Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-03-30 0.9.8.3
2015-02-07 0.9.8
2014-10-01 0.9.5
Title: Core Utilities for Developing and Running Spatially Explicit
Discrete Event Simulation Models
Description: Provide the core discrete event simulation (DES) framework for
implementing spatially explicit simulation models. The core DES components
facilitate modularity, and easily enable the user to include additional
functionality by running user-built simulation modules.
Author: Alex M Chubaty [aut, cre],
Eliot J B McIntire [aut],
Yong Luo [ctb],
Steve Cumming [ctb],
Ceres Barros [ctb],
Her Majesty the Queen in Right of Canada, as represented by the
Minister of Natural Resources Canada [cph]
Maintainer: Alex M Chubaty <alex.chubaty@gmail.com>
Diff between SpaDES.core versions 0.1.1 dated 2018-01-29 and 0.2.0 dated 2018-07-10
SpaDES.core-0.1.1/SpaDES.core/man/digest.Rd |only SpaDES.core-0.1.1/SpaDES.core/man/fileExt.Rd |only SpaDES.core-0.1.1/SpaDES.core/tests/testthat/test-checksums.R |only SpaDES.core-0.2.0/SpaDES.core/.aspell/defaults.R | 12 SpaDES.core-0.2.0/SpaDES.core/DESCRIPTION | 51 SpaDES.core-0.2.0/SpaDES.core/MD5 | 382 SpaDES.core-0.2.0/SpaDES.core/NAMESPACE | 740 - SpaDES.core-0.2.0/SpaDES.core/NEWS.md | 146 SpaDES.core-0.2.0/SpaDES.core/R/POM.R | 948 - SpaDES.core-0.2.0/SpaDES.core/R/cache.R | 1077 +- SpaDES.core-0.2.0/SpaDES.core/R/check.R | 558 - SpaDES.core-0.2.0/SpaDES.core/R/checkpoint.R | 233 SpaDES.core-0.2.0/SpaDES.core/R/code-checking.R |only SpaDES.core-0.2.0/SpaDES.core/R/copy.R | 92 SpaDES.core-0.2.0/SpaDES.core/R/downloadData.R |only SpaDES.core-0.2.0/SpaDES.core/R/environment.R | 38 SpaDES.core-0.2.0/SpaDES.core/R/experiment.R | 943 - SpaDES.core-0.2.0/SpaDES.core/R/helpers.R | 494 SpaDES.core-0.2.0/SpaDES.core/R/load.R | 657 - SpaDES.core-0.2.0/SpaDES.core/R/misc-methods.R | 1238 +- SpaDES.core-0.2.0/SpaDES.core/R/module-define.R | 1439 +- SpaDES.core-0.2.0/SpaDES.core/R/module-dependencies-class.R | 455 SpaDES.core-0.2.0/SpaDES.core/R/module-dependencies-methods.R | 517 SpaDES.core-0.2.0/SpaDES.core/R/module-repository.R | 1226 -- SpaDES.core-0.2.0/SpaDES.core/R/module-template.R | 1993 +-- SpaDES.core-0.2.0/SpaDES.core/R/moduleCoverage.R | 296 SpaDES.core-0.2.0/SpaDES.core/R/moduleMetadata.R | 355 SpaDES.core-0.2.0/SpaDES.core/R/plotting-diagrams.R | 895 - SpaDES.core-0.2.0/SpaDES.core/R/plotting.R | 180 SpaDES.core-0.2.0/SpaDES.core/R/priority.R | 84 SpaDES.core-0.2.0/SpaDES.core/R/progress.R | 222 SpaDES.core-0.2.0/SpaDES.core/R/save.R | 484 SpaDES.core-0.2.0/SpaDES.core/R/simList-accessors.R | 5299 +++++----- SpaDES.core-0.2.0/SpaDES.core/R/simList-class.R | 423 SpaDES.core-0.2.0/SpaDES.core/R/simulation-parseModule.R | 966 - SpaDES.core-0.2.0/SpaDES.core/R/simulation-simInit.R | 1601 +-- SpaDES.core-0.2.0/SpaDES.core/R/simulation-spades.R | 1384 +- SpaDES.core-0.2.0/SpaDES.core/R/spades-classes.R | 36 SpaDES.core-0.2.0/SpaDES.core/R/spades-core-deprecated.R |only SpaDES.core-0.2.0/SpaDES.core/R/spades-core-package.R | 953 - SpaDES.core-0.2.0/SpaDES.core/R/suppliedElsewhere.R |only SpaDES.core-0.2.0/SpaDES.core/R/times.R | 889 - SpaDES.core-0.2.0/SpaDES.core/R/zzz.R | 137 SpaDES.core-0.2.0/SpaDES.core/README.md | 92 SpaDES.core-0.2.0/SpaDES.core/build/vignette.rds |binary SpaDES.core-0.2.0/SpaDES.core/inst/doc/i-introduction.R | 98 SpaDES.core-0.2.0/SpaDES.core/inst/doc/i-introduction.Rmd | 692 - SpaDES.core-0.2.0/SpaDES.core/inst/doc/i-introduction.html | 776 - SpaDES.core-0.2.0/SpaDES.core/inst/doc/ii-modules.R | 751 - SpaDES.core-0.2.0/SpaDES.core/inst/doc/ii-modules.Rmd | 1691 +-- SpaDES.core-0.2.0/SpaDES.core/inst/doc/ii-modules.html | 2218 ++-- SpaDES.core-0.2.0/SpaDES.core/inst/examples/example_POM.R | 336 SpaDES.core-0.2.0/SpaDES.core/inst/examples/example_experiment.R | 444 SpaDES.core-0.2.0/SpaDES.core/inst/examples/example_moduleMetadata.R | 28 SpaDES.core-0.2.0/SpaDES.core/inst/examples/example_moduleVersion.R | 30 SpaDES.core-0.2.0/SpaDES.core/inst/sampleModules/SpaDES_sampleModules/SpaDES_sampleModules.R | 60 SpaDES.core-0.2.0/SpaDES.core/inst/sampleModules/SpaDES_sampleModules/SpaDES_sampleModules.Rmd | 94 SpaDES.core-0.2.0/SpaDES.core/inst/sampleModules/caribouMovement/caribouMovement.R | 318 SpaDES.core-0.2.0/SpaDES.core/inst/sampleModules/fireSpread/fireSpread.R | 378 SpaDES.core-0.2.0/SpaDES.core/inst/sampleModules/randomLandscapes/randomLandscapes.R | 250 SpaDES.core-0.2.0/SpaDES.core/man/Copy.Rd | 68 SpaDES.core-0.2.0/SpaDES.core/man/POM.Rd | 726 - SpaDES.core-0.2.0/SpaDES.core/man/Plot.Rd | 254 SpaDES.core-0.2.0/SpaDES.core/man/SpaDES.core-package.Rd | 1036 - SpaDES.core-0.2.0/SpaDES.core/man/addDepends.Rd | 80 SpaDES.core-0.2.0/SpaDES.core/man/addTagsToOutput.Rd | 58 SpaDES.core-0.2.0/SpaDES.core/man/all.equal.simList.Rd |only SpaDES.core-0.2.0/SpaDES.core/man/append_attr.Rd | 76 SpaDES.core-0.2.0/SpaDES.core/man/cacheMessage.Rd | 44 SpaDES.core-0.2.0/SpaDES.core/man/checkCacheRepo.Rd | 40 SpaDES.core-0.2.0/SpaDES.core/man/checkModule.Rd | 56 SpaDES.core-0.2.0/SpaDES.core/man/checkModuleLocal.Rd | 78 SpaDES.core-0.2.0/SpaDES.core/man/checkObject.Rd | 110 SpaDES.core-0.2.0/SpaDES.core/man/checkParams.Rd | 70 SpaDES.core-0.2.0/SpaDES.core/man/checkpoint.Rd | 168 SpaDES.core-0.2.0/SpaDES.core/man/checksums.Rd | 140 SpaDES.core-0.2.0/SpaDES.core/man/classFilter.Rd | 200 SpaDES.core-0.2.0/SpaDES.core/man/copyModule.Rd | 76 SpaDES.core-0.2.0/SpaDES.core/man/coreModules.Rd | 36 SpaDES.core-0.2.0/SpaDES.core/man/createsOutput.Rd | 90 SpaDES.core-0.2.0/SpaDES.core/man/defineModule.Rd | 359 SpaDES.core-0.2.0/SpaDES.core/man/defineParameter.Rd | 111 SpaDES.core-0.2.0/SpaDES.core/man/depsEdgeList.Rd | 70 SpaDES.core-0.2.0/SpaDES.core/man/depsGraph.Rd | 66 SpaDES.core-0.2.0/SpaDES.core/man/depsLoadOrder.Rd | 68 SpaDES.core-0.2.0/SpaDES.core/man/depsPruneEdges.Rd | 54 SpaDES.core-0.2.0/SpaDES.core/man/doEvent.Rd | 94 SpaDES.core-0.2.0/SpaDES.core/man/downloadData.Rd | 148 SpaDES.core-0.2.0/SpaDES.core/man/downloadModule.Rd | 148 SpaDES.core-0.2.0/SpaDES.core/man/emptyEventList.Rd | 113 SpaDES.core-0.2.0/SpaDES.core/man/emptyMetadata.Rd | 46 SpaDES.core-0.2.0/SpaDES.core/man/eventDiagram.Rd | 114 SpaDES.core-0.2.0/SpaDES.core/man/expectsInput.Rd | 108 SpaDES.core-0.2.0/SpaDES.core/man/experiment.Rd | 866 - SpaDES.core-0.2.0/SpaDES.core/man/extractURL.Rd |only SpaDES.core-0.2.0/SpaDES.core/man/fileEdit.Rd | 48 SpaDES.core-0.2.0/SpaDES.core/man/fileName.Rd | 40 SpaDES.core-0.2.0/SpaDES.core/man/fileTable.Rd | 74 SpaDES.core-0.2.0/SpaDES.core/man/fillInputRows.Rd | 34 SpaDES.core-0.2.0/SpaDES.core/man/fillOutputRows.Rd | 34 SpaDES.core-0.2.0/SpaDES.core/man/findElements.Rd |only SpaDES.core-0.2.0/SpaDES.core/man/findModuleName.Rd |only SpaDES.core-0.2.0/SpaDES.core/man/findObjects.Rd | 48 SpaDES.core-0.2.0/SpaDES.core/man/findSimList.Rd | 30 SpaDES.core-0.2.0/SpaDES.core/man/ganttStatus.Rd | 58 SpaDES.core-0.2.0/SpaDES.core/man/getModuleVersion.Rd | 70 SpaDES.core-0.2.0/SpaDES.core/man/globals.Rd | 110 SpaDES.core-0.2.0/SpaDES.core/man/identifyChildModules.Rd |only SpaDES.core-0.2.0/SpaDES.core/man/initialize-method.Rd | 32 SpaDES.core-0.2.0/SpaDES.core/man/inputObjects.Rd | 62 SpaDES.core-0.2.0/SpaDES.core/man/keepAttrs.Rd |only SpaDES.core-0.2.0/SpaDES.core/man/loadFiles.Rd | 220 SpaDES.core-0.2.0/SpaDES.core/man/loadPackages.Rd | 100 SpaDES.core-0.2.0/SpaDES.core/man/ls-method.Rd | 76 SpaDES.core-0.2.0/SpaDES.core/man/ls_str-method.Rd | 76 SpaDES.core-0.2.0/SpaDES.core/man/makeMemoiseable.Rd |only SpaDES.core-0.2.0/SpaDES.core/man/maxTimeunit.Rd | 50 SpaDES.core-0.2.0/SpaDES.core/man/minTimeunit.Rd | 58 SpaDES.core-0.2.0/SpaDES.core/man/modifySearchPath.Rd | 70 SpaDES.core-0.2.0/SpaDES.core/man/moduleCoverage.Rd | 126 SpaDES.core-0.2.0/SpaDES.core/man/moduleDefaults.Rd | 30 SpaDES.core-0.2.0/SpaDES.core/man/moduleDeps-class.Rd | 148 SpaDES.core-0.2.0/SpaDES.core/man/moduleDiagram.Rd | 88 SpaDES.core-0.2.0/SpaDES.core/man/moduleGraph.Rd | 88 SpaDES.core-0.2.0/SpaDES.core/man/moduleMetadata.Rd | 110 SpaDES.core-0.2.0/SpaDES.core/man/moduleVersion.Rd | 122 SpaDES.core-0.2.0/SpaDES.core/man/namespacing.Rd | 82 SpaDES.core-0.2.0/SpaDES.core/man/newModule.Rd | 190 SpaDES.core-0.2.0/SpaDES.core/man/newModuleCode.Rd | 76 SpaDES.core-0.2.0/SpaDES.core/man/newModuleDocumentation.Rd | 98 SpaDES.core-0.2.0/SpaDES.core/man/newModuleTests.Rd | 64 SpaDES.core-0.2.0/SpaDES.core/man/objSize.simList.Rd |only SpaDES.core-0.2.0/SpaDES.core/man/objSizeInclEnviros.Rd | 36 SpaDES.core-0.2.0/SpaDES.core/man/objectDiagram.Rd | 66 SpaDES.core-0.2.0/SpaDES.core/man/objects.Rd | 156 SpaDES.core-0.2.0/SpaDES.core/man/openModules.Rd | 104 SpaDES.core-0.2.0/SpaDES.core/man/packages.Rd | 108 SpaDES.core-0.2.0/SpaDES.core/man/paddedFloatToChar.Rd | 68 SpaDES.core-0.2.0/SpaDES.core/man/params.Rd | 174 SpaDES.core-0.2.0/SpaDES.core/man/parseElems.Rd | 44 SpaDES.core-0.2.0/SpaDES.core/man/parseMessage.Rd |only SpaDES.core-0.2.0/SpaDES.core/man/parseModule.Rd | 134 SpaDES.core-0.2.0/SpaDES.core/man/pkgEnv.Rd | 28 SpaDES.core-0.2.0/SpaDES.core/man/preDigestByClass.Rd | 48 SpaDES.core-0.2.0/SpaDES.core/man/prepareOutput.Rd | 46 SpaDES.core-0.2.0/SpaDES.core/man/priority.Rd | 60 SpaDES.core-0.2.0/SpaDES.core/man/progress.Rd | 172 SpaDES.core-0.2.0/SpaDES.core/man/progressBar.Rd | 46 SpaDES.core-0.2.0/SpaDES.core/man/quickCheck.Rd | 32 SpaDES.core-0.2.0/SpaDES.core/man/rasterToMemory.Rd | 60 SpaDES.core-0.2.0/SpaDES.core/man/remoteFileSize.Rd | 54 SpaDES.core-0.2.0/SpaDES.core/man/rndstr.Rd | 128 SpaDES.core-0.2.0/SpaDES.core/man/robustDigest.Rd | 119 SpaDES.core-0.2.0/SpaDES.core/man/runCodeChecks.Rd |only SpaDES.core-0.2.0/SpaDES.core/man/saveFiles.Rd | 202 SpaDES.core-0.2.0/SpaDES.core/man/scheduleEvent.Rd | 115 SpaDES.core-0.2.0/SpaDES.core/man/setPaths.Rd | 99 SpaDES.core-0.2.0/SpaDES.core/man/show-method.Rd | 36 SpaDES.core-0.2.0/SpaDES.core/man/sim2gantt.Rd | 72 SpaDES.core-0.2.0/SpaDES.core/man/simDeps-class.Rd | 46 SpaDES.core-0.2.0/SpaDES.core/man/simInit.Rd | 611 - SpaDES.core-0.2.0/SpaDES.core/man/simList-accessors-envir.Rd | 102 SpaDES.core-0.2.0/SpaDES.core/man/simList-accessors-events.Rd | 202 SpaDES.core-0.2.0/SpaDES.core/man/simList-accessors-inout.Rd | 720 - SpaDES.core-0.2.0/SpaDES.core/man/simList-accessors-modules.Rd | 144 SpaDES.core-0.2.0/SpaDES.core/man/simList-accessors-paths.Rd | 254 SpaDES.core-0.2.0/SpaDES.core/man/simList-accessors-times.Rd | 322 SpaDES.core-0.2.0/SpaDES.core/man/simList-class.Rd | 232 SpaDES.core-0.2.0/SpaDES.core/man/simList_-class.Rd | 46 SpaDES.core-0.2.0/SpaDES.core/man/spades-classes.Rd | 50 SpaDES.core-0.2.0/SpaDES.core/man/spades.Rd | 348 SpaDES.core-0.2.0/SpaDES.core/man/spadesOptions.Rd |only SpaDES.core-0.2.0/SpaDES.core/man/spadesTime.Rd | 158 SpaDES.core-0.2.0/SpaDES.core/man/suppliedElsewhere.Rd |only SpaDES.core-0.2.0/SpaDES.core/man/tagsByClass.Rd | 44 SpaDES.core-0.2.0/SpaDES.core/man/timeConversion.Rd | 152 SpaDES.core-0.2.0/SpaDES.core/man/tryCatch.Rd |only SpaDES.core-0.2.0/SpaDES.core/man/unparsed.Rd | 50 SpaDES.core-0.2.0/SpaDES.core/man/updateList.Rd | 102 SpaDES.core-0.2.0/SpaDES.core/man/verb.Rd |only SpaDES.core-0.2.0/SpaDES.core/man/zipModule.Rd | 92 SpaDES.core-0.2.0/SpaDES.core/tests/test-all.R | 6 SpaDES.core-0.2.0/SpaDES.core/tests/testthat/helper-cleanMessage.R |only SpaDES.core-0.2.0/SpaDES.core/tests/testthat/test-aaa.R |only SpaDES.core-0.2.0/SpaDES.core/tests/testthat/test-cache.R | 730 - SpaDES.core-0.2.0/SpaDES.core/tests/testthat/test-checkpoint.R | 207 SpaDES.core-0.2.0/SpaDES.core/tests/testthat/test-downloadData.R |only SpaDES.core-0.2.0/SpaDES.core/tests/testthat/test-downloadModule.R | 251 SpaDES.core-0.2.0/SpaDES.core/tests/testthat/test-environment.R | 14 SpaDES.core-0.2.0/SpaDES.core/tests/testthat/test-examples.R | 24 SpaDES.core-0.2.0/SpaDES.core/tests/testthat/test-experiment.R | 410 SpaDES.core-0.2.0/SpaDES.core/tests/testthat/test-load.R | 814 - SpaDES.core-0.2.0/SpaDES.core/tests/testthat/test-module-deps-methods.R | 417 SpaDES.core-0.2.0/SpaDES.core/tests/testthat/test-module-template.R | 147 SpaDES.core-0.2.0/SpaDES.core/tests/testthat/test-paths.R | 126 SpaDES.core-0.2.0/SpaDES.core/tests/testthat/test-save.R | 198 SpaDES.core-0.2.0/SpaDES.core/tests/testthat/test-simList.R | 562 - SpaDES.core-0.2.0/SpaDES.core/tests/testthat/test-simulation.R | 1194 +- SpaDES.core-0.2.0/SpaDES.core/tests/testthat/test-spelling.R | 58 SpaDES.core-0.2.0/SpaDES.core/tests/testthat/test-timeunits.R | 564 - SpaDES.core-0.2.0/SpaDES.core/tests/testthat/test-updateList.R | 32 SpaDES.core-0.2.0/SpaDES.core/tests/testthat/test-userSuppliedObjs.R |only SpaDES.core-0.2.0/SpaDES.core/tests/testthat/test-zzz.R |only SpaDES.core-0.2.0/SpaDES.core/vignettes/bibliography.bib | 270 SpaDES.core-0.2.0/SpaDES.core/vignettes/i-introduction.Rmd | 692 - SpaDES.core-0.2.0/SpaDES.core/vignettes/ii-modules.Rmd | 1691 +-- 206 files changed, 29767 insertions(+), 28504 deletions(-)
Title: The Official SolveBio API Client
Description: R language bindings for SolveBio's API.
SolveBio is a biomedical knowledge hub that enables life science
organizations to collect and harmonize the complex, disparate
"multi-omic" data essential for today's R&D and BI needs.
For more information, visit <https://www.solvebio.com>.
Author: David Caplan
Maintainer: David Caplan <dcaplan@solvebio.com>
Diff between solvebio versions 2.5.0 dated 2018-04-25 and 2.5.1 dated 2018-07-10
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NEWS.md | 6 ++++++ R/dataset.R | 5 ----- R/dataset_export.R | 6 ++++++ R/solvebio.R | 18 ++++++++++-------- man/DatasetExport.create.Rd | 4 +++- 7 files changed, 34 insertions(+), 23 deletions(-)
Title: An Analysis Toolbox for Hermitian Positive Definite Matrices
Description: An implementation of data analysis tools for samples of symmetric or
Hermitian positive definite matrices, such as collections of covariance matrices
or spectral density matrices. The tools in this package can be used to perform: (i)
intrinsic wavelet transforms for curves (1D) or surfaces (2D) of Hermitian positive
definite matrices with applications to dimension reduction, denoising and clustering in the
space of Hermitian positive definite matrices; and (ii) exploratory data analysis and inference
for samples of positive definite matrices by means of intrinsic data depth functions and
rank-based hypothesis tests in the space of Hermitian positive definite matrices.
Author: Joris Chau [aut, cre]
Maintainer: Joris Chau <j.chau@uclouvain.be>
Diff between pdSpecEst versions 1.2.1 dated 2017-12-10 and 1.2.2 dated 2018-07-10
pdSpecEst-1.2.1/pdSpecEst/R/dist.R |only pdSpecEst-1.2.1/pdSpecEst/R/inference.R |only pdSpecEst-1.2.1/pdSpecEst/R/karchMean.R |only pdSpecEst-1.2.1/pdSpecEst/man/ParTrans.Rd |only pdSpecEst-1.2.1/pdSpecEst/man/pdConfInt1D.Rd |only pdSpecEst-1.2.1/pdSpecEst/man/rExamples.Rd |only pdSpecEst-1.2.1/pdSpecEst/src/Tools.cpp |only pdSpecEst-1.2.1/pdSpecEst/src/Transform.cpp |only pdSpecEst-1.2.1/pdSpecEst/src/arma.cpp |only pdSpecEst-1.2.1/pdSpecEst/src/kMean.cpp |only pdSpecEst-1.2.2/pdSpecEst/DESCRIPTION | 22 pdSpecEst-1.2.2/pdSpecEst/MD5 | 135 +- pdSpecEst-1.2.2/pdSpecEst/NAMESPACE | 8 pdSpecEst-1.2.2/pdSpecEst/NEWS.md | 14 pdSpecEst-1.2.2/pdSpecEst/R/RcppExports.R | 146 ++ pdSpecEst-1.2.2/pdSpecEst/R/benchmark.R | 130 +- pdSpecEst-1.2.2/pdSpecEst/R/cluster.R | 703 ++++++------- pdSpecEst-1.2.2/pdSpecEst/R/depth.R | 161 +- pdSpecEst-1.2.2/pdSpecEst/R/estimation.R | 451 +++----- pdSpecEst-1.2.2/pdSpecEst/R/examples.R | 559 ++++++---- pdSpecEst-1.2.2/pdSpecEst/R/impute.R | 223 ---- pdSpecEst-1.2.2/pdSpecEst/R/invwavtrans.R | 310 ++--- pdSpecEst-1.2.2/pdSpecEst/R/meandist.R |only pdSpecEst-1.2.2/pdSpecEst/R/pdSpecEst.R | 24 pdSpecEst-1.2.2/pdSpecEst/R/pgram.R | 207 +-- pdSpecEst-1.2.2/pdSpecEst/R/polynomial.R | 159 +- pdSpecEst-1.2.2/pdSpecEst/R/ranktests.R | 124 +- pdSpecEst-1.2.2/pdSpecEst/R/sysdata.rda |binary pdSpecEst-1.2.2/pdSpecEst/R/wavtrans.R | 407 +++---- pdSpecEst-1.2.2/pdSpecEst/README.md | 14 pdSpecEst-1.2.2/pdSpecEst/build/partial.rdb |only pdSpecEst-1.2.2/pdSpecEst/build/vignette.rds |binary pdSpecEst-1.2.2/pdSpecEst/inst/REFERENCES.bib |only pdSpecEst-1.2.2/pdSpecEst/inst/doc/depth_ranktests.R | 168 --- pdSpecEst-1.2.2/pdSpecEst/inst/doc/depth_ranktests.Rmd | 259 +--- pdSpecEst-1.2.2/pdSpecEst/inst/doc/depth_ranktests.html | 174 +-- pdSpecEst-1.2.2/pdSpecEst/inst/doc/wavelet_est_clust.R | 288 ++--- pdSpecEst-1.2.2/pdSpecEst/inst/doc/wavelet_est_clust.Rmd | 556 ++++------ pdSpecEst-1.2.2/pdSpecEst/inst/doc/wavelet_est_clust.html | 440 +++----- pdSpecEst-1.2.2/pdSpecEst/man/Expm.Rd | 15 pdSpecEst-1.2.2/pdSpecEst/man/H.coeff.Rd | 20 pdSpecEst-1.2.2/pdSpecEst/man/InvWavTransf1D.Rd | 46 pdSpecEst-1.2.2/pdSpecEst/man/InvWavTransf2D.Rd | 48 pdSpecEst-1.2.2/pdSpecEst/man/Logm.Rd | 13 pdSpecEst-1.2.2/pdSpecEst/man/Mid.Rd | 13 pdSpecEst-1.2.2/pdSpecEst/man/WavTransf1D.Rd | 63 - pdSpecEst-1.2.2/pdSpecEst/man/WavTransf2D.Rd | 68 - pdSpecEst-1.2.2/pdSpecEst/man/pdCART.Rd | 63 - pdSpecEst-1.2.2/pdSpecEst/man/pdDepth.Rd | 73 - pdSpecEst-1.2.2/pdSpecEst/man/pdDist.Rd | 26 pdSpecEst-1.2.2/pdSpecEst/man/pdMean.Rd | 51 pdSpecEst-1.2.2/pdSpecEst/man/pdMedian.Rd |only pdSpecEst-1.2.2/pdSpecEst/man/pdNeville.Rd | 63 - pdSpecEst-1.2.2/pdSpecEst/man/pdParTrans.Rd |only pdSpecEst-1.2.2/pdSpecEst/man/pdPgram.Rd | 52 pdSpecEst-1.2.2/pdSpecEst/man/pdPgram2D.Rd | 62 - pdSpecEst-1.2.2/pdSpecEst/man/pdPolynomial.Rd | 30 pdSpecEst-1.2.2/pdSpecEst/man/pdRankTests.Rd | 96 - pdSpecEst-1.2.2/pdSpecEst/man/pdSpecClust1D.Rd | 104 + pdSpecEst-1.2.2/pdSpecEst/man/pdSpecClust2D.Rd | 113 +- pdSpecEst-1.2.2/pdSpecEst/man/pdSpecEst.Rd | 23 pdSpecEst-1.2.2/pdSpecEst/man/pdSpecEst1D.Rd | 96 - pdSpecEst-1.2.2/pdSpecEst/man/pdSpecEst2D.Rd | 90 - pdSpecEst-1.2.2/pdSpecEst/man/pdSplineReg.Rd | 68 - pdSpecEst-1.2.2/pdSpecEst/man/pdkMeans.Rd |only pdSpecEst-1.2.2/pdSpecEst/man/rARMA.Rd | 23 pdSpecEst-1.2.2/pdSpecEst/man/rExamples1D.Rd |only pdSpecEst-1.2.2/pdSpecEst/man/rExamples2D.Rd | 79 - pdSpecEst-1.2.2/pdSpecEst/src/Makevars | 1 pdSpecEst-1.2.2/pdSpecEst/src/Makevars.win | 5 pdSpecEst-1.2.2/pdSpecEst/src/RcppExports.cpp | 338 +++++- pdSpecEst-1.2.2/pdSpecEst/src/mean_fun.cpp |only pdSpecEst-1.2.2/pdSpecEst/src/transform_fun1.cpp |only pdSpecEst-1.2.2/pdSpecEst/src/transform_fun2.cpp |only pdSpecEst-1.2.2/pdSpecEst/src/ts_fun.cpp |only pdSpecEst-1.2.2/pdSpecEst/tests/testthat/test-estimation.R | 91 - pdSpecEst-1.2.2/pdSpecEst/tests/testthat/test-geometry.R | 16 pdSpecEst-1.2.2/pdSpecEst/vignettes/depth_ranktests.Rmd | 259 +--- pdSpecEst-1.2.2/pdSpecEst/vignettes/wavelet_est_clust.Rmd | 556 ++++------ 79 files changed, 4010 insertions(+), 4336 deletions(-)
Title: Immune Cell Gene Signatures for Profiling the Microenvironment
of Solid Tumours
Description: Estimate the relative abundance of tissue-infiltrating immune subpopulations abundances using gene expression data.
Author: Ajit Johnson Nirmal
Maintainer: Ajit Johnson Nirmal <ajitjohnson.n@gmail.com>
Diff between imsig versions 0.1.0 dated 2018-07-05 and 1.0.0 dated 2018-07-10
DESCRIPTION | 7 +++-- MD5 | 36 +++++++++++++-------------- R/corr_matrix.R | 2 - R/feature_select.R | 2 - R/gene_stat.R | 2 - R/imsig.R | 2 - R/imsig_survival.R | 2 - R/plot_abundance.R | 2 - R/plot_network.R | 2 - R/plot_survival.R | 2 - README.md | 66 +++++++++++++++++++++++++++++++++++++++++++++----- man/corr_matrix.Rd | 2 - man/feature_select.Rd | 2 - man/gene_stat.Rd | 2 - man/imsig.Rd | 2 - man/imsig_survival.Rd | 2 - man/plot_abundance.Rd | 2 - man/plot_network.Rd | 2 - man/plot_survival.Rd | 2 - 19 files changed, 98 insertions(+), 43 deletions(-)
Title: HTTP Client
Description: A simple HTTP client, with tools for making HTTP requests,
and mocking HTTP requests. The package is built on R6, and takes
inspiration from Ruby's 'faraday' gem (<https://rubygems.org/gems/faraday>).
The package name is a play on curl, the widely used command line tool
for HTTP, and this package is built on top of the R package 'curl', an
interface to 'libcurl' (<https://curl.haxx.se/libcurl>).
Author: Scott Chamberlain [aut, cre] (<https://orcid.org/0000-0003-1444-9135>)
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between crul versions 0.5.2 dated 2018-02-24 and 0.6.0 dated 2018-07-10
DESCRIPTION | 10 +- MD5 | 145 ++++++++++++++++-------------- NAMESPACE | 10 ++ NEWS.md | 20 ++++ R/async.R | 58 ++++++++---- R/asyncvaried.R | 58 ++++++++++-- R/auth.R | 10 +- R/client.R | 68 ++++++++++++-- R/cookies.R | 3 R/crul-package.r | 8 + R/delete-requests.R | 4 R/handle.R | 2 R/http-headers.R | 3 R/httprequest.R | 28 +++++ R/mocking.R | 52 +++++----- R/ok.R |only R/onLoad.R | 4 R/paginator.R | 1 R/post-requests.R | 5 - R/progress.R |only R/proxies.R | 56 +++++++---- R/response.R | 9 + R/set.R |only R/writing-options.R | 3 R/zzz.R | 2 README.md | 87 +++++++++--------- build/vignette.rds |binary inst/doc/async.Rmd | 48 ++++------ inst/doc/async.html | 67 ++++++-------- inst/doc/crul_vignette.Rmd | 123 ++++++++----------------- inst/doc/crul_vignette.html | 154 +++++++++++--------------------- inst/doc/curl-options.Rmd |only inst/doc/curl-options.html |only inst/doc/how-to-use-crul.Rmd | 36 +------ inst/doc/how-to-use-crul.html | 55 +++-------- man/Async.Rd | 50 ++++++++++ man/AsyncVaried.Rd | 58 ++++++++++++ man/HttpClient.Rd | 40 +++++++- man/HttpRequest.Rd | 9 + man/HttpResponse.Rd | 6 - man/auth.Rd | 8 + man/cookies.Rd | 2 man/crul-options.Rd |only man/crul-package.Rd | 9 + man/delete-requests.Rd | 3 man/handle.Rd | 2 man/http-headers.Rd | 2 man/mock.Rd | 52 +++++----- man/ok.Rd |only man/post-requests.Rd | 4 man/progress.Rd |only man/proxies.Rd | 41 ++++---- man/writing-options.Rd | 2 tests/testthat/helper-crul.R |only tests/testthat/test-async.R | 161 +++++++++++++++++++++++++++++----- tests/testthat/test-asyncvaried.R | 136 ++++++++++++++++++++++++++-- tests/testthat/test-auth.R | 4 tests/testthat/test-client.R | 10 +- tests/testthat/test-delete.R | 4 tests/testthat/test-get.R | 4 tests/testthat/test-handle.R | 2 tests/testthat/test-headers.R | 4 tests/testthat/test-mocking.R | 4 tests/testthat/test-ok.R |only tests/testthat/test-patch.R | 4 tests/testthat/test-paths.R | 6 - tests/testthat/test-post.R | 8 - tests/testthat/test-put.R | 4 tests/testthat/test-query.R | 6 - tests/testthat/test-request.R | 26 ++--- tests/testthat/test-response.R | 29 +++++- tests/testthat/test-set.R |only tests/testthat/test-status.R | 2 tests/testthat/test-stubbedresponse.R |only tests/testthat/test-url_build_parse.R | 12 +- tests/testthat/test-user-agent.R | 6 - vignettes/async.Rmd | 48 ++++------ vignettes/crul_vignette.Rmd | 123 ++++++++----------------- vignettes/curl-options.Rmd |only vignettes/how-to-use-crul.Rmd | 36 +------ 80 files changed, 1250 insertions(+), 806 deletions(-)
Title: Simulate and Visualize Kendall Random Walks and Related
Distributions
Description: Kendall random walks are a continuous-space Markov chains generated
by the Kendall generalized convolution. This package provides tools
for simulating these random walks and studying distributions
related to them. For more information about Kendall random walks see Jasiulis-Gołdyn (2014) <arXiv:1412.0220>.
Author: Mateusz Staniak [aut, cre]
Maintainer: Mateusz Staniak <mateusz.staniak@math.uni.wroc.pl>
Diff between kendallRandomWalks versions 0.9.2 dated 2018-06-06 and 0.9.3 dated 2018-07-10
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 6 +++++- R/simulations_kendall_rw.R | 8 ++++---- README.md | 20 ++++++++++++++------ inst/doc/behaviour.html | 36 ++++++++++++++++++------------------ inst/doc/kendall_rws.html | 30 +++++++++++++++--------------- 7 files changed, 66 insertions(+), 54 deletions(-)
More information about kendallRandomWalks at CRAN
Permanent link
Title: Data-Limited Methods Toolkit
Description: Development, simulation testing, and implementation of management
procedures for data-limited fisheries
(see Carruthers et al (2014) <doi:10.1016/j.fishres.2013.12.014>).
Author: Tom Carruthers [aut, cre],
Adrian Hordyk [aut],
M. Bryan [ctb],
HF. Geremont [ctb],
C. Grandin [ctb],
W. Harford [ctb],
Q. Huynh [ctb],
C. Walters [ctb]
Maintainer: Tom Carruthers <t.carruthers@fisheries.ubc.ca>
Diff between DLMtool versions 5.1.3 dated 2018-03-26 and 5.2 dated 2018-07-10
DLMtool-5.1.3/DLMtool/data/Feasibility.RData |only DLMtool-5.1.3/DLMtool/data/Feasibility2.RData |only DLMtool-5.1.3/DLMtool/man/AAVY.Rd |only DLMtool-5.1.3/DLMtool/man/Albacore.Rd |only DLMtool-5.1.3/DLMtool/man/Atlantic_mackerel.Rd |only DLMtool-5.1.3/DLMtool/man/BK_CC.Rd |only DLMtool-5.1.3/DLMtool/man/BK_ML.Rd |only DLMtool-5.1.3/DLMtool/man/Blue_shark.Rd |only DLMtool-5.1.3/DLMtool/man/Bluefin_tuna.Rd |only DLMtool-5.1.3/DLMtool/man/Bluefin_tuna_WAtl.Rd |only DLMtool-5.1.3/DLMtool/man/Butterfish.Rd |only DLMtool-5.1.3/DLMtool/man/CC4.Rd |only DLMtool-5.1.3/DLMtool/man/COSEWIC_plot.Rd |only DLMtool-5.1.3/DLMtool/man/Cant.Rd |only DLMtool-5.1.3/DLMtool/man/China_rockfish.Rd |only DLMtool-5.1.3/DLMtool/man/ChooseEffort.Rd |only DLMtool-5.1.3/DLMtool/man/ChooseM.Rd |only DLMtool-5.1.3/DLMtool/man/ChooseSelect.Rd |only DLMtool-5.1.3/DLMtool/man/Cobia.Rd |only DLMtool-5.1.3/DLMtool/man/CompSRA4010.Rd |only DLMtool-5.1.3/DLMtool/man/DAAC.Rd |only DLMtool-5.1.3/DLMtool/man/DBSRA4010.Rd 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DLMtool-5.1.3/DLMtool/man/betaconv.Rd |only DLMtool-5.1.3/DLMtool/man/curE75.Rd |only DLMtool-5.1.3/DLMtool/man/derive_beta_par.Rd |only DLMtool-5.1.3/DLMtool/man/fetch.file.names.Rd |only DLMtool-5.1.3/DLMtool/man/figures |only DLMtool-5.1.3/DLMtool/man/getBH.Rd |only DLMtool-5.1.3/DLMtool/man/getGpars.Rd |only DLMtool-5.1.3/DLMtool/man/iSCAM2DLM.Rd |only DLMtool-5.1.3/DLMtool/man/iSCAM2Data.Rd |only DLMtool-5.1.3/DLMtool/man/iSCAMcomps.Rd |only DLMtool-5.1.3/DLMtool/man/iSCAMinds.Rd |only DLMtool-5.1.3/DLMtool/man/joinMSE.Rd |only DLMtool-5.1.3/DLMtool/man/load.iscam.files.Rd |only DLMtool-5.1.3/DLMtool/man/matlenlim2.Rd |only DLMtool-5.1.3/DLMtool/man/mconv.Rd |only DLMtool-5.1.3/DLMtool/man/minlenLopt1.Rd |only DLMtool-5.1.3/DLMtool/man/movdistil.Rd |only DLMtool-5.1.3/DLMtool/man/negcorlogspace.Rd |only DLMtool-5.1.3/DLMtool/man/optBH.Rd |only DLMtool-5.1.3/DLMtool/man/ourReefFish.Rd |only DLMtool-5.1.3/DLMtool/man/read.control.file.Rd |only DLMtool-5.1.3/DLMtool/man/read.data.file.Rd |only DLMtool-5.1.3/DLMtool/man/read.mcmc.Rd |only DLMtool-5.1.3/DLMtool/man/read.par.file.Rd |only DLMtool-5.1.3/DLMtool/man/read.projection.file.Rd |only DLMtool-5.1.3/DLMtool/man/read.report.file.Rd |only DLMtool-5.1.3/DLMtool/man/runMSEnomsg.Rd |only DLMtool-5.1.3/DLMtool/man/runMSErobust.Rd |only DLMtool-5.1.3/DLMtool/man/slotlim.Rd |only DLMtool-5.1.3/DLMtool/man/tdlnorm.Rd |only DLMtool-5.1.3/DLMtool/man/updateMSE.Rd |only DLMtool-5.2/DLMtool/DESCRIPTION | 15 DLMtool-5.2/DLMtool/MD5 | 605 - DLMtool-5.2/DLMtool/NAMESPACE | 135 DLMtool-5.2/DLMtool/NEWS.md | 39 DLMtool-5.2/DLMtool/R/Awatea2OM.R |only DLMtool-5.2/DLMtool/R/Blow_funcs.R | 2 DLMtool-5.2/DLMtool/R/DFO.R | 1199 ++ DLMtool-5.2/DLMtool/R/Data_Functions.R | 301 DLMtool-5.2/DLMtool/R/DefineClasses.r | 707 - DLMtool-5.2/DLMtool/R/Fease_Functions.R | 133 DLMtool-5.2/DLMtool/R/MPs_Input.R | 1295 +- DLMtool-5.2/DLMtool/R/MPs_Mixed.R | 206 DLMtool-5.2/DLMtool/R/MPs_Output.R | 5093 ++++++---- DLMtool-5.2/DLMtool/R/MPs_Reference.R | 108 DLMtool-5.2/DLMtool/R/MPs_SupportingFunctions.R | 940 + DLMtool-5.2/DLMtool/R/MSE_Plotting.R | 593 - DLMtool-5.2/DLMtool/R/MSE_Plotting_PMs.R |only DLMtool-5.2/DLMtool/R/MSE_functions.R | 101 DLMtool-5.2/DLMtool/R/Misc_Exported.R | 349 DLMtool-5.2/DLMtool/R/Misc_Internal.R | 181 DLMtool-5.2/DLMtool/R/OM_Plotting.R | 35 DLMtool-5.2/DLMtool/R/OM_functions.R | 796 + DLMtool-5.2/DLMtool/R/OM_init_doc.R | 235 DLMtool-5.2/DLMtool/R/PMobjects.R | 383 DLMtool-5.2/DLMtool/R/RcppExports.R | 45 DLMtool-5.2/DLMtool/R/Roxy_DataObjects.r | 345 DLMtool-5.2/DLMtool/R/SS2DLM.R | 1677 +-- DLMtool-5.2/DLMtool/R/SampleOM.R | 492 DLMtool-5.2/DLMtool/R/Sketch_Functions.R | 101 DLMtool-5.2/DLMtool/R/StochasticSRA.R | 9 DLMtool-5.2/DLMtool/R/Turing.R |only DLMtool-5.2/DLMtool/R/aaImportFrom.R |only DLMtool-5.2/DLMtool/R/iSCAM2DLM.R | 3367 +++--- DLMtool-5.2/DLMtool/R/popdyn.R | 37 DLMtool-5.2/DLMtool/R/runMSE.r | 389 DLMtool-5.2/DLMtool/R/sysdata.rda |only DLMtool-5.2/DLMtool/README.md | 4 DLMtool-5.2/DLMtool/data/Albacore.RData |binary DLMtool-5.2/DLMtool/data/Atlantic_mackerel.RData |binary DLMtool-5.2/DLMtool/data/Blue_shark.RData |binary DLMtool-5.2/DLMtool/data/Bluefin_tuna.RData |binary DLMtool-5.2/DLMtool/data/Bluefin_tuna_WAtl.RData |binary DLMtool-5.2/DLMtool/data/Butterfish.RData |binary DLMtool-5.2/DLMtool/data/China_rockfish.RData |binary DLMtool-5.2/DLMtool/data/Cobia.RData |binary DLMtool-5.2/DLMtool/data/DataDescription.RData |binary DLMtool-5.2/DLMtool/data/DecE_Dom.RData |binary DLMtool-5.2/DLMtool/data/DecE_HDom.RData |binary DLMtool-5.2/DLMtool/data/DecE_NDom.RData |binary DLMtool-5.2/DLMtool/data/Example_datafile.RData |binary DLMtool-5.2/DLMtool/data/FlatE_Dom.RData |binary DLMtool-5.2/DLMtool/data/FlatE_HDom.RData |binary DLMtool-5.2/DLMtool/data/FlatE_NDom.RData |binary DLMtool-5.2/DLMtool/data/FleetDescription.RData |binary DLMtool-5.2/DLMtool/data/Generic_DecE.RData |binary DLMtool-5.2/DLMtool/data/Generic_FlatE.RData |binary DLMtool-5.2/DLMtool/data/Generic_Fleet.RData |binary DLMtool-5.2/DLMtool/data/Generic_IncE.RData |binary DLMtool-5.2/DLMtool/data/Generic_Obs.RData |binary DLMtool-5.2/DLMtool/data/Gulf_blue_tilefish.RData |binary DLMtool-5.2/DLMtool/data/Herring.RData |binary DLMtool-5.2/DLMtool/data/ImpDescription.RData |binary DLMtool-5.2/DLMtool/data/Imprecise_Biased.RData |binary DLMtool-5.2/DLMtool/data/Imprecise_Unbiased.RData |binary DLMtool-5.2/DLMtool/data/IncE_HDom.RData |binary DLMtool-5.2/DLMtool/data/IncE_NDom.RData |binary DLMtool-5.2/DLMtool/data/LHdatabase.RData |only DLMtool-5.2/DLMtool/data/Low_Effort_Non_Target.RData |binary DLMtool-5.2/DLMtool/data/Mackerel.RData |binary DLMtool-5.2/DLMtool/data/OMDescription.RData |binary DLMtool-5.2/DLMtool/data/ObsDescription.RData |binary DLMtool-5.2/DLMtool/data/Overages.RData |binary DLMtool-5.2/DLMtool/data/Perfect_Imp.RData |binary DLMtool-5.2/DLMtool/data/Perfect_Info.RData |binary DLMtool-5.2/DLMtool/data/Porgy.RData |binary DLMtool-5.2/DLMtool/data/Precise_Biased.RData |binary DLMtool-5.2/DLMtool/data/Precise_Unbiased.RData |binary DLMtool-5.2/DLMtool/data/Red_snapper.RData |binary DLMtool-5.2/DLMtool/data/ReqData.RData |only DLMtool-5.2/DLMtool/data/Rockfish.RData |binary DLMtool-5.2/DLMtool/data/SimulatedData.RData |binary DLMtool-5.2/DLMtool/data/Simulation_1.RData |binary DLMtool-5.2/DLMtool/data/Snapper.RData |binary DLMtool-5.2/DLMtool/data/Sole.RData |binary DLMtool-5.2/DLMtool/data/StockDescription.RData |binary DLMtool-5.2/DLMtool/data/Target_All_Fish.RData |binary DLMtool-5.2/DLMtool/data/Targeting_Small_Fish.RData |binary DLMtool-5.2/DLMtool/data/Toothfish.RData |binary DLMtool-5.2/DLMtool/data/datalist |only DLMtool-5.2/DLMtool/data/ourReefFish.RData |binary DLMtool-5.2/DLMtool/data/testOM.RData |binary DLMtool-5.2/DLMtool/data/tiny.RData |only DLMtool-5.2/DLMtool/inst/DFO_cosewic.Rmd |only DLMtool-5.2/DLMtool/inst/DFO_generic.Rmd |only DLMtool-5.2/DLMtool/inst/Data.csv | 135 DLMtool-5.2/DLMtool/inst/Data.xlsx |binary DLMtool-5.2/DLMtool/man/AvC.Rd | 51 DLMtool-5.2/DLMtool/man/AvC_MLL.Rd | 48 DLMtool-5.2/DLMtool/man/BK.Rd | 101 DLMtool-5.2/DLMtool/man/Blow_opt.Rd | 1 DLMtool-5.2/DLMtool/man/CC.Rd |only DLMtool-5.2/DLMtool/man/CC1.Rd | 83 DLMtool-5.2/DLMtool/man/CSRA.Rd | 1 DLMtool-5.2/DLMtool/man/CSRAfunc.Rd | 1 DLMtool-5.2/DLMtool/man/Can.Rd | 40 DLMtool-5.2/DLMtool/man/CanMP.Rd |only DLMtool-5.2/DLMtool/man/ChkObj.Rd | 4 DLMtool-5.2/DLMtool/man/ChkYrs.Rd |only DLMtool-5.2/DLMtool/man/Choose.Rd |only DLMtool-5.2/DLMtool/man/CompSRA.Rd | 69 DLMtool-5.2/DLMtool/man/CompSRA_.Rd |only DLMtool-5.2/DLMtool/man/Converge.Rd | 8 DLMtool-5.2/DLMtool/man/Cos_thresh_tab.Rd |only DLMtool-5.2/DLMtool/man/Cplot.Rd | 31 DLMtool-5.2/DLMtool/man/DBSRA.Rd | 96 DLMtool-5.2/DLMtool/man/DBSRA_.Rd |only DLMtool-5.2/DLMtool/man/DBSRAopt.Rd |only DLMtool-5.2/DLMtool/man/DCAC.Rd | 153 DLMtool-5.2/DLMtool/man/DCAC_.Rd |only DLMtool-5.2/DLMtool/man/DD.Rd | 63 DLMtool-5.2/DLMtool/man/DD_.Rd |only DLMtool-5.2/DLMtool/man/DD_R.Rd |only DLMtool-5.2/DLMtool/man/DDe.Rd | 73 DLMtool-5.2/DLMtool/man/DFO_bar.Rd |only DLMtool-5.2/DLMtool/man/DFO_plot.Rd | 4 DLMtool-5.2/DLMtool/man/DFO_proj.Rd | 2 DLMtool-5.2/DLMtool/man/DFO_quant.Rd |only DLMtool-5.2/DLMtool/man/DFO_report.Rd |only DLMtool-5.2/DLMtool/man/DFO_spider.Rd |only DLMtool-5.2/DLMtool/man/DFO_tab.Rd |only DLMtool-5.2/DLMtool/man/DFO_tab_formatted.Rd |only DLMtool-5.2/DLMtool/man/DLMenv.Rd |only DLMtool-5.2/DLMtool/man/DTe40.Rd | 49 DLMtool-5.2/DLMtool/man/Data-class-objects.Rd |only DLMtool-5.2/DLMtool/man/Data-class.Rd | 12 DLMtool-5.2/DLMtool/man/DataDescription.Rd | 2 DLMtool-5.2/DLMtool/man/DynF.Rd | 50 DLMtool-5.2/DLMtool/man/EtargetLopt.Rd | 45 DLMtool-5.2/DLMtool/man/FMSYref.Rd | 58 DLMtool-5.2/DLMtool/man/Fadapt.Rd | 74 DLMtool-5.2/DLMtool/man/Fdem.Rd | 65 DLMtool-5.2/DLMtool/man/Fdem_.Rd |only DLMtool-5.2/DLMtool/man/Fease.Rd | 38 DLMtool-5.2/DLMtool/man/FilterSmooth.Rd |only DLMtool-5.2/DLMtool/man/Fleet-class-objects.Rd |only DLMtool-5.2/DLMtool/man/Fratio.Rd | 94 DLMtool-5.2/DLMtool/man/Fratio_.Rd |only DLMtool-5.2/DLMtool/man/GB_CC.Rd | 44 DLMtool-5.2/DLMtool/man/GB_slope.Rd | 46 DLMtool-5.2/DLMtool/man/GB_target.Rd | 60 DLMtool-5.2/DLMtool/man/Gcontrol.Rd | 50 DLMtool-5.2/DLMtool/man/ICI.Rd | 76 DLMtool-5.2/DLMtool/man/IT5.Rd | 59 DLMtool-5.2/DLMtool/man/ITM.Rd | 38 DLMtool-5.2/DLMtool/man/IT_.Rd |only DLMtool-5.2/DLMtool/man/ITe5.Rd | 55 DLMtool-5.2/DLMtool/man/Imp-class-objects.Rd |only DLMtool-5.2/DLMtool/man/Iratio.Rd | 46 DLMtool-5.2/DLMtool/man/Islope1.Rd | 78 DLMtool-5.2/DLMtool/man/Islope_.Rd |only DLMtool-5.2/DLMtool/man/Itarget1.Rd | 90 DLMtool-5.2/DLMtool/man/Itarget1_MPA.Rd | 60 DLMtool-5.2/DLMtool/man/ItargetE1.Rd | 84 DLMtool-5.2/DLMtool/man/Itarget_.Rd |only DLMtool-5.2/DLMtool/man/Itargeteff_.Rd |only DLMtool-5.2/DLMtool/man/L2A.Rd | 1 DLMtool-5.2/DLMtool/man/LBSPR.Rd |only DLMtool-5.2/DLMtool/man/LBSPR_.Rd |only DLMtool-5.2/DLMtool/man/LBSPRgen.Rd |only DLMtool-5.2/DLMtool/man/LH2OM.Rd |only DLMtool-5.2/DLMtool/man/LHdatabase.Rd |only DLMtool-5.2/DLMtool/man/LinInterp.Rd | 1 DLMtool-5.2/DLMtool/man/Lratio_BHI.Rd | 69 DLMtool-5.2/DLMtool/man/LstepCC1.Rd | 99 DLMtool-5.2/DLMtool/man/LstepCE1.Rd | 81 DLMtool-5.2/DLMtool/man/Ltarget1.Rd | 109 DLMtool-5.2/DLMtool/man/LtargetE1.Rd | 76 DLMtool-5.2/DLMtool/man/MCD.Rd | 52 DLMtool-5.2/DLMtool/man/MPtype.Rd | 8 DLMtool-5.2/DLMtool/man/MPurl.Rd |only DLMtool-5.2/DLMtool/man/MRreal.Rd | 52 DLMtool-5.2/DLMtool/man/MSE-class.Rd | 203 DLMtool-5.2/DLMtool/man/NAor0.Rd | 1 DLMtool-5.2/DLMtool/man/OM-class.Rd | 2 DLMtool-5.2/DLMtool/man/OMdoc.Rd | 7 DLMtool-5.2/DLMtool/man/OMinit.Rd | 3 DLMtool-5.2/DLMtool/man/Obs-class-objects.Rd |only DLMtool-5.2/DLMtool/man/PMobj-class.Rd | 6 DLMtool-5.2/DLMtool/man/PerformanceMetric.Rd |only DLMtool-5.2/DLMtool/man/Pplot2.Rd | 6 DLMtool-5.2/DLMtool/man/Range.Rd | 1 DLMtool-5.2/DLMtool/man/Rcontrol.Rd | 69 DLMtool-5.2/DLMtool/man/Replace.Rd | 31 DLMtool-5.2/DLMtool/man/ReqData.Rd |only DLMtool-5.2/DLMtool/man/Required.Rd | 11 DLMtool-5.2/DLMtool/man/SBT1.Rd | 76 DLMtool-5.2/DLMtool/man/SPMSY.Rd | 42 DLMtool-5.2/DLMtool/man/SPSRA.Rd | 59 DLMtool-5.2/DLMtool/man/SPSRA_.Rd |only DLMtool-5.2/DLMtool/man/SPmod.Rd | 47 DLMtool-5.2/DLMtool/man/SPslope.Rd | 50 DLMtool-5.2/DLMtool/man/SampleCpars.Rd | 1 DLMtool-5.2/DLMtool/man/SampleFleetPars.Rd | 1 DLMtool-5.2/DLMtool/man/SampleImpPars.Rd | 1 DLMtool-5.2/DLMtool/man/SampleObsPars.Rd | 1 DLMtool-5.2/DLMtool/man/SampleStockPars.Rd | 1 DLMtool-5.2/DLMtool/man/SketchFun.Rd | 2 DLMtool-5.2/DLMtool/man/Stock-class-objects.Rd |only DLMtool-5.2/DLMtool/man/Sub.Rd | 3 DLMtool-5.2/DLMtool/man/Thresh_tab.Rd |only DLMtool-5.2/DLMtool/man/Tplot.Rd | 33 DLMtool-5.2/DLMtool/man/TradePlot.Rd | 105 DLMtool-5.2/DLMtool/man/TradePlot_old.Rd |only DLMtool-5.2/DLMtool/man/Turing.Rd |only DLMtool-5.2/DLMtool/man/VOI.Rd | 4 DLMtool-5.2/DLMtool/man/VOIplot2.Rd |only DLMtool-5.2/DLMtool/man/YPR.Rd | 67 DLMtool-5.2/DLMtool/man/YPR_.Rd |only DLMtool-5.2/DLMtool/man/alphaconv.Rd | 17 DLMtool-5.2/DLMtool/man/calcMean.Rd | 9 DLMtool-5.2/DLMtool/man/calcProb.Rd | 9 DLMtool-5.2/DLMtool/man/checkMSE.Rd | 47 DLMtool-5.2/DLMtool/man/curE.Rd | 51 DLMtool-5.2/DLMtool/man/cv.Rd | 1 DLMtool-5.2/DLMtool/man/demographic2.Rd |only DLMtool-5.2/DLMtool/man/getAFC.Rd | 1 DLMtool-5.2/DLMtool/man/getBlow.Rd | 1 DLMtool-5.2/DLMtool/man/getFref3.Rd | 3 DLMtool-5.2/DLMtool/man/getq3.Rd | 1 DLMtool-5.2/DLMtool/man/getr.Rd |only DLMtool-5.2/DLMtool/man/iVB.Rd |only DLMtool-5.2/DLMtool/man/joinData.Rd |only DLMtool-5.2/DLMtool/man/join_plots.Rd |only DLMtool-5.2/DLMtool/man/label.class-class.Rd | 1 DLMtool-5.2/DLMtool/man/makeMeanMP.Rd |only DLMtool-5.2/DLMtool/man/makePerf.Rd | 7 DLMtool-5.2/DLMtool/man/matlenlim.Rd | 109 DLMtool-5.2/DLMtool/man/optCPU.Rd | 12 DLMtool-5.2/DLMtool/man/optMSY.Rd | 1 DLMtool-5.2/DLMtool/man/optQ.Rd | 1 DLMtool-5.2/DLMtool/man/prob.class-class.Rd | 1 DLMtool-5.2/DLMtool/man/runCOSEWIC.Rd |only DLMtool-5.2/DLMtool/man/runMSE.Rd | 54 DLMtool-5.2/DLMtool/man/sample_steepness2.Rd | 17 DLMtool-5.2/DLMtool/man/sampy.Rd | 1 DLMtool-5.2/DLMtool/man/sdconv.Rd | 21 DLMtool-5.2/DLMtool/man/setup.Rd | 4 DLMtool-5.2/DLMtool/man/simYears.Rd | 1 DLMtool-5.2/DLMtool/man/summary-Data.Rd | 12 DLMtool-5.2/DLMtool/man/summary-MSE.Rd | 4 DLMtool-5.2/DLMtool/man/tiny.Rd |only DLMtool-5.2/DLMtool/man/tinyErr.Rd |only DLMtool-5.2/DLMtool/man/trlnorm.Rd | 17 DLMtool-5.2/DLMtool/man/validcpars.Rd | 16 DLMtool-5.2/DLMtool/man/writeCSV.Rd | 5 DLMtool-5.2/DLMtool/src/LBSPR.cpp |only DLMtool-5.2/DLMtool/src/RcppExports.cpp | 106 DLMtool-5.2/DLMtool/src/genLenComp.cpp | 131 DLMtool-5.2/DLMtool/tests/manual/coverage.R |only DLMtool-5.2/DLMtool/tests/manual/run-tests-code.R | 31 DLMtool-5.2/DLMtool/tests/manual/test-code/test-Fease_Functions.R |only DLMtool-5.2/DLMtool/tests/manual/test-code/test-Import_Data.R | 2 DLMtool-5.2/DLMtool/tests/manual/test-code/test-MPs.R | 4 DLMtool-5.2/DLMtool/tests/manual/test-code/test-MSE_Plotting.R | 15 DLMtool-5.2/DLMtool/tests/manual/test-code/test-OM_Plotting.R | 30 DLMtool-5.2/DLMtool/tests/manual/test-code/test-OM_functions.R | 26 DLMtool-5.2/DLMtool/tests/manual/test-code/test-cpars.R |only 408 files changed, 15916 insertions(+), 8388 deletions(-)
Title: Analysis of Basketball Data
Description: Collection of tools to work with basketball data. Functions available are related to friendly
web scraping and visualization. Data were obtained from <http://www.euroleague.net/>,
<http://www.eurocupbasketball.com/> and <http://www.acb.com>, following the instructions of their
respectives robots.txt files. Tools for visualization include a population pyramid, 2D plots of
archetypoids and the rest of players, percentile circular plots, plots to analyze monthly evolution,
heatmaps, shooting barplots, four factor plots and maps of players' nationalities.
Author: Guillermo Vinue
Maintainer: Guillermo Vinue <Guillermo.Vinue@uv.es>
Diff between BAwiR versions 1.1 dated 2018-05-09 and 1.1.1 dated 2018-07-10
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS | 3 +++ R/scraping_games_acb.R | 2 +- man/BAwiR-package.Rd | 4 ++-- 5 files changed, 14 insertions(+), 11 deletions(-)
Title: An Adaptive Lifting Scheme Algorithm
Description: Adaptive wavelet lifting transforms for signal denoising using optimal local neighbourhood regression, from Nunes et al. (2006) <doi:10.1007/s11222-006-6560-y>.
Author: Matt Nunes [aut, cre],
Marina Knight [aut],
Guy Nason [ctb, ths]
Maintainer: Matt Nunes <nunesrpackages@gmail.com>
Diff between adlift versions 1.3-3 dated 2017-09-13 and 1.4-1 dated 2018-07-10
DESCRIPTION | 16 +++++--- MD5 | 82 +++++++++++++++++++++++----------------------- man/AdaptNeigh.Rd | 2 - man/AdaptNeighmp.Rd | 2 - man/AdaptPred.Rd | 2 - man/AdaptPredmp.Rd | 2 - man/Amatdual.Rd | 2 - man/CubicPred.Rd | 2 - man/CubicPredmp.Rd | 2 - man/LinearPred.Rd | 2 - man/LinearPredmp.Rd | 2 - man/PointsUpdate.Rd | 2 - man/PointsUpdatemp.Rd | 2 - man/QuadPred.Rd | 2 - man/QuadPredmp.Rd | 2 - man/Rmatsolve.Rd | 2 - man/UndoPointsUpdate.Rd | 2 - man/UndoPointsUpdatemp.Rd | 2 - man/adjustx.Rd | 2 - man/artlev.Rd | 2 - man/as.column.Rd | 2 - man/as.row.Rd | 2 - man/basisfns.Rd | 2 - man/condno.Rd | 2 - man/denoise.Rd | 2 - man/denoisehetero.Rd | 2 - man/denoiseheteromp.Rd | 2 - man/denoiseheteroprop.Rd | 2 - man/dojitter.Rd | 2 - man/findadds.Rd | 2 - man/fwtnp.Rd | 2 - man/fwtnpmp.Rd | 2 - man/getnbrs.Rd | 2 - man/heterovar.Rd | 2 - man/intervals.Rd | 2 - man/invtnp.Rd | 2 - man/invtnpmp.Rd | 2 - man/lengthintervals.Rd | 2 - man/make.signal2.Rd | 2 - man/matcond.Rd | 2 - man/modjitter.Rd | 2 - man/transmatdual.Rd | 2 - 42 files changed, 90 insertions(+), 88 deletions(-)
Title: Presentation Ninja
Description: Create HTML5 slides with R Markdown and the JavaScript library
'remark.js' (<https://remarkjs.com>).
Author: Yihui Xie [aut, cre] (<https://orcid.org/0000-0003-0645-5666>),
Claus Thorn Ekstrøm [ctb],
Daniel Anderson [ctb],
Dawei Lang [ctb],
Garrick Aden-Buie [ctb],
John Little [ctb],
Joseph Casillas [ctb],
Michael Wayne Kearney [ctb],
Nan-Hung Hsieh [ctb],
Ole Petter Bang [ctb] (CSS in
rmarkdown/templates/xaringan/resources/default.css),
Patrick Schratz [ctb],
Sean Lopp [ctb]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between xaringan versions 0.6 dated 2018-02-19 and 0.7 dated 2018-07-10
DESCRIPTION | 19 ++- MD5 | 37 ++++-- R/render.R | 15 ++ R/utils.R | 61 ++-------- README.md | 9 + build/vignette.rds |binary inst/NEWS.Rd |only inst/doc/intro-en_US.html | 8 - inst/doc/intro-zh_CN.html | 8 - inst/rmarkdown/templates/xaringan/resources/default.css | 6 inst/rmarkdown/templates/xaringan/resources/default.html | 23 ++- inst/rmarkdown/templates/xaringan/resources/duke-blue.css |only inst/rmarkdown/templates/xaringan/resources/hygge-duke.css |only inst/rmarkdown/templates/xaringan/resources/metropolis.css | 23 ++- inst/rmarkdown/templates/xaringan/resources/middlebury-fonts.css |only inst/rmarkdown/templates/xaringan/resources/middlebury.css |only inst/rmarkdown/templates/xaringan/resources/robot-fonts.css |only inst/rmarkdown/templates/xaringan/resources/robot.css |only inst/rmarkdown/templates/xaringan/resources/rutgers-fonts.css |only inst/rmarkdown/templates/xaringan/resources/rutgers.css |only inst/rmarkdown/templates/xaringan/resources/tamu-fonts.css |only inst/rmarkdown/templates/xaringan/resources/tamu.css |only inst/rmarkdown/templates/xaringan/resources/uo-fonts.css |only inst/rmarkdown/templates/xaringan/resources/uo.css |only inst/rmarkdown/templates/xaringan/skeleton/skeleton.Rmd | 35 +++++ man/moon_reader.Rd | 8 + 26 files changed, 155 insertions(+), 97 deletions(-)
Title: TH's Data Archive
Description: Contains data sets used in other packages Torsten Hothorn
maintains.
Author: Torsten Hothorn [aut, cre]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between TH.data versions 1.0-8 dated 2017-01-23 and 1.0-9 dated 2018-07-10
DESCRIPTION | 8 ++++---- MD5 | 12 +++++++++--- data/geyser.rda |binary data/mammoexp.rda |binary inst/rda/ALSFRSdata.rda |only inst/rda/ALSsurvdata.rda |only inst/rda/Primary_endpoint_data.rda |only inst/rda/beetles.rda |only inst/rda/fetus.rda |only inst/rda/india.rda |only 10 files changed, 13 insertions(+), 7 deletions(-)
Title: Simulates Correlated Multinomial Responses
Description: Simulates correlated multinomial responses conditional on a marginal model specification.
Author: Anestis Touloumis [aut, cre] (0000-0002-5965-1639)
Maintainer: Anestis Touloumis <A.Touloumis@brighton.ac.uk>
Diff between SimCorMultRes versions 1.5.0 dated 2017-07-11 and 1.6.0 dated 2018-07-10
SimCorMultRes-1.5.0/SimCorMultRes/inst/doc/SimCorMultRes.pdf |only SimCorMultRes-1.6.0/SimCorMultRes/DESCRIPTION | 19 SimCorMultRes-1.6.0/SimCorMultRes/MD5 | 44 - SimCorMultRes-1.6.0/SimCorMultRes/NAMESPACE | 26 - SimCorMultRes-1.6.0/SimCorMultRes/R/SimCorMultRes-package.R |only SimCorMultRes-1.6.0/SimCorMultRes/R/SimCorMultRes_internals.R |only SimCorMultRes-1.6.0/SimCorMultRes/R/rbin.R | 223 +++++--- SimCorMultRes-1.6.0/SimCorMultRes/R/rmult.bcl.R | 212 +++++--- SimCorMultRes-1.6.0/SimCorMultRes/R/rmult.clm.R | 235 +++++---- SimCorMultRes-1.6.0/SimCorMultRes/R/rmult.crm.R | 252 +++++----- SimCorMultRes-1.6.0/SimCorMultRes/R/rnorta.R | 106 +++- SimCorMultRes-1.6.0/SimCorMultRes/R/rsmvnorm.R | 40 + SimCorMultRes-1.6.0/SimCorMultRes/build/vignette.rds |binary SimCorMultRes-1.6.0/SimCorMultRes/inst/NEWS | 18 SimCorMultRes-1.6.0/SimCorMultRes/inst/doc/SimCorMultRes.Rmd | 14 SimCorMultRes-1.6.0/SimCorMultRes/inst/doc/SimCorMultRes.html |only SimCorMultRes-1.6.0/SimCorMultRes/man/SimCorMultRes-package.Rd | 95 ++- SimCorMultRes-1.6.0/SimCorMultRes/man/rbin.Rd | 174 ++++-- SimCorMultRes-1.6.0/SimCorMultRes/man/rmult.bcl.Rd | 170 ++++-- SimCorMultRes-1.6.0/SimCorMultRes/man/rmult.clm.Rd | 181 ++++--- SimCorMultRes-1.6.0/SimCorMultRes/man/rmult.crm.Rd | 173 ++++-- SimCorMultRes-1.6.0/SimCorMultRes/man/rnorta.Rd | 99 ++- SimCorMultRes-1.6.0/SimCorMultRes/man/rsmvnorm.Rd | 38 - SimCorMultRes-1.6.0/SimCorMultRes/vignettes/SimCorMultRes.Rmd | 14 SimCorMultRes-1.6.0/SimCorMultRes/vignettes/SimCorMultResBib.bib | 1 25 files changed, 1321 insertions(+), 813 deletions(-)
Title: Polyhedra Database
Description: A polyhedra database scraped from various sources as R6 objects and 'rgl' visualizing capabilities.
Author: Alejandro Baranek [aut, com, cre, cph],
Leonardo Belen [aut, com, cph]
Maintainer: Alejandro Baranek <abaranek@dc.uba.ar>
Diff between Rpolyhedra versions 0.2.5 dated 2018-07-03 and 0.2.6 dated 2018-07-10
Rpolyhedra-0.2.5/Rpolyhedra/man/askDataDirEnvironment.Rd |only Rpolyhedra-0.2.6/Rpolyhedra/DESCRIPTION | 8 Rpolyhedra-0.2.6/Rpolyhedra/MD5 | 50 - Rpolyhedra-0.2.6/Rpolyhedra/NAMESPACE | 7 Rpolyhedra-0.2.6/Rpolyhedra/R/db-lib.R | 358 +++++++--- Rpolyhedra-0.2.6/Rpolyhedra/R/ledger-lib.R | 5 Rpolyhedra-0.2.6/Rpolyhedra/R/xml-lib.R | 1 Rpolyhedra-0.2.6/Rpolyhedra/R/zzz.R | 48 - Rpolyhedra-0.2.6/Rpolyhedra/build/vignette.rds |binary Rpolyhedra-0.2.6/Rpolyhedra/inst/extdata/polyhedra.RDS |binary Rpolyhedra-0.2.6/Rpolyhedra/inst/extdata/version | 2 Rpolyhedra-0.2.6/Rpolyhedra/man/copyFilesToExtData.Rd | 6 Rpolyhedra-0.2.6/Rpolyhedra/man/getDataDir.Rd | 5 Rpolyhedra-0.2.6/Rpolyhedra/man/getDataEnv.Rd |only Rpolyhedra-0.2.6/Rpolyhedra/man/getDatabaseVersion.Rd | 2 Rpolyhedra-0.2.6/Rpolyhedra/man/getEnvironmentFilepath.Rd |only Rpolyhedra-0.2.6/Rpolyhedra/man/getPackageDB.Rd |only Rpolyhedra-0.2.6/Rpolyhedra/man/getPackageEnvir.Rd |only Rpolyhedra-0.2.6/Rpolyhedra/man/getPolyhedraObject.Rd |only Rpolyhedra-0.2.6/Rpolyhedra/man/getUserEnvir.Rd |only Rpolyhedra-0.2.6/Rpolyhedra/man/getUserSpace.Rd |only Rpolyhedra-0.2.6/Rpolyhedra/man/initDataDirEnvironment.Rd |only Rpolyhedra-0.2.6/Rpolyhedra/man/isCompatiblePolyhedraRDS.Rd | 3 Rpolyhedra-0.2.6/Rpolyhedra/man/scrapePolyhedra.Rd | 8 Rpolyhedra-0.2.6/Rpolyhedra/man/scrapePolyhedraSources.Rd | 6 Rpolyhedra-0.2.6/Rpolyhedra/man/selectDataEnv.Rd | 7 Rpolyhedra-0.2.6/Rpolyhedra/man/setDataDirEnvironment.Rd | 5 Rpolyhedra-0.2.6/Rpolyhedra/man/setPackageEnvir.Rd |only Rpolyhedra-0.2.6/Rpolyhedra/man/setUserEnvir.Rd |only Rpolyhedra-0.2.6/Rpolyhedra/man/switchToFullDatabase.Rd | 8 Rpolyhedra-0.2.6/Rpolyhedra/man/updatePolyhedraDatabase.Rd |only Rpolyhedra-0.2.6/Rpolyhedra/tests/testthat/test_rpolyhedra_lib.R | 6 32 files changed, 363 insertions(+), 172 deletions(-)
Title: Randomer Forest
Description: Random Forester (RerF) is an algorithm developed by Tomita
(2016) <arXiv:1506.03410v2> which is similar to Random Forest - Random
Combination (Forest-RC) developed by Breiman (2001)
<doi:10.1023/A:1010933404324>. Random Forests create axis-parallel, or
orthogonal trees. That is, the feature space is recursively split along
directions parallel to the axes of the feature space. Thus, in cases in
which the classes seem inseparable along any single dimension, Random
Forests may be suboptimal. To address this, Breiman also proposed and
characterized Forest-RC, which uses linear combinations of coordinates
rather than individual coordinates, to split along. This package,
'rerf', implements RerF which is similar to Forest-RC. The difference
between the two algorithms is where the random linear combinations
occur: Forest-RC combines features at the per tree level whereas RerF
takes linear combinations of coordinates at every node in the tree.
Author: James Browne [aut, cre],
Tyler Tomita [aut],
Joshua Vogelstein [ths]
Maintainer: James Browne <jbrowne6@jhu.edu>
Diff between rerf versions 1.0 dated 2017-10-08 and 1.1.1 dated 2018-07-10
DESCRIPTION | 38 ++++- MD5 | 57 +++++-- NAMESPACE | 6 R/BuildTree.R | 69 +++++---- R/FeatureImportance.R |only R/PackForest.R |only R/PackPredict.R |only R/Predict.R | 118 ++++++++------- R/RandMat.R | 132 +++++++++++++++++ R/RandMatCat.R | 5 R/RcppExports.R | 8 + R/RerF.R | 209 +++++++++++++++------------ R/RunFeatureImportance.R |only R/mnist-data.R |only README.md | 333 +++++++++++++++++++++++++++++++++++++++----- data |only man/BuildTree.Rd | 5 man/FeatureImportance.Rd |only man/PackForest.Rd |only man/PackPredict.Rd |only man/RandMat.Rd | 35 ++++ man/RerF.Rd | 27 ++- man/RunFeatureImportance.Rd |only man/mnist.Rd |only src/Makevars |only src/RcppExports.cpp | 23 +++ src/forestPacking |only src/forestPacking.cpp |only src/split.cpp | 217 ++++++++++++++-------------- 29 files changed, 917 insertions(+), 365 deletions(-)
Title: Tools to Manage a Parametric Function that Describes Phenology
Description: Functions used to fit and test the phenology of species based on counts.
Author: Marc Girondot
Maintainer: Marc Girondot <marc.girondot@u-psud.fr>
Diff between phenology versions 7.0 dated 2018-03-14 and 7.1 dated 2018-07-10
DESCRIPTION | 10 MD5 | 77 +++-- NAMESPACE | 6 NEWS | 17 + R/ECFOCF_f.R | 38 ++ R/IPFit.R |only R/IPModel.R |only R/IPPredict.R |only R/IPlnL.R |only R/LikelihoodRMU.R | 148 +++++----- R/Lnegbin.R | 620 +++++++++++++++---------------------------- R/TableECFOCF.R | 17 - R/Tagloss_LengthObs.R | 2 R/Tagloss_Lind.R | 2 R/Tagloss_daymax.R | 2 R/Tagloss_model.R | 2 R/Tagloss_simulate.R | 2 R/fitCF.R | 190 ++++++++----- R/fitRMU.R | 669 ++++++++++++++++++++++------------------------- R/fit_phenology.R | 24 + R/lnLCF.R | 48 ++- R/par_init.R | 8 R/phenology-package.R | 7 R/plot.ECFOCF.R | 17 - R/plot.IP.R |only R/plot.TableECFOCF.R | 41 ++ R/plot.Tagloss.R | 2 R/plot.fitRMU.R | 152 +++++----- R/plot.phenology.R | 8 R/print.phenology.R | 2 R/summary.IP.R |only man/ECFOCF_f.Rd | 2 man/IPFit.Rd |only man/IPModel.Rd |only man/IPPredict.Rd |only man/TableECFOCF.Rd | 3 man/fitCF.Rd | 131 ++++----- man/fitRMU.Rd | 41 +- man/lnLCF.Rd | 4 man/phenology-package.Rd | 7 man/plot.IP.Rd |only man/plot.TableECFOCF.Rd | 7 man/plot.fitRMU.Rd | 7 man/print.phenology.Rd | 2 man/summary.IP.Rd |only 45 files changed, 1182 insertions(+), 1133 deletions(-)
Title: Tools for Multiple Imputation in Multilevel Modeling
Description: Provides tools for multiple imputation of missing data in multilevel
modeling. Includes a user-friendly interface to the packages 'pan' and 'jomo',
and several functions for visualization, data management and the analysis
of multiply imputed data sets.
Author: Simon Grund [aut,cre], Alexander Robitzsch [aut], Oliver Luedtke [aut]
Maintainer: Simon Grund <grund@ipn.uni-kiel.de>
Diff between mitml versions 0.3-5 dated 2017-03-15 and 0.3-6 dated 2018-07-10
DESCRIPTION | 11 MD5 | 74 +++-- NAMESPACE | 2 NEWS | 25 + R/anova.mitml.result.R | 7 R/confint.mitml.testEstimates.R |only R/internal-getCOEF.R | 12 R/internal-getLR.R | 35 ++ R/internal-model.R | 224 +++++++++-------- R/internal-zzz.R | 24 + R/jomoImpute.R | 230 ++++++++++-------- R/mitmlComplete.R | 2 R/panImpute.R | 397 ++++++++++++++++--------------- R/plot.mitml.R | 43 ++- R/print.mitml.R | 7 R/print.mitml.summary.R | 23 + R/print.mitml.testConstraints.R | 31 +- R/summary.mitml.R | 8 R/testConstraints.R | 19 - R/testModels.R | 10 README.md | 4 build/vignette.rds |binary inst/doc/Analysis.R |only inst/doc/Analysis.Rmd |only inst/doc/Analysis.html |only inst/doc/Introduction.R | 5 inst/doc/Introduction.Rmd | 64 ++--- inst/doc/Introduction.html | 470 ++++++++++++++++++++++++++----------- inst/doc/Level2.R |only inst/doc/Level2.Rmd |only inst/doc/Level2.html |only man/as.mitml.list.Rd | 2 man/confint.mitml.testEstimates.Rd |only man/jomoImpute.Rd | 41 ++- man/mitml-package.Rd | 2 man/panImpute.Rd | 12 man/testConstraints.Rd | 3 man/testEstimates.Rd | 2 man/with.mitml.list.Rd | 2 vignettes/Analysis.Rmd |only vignettes/Introduction.Rmd | 64 ++--- vignettes/Level2.Rmd |only vignettes/css/vignette.css | 156 ++++++------ 43 files changed, 1257 insertions(+), 754 deletions(-)
Title: CET Perceptually Uniform Colour Maps
Description: Collection of perceptually uniform colour maps made by Peter Kovesi
(2015) "Good Colour Maps: How to Design Them" <arXiv:1509.03700>
at the Centre for Exploration Targeting (CET).
Author: James Balamuta [aut, cre, cph]
(<https://orcid.org/0000-0003-2826-8458>),
Peter Kovesi [cph] (Creator of CET Color Maps)
Maintainer: James Balamuta <balamut2@illinois.edu>
Diff between cetcolor versions 0.1.0 dated 2017-08-05 and 0.2.0 dated 2018-07-10
DESCRIPTION | 20 +- MD5 | 32 ++- NEWS.md | 92 +++++++++++ R/cet_color_maps.R | 246 +++++++++++++++++++++--------- R/cetcolor-package.R |only R/cetcolor.R | 62 ++++++- R/display_cet.R | 27 +-- README.md | 112 +++++++++---- build/vignette.rds |binary data/cet_color_maps.rda |binary inst/doc/cet_color_schemes.Rmd | 27 ++- inst/doc/cet_color_schemes.html | 322 +++++++++++++++++++++++++++++++++------- man/cet_color_maps.Rd | 153 ++++++++++++------- man/cet_pal.Rd | 6 man/cetcolor-package.Rd |only man/display_cet.Rd | 8 tools |only vignettes/cet_color_schemes.Rmd | 27 ++- 18 files changed, 848 insertions(+), 286 deletions(-)
Title: A Nondecimated Lifting Transform for Signal Denoising
Description: Uses a modified lifting algorithm on which it builds the
nondecimated lifting transform. It has applications in wavelet
shrinkage.
Author: Marina Knight, Matt Nunes
Maintainer: Matt Nunes <nunesrpackages@gmail.com>
Diff between nlt versions 2.1-3 dated 2012-11-11 and 2.2-1 dated 2018-07-10
nlt-2.1-3/nlt/CONTENTS |only nlt-2.1-3/nlt/Makevars |only nlt-2.2-1/nlt/DESCRIPTION | 13 +++++++------ nlt-2.2-1/nlt/MD5 | 14 ++++++-------- nlt-2.2-1/nlt/NAMESPACE | 2 ++ nlt-2.2-1/nlt/man/denoiseperm.Rd | 21 ++++++++++++--------- nlt-2.2-1/nlt/man/fwtnpperm.Rd | 2 +- nlt-2.2-1/nlt/man/nlt.Rd | 22 +++++++++++++--------- nlt-2.2-1/nlt/man/transmatdualperm.Rd | 2 +- 9 files changed, 42 insertions(+), 34 deletions(-)
Title: Estimating Asset Correlations from Default Data
Description: Functions for the estimation of intra- and inter-cohort correlations in the Vasicek credit portfolio model. For intra-cohort correlations, the package covers the two method of moments estimators of Gordy (2000) <doi:10.1016/S0378-4266(99)00054-0>, the method of moments estimator of Lucas (1995) <http://jfi.iijournals.com/content/4/4/76> and a Binomial approximation extension of this approach. Moreover, the maximum likelihood estimators of Gordy and Heitfield (2010) <http://elsa.berkeley.edu/~mcfadden/e242_f03/heitfield.pdf> and Duellmann and Gehde-Trapp (2004) <http://hdl.handle.net/10419/19729> are implemented. For inter-cohort correlations, the method of moments estimator of Bluhm and Overbeck (2003) <doi:10.1007/978-3-642-59365-9_2>/Bams et al. (2016) <https://ssrn.com/abstract=2676595> is provided and the maximum likelihood estimators comprise the approaches of Gordy and Heitfield (2010)/Kalkbrener and Onwunta (2010) <ISBN: 978-1906348250> and Pfeuffer et al. (2018). Bootstrap and Jackknife procedures for bias correction are included as well as the method of moments estimator of Frei and Wunsch (2018) <doi:10.21314/JCR.2017.231> for auto-correlated time series.
Author: Maximilian Nagl [aut,cre], Yevhen Havrylenko [aut], Marius Pfeuffer [aut], Kevin Jakob [aut], Matthias Fischer [aut], Daniel Roesch [aut]
Maintainer: Maximilian Nagl <maximilian.nagl@ur.de>
Diff between AssetCorr versions 1.0.1 dated 2018-06-22 and 1.0.2 dated 2018-07-10
DESCRIPTION | 8 - MD5 | 14 +- R/interCopula.R | 12 + R/intraAMLE.R | 140 +++++++++++++++++--- build/partial.rdb |binary inst/NEWS.Rd | 124 +++++++++++------- inst/doc/AssetCorr_vignette.html | 6 man/intraAMLE.Rd | 262 ++++++++++++++++++++------------------- 8 files changed, 361 insertions(+), 205 deletions(-)
Title: Efficient and Publishing-Oriented Workflow for Psychological
Science
Description: The main goal of the psycho package is to provide tools for psychologists, neuropsychologists and neuroscientists,
to facilitate and speed up the time spent on data analysis. It aims at supporting best practices and tools to format the output
of statistical methods to directly paste them into a manuscript, ensuring statistical reporting standardization and conformity.
Author: Dominique Makowski [aut, cre, cph]
(<https://orcid.org/0000-0001-5375-9967>),
Viliam Simko [ctb],
Sasha Epskamp [rev] (Sasha reviewed the package for JOSS, see
https://github.com/openjournals/joss-reviews/issues/470)
Maintainer: Dominique Makowski <dom.makowski@gmail.com>
Diff between psycho versions 0.2.8 dated 2018-06-07 and 0.3.3 dated 2018-07-10
psycho-0.2.8/psycho/R/analyze.aov.R |only psycho-0.2.8/psycho/R/is.mixed.stanreg.R |only psycho-0.2.8/psycho/man/bayes_adj_R2.Rd |only psycho-0.2.8/psycho/man/get_std_posteriors.Rd |only psycho-0.2.8/psycho/tests/testthat/test-get_predicted.stanreg.R |only psycho-0.3.3/psycho/DESCRIPTION | 27 psycho-0.3.3/psycho/MD5 | 156 +- psycho-0.3.3/psycho/NAMESPACE | 48 psycho-0.3.3/psycho/NEWS.md | 8 psycho-0.3.3/psycho/R/analyze.R | 3 psycho-0.3.3/psycho/R/analyze.anova.R |only psycho-0.3.3/psycho/R/analyze.glm.R |only psycho-0.3.3/psycho/R/analyze.glmerMod.R | 163 +- psycho-0.3.3/psycho/R/analyze.htest.R | 54 psycho-0.3.3/psycho/R/analyze.lavaan.R | 2 psycho-0.3.3/psycho/R/analyze.lm.R | 92 - psycho-0.3.3/psycho/R/analyze.lmerModLmerTest.R | 155 +- psycho-0.3.3/psycho/R/analyze.stanreg.R | 170 -- psycho-0.3.3/psycho/R/bayes_cor.R | 10 psycho-0.3.3/psycho/R/correlation.R | 2 psycho-0.3.3/psycho/R/find_random_effects.R |only psycho-0.3.3/psycho/R/formatting.R | 44 psycho-0.3.3/psycho/R/get_R2.R |only psycho-0.3.3/psycho/R/get_contrasts.stanreg.R | 8 psycho-0.3.3/psycho/R/get_formula.R |only psycho-0.3.3/psycho/R/get_info.R |only psycho-0.3.3/psycho/R/get_predicted.R | 1 psycho-0.3.3/psycho/R/get_predicted.glm.R |only psycho-0.3.3/psycho/R/get_predicted.lm.R |only psycho-0.3.3/psycho/R/get_predicted.stanreg.R | 23 psycho-0.3.3/psycho/R/interpret_bf.R | 5 psycho-0.3.3/psycho/R/interpret_d.R | 2 psycho-0.3.3/psycho/R/interpret_odds.R |only psycho-0.3.3/psycho/R/interpret_omega_sq.R |only psycho-0.3.3/psycho/R/interpret_r.R | 8 psycho-0.3.3/psycho/R/is.mixed.R | 32 psycho-0.3.3/psycho/R/model_to_priors.R | 13 psycho-0.3.3/psycho/R/refdata.R | 18 psycho-0.3.3/psycho/R/standardize.R | 288 ++++ psycho-0.3.3/psycho/README.md | 17 psycho-0.3.3/psycho/build/vignette.rds |binary psycho-0.3.3/psycho/inst/doc/bayesian.html | 438 +++--- psycho-0.3.3/psycho/inst/doc/overview.R | 145 -- psycho-0.3.3/psycho/inst/doc/overview.Rmd | 283 ---- psycho-0.3.3/psycho/inst/doc/overview.html | 656 ---------- psycho-0.3.3/psycho/man/R2_LOO_Adjusted.Rd |only psycho-0.3.3/psycho/man/R2_nakagawa.Rd |only psycho-0.3.3/psycho/man/R2_tjur.Rd |only psycho-0.3.3/psycho/man/analyze.Rd | 3 psycho-0.3.3/psycho/man/analyze.aov.Rd | 25 psycho-0.3.3/psycho/man/analyze.glm.Rd |only psycho-0.3.3/psycho/man/analyze.glmerMod.Rd | 14 psycho-0.3.3/psycho/man/analyze.htest.Rd | 2 psycho-0.3.3/psycho/man/analyze.lmerModLmerTest.Rd | 3 psycho-0.3.3/psycho/man/analyze.stanreg.Rd | 7 psycho-0.3.3/psycho/man/find_random_effects.Rd |only psycho-0.3.3/psycho/man/format_formula.Rd |only psycho-0.3.3/psycho/man/get_R2.Rd |only psycho-0.3.3/psycho/man/get_R2.glm.Rd |only psycho-0.3.3/psycho/man/get_R2.lm.Rd |only psycho-0.3.3/psycho/man/get_R2.merMod.Rd |only psycho-0.3.3/psycho/man/get_R2.stanreg.Rd |only psycho-0.3.3/psycho/man/get_formula.Rd |only psycho-0.3.3/psycho/man/get_info.Rd |only psycho-0.3.3/psycho/man/get_info.lmerModLmerTest.Rd |only psycho-0.3.3/psycho/man/get_predicted.Rd | 1 psycho-0.3.3/psycho/man/get_predicted.glm.Rd |only psycho-0.3.3/psycho/man/get_predicted.lm.Rd |only psycho-0.3.3/psycho/man/get_predicted.stanreg.Rd | 18 psycho-0.3.3/psycho/man/interpret_bf.Rd | 3 psycho-0.3.3/psycho/man/interpret_d_posterior.Rd | 2 psycho-0.3.3/psycho/man/interpret_odds.Rd |only psycho-0.3.3/psycho/man/interpret_odds_posterior.Rd |only psycho-0.3.3/psycho/man/interpret_omega_sq.Rd |only psycho-0.3.3/psycho/man/interpret_r.Rd | 3 psycho-0.3.3/psycho/man/interpret_r_posterior.Rd | 3 psycho-0.3.3/psycho/man/is.mixed.stanreg.Rd | 2 psycho-0.3.3/psycho/man/model_to_priors.Rd | 4 psycho-0.3.3/psycho/man/odds_to_d.Rd |only psycho-0.3.3/psycho/man/omega_sq.Rd |only psycho-0.3.3/psycho/man/refdata.Rd | 3 psycho-0.3.3/psycho/man/standardize.Rd | 41 psycho-0.3.3/psycho/man/standardize.data.frame.Rd |only psycho-0.3.3/psycho/man/standardize.glm.Rd |only psycho-0.3.3/psycho/man/standardize.lm.Rd |only psycho-0.3.3/psycho/man/standardize.numeric.Rd |only psycho-0.3.3/psycho/man/standardize.stanreg.Rd |only psycho-0.3.3/psycho/tests/testthat/test-analyze.aov.R | 11 psycho-0.3.3/psycho/tests/testthat/test-analyze.glm.R |only psycho-0.3.3/psycho/tests/testthat/test-analyze.glmerMod.R | 4 psycho-0.3.3/psycho/tests/testthat/test-analyze.htest.R | 4 psycho-0.3.3/psycho/tests/testthat/test-analyze.lm.R |only psycho-0.3.3/psycho/tests/testthat/test-correlation.R | 4 psycho-0.3.3/psycho/tests/testthat/test-find_random_effects.R |only psycho-0.3.3/psycho/tests/testthat/test-formatting.R | 2 psycho-0.3.3/psycho/tests/testthat/test-get_R2.R |only psycho-0.3.3/psycho/tests/testthat/test-get_info.R |only psycho-0.3.3/psycho/tests/testthat/test-get_predicted.R |only psycho-0.3.3/psycho/tests/testthat/test-interpret_odds.R |only psycho-0.3.3/psycho/tests/testthat/test-interpret_r.R | 4 psycho-0.3.3/psycho/tests/testthat/test-refdata.R | 1 psycho-0.3.3/psycho/tests/testthat/test-standardize.R | 11 psycho-0.3.3/psycho/vignettes/overview.Rmd | 283 ---- 103 files changed, 1276 insertions(+), 2053 deletions(-)
Title: Provides Access to Git Repositories
Description: Interface to the 'libgit2' library, which is a pure C
implementation of the 'Git' core methods. Provides access to 'Git'
repositories to extract data and running some basic 'Git'
commands.
Author: See AUTHORS file.
Maintainer: Stefan Widgren <stefan.widgren@gmail.com>
Diff between git2r versions 0.21.0 dated 2018-01-04 and 0.22.1 dated 2018-07-10
git2r-0.21.0/git2r/R/S4_classes.r |only git2r-0.21.0/git2r/R/blame.r |only git2r-0.21.0/git2r/R/blob.r |only git2r-0.21.0/git2r/R/branch.r |only git2r-0.21.0/git2r/R/bundle_r_package.r |only git2r-0.21.0/git2r/R/checkout.r |only git2r-0.21.0/git2r/R/commit.r |only git2r-0.21.0/git2r/R/config.r |only git2r-0.21.0/git2r/R/contributions.r |only git2r-0.21.0/git2r/R/credential.r |only git2r-0.21.0/git2r/R/diff.r |only git2r-0.21.0/git2r/R/fetch.r |only git2r-0.21.0/git2r/R/git2r.r |only git2r-0.21.0/git2r/R/index.r |only git2r-0.21.0/git2r/R/libgit2.r |only git2r-0.21.0/git2r/R/merge.r |only git2r-0.21.0/git2r/R/note.r |only git2r-0.21.0/git2r/R/odb.r |only git2r-0.21.0/git2r/R/plot.r |only git2r-0.21.0/git2r/R/pull.r |only git2r-0.21.0/git2r/R/punch_card.r |only git2r-0.21.0/git2r/R/push.r |only git2r-0.21.0/git2r/R/reference.r |only git2r-0.21.0/git2r/R/reflog.r |only git2r-0.21.0/git2r/R/refspec.r |only git2r-0.21.0/git2r/R/remote.r |only git2r-0.21.0/git2r/R/repository.r |only git2r-0.21.0/git2r/R/reset.r |only git2r-0.21.0/git2r/R/revparse.r |only git2r-0.21.0/git2r/R/signature.r |only git2r-0.21.0/git2r/R/stash.r |only git2r-0.21.0/git2r/R/status.r |only git2r-0.21.0/git2r/R/tag.r |only git2r-0.21.0/git2r/R/time.r |only git2r-0.21.0/git2r/R/tree.r |only git2r-0.21.0/git2r/R/when.r |only git2r-0.21.0/git2r/man/add-methods.Rd |only git2r-0.21.0/git2r/man/add_session_info.Rd |only git2r-0.21.0/git2r/man/ahead_behind-methods.Rd |only git2r-0.21.0/git2r/man/blame-methods.Rd |only git2r-0.21.0/git2r/man/blob_create-methods.Rd |only git2r-0.21.0/git2r/man/branch_create-methods.Rd |only git2r-0.21.0/git2r/man/branch_delete-methods.Rd |only git2r-0.21.0/git2r/man/branch_get_upstream-methods.Rd |only git2r-0.21.0/git2r/man/branch_remote_name-methods.Rd |only git2r-0.21.0/git2r/man/branch_remote_url-methods.Rd |only git2r-0.21.0/git2r/man/branch_rename-methods.Rd |only git2r-0.21.0/git2r/man/branch_set_upstream-methods.Rd |only git2r-0.21.0/git2r/man/branch_target-methods.Rd |only git2r-0.21.0/git2r/man/branches-methods.Rd |only git2r-0.21.0/git2r/man/bundle_r_package-methods.Rd |only git2r-0.21.0/git2r/man/checkout-methods.Rd |only git2r-0.21.0/git2r/man/clone-methods.Rd |only git2r-0.21.0/git2r/man/coerce-git_commit-method.Rd |only git2r-0.21.0/git2r/man/coerce-git_repository-method.Rd |only git2r-0.21.0/git2r/man/coerce-git_tree-data.frame-method.Rd |only git2r-0.21.0/git2r/man/coerce-git_tree-list-method.Rd |only git2r-0.21.0/git2r/man/commit-methods.Rd |only git2r-0.21.0/git2r/man/commits-methods.Rd |only git2r-0.21.0/git2r/man/content-methods.Rd |only git2r-0.21.0/git2r/man/contributions-methods.Rd |only git2r-0.21.0/git2r/man/cred_env-class.Rd |only git2r-0.21.0/git2r/man/cred_env-methods.Rd |only git2r-0.21.0/git2r/man/cred_ssh_key-class.Rd |only git2r-0.21.0/git2r/man/cred_token-class.Rd |only git2r-0.21.0/git2r/man/cred_user_pass-class.Rd |only git2r-0.21.0/git2r/man/cred_user_pass-methods.Rd |only git2r-0.21.0/git2r/man/default_signature-methods.Rd |only git2r-0.21.0/git2r/man/descendant_of-methods.Rd |only git2r-0.21.0/git2r/man/discover_repository-methods.Rd |only git2r-0.21.0/git2r/man/fetch-methods.Rd |only git2r-0.21.0/git2r/man/fetch_heads-methods.Rd |only git2r-0.21.0/git2r/man/get_refspec.Rd |only git2r-0.21.0/git2r/man/git_blame-class.Rd |only git2r-0.21.0/git2r/man/git_blame_hunk-class.Rd |only git2r-0.21.0/git2r/man/git_blob-class.Rd |only git2r-0.21.0/git2r/man/git_branch-class.Rd |only git2r-0.21.0/git2r/man/git_commit-class.Rd |only git2r-0.21.0/git2r/man/git_diff-class.Rd |only git2r-0.21.0/git2r/man/git_diff_file-class.Rd |only git2r-0.21.0/git2r/man/git_diff_hunk-class.Rd |only git2r-0.21.0/git2r/man/git_diff_line-class.Rd |only git2r-0.21.0/git2r/man/git_fetch_head.Rd |only git2r-0.21.0/git2r/man/git_merge_result.Rd |only git2r-0.21.0/git2r/man/git_note-class.Rd |only git2r-0.21.0/git2r/man/git_reference-class.Rd |only git2r-0.21.0/git2r/man/git_reflog_entry-class.Rd |only git2r-0.21.0/git2r/man/git_repository-class.Rd |only git2r-0.21.0/git2r/man/git_signature-class.Rd |only git2r-0.21.0/git2r/man/git_stash-class.Rd |only git2r-0.21.0/git2r/man/git_tag-class.Rd |only git2r-0.21.0/git2r/man/git_time-class.Rd |only git2r-0.21.0/git2r/man/git_transfer_progress-class.Rd |only git2r-0.21.0/git2r/man/git_tree-class.Rd |only git2r-0.21.0/git2r/man/hash-methods.Rd |only git2r-0.21.0/git2r/man/hashfile-methods.Rd |only git2r-0.21.0/git2r/man/head-methods.Rd |only git2r-0.21.0/git2r/man/in_repository-methods.Rd |only git2r-0.21.0/git2r/man/index_remove_bypath-methods.Rd |only git2r-0.21.0/git2r/man/init-methods.Rd |only git2r-0.21.0/git2r/man/is_bare-methods.Rd |only git2r-0.21.0/git2r/man/is_binary-methods.Rd |only git2r-0.21.0/git2r/man/is_detached-methods.Rd |only git2r-0.21.0/git2r/man/is_empty-methods.Rd |only git2r-0.21.0/git2r/man/is_head-methods.Rd |only git2r-0.21.0/git2r/man/is_local-methods.Rd |only git2r-0.21.0/git2r/man/is_merge-methods.Rd |only git2r-0.21.0/git2r/man/is_shallow-methods.Rd |only git2r-0.21.0/git2r/man/length-git_blob-method.Rd |only git2r-0.21.0/git2r/man/length-git_diff-method.Rd |only git2r-0.21.0/git2r/man/length-git_tree-method.Rd |only git2r-0.21.0/git2r/man/libgit2_sha.Rd |only git2r-0.21.0/git2r/man/lookup-methods.Rd |only git2r-0.21.0/git2r/man/lookup_repository.Rd |only git2r-0.21.0/git2r/man/merge-methods.Rd |only git2r-0.21.0/git2r/man/merge_base-methods.Rd |only git2r-0.21.0/git2r/man/merge_branch.Rd |only git2r-0.21.0/git2r/man/merge_named_branch.Rd |only git2r-0.21.0/git2r/man/note_create-methods.Rd |only git2r-0.21.0/git2r/man/note_default_ref-methods.Rd |only git2r-0.21.0/git2r/man/note_remove-methods.Rd |only git2r-0.21.0/git2r/man/notes-methods.Rd |only git2r-0.21.0/git2r/man/odb_blobs-methods.Rd |only git2r-0.21.0/git2r/man/odb_objects-methods.Rd |only git2r-0.21.0/git2r/man/parents-methods.Rd |only git2r-0.21.0/git2r/man/plot-methods.Rd |only git2r-0.21.0/git2r/man/pull-methods.Rd |only git2r-0.21.0/git2r/man/punch_card-methods.Rd |only git2r-0.21.0/git2r/man/push-methods.Rd |only git2r-0.21.0/git2r/man/references-methods.Rd |only git2r-0.21.0/git2r/man/reflog-methods.Rd |only git2r-0.21.0/git2r/man/remote_add-methods.Rd |only git2r-0.21.0/git2r/man/remote_ls-methods.Rd |only git2r-0.21.0/git2r/man/remote_remove-methods.Rd |only git2r-0.21.0/git2r/man/remote_rename-methods.Rd |only git2r-0.21.0/git2r/man/remote_set_url-methods.Rd |only git2r-0.21.0/git2r/man/remote_url-methods.Rd |only git2r-0.21.0/git2r/man/remotes-methods.Rd |only git2r-0.21.0/git2r/man/repository-methods.Rd |only git2r-0.21.0/git2r/man/reset-methods.Rd |only git2r-0.21.0/git2r/man/revparse_single-methods.Rd |only git2r-0.21.0/git2r/man/rm_file-methods.Rd |only git2r-0.21.0/git2r/man/show-git_blob-method.Rd |only git2r-0.21.0/git2r/man/show-git_branch-method.Rd |only git2r-0.21.0/git2r/man/show-git_commit-method.Rd |only git2r-0.21.0/git2r/man/show-git_diff-method.Rd |only git2r-0.21.0/git2r/man/show-git_merge_result-method.Rd |only git2r-0.21.0/git2r/man/show-git_note-method.Rd |only git2r-0.21.0/git2r/man/show-git_reference-method.Rd |only git2r-0.21.0/git2r/man/show-git_reflog_entry-method.Rd |only git2r-0.21.0/git2r/man/show-git_repository-method.Rd |only git2r-0.21.0/git2r/man/show-git_signature-method.Rd |only git2r-0.21.0/git2r/man/show-git_stash-method.Rd |only git2r-0.21.0/git2r/man/show-git_tag-method.Rd |only git2r-0.21.0/git2r/man/show-git_time-method.Rd |only git2r-0.21.0/git2r/man/show-git_tree-method.Rd |only git2r-0.21.0/git2r/man/ssh_key_needs_passphrase.Rd |only git2r-0.21.0/git2r/man/stash-methods.Rd |only git2r-0.21.0/git2r/man/stash_drop-methods.Rd |only git2r-0.21.0/git2r/man/stash_list-methods.Rd |only git2r-0.21.0/git2r/man/status-methods.Rd |only git2r-0.21.0/git2r/man/summary-git_blob-method.Rd |only git2r-0.21.0/git2r/man/summary-git_commit-method.Rd |only git2r-0.21.0/git2r/man/summary-git_diff-method.Rd |only git2r-0.21.0/git2r/man/summary-git_repository-method.Rd |only git2r-0.21.0/git2r/man/summary-git_stash-method.Rd |only git2r-0.21.0/git2r/man/summary-git_tag-method.Rd |only git2r-0.21.0/git2r/man/summary-git_tree-method.Rd |only git2r-0.21.0/git2r/man/tag-methods.Rd |only git2r-0.21.0/git2r/man/tag_delete-methods.Rd |only git2r-0.21.0/git2r/man/tags-methods.Rd |only git2r-0.21.0/git2r/man/tree-index-methods.Rd |only git2r-0.21.0/git2r/man/tree-methods.Rd |only git2r-0.21.0/git2r/man/when-methods.Rd |only git2r-0.21.0/git2r/man/workdir-methods.Rd |only git2r-0.21.0/git2r/src/libgit2/deps/winhttp |only git2r-0.21.0/git2r/src/libgit2/include/git2/sys/remote.h |only git2r-0.21.0/git2r/src/libgit2/src/curl_stream.c |only git2r-0.21.0/git2r/src/libgit2/src/curl_stream.h |only git2r-0.21.0/git2r/src/libgit2/src/hash/hash_collisiondetect.h |only git2r-0.21.0/git2r/src/libgit2/src/hash/hash_common_crypto.h |only git2r-0.21.0/git2r/src/libgit2/src/hash/hash_generic.c |only git2r-0.21.0/git2r/src/libgit2/src/hash/hash_generic.h |only git2r-0.21.0/git2r/src/libgit2/src/hash/hash_win32.c |only git2r-0.21.0/git2r/src/libgit2/src/hash/hash_win32.h |only git2r-0.21.0/git2r/src/libgit2/src/hash/sha1dc |only git2r-0.21.0/git2r/src/libgit2/src/openssl_stream.c |only git2r-0.21.0/git2r/src/libgit2/src/openssl_stream.h |only git2r-0.21.0/git2r/src/libgit2/src/socket_stream.c |only git2r-0.21.0/git2r/src/libgit2/src/socket_stream.h |only git2r-0.21.0/git2r/src/libgit2/src/stransport_stream.h |only git2r-0.21.0/git2r/src/libgit2/src/tls_stream.c |only git2r-0.21.0/git2r/src/libgit2/src/tls_stream.h |only git2r-0.21.0/git2r/src/libgit2/src/win32 |only git2r-0.22.1/git2r/DESCRIPTION | 30 git2r-0.22.1/git2r/MD5 | 1094 +- git2r-0.22.1/git2r/NAMESPACE | 250 git2r-0.22.1/git2r/NEWS | 50 git2r-0.22.1/git2r/R/blame.R |only git2r-0.22.1/git2r/R/blob.R |only git2r-0.22.1/git2r/R/branch.R |only git2r-0.22.1/git2r/R/bundle_r_package.R |only git2r-0.22.1/git2r/R/checkout.R |only git2r-0.22.1/git2r/R/commit.R |only git2r-0.22.1/git2r/R/config.R |only git2r-0.22.1/git2r/R/contributions.R |only git2r-0.22.1/git2r/R/credential.R |only git2r-0.22.1/git2r/R/diff.R |only git2r-0.22.1/git2r/R/fetch.R |only git2r-0.22.1/git2r/R/git2r.R |only git2r-0.22.1/git2r/R/index.R |only git2r-0.22.1/git2r/R/libgit2.R |only git2r-0.22.1/git2r/R/merge.R |only git2r-0.22.1/git2r/R/note.R |only git2r-0.22.1/git2r/R/odb.R |only git2r-0.22.1/git2r/R/plot.R |only git2r-0.22.1/git2r/R/pull.R |only git2r-0.22.1/git2r/R/punch_card.R |only git2r-0.22.1/git2r/R/push.R |only git2r-0.22.1/git2r/R/reference.R |only git2r-0.22.1/git2r/R/reflog.R |only git2r-0.22.1/git2r/R/refspec.R |only git2r-0.22.1/git2r/R/remote.R |only git2r-0.22.1/git2r/R/repository.R |only git2r-0.22.1/git2r/R/reset.R |only git2r-0.22.1/git2r/R/revparse.R |only git2r-0.22.1/git2r/R/sha.R |only git2r-0.22.1/git2r/R/signature.R |only git2r-0.22.1/git2r/R/stash.R |only git2r-0.22.1/git2r/R/status.R |only git2r-0.22.1/git2r/R/tag.R |only git2r-0.22.1/git2r/R/time.R |only git2r-0.22.1/git2r/R/tree.R |only git2r-0.22.1/git2r/R/when.R |only git2r-0.22.1/git2r/cleanup | 2 git2r-0.22.1/git2r/configure | 3773 ++++------ git2r-0.22.1/git2r/configure.ac | 333 git2r-0.22.1/git2r/man/add.Rd |only git2r-0.22.1/git2r/man/ahead_behind.Rd |only git2r-0.22.1/git2r/man/as.data.frame.git_repository.Rd |only git2r-0.22.1/git2r/man/as.data.frame.git_tree.Rd |only git2r-0.22.1/git2r/man/as.list.git_tree.Rd |only git2r-0.22.1/git2r/man/blame.Rd |only git2r-0.22.1/git2r/man/blob_create.Rd |only git2r-0.22.1/git2r/man/branch_create.Rd |only git2r-0.22.1/git2r/man/branch_delete.Rd |only git2r-0.22.1/git2r/man/branch_get_upstream.Rd |only git2r-0.22.1/git2r/man/branch_remote_name.Rd |only git2r-0.22.1/git2r/man/branch_remote_url.Rd |only git2r-0.22.1/git2r/man/branch_rename.Rd |only git2r-0.22.1/git2r/man/branch_set_upstream.Rd |only git2r-0.22.1/git2r/man/branch_target.Rd |only git2r-0.22.1/git2r/man/branches.Rd |only git2r-0.22.1/git2r/man/bundle_r_package.Rd |only git2r-0.22.1/git2r/man/checkout.Rd |only git2r-0.22.1/git2r/man/clone.Rd |only git2r-0.22.1/git2r/man/commit.Rd |only git2r-0.22.1/git2r/man/commits.Rd |only git2r-0.22.1/git2r/man/config.Rd | 2 git2r-0.22.1/git2r/man/content.Rd |only git2r-0.22.1/git2r/man/contributions.Rd |only git2r-0.22.1/git2r/man/cred_env.Rd |only git2r-0.22.1/git2r/man/cred_ssh_key.Rd | 33 git2r-0.22.1/git2r/man/cred_token.Rd | 10 git2r-0.22.1/git2r/man/cred_user_pass.Rd |only git2r-0.22.1/git2r/man/default_signature.Rd |only git2r-0.22.1/git2r/man/descendant_of.Rd |only git2r-0.22.1/git2r/man/diff-methods.Rd | 33 git2r-0.22.1/git2r/man/discover_repository.Rd |only git2r-0.22.1/git2r/man/fetch.Rd |only git2r-0.22.1/git2r/man/fetch_heads.Rd |only git2r-0.22.1/git2r/man/git2r.Rd | 2 git2r-0.22.1/git2r/man/git_config_files.Rd |only git2r-0.22.1/git2r/man/hash.Rd |only git2r-0.22.1/git2r/man/hashfile.Rd |only git2r-0.22.1/git2r/man/head.git_repository.Rd |only git2r-0.22.1/git2r/man/in_repository.Rd |only git2r-0.22.1/git2r/man/index_remove_bypath.Rd |only git2r-0.22.1/git2r/man/init.Rd |only git2r-0.22.1/git2r/man/is_bare.Rd |only git2r-0.22.1/git2r/man/is_binary.Rd |only git2r-0.22.1/git2r/man/is_blob.Rd | 11 git2r-0.22.1/git2r/man/is_branch.Rd | 11 git2r-0.22.1/git2r/man/is_commit.Rd | 11 git2r-0.22.1/git2r/man/is_detached.Rd |only git2r-0.22.1/git2r/man/is_empty.Rd |only git2r-0.22.1/git2r/man/is_head.Rd |only git2r-0.22.1/git2r/man/is_local.Rd |only git2r-0.22.1/git2r/man/is_merge.Rd |only git2r-0.22.1/git2r/man/is_shallow.Rd |only git2r-0.22.1/git2r/man/is_tree.Rd |only git2r-0.22.1/git2r/man/last_commit.Rd |only git2r-0.22.1/git2r/man/length.git_blob.Rd |only git2r-0.22.1/git2r/man/length.git_diff.Rd |only git2r-0.22.1/git2r/man/length.git_tree.Rd |only git2r-0.22.1/git2r/man/libgit2_features.Rd | 2 git2r-0.22.1/git2r/man/libgit2_version.Rd | 2 git2r-0.22.1/git2r/man/lookup.Rd |only git2r-0.22.1/git2r/man/ls_tree.Rd |only git2r-0.22.1/git2r/man/merge.Rd |only git2r-0.22.1/git2r/man/merge_base.Rd |only git2r-0.22.1/git2r/man/note_create.Rd |only git2r-0.22.1/git2r/man/note_default_ref.Rd |only git2r-0.22.1/git2r/man/note_remove.Rd |only git2r-0.22.1/git2r/man/notes.Rd |only git2r-0.22.1/git2r/man/odb_blobs.Rd |only git2r-0.22.1/git2r/man/odb_objects.Rd |only git2r-0.22.1/git2r/man/parents.Rd |only git2r-0.22.1/git2r/man/plot.git_repository.Rd |only git2r-0.22.1/git2r/man/print.git_reflog_entry.Rd |only git2r-0.22.1/git2r/man/pull.Rd |only git2r-0.22.1/git2r/man/punch_card.Rd |only git2r-0.22.1/git2r/man/push.Rd |only git2r-0.22.1/git2r/man/reexports.Rd |only git2r-0.22.1/git2r/man/references.Rd |only git2r-0.22.1/git2r/man/reflog.Rd |only git2r-0.22.1/git2r/man/remote_add.Rd |only git2r-0.22.1/git2r/man/remote_ls.Rd |only git2r-0.22.1/git2r/man/remote_remove.Rd |only git2r-0.22.1/git2r/man/remote_rename.Rd |only git2r-0.22.1/git2r/man/remote_set_url.Rd |only git2r-0.22.1/git2r/man/remote_url.Rd |only git2r-0.22.1/git2r/man/remotes.Rd |only git2r-0.22.1/git2r/man/repository.Rd |only git2r-0.22.1/git2r/man/repository_head.Rd |only git2r-0.22.1/git2r/man/reset.Rd |only git2r-0.22.1/git2r/man/revparse_single.Rd |only git2r-0.22.1/git2r/man/rm_file.Rd |only git2r-0.22.1/git2r/man/sha.Rd |only git2r-0.22.1/git2r/man/ssh_path.Rd |only git2r-0.22.1/git2r/man/ssl_cert_locations.Rd | 2 git2r-0.22.1/git2r/man/stash.Rd |only git2r-0.22.1/git2r/man/stash_apply.Rd |only git2r-0.22.1/git2r/man/stash_drop.Rd |only git2r-0.22.1/git2r/man/stash_list.Rd |only git2r-0.22.1/git2r/man/stash_pop.Rd |only git2r-0.22.1/git2r/man/status.Rd |only git2r-0.22.1/git2r/man/sub-.git_tree.Rd |only git2r-0.22.1/git2r/man/summary.git_repository.Rd |only git2r-0.22.1/git2r/man/summary.git_stash.Rd |only git2r-0.22.1/git2r/man/summary.git_tree.Rd |only git2r-0.22.1/git2r/man/tag.Rd |only git2r-0.22.1/git2r/man/tag_delete.Rd |only git2r-0.22.1/git2r/man/tags.Rd |only git2r-0.22.1/git2r/man/tree.Rd |only git2r-0.22.1/git2r/man/when.Rd |only git2r-0.22.1/git2r/man/workdir.Rd |only git2r-0.22.1/git2r/src/Makevars.in | 72 git2r-0.22.1/git2r/src/Makevars.win | 37 git2r-0.22.1/git2r/src/Makevars_libgit2.in |only git2r-0.22.1/git2r/src/git2r.c | 12 git2r-0.22.1/git2r/src/git2r_S3.c |only git2r-0.22.1/git2r/src/git2r_S3.h |only git2r-0.22.1/git2r/src/git2r_arg.c | 213 git2r-0.22.1/git2r/src/git2r_arg.h | 7 git2r-0.22.1/git2r/src/git2r_blame.c | 146 git2r-0.22.1/git2r/src/git2r_blob.c | 168 git2r-0.22.1/git2r/src/git2r_blob.h | 2 git2r-0.22.1/git2r/src/git2r_branch.c | 557 - git2r-0.22.1/git2r/src/git2r_branch.h | 2 git2r-0.22.1/git2r/src/git2r_checkout.c | 50 git2r-0.22.1/git2r/src/git2r_clone.c | 17 git2r-0.22.1/git2r/src/git2r_commit.c | 315 git2r-0.22.1/git2r/src/git2r_commit.h | 2 git2r-0.22.1/git2r/src/git2r_config.c | 235 git2r-0.22.1/git2r/src/git2r_config.h | 3 git2r-0.22.1/git2r/src/git2r_cred.c | 392 - git2r-0.22.1/git2r/src/git2r_cred.h | 2 git2r-0.22.1/git2r/src/git2r_diff.c | 639 - git2r-0.22.1/git2r/src/git2r_diff.h | 6 git2r-0.22.1/git2r/src/git2r_error.c | 24 git2r-0.22.1/git2r/src/git2r_error.h | 5 git2r-0.22.1/git2r/src/git2r_graph.c | 91 git2r-0.22.1/git2r/src/git2r_index.c | 63 git2r-0.22.1/git2r/src/git2r_libgit2.c | 46 git2r-0.22.1/git2r/src/git2r_merge.c | 418 - git2r-0.22.1/git2r/src/git2r_merge.h | 4 git2r-0.22.1/git2r/src/git2r_note.c | 231 git2r-0.22.1/git2r/src/git2r_object.c | 53 git2r-0.22.1/git2r/src/git2r_odb.c | 264 git2r-0.22.1/git2r/src/git2r_oid.h | 2 git2r-0.22.1/git2r/src/git2r_push.c | 29 git2r-0.22.1/git2r/src/git2r_reference.c | 121 git2r-0.22.1/git2r/src/git2r_reflog.c | 109 git2r-0.22.1/git2r/src/git2r_remote.c | 200 git2r-0.22.1/git2r/src/git2r_repository.c | 311 git2r-0.22.1/git2r/src/git2r_repository.h | 2 git2r-0.22.1/git2r/src/git2r_reset.c | 60 git2r-0.22.1/git2r/src/git2r_revparse.c | 56 git2r-0.22.1/git2r/src/git2r_revwalk.c | 126 git2r-0.22.1/git2r/src/git2r_signature.c | 97 git2r-0.22.1/git2r/src/git2r_signature.h | 2 git2r-0.22.1/git2r/src/git2r_stash.c | 176 git2r-0.22.1/git2r/src/git2r_stash.h | 4 git2r-0.22.1/git2r/src/git2r_status.c | 84 git2r-0.22.1/git2r/src/git2r_tag.c | 183 git2r-0.22.1/git2r/src/git2r_tag.h | 2 git2r-0.22.1/git2r/src/git2r_transfer.c | 51 git2r-0.22.1/git2r/src/git2r_transfer.h | 24 git2r-0.22.1/git2r/src/git2r_tree.c | 211 git2r-0.22.1/git2r/src/git2r_tree.h | 5 git2r-0.22.1/git2r/src/libgit2/include/git2.h | 1 git2r-0.22.1/git2r/src/libgit2/include/git2/common.h | 4 git2r-0.22.1/git2r/src/libgit2/include/git2/config.h | 31 git2r-0.22.1/git2r/src/libgit2/include/git2/describe.h | 2 git2r-0.22.1/git2r/src/libgit2/include/git2/diff.h | 101 git2r-0.22.1/git2r/src/libgit2/include/git2/graph.h | 3 git2r-0.22.1/git2r/src/libgit2/include/git2/merge.h | 6 git2r-0.22.1/git2r/src/libgit2/include/git2/message.h | 46 git2r-0.22.1/git2r/src/libgit2/include/git2/notes.h | 89 git2r-0.22.1/git2r/src/libgit2/include/git2/odb.h | 9 git2r-0.22.1/git2r/src/libgit2/include/git2/patch.h | 4 git2r-0.22.1/git2r/src/libgit2/include/git2/pathspec.h | 53 git2r-0.22.1/git2r/src/libgit2/include/git2/refs.h | 3 git2r-0.22.1/git2r/src/libgit2/include/git2/remote.h | 38 git2r-0.22.1/git2r/src/libgit2/include/git2/repository.h | 12 git2r-0.22.1/git2r/src/libgit2/include/git2/reset.h | 8 git2r-0.22.1/git2r/src/libgit2/include/git2/status.h | 4 git2r-0.22.1/git2r/src/libgit2/include/git2/sys/config.h | 5 git2r-0.22.1/git2r/src/libgit2/include/git2/sys/mempack.h | 9 git2r-0.22.1/git2r/src/libgit2/include/git2/sys/odb_backend.h | 3 git2r-0.22.1/git2r/src/libgit2/include/git2/tree.h | 7 git2r-0.22.1/git2r/src/libgit2/include/git2/types.h | 1 git2r-0.22.1/git2r/src/libgit2/include/git2/version.h | 8 git2r-0.22.1/git2r/src/libgit2/include/git2/worktree.h | 2 git2r-0.22.1/git2r/src/libgit2/src/annotated_commit.c | 2 git2r-0.22.1/git2r/src/libgit2/src/annotated_commit.h | 2 git2r-0.22.1/git2r/src/libgit2/src/apply.c | 3 git2r-0.22.1/git2r/src/libgit2/src/apply.h | 2 git2r-0.22.1/git2r/src/libgit2/src/attr.c | 28 git2r-0.22.1/git2r/src/libgit2/src/attr.h | 2 git2r-0.22.1/git2r/src/libgit2/src/attr_file.c | 16 git2r-0.22.1/git2r/src/libgit2/src/attr_file.h | 2 git2r-0.22.1/git2r/src/libgit2/src/attrcache.c | 10 git2r-0.22.1/git2r/src/libgit2/src/attrcache.h | 2 git2r-0.22.1/git2r/src/libgit2/src/blame.c | 1 git2r-0.22.1/git2r/src/libgit2/src/blame.h | 3 git2r-0.22.1/git2r/src/libgit2/src/blame_git.c | 1 git2r-0.22.1/git2r/src/libgit2/src/blame_git.h | 2 git2r-0.22.1/git2r/src/libgit2/src/blob.c | 4 git2r-0.22.1/git2r/src/libgit2/src/blob.h | 2 git2r-0.22.1/git2r/src/libgit2/src/branch.c | 9 git2r-0.22.1/git2r/src/libgit2/src/branch.h | 2 git2r-0.22.1/git2r/src/libgit2/src/buf_text.c | 14 git2r-0.22.1/git2r/src/libgit2/src/buf_text.h | 6 git2r-0.22.1/git2r/src/libgit2/src/buffer.c | 32 git2r-0.22.1/git2r/src/libgit2/src/buffer.h | 3 git2r-0.22.1/git2r/src/libgit2/src/cache.c | 4 git2r-0.22.1/git2r/src/libgit2/src/cache.h | 2 git2r-0.22.1/git2r/src/libgit2/src/cc-compat.h | 8 git2r-0.22.1/git2r/src/libgit2/src/checkout.c | 64 git2r-0.22.1/git2r/src/libgit2/src/checkout.h | 2 git2r-0.22.1/git2r/src/libgit2/src/cherrypick.c | 1 git2r-0.22.1/git2r/src/libgit2/src/clone.c | 3 git2r-0.22.1/git2r/src/libgit2/src/clone.h | 4 git2r-0.22.1/git2r/src/libgit2/src/commit.c | 3 git2r-0.22.1/git2r/src/libgit2/src/commit.h | 2 git2r-0.22.1/git2r/src/libgit2/src/commit_list.c | 2 git2r-0.22.1/git2r/src/libgit2/src/commit_list.h | 2 git2r-0.22.1/git2r/src/libgit2/src/common.h | 16 git2r-0.22.1/git2r/src/libgit2/src/config.c | 22 git2r-0.22.1/git2r/src/libgit2/src/config.h | 2 git2r-0.22.1/git2r/src/libgit2/src/config_cache.c | 1 git2r-0.22.1/git2r/src/libgit2/src/config_file.c | 1085 -- git2r-0.22.1/git2r/src/libgit2/src/config_file.h | 7 git2r-0.22.1/git2r/src/libgit2/src/config_parse.c |only git2r-0.22.1/git2r/src/libgit2/src/config_parse.h |only git2r-0.22.1/git2r/src/libgit2/src/crlf.c | 3 git2r-0.22.1/git2r/src/libgit2/src/delta.h | 1 git2r-0.22.1/git2r/src/libgit2/src/describe.c | 4 git2r-0.22.1/git2r/src/libgit2/src/diff.c | 155 git2r-0.22.1/git2r/src/libgit2/src/diff.h | 4 git2r-0.22.1/git2r/src/libgit2/src/diff_driver.c | 21 git2r-0.22.1/git2r/src/libgit2/src/diff_driver.h | 5 git2r-0.22.1/git2r/src/libgit2/src/diff_file.c | 15 git2r-0.22.1/git2r/src/libgit2/src/diff_file.h | 1 git2r-0.22.1/git2r/src/libgit2/src/diff_generate.c | 11 git2r-0.22.1/git2r/src/libgit2/src/diff_generate.h | 7 git2r-0.22.1/git2r/src/libgit2/src/diff_parse.c | 9 git2r-0.22.1/git2r/src/libgit2/src/diff_parse.h | 2 git2r-0.22.1/git2r/src/libgit2/src/diff_print.c | 3 git2r-0.22.1/git2r/src/libgit2/src/diff_stats.c | 2 git2r-0.22.1/git2r/src/libgit2/src/diff_tform.c | 7 git2r-0.22.1/git2r/src/libgit2/src/diff_tform.h | 5 git2r-0.22.1/git2r/src/libgit2/src/diff_xdiff.c | 7 git2r-0.22.1/git2r/src/libgit2/src/diff_xdiff.h | 2 git2r-0.22.1/git2r/src/libgit2/src/errors.c | 2 git2r-0.22.1/git2r/src/libgit2/src/fetch.c | 4 git2r-0.22.1/git2r/src/libgit2/src/fetch.h | 4 git2r-0.22.1/git2r/src/libgit2/src/fetchhead.c | 6 git2r-0.22.1/git2r/src/libgit2/src/fetchhead.h | 3 git2r-0.22.1/git2r/src/libgit2/src/filebuf.c | 3 git2r-0.22.1/git2r/src/libgit2/src/filebuf.h | 2 git2r-0.22.1/git2r/src/libgit2/src/fileops.c | 13 git2r-0.22.1/git2r/src/libgit2/src/fileops.h | 8 git2r-0.22.1/git2r/src/libgit2/src/filter.c | 3 git2r-0.22.1/git2r/src/libgit2/src/filter.h | 1 git2r-0.22.1/git2r/src/libgit2/src/fnmatch.c | 4 git2r-0.22.1/git2r/src/libgit2/src/fnmatch.h | 7 git2r-0.22.1/git2r/src/libgit2/src/global.c | 11 git2r-0.22.1/git2r/src/libgit2/src/global.h | 6 git2r-0.22.1/git2r/src/libgit2/src/graph.c | 2 git2r-0.22.1/git2r/src/libgit2/src/hash.c | 1 git2r-0.22.1/git2r/src/libgit2/src/hash.h | 4 git2r-0.22.1/git2r/src/libgit2/src/hash/hash_openssl.h | 27 git2r-0.22.1/git2r/src/libgit2/src/hashsig.c | 3 git2r-0.22.1/git2r/src/libgit2/src/ident.c | 2 git2r-0.22.1/git2r/src/libgit2/src/idxmap.h | 3 git2r-0.22.1/git2r/src/libgit2/src/ignore.c | 104 git2r-0.22.1/git2r/src/libgit2/src/ignore.h | 2 git2r-0.22.1/git2r/src/libgit2/src/index.c | 103 git2r-0.22.1/git2r/src/libgit2/src/index.h | 2 git2r-0.22.1/git2r/src/libgit2/src/indexer.c | 35 git2r-0.22.1/git2r/src/libgit2/src/indexer.h | 6 git2r-0.22.1/git2r/src/libgit2/src/integer.h | 2 git2r-0.22.1/git2r/src/libgit2/src/iterator.c | 47 git2r-0.22.1/git2r/src/libgit2/src/iterator.h | 3 git2r-0.22.1/git2r/src/libgit2/src/map.h | 2 git2r-0.22.1/git2r/src/libgit2/src/merge.c | 214 git2r-0.22.1/git2r/src/libgit2/src/merge.h | 2 git2r-0.22.1/git2r/src/libgit2/src/merge_driver.c | 4 git2r-0.22.1/git2r/src/libgit2/src/merge_driver.h | 2 git2r-0.22.1/git2r/src/libgit2/src/merge_file.c | 3 git2r-0.22.1/git2r/src/libgit2/src/message.h | 4 git2r-0.22.1/git2r/src/libgit2/src/mwindow.c | 2 git2r-0.22.1/git2r/src/libgit2/src/mwindow.h | 2 git2r-0.22.1/git2r/src/libgit2/src/netops.c | 141 git2r-0.22.1/git2r/src/libgit2/src/netops.h | 3 git2r-0.22.1/git2r/src/libgit2/src/notes.c | 212 git2r-0.22.1/git2r/src/libgit2/src/notes.h | 2 git2r-0.22.1/git2r/src/libgit2/src/object.c | 17 git2r-0.22.1/git2r/src/libgit2/src/object.h | 4 git2r-0.22.1/git2r/src/libgit2/src/object_api.c | 5 git2r-0.22.1/git2r/src/libgit2/src/odb.c | 142 git2r-0.22.1/git2r/src/libgit2/src/odb.h | 4 git2r-0.22.1/git2r/src/libgit2/src/odb_loose.c | 681 + git2r-0.22.1/git2r/src/libgit2/src/odb_mempack.c | 3 git2r-0.22.1/git2r/src/libgit2/src/odb_pack.c | 1 git2r-0.22.1/git2r/src/libgit2/src/offmap.h | 1 git2r-0.22.1/git2r/src/libgit2/src/oid.c | 3 git2r-0.22.1/git2r/src/libgit2/src/oid.h | 11 git2r-0.22.1/git2r/src/libgit2/src/oidarray.c | 15 git2r-0.22.1/git2r/src/libgit2/src/oidarray.h | 2 git2r-0.22.1/git2r/src/libgit2/src/oidmap.h | 1 git2r-0.22.1/git2r/src/libgit2/src/pack-objects.c | 6 git2r-0.22.1/git2r/src/libgit2/src/pack-objects.h | 2 git2r-0.22.1/git2r/src/libgit2/src/pack.c | 25 git2r-0.22.1/git2r/src/libgit2/src/pack.h | 3 git2r-0.22.1/git2r/src/libgit2/src/parse.c |only git2r-0.22.1/git2r/src/libgit2/src/parse.h |only git2r-0.22.1/git2r/src/libgit2/src/patch.c | 11 git2r-0.22.1/git2r/src/libgit2/src/patch.h | 2 git2r-0.22.1/git2r/src/libgit2/src/patch_generate.c | 11 git2r-0.22.1/git2r/src/libgit2/src/patch_generate.h | 1 git2r-0.22.1/git2r/src/libgit2/src/patch_parse.c | 539 - git2r-0.22.1/git2r/src/libgit2/src/patch_parse.h | 17 git2r-0.22.1/git2r/src/libgit2/src/path.c | 205 git2r-0.22.1/git2r/src/libgit2/src/path.h | 87 git2r-0.22.1/git2r/src/libgit2/src/pathspec.c | 3 git2r-0.22.1/git2r/src/libgit2/src/pathspec.h | 3 git2r-0.22.1/git2r/src/libgit2/src/pool.c | 8 git2r-0.22.1/git2r/src/libgit2/src/pool.h | 1 git2r-0.22.1/git2r/src/libgit2/src/posix.c | 5 git2r-0.22.1/git2r/src/libgit2/src/posix.h | 4 git2r-0.22.1/git2r/src/libgit2/src/pqueue.c | 1 git2r-0.22.1/git2r/src/libgit2/src/pqueue.h | 2 git2r-0.22.1/git2r/src/libgit2/src/proxy.c | 9 git2r-0.22.1/git2r/src/libgit2/src/proxy.h | 3 git2r-0.22.1/git2r/src/libgit2/src/push.c | 178 git2r-0.22.1/git2r/src/libgit2/src/push.h | 2 git2r-0.22.1/git2r/src/libgit2/src/rebase.c | 1 git2r-0.22.1/git2r/src/libgit2/src/refdb.c | 5 git2r-0.22.1/git2r/src/libgit2/src/refdb.h | 2 git2r-0.22.1/git2r/src/libgit2/src/refdb_fs.c | 10 git2r-0.22.1/git2r/src/libgit2/src/refdb_fs.h | 4 git2r-0.22.1/git2r/src/libgit2/src/reflog.c | 1 git2r-0.22.1/git2r/src/libgit2/src/reflog.h | 3 git2r-0.22.1/git2r/src/libgit2/src/refs.c | 12 git2r-0.22.1/git2r/src/libgit2/src/refs.h | 7 git2r-0.22.1/git2r/src/libgit2/src/refspec.c | 9 git2r-0.22.1/git2r/src/libgit2/src/refspec.h | 2 git2r-0.22.1/git2r/src/libgit2/src/remote.c | 68 git2r-0.22.1/git2r/src/libgit2/src/remote.h | 2 git2r-0.22.1/git2r/src/libgit2/src/repository.c | 42 git2r-0.22.1/git2r/src/libgit2/src/repository.h | 2 git2r-0.22.1/git2r/src/libgit2/src/reset.c | 11 git2r-0.22.1/git2r/src/libgit2/src/revert.c | 1 git2r-0.22.1/git2r/src/libgit2/src/revparse.c | 8 git2r-0.22.1/git2r/src/libgit2/src/revwalk.c | 37 git2r-0.22.1/git2r/src/libgit2/src/revwalk.h | 2 git2r-0.22.1/git2r/src/libgit2/src/settings.c | 14 git2r-0.22.1/git2r/src/libgit2/src/sha1_lookup.c | 222 git2r-0.22.1/git2r/src/libgit2/src/sha1_lookup.h | 8 git2r-0.22.1/git2r/src/libgit2/src/signature.c | 12 git2r-0.22.1/git2r/src/libgit2/src/signature.h | 2 git2r-0.22.1/git2r/src/libgit2/src/sortedcache.c | 7 git2r-0.22.1/git2r/src/libgit2/src/sortedcache.h | 2 git2r-0.22.1/git2r/src/libgit2/src/stash.c | 1 git2r-0.22.1/git2r/src/libgit2/src/status.c | 23 git2r-0.22.1/git2r/src/libgit2/src/status.h | 2 git2r-0.22.1/git2r/src/libgit2/src/streams |only git2r-0.22.1/git2r/src/libgit2/src/submodule.c | 129 git2r-0.22.1/git2r/src/libgit2/src/submodule.h | 15 git2r-0.22.1/git2r/src/libgit2/src/sysdir.c | 79 git2r-0.22.1/git2r/src/libgit2/src/sysdir.h | 3 git2r-0.22.1/git2r/src/libgit2/src/tag.c | 4 git2r-0.22.1/git2r/src/libgit2/src/tag.h | 2 git2r-0.22.1/git2r/src/libgit2/src/thread-utils.c | 1 git2r-0.22.1/git2r/src/libgit2/src/thread-utils.h | 2 git2r-0.22.1/git2r/src/libgit2/src/trace.c | 4 git2r-0.22.1/git2r/src/libgit2/src/trace.h | 2 git2r-0.22.1/git2r/src/libgit2/src/trailer.c |only git2r-0.22.1/git2r/src/libgit2/src/transaction.c | 3 git2r-0.22.1/git2r/src/libgit2/src/transport.c | 2 git2r-0.22.1/git2r/src/libgit2/src/transports/auth.c | 3 git2r-0.22.1/git2r/src/libgit2/src/transports/auth.h | 7 git2r-0.22.1/git2r/src/libgit2/src/transports/auth_negotiate.h | 6 git2r-0.22.1/git2r/src/libgit2/src/transports/cred.c | 2 git2r-0.22.1/git2r/src/libgit2/src/transports/cred.h | 6 git2r-0.22.1/git2r/src/libgit2/src/transports/cred_helpers.c | 1 git2r-0.22.1/git2r/src/libgit2/src/transports/git.c | 4 git2r-0.22.1/git2r/src/libgit2/src/transports/http.c | 24 git2r-0.22.1/git2r/src/libgit2/src/transports/http.h |only git2r-0.22.1/git2r/src/libgit2/src/transports/local.c | 34 git2r-0.22.1/git2r/src/libgit2/src/transports/smart.c | 4 git2r-0.22.1/git2r/src/libgit2/src/transports/smart.h | 7 git2r-0.22.1/git2r/src/libgit2/src/transports/smart_protocol.c | 15 git2r-0.22.1/git2r/src/libgit2/src/transports/ssh.c | 22 git2r-0.22.1/git2r/src/libgit2/src/transports/ssh.h | 6 git2r-0.22.1/git2r/src/libgit2/src/transports/winhttp.c | 62 git2r-0.22.1/git2r/src/libgit2/src/tree-cache.c | 1 git2r-0.22.1/git2r/src/libgit2/src/tree-cache.h | 1 git2r-0.22.1/git2r/src/libgit2/src/tree.c | 34 git2r-0.22.1/git2r/src/libgit2/src/tree.h | 2 git2r-0.22.1/git2r/src/libgit2/src/tsort.c | 1 git2r-0.22.1/git2r/src/libgit2/src/unix/map.c | 5 git2r-0.22.1/git2r/src/libgit2/src/unix/posix.h | 12 git2r-0.22.1/git2r/src/libgit2/src/unix/pthread.h | 2 git2r-0.22.1/git2r/src/libgit2/src/unix/realpath.c | 5 git2r-0.22.1/git2r/src/libgit2/src/util.c | 60 git2r-0.22.1/git2r/src/libgit2/src/util.h | 151 git2r-0.22.1/git2r/src/libgit2/src/varint.c | 1 git2r-0.22.1/git2r/src/libgit2/src/varint.h | 2 git2r-0.22.1/git2r/src/libgit2/src/vector.c | 2 git2r-0.22.1/git2r/src/libgit2/src/worktree.c | 11 git2r-0.22.1/git2r/src/libgit2/src/worktree.h | 2 git2r-0.22.1/git2r/src/libgit2/src/xdiff/xdiff.h | 35 git2r-0.22.1/git2r/src/libgit2/src/xdiff/xdiffi.c | 616 + git2r-0.22.1/git2r/src/libgit2/src/xdiff/xdiffi.h | 4 git2r-0.22.1/git2r/src/libgit2/src/xdiff/xemit.c | 104 git2r-0.22.1/git2r/src/libgit2/src/xdiff/xemit.h | 4 git2r-0.22.1/git2r/src/libgit2/src/xdiff/xhistogram.c | 1 git2r-0.22.1/git2r/src/libgit2/src/xdiff/xinclude.h | 5 git2r-0.22.1/git2r/src/libgit2/src/xdiff/xmacros.h | 4 git2r-0.22.1/git2r/src/libgit2/src/xdiff/xmerge.c | 100 git2r-0.22.1/git2r/src/libgit2/src/xdiff/xpatience.c | 50 git2r-0.22.1/git2r/src/libgit2/src/xdiff/xprepare.c | 4 git2r-0.22.1/git2r/src/libgit2/src/xdiff/xprepare.h | 4 git2r-0.22.1/git2r/src/libgit2/src/xdiff/xtypes.h | 4 git2r-0.22.1/git2r/src/libgit2/src/xdiff/xutils.c | 74 git2r-0.22.1/git2r/src/libgit2/src/xdiff/xutils.h | 7 git2r-0.22.1/git2r/src/libgit2/src/zstream.c | 110 git2r-0.22.1/git2r/src/libgit2/src/zstream.h | 11 git2r-0.22.1/git2r/tests/blame.R | 50 git2r-0.22.1/git2r/tests/blob.R | 24 git2r-0.22.1/git2r/tests/branch.R | 34 git2r-0.22.1/git2r/tests/checkout-named-branch.R | 6 git2r-0.22.1/git2r/tests/checkout.R | 16 git2r-0.22.1/git2r/tests/checkout_branch.R | 6 git2r-0.22.1/git2r/tests/checkout_tag.R | 4 git2r-0.22.1/git2r/tests/clone_bare.R | 16 git2r-0.22.1/git2r/tests/clone_branch.R | 6 git2r-0.22.1/git2r/tests/clone_checkout.R | 19 git2r-0.22.1/git2r/tests/commit.R | 27 git2r-0.22.1/git2r/tests/config.R | 50 git2r-0.22.1/git2r/tests/diff.R | 48 git2r-0.22.1/git2r/tests/fast_forward_merge.R | 21 git2r-0.22.1/git2r/tests/fetch.R | 70 git2r-0.22.1/git2r/tests/libgit2.R | 7 git2r-0.22.1/git2r/tests/merge.R | 72 git2r-0.22.1/git2r/tests/merge_named_branch.R | 32 git2r-0.22.1/git2r/tests/normal_merge.R | 8 git2r-0.22.1/git2r/tests/note.R | 10 git2r-0.22.1/git2r/tests/pre-process-path.R | 2 git2r-0.22.1/git2r/tests/pull.R | 36 git2r-0.22.1/git2r/tests/push-force.R | 8 git2r-0.22.1/git2r/tests/push.R | 52 git2r-0.22.1/git2r/tests/reflog.R | 17 git2r-0.22.1/git2r/tests/remove.R | 2 git2r-0.22.1/git2r/tests/repository.R | 11 git2r-0.22.1/git2r/tests/revparse.R | 1 git2r-0.22.1/git2r/tests/signature.R | 39 git2r-0.22.1/git2r/tests/stash.R | 21 git2r-0.22.1/git2r/tests/tag.R | 72 git2r-0.22.1/git2r/tests/time.R | 33 git2r-0.22.1/git2r/tests/tree.R | 14 git2r-0.22.1/git2r/tests/when.R | 64 git2r-0.22.1/git2r/tools/version.c |only git2r-0.22.1/git2r/tools/winlibs.R | 23 699 files changed, 11009 insertions(+), 9019 deletions(-)
Title: Open Source OCR Engine
Description: Bindings to 'Tesseract' <https://opensource.google.com/projects/tesseract>:
a powerful optical character recognition (OCR) engine that supports over 100 languages.
The engine is highly configurable in order to tune the detection algorithms and
obtain the best possible results.
Author: Jeroen Ooms [aut, cre] (<https://orcid.org/0000-0002-4035-0289>)
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between tesseract versions 2.1 dated 2018-05-03 and 2.2 dated 2018-07-10
DESCRIPTION | 6 +++--- MD5 | 22 +++++++++++----------- NEWS | 5 +++++ R/RcppExports.R | 4 ---- R/ocr.R | 2 +- build/vignette.rds |binary inst/doc/intro.html | 15 +++++++++------ src/Makevars.win | 3 +-- src/RcppExports.cpp | 11 ----------- src/tesseract.cpp | 22 +++++++++------------- src/tesseract_types.h | 2 +- src/test.h | 2 +- 12 files changed, 41 insertions(+), 53 deletions(-)
Title: Subtracting Summary Statistics of One or more Cohorts from
Meta-GWAS Results
Description: If results from a meta-GWAS are used for validation in one of the cohorts that was included in the meta-analysis, this will yield biased (i.e. too optimistic) results. The validation cohort needs to be independent from the meta-Genome-Wide-Association-Study (meta-GWAS) results. 'MetaSubtract' will subtract the results of the respective cohort from the meta-GWAS results analytically without having to redo the meta-GWAS analysis using the leave-one-out methodology. It can handle different meta-analyses methods and takes into account if single or double genomic control correction was applied to the original meta-analysis. It can also handle different meta-analysis methods. It can be used for whole GWAS, but also for a limited set of genetic markers.
Author: Ilja M. Nolte
Maintainer: Ilja M. Nolte <i.m.nolte@umcg.nl>
Diff between MetaSubtract versions 1.42 dated 2018-07-02 and 1.43 dated 2018-07-10
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- R/MetaSubtract.r | 14 +++++++++----- 3 files changed, 15 insertions(+), 11 deletions(-)
Title: Tools for the Bayesian Discount Prior Function
Description: Functions for data augmentation using the
Bayesian discount prior function for 1 arm and 2 arm clinical trials.
Author: Shawn Balcome [cre],
Donnie Musgrove [aut],
Tarek Haddad [aut],
Christopher Jackson [ctb] (For the ppexp R code that was ported to
C++.)
Maintainer: Shawn Balcome <sbalcome@mdic.org>
Diff between bayesDP versions 1.3.1 dated 2018-04-11 and 1.3.2 dated 2018-07-10
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- NEWS.md | 5 +++++ inst/doc/bdpbinomial-vignette.html | 4 ++-- inst/doc/bdplm-vignette.Rmd | 13 ++++++++++--- inst/doc/bdplm-vignette.html | 14 ++++++++++---- inst/doc/bdpnormal-vignette.html | 4 ++-- inst/doc/bdpsurvival-vignette.html | 4 ++-- vignettes/bdplm-vignette.Rmd | 13 ++++++++++--- 9 files changed, 53 insertions(+), 28 deletions(-)
Title: Correct Overloaded Peaks from GC-APCI-MS Data
Description: Analyzes and modifies metabolomics raw data (generated using GC-APCI-MS, Gas Chromatography-Atmospheric Pressure Chemical Ionization-Mass Spectrometry) to correct overloaded signals, i.e. ion intensities exceeding detector saturation leading to a cut-off peak. Data in xcmsRaw format are accepted as input and mzXML files can be processed alternatively. Overloaded signals are detected automatically and modified using an Gaussian or Isotopic-Ratio approach, QC plots are generated and corrected data are stored within the original xcmsRaw or mzXML respectively to allow further processing.
Author: Jan Lisec [aut, cre]
Maintainer: Jan Lisec <jan.lisec@bam.de>
Diff between CorrectOverloadedPeaks versions 1.2.14 dated 2016-08-30 and 1.2.15 dated 2018-07-10
DESCRIPTION | 16 ++++----- MD5 | 24 ++++++------- NAMESPACE | 1 R/read.mzXML.R | 62 +++++++++++++++++++++++++++++++++-- R/write.mzXML.R | 50 ++++++++++++++++++++++++---- build/vignette.rds |binary inst/doc/CorrectOverloadedPeaks.html | 51 +++++++++++++++------------- man/CorrectOverloadedPeaks.Rd | 1 man/FitGaussPeak.Rd | 1 man/FitPeakByIsotopicRatio.Rd | 1 man/ModelGaussPeak.Rd | 1 man/read.mzXML.Rd | 1 man/write.mzXML.Rd | 1 13 files changed, 151 insertions(+), 59 deletions(-)
More information about CorrectOverloadedPeaks at CRAN
Permanent link
Title: Spatio-Temporal Uncertainty Propagation Across Multiple Scales
Description: Provides several R functions for
temporal aggregation of environmental variables used in e.g. Urban Drainage Models (UDMs), as precipitation and pollutants.
Also, it provides methods and functions for uncertainty propagation via Monte Carlo simulation.
This package, moreover, provides specific analysis functions for urban drainage
system simulation to evaluate water quantity and quality in combined sewer overflows (CSOs).
Author: J.A. Torres-Matallana [aut, cre]
U. Leopold [ctb]
G.B.M. Heuvelink [ctb]
Maintainer: J.A. Torres-Matallana <arturo.torres@list.lu>
Diff between stUPscales versions 1.0.3.1 dated 2018-07-01 and 1.0.3.2 dated 2018-07-10
stUPscales-1.0.3.1/stUPscales/R/Level2Volume.R |only stUPscales-1.0.3.1/stUPscales/man/Level2Volume.Rd |only stUPscales-1.0.3.2/stUPscales/DESCRIPTION | 10 ++++------ stUPscales-1.0.3.2/stUPscales/MD5 | 8 +++----- stUPscales-1.0.3.2/stUPscales/NAMESPACE | 2 +- stUPscales-1.0.3.2/stUPscales/man/stUPscales-package.Rd | 8 +++----- 6 files changed, 11 insertions(+), 17 deletions(-)
Title: Quality Improvement Charts
Description: Functions for making run charts, Shewhart control charts and
Pareto charts for continuous quality improvement. Included control charts are:
I, MR, Xbar, S, T, C, U, U', P, P', and G charts. Non-random variation in the
form of minor to moderate persistent shifts in data over time is identified by
the Anhoej rules for unusually long runs and unusually few crossing
[Anhoej, Olesen (2014) <doi:10.1371/journal.pone.0113825>].
Non-random variation in the form of larger, possibly transient, shifts is
identified by Shewhart's 3-sigma rule [Mohammed, Worthington, Woodall (2008)
<doi:10.1136/qshc.2004.012047>].
Author: Jacob Anhoej [aut, cre]
Maintainer: Jacob Anhoej <jacob@anhoej.net>
Diff between qicharts2 versions 0.4.0 dated 2018-03-03 and 0.5.1 dated 2018-07-10
DESCRIPTION | 8 +- MD5 | 46 +++++------ NEWS | 11 ++ R/data.R | 14 ++- R/helper.functions.R | 176 +++++++++++++++++++++++++++----------------- R/qic.R | 30 ++++++- R/qic.plot.R | 72 +++++++++++------- README.md | 4 - build/vignette.rds |binary inst/doc/qicharts2.R | 3 inst/doc/qicharts2.Rmd | 89 +++++++++++----------- inst/doc/qicharts2.html | 176 ++++++++++++++++++++++---------------------- man/cabg.Rd | 3 man/cdi.Rd | 2 man/gtt.Rd | 5 + man/hospital_infections.Rd | 4 - man/nhs_accidents.Rd | 2 man/qic.Rd | 19 +++- tests/testthat/NA_test.rds |binary tests/testthat/ex_6.3_1.rds |binary tests/testthat/ex_6.3_2.rds |binary tests/testthat/ex_6.4_1.rds |binary tests/testthat/ex_6.4_2.rds |binary vignettes/qicharts2.Rmd | 89 +++++++++++----------- 24 files changed, 425 insertions(+), 328 deletions(-)
Title: Visualise Clusterings at Different Resolutions
Description: Deciding what resolution to use can be a difficult question when
approaching a clustering analysis. One way to approach this problem is to
look at how samples move as the number of clusters increases. This package
allows you to produce clustering trees, a visualisation for interrogating
clusterings as resolution increases.
Author: Luke Zappia [aut, cre] (<https://orcid.org/0000-0001-7744-8565>),
Alicia Oshlack [aut] (<https://orcid.org/0000-0001-9788-5690>),
Andrea Rau [ctb]
Maintainer: Luke Zappia <luke.zappia@mcri.edu.au>
Diff between clustree versions 0.2.1 dated 2018-07-09 and 0.2.2 dated 2018-07-10
clustree-0.2.1/clustree/data/datalist |only clustree-0.2.1/clustree/data/sim_sc3.rda |only clustree-0.2.1/clustree/data/sim_seurat.rda |only clustree-0.2.1/clustree/man/sim_sc3.Rd |only clustree-0.2.1/clustree/man/sim_seurat.Rd |only clustree-0.2.2/clustree/DESCRIPTION | 8 clustree-0.2.2/clustree/MD5 | 33 - clustree-0.2.2/clustree/NEWS.md | 15 clustree-0.2.2/clustree/R/clustree.R | 10 clustree-0.2.2/clustree/R/clustree_overlay.R | 14 clustree-0.2.2/clustree/R/datasets.R | 49 - clustree-0.2.2/clustree/data/sc_example.rda |only clustree-0.2.2/clustree/inst/doc/clustree.R | 57 +- clustree-0.2.2/clustree/inst/doc/clustree.Rmd | 77 +- clustree-0.2.2/clustree/inst/doc/clustree.html | 269 +++------- clustree-0.2.2/clustree/man/clustree.Rd | 5 clustree-0.2.2/clustree/man/clustree_overlay.Rd | 14 clustree-0.2.2/clustree/man/sc_example.Rd |only clustree-0.2.2/clustree/tests/testthat/test-clustree-overlay.R | 75 +- clustree-0.2.2/clustree/tests/testthat/test-clustree.R | 27 - clustree-0.2.2/clustree/vignettes/clustree.Rmd | 77 +- 21 files changed, 380 insertions(+), 350 deletions(-)
Title: Collection of Convenient Functions for Common Statistical
Computations
Description: Collection of convenient functions for common statistical computations,
which are not directly provided by R's base or stats packages.
This package aims at providing, first, shortcuts for statistical
measures, which otherwise could only be calculated with additional
effort (like standard errors or root mean squared errors). Second,
these shortcut functions are generic (if appropriate), and can be
applied not only to vectors, but also to other objects as well
(e.g., the Coefficient of Variation can be computed for vectors,
linear models, or linear mixed models; the r2()-function returns
the r-squared value for 'lm', 'glm', 'merMod' or 'lme' objects).
The focus of most functions lies on summary statistics or fit
measures for regression models, including generalized linear
models and mixed effects models. However, some of the functions
also deal with other statistical measures, like Cronbach's Alpha,
Cramer's V, Phi etc.
Author: Daniel Lüdecke [aut, cre] (<https://orcid.org/0000-0002-8895-3206>)
Maintainer: Daniel Lüdecke <d.luedecke@uke.de>
Diff between sjstats versions 0.15.0 dated 2018-06-06 and 0.16.0 dated 2018-07-10
sjstats-0.15.0/sjstats/man/chisq_gof.Rd |only sjstats-0.15.0/sjstats/man/cv.Rd |only sjstats-0.15.0/sjstats/man/hoslem_gof.Rd |only sjstats-0.15.0/sjstats/man/r2.Rd |only sjstats-0.16.0/sjstats/DESCRIPTION | 25 sjstats-0.16.0/sjstats/MD5 | 120 - sjstats-0.16.0/sjstats/NAMESPACE | 96 + sjstats-0.16.0/sjstats/NEWS.md | 37 sjstats-0.16.0/sjstats/R/HDI.R | 14 sjstats-0.16.0/sjstats/R/S3-methods.R | 511 +++++- sjstats-0.16.0/sjstats/R/auto_prior.R |only sjstats-0.16.0/sjstats/R/check_model_assumptions.R | 30 sjstats-0.16.0/sjstats/R/confint_ncg.R |only sjstats-0.16.0/sjstats/R/cv.R | 47 sjstats-0.16.0/sjstats/R/equi_test.R | 6 sjstats-0.16.0/sjstats/R/eta_sq.R | 180 +- sjstats-0.16.0/sjstats/R/gof.R | 97 - sjstats-0.16.0/sjstats/R/icc.R | 838 ++++++--- sjstats-0.16.0/sjstats/R/internal_consistency.R | 84 sjstats-0.16.0/sjstats/R/mcse.R | 28 sjstats-0.16.0/sjstats/R/mediation.R | 3 sjstats-0.16.0/sjstats/R/merMod_p.R | 324 ++- sjstats-0.16.0/sjstats/R/n_eff.R | 12 sjstats-0.16.0/sjstats/R/overdisp.R | 260 +-- sjstats-0.16.0/sjstats/R/partial_eta_sq_ci.R |only sjstats-0.16.0/sjstats/R/pca.R | 6 sjstats-0.16.0/sjstats/R/pred_vars.R | 190 +- sjstats-0.16.0/sjstats/R/predictive_accuracy.R | 270 +-- sjstats-0.16.0/sjstats/R/pseudo_r2.R | 697 +++++--- sjstats-0.16.0/sjstats/R/rmse.R | 272 +++ sjstats-0.16.0/sjstats/R/robust.R | 6 sjstats-0.16.0/sjstats/R/rope.R | 14 sjstats-0.16.0/sjstats/R/se.R | 278 +-- sjstats-0.16.0/sjstats/R/std_b.R | 105 - sjstats-0.16.0/sjstats/R/tidy_stan.R | 90 - sjstats-0.16.0/sjstats/README.md | 16 sjstats-0.16.0/sjstats/build/partial.rdb |binary sjstats-0.16.0/sjstats/build/vignette.rds |binary sjstats-0.16.0/sjstats/inst/CITATION | 8 sjstats-0.16.0/sjstats/inst/doc/anova-statistics.R | 6 sjstats-0.16.0/sjstats/inst/doc/anova-statistics.Rmd | 7 sjstats-0.16.0/sjstats/inst/doc/anova-statistics.html | 425 +---- sjstats-0.16.0/sjstats/inst/doc/bayesian-statistics.R | 16 sjstats-0.16.0/sjstats/inst/doc/bayesian-statistics.Rmd | 24 sjstats-0.16.0/sjstats/inst/doc/bayesian-statistics.html | 1019 +++++------- sjstats-0.16.0/sjstats/inst/doc/mixedmodels-statistics.R | 11 sjstats-0.16.0/sjstats/inst/doc/mixedmodels-statistics.Rmd | 24 sjstats-0.16.0/sjstats/inst/doc/mixedmodels-statistics.html | 515 +----- sjstats-0.16.0/sjstats/man/auto_prior.Rd |only sjstats-0.16.0/sjstats/man/check_assumptions.Rd | 5 sjstats-0.16.0/sjstats/man/cod.Rd | 145 + sjstats-0.16.0/sjstats/man/eta_sq.Rd | 14 sjstats-0.16.0/sjstats/man/hdi.Rd | 96 - sjstats-0.16.0/sjstats/man/icc.Rd | 127 - sjstats-0.16.0/sjstats/man/p_value.Rd | 16 sjstats-0.16.0/sjstats/man/pred_vars.Rd | 9 sjstats-0.16.0/sjstats/man/reliab_test.Rd | 62 sjstats-0.16.0/sjstats/man/rmse.Rd | 190 ++ sjstats-0.16.0/sjstats/man/se.Rd | 65 sjstats-0.16.0/sjstats/man/sjstats-package.Rd | 16 sjstats-0.16.0/sjstats/man/std_beta.Rd | 21 sjstats-0.16.0/sjstats/man/tidy_stan.Rd | 3 sjstats-0.16.0/sjstats/vignettes/anova-statistics.Rmd | 7 sjstats-0.16.0/sjstats/vignettes/bayesian-statistics.Rmd | 24 sjstats-0.16.0/sjstats/vignettes/mixedmodels-statistics.Rmd | 24 65 files changed, 4533 insertions(+), 3002 deletions(-)
Title: Supplementary Item Response Theory Models
Description: Supplementary functions for item response models aiming
to complement existing R packages. The functionality includes among others
multidimensional compensatory and noncompensatory IRT models
(Reckase, 2009, <doi:10.1007/978-0-387-89976-3>),
MCMC for hierarchical IRT models and testlet models
(Fox, 2010, <doi:10.1007/978-1-4419-0742-4>),
NOHARM (Fraser & McDonald, 1982, <doi:10.1207/s15327906mbr2302_9>),
Rasch copula model (Braeken, 2011, <doi:10.1007/s11336-010-9190-4>;
Schroeders, Robitzsch & Schipolowski, 2014, <doi:10.1111/jedm.12054>),
faceted and hierarchical rater models (DeCarlo, Kim & Johnson, 2011,
<doi:10.1111/j.1745-3984.2011.00143.x>),
ordinal IRT model (ISOP; Scheiblechner, 1995, <doi:10.1007/BF02301417>),
DETECT statistic (Stout et al., 1996, <doi:10.1177/014662169602000403>),
local structural equation modeling (LSEM; Hildebrandt et al., 2016,
<doi:10.1080/00273171.2016.1142856>).
Author: Alexander Robitzsch [aut,cre] (<https://orcid.org/0000-0002-8226-3132>)
Maintainer: Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>
Diff between sirt versions 2.6-9 dated 2018-03-22 and 2.7-50 dated 2018-07-10
sirt-2.6-9/sirt/R/rm_hrm_calcprobs.R |only sirt-2.6-9/sirt/R/rm_hrm_est_a_item.R |only sirt-2.6-9/sirt/R/rm_hrm_est_c_rater.R |only sirt-2.6-9/sirt/R/rm_hrm_est_c_rater_order_parameters.R |only sirt-2.6-9/sirt/R/rm_hrm_est_d_rater.R |only sirt-2.6-9/sirt/R/rm_hrm_est_tau_item.R |only sirt-2.6-9/sirt/R/rm_sdt_arraymult1.R |only sirt-2.6-9/sirt/R/rm_sdt_calc_loglikelihood.R |only sirt-2.6-9/sirt/R/rm_sdt_pem_acceleration.R |only sirt-2.6-9/sirt/R/rm_sdt_probraterfct1.R |only sirt-2.6-9/sirt/src/rm_proc_data_rcpp.cpp |only sirt-2.6-9/sirt/src/xxirt_functions_rcpp.cpp |only sirt-2.7-50/sirt/DESCRIPTION | 13 sirt-2.7-50/sirt/MD5 | 1231 +++--- sirt-2.7-50/sirt/NAMESPACE | 3 sirt-2.7-50/sirt/R/IRT.expectedCounts_sirt.R | 10 sirt-2.7-50/sirt/R/IRT.factor.scores.sirt.R | 62 sirt-2.7-50/sirt/R/IRT.factor.scores.xxirt.R | 18 sirt-2.7-50/sirt/R/IRT.irfprob.sirt.R | 56 sirt-2.7-50/sirt/R/IRT.likelihood_sirt.R | 42 sirt-2.7-50/sirt/R/IRT.mle.R | 208 - sirt-2.7-50/sirt/R/IRT.modelfit.sirt.R | 100 sirt-2.7-50/sirt/R/IRT.posterior_sirt.R | 48 sirt-2.7-50/sirt/R/Probtrace_sirt.R | 6 sirt-2.7-50/sirt/R/Q3.R | 72 sirt-2.7-50/sirt/R/Q3.testlet.R | 70 sirt-2.7-50/sirt/R/R2conquest.R | 728 +-- sirt-2.7-50/sirt/R/R2noharm-utility.R | 196 sirt-2.7-50/sirt/R/R2noharm.EAP.R | 68 sirt-2.7-50/sirt/R/R2noharm.R | 544 +- sirt-2.7-50/sirt/R/R2noharm.jackknife.R | 502 +- sirt-2.7-50/sirt/R/RcppExports.R | 166 sirt-2.7-50/sirt/R/Rhat_sirt.R | 24 sirt-2.7-50/sirt/R/amh_plot.R | 288 - sirt-2.7-50/sirt/R/anova_sirt.R | 90 sirt-2.7-50/sirt/R/attach.environment.sirt.R | 16 sirt-2.7-50/sirt/R/automatic.recode.R | 155 sirt-2.7-50/sirt/R/bounds_parameters.R | 18 sirt-2.7-50/sirt/R/brm.irf.R | 38 sirt-2.7-50/sirt/R/brm.sim.R | 40 sirt-2.7-50/sirt/R/btm.R | 514 +- sirt-2.7-50/sirt/R/btm_fit.R | 67 sirt-2.7-50/sirt/R/btm_fit_combine_tables.R | 16 sirt-2.7-50/sirt/R/btm_trim_increment.R |only sirt-2.7-50/sirt/R/categorize.R | 122 sirt-2.7-50/sirt/R/ccov.np.R | 110 sirt-2.7-50/sirt/R/class.accuracy.rasch.R | 122 sirt-2.7-50/sirt/R/conf.detect.R | 94 sirt-2.7-50/sirt/R/confint.xxirt.R | 40 sirt-2.7-50/sirt/R/create.ccov.R | 18 sirt-2.7-50/sirt/R/data.prep.R | 90 sirt-2.7-50/sirt/R/data.wide2long.R | 52 sirt-2.7-50/sirt/R/decategorize.R | 40 sirt-2.7-50/sirt/R/detect.index.R | 92 sirt-2.7-50/sirt/R/diag2.R | 12 sirt-2.7-50/sirt/R/dif.logisticregression.R | 140 sirt-2.7-50/sirt/R/dif.variance.R | 40 sirt-2.7-50/sirt/R/dimproper.R | 6 sirt-2.7-50/sirt/R/dirichlet.R | 54 sirt-2.7-50/sirt/R/eigenvalues.manymatrices.R | 64 sirt-2.7-50/sirt/R/eigenvalues.sirt.R | 8 sirt-2.7-50/sirt/R/equating.rasch.R | 148 sirt-2.7-50/sirt/R/expl.detect.R | 106 sirt-2.7-50/sirt/R/f1d.irt.R | 258 - sirt-2.7-50/sirt/R/fit.adisop.R | 232 - sirt-2.7-50/sirt/R/fit.gradedresponse.R | 102 sirt-2.7-50/sirt/R/fit.gradedresponse_alg.R | 182 sirt-2.7-50/sirt/R/fit.isop.R | 120 sirt-2.7-50/sirt/R/fit.logistic.R | 178 sirt-2.7-50/sirt/R/fit.logistic_alg.R | 124 sirt-2.7-50/sirt/R/fuzcluster.R | 70 sirt-2.7-50/sirt/R/fuzcluster_alg.R | 274 - sirt-2.7-50/sirt/R/fuzdiscr.R | 8 sirt-2.7-50/sirt/R/ginverse_sym.R | 8 sirt-2.7-50/sirt/R/gom.em.R | 550 +- sirt-2.7-50/sirt/R/gom.em.alg.R | 366 - sirt-2.7-50/sirt/R/gom.jml.R | 196 sirt-2.7-50/sirt/R/gom.jml_alg.R | 132 sirt-2.7-50/sirt/R/greenyang.reliability.R | 146 sirt-2.7-50/sirt/R/hard_thresholding.R | 6 sirt-2.7-50/sirt/R/invariance.alignment.R | 524 +- sirt-2.7-50/sirt/R/invariance.alignment.aux.R | 62 sirt-2.7-50/sirt/R/invariance.alignment2.R | 414 +- sirt-2.7-50/sirt/R/invariance.alignment2.aux.R | 278 - sirt-2.7-50/sirt/R/invgamma2.R | 28 sirt-2.7-50/sirt/R/isop.dich.R | 206 - sirt-2.7-50/sirt/R/isop.poly.R | 434 +- sirt-2.7-50/sirt/R/isop.scoring.R | 158 sirt-2.7-50/sirt/R/isop.test.R | 74 sirt-2.7-50/sirt/R/isop_tests_cpp.R | 10 sirt-2.7-50/sirt/R/latent.regression.em.normal.R | 146 sirt-2.7-50/sirt/R/latent.regression.em.raschtype.R | 198 sirt-2.7-50/sirt/R/lavaan2mirt.R | 447 +- sirt-2.7-50/sirt/R/lc.2raters.R | 292 - 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sirt-2.7-50/sirt/R/lsem_weighted_mean.R | 20 sirt-2.7-50/sirt/R/lsem_wtdSD.R | 12 sirt-2.7-50/sirt/R/marginal.truescore.reliability.R | 54 sirt-2.7-50/sirt/R/matrix_functions.R | 121 sirt-2.7-50/sirt/R/matrixfunctions_sirt.R | 64 sirt-2.7-50/sirt/R/mcmc.2pno.R | 246 - sirt-2.7-50/sirt/R/mcmc.2pno.ml.R | 540 +- sirt-2.7-50/sirt/R/mcmc.2pno.ml_alg.R | 672 +-- sirt-2.7-50/sirt/R/mcmc.2pno.ml_output.R | 228 - sirt-2.7-50/sirt/R/mcmc.2pno_alg.R | 196 sirt-2.7-50/sirt/R/mcmc.2pnoh.R | 364 - sirt-2.7-50/sirt/R/mcmc.2pnoh_alg.R | 198 sirt-2.7-50/sirt/R/mcmc.3pno.testlet.R | 452 +- sirt-2.7-50/sirt/R/mcmc.3pno.testlet_alg.R | 294 - sirt-2.7-50/sirt/R/mcmc.3pno.testlet_output.R | 302 - sirt-2.7-50/sirt/R/mcmc.aux.R | 8 sirt-2.7-50/sirt/R/mcmc.list.descriptives.R | 68 sirt-2.7-50/sirt/R/mcmc_3pno_testlet_draw_itempars.R | 206 - sirt-2.7-50/sirt/R/mcmc_Rhat.R | 32 sirt-2.7-50/sirt/R/mcmc_WaldTest.R | 78 sirt-2.7-50/sirt/R/mcmc_as_formula.R | 10 sirt-2.7-50/sirt/R/mcmc_coef.R | 16 sirt-2.7-50/sirt/R/mcmc_confint.R | 36 sirt-2.7-50/sirt/R/mcmc_derivedPars.R | 48 sirt-2.7-50/sirt/R/mcmc_extract_samples_first_chain.R | 12 sirt-2.7-50/sirt/R/mcmc_plot.R | 14 sirt-2.7-50/sirt/R/mcmc_rename_define_symbols.R | 10 sirt-2.7-50/sirt/R/mcmc_rename_helper.R | 14 sirt-2.7-50/sirt/R/mcmc_rename_parameter_names.R | 16 sirt-2.7-50/sirt/R/mcmc_rename_undo_parameter_names.R | 14 sirt-2.7-50/sirt/R/mcmc_summary.R | 90 sirt-2.7-50/sirt/R/mcmc_summary_print_information_criteria.R | 22 sirt-2.7-50/sirt/R/mcmc_vcov.R | 16 sirt-2.7-50/sirt/R/mcmclist2coda.R | 16 sirt-2.7-50/sirt/R/md.pattern.sirt.R | 26 sirt-2.7-50/sirt/R/mirt.IRT.functions.R | 40 sirt-2.7-50/sirt/R/mirt.model.vars.R | 146 sirt-2.7-50/sirt/R/mirt.specify.partable.R | 40 sirt-2.7-50/sirt/R/mirt.wrapper.calc.counts.R | 43 sirt-2.7-50/sirt/R/mirt.wrapper.coef.R | 32 sirt-2.7-50/sirt/R/mirt.wrapper.fscores.R | 36 sirt-2.7-50/sirt/R/mirt.wrapper.itemplot.R | 8 sirt-2.7-50/sirt/R/mirt.wrapper.posterior.R | 124 sirt-2.7-50/sirt/R/mirt_prodterms.R | 10 sirt-2.7-50/sirt/R/mle.pcm.group.R | 186 sirt-2.7-50/sirt/R/mle.reliability.R | 30 sirt-2.7-50/sirt/R/modelfit.cor.R | 182 sirt-2.7-50/sirt/R/modelfit.cor.poly.R | 6 sirt-2.7-50/sirt/R/modelfit.sirt.R | 202 - sirt-2.7-50/sirt/R/monoreg.rowwise.R | 20 sirt-2.7-50/sirt/R/nedelsky.irf.R | 28 sirt-2.7-50/sirt/R/nedelsky.latresp.R | 14 sirt-2.7-50/sirt/R/nedelsky.sim.R | 18 sirt-2.7-50/sirt/R/noharm.sirt.R | 442 +- sirt-2.7-50/sirt/R/noharm.sirt.est.aux.R | 424 +- sirt-2.7-50/sirt/R/noharm.sirt.preprocess.R | 204 - sirt-2.7-50/sirt/R/normal2.cw.R | 78 sirt-2.7-50/sirt/R/np.dich.R | 132 sirt-2.7-50/sirt/R/nr.numdiff.R | 14 sirt-2.7-50/sirt/R/package_version_date.R | 8 sirt-2.7-50/sirt/R/parmsummary_extend.R | 42 sirt-2.7-50/sirt/R/pbivnorm2.R | 82 sirt-2.7-50/sirt/R/pcm.conversion.R | 20 sirt-2.7-50/sirt/R/pcm.fit.R | 146 sirt-2.7-50/sirt/R/personfit.R | 210 - sirt-2.7-50/sirt/R/personfit.stat.R | 22 sirt-2.7-50/sirt/R/pgenlogis.R | 24 sirt-2.7-50/sirt/R/plausible.values.raschtype.R | 224 - sirt-2.7-50/sirt/R/plot.invariance.alignment.R | 20 sirt-2.7-50/sirt/R/plot.isop.R | 254 - sirt-2.7-50/sirt/R/plot.lsem.R | 249 - sirt-2.7-50/sirt/R/plot.lsem.permutationTest.R | 176 sirt-2.7-50/sirt/R/plot.mcmc.sirt.R | 222 - sirt-2.7-50/sirt/R/plot.rasch.mml.R | 28 sirt-2.7-50/sirt/R/plot.rm.sdt.R | 64 sirt-2.7-50/sirt/R/polychoric2.R | 66 sirt-2.7-50/sirt/R/pow.R | 6 sirt-2.7-50/sirt/R/print.xxirt.R | 54 sirt-2.7-50/sirt/R/prior_extract_density.R | 60 sirt-2.7-50/sirt/R/prior_model_pars_CleanString.R | 38 sirt-2.7-50/sirt/R/prior_model_parse.R | 80 sirt-2.7-50/sirt/R/prmse.subscores.R | 66 sirt-2.7-50/sirt/R/prob.guttman.R | 362 - sirt-2.7-50/sirt/R/prob_genlogis_4pl.R | 16 sirt-2.7-50/sirt/R/qmc.nodes.R | 6 sirt-2.7-50/sirt/R/rasch.conquest.R | 2 sirt-2.7-50/sirt/R/rasch.copula.R | 1474 +++---- sirt-2.7-50/sirt/R/rasch.copula2.R | 1470 +++---- sirt-2.7-50/sirt/R/rasch.copula2_aux.R | 1440 +++---- sirt-2.7-50/sirt/R/rasch.copula3.R | 1598 +++---- sirt-2.7-50/sirt/R/rasch.copula3.covariance.R | 106 sirt-2.7-50/sirt/R/rasch.copula3_aux.R | 904 ++-- sirt-2.7-50/sirt/R/rasch.evm.pcm.R | 412 +- sirt-2.7-50/sirt/R/rasch.evm.pcm.methods.R | 18 sirt-2.7-50/sirt/R/rasch.evm.pcm_aux.R | 40 sirt-2.7-50/sirt/R/rasch.jml.R | 602 +-- sirt-2.7-50/sirt/R/rasch.jml.biascorr.R | 96 sirt-2.7-50/sirt/R/rasch.mirtlc.R | 860 ++-- sirt-2.7-50/sirt/R/rasch.mirtlc_aux.R | 648 +-- sirt-2.7-50/sirt/R/rasch.mml.R | 988 ++-- sirt-2.7-50/sirt/R/rasch.mml.npirt.R | 100 sirt-2.7-50/sirt/R/rasch.mml.ramsay.R | 300 - sirt-2.7-50/sirt/R/rasch.mml.raschtype.R | 948 ++-- sirt-2.7-50/sirt/R/rasch.mml2.R | 2002 +++++----- sirt-2.7-50/sirt/R/rasch.mml2.missing1.R | 294 - sirt-2.7-50/sirt/R/rasch.pairwise.R | 76 sirt-2.7-50/sirt/R/rasch.pairwise.itemcluster.R | 104 sirt-2.7-50/sirt/R/rasch.pml.R | 678 +-- sirt-2.7-50/sirt/R/rasch.pml2.R | 2 sirt-2.7-50/sirt/R/rasch.pml2_aux.R | 398 - sirt-2.7-50/sirt/R/rasch.pml3.R | 796 +-- sirt-2.7-50/sirt/R/rasch.pml3_aux.R | 414 +- sirt-2.7-50/sirt/R/rasch.pml_aux.R | 328 - sirt-2.7-50/sirt/R/rasch.prox.R | 50 sirt-2.7-50/sirt/R/rasch.va.R | 108 sirt-2.7-50/sirt/R/rasch_mml2_calc_prob.R | 12 sirt-2.7-50/sirt/R/rasch_mml2_difference_quotient.R | 12 sirt-2.7-50/sirt/R/rasch_mml2_modify_list_element.R | 4 sirt-2.7-50/sirt/R/rasch_mml2_mstep_calc_likelihood.R | 10 sirt-2.7-50/sirt/R/read.fwf2.R | 20 sirt-2.7-50/sirt/R/reliability.nonlinear.sem.R | 76 sirt-2.7-50/sirt/R/rm.facets.R | 654 +-- sirt-2.7-50/sirt/R/rm.facets_PP.R | 160 sirt-2.7-50/sirt/R/rm.facets_alg.R | 72 sirt-2.7-50/sirt/R/rm.sdt.R | 863 ++-- sirt-2.7-50/sirt/R/rm_calclike.R | 10 sirt-2.7-50/sirt/R/rm_center_vector.R | 40 sirt-2.7-50/sirt/R/rm_determine_fixed_tau_parameters.R | 32 sirt-2.7-50/sirt/R/rm_eap_reliability.R | 8 sirt-2.7-50/sirt/R/rm_facets_calc_loglikelihood.R | 50 sirt-2.7-50/sirt/R/rm_facets_calcprobs.R | 20 sirt-2.7-50/sirt/R/rm_facets_center_value.R | 8 sirt-2.7-50/sirt/R/rm_facets_center_value_aggregate.R | 20 sirt-2.7-50/sirt/R/rm_facets_est_a_item.R | 96 sirt-2.7-50/sirt/R/rm_facets_est_a_rater.R | 88 sirt-2.7-50/sirt/R/rm_facets_est_b_rater.R | 92 sirt-2.7-50/sirt/R/rm_facets_est_tau_item.R | 118 sirt-2.7-50/sirt/R/rm_facets_ic.R | 92 sirt-2.7-50/sirt/R/rm_facets_itempar_expanded.R | 22 sirt-2.7-50/sirt/R/rm_facets_pem_acceleration.R | 150 sirt-2.7-50/sirt/R/rm_facets_pem_inits.R | 32 sirt-2.7-50/sirt/R/rm_facets_postproc_person.R | 24 sirt-2.7-50/sirt/R/rm_facets_postproc_rater_parameters.R | 40 sirt-2.7-50/sirt/R/rm_facets_print_progress.R | 30 sirt-2.7-50/sirt/R/rm_facets_print_progress_deviance.R | 8 sirt-2.7-50/sirt/R/rm_facets_print_progress_parameter.R | 6 sirt-2.7-50/sirt/R/rm_facets_print_progress_trait_distribution.R | 6 sirt-2.7-50/sirt/R/rm_facets_string_part_extract.R | 10 sirt-2.7-50/sirt/R/rm_grouped_expected_likelihood.R | 10 sirt-2.7-50/sirt/R/rm_ic_criteria.R | 24 sirt-2.7-50/sirt/R/rm_numdiff_discrete_differences.R | 20 sirt-2.7-50/sirt/R/rm_numdiff_index.R | 80 sirt-2.7-50/sirt/R/rm_numdiff_trim_increment.R | 10 sirt-2.7-50/sirt/R/rm_posterior.R | 55 sirt-2.7-50/sirt/R/rm_proc_create_pseudoraters.R | 56 sirt-2.7-50/sirt/R/rm_proc_data.R | 135 sirt-2.7-50/sirt/R/rm_proc_fixed_values_reference_rater.R | 100 sirt-2.7-50/sirt/R/rm_sdt_calc_expected_likelihood_item.R |only sirt-2.7-50/sirt/R/rm_sdt_calc_gradient_likelihood_item.R |only sirt-2.7-50/sirt/R/rm_sdt_calc_gradient_likelihood_item_llgrad.R |only sirt-2.7-50/sirt/R/rm_sdt_calc_gradient_likelihood_item_llgrad2.R |only sirt-2.7-50/sirt/R/rm_sdt_calc_probs_gpcm.R |only sirt-2.7-50/sirt/R/rm_sdt_calc_probs_gpcm_rcpp.R |only sirt-2.7-50/sirt/R/rm_sdt_calc_probs_grm_item_rcpp.R |only sirt-2.7-50/sirt/R/rm_sdt_calc_probs_grm_rcpp.R |only sirt-2.7-50/sirt/R/rm_sdt_create_parm_index_modify_elements.R |only sirt-2.7-50/sirt/R/rm_sdt_create_parm_index_rater.R |only sirt-2.7-50/sirt/R/rm_sdt_create_partable.R |only sirt-2.7-50/sirt/R/rm_sdt_create_partable_define_pargroups.R |only sirt-2.7-50/sirt/R/rm_sdt_create_partable_include_fixed_item_category_parameters.R |only sirt-2.7-50/sirt/R/rm_sdt_create_partable_include_index.R |only sirt-2.7-50/sirt/R/rm_sdt_create_partable_include_priors.R |only sirt-2.7-50/sirt/R/rm_sdt_create_partable_pargroup_indices.R |only sirt-2.7-50/sirt/R/rm_sdt_evaluate_prior.R |only sirt-2.7-50/sirt/R/rm_sdt_evaluate_prior_derivative.R |only sirt-2.7-50/sirt/R/rm_sdt_extract_par_from_partable.R |only sirt-2.7-50/sirt/R/rm_sdt_extract_par_from_partable_add_increment.R |only sirt-2.7-50/sirt/R/rm_sdt_fill_init_partable.R |only sirt-2.7-50/sirt/R/rm_sdt_fill_init_partables.R |only sirt-2.7-50/sirt/R/rm_sdt_fill_par_to_partable.R |only sirt-2.7-50/sirt/R/rm_sdt_mstep_include_probs_args.R |only sirt-2.7-50/sirt/R/rm_sdt_mstep_item_function_gradient.R |only sirt-2.7-50/sirt/R/rm_sdt_mstep_item_function_value.R |only sirt-2.7-50/sirt/R/rm_sdt_mstep_numdiff_diffindex.R |only sirt-2.7-50/sirt/R/rm_sdt_mstep_rater_function_gradient.R |only sirt-2.7-50/sirt/R/rm_sdt_mstep_rater_function_value.R |only sirt-2.7-50/sirt/R/rm_sdt_mstep_type_function_gradient.R |only sirt-2.7-50/sirt/R/rm_sdt_mstep_type_function_value.R |only sirt-2.7-50/sirt/R/rm_sdt_pem_inits.R | 26 sirt-2.7-50/sirt/R/rm_sdt_postproc_ic.R |only sirt-2.7-50/sirt/R/rm_sdt_prepare_diffindex.R | 40 sirt-2.7-50/sirt/R/rm_sdt_print_progress.R | 28 sirt-2.7-50/sirt/R/rm_smooth_distribution.R | 30 sirt-2.7-50/sirt/R/rm_squeeze.R | 6 sirt-2.7-50/sirt/R/rm_summary_information_criteria.R | 24 sirt-2.7-50/sirt/R/rm_summary_information_criteria_print_one_criterium.R | 22 sirt-2.7-50/sirt/R/rm_summary_trait_distribution.R | 12 sirt-2.7-50/sirt/R/rm_trim_increments_mstep.R | 12 sirt-2.7-50/sirt/R/sia.sirt.R | 370 - sirt-2.7-50/sirt/R/sim.rasch.dep.R | 28 sirt-2.7-50/sirt/R/sim.raschtype.R | 30 sirt-2.7-50/sirt/R/sirt_antifisherz.R | 2 sirt-2.7-50/sirt/R/sirt_attach_list_elements.R | 10 sirt-2.7-50/sirt/R/sirt_colMaxs.R | 4 sirt-2.7-50/sirt/R/sirt_csink.R | 4 sirt-2.7-50/sirt/R/sirt_dnorm_discrete.R | 6 sirt-2.7-50/sirt/R/sirt_fisherz.R | 4 sirt-2.7-50/sirt/R/sirt_matrix2.R | 8 sirt-2.7-50/sirt/R/sirt_optimizer.R |only sirt-2.7-50/sirt/R/sirt_osink.R | 4 sirt-2.7-50/sirt/R/sirt_pem_adjust_dimension.R | 16 sirt-2.7-50/sirt/R/sirt_pem_algorithm_compute_Pnew.R | 4 sirt-2.7-50/sirt/R/sirt_pem_algorithm_compute_t.R | 2 sirt-2.7-50/sirt/R/sirt_pem_collect_parameters.R | 22 sirt-2.7-50/sirt/R/sirt_pem_create_parameter_index.R | 46 sirt-2.7-50/sirt/R/sirt_pem_extract_dimension.R | 16 sirt-2.7-50/sirt/R/sirt_pem_extract_parameters.R | 10 sirt-2.7-50/sirt/R/sirt_pem_include_ll_args.R | 10 sirt-2.7-50/sirt/R/sirt_pem_parameter_sequence_initial_iterations.R | 18 sirt-2.7-50/sirt/R/sirt_rbind_fill.R | 22 sirt-2.7-50/sirt/R/sirt_rmvnorm.R | 12 sirt-2.7-50/sirt/R/sirt_round_vector.R | 12 sirt-2.7-50/sirt/R/sirt_summary_print_call.R | 7 sirt-2.7-50/sirt/R/sirt_summary_print_computation_time.R | 14 sirt-2.7-50/sirt/R/sirt_summary_print_computation_time_s1.R | 6 sirt-2.7-50/sirt/R/sirt_summary_print_objects.R | 62 sirt-2.7-50/sirt/R/sirt_summary_print_package.R | 4 sirt-2.7-50/sirt/R/sirt_summary_print_package_rsession.R | 10 sirt-2.7-50/sirt/R/sirt_summary_print_packages.R | 6 sirt-2.7-50/sirt/R/sirt_summary_print_rsession.R | 4 sirt-2.7-50/sirt/R/sirt_vector_with_names.R | 8 sirt-2.7-50/sirt/R/sirtcat.R | 28 sirt-2.7-50/sirt/R/smirt.R | 802 ++-- sirt-2.7-50/sirt/R/smirt_alg_comp.R | 360 - sirt-2.7-50/sirt/R/smirt_alg_noncomp.R | 474 +- sirt-2.7-50/sirt/R/smirt_alg_partcomp.R | 492 +- sirt-2.7-50/sirt/R/smirt_postproc.R | 64 sirt-2.7-50/sirt/R/smirt_preproc.R | 324 - sirt-2.7-50/sirt/R/smirt_squeeze.R | 50 sirt-2.7-50/sirt/R/soft_thresholding.R | 6 sirt-2.7-50/sirt/R/stratified.cronbach.alpha.R | 40 sirt-2.7-50/sirt/R/sum0.R | 2 sirt-2.7-50/sirt/R/summary.R2noharm.R | 174 sirt-2.7-50/sirt/R/summary.R2noharm.jackknife.R | 34 sirt-2.7-50/sirt/R/summary.btm.R | 116 sirt-2.7-50/sirt/R/summary.conf.detect.R | 44 sirt-2.7-50/sirt/R/summary.fuzcluster.R | 68 sirt-2.7-50/sirt/R/summary.gom.em.R | 124 sirt-2.7-50/sirt/R/summary.invariance.alignment.R | 82 sirt-2.7-50/sirt/R/summary.isop.R | 60 sirt-2.7-50/sirt/R/summary.isop.test.R | 20 sirt-2.7-50/sirt/R/summary.latent.regression.R | 12 sirt-2.7-50/sirt/R/summary.linking.haberman.R | 128 sirt-2.7-50/sirt/R/summary.lsdm.R | 46 sirt-2.7-50/sirt/R/summary.lsem.R | 104 sirt-2.7-50/sirt/R/summary.lsem.permutationTest.R | 104 sirt-2.7-50/sirt/R/summary.mcmc.sirt.R | 84 sirt-2.7-50/sirt/R/summary.modelfit.sirt.R | 20 sirt-2.7-50/sirt/R/summary.noharm.sirt.R | 248 - sirt-2.7-50/sirt/R/summary.rasch.copula.R | 198 sirt-2.7-50/sirt/R/summary.rasch.evm.pcm.R | 68 sirt-2.7-50/sirt/R/summary.rasch.mirtlc.R | 158 sirt-2.7-50/sirt/R/summary.rasch.mml2.R | 218 - sirt-2.7-50/sirt/R/summary.rasch.pml.R | 88 sirt-2.7-50/sirt/R/summary.rm.facets.R | 90 sirt-2.7-50/sirt/R/summary.rm.sdt.R | 121 sirt-2.7-50/sirt/R/summary.smirt.R | 118 sirt-2.7-50/sirt/R/summary.xxirt.R | 75 sirt-2.7-50/sirt/R/summary_round_helper.R | 24 sirt-2.7-50/sirt/R/tam2mirt.R | 85 sirt-2.7-50/sirt/R/tam2mirt_fix.R | 107 sirt-2.7-50/sirt/R/tam2mirt_freed.R | 129 sirt-2.7-50/sirt/R/testlet.marginalized.R | 54 sirt-2.7-50/sirt/R/testlet.yen.q3.R | 2 sirt-2.7-50/sirt/R/tetrachoric2.R | 234 - sirt-2.7-50/sirt/R/tracemat.R | 10 sirt-2.7-50/sirt/R/truescore.irt.R | 124 sirt-2.7-50/sirt/R/unidim.csn.R | 82 sirt-2.7-50/sirt/R/weighted_colMeans.R | 14 sirt-2.7-50/sirt/R/weighted_colSums.R | 10 sirt-2.7-50/sirt/R/weighted_rowMeans.R | 14 sirt-2.7-50/sirt/R/weighted_rowSums.R | 10 sirt-2.7-50/sirt/R/weighted_stats_extend_wgt.R | 22 sirt-2.7-50/sirt/R/wle.rasch.R | 102 sirt-2.7-50/sirt/R/wle.rasch.jackknife.R | 164 sirt-2.7-50/sirt/R/write.format2.R | 24 sirt-2.7-50/sirt/R/write.fwf2.R | 54 sirt-2.7-50/sirt/R/xxirt.R | 399 - sirt-2.7-50/sirt/R/xxirt_EAP.R | 24 sirt-2.7-50/sirt/R/xxirt_IRT.se.R | 26 sirt-2.7-50/sirt/R/xxirt_ThetaDistribution_extract_freeParameters.R | 16 sirt-2.7-50/sirt/R/xxirt_coef.R | 12 sirt-2.7-50/sirt/R/xxirt_compute_itemprobs.R | 44 sirt-2.7-50/sirt/R/xxirt_compute_likelihood.R | 28 sirt-2.7-50/sirt/R/xxirt_compute_posterior.R | 64 sirt-2.7-50/sirt/R/xxirt_compute_priorDistribution.R | 14 sirt-2.7-50/sirt/R/xxirt_createDiscItem.R | 17 sirt-2.7-50/sirt/R/xxirt_createItemList.R | 48 sirt-2.7-50/sirt/R/xxirt_createParTable.R | 112 sirt-2.7-50/sirt/R/xxirt_createThetaDistribution.R | 14 sirt-2.7-50/sirt/R/xxirt_data_proc.R | 81 sirt-2.7-50/sirt/R/xxirt_hessian.R | 120 sirt-2.7-50/sirt/R/xxirt_ic.R | 32 sirt-2.7-50/sirt/R/xxirt_modifyParTable.R | 61 sirt-2.7-50/sirt/R/xxirt_mstep_ThetaParameters.R | 91 sirt-2.7-50/sirt/R/xxirt_mstep_itemParameters.R | 148 sirt-2.7-50/sirt/R/xxirt_mstep_itemParameters_evalPrior.R | 50 sirt-2.7-50/sirt/R/xxirt_parTheta_extract_freeParameters.R | 12 sirt-2.7-50/sirt/R/xxirt_partable_extract_freeParameters.R | 14 sirt-2.7-50/sirt/R/xxirt_partable_include_freeParameters.R | 16 sirt-2.7-50/sirt/R/xxirt_postproc_parameters.R | 82 sirt-2.7-50/sirt/R/xxirt_prepare_response_data.R | 32 sirt-2.7-50/sirt/R/xxirt_proc_ParTable.R | 136 sirt-2.7-50/sirt/R/xxirt_vcov.R | 8 sirt-2.7-50/sirt/R/yen.q3.R | 2 sirt-2.7-50/sirt/R/zzz.R | 35 sirt-2.7-50/sirt/README.md | 5 sirt-2.7-50/sirt/data/data.activity.itempars.rda |binary sirt-2.7-50/sirt/data/data.befki.rda |binary sirt-2.7-50/sirt/data/data.befki_resp.rda |binary sirt-2.7-50/sirt/data/data.big5.qgraph.rda |binary sirt-2.7-50/sirt/data/data.big5.rda |binary sirt-2.7-50/sirt/data/data.bs07a.rda |binary sirt-2.7-50/sirt/data/data.eid.kap4.rda |binary sirt-2.7-50/sirt/data/data.eid.kap5.rda |binary sirt-2.7-50/sirt/data/data.eid.kap6.rda |binary sirt-2.7-50/sirt/data/data.eid.kap7.rda |binary sirt-2.7-50/sirt/data/data.eid.rda |binary sirt-2.7-50/sirt/data/data.ess2005.rda |binary sirt-2.7-50/sirt/data/data.g308.rda |binary sirt-2.7-50/sirt/data/data.inv4gr.rda |binary sirt-2.7-50/sirt/data/data.liking.science.rda |binary sirt-2.7-50/sirt/data/data.long.rda |binary sirt-2.7-50/sirt/data/data.lsem01.rda |binary sirt-2.7-50/sirt/data/data.math.rda |binary sirt-2.7-50/sirt/data/data.mcdonald.LSAT6.rda |binary sirt-2.7-50/sirt/data/data.mcdonald.act15.rda |binary sirt-2.7-50/sirt/data/data.mcdonald.rape.rda |binary sirt-2.7-50/sirt/data/data.mixed1.rda |binary sirt-2.7-50/sirt/data/data.ml1.rda |binary sirt-2.7-50/sirt/data/data.ml2.rda |binary sirt-2.7-50/sirt/data/data.noharm18.rda |binary sirt-2.7-50/sirt/data/data.noharmExC.rda |binary sirt-2.7-50/sirt/data/data.pars1.2pl.rda |binary sirt-2.7-50/sirt/data/data.pars1.rasch.rda |binary sirt-2.7-50/sirt/data/data.pirlsmissing.rda |binary sirt-2.7-50/sirt/data/data.pisaMath.rda |binary sirt-2.7-50/sirt/data/data.pisaPars.rda |binary sirt-2.7-50/sirt/data/data.pisaRead.rda |binary sirt-2.7-50/sirt/data/data.pw01.rda |binary sirt-2.7-50/sirt/data/data.ratings1.rda |binary sirt-2.7-50/sirt/data/data.ratings2.rda |binary sirt-2.7-50/sirt/data/data.ratings3.rda |binary sirt-2.7-50/sirt/data/data.raw1.rda |binary sirt-2.7-50/sirt/data/data.read.rda |binary sirt-2.7-50/sirt/data/data.reck21.rda |binary sirt-2.7-50/sirt/data/data.reck61DAT1.rda |binary sirt-2.7-50/sirt/data/data.reck61DAT2.rda |binary sirt-2.7-50/sirt/data/data.reck73C1a.rda |binary sirt-2.7-50/sirt/data/data.reck73C1b.rda |binary sirt-2.7-50/sirt/data/data.reck75C2.rda |binary sirt-2.7-50/sirt/data/data.reck78ExA.rda |binary sirt-2.7-50/sirt/data/data.reck79ExB.rda |binary sirt-2.7-50/sirt/data/data.si01.rda |binary sirt-2.7-50/sirt/data/data.si02.rda |binary sirt-2.7-50/sirt/data/data.si03.rda |binary sirt-2.7-50/sirt/data/data.si04.rda |binary sirt-2.7-50/sirt/data/data.si05.rda |binary sirt-2.7-50/sirt/data/data.si06.rda |binary sirt-2.7-50/sirt/data/data.timss.rda |binary sirt-2.7-50/sirt/data/data.timss07.G8.RUS.rda |binary sirt-2.7-50/sirt/inst/NEWS | 22 sirt-2.7-50/sirt/man/IRT.mle.Rd | 68 sirt-2.7-50/sirt/man/Q3.Rd | 56 sirt-2.7-50/sirt/man/Q3.testlet.Rd | 20 sirt-2.7-50/sirt/man/R2conquest.Rd | 98 sirt-2.7-50/sirt/man/R2noharm.EAP.Rd | 8 sirt-2.7-50/sirt/man/R2noharm.Rd | 254 - sirt-2.7-50/sirt/man/R2noharm.jackknife.Rd | 18 sirt-2.7-50/sirt/man/automatic.recode.Rd | 16 sirt-2.7-50/sirt/man/brm.sim.Rd | 174 sirt-2.7-50/sirt/man/btm.Rd | 60 sirt-2.7-50/sirt/man/categorize.Rd | 40 sirt-2.7-50/sirt/man/ccov.np.Rd | 16 sirt-2.7-50/sirt/man/class.accuracy.rasch.Rd | 32 sirt-2.7-50/sirt/man/conf.detect.Rd | 110 sirt-2.7-50/sirt/man/data.befki.Rd | 10 sirt-2.7-50/sirt/man/data.big5.Rd | 122 sirt-2.7-50/sirt/man/data.bs.Rd | 44 sirt-2.7-50/sirt/man/data.eid.Rd | 46 sirt-2.7-50/sirt/man/data.ess2005.Rd | 4 sirt-2.7-50/sirt/man/data.g308.Rd | 30 sirt-2.7-50/sirt/man/data.inv4gr.Rd | 4 sirt-2.7-50/sirt/man/data.liking.science.Rd | 4 sirt-2.7-50/sirt/man/data.long.Rd | 106 sirt-2.7-50/sirt/man/data.lsem.Rd | 10 sirt-2.7-50/sirt/man/data.math.Rd | 8 sirt-2.7-50/sirt/man/data.mcdonald.Rd | 92 sirt-2.7-50/sirt/man/data.mixed1.Rd | 18 sirt-2.7-50/sirt/man/data.ml.Rd | 14 sirt-2.7-50/sirt/man/data.noharm.Rd | 16 sirt-2.7-50/sirt/man/data.pirlsmissing.Rd | 30 sirt-2.7-50/sirt/man/data.pisaMath.Rd | 8 sirt-2.7-50/sirt/man/data.pisaPars.Rd | 12 sirt-2.7-50/sirt/man/data.pisaRead.Rd | 10 sirt-2.7-50/sirt/man/data.ratings1.Rd | 14 sirt-2.7-50/sirt/man/data.read.Rd | 594 +- sirt-2.7-50/sirt/man/data.reck.Rd | 108 sirt-2.7-50/sirt/man/data.si.Rd | 38 sirt-2.7-50/sirt/man/data.timss.Rd | 6 sirt-2.7-50/sirt/man/data.timss07.G8.RUS.Rd | 18 sirt-2.7-50/sirt/man/data.wide2long.Rd | 44 sirt-2.7-50/sirt/man/detect.index.Rd | 20 sirt-2.7-50/sirt/man/dif.logistic.regression.Rd | 118 sirt-2.7-50/sirt/man/dif.variance.Rd | 4 sirt-2.7-50/sirt/man/dirichlet.mle.Rd | 44 sirt-2.7-50/sirt/man/dirichlet.simul.Rd | 38 sirt-2.7-50/sirt/man/eigenvalues.manymatrices.Rd | 10 sirt-2.7-50/sirt/man/eigenvalues.sirt.Rd | 18 sirt-2.7-50/sirt/man/equating.rasch.Rd | 32 sirt-2.7-50/sirt/man/equating.rasch.jackknife.Rd | 18 sirt-2.7-50/sirt/man/expl.detect.Rd | 28 sirt-2.7-50/sirt/man/f1d.irt.Rd | 88 sirt-2.7-50/sirt/man/fit.isop.Rd | 30 sirt-2.7-50/sirt/man/fuzcluster.Rd | 60 sirt-2.7-50/sirt/man/fuzdiscr.Rd | 62 sirt-2.7-50/sirt/man/gom.em.Rd | 206 - sirt-2.7-50/sirt/man/gom.jml.Rd | 24 sirt-2.7-50/sirt/man/greenyang.reliability.Rd | 60 sirt-2.7-50/sirt/man/invariance.alignment.Rd | 316 - sirt-2.7-50/sirt/man/isop.Rd | 122 sirt-2.7-50/sirt/man/isop.scoring.Rd | 50 sirt-2.7-50/sirt/man/isop.test.Rd | 20 sirt-2.7-50/sirt/man/latent.regression.em.raschtype.Rd | 190 sirt-2.7-50/sirt/man/lavaan2mirt.Rd | 180 sirt-2.7-50/sirt/man/lc.2raters.Rd | 38 sirt-2.7-50/sirt/man/likelihood.adjustment.Rd | 32 sirt-2.7-50/sirt/man/linking.haberman.Rd | 236 - sirt-2.7-50/sirt/man/linking.robust.Rd | 48 sirt-2.7-50/sirt/man/lsdm.Rd | 182 sirt-2.7-50/sirt/man/lsem.estimate.Rd | 126 sirt-2.7-50/sirt/man/lsem.permutationTest.Rd | 30 sirt-2.7-50/sirt/man/marginal.truescore.reliability.Rd | 46 sirt-2.7-50/sirt/man/matrixfunctions.sirt.Rd | 24 sirt-2.7-50/sirt/man/mcmc.2pno.Rd | 52 sirt-2.7-50/sirt/man/mcmc.2pno.ml.Rd | 184 sirt-2.7-50/sirt/man/mcmc.2pnoh.Rd | 80 sirt-2.7-50/sirt/man/mcmc.3pno.testlet.Rd | 150 sirt-2.7-50/sirt/man/mcmc.list.descriptives.Rd | 22 sirt-2.7-50/sirt/man/mcmc_Rhat.Rd | 10 sirt-2.7-50/sirt/man/mcmc_coef.Rd | 46 sirt-2.7-50/sirt/man/mcmclist2coda.Rd | 14 sirt-2.7-50/sirt/man/md.pattern.sirt.Rd | 12 sirt-2.7-50/sirt/man/mirt.specify.partable.Rd | 30 sirt-2.7-50/sirt/man/mirt.wrapper.Rd | 94 sirt-2.7-50/sirt/man/mle.pcm.group.Rd | 65 sirt-2.7-50/sirt/man/modelfit.sirt.Rd | 100 sirt-2.7-50/sirt/man/monoreg.rowwise.Rd | 14 sirt-2.7-50/sirt/man/nedelsky.sim.Rd | 138 sirt-2.7-50/sirt/man/noharm.sirt.Rd | 160 sirt-2.7-50/sirt/man/np.dich.Rd | 20 sirt-2.7-50/sirt/man/parmsummary_extend.Rd | 20 sirt-2.7-50/sirt/man/pbivnorm2.Rd | 24 sirt-2.7-50/sirt/man/pcm.conversion.Rd | 20 sirt-2.7-50/sirt/man/pcm.fit.Rd | 44 sirt-2.7-50/sirt/man/person.parameter.rasch.copula.Rd | 30 sirt-2.7-50/sirt/man/personfit.stat.Rd | 62 sirt-2.7-50/sirt/man/pgenlogis.Rd | 72 sirt-2.7-50/sirt/man/plausible.value.imputation.raschtype.Rd | 106 sirt-2.7-50/sirt/man/plot.mcmc.sirt.Rd | 14 sirt-2.7-50/sirt/man/plot.np.dich.Rd | 8 sirt-2.7-50/sirt/man/polychoric2.Rd | 8 sirt-2.7-50/sirt/man/prior_model_parse.Rd | 8 sirt-2.7-50/sirt/man/prmse.subscores.scales.Rd | 18 sirt-2.7-50/sirt/man/prob.guttman.Rd | 92 sirt-2.7-50/sirt/man/qmc.nodes.Rd | 14 sirt-2.7-50/sirt/man/rasch.copula.Rd | 232 - sirt-2.7-50/sirt/man/rasch.evm.pcm.Rd | 68 sirt-2.7-50/sirt/man/rasch.jml.Rd | 62 sirt-2.7-50/sirt/man/rasch.jml.biascorr.Rd | 8 sirt-2.7-50/sirt/man/rasch.jml.jackknife1.Rd | 42 sirt-2.7-50/sirt/man/rasch.mirtlc.Rd | 318 - sirt-2.7-50/sirt/man/rasch.mml.Rd | 519 +- sirt-2.7-50/sirt/man/rasch.pairwise.Rd | 24 sirt-2.7-50/sirt/man/rasch.pairwise.itemcluster.Rd | 86 sirt-2.7-50/sirt/man/rasch.pml3.Rd | 238 - sirt-2.7-50/sirt/man/rasch.prox.Rd | 12 sirt-2.7-50/sirt/man/rasch.va.Rd | 18 sirt-2.7-50/sirt/man/reliability.nonlinearSEM.Rd | 32 sirt-2.7-50/sirt/man/rinvgamma2.Rd | 20 sirt-2.7-50/sirt/man/rm.facets.Rd | 160 sirt-2.7-50/sirt/man/rm.sdt.Rd | 175 sirt-2.7-50/sirt/man/sia.sirt.Rd | 36 sirt-2.7-50/sirt/man/sim.qm.ramsay.Rd | 82 sirt-2.7-50/sirt/man/sim.rasch.dep.Rd | 56 sirt-2.7-50/sirt/man/sim.raschtype.Rd | 32 sirt-2.7-50/sirt/man/sirt-defunct.Rd | 12 sirt-2.7-50/sirt/man/sirt-package.Rd | 209 - sirt-2.7-50/sirt/man/sirt-utilities.Rd | 62 sirt-2.7-50/sirt/man/smirt.Rd | 232 - sirt-2.7-50/sirt/man/stratified.cronbach.alpha.Rd | 30 sirt-2.7-50/sirt/man/summary.mcmc.sirt.Rd | 6 sirt-2.7-50/sirt/man/tam2mirt.Rd | 52 sirt-2.7-50/sirt/man/testlet.marginalized.Rd | 38 sirt-2.7-50/sirt/man/tetrachoric2.Rd | 38 sirt-2.7-50/sirt/man/truescore.irt.Rd | 60 sirt-2.7-50/sirt/man/unidim.test.csn.Rd | 34 sirt-2.7-50/sirt/man/wle.rasch.Rd | 20 sirt-2.7-50/sirt/man/wle.rasch.jackknife.Rd | 74 sirt-2.7-50/sirt/man/xxirt.Rd | 274 - sirt-2.7-50/sirt/man/xxirt_createParTable.Rd | 80 sirt-2.7-50/sirt/man/xxirt_createThetaDistribution.Rd | 28 sirt-2.7-50/sirt/src/RcppExports.cpp | 253 + sirt-2.7-50/sirt/src/eigenvaluessirt_rcpp.cpp | 150 sirt-2.7-50/sirt/src/evm_comp_matrix_poly_rcpp.cpp | 544 +- sirt-2.7-50/sirt/src/gooijer_isop_rcpp.cpp | 416 +- sirt-2.7-50/sirt/src/invariance_alignment_rcpp.cpp | 134 sirt-2.7-50/sirt/src/matrixfunctions_sirt_rcpp.cpp | 682 +-- sirt-2.7-50/sirt/src/mle_pcm_group_rcpp.cpp | 378 - sirt-2.7-50/sirt/src/noharm_sirt_rcpp.cpp | 896 ++-- sirt-2.7-50/sirt/src/polychoric2_tetrachoric2_rcpp.cpp | 716 +-- sirt-2.7-50/sirt/src/probs_multcat_items_counts_rcpp.cpp | 259 - sirt-2.7-50/sirt/src/rm_smirt_mml2_rcpp.cpp | 953 ++-- sirt-2.7-50/sirt/src/sirt_rcpp_rm_proc_data.cpp |only sirt-2.7-50/sirt/src/sirt_rcpp_rm_sdt.cpp |only sirt-2.7-50/sirt/src/sirt_rcpp_xxirt.cpp |only 641 files changed, 35258 insertions(+), 35050 deletions(-)
Title: Search Tools for PDF Files
Description: Includes functions for keyword search of pdf files. There is
also a wrapper that includes searching of all files within a single
directory.
Author: Brandon LeBeau [aut, cre]
Maintainer: Brandon LeBeau <lebebr01+pdfsearch@gmail.com>
Diff between pdfsearch versions 0.1.1 dated 2016-12-16 and 0.2.3 dated 2018-07-10
DESCRIPTION | 14 ++-- MD5 | 43 ++++++++----- NAMESPACE | 3 NEWS.md | 13 ++++ R/convert_tokens.r |only R/directory_search.r | 29 ++++++--- R/keyword_search.r | 41 ++++++++++-- R/split_pdf.r | 4 - R/util.r | 20 ++++++ README.md | 112 ++++++++++++++++++++++++----------- build |only inst/doc |only inst/joss |only man/convert_tokens.Rd |only man/heading_search.Rd | 1 man/keyword_directory.Rd | 25 ++++++- man/keyword_search.Rd | 22 +++++- man/run_shiny.Rd | 1 tests/testthat/test_convert_tokens.r |only tests/testthat/test_errors.r | 8 ++ tests/testthat/test_hyphen.r |only tests/testthat/test_split.r | 10 ++- tests/testthat/test_structure.r | 32 +++++++++- vignettes |only 24 files changed, 291 insertions(+), 87 deletions(-)
Title: A Future API for Parallel and Distributed Processing using
BatchJobs
Description: Implementation of the Future API on top of the 'BatchJobs' package.
This allows you to process futures, as defined by the 'future' package,
in parallel out of the box, not only on your local machine or ad-hoc
cluster of machines, but also via high-performance compute ('HPC') job
schedulers such as 'LSF', 'OpenLava', 'Slurm', 'SGE', and 'TORQUE' / 'PBS',
e.g. 'y <- future.apply::future_lapply(files, FUN = process)'.
NOTE: The 'BatchJobs' package is deprecated in favor of the 'batchtools'
package. Because of this, it is recommended to use the 'future.batchtools'
package instead of this package.
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Diff between future.BatchJobs versions 0.15.0 dated 2017-09-11 and 0.16.0 dated 2018-07-10
future.BatchJobs-0.15.0/future.BatchJobs/tests/future_lapply.R |only future.BatchJobs-0.16.0/future.BatchJobs/DESCRIPTION | 17 - future.BatchJobs-0.16.0/future.BatchJobs/MD5 | 45 +-- future.BatchJobs-0.16.0/future.BatchJobs/NAMESPACE | 6 future.BatchJobs-0.16.0/future.BatchJobs/NEWS | 28 ++ future.BatchJobs-0.16.0/future.BatchJobs/R/BatchJobsFuture-class.R | 138 +++++----- future.BatchJobs-0.16.0/future.BatchJobs/R/batchjobs_custom.R | 4 future.BatchJobs-0.16.0/future.BatchJobs/R/batchjobs_multicore.R | 4 future.BatchJobs-0.16.0/future.BatchJobs/R/batchjobs_template.R | 2 future.BatchJobs-0.16.0/future.BatchJobs/R/makeBatchJobsConf.R | 2 future.BatchJobs-0.16.0/future.BatchJobs/R/nbrOfWorkers.R | 8 future.BatchJobs-0.16.0/future.BatchJobs/R/resources_OP.R | 8 future.BatchJobs-0.16.0/future.BatchJobs/R/tempRegistry.R | 10 future.BatchJobs-0.16.0/future.BatchJobs/R/utils.R | 52 +++ future.BatchJobs-0.16.0/future.BatchJobs/build/vignette.rds |binary future.BatchJobs-0.16.0/future.BatchJobs/inst/WORDLIST |only future.BatchJobs-0.16.0/future.BatchJobs/inst/doc/future.BatchJobs.html | 2 future.BatchJobs-0.16.0/future.BatchJobs/inst/doc/future.BatchJobs.md.rsp | 2 future.BatchJobs-0.16.0/future.BatchJobs/man/batchjobs_template.Rd | 2 future.BatchJobs-0.16.0/future.BatchJobs/man/grapes-resources-grapes.Rd | 2 future.BatchJobs-0.16.0/future.BatchJobs/tests/BatchJobsFuture.R | 9 future.BatchJobs-0.16.0/future.BatchJobs/tests/BatchJobsFutureError.R | 4 future.BatchJobs-0.16.0/future.BatchJobs/tests/batchjobs_template.R | 30 -- future.BatchJobs-0.16.0/future.BatchJobs/tests/zzz,future_lapply.R |only future.BatchJobs-0.16.0/future.BatchJobs/vignettes/future.BatchJobs.md.rsp | 2 25 files changed, 220 insertions(+), 157 deletions(-)
More information about future.BatchJobs at CRAN
Permanent link
Title: Systems Insights from Generation of Hydroclimatic Timeseries
Description: A tool to create hydroclimate scenarios, stress test systems and visualize system performance in scenario-neutral climate change impact assessments. Scenario-neutral approaches 'stress-test' the performance of a modelled system by applying a wide range of plausible hydroclimate conditions (see Brown & Wilby (2012) <doi:10.1029/2012EO410001> and Prudhomme et al. (2010) <doi:10.1016/j.jhydrol.2010.06.043>). These approaches allow the identification of hydroclimatic variables that affect the vulnerability of a system to hydroclimate variation and change. This tool enables the generation of perturbed time series using a range of approaches including simple scaling of observed time series (e.g. Culley et al. (2016) <doi:10.1002/2015WR018253>) and stochastic simulation of perturbed time series via an inverse approach (see Guo et al. (2018) <doi:10.1016/j.jhydrol.2016.03.025>). It incorporates a number of stochastic weather models to generate hydroclimate variables on a daily basis (e.g. precipitation, temperature, potential evapotranspiration) and allows a variety of different hydroclimate variable properties, herein called attributes, to be perturbed. Options are included for the easy integration of existing system models both internally in R and externally for seamless 'stress-testing'. A suite of visualization options for the results of a scenario-neutral analysis (e.g. plotting performance spaces and overlaying climate projection information) are also included. As further developments in scenario-neutral approaches occur the tool will be updated to incorporate these advances.
Author: Bree Bennett [aut, cre] (<https://orcid.org/0000-0002-2131-088X>),
Sam Culley [aut] (<https://orcid.org/0000-0003-4798-8522>),
Seth Westra [aut] (<https://orcid.org/0000-0003-4023-6061>),
Danlu Guo [ctb] (<https://orcid.org/0000-0003-1083-1214>),
Holger Maier [ths] (<https://orcid.org/0000-0002-0277-6887>)
Maintainer: Bree Bennett <bree.bennett@adelaide.edu.au>
Diff between foreSIGHT versions 0.9.2 dated 2018-03-09 and 0.9.6 dated 2018-07-10
DESCRIPTION | 8 - MD5 | 63 ++++---- NAMESPACE | 6 NEWS | 8 + R/WGEN_lib.R | 41 +++-- R/argumentInputChecker.R | 44 ++--- R/argumentLogicChecker.R | 136 ++++++++++++++++-- R/attributeManager.R | 145 +++++++++++++++++++ R/calibrationArgCheck.R |only R/calibrationNation.R |only R/control.R | 94 +++++------- R/dataInputChecker.R | 137 +++++++++--------- R/dateManager.R | 68 ++++++++- R/demoTankModel.R | 56 ++++--- R/harmonicFit.R | 5 R/hippoPlotamusSuite.R | 2 R/modelSequencer.R | 39 +---- R/optimManagement.R | 8 - R/performanceSpace.R | 48 +++--- R/simCity.R |only R/stochParManager.R | 351 ++++++++++++++++++++++++++++++----------------- data/tankPlot.RData |binary inst/doc/Vignette.html | 121 +++++++++++----- man/attSel.Rd | 191 ++++++++++++++++++++----- man/modCalibrator.Rd |only man/modSimulator.Rd |only man/modelTag.Rd | 24 ++- man/performanceSpaces.Rd | 2 man/plotLayers.Rd | 14 + man/scenarioGenerator.Rd | 4 man/tankPerformance.Rd | 6 man/tankWrapper.Rd | 7 vignettes/Vignette.Rmd | 117 ++++++++++++--- vignettes/Vignette.html | 121 +++++++++++----- vignettes/diog1.png |binary 35 files changed, 1296 insertions(+), 570 deletions(-)
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