character-Pattern-method.Rd | 2 docopt-0.4.5/docopt/man/as.character-Tokens-method.Rd | 2 docopt-0.4.5/docopt/man/docopt-package.Rd | 2 docopt-0.4.5/docopt/man/docopt.Rd | 16 docopt-0.4.5/docopt/man/sub-Tokens-method.Rd | 2 docopt-0.4.5/docopt/man/subset-Tokens-method.Rd | 2 docopt-0.4.5/docopt/tests/testthat/test-issues.R |only docopt-0.4.5/docopt/tests/testthat/test-quotedargs.R |only docopt-0.4.5/docopt/tests/testthat/test-specs.R |only 29 files changed, 2673 insertions(+), 2637 deletions(-)
Title: Distributed-Lag Structural Equation Modelling
Description: Fit distributed-lag structural equation models and perform path analysis at different time lags.
Author: Alessandro Magrini
Maintainer: Alessandro Magrini <magrini@disia.unifi.it>
Diff between dlsem versions 1.0.1 dated 2016-05-24 and 1.0.3 dated 2016-06-13
DESCRIPTION | 8 ++-- MD5 | 14 +++---- NAMESPACE | 2 - R/dlsem.r | 94 +++++++++++++++++++++++++++++++-------------------- man/dlsem-package.Rd | 4 +- man/dlsem.Rd | 4 +- man/pathAnal.Rd | 4 +- man/pathCoeff.Rd | 11 +++-- 8 files changed, 82 insertions(+), 59 deletions(-)
Title: Data-Limited Methods Toolkit
Description: Simulation testing and implementation of data-limited fishery stock
assessment methods.
Author: Tom Carruthers and Adrian Hordyk
Maintainer: Tom Carruthers <t.carruthers@fisheries.ubc.ca>
Diff between DLMtool versions 3.1 dated 2016-02-27 and 3.2 dated 2016-06-13
DLMtool-3.1/DLMtool/data/PMs.RData |only DLMtool-3.1/DLMtool/man/EDCAC.Rd |only DLMtool-3.1/DLMtool/man/PMs.Rd |only DLMtool-3.2/DLMtool/DESCRIPTION | 11 DLMtool-3.2/DLMtool/MD5 | 95 - DLMtool-3.2/DLMtool/NAMESPACE | 43 DLMtool-3.2/DLMtool/R/ClassMeths.r | 65 DLMtool-3.2/DLMtool/R/DLM_input.R | 508 ++++++ DLMtool-3.2/DLMtool/R/DLM_output.R | 957 +++++++++-- DLMtool-3.2/DLMtool/R/DataObj.r | 75 DLMtool-3.2/DLMtool/R/MSEObj.r | 673 ++++++++ DLMtool-3.2/DLMtool/R/MiscFuns.r | 226 ++ DLMtool-3.2/DLMtool/R/MiscInt.r | 199 +- DLMtool-3.2/DLMtool/R/RcppExports.R |only DLMtool-3.2/DLMtool/R/XLloadfuns.r |only DLMtool-3.2/DLMtool/R/runMSE.r | 268 ++- DLMtool-3.2/DLMtool/build/vignette.rds |binary DLMtool-3.2/DLMtool/data/DLMdat.RData |binary DLMtool-3.2/DLMtool/data/PorgMSE.rda |binary DLMtool-3.2/DLMtool/data/SnapMSE.rda |binary DLMtool-3.2/DLMtool/data/datalist | 1 DLMtool-3.2/DLMtool/data/ourMSE.rda |binary DLMtool-3.2/DLMtool/data/ourReefFish.rda |binary DLMtool-3.2/DLMtool/inst/Cobia.csv | 8 DLMtool-3.2/DLMtool/inst/Example_datafile.csv | 2 DLMtool-3.2/DLMtool/inst/doc/DLMtool.R | 2 DLMtool-3.2/DLMtool/inst/doc/DLMtool.Rmd | 25 DLMtool-3.2/DLMtool/inst/doc/DLMtool.html | 2122 +++++++++++--------------- DLMtool-3.2/DLMtool/man/DAAC.Rd |only DLMtool-3.2/DLMtool/man/DDe.Rd |only DLMtool-3.2/DLMtool/man/DDe75.Rd |only DLMtool-3.2/DLMtool/man/DDes.Rd |only DLMtool-3.2/DLMtool/man/DLM_data-class.Rd | 7 DLMtool-3.2/DLMtool/man/DLMtool-package.Rd | 5 DLMtool-3.2/DLMtool/man/DTe40.Rd |only DLMtool-3.2/DLMtool/man/DTe50.Rd |only DLMtool-3.2/DLMtool/man/Fease_xl.Rd |only DLMtool-3.2/DLMtool/man/Fleet-class.Rd | 1 DLMtool-3.2/DLMtool/man/HDAAC.Rd |only DLMtool-3.2/DLMtool/man/ITe10.Rd |only DLMtool-3.2/DLMtool/man/ITe5.Rd |only DLMtool-3.2/DLMtool/man/Input.Rd |only DLMtool-3.2/DLMtool/man/ItargetE1.Rd |only DLMtool-3.2/DLMtool/man/ItargetE4.Rd |only DLMtool-3.2/DLMtool/man/LstepCE1.Rd |only DLMtool-3.2/DLMtool/man/LstepCE2.Rd |only DLMtool-3.2/DLMtool/man/LtargetE1.Rd |only DLMtool-3.2/DLMtool/man/LtargetE4.Rd |only DLMtool-3.2/DLMtool/man/NFref.Rd |only DLMtool-3.2/DLMtool/man/OM-class.Rd | 1 DLMtool-3.2/DLMtool/man/OM_xl.Rd |only DLMtool-3.2/DLMtool/man/Observation-class.Rd | 2 DLMtool-3.2/DLMtool/man/Sub.Rd | 9 DLMtool-3.2/DLMtool/man/VOI2.Rd |only DLMtool-3.2/DLMtool/man/VOIplot.Rd |only DLMtool-3.2/DLMtool/man/VPA.Rd |only DLMtool-3.2/DLMtool/man/joinMSE.Rd |only DLMtool-3.2/DLMtool/man/makePerf.Rd |only DLMtool-3.2/DLMtool/man/ourReefFish.Rd | 1 DLMtool-3.2/DLMtool/man/runMSErobust.Rd |only DLMtool-3.2/DLMtool/man/slotlim.Rd |only DLMtool-3.2/DLMtool/man/wormplot.Rd |only DLMtool-3.2/DLMtool/man/writeCSV.Rd |only DLMtool-3.2/DLMtool/src |only DLMtool-3.2/DLMtool/vignettes/DLMtool.Rmd | 25 65 files changed, 3631 insertions(+), 1700 deletions(-)
Title: A Class of Mixture Models for Ordinal Data
Description: Estimate and test models for ordinal data concerning the family of
CUB models and their extensions (where CUB stands for Combination of a
discrete Uniform and a shifted Binomial distributions).
Author: Maria Iannario <maria.iannario@unina.it>, Domenico Piccolo
<domenico.piccolo@unina.it>, Rosaria Simone <rosaria.simone@unina.it>
Maintainer: Rosaria Simone <rosaria.simone@unina.it>
Diff between CUB versions 0.0 dated 2015-11-07 and 0.1 dated 2016-06-13
CUB-0.0/CUB/man/loglikCUBE.Rd |only CUB-0.0/CUB/man/loglikIHG.Rd |only CUB-0.1/CUB/DESCRIPTION | 26 +-- CUB-0.1/CUB/MD5 | 244 ++++++++++++++++++++-------------- CUB-0.1/CUB/NAMESPACE | 2 CUB-0.1/CUB/R/CUB.R | 31 ++-- CUB-0.1/CUB/R/CUBE.R | 241 +++++++++++++++++---------------- CUB-0.1/CUB/R/CUB_package.R | 92 ++++++------ CUB-0.1/CUB/R/CUSH.R | 21 +- CUB-0.1/CUB/R/Hadprod.R | 60 +++----- CUB-0.1/CUB/R/IHG.R | 16 +- CUB-0.1/CUB/R/Qdue.R | 58 ++++---- CUB-0.1/CUB/R/Quno.R | 44 +++--- CUB-0.1/CUB/R/auxmat.R | 43 ++++-- CUB-0.1/CUB/R/betabinomial.R | 2 CUB-0.1/CUB/R/chi2cub1cov.R | 96 ++++++++----- CUB-0.1/CUB/R/chi2cub2cov.R | 109 +++++++++------ CUB-0.1/CUB/R/cub00.R | 189 +++++++++++++++----------- CUB-0.1/CUB/R/cub0q.R | 177 +++++++++++++++++------- CUB-0.1/CUB/R/cube000.R | 217 +++++++++++++++--------------- CUB-0.1/CUB/R/cubecov.R | 119 ++++++++-------- CUB-0.1/CUB/R/cubecsi.R | 180 ++++++++++++------------- CUB-0.1/CUB/R/cubforsim.R | 172 ++++++++++++------------ CUB-0.1/CUB/R/cubp0.R | 162 ++++++++++++---------- CUB-0.1/CUB/R/cubpq.R | 164 +++++++--------------- CUB-0.1/CUB/R/cubshe.R | 159 +++++++++++----------- CUB-0.1/CUB/R/cush00.R | 130 +++++++++--------- CUB-0.1/CUB/R/cushcov.R | 122 ++++++++--------- CUB-0.1/CUB/R/effe01.R | 42 ++--- CUB-0.1/CUB/R/effe10.R | 42 ++--- CUB-0.1/CUB/R/effecube.R | 42 ++--- CUB-0.1/CUB/R/effecubecsi.R | 42 ++--- CUB-0.1/CUB/R/effecush.R | 44 +++--- CUB-0.1/CUB/R/effeihg.R | 28 +-- CUB-0.1/CUB/R/effeihgcov.R | 36 ++--- CUB-0.1/CUB/R/ellecub.R | 4 CUB-0.1/CUB/R/expcube.R | 50 +++---- CUB-0.1/CUB/R/ihg00.R | 116 +++++++++------- CUB-0.1/CUB/R/ihgcov.R | 136 ++++++++++--------- CUB-0.1/CUB/R/inibestcube.R | 2 CUB-0.1/CUB/R/inibestcubecsi.R | 96 ++++++------- CUB-0.1/CUB/R/inibestgama.R | 7 CUB-0.1/CUB/R/kkk.R | 34 ++-- CUB-0.1/CUB/R/laakso.R | 40 ++--- CUB-0.1/CUB/R/loglikCUB.R | 242 ++++++++++++++++----------------- CUB-0.1/CUB/R/loglikCUSH.R | 2 CUB-0.1/CUB/R/loglikcub00.R | 29 ++-- CUB-0.1/CUB/R/loglikcub0q.R | 40 ++--- CUB-0.1/CUB/R/loglikcube.R | 30 ++-- CUB-0.1/CUB/R/loglikcube_1.R | 140 +++++++++---------- CUB-0.1/CUB/R/loglikcubecov.R | 55 +++---- CUB-0.1/CUB/R/loglikcubecsi.R | 46 +++--- CUB-0.1/CUB/R/loglikcuben.R | 6 CUB-0.1/CUB/R/loglikcubp0.R | 42 ++--- CUB-0.1/CUB/R/loglikcubpq.R | 42 ++--- CUB-0.1/CUB/R/loglikcubshe.R | 22 +-- CUB-0.1/CUB/R/loglikcush00.R | 42 ++--- CUB-0.1/CUB/R/loglikcushcov.R | 46 +++--- CUB-0.1/CUB/R/loglikihg.R | 36 ++--- CUB-0.1/CUB/R/loglikihg_1.R | 4 CUB-0.1/CUB/R/loglikihgcov.R | 36 ++--- CUB-0.1/CUB/R/multicub.R | 109 ++++++++------- CUB-0.1/CUB/R/probcub0q.R | 2 CUB-0.1/CUB/R/probcubp0.R | 2 CUB-0.1/CUB/R/probcubshe2.R | 2 CUB-0.1/CUB/R/probcush.R | 2 CUB-0.1/CUB/R/relgoods.R | 10 - CUB-0.1/CUB/R/univer.R | 4 CUB-0.1/CUB/R/varcovcub00.R | 92 +++++++----- CUB-0.1/CUB/R/varcovcub0q.R | 136 +++++++++---------- CUB-0.1/CUB/R/varcovcubecov.R | 271 +++++++++++++++++++------------------- CUB-0.1/CUB/R/varcovcubeexp.R | 134 +++++++++--------- CUB-0.1/CUB/R/varcovcubeobs.R | 184 ++++++++++++------------- CUB-0.1/CUB/R/varcovcubp0.R | 116 ++++++++-------- CUB-0.1/CUB/R/varcovcubpq.R | 139 +++++++++---------- CUB-0.1/CUB/R/varcovcubshe.R | 87 +++++++----- CUB-0.1/CUB/R/varmatCUB.R | 240 ++++++++++++++++----------------- CUB-0.1/CUB/R/varmatCUBE.R | 152 ++++++++++----------- CUB-0.1/CUB/man/CUB.Rd | 18 +- CUB-0.1/CUB/man/CUBE.Rd | 22 +-- CUB-0.1/CUB/man/CUB_package.Rd | 10 - CUB-0.1/CUB/man/CUSH.Rd | 14 + CUB-0.1/CUB/man/Hadprod.Rd |only CUB-0.1/CUB/man/IHG.Rd | 10 - CUB-0.1/CUB/man/Qdue.Rd |only CUB-0.1/CUB/man/Quno.Rd |only CUB-0.1/CUB/man/auxmat.Rd |only CUB-0.1/CUB/man/betabinomial.Rd | 2 CUB-0.1/CUB/man/chi2cub1cov.Rd |only CUB-0.1/CUB/man/chi2cub2cov.Rd |only CUB-0.1/CUB/man/cub00.Rd |only CUB-0.1/CUB/man/cub0q.Rd |only CUB-0.1/CUB/man/cube000.Rd |only CUB-0.1/CUB/man/cubecov.Rd |only CUB-0.1/CUB/man/cubecsi.Rd |only CUB-0.1/CUB/man/cubforsim.Rd | 2 CUB-0.1/CUB/man/cubp0.Rd |only CUB-0.1/CUB/man/cubpq.Rd |only CUB-0.1/CUB/man/cubshe.Rd |only CUB-0.1/CUB/man/cush00.Rd |only CUB-0.1/CUB/man/cushcov.Rd |only CUB-0.1/CUB/man/effe01.Rd |only CUB-0.1/CUB/man/effe10.Rd |only CUB-0.1/CUB/man/effecube.Rd |only CUB-0.1/CUB/man/effecubecsi.Rd |only CUB-0.1/CUB/man/effecush.Rd |only CUB-0.1/CUB/man/effeihg.Rd |only CUB-0.1/CUB/man/effeihgcov.Rd |only CUB-0.1/CUB/man/ellecub.Rd | 4 CUB-0.1/CUB/man/expcube.Rd | 2 CUB-0.1/CUB/man/ihg00.Rd |only CUB-0.1/CUB/man/ihgcov.Rd |only CUB-0.1/CUB/man/inibestcube.Rd | 2 CUB-0.1/CUB/man/inibestcubecsi.Rd | 2 CUB-0.1/CUB/man/kkk.Rd |only CUB-0.1/CUB/man/loglikCUB.Rd | 24 +-- CUB-0.1/CUB/man/loglikCUSH.Rd | 2 CUB-0.1/CUB/man/loglikcub00.Rd |only CUB-0.1/CUB/man/loglikcub0q.Rd |only CUB-0.1/CUB/man/loglikcube.Rd |only CUB-0.1/CUB/man/loglikcubecov.Rd |only CUB-0.1/CUB/man/loglikcubecsi.Rd |only CUB-0.1/CUB/man/loglikcuben.Rd | 6 CUB-0.1/CUB/man/loglikcubp0.Rd |only CUB-0.1/CUB/man/loglikcubpq.Rd |only CUB-0.1/CUB/man/loglikcubshe.Rd |only CUB-0.1/CUB/man/loglikcush00.Rd |only CUB-0.1/CUB/man/loglikcushcov.Rd |only CUB-0.1/CUB/man/loglikihg.Rd |only CUB-0.1/CUB/man/loglikihgcov.Rd |only CUB-0.1/CUB/man/multicub.Rd | 33 +++- CUB-0.1/CUB/man/probcub0q.Rd | 2 CUB-0.1/CUB/man/probcubp0.Rd | 2 CUB-0.1/CUB/man/probcubshe2.Rd | 2 CUB-0.1/CUB/man/probcush.Rd | 2 CUB-0.1/CUB/man/relgoods.Rd | 10 - CUB-0.1/CUB/man/univer.Rd | 4 CUB-0.1/CUB/man/varcovcub00.Rd |only CUB-0.1/CUB/man/varcovcub0q.Rd |only CUB-0.1/CUB/man/varcovcubecov.Rd |only CUB-0.1/CUB/man/varcovcubeexp.Rd |only CUB-0.1/CUB/man/varcovcubeobs.Rd |only CUB-0.1/CUB/man/varcovcubp0.Rd |only CUB-0.1/CUB/man/varcovcubpq.Rd |only CUB-0.1/CUB/man/varcovcubshe.Rd |only CUB-0.1/CUB/man/varmatCUB.Rd | 14 - CUB-0.1/CUB/man/varmatCUBE.Rd | 12 - 147 files changed, 3330 insertions(+), 3050 deletions(-)
More information about countytimezones at CRAN
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Title: Analysis of Binary Character Evolution
Description: Fits a hidden rates model that allows different transition rate classes on different portions of a phylogeny by treating rate classes as hidden states in a Markov process and various other functions for evaluating models of binary character evolution.
Author: Jeremy M. Beaulieu <jbeaulieu@nimbios.org>, Jeffrey C. Oliver <jeffreycoliver@gmail.com>, Brian O'Meara <bomeara@utk.edu>
Maintainer: Jeremy Beaulieu <jbeaulieu@nimbios.org>
Diff between corHMM versions 1.18 dated 2016-01-07 and 1.19 dated 2016-06-13
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- R/ancRECON.R | 46 ++++++++++++++++++++++++++++++++-------------- R/corHMM.R | 12 ++++++++++-- R/lewisMkv.R | 1 + R/rate.mat.maker.R | 3 ++- R/rayDISC.R | 40 ++++++++++++++++++++++++++-------------- man/corHMM.Rd | 2 +- man/rayDISC.Rd | 3 ++- 9 files changed, 86 insertions(+), 45 deletions(-)
More information about CombinePortfolio at CRAN
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Title: Wilcoxon Rank Sum Test for Clustered Data
Description: Non-parametric tests (Wilcoxon rank sum test and Wilcoxon signed rank test) for clustered data.
Author: Yujing Jiang [aut, cre],
Mei-Ling Ting Lee [ctb],
Jun Yan [ctb]
Maintainer: Yujing Jiang <yujing.jiang@uconn.edu>
Diff between clusrank versions 0.1-4 dated 2016-06-03 and 0.2-0 dated 2016-06-13
DESCRIPTION | 8 ++-- MD5 | 16 ++++----- R/RcppExports.R | 4 -- R/clusranksum.R | 60 ++++++++++++++++++++++------------- R/cluswilcox.R | 82 +++++++++++++++++++++++++++++-------------------- man/cluswilcox.test.Rd | 58 +++++++++++++++++++--------------- src/Fprop.cpp | 4 -- src/RcppExports.cpp | 11 ------ src/exact.cpp | 76 ++++++++++++++------------------------------- 9 files changed, 158 insertions(+), 161 deletions(-)
Title: Cloud Utilization Plots
Description: Provides means of plots for comparing utilization data of compute systems.
Author: Christian Panse <cp@fgcz.ethz.ch>, Ermir Qeli <ermir.qeli@gmail.com>
Maintainer: Christian Panse <cp@fgcz.ethz.ch>
Diff between cloudUtil versions 0.1.10 dated 2013-12-10 and 0.1.12 dated 2016-06-13
DESCRIPTION | 11 +++++------ MD5 | 14 +++++++------- NAMESPACE | 2 ++ build/vignette.rds |binary data/cloudms2.RData |binary inst/doc/cloudUtil.pdf |binary man/cloudUtilPlot.Rd | 13 +++++++++++++ man/cloudms2.Rd | 3 ++- 8 files changed, 29 insertions(+), 14 deletions(-)
Title: Procedures to Generate Patterns under Computerized Adaptive
Testing
Description: Generation of response patterns under dichotomous and polytomous computerized adaptive testing (CAT) framework.
Author: David Magis (U Liege, Belgium), Gilles Raiche (UQAM, Canada), Juan Ramon Barrada (U Zaragoza, Spain)
Maintainer: David Magis <david.magis@ulg.ac.be>
Diff between catR versions 3.7 dated 2016-05-09 and 3.8 dated 2016-06-13
DESCRIPTION | 8 MD5 | 18 - NEWS | 44 ++ R/checkStopRule.R |only R/randomCAT.R | 734 ++++++++++++++++++++++++--------------------- R/simulateRespondents.R | 80 ++-- R/testList.R | 32 + man/checkStopRule.Rd |only man/randomCAT.Rd | 43 +- man/simulateRespondents.Rd | 6 man/startItems.Rd | 12 11 files changed, 534 insertions(+), 443 deletions(-)
Title: Categorical Bayesian Network Inference
Description: Structure learning and parameter estimation of discrete Bayesian networks using likelihood-based criteria. Exhaustive search for fixed node orders and stochastic search of optimal orders via simulated annealing algorithm are implemented.
Author: Nikolay Balov, Peter Salzman
Maintainer: Nikolay Balov <nhbalov@gmail.com>
Diff between catnet versions 1.14.8 dated 2015-02-04 and 1.15.0 dated 2016-06-13
DESCRIPTION | 8 MD5 | 18 NAMESPACE | 6 build/vignette.rds |binary inst/doc/catnet.Rnw | 1817 +++++++++++++++++++++++++-------------------------- inst/doc/catnet.pdf |binary man/cnMatEdges.Rd | 3 src/catnet_class.h | 5 src/rcatnet_sa.cpp | 31 vignettes/catnet.Rnw | 1817 +++++++++++++++++++++++++-------------------------- 10 files changed, 1854 insertions(+), 1851 deletions(-)
Title: Thematic Cartography
Description: Create and integrate maps in your R workflow. This package allows
various cartographic representations such as proportional symbols, chroropleth,
typology, flows or discontinuities. In addition, it also proposes some useful
features like cartographic palettes, layout (scale, north arrow, title...), labels,
legends or access to cartographic API to ease the graphic presentation of maps.
Author: Timothée Giraud [cre, aut],
Nicolas Lambert [aut]
Maintainer: Timothée Giraud <timothee.giraud@ums-riate.fr>
Diff between cartography versions 1.2 dated 2016-02-12 and 1.3.0 dated 2016-06-13
DESCRIPTION | 19 ++-- MD5 | 65 ++++++++--------- NAMESPACE | 2 NEWS | 62 +++++++++++----- R/Package.R | 29 +++---- R/circles.R | 1 R/getBorders.R | 137 +++++++++++++++++++---------------- R/getFigDim.R | 15 ++- R/getGridLayer.R | 114 +++++++++++++++++------------ R/getLinkLayer.R | 38 ++++++--- R/getTiles.R | 26 +++--- R/gradLinkTypoLayer.R | 36 ++++++--- R/legends.R | 17 +++- R/propSymbolsChoroLayer.R | 4 - R/propSymbolsLayer.R | 8 +- R/propSymbolsTypoLayer.R | 45 +++++++---- R/smoothLayer.R |only R/tilesLayer.R | 8 +- R/typo.R |only R/typoLayer.R | 55 +++++++------- README.md | 126 +++++++++++++++++---------------- build/vignette.rds |binary inst/doc/cartography.R | 8 -- inst/doc/cartography.Rmd | 8 -- inst/doc/cartography.html | 168 +++++++++++++++++++++++--------------------- man/cartography.Rd | 29 +++---- man/getBorders.Rd | 8 -- man/getFigDim.Rd | 15 ++- man/getTiles.Rd | 2 man/gradLinkTypoLayer.Rd | 11 ++ man/propSymbolsLayer.Rd | 4 - man/propSymbolsTypoLayer.Rd | 15 ++- man/smoothLayer.Rd |only man/typoLayer.Rd | 17 ++-- vignettes/cartography.Rmd | 8 -- 35 files changed, 608 insertions(+), 492 deletions(-)
Title: Classification and Regression Training
Description: Misc functions for training and plotting classification and
regression models.
Author: Max Kuhn. Contributions from Jed Wing, Steve Weston, Andre
Williams, Chris Keefer, Allan Engelhardt, Tony Cooper, Zachary Mayer,
Brenton Kenkel, the R Core Team, Michael Benesty, Reynald Lescarbeau,
Andrew Ziem, Luca Scrucca, Yuan Tang, and Can Candan.
Maintainer: Max Kuhn <Max.Kuhn@pfizer.com>
Diff between caret versions 6.0-68 dated 2016-04-11 and 6.0-70 dated 2016-06-13
DESCRIPTION | 8 - MD5 | 37 ++++---- R/aaa.R | 4 R/classLevels.R | 29 ++++--- R/filterVarImp.R | 2 R/findCorrelation.R | 2 R/misc.R | 9 ++ R/preProcess.R | 14 +-- R/predict.train.R | 2 R/print.train.R | 2 R/rfe.R | 18 +++- R/train.default.R | 7 - R/twoClassSim.R | 23 +++-- R/workflows.R | 9 -- inst/NEWS.Rd | 22 +++++ inst/models/models.RData |binary man/extractPrediction.Rd | 2 man/models.Rd | 145 ++++++++++++++++++++++++++--------- man/twoClassSim.Rd | 17 +++- tests/testthat/test_pROC_direction.R |only 20 files changed, 247 insertions(+), 105 deletions(-)
Title: Data Used in the Vignettes Accompanying the CARBayes and
CARBayesST Packages
Description: Spatio-temporal data from Scotland used in the vignettes accompanying the CARBayes (spatial modelling) and CARBayesST (spatio-temporal modelling) packages. For the CARBayes vignette the data include the Scottish lip cancer data and property price and respiratory hospitalisation data from the Greater Glasgow and Clyde health board. For the CARBayesST vignette the data include spatio-temporal data on property sales and respiratory hospitalisation and air pollution from the Greater Glasgow and Clyde health board.
Author: Duncan Lee
Maintainer: Duncan Lee <Duncan.Lee@glasgow.ac.uk>
Diff between CARBayesdata versions 1.0 dated 2015-03-31 and 2.0 dated 2016-06-13
CARBayesdata-1.0/CARBayesdata/data/propertydata.spatial.rda |only CARBayesdata-1.0/CARBayesdata/data/respiratorydata.spatial.rda |only CARBayesdata-1.0/CARBayesdata/man/propertydata.spatial.Rd |only CARBayesdata-1.0/CARBayesdata/man/respiratorydata.spatial.Rd |only CARBayesdata-2.0/CARBayesdata/DESCRIPTION | 13 ++-- CARBayesdata-2.0/CARBayesdata/MD5 | 28 +++++--- CARBayesdata-2.0/CARBayesdata/data/GGHB.IG.rda |only CARBayesdata-2.0/CARBayesdata/data/datalist | 7 +- CARBayesdata-2.0/CARBayesdata/data/lipdata.rda |binary CARBayesdata-2.0/CARBayesdata/data/lipdbf.rda |binary CARBayesdata-2.0/CARBayesdata/data/lipshp.rda |binary CARBayesdata-2.0/CARBayesdata/data/pollutionhealthdata.rda |only CARBayesdata-2.0/CARBayesdata/data/pricedata.rda |only CARBayesdata-2.0/CARBayesdata/data/respiratorydata.rda |only CARBayesdata-2.0/CARBayesdata/data/salesdata.rda |only CARBayesdata-2.0/CARBayesdata/man/CARBayesdata-package.Rd | 32 ++++++---- CARBayesdata-2.0/CARBayesdata/man/GGHB.IG.Rd |only CARBayesdata-2.0/CARBayesdata/man/lipdata.Rd | 16 ++--- CARBayesdata-2.0/CARBayesdata/man/pollutionhealthdata.Rd |only CARBayesdata-2.0/CARBayesdata/man/pricedata.Rd |only CARBayesdata-2.0/CARBayesdata/man/respiratorydata.Rd |only CARBayesdata-2.0/CARBayesdata/man/salesdata.Rd |only 22 files changed, 59 insertions(+), 37 deletions(-)
Title: Spatial Generalised Linear Mixed Models for Areal Unit Data
Description: Implements a class of univariate and multivariate spatial generalised linear mixed models for areal unit data, with inference in a Bayesian setting using Markov chain Monte Carlo (McMC) simulation. The response variable can be binomial, Gaussian or Poisson. Spatial autocorrelation is modelled by a set of random effects, which are assigned a conditional autoregressive (CAR) prior distribution. A number of different CAR priors are available for the random effects, including a multivariate CAR (MCAR) model for multivariate spatial data. Full details are given in the vignette accompanying this package. The initial creation of this package was supported by the Economic and Social Research Council (ESRC) grant RES-000-22-4256, and on-going development was supported by the Engineering and Physical Science Research Council (EPSRC) grant EP/J017442/1.
Author: Duncan Lee
Maintainer: Duncan Lee <Duncan.Lee@glasgow.ac.uk>
Diff between CARBayes versions 4.5 dated 2016-05-06 and 4.6 dated 2016-06-13
CARBayes-4.5/CARBayes/vignettes/boundaryfigure.jpg |only CARBayes-4.6/CARBayes/DESCRIPTION | 10 CARBayes-4.6/CARBayes/MD5 | 38 - CARBayes-4.6/CARBayes/inst/doc/CARBayesvignette.R | 161 ++-- CARBayes-4.6/CARBayes/inst/doc/CARBayesvignette.Rnw | 551 ++++++++------- CARBayes-4.6/CARBayes/inst/doc/CARBayesvignette.pdf |binary CARBayes-4.6/CARBayes/man/CARBayes-package.Rd | 12 CARBayes-4.6/CARBayes/man/MVS.CARleroux.Rd | 12 CARBayes-4.6/CARBayes/man/S.CARbym.Rd | 2 CARBayes-4.6/CARBayes/man/S.CARdissimilarity.Rd | 2 CARBayes-4.6/CARBayes/man/S.CARleroux.Rd | 2 CARBayes-4.6/CARBayes/man/S.CARlocalised.Rd | 2 CARBayes-4.6/CARBayes/vignettes/CARBayesvignette-006.pdf |only CARBayes-4.6/CARBayes/vignettes/CARBayesvignette-007.pdf |only CARBayes-4.6/CARBayes/vignettes/CARBayesvignette-008.pdf |only CARBayes-4.6/CARBayes/vignettes/CARBayesvignette-014.pdf |only CARBayes-4.6/CARBayes/vignettes/CARBayesvignette-015.pdf |only CARBayes-4.6/CARBayes/vignettes/CARBayesvignette-016.pdf |only CARBayes-4.6/CARBayes/vignettes/CARBayesvignette-017.pdf |only CARBayes-4.6/CARBayes/vignettes/CARBayesvignette-018.pdf |only CARBayes-4.6/CARBayes/vignettes/CARBayesvignette-019.pdf |only CARBayes-4.6/CARBayes/vignettes/CARBayesvignette.Rnw | 551 ++++++++------- CARBayes-4.6/CARBayes/vignettes/boundarymap.png |only CARBayes-4.6/CARBayes/vignettes/crimeplot.png |only CARBayes-4.6/CARBayes/vignettes/jss996.bib | 162 ++++ CARBayes-4.6/CARBayes/vignettes/pricemap.png |only CARBayes-4.6/CARBayes/vignettes/smrmap.png |only 27 files changed, 945 insertions(+), 560 deletions(-)
Title: Combined Analysis of Pleiotropy and Epistasis
Description: Combines complementary information across multiple related
phenotypes to infer directed epistatic interactions between genetic markers.
This analysis can be applied to a variety of engineered and natural populations.
Author: Anna L. Tyler, Wei Lu, Justin J. Hendrick, Vivek M. Philip, and Greg W.
Carter
Maintainer: Anna L. Tyler <Anna.Tyler@jax.org>
Diff between cape versions 2.0.1 dated 2016-04-06 and 2.0.2 dated 2016-06-13
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- R/pairscan.null.R | 4 ++-- R/plotSinglescan.R | 10 ++++++++-- inst/doc/cape.pdf |binary 5 files changed, 17 insertions(+), 11 deletions(-)
Title: Bayesian Palaeoclimate Reconstruction from Pollen Data
Description: Takes pollen and chronology data from lake cores and produces a Bayesian posterior distribution of palaeoclimate from that location after fitting a non-linear non-Gaussian state-space model. For more details see the paper Parnell, A. C., et al. (2015), Bayesian inference for palaeoclimate with time uncertainty and stochastic volatility. Journal of the Royal Statistical Society: Series C (Applied Statistics), 64: 115–138.
Author: Andrew Parnell
Maintainer: Andrew Parnell <Andrew.Parnell@ucd.ie>
Diff between Bclim versions 2.3.1 dated 2014-04-18 and 3.1.0 dated 2016-06-13
Bclim-2.3.1/Bclim/R/Bclim.R |only Bclim-2.3.1/Bclim/R/BclimCompile.R |only Bclim-2.3.1/Bclim/R/BclimInterp.R |only Bclim-2.3.1/Bclim/R/BclimLayer.R |only Bclim-2.3.1/Bclim/R/BclimMCMC.R |only Bclim-2.3.1/Bclim/R/BclimMixPar.R |only Bclim-2.3.1/Bclim/R/BclimMixSer.R |only Bclim-2.3.1/Bclim/R/BclimRun.R |only Bclim-2.3.1/Bclim/R/plotBclim.R |only Bclim-2.3.1/Bclim/R/plotBclimVol.R |only Bclim-2.3.1/Bclim/R/zzz.R |only Bclim-2.3.1/Bclim/man/BclimCompile.Rd |only Bclim-2.3.1/Bclim/man/BclimInterp.Rd |only Bclim-2.3.1/Bclim/man/BclimLayer.Rd |only Bclim-2.3.1/Bclim/man/BclimMCMC.Rd |only Bclim-2.3.1/Bclim/man/BclimMixPar.Rd |only Bclim-2.3.1/Bclim/man/BclimMixSer.Rd |only Bclim-2.3.1/Bclim/man/BclimRun.Rd |only Bclim-2.3.1/Bclim/man/plotBclim.Rd |only Bclim-2.3.1/Bclim/man/plotBclimVol.Rd |only Bclim-3.1.0/Bclim/DESCRIPTION | 24 ++++----- Bclim-3.1.0/Bclim/MD5 | 55 +++++++++++---------- Bclim-3.1.0/Bclim/NAMESPACE | 17 ++++-- Bclim-3.1.0/Bclim/R/climate_histories.R |only Bclim-3.1.0/Bclim/R/layer_clouds.R |only Bclim-3.1.0/Bclim/R/plot.climate_histories.R |only Bclim-3.1.0/Bclim/R/plot.layer_clouds.R |only Bclim-3.1.0/Bclim/R/summary.climate_histories.R |only Bclim-3.1.0/Bclim/build |only Bclim-3.1.0/Bclim/inst |only Bclim-3.1.0/Bclim/man/Bclim-package.Rd | 18 +++--- Bclim-3.1.0/Bclim/man/climate_histories.Rd |only Bclim-3.1.0/Bclim/man/layer_clouds.Rd |only Bclim-3.1.0/Bclim/man/plot.climate_histories.Rd |only Bclim-3.1.0/Bclim/man/plot.layer_clouds.Rd |only Bclim-3.1.0/Bclim/man/summary.climate_histories.Rd |only Bclim-3.1.0/Bclim/src/BclimMCMC3D.c | 9 +-- Bclim-3.1.0/Bclim/src/PalaeoRecon3D.c | 38 +++++++------- Bclim-3.1.0/Bclim/src/use.c | 2 Bclim-3.1.0/Bclim/vignettes |only 40 files changed, 89 insertions(+), 74 deletions(-)
Title: Bayesian Fertility Projection
Description: Making probabilistic projections of total fertility rate for all countries of the world, using a Bayesian hierarchical model.
Author: Hana Sevcikova (hanas@uw.edu), Leontine Alkema (alkema@nus.edu.sg), Adrian Raftery (raftery@uw.edu) with code contribution from Bailey Fosdick (bfosdick@uw.edu) and Patrick Gerland (gerland@un.org)
Maintainer: Hana Sevcikova <hanas@uw.edu>
Diff between bayesTFR versions 5.0-1 dated 2016-03-04 and 5.0-2 dated 2016-06-13
ChangeLog | 9 ++++++++- DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/plot_functions.R | 11 ++++++----- man/bayesTFR-package.Rd | 4 ++-- 5 files changed, 24 insertions(+), 16 deletions(-)
Title: Analysis and Visualization of Macroevolutionary Dynamics on
Phylogenetic Trees
Description: Provides functions for analyzing and visualizing complex
macroevolutionary dynamics on phylogenetic trees. It is a companion
package to the command line program BAMM (Bayesian Analysis of
Macroevolutionary Mixtures) and is entirely oriented towards the analysis,
interpretation, and visualization of evolutionary rates. Functionality
includes visualization of rate shifts on phylogenies, estimating
evolutionary rates through time, comparing posterior distributions of
evolutionary rates across clades, comparing diversification models using
Bayes factors, and more.
Author: Dan Rabosky, Mike Grundler, Pascal Title, Carlos Anderson, Jeff Shi,
Joseph Brown, Huateng Huang, Jon Mitchell
Maintainer: Pascal Title <ptitle@umich.edu>
Diff between BAMMtools versions 2.1.3 dated 2016-05-24 and 2.1.4 dated 2016-06-13
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- NAMESPACE | 3 +++ 3 files changed, 9 insertions(+), 6 deletions(-)
Title: Approximate Unconditional and Permutation Tests
Description: Performs approximate unconditional and permutation testing for
2x2 contingency tables. Motivated by testing for disease association with rare
genetic variants in case-control studies. When variants are extremely rare,
these tests give better control of Type I error than standard tests.
Author: Arjun Sondhi, Ken Rice
Maintainer: Arjun Sondhi <asondhi@uw.edu>
Diff between AUtests versions 0.97 dated 2016-03-31 and 0.98 dated 2016-06-13
DESCRIPTION | 6 +++--- MD5 | 20 ++++++++++---------- R/au.firth.r | 2 +- R/au.test.strat.r | 5 ++++- R/au.tests.r | 2 ++ R/perm.test.strat.r | 4 +++- R/perm.tests.r | 3 ++- inst/doc/vignette-html.html | 6 +++--- man/au.firth.Rd | 2 +- man/au.test.strat.Rd | 2 +- man/perm.test.strat.Rd | 2 +- 11 files changed, 31 insertions(+), 23 deletions(-)
Title: Tools for Archiving, Managing and Sharing R Objects via GitHub
Description: The extension of the 'archivist' package integrating the archivist with GitHub via GitHub API, 'git2r' packages and 'httr' package.
Author: Marcin Kosinski [aut, cre],
Przemyslaw Biecek [aut]
Maintainer: Marcin Kosinski <m.p.kosinski@gmail.com>
Diff between archivist.github versions 0.1.1 dated 2016-03-25 and 0.2.0 dated 2016-06-13
archivist.github-0.1.1/archivist.github/man/archivist-package.Rd |only archivist.github-0.1.1/archivist.github/man/createEmptyRepo.Rd |only archivist.github-0.1.1/archivist.github/man/deleteRepo.Rd |only archivist.github-0.2.0/archivist.github/DESCRIPTION | 6 archivist.github-0.2.0/archivist.github/MD5 | 48 +++-- archivist.github-0.2.0/archivist.github/NAMESPACE | 6 archivist.github-0.2.0/archivist.github/NEWS.md | 14 + archivist.github-0.2.0/archivist.github/R/addHooksToPrintGitHub.R |only archivist.github-0.2.0/archivist.github/R/agithub.R | 33 ++-- archivist.github-0.2.0/archivist.github/R/archive.R | 53 +++--- archivist.github-0.2.0/archivist.github/R/archivist.github-package.R | 30 ++- archivist.github-0.2.0/archivist.github/R/authoriseGitHub.R |only archivist.github-0.2.0/archivist.github/R/cloneGitHubRepo.R | 38 ++-- archivist.github-0.2.0/archivist.github/R/createGitHubRepo.R | 81 ++++------ archivist.github-0.2.0/archivist.github/R/deleteGitHubRepo.R | 52 +++--- archivist.github-0.2.0/archivist.github/R/push_pull_Repo.R | 38 ++-- archivist.github-0.2.0/archivist.github/R/zzz.R | 7 archivist.github-0.2.0/archivist.github/README.md | 2 archivist.github-0.2.0/archivist.github/man/addHooksToPrintGitHub.Rd |only archivist.github-0.2.0/archivist.github/man/archive.Rd | 38 ++-- archivist.github-0.2.0/archivist.github/man/archivist-github-integration.Rd | 33 ++-- archivist.github-0.2.0/archivist.github/man/archivist.github-package.Rd |only archivist.github-0.2.0/archivist.github/man/authoriseGitHub.Rd |only archivist.github-0.2.0/archivist.github/man/cloneGitHubRepo.Rd | 29 +-- archivist.github-0.2.0/archivist.github/man/createGitHubRepo.Rd |only archivist.github-0.2.0/archivist.github/man/deleteGitHubRepo.Rd |only archivist.github-0.2.0/archivist.github/man/pushGitHubRepo.Rd | 32 ++- archivist.github-0.2.0/archivist.github/vignettes |only 28 files changed, 304 insertions(+), 236 deletions(-)
More information about archivist.github at CRAN
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Title: Statistical Procedures for Agricultural Research
Description: Original idea was presented in the thesis "A statistical analysis tool for agricultural research" to obtain the degree of Master on science, National Engineering University (UNI), Lima-Peru. Some experimental data for the examples come from the CIP and others research. Agricolae offers extensive functionality on experimental design especially for agricultural and plant breeding experiments, which can also be useful for other purposes. It supports planning of lattice, Alpha, Cyclic, Complete Block, Latin Square, Graeco-Latin Squares, augmented block, factorial, split and strip plot designs. There are also various analysis facilities for experimental data, e.g. treatment comparison procedures and several non-parametric tests comparison, biodiversity indexes and consensus cluster.
Author: Felipe de Mendiburu
Maintainer: Felipe de Mendiburu <f.mendiburu@cgiar.org>
Diff between agricolae versions 1.2-3 dated 2015-10-06 and 1.2-4 dated 2016-06-13
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agricolae-1.2-4/agricolae/R/audpc.R | 3 agricolae-1.2-4/agricolae/R/audps.R | 3 agricolae-1.2-4/agricolae/R/bar.err.R | 3 agricolae-1.2-4/agricolae/R/bar.group.R | 3 agricolae-1.2-4/agricolae/R/carolina.R | 3 agricolae-1.2-4/agricolae/R/consensus.R | 2 agricolae-1.2-4/agricolae/R/correl.R | 18 agricolae-1.2-4/agricolae/R/correlation.R | 25 agricolae-1.2-4/agricolae/R/cv.model.R | 3 agricolae-1.2-4/agricolae/R/cv.similarity.R | 3 agricolae-1.2-4/agricolae/R/delete.na.R | 3 agricolae-1.2-4/agricolae/R/design.ab.R | 2 agricolae-1.2-4/agricolae/R/design.alpha.R | 3 agricolae-1.2-4/agricolae/R/design.bib.R | 2 agricolae-1.2-4/agricolae/R/design.crd.R | 3 agricolae-1.2-4/agricolae/R/design.cyclic.R | 2 agricolae-1.2-4/agricolae/R/design.dau.R | 2 agricolae-1.2-4/agricolae/R/design.graeco.R | 2 agricolae-1.2-4/agricolae/R/design.lattice.R | 2 agricolae-1.2-4/agricolae/R/design.lsd.R | 3 agricolae-1.2-4/agricolae/R/design.rcbd.R | 2 agricolae-1.2-4/agricolae/R/design.split.R | 3 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agricolae-1.2-4/agricolae/R/ogive.freq.R | 4 agricolae-1.2-4/agricolae/R/order.group.R | 2 agricolae-1.2-4/agricolae/R/order.stat.R | 3 agricolae-1.2-4/agricolae/R/orderPvalue.R |only agricolae-1.2-4/agricolae/R/path.analysis.R | 3 agricolae-1.2-4/agricolae/R/plot.AMMI.R |only agricolae-1.2-4/agricolae/R/plot.graph.freq.R | 180 +++--- agricolae-1.2-4/agricolae/R/polygon.freq.R | 3 agricolae-1.2-4/agricolae/R/reg.homog.R | 3 agricolae-1.2-4/agricolae/R/resampling.cv.R | 3 agricolae-1.2-4/agricolae/R/resampling.model.R | 3 agricolae-1.2-4/agricolae/R/scheffe.test.R | 4 agricolae-1.2-4/agricolae/R/similarity.R | 3 agricolae-1.2-4/agricolae/R/simulation.model.R | 3 agricolae-1.2-4/agricolae/R/skewness.R | 3 agricolae-1.2-4/agricolae/R/sp.plot.R | 4 agricolae-1.2-4/agricolae/R/ssp.plot.R | 4 agricolae-1.2-4/agricolae/R/stability.nonpar.R | 3 agricolae-1.2-4/agricolae/R/stability.par.R | 569 +++++++++----------- agricolae-1.2-4/agricolae/R/stat.freq.R | 3 agricolae-1.2-4/agricolae/R/strip.plot.R | 3 agricolae-1.2-4/agricolae/R/sturges.freq.R | 3 agricolae-1.2-4/agricolae/R/summary.graph.freq.R | 3 agricolae-1.2-4/agricolae/R/table.freq.R | 3 agricolae-1.2-4/agricolae/R/tapply.stat.R | 3 agricolae-1.2-4/agricolae/R/vark.R | 3 agricolae-1.2-4/agricolae/R/waerden.test.R | 3 agricolae-1.2-4/agricolae/R/waller.R | 3 agricolae-1.2-4/agricolae/R/waller.test.R | 6 agricolae-1.2-4/agricolae/R/weatherSeverity.R |only agricolae-1.2-4/agricolae/R/zigzag.R |only agricolae-1.2-4/agricolae/build/vignette.rds |binary agricolae-1.2-4/agricolae/data/CIC.rda |binary agricolae-1.2-4/agricolae/data/Chz2006.rda |binary agricolae-1.2-4/agricolae/data/ComasOxapampa.rda |binary agricolae-1.2-4/agricolae/data/DC.rda |binary agricolae-1.2-4/agricolae/data/Glycoalkaloids.rda |binary agricolae-1.2-4/agricolae/data/Hco2006.rda |binary agricolae-1.2-4/agricolae/data/LxT.rda |binary agricolae-1.2-4/agricolae/data/RioChillon.rda |binary agricolae-1.2-4/agricolae/data/clay.rda |binary agricolae-1.2-4/agricolae/data/corn.rda |binary agricolae-1.2-4/agricolae/data/cotton.rda |binary agricolae-1.2-4/agricolae/data/disease.rda |binary agricolae-1.2-4/agricolae/data/frijol.rda |binary agricolae-1.2-4/agricolae/data/genxenv.rda |binary agricolae-1.2-4/agricolae/data/grass.rda |binary agricolae-1.2-4/agricolae/data/greenhouse.rda |binary agricolae-1.2-4/agricolae/data/growth.rda |binary agricolae-1.2-4/agricolae/data/haynes.rda |binary agricolae-1.2-4/agricolae/data/heterosis.rda |binary agricolae-1.2-4/agricolae/data/huasahuasi.rda |binary agricolae-1.2-4/agricolae/data/markers.rda |binary agricolae-1.2-4/agricolae/data/melon.rda |binary agricolae-1.2-4/agricolae/data/natives.rda |binary agricolae-1.2-4/agricolae/data/pamCIP.rda |binary agricolae-1.2-4/agricolae/data/paracsho.rda |binary agricolae-1.2-4/agricolae/data/plots.rda |binary agricolae-1.2-4/agricolae/data/plrv.rda |binary agricolae-1.2-4/agricolae/data/potato.rda |binary agricolae-1.2-4/agricolae/data/ralstonia.rda |binary agricolae-1.2-4/agricolae/data/rice.rda |binary agricolae-1.2-4/agricolae/data/sinRepAmmi.rda |binary agricolae-1.2-4/agricolae/data/soil.rda |binary agricolae-1.2-4/agricolae/data/sweetpotato.rda |binary agricolae-1.2-4/agricolae/data/wilt.rda |binary agricolae-1.2-4/agricolae/data/yacon.rda |binary agricolae-1.2-4/agricolae/inst/doc/tutorial.R | 199 +++--- agricolae-1.2-4/agricolae/inst/doc/tutorial.Rnw | 27 agricolae-1.2-4/agricolae/inst/doc/tutorial.pdf |binary agricolae-1.2-4/agricolae/man/AMMI.Rd | 12 agricolae-1.2-4/agricolae/man/HSD.test.Rd | 7 agricolae-1.2-4/agricolae/man/LSD.test.Rd | 11 agricolae-1.2-4/agricolae/man/PBIB.test.Rd | 12 agricolae-1.2-4/agricolae/man/RioChillon.Rd | 8 agricolae-1.2-4/agricolae/man/SNK.test.Rd | 4 agricolae-1.2-4/agricolae/man/VanderWarden.Rd | 10 agricolae-1.2-4/agricolae/man/agricolae-package.Rd | 4 agricolae-1.2-4/agricolae/man/correl.Rd | 8 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agricolae-1.2-4/agricolae/man/sturges.freq.Rd | 8 agricolae-1.2-4/agricolae/man/summary.graph.freq.Rd | 4 agricolae-1.2-4/agricolae/man/table.freq.Rd | 4 agricolae-1.2-4/agricolae/man/tapply.stat.Rd | 19 agricolae-1.2-4/agricolae/man/waller.test.Rd | 4 agricolae-1.2-4/agricolae/vignettes/tutorial.Rnw | 27 171 files changed, 1207 insertions(+), 1287 deletions(-)
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