Title: Robust Statistics: Theory and Methods
Description: Companion package for the book: "Robust Statistics: Theory and Methods, second edition", <http://www.wiley.com/go/maronna/robust>. This package contains code that implements the robust estimators discussed in the recent second edition of the book above, as well as the scripts reproducing all the examples in the book.
Author: Matias Salibian-Barrera [cre],
Victor Yohai [aut],
Ricardo Maronna [aut],
Doug Martin [aut],
Gregory Brownson [aut] (ShinyUI),
Kjell Konis [aut],
Kjell Konis [cph] (erfi),
Christophe Croux [ctb] (WBYlogreg, BYlogreg),
Gentiane Haesbroeck [ctb] (WBYlogreg, BYlogreg),
Martin Maechler [cph] (lmrob.fit, lmrob..M..fit, lmrob.S),
Manuel Koller [cph] (lmrob.fit, .vcov.avar1, lmrob.S, lmrob.lar),
Matias Salibian-Barrera [aut]
Maintainer: Matias Salibian-Barrera <matias@stat.ubc.ca>
Diff between RobStatTM versions 1.0.0 dated 2019-04-23 and 1.0.1 dated 2019-08-06
RobStatTM-1.0.0/RobStatTM/R/MultiRobu.R |only RobStatTM-1.0.0/RobStatTM/man/MultiRobu.Rd |only RobStatTM-1.0.1/RobStatTM/.Rinstignore | 2 RobStatTM-1.0.1/RobStatTM/DESCRIPTION | 10 RobStatTM-1.0.1/RobStatTM/MD5 | 211 RobStatTM-1.0.1/RobStatTM/NAMESPACE | 125 RobStatTM-1.0.1/RobStatTM/NEWS.md |only RobStatTM-1.0.1/RobStatTM/R/BYlogreg.R | 632 +- RobStatTM-1.0.1/RobStatTM/R/DCML.R | 722 +- RobStatTM-1.0.1/RobStatTM/R/INVTR2.R | 144 RobStatTM-1.0.1/RobStatTM/R/KurtSDNew.R | 1608 ++--- RobStatTM-1.0.1/RobStatTM/R/MLocDis.R | 258 RobStatTM-1.0.1/RobStatTM/R/Multirobu.R |only RobStatTM-1.0.1/RobStatTM/R/RFPE.R | 785 +- RobStatTM-1.0.1/RobStatTM/R/RobPCA_SM.R | 176 RobStatTM-1.0.1/RobStatTM/R/ShinyUI.R | 32 RobStatTM-1.0.1/RobStatTM/R/WBYlogreg.R | 646 +- RobStatTM-1.0.1/RobStatTM/R/WMLlogreg.R | 218 RobStatTM-1.0.1/RobStatTM/R/alcohol.R |only RobStatTM-1.0.1/RobStatTM/R/algae.R | 46 RobStatTM-1.0.1/RobStatTM/R/biochem.R | 34 RobStatTM-1.0.1/RobStatTM/R/bus.R | 58 RobStatTM-1.0.1/RobStatTM/R/fastmve.R | 108 RobStatTM-1.0.1/RobStatTM/R/flour.R | 37 RobStatTM-1.0.1/RobStatTM/R/glass.R |only RobStatTM-1.0.1/RobStatTM/R/hearing.R |only RobStatTM-1.0.1/RobStatTM/R/image.R |only RobStatTM-1.0.1/RobStatTM/R/lmrob.MM.R | 2676 ++++---- RobStatTM-1.0.1/RobStatTM/R/lmrob.lar.R | 194 RobStatTM-1.0.1/RobStatTM/R/lmrobdet.R | 2828 ++++---- RobStatTM-1.0.1/RobStatTM/R/mineral.R | 38 RobStatTM-1.0.1/RobStatTM/R/neuralgia.R | 32 RobStatTM-1.0.1/RobStatTM/R/oats.R | 36 RobStatTM-1.0.1/RobStatTM/R/prcompRob.R | 206 RobStatTM-1.0.1/RobStatTM/R/psiFunUtils.R | 330 - RobStatTM-1.0.1/RobStatTM/R/psiFuns.R | 424 - RobStatTM-1.0.1/RobStatTM/R/resex.R | 38 RobStatTM-1.0.1/RobStatTM/R/shock.R | 40 RobStatTM-1.0.1/RobStatTM/R/skin.R | 39 RobStatTM-1.0.1/RobStatTM/R/stackloss.R |only RobStatTM-1.0.1/RobStatTM/R/summary.covfm.R | 134 RobStatTM-1.0.1/RobStatTM/R/summary.pcompfm.R | 62 RobStatTM-1.0.1/RobStatTM/R/utils.R | 52 RobStatTM-1.0.1/RobStatTM/R/vehicle.R | 56 RobStatTM-1.0.1/RobStatTM/R/waste.R |only RobStatTM-1.0.1/RobStatTM/R/wine.R | 50 RobStatTM-1.0.1/RobStatTM/README.md | 160 RobStatTM-1.0.1/RobStatTM/build/vignette.rds |binary RobStatTM-1.0.1/RobStatTM/data/alcohol.RData |only RobStatTM-1.0.1/RobStatTM/data/glass.RData |only RobStatTM-1.0.1/RobStatTM/data/hearing.RData |only RobStatTM-1.0.1/RobStatTM/data/image.RData |only RobStatTM-1.0.1/RobStatTM/data/neuralgia.RData |binary RobStatTM-1.0.1/RobStatTM/data/stackloss.RData |only RobStatTM-1.0.1/RobStatTM/data/waste.RData |only RobStatTM-1.0.1/RobStatTM/inst/doc/ShinyUI.Rnw | 1160 +-- RobStatTM-1.0.1/RobStatTM/inst/doc/ShinyUI.pdf |binary RobStatTM-1.0.1/RobStatTM/inst/etc/hfunds4.ts.csv | 284 RobStatTM-1.0.1/RobStatTM/inst/scripts/autism.R | 162 RobStatTM-1.0.1/RobStatTM/inst/scripts/flour.R | 72 RobStatTM-1.0.1/RobStatTM/inst/scripts/identAR2.R | 134 RobStatTM-1.0.1/RobStatTM/inst/scripts/oats.R | 134 RobStatTM-1.0.1/RobStatTM/inst/scripts/wine1.R | 208 RobStatTM-1.0.1/RobStatTM/inst/shiny-ui/server.R | 6952 +++++++++++----------- RobStatTM-1.0.1/RobStatTM/inst/shiny-ui/ui.R | 892 +- RobStatTM-1.0.1/RobStatTM/man/BYlogreg.Rd | 110 RobStatTM-1.0.1/RobStatTM/man/DCML.Rd | 82 RobStatTM-1.0.1/RobStatTM/man/INVTR2.Rd | 74 RobStatTM-1.0.1/RobStatTM/man/KurtSDNew.Rd | 104 RobStatTM-1.0.1/RobStatTM/man/MLocDis.Rd | 102 RobStatTM-1.0.1/RobStatTM/man/MMPY.Rd | 78 RobStatTM-1.0.1/RobStatTM/man/MMultiSHR.Rd | 90 RobStatTM-1.0.1/RobStatTM/man/Multirobu.Rd |only RobStatTM-1.0.1/RobStatTM/man/RockeMulti.Rd | 118 RobStatTM-1.0.1/RobStatTM/man/SMPCA.Rd | 104 RobStatTM-1.0.1/RobStatTM/man/SMPY.Rd | 82 RobStatTM-1.0.1/RobStatTM/man/ShinyUI.Rd | 34 RobStatTM-1.0.1/RobStatTM/man/WBYlogreg.Rd | 112 RobStatTM-1.0.1/RobStatTM/man/WMLlogreg.Rd | 90 RobStatTM-1.0.1/RobStatTM/man/alcohol.Rd |only RobStatTM-1.0.1/RobStatTM/man/algae.Rd | 59 RobStatTM-1.0.1/RobStatTM/man/biochem.Rd | 46 RobStatTM-1.0.1/RobStatTM/man/bisquare.Rd | 60 RobStatTM-1.0.1/RobStatTM/man/bus.Rd | 70 RobStatTM-1.0.1/RobStatTM/man/cov.dcml.Rd | 70 RobStatTM-1.0.1/RobStatTM/man/covClassic.Rd | 96 RobStatTM-1.0.1/RobStatTM/man/drop1.lmrobdetMM.Rd | 96 RobStatTM-1.0.1/RobStatTM/man/fastmve.Rd | 102 RobStatTM-1.0.1/RobStatTM/man/flour.Rd | 49 RobStatTM-1.0.1/RobStatTM/man/glass.Rd |only RobStatTM-1.0.1/RobStatTM/man/hearing.Rd |only RobStatTM-1.0.1/RobStatTM/man/image.Rd |only RobStatTM-1.0.1/RobStatTM/man/lmrobM.Rd | 190 RobStatTM-1.0.1/RobStatTM/man/lmrobM.control.Rd | 114 RobStatTM-1.0.1/RobStatTM/man/lmrobdet.control.Rd | 206 RobStatTM-1.0.1/RobStatTM/man/lmrobdetDCML.Rd | 190 RobStatTM-1.0.1/RobStatTM/man/lmrobdetMM.RFPE.Rd | 64 RobStatTM-1.0.1/RobStatTM/man/lmrobdetMM.Rd | 188 RobStatTM-1.0.1/RobStatTM/man/mineral.Rd | 50 RobStatTM-1.0.1/RobStatTM/man/modopt.Rd | 62 RobStatTM-1.0.1/RobStatTM/man/mscale.Rd | 132 RobStatTM-1.0.1/RobStatTM/man/neuralgia.Rd | 46 RobStatTM-1.0.1/RobStatTM/man/oats.Rd | 49 RobStatTM-1.0.1/RobStatTM/man/optimal.Rd | 62 RobStatTM-1.0.1/RobStatTM/man/prcompRob.Rd | 82 RobStatTM-1.0.1/RobStatTM/man/refine.sm.Rd | 116 RobStatTM-1.0.1/RobStatTM/man/resex.Rd | 51 RobStatTM-1.0.1/RobStatTM/man/rho.Rd | 80 RobStatTM-1.0.1/RobStatTM/man/rhoprime.Rd | 74 RobStatTM-1.0.1/RobStatTM/man/rhoprime2.Rd | 74 RobStatTM-1.0.1/RobStatTM/man/rob.linear.test.Rd | 78 RobStatTM-1.0.1/RobStatTM/man/shock.Rd | 54 RobStatTM-1.0.1/RobStatTM/man/skin.Rd | 51 RobStatTM-1.0.1/RobStatTM/man/stackloss.Rd |only RobStatTM-1.0.1/RobStatTM/man/step.lmrobdetMM.Rd | 155 RobStatTM-1.0.1/RobStatTM/man/vehicle.Rd | 68 RobStatTM-1.0.1/RobStatTM/man/waste.Rd |only RobStatTM-1.0.1/RobStatTM/man/wine.Rd | 62 RobStatTM-1.0.1/RobStatTM/vignettes/ShinyUI.Rnw | 1160 +-- 119 files changed, 14389 insertions(+), 14142 deletions(-)
Title: Classes and Methods for Seismic Data Analysis
Description: Provides classes and methods for seismic data analysis. The
base classes and methods are inspired by the python code found in
the 'ObsPy' python toolbox <https://github.com/obsypy/obspy>. Additional classes and
methods support data returned by web services provided by the 'IRIS DMC'
<http://service.iris.edu/>.
Author: Jonathan Callahan [aut],
Rob Casey [aut],
Gillian Sharer [aut, cre],
Mary Templeton [aut],
Chad Trabant [ctb]
Maintainer: Gillian Sharer <gillian@iris.washington.edu>
Diff between IRISSeismic versions 1.5.0 dated 2019-06-05 and 1.5.1 dated 2019-08-06
IRISSeismic-1.5.0/IRISSeismic/src/libmseed/libmseed.map |only IRISSeismic-1.5.0/IRISSeismic/src/libmseed/temp.sh |only IRISSeismic-1.5.1/IRISSeismic/DESCRIPTION | 8 +- IRISSeismic-1.5.1/IRISSeismic/MD5 | 40 ++++------ IRISSeismic-1.5.1/IRISSeismic/R/Class-IrisClient.R | 12 +-- IRISSeismic-1.5.1/IRISSeismic/R/Class-Stream.R | 20 ++++- IRISSeismic-1.5.1/IRISSeismic/R/Class-Trace.R | 14 +-- IRISSeismic-1.5.1/IRISSeismic/inst/doc/IRISSeismic-intro.Rmd | 2 IRISSeismic-1.5.1/IRISSeismic/inst/doc/IRISSeismic-intro.html | 6 - IRISSeismic-1.5.1/IRISSeismic/man/IRISSeismic-package.Rd | 9 ++ IRISSeismic-1.5.1/IRISSeismic/man/butterworth.Rd | 4 - IRISSeismic-1.5.1/IRISSeismic/man/crossSpectrum.Rd | 2 IRISSeismic-1.5.1/IRISSeismic/man/envelope.Rd | 4 - IRISSeismic-1.5.1/IRISSeismic/man/getDataselect.Rd | 4 - IRISSeismic-1.5.1/IRISSeismic/man/getSNCL.Rd | 4 - IRISSeismic-1.5.1/IRISSeismic/man/getTraveltime.Rd | 4 - IRISSeismic-1.5.1/IRISSeismic/man/hilbert.Rd | 4 - IRISSeismic-1.5.1/IRISSeismic/man/hilbertFFT.Rd | 4 - IRISSeismic-1.5.1/IRISSeismic/man/noiseModels.Rd | 2 IRISSeismic-1.5.1/IRISSeismic/man/readMiniseedFile.Rd | 2 IRISSeismic-1.5.1/IRISSeismic/src/parseMiniSEED.c | 7 + IRISSeismic-1.5.1/IRISSeismic/vignettes/IRISSeismic-intro.Rmd | 2 22 files changed, 90 insertions(+), 64 deletions(-)
Title: Miscellaneous Functions for the USGS INL Project Office
Description: A collection of functions for creating high-level graphics,
performing raster-based analysis, processing MODFLOW-based models,
selecting subsets using a genetic algorithm, creating interactive web maps,
accessing color palettes, etc. Used to support packages and scripts written
by researchers at the United States Geological Survey (USGS)
Idaho National Laboratory (INL) Project Office.
Author: Jason C. Fisher [aut, cre] (<https://orcid.org/0000-0001-9032-8912>)
Maintainer: Jason C. Fisher <jfisher@usgs.gov>
Diff between inlmisc versions 0.4.5 dated 2019-02-09 and 0.4.7 dated 2019-08-06
inlmisc-0.4.5/inlmisc/inst/raw/README.md |only inlmisc-0.4.5/inlmisc/inst/raw/internal-datasets.R |only inlmisc-0.4.7/inlmisc/DESCRIPTION | 15 inlmisc-0.4.7/inlmisc/MD5 | 152 inlmisc-0.4.7/inlmisc/NAMESPACE | 5 inlmisc-0.4.7/inlmisc/NEWS.md | 47 inlmisc-0.4.7/inlmisc/R/AddColorKey.R | 9 inlmisc-0.4.7/inlmisc/R/AddInsetMap.R | 16 inlmisc-0.4.7/inlmisc/R/AddIntervals.R |only inlmisc-0.4.7/inlmisc/R/AddPoints.R | 8 inlmisc-0.4.7/inlmisc/R/BuildVignettes.R | 64 inlmisc-0.4.7/inlmisc/R/BumpDisconnectCells.R | 2 inlmisc-0.4.7/inlmisc/R/BumpRiverStage.R | 2 inlmisc-0.4.7/inlmisc/R/ExportRasterStack.R | 2 inlmisc-0.4.7/inlmisc/R/ExtractAlongTransect.R | 9 inlmisc-0.4.7/inlmisc/R/FindOptimalSubset.R | 25 inlmisc-0.4.7/inlmisc/R/GetColors.R | 69 inlmisc-0.4.7/inlmisc/R/GetRegionOfInterest.R | 2 inlmisc-0.4.7/inlmisc/R/Grid2Polygons.R | 20 inlmisc-0.4.7/inlmisc/R/PlotCrossSection.R | 10 inlmisc-0.4.7/inlmisc/R/PlotGraph.R | 139 inlmisc-0.4.7/inlmisc/R/PlotMap.R | 29 inlmisc-0.4.7/inlmisc/R/PrintFigure.R | 36 inlmisc-0.4.7/inlmisc/R/PrintHelpPages.R |only inlmisc-0.4.7/inlmisc/R/PrintTable.R | 2 inlmisc-0.4.7/inlmisc/R/ReadModflowBinary.R | 71 inlmisc-0.4.7/inlmisc/R/RecreateLibrary.R | 26 inlmisc-0.4.7/inlmisc/R/ReplaceInTemplate.R | 2 inlmisc-0.4.7/inlmisc/R/RmSmallCellChunks.R | 9 inlmisc-0.4.7/inlmisc/R/SetPolygons.R | 43 inlmisc-0.4.7/inlmisc/R/SummariseBudget.R | 20 inlmisc-0.4.7/inlmisc/R/ToScientific.R | 6 inlmisc-0.4.7/inlmisc/R/sysdata.rda |binary inlmisc-0.4.7/inlmisc/R/usgs_article.R |only inlmisc-0.4.7/inlmisc/README.md | 2 inlmisc-0.4.7/inlmisc/inst/extdata/city.geojson | 2024 +++++----- inlmisc-0.4.7/inlmisc/inst/extdata/county.geojson | 102 inlmisc-0.4.7/inlmisc/inst/htmlwidgets/plugins/leaflet-search/leaflet-search-binding.js | 2 inlmisc-0.4.7/inlmisc/inst/htmlwidgets/plugins/leaflet-search/leaflet-search.min.css | 34 inlmisc-0.4.7/inlmisc/inst/htmlwidgets/plugins/leaflet-search/leaflet-search.min.js | 32 inlmisc-0.4.7/inlmisc/inst/htmlwidgets/plugins/leaflet-search/license.txt | 42 inlmisc-0.4.7/inlmisc/inst/htmlwidgets/plugins/usgs-search/search_api.css | 606 +- inlmisc-0.4.7/inlmisc/inst/misc/preamble.tex | 37 inlmisc-0.4.7/inlmisc/inst/raw/build-datasets.R |only inlmisc-0.4.7/inlmisc/inst/raw/cpt/COPYING.LESSERv3 | 330 - inlmisc-0.4.7/inlmisc/inst/raw/cpt/COPYINGv3 | 1348 +++--- inlmisc-0.4.7/inlmisc/inst/raw/cpt/acton.cpt |only inlmisc-0.4.7/inlmisc/inst/raw/cpt/bamako.cpt |only inlmisc-0.4.7/inlmisc/inst/raw/cpt/buda.cpt |only inlmisc-0.4.7/inlmisc/inst/raw/cpt/devon.cpt |only inlmisc-0.4.7/inlmisc/inst/raw/cpt/imola.cpt |only inlmisc-0.4.7/inlmisc/inst/raw/cpt/nuuk.cpt |only inlmisc-0.4.7/inlmisc/inst/raw/render-tables.R |only inlmisc-0.4.7/inlmisc/inst/rmarkdown |only inlmisc-0.4.7/inlmisc/man/AddInsetMap.Rd | 4 inlmisc-0.4.7/inlmisc/man/AddIntervals.Rd |only inlmisc-0.4.7/inlmisc/man/AddPoints.Rd | 4 inlmisc-0.4.7/inlmisc/man/BuildVignettes.Rd | 34 inlmisc-0.4.7/inlmisc/man/ExtractAlongTransect.Rd | 8 inlmisc-0.4.7/inlmisc/man/FindOptimalSubset.Rd | 6 inlmisc-0.4.7/inlmisc/man/FindPolyNodes.Rd | 3 inlmisc-0.4.7/inlmisc/man/GetColors.Rd | 3 inlmisc-0.4.7/inlmisc/man/GetRegionOfInterest.Rd | 2 inlmisc-0.4.7/inlmisc/man/IsColor.Rd |only inlmisc-0.4.7/inlmisc/man/PlotCrossSection.Rd | 4 inlmisc-0.4.7/inlmisc/man/PlotGraph.Rd | 31 inlmisc-0.4.7/inlmisc/man/PlotMap.Rd | 6 inlmisc-0.4.7/inlmisc/man/PrintFigure.Rd | 13 inlmisc-0.4.7/inlmisc/man/PrintHelpPages.Rd |only inlmisc-0.4.7/inlmisc/man/ReadModflowBinary.Rd | 2 inlmisc-0.4.7/inlmisc/man/RecreateLibrary.Rd | 19 inlmisc-0.4.7/inlmisc/man/ReplaceInTemplate.Rd | 2 inlmisc-0.4.7/inlmisc/man/RmSmallCellChunks.Rd | 9 inlmisc-0.4.7/inlmisc/man/SummariseBudget.Rd | 2 inlmisc-0.4.7/inlmisc/man/figures/table01.pdf |binary inlmisc-0.4.7/inlmisc/man/figures/table01.svg | 2 inlmisc-0.4.7/inlmisc/man/figures/table02.pdf |binary inlmisc-0.4.7/inlmisc/man/figures/table02.svg | 2 inlmisc-0.4.7/inlmisc/man/figures/table03.pdf |binary inlmisc-0.4.7/inlmisc/man/figures/table03.svg | 2 inlmisc-0.4.7/inlmisc/man/figures/table04.pdf |only inlmisc-0.4.7/inlmisc/man/figures/table04.svg |only inlmisc-0.4.7/inlmisc/man/usgs_article.Rd |only 83 files changed, 2869 insertions(+), 2688 deletions(-)
Title: Test Coverage for Packages
Description: Track and report code coverage for your package and (optionally)
upload the results to a coverage service like 'Codecov' <http://codecov.io> or
'Coveralls' <http://coveralls.io>. Code coverage is a measure of the amount of
code being exercised by a set of tests. It is an indirect measure of test
quality and completeness. This package is compatible with any testing
methodology or framework and tracks coverage of both R code and compiled
C/C++/FORTRAN code.
Author: Jim Hester [aut, cre],
Willem Ligtenberg [ctb],
Kirill Müller [ctb],
Henrik Bengtsson [ctb],
Steve Peak [ctb],
Kirill Sevastyanenko [ctb],
Jon Clayden [ctb],
Robert Flight [ctb],
Eric Brown [ctb],
Brodie Gaslam [ctb],
Will Beasley [ctb],
Robert Krzyzanowski [ctb],
Markus Wamser [ctb],
Karl Forner [ctb],
Gergely Daróczi [ctb],
Jouni Helske [ctb],
Kun Ren [ctb],
Jeroen Ooms [ctb],
Ken Williams [ctb],
Chris Campbell [ctb],
David Hugh-Jones [ctb],
Qin Wang [ctb],
Ivan Sagalaev [ctb, cph] (highlight.js library),
Mark Otto [ctb] (Bootstrap library),
Jacob Thornton [ctb] (Bootstrap library),
Bootstrap contributors [ctb] (Bootstrap library),
Twitter, Inc [cph] (Bootstrap library)
Maintainer: Jim Hester <james.f.hester@gmail.com>
Diff between covr versions 3.2.1 dated 2018-10-18 and 3.3.0 dated 2019-08-06
covr-3.2.1/covr/tests/testthat/TestCompiled/src/simple.c |only covr-3.3.0/covr/DESCRIPTION | 12 - covr-3.3.0/covr/MD5 | 83 +++++----- covr-3.3.0/covr/NAMESPACE | 1 covr-3.3.0/covr/NEWS.md | 32 +++ covr-3.3.0/covr/R/R6.R | 2 covr-3.3.0/covr/R/azure.R |only covr-3.3.0/covr/R/cobertura.R | 23 +- covr-3.3.0/covr/R/codecov.R | 26 ++- covr-3.3.0/covr/R/compiled.R | 21 +- covr-3.3.0/covr/R/covr.R | 10 - covr-3.3.0/covr/R/data_frame.R | 15 + covr-3.3.0/covr/R/exclusions.R | 2 covr-3.3.0/covr/R/parse_data.R | 4 covr-3.3.0/covr/R/summary_functions.R | 5 covr-3.3.0/covr/R/trace_calls.R | 18 +- covr-3.3.0/covr/R/utils.R | 14 + covr-3.3.0/covr/R/zzz.R | 7 covr-3.3.0/covr/README.md | 7 covr-3.3.0/covr/build/vignette.rds |binary covr-3.3.0/covr/inst/doc/how_it_works.Rmd | 1 covr-3.3.0/covr/inst/doc/how_it_works.html | 44 ++++- covr-3.3.0/covr/man/azure.Rd |only covr-3.3.0/covr/man/codecov.Rd | 16 + covr-3.3.0/covr/man/package_coverage.Rd | 5 covr-3.3.0/covr/tests/testthat/TestCompiled/NAMESPACE | 2 covr-3.3.0/covr/tests/testthat/TestCompiled/R/TestCompiled.R | 8 covr-3.3.0/covr/tests/testthat/TestCompiled/src/simple-header.h | 11 - covr-3.3.0/covr/tests/testthat/TestCompiled/src/simple.cc |only covr-3.3.0/covr/tests/testthat/TestCompiled/src/simple4.cc |only covr-3.3.0/covr/tests/testthat/TestCompiled/tests/testthat/test-TestCompiled.R | 10 + covr-3.3.0/covr/tests/testthat/TestR6/R/TestR6.R | 8 covr-3.3.0/covr/tests/testthat/TestS4/codecov.yml |only covr-3.3.0/covr/tests/testthat/cobertura.xml | 12 - covr-3.3.0/covr/tests/testthat/test-Compiled.R | 27 ++- covr-3.3.0/covr/tests/testthat/test-R6.R | 7 covr-3.3.0/covr/tests/testthat/test-azure.R |only covr-3.3.0/covr/tests/testthat/test-cobertura.R | 4 covr-3.3.0/covr/tests/testthat/test-codecov.R | 35 ++++ covr-3.3.0/covr/tests/testthat/test-covr.R | 2 covr-3.3.0/covr/tests/testthat/test-tally_coverage.R |only covr-3.3.0/covr/tests/testthat/test-trace_calls.R | 40 +++- covr-3.3.0/covr/tests/testthat/test-utils.R | 10 + covr-3.3.0/covr/tests/testthat/testFunctional |only covr-3.3.0/covr/vignettes/how_it_works.Rmd | 1 45 files changed, 392 insertions(+), 133 deletions(-)
Title: Simulations and Statistical Inference for Linear Fractional
Stable Motions
Description: Contains functions for simulating linear fractional stable motions, according to techniques developed by Stoev and Taqqu (2004) <doi:10.1142/S0218348X04002379>, as well as functions for computing important statistics used with these processes introduced by Mazur, Otryakhin and Podolskij (2018) <arXiv:1802.06373>, and also different quantities related to those statistics.
Author: Dmitry Otryakhin [aut, cre],
Stepan Mazur [aut],
Mathias Ljungdahl [ctb]
Maintainer: Dmitry Otryakhin <d.otryakhin.acad@protonmail.ch>
Diff between rlfsm versions 0.3.0 dated 2019-07-02 and 0.3.1 dated 2019-08-06
DESCRIPTION | 10 +++++----- MD5 | 14 +++++++++----- NEWS.md | 15 +++++++++++++++ R/MinContrastEstim.R | 6 +++--- build/partial.rdb |binary man/MinContrastEstim.Rd | 6 +++--- tests |only 7 files changed, 35 insertions(+), 16 deletions(-)
Title: Airborne LiDAR Data Manipulation and Visualization for Forestry
Applications
Description: Airborne LiDAR (Light Detection and Ranging) interface for data
manipulation and visualization. Read/write 'las' and 'laz' files, computation
of metrics in area based approach, point filtering, artificial point reduction,
classification from geographic data, normalization, individual tree segmentation
and other manipulations.
Author: Jean-Romain Roussel [aut, cre, cph],
David Auty [aut, ctb] (Reviews the documentation),
Florian De Boissieu [ctb] (Fixed bugs and improved catalog features),
Andrew Sánchez Meador [ctb] (Implemented lassnags)
Maintainer: Jean-Romain Roussel <jean-romain.roussel.1@ulaval.ca>
Diff between lidR versions 2.1.0 dated 2019-07-12 and 2.1.1 dated 2019-08-06
lidR-2.1.0/lidR/R/algorithm-points-decimation.r |only lidR-2.1.0/lidR/R/algorithm-spatial-interpolations.r |only lidR-2.1.0/lidR/man/figures |only lidR-2.1.1/lidR/DESCRIPTION | 60 ++--- lidR-2.1.1/lidR/MD5 | 117 +++++----- lidR-2.1.1/lidR/NAMESPACE | 3 lidR-2.1.1/lidR/NEWS.md | 32 ++ lidR-2.1.1/lidR/R/RcppExports.R | 4 lidR-2.1.1/lidR/R/algorithm-dec.r |only lidR-2.1.1/lidR/R/algorithm-dsm.r | 6 lidR-2.1.1/lidR/R/algorithm-gnd.r | 9 lidR-2.1.1/lidR/R/algorithm-itd.R | 9 lidR-2.1.1/lidR/R/algorithm-its.r | 18 - lidR-2.1.1/lidR/R/algorithm-shp.r | 9 lidR-2.1.1/lidR/R/algorithm-snag.r | 11 lidR-2.1.1/lidR/R/algorithm-spi.r |only lidR-2.1.1/lidR/R/catalog_apply.r | 4 lidR-2.1.1/lidR/R/catalog_intersect.r | 3 lidR-2.1.1/lidR/R/catalog_merge_results.R |only lidR-2.1.1/lidR/R/clusters_apply.r | 51 ++-- lidR-2.1.1/lidR/R/doc-lidR.R | 9 lidR-2.1.1/lidR/R/grid_canopy.r | 60 ++--- lidR-2.1.1/lidR/R/grid_metrics.r | 66 ++--- lidR-2.1.1/lidR/R/grid_terrain.r | 60 +---- lidR-2.1.1/lidR/R/lasfilterdecimate.r | 31 +- lidR-2.1.1/lidR/R/lasfilterduplicates.r | 9 lidR-2.1.1/lidR/R/lasfiltersurfacepoints.r | 9 lidR-2.1.1/lidR/R/lasground.r | 14 - lidR-2.1.1/lidR/R/lasmetrics.r | 22 + lidR-2.1.1/lidR/R/lasnormalize.r | 38 +-- lidR-2.1.1/lidR/R/lassnags.r | 19 - lidR-2.1.1/lidR/R/lastrees.r | 6 lidR-2.1.1/lidR/R/plot.r | 33 ++ lidR-2.1.1/lidR/R/tree_detection.r | 13 - lidR-2.1.1/lidR/R/tree_hulls.r | 22 - lidR-2.1.1/lidR/R/tree_metrics.r | 23 - lidR-2.1.1/lidR/R/utils_assertive.r | 55 +++- lidR-2.1.1/lidR/R/utils_define_constant.R | 9 lidR-2.1.1/lidR/R/utils_delaunay.R |only lidR-2.1.1/lidR/R/utils_is.r | 3 lidR-2.1.1/lidR/R/utils_raster.r | 88 ++++--- lidR-2.1.1/lidR/README.md | 2 lidR-2.1.1/lidR/inst/doc/lidR-LAS-class.html | 6 lidR-2.1.1/lidR/inst/doc/lidR-LAScatalog-class.html | 6 lidR-2.1.1/lidR/inst/doc/lidR-catalog-apply-examples.html | 6 lidR-2.1.1/lidR/inst/doc/lidR-computation-speed-LAScatalog.html | 8 lidR-2.1.1/lidR/man/highest.Rd | 2 lidR-2.1.1/lidR/man/homogenize.Rd | 2 lidR-2.1.1/lidR/man/knnidw.Rd | 2 lidR-2.1.1/lidR/man/kriging.Rd | 2 lidR-2.1.1/lidR/man/lasmetrics.Rd | 4 lidR-2.1.1/lidR/man/lidR-package.Rd | 9 lidR-2.1.1/lidR/man/rOverlay.Rd |only lidR-2.1.1/lidR/man/random.Rd | 2 lidR-2.1.1/lidR/man/tin.Rd | 2 lidR-2.1.1/lidR/src/C_algorithm-dec.cpp |only lidR-2.1.1/lidR/src/Makevars | 1 lidR-2.1.1/lidR/src/Makevars.win | 1 lidR-2.1.1/lidR/src/RasterProcessors.cpp | 5 lidR-2.1.1/lidR/src/RcppExports.cpp | 14 + lidR-2.1.1/lidR/tests/testthat/Rplots.pdf |binary lidR-2.1.1/lidR/tests/testthat/test-catalog_apply.R | 2 lidR-2.1.1/lidR/tests/testthat/test-grid_metrics.R | 1 lidR-2.1.1/lidR/tests/testthat/test-grid_terrain.R | 2 64 files changed, 544 insertions(+), 460 deletions(-)
Title: Statistical Quantification of Individual Differences
Description: A simulation-based tool made to help researchers to become familiar with
multilevel variations, and to build up sampling designs for their study.
This tool has two main objectives: First, it provides an educational tool useful for students,
teachers and researchers who want to learn to use mixed-effects models.
Users can experience how the mixed-effects model framework can be used to understand
distinct biological phenomena by interactively exploring simulated multilevel data.
Second, it offers research opportunities to those who are already familiar with
mixed-effects models, as it enables the generation of data sets that users may download
and use for a range of simulation-based statistical analyses such as power
and sensitivity analysis of multilevel and multivariate data [Allegue, H., Araya-Ajoy, Y.G., Dingemanse,
N.J., Dochtermann N.A., Garamszegi, L.Z., Nakagawa, S., Reale, D., Schielzeth, H. and Westneat, D.F. (2016)
<doi: 10.1111/2041-210X.12659>].
Author: Hassen Allegue [aut, cre],
Yimen G. Araya-Ajoy [aut],
Niels J. Dingemanse [aut],
Ned A. Dochtermann [aut],
Laszlo Z. Garamszegi [aut],
Shinichi Nakagawa [aut],
Denis Reale [aut],
Holger Schielzeth [aut],
David F. Westneat [aut]
Maintainer: Hassen Allegue <h.all@disroot.org>
Diff between squid versions 0.1.1 dated 2016-06-20 and 0.1.2 dated 2019-08-06
DESCRIPTION | 24 MD5 | 45 NEWS.md | 27 R/getEnvironment.R | 2 R/getFullData.R | 34 R/setVariables.R | 46 R/squidR.R | 2 README.md | 215 +++- inst/shiny-squid/source/SVRsource.R | 1 inst/shiny-squid/source/pages/Rcode |only inst/shiny-squid/source/pages/fullModel/UIfullModel.R | 1 inst/shiny-squid/source/pages/fullModelSbyS/UIfullModelSbySInput.R | 2 inst/shiny-squid/source/server/fullmodel/SVRFullModel.R | 511 +++++----- inst/shiny-squid/source/server/fullmodel/SVRGetSummaryVariances.R | 22 inst/shiny-squid/source/server/fullmodel/SVRcreateRcode.R |only inst/shiny-squid/source/text/fullmodel/TXTfullmodel.R | 6 inst/shiny-squid/source/text/portal/TXTportal.R | 4 inst/shiny-squid/source/variables/fullmodel/VARfullmodel.R | 3 inst/shiny-squid/source/variables/general/VARgeneral.R | 9 inst/shiny-squid/test.R | 64 - inst/shiny-squid/ui.R | 8 man/package-squid.Rd | 2 man/squidApp.Rd | 2 man/squidR.Rd | 13 24 files changed, 630 insertions(+), 413 deletions(-)
Title: Integrated Tool for Hairping Extraction of RNA Sequences
Description: Simple and integrated tool that automatically extracts and folds all hairpin sequences from raw genome-wide data. It predicts the secondary structure of several overlapped segments, with longer length than the mean length of sequences of interest for the species under processing, ensuring that no one is lost nor inappropriately cut.
Author: Cristian Yones
Maintainer: Cristian Yones <cyones@sinc.unl.edu.ar>
Diff between HextractoR versions 1.3 dated 2018-10-19 and 1.4 dated 2019-08-06
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- R/HextractoR.R | 13 +++++++------ R/execBlast.R | 13 +++++++------ R/extractStems.R | 7 ++++--- R/separateSequences.R | 8 ++++---- R/splitFasta.R | 2 +- README | 21 +++++++++++---------- man/HextractoR.Rd | 4 ++-- 9 files changed, 48 insertions(+), 44 deletions(-)
Title: Convert Plot to 'grob' or 'ggplot' Object
Description: Convert plot function call (using expression or formula) to 'grob' or 'ggplot' object that compatible to the 'grid' and 'ggplot2' ecosystem. With this package, we are able to e.g. using 'cowplot' to align plots produced by 'base' graphics, 'grid', 'lattice', 'vcd' etc. by converting them to 'ggplot' objects.
Author: Guangchuang Yu [aut, cre] (<https://orcid.org/0000-0002-6485-8781>)
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between ggplotify versions 0.0.3 dated 2018-08-03 and 0.0.4 dated 2019-08-06
DESCRIPTION | 8 +- MD5 | 14 +-- NAMESPACE | 2 NEWS.md | 6 + R/as-grob.R | 15 +++ build/vignette.rds |binary inst/doc/ggplotify.html | 189 +++++++++++++++++++++++++++--------------------- man/as-grob.Rd | 6 + 8 files changed, 148 insertions(+), 92 deletions(-)
Title: Facilities for Simulating from ODE-Based Models
Description: Facilities for running simulations from ordinary
differential equation (ODE) models, such as pharmacometrics and other
compartmental models. A compilation manager translates the ODE model
into C, compiles it, and dynamically loads the object code into R for
improved computational efficiency. An event table object facilitates
the specification of complex dosing regimens (optional) and sampling
schedules. NB: The use of this package requires both C and
Fortran compilers, for details on their use with R please see
Section 6.3, Appendix A, and Appendix D in the "R Administration and
Installation" manual. Also the code is mostly released under GPL. The
VODE and LSODA are in the public domain. The information is available
in the inst/COPYRIGHTS.
Author: Matthew L. Fidler [aut] (<https://orcid.org/0000-0001-8538-6691>),
Melissa Hallow [aut],
Wenping Wang [aut, cre],
Zufar Mulyukov [ctb],
Justin Wilkins [ctb] (<https://orcid.org/0000-0002-7099-9396>),
Simon Frost [ctb],
Heng Li [ctb],
Yu Feng [ctb],
Alan Hindmarsh [ctb],
Linda Petzold [ctb],
Ernst Hairer [ctb],
Gerhard Wanner [ctb],
J Colinge [ctb],
Hadley Wickham [ctb],
G Grothendieck [ctb],
Robert Gentleman [ctb],
Ross Ihaka [ctb],
R core team [cph],
odepack authors [cph]
Maintainer: Wenping Wang <wwang8198@gmail.com>
Diff between RxODE versions 0.9.1-2 dated 2019-08-01 and 0.9.1-3 dated 2019-08-06
DESCRIPTION | 6 MD5 | 53 +-- NAMESPACE | 1 R/RcppExports.R | 17 + R/RxODE.R | 3 R/rxode-options.R | 2 inst/doc/RxODE-cmt.html | 12 inst/doc/RxODE-covariates.html | 16 - inst/doc/RxODE-data-frame.html | 10 inst/doc/RxODE-events.html | 66 ++-- inst/doc/RxODE-intro.html | 8 inst/doc/RxODE-model-types.html | 8 inst/doc/RxODE-shiny.html | 4 inst/doc/RxODE-stiff.html | 4 inst/doc/RxODE-syntax.html | 4 inst/doc/RxODE-transit-compartments.html | 8 inst/include/RxODE.h | 4 inst/include/RxODE_RcppExports.h | 21 + man/rxSetIni0.Rd |only man/rxSolveFree.Rd | 2 src/RcppExports.cpp | 47 +++ src/etTran.cpp | 107 ++++++- src/init.c | 4 src/par_solve.c | 471 ++++++++++++++++++++++++------- src/rxData.cpp | 76 +++-- src/tran.c | 232 ++++++++++----- tests/testthat/test-etTrans.R | 99 ++++++ tests/testthat/test-rhs.R | 16 - 28 files changed, 990 insertions(+), 311 deletions(-)
Title: Machine Learning in R
Description: Interface to a large number of classification and
regression techniques, including machine-readable parameter
descriptions. There is also an experimental extension for survival
analysis, clustering and general, example-specific cost-sensitive
learning. Generic resampling, including cross-validation,
bootstrapping and subsampling. Hyperparameter tuning with modern
optimization techniques, for single- and multi-objective problems.
Filter and wrapper methods for feature selection. Extension of basic
learners with additional operations common in machine learning, also
allowing for easy nested resampling. Most operations can be
parallelized.
Author: Bernd Bischl [aut] (<https://orcid.org/0000-0001-6002-6980>),
Michel Lang [aut] (<https://orcid.org/0000-0001-9754-0393>),
Lars Kotthoff [aut],
Julia Schiffner [aut],
Jakob Richter [aut],
Zachary Jones [aut],
Giuseppe Casalicchio [aut] (<https://orcid.org/0000-0001-5324-5966>),
Mason Gallo [aut],
Patrick Schratz [aut, cre] (<https://orcid.org/0000-0003-0748-6624>),
Jakob Bossek [ctb] (<https://orcid.org/0000-0002-4121-4668>),
Erich Studerus [ctb] (<https://orcid.org/0000-0003-4233-0182>),
Leonard Judt [ctb],
Tobias Kuehn [ctb],
Pascal Kerschke [ctb] (<https://orcid.org/0000-0003-2862-1418>),
Florian Fendt [ctb],
Philipp Probst [ctb] (<https://orcid.org/0000-0001-8402-6790>),
Xudong Sun [ctb] (<https://orcid.org/0000-0003-3269-2307>),
Janek Thomas [ctb] (<https://orcid.org/0000-0003-4511-6245>),
Bruno Vieira [ctb],
Laura Beggel [ctb] (<https://orcid.org/0000-0002-8872-8535>),
Quay Au [ctb] (<https://orcid.org/0000-0002-5252-8902>),
Martin Binder [ctb],
Florian Pfisterer [ctb],
Stefan Coors [ctb],
Steve Bronder [ctb],
Alexander Engelhardt [ctb],
Christoph Molnar [ctb]
Maintainer: Patrick Schratz <patrick.schratz@gmail.com>
Diff between mlr versions 2.14.0 dated 2019-04-25 and 2.15.0 dated 2019-08-06
mlr-2.14.0/mlr/R/RLearner_classif_liquidSVM.R |only mlr-2.14.0/mlr/R/RLearner_regr_liquidSVM.R |only mlr-2.14.0/mlr/tests/testthat/test_classif_liquidSVM.R |only mlr-2.14.0/mlr/tests/testthat/test_regr_liquidSVM.R |only mlr-2.15.0/mlr/DESCRIPTION | 22 mlr-2.15.0/mlr/MD5 | 1261 +++++----- mlr-2.15.0/mlr/NAMESPACE | 18 mlr-2.15.0/mlr/NEWS.md | 64 mlr-2.15.0/mlr/R/Aggregation.R | 6 mlr-2.15.0/mlr/R/BaggingWrapper.R | 14 mlr-2.15.0/mlr/R/BaseEnsemble.R | 15 mlr-2.15.0/mlr/R/BaseEnsemble_operators.R | 18 mlr-2.15.0/mlr/R/BaseWrapper.R | 13 mlr-2.15.0/mlr/R/BaseWrapper_operators.R | 13 mlr-2.15.0/mlr/R/BenchmarkResultOrderLevels.R | 8 mlr-2.15.0/mlr/R/BenchmarkResult_operators.R | 54 mlr-2.15.0/mlr/R/ChainModel.R | 10 mlr-2.15.0/mlr/R/ChainModel_operators.R | 3 mlr-2.15.0/mlr/R/ClassifTask.R | 16 mlr-2.15.0/mlr/R/ClusterTask.R | 4 mlr-2.15.0/mlr/R/ConstantClassWrapper.R | 10 mlr-2.15.0/mlr/R/CostSensClassifWrapper.R | 6 mlr-2.15.0/mlr/R/CostSensTask.R | 19 mlr-2.15.0/mlr/R/CostSensWeightedPairsWrapper.R | 1 mlr-2.15.0/mlr/R/DownsampleWrapper.R | 4 mlr-2.15.0/mlr/R/DummyFeaturesWrapper.R | 1 mlr-2.15.0/mlr/R/FailureModel.R | 15 mlr-2.15.0/mlr/R/FeatSelControl.R | 17 mlr-2.15.0/mlr/R/FeatSelControlExhaustive.R | 1 mlr-2.15.0/mlr/R/FeatSelControlGA.R | 4 mlr-2.15.0/mlr/R/FeatSelControlRandom.R | 1 mlr-2.15.0/mlr/R/FeatSelControlSequential.R | 1 mlr-2.15.0/mlr/R/FeatSelResult.R | 6 mlr-2.15.0/mlr/R/FeatSelWrapper.R | 10 mlr-2.15.0/mlr/R/Filter.R | 230 - mlr-2.15.0/mlr/R/FilterEnsemble.R |only mlr-2.15.0/mlr/R/FilterWrapper.R | 128 - mlr-2.15.0/mlr/R/HomogeneousEnsemble.R | 9 mlr-2.15.0/mlr/R/Impute.R | 36 mlr-2.15.0/mlr/R/ImputeMethods.R | 47 mlr-2.15.0/mlr/R/ImputeWrapper.R | 1 mlr-2.15.0/mlr/R/Learner.R | 3 mlr-2.15.0/mlr/R/Learner_operators.R | 12 mlr-2.15.0/mlr/R/Measure.R | 22 mlr-2.15.0/mlr/R/Measure_colAUC.R | 13 mlr-2.15.0/mlr/R/Measure_custom_resampled.R | 2 mlr-2.15.0/mlr/R/Measure_make_cost.R | 15 mlr-2.15.0/mlr/R/ModelMultiplexer.R | 13 mlr-2.15.0/mlr/R/ModelMultiplexerParamSet.R | 16 mlr-2.15.0/mlr/R/MulticlassWrapper.R | 26 mlr-2.15.0/mlr/R/MultilabelBinaryRelevanceWrapper.R | 6 mlr-2.15.0/mlr/R/MultilabelClassifierChainsWrapper.R | 10 mlr-2.15.0/mlr/R/MultilabelDBRWrapper.R | 2 mlr-2.15.0/mlr/R/MultilabelNestedStackingWrapper.R | 11 mlr-2.15.0/mlr/R/MultilabelStackingWrapper.R | 4 mlr-2.15.0/mlr/R/MultilabelTask.R | 10 mlr-2.15.0/mlr/R/NoFeaturesModel.R | 6 mlr-2.15.0/mlr/R/OptControl.R | 4 mlr-2.15.0/mlr/R/OverBaggingWrapper.R | 8 mlr-2.15.0/mlr/R/OverUnderSampling.R | 1 mlr-2.15.0/mlr/R/OverUndersampleWrapper.R | 5 mlr-2.15.0/mlr/R/Prediction.R | 8 mlr-2.15.0/mlr/R/Prediction_operators.R | 26 mlr-2.15.0/mlr/R/PreprocWrapper.R | 13 mlr-2.15.0/mlr/R/PreprocWrapperCaret.R | 17 mlr-2.15.0/mlr/R/RLearner.R | 10 mlr-2.15.0/mlr/R/RLearner_classif_C50.R | 40 mlr-2.15.0/mlr/R/RLearner_classif_IBk.R | 2 mlr-2.15.0/mlr/R/RLearner_classif_J48.R | 2 mlr-2.15.0/mlr/R/RLearner_classif_JRip.R | 2 mlr-2.15.0/mlr/R/RLearner_classif_LiblineaRL1L2SVC.R | 2 mlr-2.15.0/mlr/R/RLearner_classif_LiblineaRL1LogReg.R | 5 mlr-2.15.0/mlr/R/RLearner_classif_LiblineaRL2L1SVC.R | 2 mlr-2.15.0/mlr/R/RLearner_classif_LiblineaRL2LogReg.R | 5 mlr-2.15.0/mlr/R/RLearner_classif_LiblineaRL2SVC.R | 2 mlr-2.15.0/mlr/R/RLearner_classif_LiblineaRMultiClassSVC.R | 2 mlr-2.15.0/mlr/R/RLearner_classif_OneR.R | 2 mlr-2.15.0/mlr/R/RLearner_classif_PART.R | 2 mlr-2.15.0/mlr/R/RLearner_classif_RRF.R | 9 mlr-2.15.0/mlr/R/RLearner_classif_ada.R | 6 mlr-2.15.0/mlr/R/RLearner_classif_adaboostm1.R | 2 mlr-2.15.0/mlr/R/RLearner_classif_bartMachine.R | 4 mlr-2.15.0/mlr/R/RLearner_classif_binomial.R | 2 mlr-2.15.0/mlr/R/RLearner_classif_bst.R | 2 mlr-2.15.0/mlr/R/RLearner_classif_cforest.R | 4 mlr-2.15.0/mlr/R/RLearner_classif_ctree.R | 1 mlr-2.15.0/mlr/R/RLearner_classif_cvglmnet.R | 4 mlr-2.15.0/mlr/R/RLearner_classif_dbnDNN.R | 2 mlr-2.15.0/mlr/R/RLearner_classif_dcSVM.R | 4 mlr-2.15.0/mlr/R/RLearner_classif_earth.R | 2 mlr-2.15.0/mlr/R/RLearner_classif_evtree.R | 1 mlr-2.15.0/mlr/R/RLearner_classif_extraTrees.R | 3 mlr-2.15.0/mlr/R/RLearner_classif_fdausc.kernel.R | 1 mlr-2.15.0/mlr/R/RLearner_classif_fdausc.knn.R | 4 mlr-2.15.0/mlr/R/RLearner_classif_fdausc.np.R | 1 mlr-2.15.0/mlr/R/RLearner_classif_featureless.R | 1 mlr-2.15.0/mlr/R/RLearner_classif_fnn.R | 4 mlr-2.15.0/mlr/R/RLearner_classif_gamboost.R | 14 mlr-2.15.0/mlr/R/RLearner_classif_gausspr.R | 7 mlr-2.15.0/mlr/R/RLearner_classif_gbm.R | 12 mlr-2.15.0/mlr/R/RLearner_classif_geoDA.R | 4 mlr-2.15.0/mlr/R/RLearner_classif_glmboost.R | 14 mlr-2.15.0/mlr/R/RLearner_classif_glmnet.R | 4 mlr-2.15.0/mlr/R/RLearner_classif_h2odeeplearning.R | 15 mlr-2.15.0/mlr/R/RLearner_classif_h2ogbm.R | 10 mlr-2.15.0/mlr/R/RLearner_classif_h2oglm.R | 11 mlr-2.15.0/mlr/R/RLearner_classif_h2orandomForest.R | 8 mlr-2.15.0/mlr/R/RLearner_classif_kknn.R | 10 mlr-2.15.0/mlr/R/RLearner_classif_knn.R | 3 mlr-2.15.0/mlr/R/RLearner_classif_ksvm.R | 15 mlr-2.15.0/mlr/R/RLearner_classif_lda.R | 8 mlr-2.15.0/mlr/R/RLearner_classif_linDA.R | 6 mlr-2.15.0/mlr/R/RLearner_classif_logreg.R | 2 mlr-2.15.0/mlr/R/RLearner_classif_lssvm.R | 9 mlr-2.15.0/mlr/R/RLearner_classif_lvq1.R | 3 mlr-2.15.0/mlr/R/RLearner_classif_mda.R | 2 mlr-2.15.0/mlr/R/RLearner_classif_mlp.R | 2 mlr-2.15.0/mlr/R/RLearner_classif_multinom.R | 4 mlr-2.15.0/mlr/R/RLearner_classif_naiveBayes.R | 2 mlr-2.15.0/mlr/R/RLearner_classif_neuralnet.R | 29 mlr-2.15.0/mlr/R/RLearner_classif_nnet.R | 19 mlr-2.15.0/mlr/R/RLearner_classif_pamr.R | 2 mlr-2.15.0/mlr/R/RLearner_classif_penalized.R | 4 mlr-2.15.0/mlr/R/RLearner_classif_plr.R | 14 mlr-2.15.0/mlr/R/RLearner_classif_plsdaCaret.R | 6 mlr-2.15.0/mlr/R/RLearner_classif_probit.R | 3 mlr-2.15.0/mlr/R/RLearner_classif_qda.R | 7 mlr-2.15.0/mlr/R/RLearner_classif_quaDA.R | 6 mlr-2.15.0/mlr/R/RLearner_classif_randomForest.R | 12 mlr-2.15.0/mlr/R/RLearner_classif_rda.R | 5 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mlr-2.15.0/mlr/tests/testthat/test_regr_mob.R | 4 mlr-2.15.0/mlr/tests/testthat/test_regr_nnet.R | 4 mlr-2.15.0/mlr/tests/testthat/test_regr_penalized.R | 4 mlr-2.15.0/mlr/tests/testthat/test_regr_randomForest.R | 4 mlr-2.15.0/mlr/tests/testthat/test_regr_ranger.R | 24 mlr-2.15.0/mlr/tests/testthat/test_regr_rknn.R | 14 mlr-2.15.0/mlr/tests/testthat/test_regr_rpart.R | 2 mlr-2.15.0/mlr/tests/testthat/test_regr_slim.R | 2 mlr-2.15.0/mlr/tests/testthat/test_regr_svm.R | 10 mlr-2.15.0/mlr/tests/testthat/test_regr_xgboost.R | 10 mlr-2.15.0/mlr/tests/testthat/test_stack.R | 10 mlr-2.15.0/mlr/tests/testthat/test_surv_CoxBoost.R | 4 mlr-2.15.0/mlr/tests/testthat/test_surv_coxph.R | 2 mlr-2.15.0/mlr/tests/testthat/test_surv_cv.CoxBoost.R | 3 mlr-2.15.0/mlr/tests/testthat/test_surv_cvglmnet.R | 2 mlr-2.15.0/mlr/tests/testthat/test_surv_gamboost.R | 3 mlr-2.15.0/mlr/tests/testthat/test_surv_gbm.R | 2 mlr-2.15.0/mlr/tests/testthat/test_surv_glmboost.R | 2 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Title: Advanced Statistical Methods to Model and Adjust for Bias in
Meta-Analysis
Description: The following methods are implemented to evaluate how sensitive the results of a meta-analysis are to potential bias in meta-analysis and to support Schwarzer et al. (2015) <DOI:10.1007/978-3-319-21416-0>, Chapter 5 'Small-Study Effects in Meta-Analysis':
- Copas selection model described in Copas & Shi (2001) <DOI:10.1177/096228020101000402>;
- limit meta-analysis by Rücker et al. (2011) <DOI:10.1093/biostatistics/kxq046>;
- upper bound for outcome reporting bias by Copas & Jackson (2004) <DOI:10.1111/j.0006-341X.2004.00161.x>;
- imputation methods for missing binary data by Gamble & Hollis (2005) <DOI:10.1016/j.jclinepi.2004.09.013> and Higgins et al. (2008) <DOI:10.1177/1740774508091600>.
Author: Guido Schwarzer [cre, aut] (<https://orcid.org/0000-0001-6214-9087>),
James R. Carpenter [aut] (<https://orcid.org/0000-0003-3890-6206>),
Gerta Rücker [aut] (<https://orcid.org/0000-0002-2192-2560>)
Maintainer: Guido Schwarzer <sc@imbi.uni-freiburg.de>
Diff between metasens versions 0.3-2 dated 2017-12-05 and 0.4-0 dated 2019-08-06
metasens-0.3-2/metasens/data/Crowther2003.txt.gz |only metasens-0.3-2/metasens/data/nsaids.txt.gz |only metasens-0.3-2/metasens/man/nsaids.Rd |only metasens-0.4-0/metasens/DESCRIPTION | 35 metasens-0.4-0/metasens/MD5 | 77 - metasens-0.4-0/metasens/NAMESPACE | 84 + metasens-0.4-0/metasens/NEWS | 130 +-- metasens-0.4-0/metasens/R/Crowther2003.R |only metasens-0.4-0/metasens/R/Moore1998.R |only metasens-0.4-0/metasens/R/copas.R | 370 ++++++++ metasens-0.4-0/metasens/R/copas.loglik.with.beta.R | 3 metasens-0.4-0/metasens/R/copas.loglik.without.beta.R | 3 metasens-0.4-0/metasens/R/forest.orbbound.R | 69 + metasens-0.4-0/metasens/R/funnel.limitmeta.R | 96 ++ metasens-0.4-0/metasens/R/lambda.R | 3 metasens-0.4-0/metasens/R/limitmeta.R | 148 +++ metasens-0.4-0/metasens/R/metamiss.R |only metasens-0.4-0/metasens/R/metasens-package.R |only metasens-0.4-0/metasens/R/orbbound.R | 88 ++ metasens-0.4-0/metasens/R/plot.copas.R | 161 +++ metasens-0.4-0/metasens/R/print.copas.R | 68 + metasens-0.4-0/metasens/R/print.limitmeta.R | 48 + metasens-0.4-0/metasens/R/print.orbbound.R | 71 + metasens-0.4-0/metasens/R/print.summary.copas.R | 86 + metasens-0.4-0/metasens/R/print.summary.limitmeta.R | 71 + metasens-0.4-0/metasens/R/radialregression.R | 3 metasens-0.4-0/metasens/R/summary.copas.R | 76 + metasens-0.4-0/metasens/R/summary.limitmeta.R | 31 metasens-0.4-0/metasens/data/Crowther2003.rda |only metasens-0.4-0/metasens/data/Moore1998.rda |only metasens-0.4-0/metasens/man/Crowther2003.Rd | 45 - metasens-0.4-0/metasens/man/Moore1998.Rd |only metasens-0.4-0/metasens/man/copas.Rd | 736 ++++++++--------- metasens-0.4-0/metasens/man/forest.orbbound.Rd | 140 +-- metasens-0.4-0/metasens/man/funnel.limitmeta.Rd | 198 ++-- metasens-0.4-0/metasens/man/limitmeta.Rd | 286 +++--- metasens-0.4-0/metasens/man/metamiss.Rd |only metasens-0.4-0/metasens/man/metasens-package.Rd | 136 +-- metasens-0.4-0/metasens/man/orbbound.Rd | 149 +-- metasens-0.4-0/metasens/man/plot.copas.Rd | 305 +++---- metasens-0.4-0/metasens/man/print.copas.Rd | 212 +--- metasens-0.4-0/metasens/man/print.limitmeta.Rd | 137 --- metasens-0.4-0/metasens/man/print.orbbound.Rd | 136 +-- metasens-0.4-0/metasens/man/print.summary.copas.Rd |only metasens-0.4-0/metasens/man/print.summary.limitmeta.Rd |only metasens-0.4-0/metasens/man/summary.copas.Rd |only metasens-0.4-0/metasens/man/summary.limitmeta.Rd |only 47 files changed, 2800 insertions(+), 1401 deletions(-)
Title: Interface to 'HDFql' API
Description: Provides an interface to 'HDFql' <http://www.hdfql.com/>
and helper functions for reading data from and writing data to 'HDF5' files. 'HDFql'
provides a high-level language for managing 'HDF5' data that is platform independent.
For more information, see the reference manual
<http://www.hdfql.com/resources/HDFqlReferenceManual.pdf>.
Author: Michael Koohafkan [aut, cre]
Maintainer: Michael Koohafkan <michael.koohafkan@gmail.com>
Diff between hdfqlr versions 0.6-0 dated 2019-08-03 and 0.6-1 dated 2019-08-06
DESCRIPTION | 6 +-- MD5 | 14 ++++---- NAMESPACE | 1 R/connect.r | 14 ++++---- R/zzz.r | 10 ++++-- inst/doc/lowlevel.html | 81 ++++++++++++++++++++++++++----------------------- inst/doc/lowlevel.rmd | 59 +++++++++++++++++++++-------------- vignettes/lowlevel.rmd | 59 +++++++++++++++++++++-------------- 8 files changed, 140 insertions(+), 104 deletions(-)
Title: Extracts Environmental Data from 'ERDDAP' Web Services
Description: Contains three functions that access
environmental data from any 'ERDDAP' data web service. The rxtracto() function extracts
data along a trajectory for a given "radius" around the point. The
rxtracto_3D() function extracts data in a box. The rxtractogon() function
extracts data in a polygon. All of those three function use the 'rerddap' package
to extract the data, and should work with any 'ERDDAP' server.
There are also two functions, plotBBox() and plotTrack() that use the 'plotdap'
package to simplify the creation of maps of the data.
Author: Roy Mendelssohn [aut, cre]
Maintainer: Roy Mendelssohn <roy.mendelssohn@noaa.gov>
Diff between rerddapXtracto versions 0.4.0 dated 2019-07-24 and 0.4.1 dated 2019-08-06
rerddapXtracto-0.4.0/rerddapXtracto/data/Marlintag38606.rda |only rerddapXtracto-0.4.0/rerddapXtracto/data/mbnms.rda |only rerddapXtracto-0.4.1/rerddapXtracto/DESCRIPTION | 8 +- rerddapXtracto-0.4.1/rerddapXtracto/MD5 | 21 +++---- rerddapXtracto-0.4.1/rerddapXtracto/NEWS.md | 7 ++ rerddapXtracto-0.4.1/rerddapXtracto/R/data_extract_read.R | 20 +++++- rerddapXtracto-0.4.1/rerddapXtracto/R/getFIleCoords.R | 16 ++++- rerddapXtracto-0.4.1/rerddapXtracto/R/rxtracto.R | 29 ++++++++-- rerddapXtracto-0.4.1/rerddapXtracto/R/rxtracto_3D.R | 8 ++ rerddapXtracto-0.4.1/rerddapXtracto/README.md | 4 - rerddapXtracto-0.4.1/rerddapXtracto/data/Marlingtag38606.RData |only rerddapXtracto-0.4.1/rerddapXtracto/data/dataInfo.RData |binary rerddapXtracto-0.4.1/rerddapXtracto/inst/doc/UsingrerddapXtracto.html | 18 +++--- 13 files changed, 95 insertions(+), 36 deletions(-)
More information about rerddapXtracto at CRAN
Permanent link
Title: General Package for Meta-Analysis
Description: User-friendly general package providing standard methods for meta-analysis and supporting Schwarzer, Carpenter, and Rücker <DOI:10.1007/978-3-319-21416-0>, "Meta-Analysis with R" (2015):
- fixed effect and random effects meta-analysis;
- several plots (forest, funnel, Galbraith / radial, L'Abbe, Baujat, bubble);
- statistical tests and trim-and-fill method to evaluate bias in meta-analysis;
- import data from 'RevMan 5';
- prediction interval, Hartung-Knapp and Paule-Mandel method for random effects model;
- cumulative meta-analysis and leave-one-out meta-analysis;
- meta-regression;
- generalised linear mixed models;
- produce forest plot summarising several (subgroup) meta-analyses.
Author: Guido Schwarzer [cre, aut] (<https://orcid.org/0000-0001-6214-9087>)
Maintainer: Guido Schwarzer <sc@imbi.uni-freiburg.de>
Diff between meta versions 4.9-5 dated 2019-04-11 and 4.9-6 dated 2019-08-06
DESCRIPTION | 8 MD5 | 85 ++++---- NAMESPACE | 7 NEWS | 52 +++++ R/Fleiss93.R | 2 R/Fleiss93cont.R | 2 R/Olkin95.R | 2 R/amlodipine.R | 2 R/catmeth.R | 28 ++ R/chkcolor.R |only R/ciAgrestiCoull.R | 7 R/cisapride.R | 2 R/forest-internal.R | 90 ++++++--- R/forest.R | 506 +++++++++++++++++++++++++++++++--------------------- R/meta-package.R | 3 R/metabin.R | 37 +-- R/metabind.R | 1 R/metacr.R | 5 R/metainc.R | 29 +- R/metamean.R | 2 R/metaprop.R | 11 - R/metarate.R | 7 R/nnt.R |only R/paulemandel.R | 6 R/print.meta.R | 26 ++ R/smoking.R | 22 +- R/subgroup.R | 1 R/summary.meta.R | 52 ++++- R/woodyplants.R | 2 man/Fleiss93.Rd | 3 man/Fleiss93cont.Rd | 3 man/Olkin95.Rd | 3 man/amlodipine.Rd | 3 man/cisapride.Rd | 3 man/forest.Rd | 69 +++++-- man/meta-package.Rd | 3 man/metabin.Rd | 37 +-- man/metacr.Rd | 5 man/metainc.Rd | 29 +- man/metamean.Rd | 2 man/metaprop.Rd | 9 man/metarate.Rd | 7 man/nnt.Rd |only man/smoking.Rd | 23 +- man/woodyplants.Rd | 3 45 files changed, 737 insertions(+), 462 deletions(-)
Title: Estimation of the Extremal Index
Description: Performs frequentist inference for the extremal index of a
stationary time series. Two types of methodology are used. One type is
based on a model that relates the distribution of block maxima to the
marginal distribution of series and leads to the semiparametric maxima
estimators described in Northrop (2015) <doi:10.1007/s10687-015-0221-5> and
Berghaus and Bucher (2018) <doi:10.1214/17-AOS1621>. Sliding block maxima
are used to increase precision of estimation. The other type of methodology
uses a model for the distribution of threshold inter-exceedance times
(Ferro and Segers (2003) <doi:10.1111/1467-9868.00401>). Two
versions of this type of approach are provided, following Suveges (2007)
<doi:10.1007/s10687-007-0034-2> and Suveges and Davison (2010)
<doi:10.1214/09-AOAS292>.
Author: Paul J. Northrop [aut, cre, cph],
Constantinos Christodoulides [aut, cph]
Maintainer: Paul J. Northrop <p.northrop@ucl.ac.uk>
Diff between exdex versions 1.0.0 dated 2019-08-03 and 1.0.1 dated 2019-08-06
DESCRIPTION | 8 ++++---- MD5 | 25 +++++++++++++------------ NEWS.md |only R/choose_b.R | 4 ++-- R/choose_uk.R | 2 +- R/confidence_intervals.R | 20 +++++++++++--------- README.md | 4 ++-- inst/doc/exdex-vignette.Rmd | 4 ++-- inst/doc/exdex-vignette.html | 8 ++++---- man/choose_b.Rd | 4 ++-- man/confint.spm.Rd | 20 +++++++++++--------- man/plot.choose_uk.Rd | 2 +- src/maxima.cpp | 2 +- vignettes/exdex-vignette.Rmd | 4 ++-- 14 files changed, 56 insertions(+), 51 deletions(-)
Title: Visible Vowels: Visualization of Vowel Variation
Description: Visualizes vowel variation in f0, F1, F2, F3 and duration.
Author: Wilbert Heeringa, Hans Van de Velde
Maintainer: Wilbert Heeringa <wjheeringa@gmail.com>
Diff between visvow versions 0.6.0 dated 2019-07-01 and 0.7.0 dated 2019-08-06
DESCRIPTION | 6 MD5 | 8 - R/visvow.R | 340 ++++++++++++++++++++++++++++++++++++++++++++--------- build/partial.rdb |binary build/vignette.rds |binary 5 files changed, 292 insertions(+), 62 deletions(-)
Title: A Time Input Widget for Shiny
Description: Provides a time input widget for Shiny. This widget allows intuitive time input in the
'[hh]:[mm]:[ss]' or '[hh]:[mm]' (24H) format by using a separate numeric input for each time
component. The interface with R uses date-time objects. See the project page for more
information and examples.
Author: Gerhard Burger [aut, cre] (<https://orcid.org/0000-0003-1062-5576>)
Maintainer: Gerhard Burger <burger.ga@gmail.com>
Diff between shinyTime versions 1.0.0 dated 2019-05-28 and 1.0.1 dated 2019-08-06
DESCRIPTION | 13 +- MD5 | 11 + NEWS.md | 57 ++++++---- README.md | 15 -- inst/WORDLIST | 2 inst/example/DESCRIPTION |only inst/example/rsconnect/shinyapps.io/burgerga/shinyTimeExample.dcf | 4 7 files changed, 58 insertions(+), 44 deletions(-)
Title: Non-Negative Tensor Decomposition
Description: Some functions for performing non-negative matrix factorization, non-negative CANDECOMP/PARAFAC (CP) decomposition, non-negative Tucker decomposition, and generating toy model data. See Andrzej Cichock et al (2009) <doi:10.1002/9780470747278> and the reference section of GitHub README.md <https://github.com/rikenbit/nnTensor>, for details of the methods.
Author: Koki Tsuyuzaki, Manabu Ishii, Itoshi Nikaido
Maintainer: Koki Tsuyuzaki <k.t.the-answer@hotmail.co.jp>
Diff between nnTensor versions 1.0.0 dated 2019-07-30 and 1.0.1 dated 2019-08-06
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/jNMF.R | 2 +- R/siNMF.R | 2 +- build/partial.rdb |binary man/jNMF.Rd | 2 +- 6 files changed, 12 insertions(+), 12 deletions(-)
Title: A Companion to the Multi-CAST Collection
Description: Provides a basic interface for accessing annotation data from
the Multi-CAST collection, a database of spoken natural language texts
edited by Geoffrey Haig and Stefan Schnell. The collection draws from a
diverse set of languages and has been annotated across multiple levels.
Annotation data is downloaded on request from the servers of the
University of Bamberg. See the Multi-CAST website
<https://multicast.aspra.uni-bamberg.de/> for more information and a list
of related publications.
Author: Nils Norman Schiborr [aut, cre]
Maintainer: Nils Norman Schiborr <nils-norman.schiborr@uni-bamberg.de>
Diff between multicastR versions 1.1.0 dated 2019-05-12 and 1.2.0 dated 2019-08-06
multicastR-1.1.0/multicastR/man/mc_write_refs.Rd |only multicastR-1.2.0/multicastR/DESCRIPTION | 10 multicastR-1.2.0/multicastR/MD5 | 51 +- multicastR-1.2.0/multicastR/NAMESPACE | 7 multicastR-1.2.0/multicastR/NEWS.md | 27 - multicastR-1.2.0/multicastR/R/mc_eaf_to_tex.R | 22 - multicastR-1.2.0/multicastR/R/mc_eaf_to_tsv.R | 24 - multicastR-1.2.0/multicastR/R/mc_eaf_to_xml.R | 332 ++++++++++--------- multicastR-1.2.0/multicastR/R/mc_metadata.R |only multicastR-1.2.0/multicastR/R/mc_miscellanea.R | 54 ++- multicastR-1.2.0/multicastR/R/mc_referents.R |only multicastR-1.2.0/multicastR/R/mc_reflist.R | 175 ++++++---- multicastR-1.2.0/multicastR/R/mc_table.R | 14 multicastR-1.2.0/multicastR/R/multicast.R | 35 +- multicastR-1.2.0/multicastR/R/multicastR.R | 3 multicastR-1.2.0/multicastR/README.md |only multicastR-1.2.0/multicastR/inst/CITATION | 4 multicastR-1.2.0/multicastR/man/mc_clauses.Rd |only multicastR-1.2.0/multicastR/man/mc_count_clauses.Rd | 25 - multicastR-1.2.0/multicastR/man/mc_eaf_to_tex.Rd | 11 multicastR-1.2.0/multicastR/man/mc_eaf_to_tsv.Rd | 21 - multicastR-1.2.0/multicastR/man/mc_eaf_to_xml.Rd | 19 - multicastR-1.2.0/multicastR/man/mc_index.Rd | 8 multicastR-1.2.0/multicastR/man/mc_metadata.Rd |only multicastR-1.2.0/multicastR/man/mc_referents.Rd |only multicastR-1.2.0/multicastR/man/mc_reflist.Rd | 22 - multicastR-1.2.0/multicastR/man/mc_table.Rd | 14 multicastR-1.2.0/multicastR/man/mc_write_refs_tex.Rd |only multicastR-1.2.0/multicastR/man/mc_write_refs_tsv.Rd |only multicastR-1.2.0/multicastR/man/multicast.Rd | 23 - multicastR-1.2.0/multicastR/man/multicastR.Rd | 3 31 files changed, 501 insertions(+), 403 deletions(-)
Title: Assessing Dissimilarity Between Multivariate Time Series
Description: Provides tools to assess the dissimilarity between multivariate time-series. It is based on the psi measure described by Birks and Gordon (1985 <doi:10.1002/jqs.3390020110>), which computes dissimilarity between irregular time-series constrained by sample order. However, in this package the original idea has been extended to work with any kind of multivariate time-series, no matter whether they are regular, irregular, aligned or unaligned. Furthermore, the package allows to assess the significance of dissimilarity values by applying a restricted permutation test, allows to measure the contribution of individual variables to dissimilarity, and offers tools to transfer attributes (generally time or age, but other are possible) between sequences based on the similarity of their samples.
Author: Blas M. Benito
Maintainer: Blas M. Benito <blasbenito@gmail.com>
Diff between distantia versions 1.0.0 dated 2019-07-04 and 1.0.1 dated 2019-08-06
DESCRIPTION | 10 MD5 | 109 NAMESPACE | 5 NEWS.md | 16 R/autoSum.R | 125 R/distanceMatrix.R | 35 R/distancePairedSamples.R | 4 R/distantia.R | 4 R/leastCost.R | 84 R/leastCostPath.R | 73 R/leastCostPathNoBlocks.R |only R/plotMatrix.R | 2 R/prepareSequences.R | 13 R/psi.R | 25 R/workflowImportance.R | 20 R/workflowNullPsi.R | 3 R/workflowPartialMatch.R | 124 R/workflowPsi.R | 99 R/workflowPsiHP.R |only R/workflowSlotting.R | 4 R/workflowTransfer.R | 46 README.md |12975 ++++++------------------------ data/pollenGP.RData |binary man/autoSum.Rd | 29 man/figures/README-unnamed-chunk-10-1.png |binary man/figures/README-unnamed-chunk-11-1.png |binary man/figures/README-unnamed-chunk-17-1.png |only man/figures/README-unnamed-chunk-18-1.png |binary man/figures/README-unnamed-chunk-20-1.png |only man/figures/README-unnamed-chunk-21-1.png |only man/figures/README-unnamed-chunk-22-1.png |binary man/figures/README-unnamed-chunk-25-1.png |binary man/figures/README-unnamed-chunk-26-1.png |binary man/figures/README-unnamed-chunk-31-1.png |only man/figures/README-unnamed-chunk-33-1.png |only man/figures/README-unnamed-chunk-34-1.png |binary man/figures/README-unnamed-chunk-36-1.png |binary man/figures/README-unnamed-chunk-37-1.png |binary man/figures/README-unnamed-chunk-38-1.png |binary man/figures/README-unnamed-chunk-40-1.png |only man/figures/README-unnamed-chunk-42-1.png |binary man/figures/README-unnamed-chunk-44-1.png |binary man/figures/README-unnamed-chunk-45-1.png |only man/figures/README-unnamed-chunk-47-1.png |only man/figures/README-unnamed-chunk-49-1.png |binary man/figures/README-unnamed-chunk-52-1.png |only man/figures/README-unnamed-chunk-53-1.png |binary man/figures/README-unnamed-chunk-54-1.png |binary man/figures/README-unnamed-chunk-56-1.png |binary man/figures/README-unnamed-chunk-58-1.png |binary man/figures/README-unnamed-chunk-7-1.png |binary man/figures/README-unnamed-chunk-8-1.png |binary man/figures/README-unnamed-chunk-9-1.png |binary man/leastCost.Rd | 12 man/leastCostPathNoBlocks.Rd |only man/psi.Rd | 9 man/workflowImportance.Rd | 5 man/workflowNullPsi.Rd | 3 man/workflowPartialMatch.Rd | 3 man/workflowPsi.Rd | 4 man/workflowPsiHP.Rd |only man/workflowSlotting.Rd | 2 62 files changed, 3297 insertions(+), 10546 deletions(-)
Title: Understand and Describe Bayesian Models and Posterior
Distributions
Description: Provides utilities to describe posterior distributions and Bayesian models. It includes point-estimates such as Maximum A Posteriori (MAP), measures of dispersion (Highest Density Interval - HDI; Kruschke, 2015 <doi:10.1016/C2012-0-00477-2>) and indices used for null-hypothesis testing (such as ROPE percentage, pd and Bayes factors).
Author: Dominique Makowski [aut, cre] (<https://orcid.org/0000-0001-5375-9967>),
Daniel Lüdecke [aut] (<https://orcid.org/0000-0002-8895-3206>),
Mattan S. Ben-Shachar [aut] (<https://orcid.org/0000-0002-4287-4801>),
Michael D. Wilson [aut] (<https://orcid.org/0000-0003-4143-7308>),
Paul-Christian Bürkner [rev],
Tristan Mahr [rev] (<https://orcid.org/0000-0002-8890-5116>)
Maintainer: Dominique Makowski <dom.makowski@gmail.com>
Diff between bayestestR versions 0.2.2 dated 2019-06-20 and 0.2.5 dated 2019-08-06
bayestestR-0.2.2/bayestestR/R/bayesfactor_savagedickey.R |only bayestestR-0.2.2/bayestestR/R/print.bayesfactor_savagedickey.R |only bayestestR-0.2.2/bayestestR/R/print.hdi.R |only bayestestR-0.2.2/bayestestR/man/bayesfactor_savagedickey.Rd |only bayestestR-0.2.2/bayestestR/tests/testthat/test-bayesfactor_savagedickey.R |only bayestestR-0.2.5/bayestestR/DESCRIPTION | 37 bayestestR-0.2.5/bayestestR/MD5 | 232 ++-- bayestestR-0.2.5/bayestestR/NAMESPACE | 43 bayestestR-0.2.5/bayestestR/NEWS.md | 38 bayestestR-0.2.5/bayestestR/R/bayesfactor.R | 26 bayestestR-0.2.5/bayestestR/R/bayesfactor_inclusion.R | 24 bayestestR-0.2.5/bayestestR/R/bayesfactor_models.R | 12 bayestestR-0.2.5/bayestestR/R/bayesfactor_parameters.R |only bayestestR-0.2.5/bayestestR/R/bayesfactor_restricted.R |only bayestestR-0.2.5/bayestestR/R/ci.R | 148 -- bayestestR-0.2.5/bayestestR/R/convert_pd_to_p.R | 10 bayestestR-0.2.5/bayestestR/R/describe_posterior.R | 37 bayestestR-0.2.5/bayestestR/R/diagnostic_posterior.R | 2 bayestestR-0.2.5/bayestestR/R/effective_sample.R | 4 bayestestR-0.2.5/bayestestR/R/equivalence_test.R | 9 bayestestR-0.2.5/bayestestR/R/estimate_density.R | 24 bayestestR-0.2.5/bayestestR/R/eti.R |only bayestestR-0.2.5/bayestestR/R/hdi.R | 63 - bayestestR-0.2.5/bayestestR/R/map_estimate.R | 80 + bayestestR-0.2.5/bayestestR/R/p_direction.R | 14 bayestestR-0.2.5/bayestestR/R/p_map.R | 72 - bayestestR-0.2.5/bayestestR/R/p_rope.R | 14 bayestestR-0.2.5/bayestestR/R/plot.R | 38 bayestestR-0.2.5/bayestestR/R/point_estimate.R | 23 bayestestR-0.2.5/bayestestR/R/print.bayesfactor_inclusion.R | 29 bayestestR-0.2.5/bayestestR/R/print.bayesfactor_models.R | 33 bayestestR-0.2.5/bayestestR/R/print.bayesfactor_parameters.R |only bayestestR-0.2.5/bayestestR/R/print.bayesfactor_restricted.R |only bayestestR-0.2.5/bayestestR/R/print.ci.R |only bayestestR-0.2.5/bayestestR/R/print.p_direction.R | 4 bayestestR-0.2.5/bayestestR/R/print.p_rope.R | 4 bayestestR-0.2.5/bayestestR/R/print.rope.R | 2 bayestestR-0.2.5/bayestestR/R/reshape_ci.R |only bayestestR-0.2.5/bayestestR/R/rope.R | 32 bayestestR-0.2.5/bayestestR/R/rope_range.R | 6 bayestestR-0.2.5/bayestestR/R/sensitivity_to_prior.R |only bayestestR-0.2.5/bayestestR/R/utils.R | 33 bayestestR-0.2.5/bayestestR/R/utils_bayesfactor.R |only bayestestR-0.2.5/bayestestR/README.md | 227 +++- bayestestR-0.2.5/bayestestR/build/partial.rdb |binary bayestestR-0.2.5/bayestestR/inst/doc/bayes_factors.R | 265 +++- bayestestR-0.2.5/bayestestR/inst/doc/bayes_factors.Rmd | 446 +++++--- bayestestR-0.2.5/bayestestR/inst/doc/bayes_factors.html | 549 +++++----- bayestestR-0.2.5/bayestestR/inst/doc/bayestestR.R | 2 bayestestR-0.2.5/bayestestR/inst/doc/bayestestR.Rmd | 9 bayestestR-0.2.5/bayestestR/inst/doc/bayestestR.html | 30 bayestestR-0.2.5/bayestestR/inst/doc/credible_interval.R | 10 bayestestR-0.2.5/bayestestR/inst/doc/credible_interval.Rmd | 13 bayestestR-0.2.5/bayestestR/inst/doc/credible_interval.html | 26 bayestestR-0.2.5/bayestestR/inst/doc/example1.R | 6 bayestestR-0.2.5/bayestestR/inst/doc/example1.Rmd | 9 bayestestR-0.2.5/bayestestR/inst/doc/example1.html | 32 bayestestR-0.2.5/bayestestR/inst/doc/example2.R | 51 bayestestR-0.2.5/bayestestR/inst/doc/example2.Rmd | 130 ++ bayestestR-0.2.5/bayestestR/inst/doc/example2.html | 127 +- bayestestR-0.2.5/bayestestR/inst/doc/example3.R | 3 bayestestR-0.2.5/bayestestR/inst/doc/example3.Rmd | 21 bayestestR-0.2.5/bayestestR/inst/doc/example3.html | 20 bayestestR-0.2.5/bayestestR/inst/doc/guidelines.Rmd | 4 bayestestR-0.2.5/bayestestR/inst/doc/guidelines.html | 2 bayestestR-0.2.5/bayestestR/inst/doc/indicesEstimationComparison.R | 10 bayestestR-0.2.5/bayestestR/inst/doc/indicesEstimationComparison.Rmd | 18 bayestestR-0.2.5/bayestestR/inst/doc/indicesEstimationComparison.html | 48 bayestestR-0.2.5/bayestestR/inst/doc/indicesExistenceComparison.R | 212 --- bayestestR-0.2.5/bayestestR/inst/doc/indicesExistenceComparison.Rmd | 361 ------ bayestestR-0.2.5/bayestestR/inst/doc/indicesExistenceComparison.html | 497 --------- bayestestR-0.2.5/bayestestR/inst/doc/probability_of_direction.R | 20 bayestestR-0.2.5/bayestestR/inst/doc/probability_of_direction.Rmd | 36 bayestestR-0.2.5/bayestestR/inst/doc/probability_of_direction.html | 24 bayestestR-0.2.5/bayestestR/inst/doc/region_of_practical_equivalence.Rmd | 1 bayestestR-0.2.5/bayestestR/inst/doc/region_of_practical_equivalence.html | 32 bayestestR-0.2.5/bayestestR/man/as.numeric.p_direction.Rd | 8 bayestestR-0.2.5/bayestestR/man/bayesfactor.Rd | 24 bayestestR-0.2.5/bayestestR/man/bayesfactor_inclusion.Rd | 23 bayestestR-0.2.5/bayestestR/man/bayesfactor_models.Rd | 2 bayestestR-0.2.5/bayestestR/man/bayesfactor_parameters.Rd |only bayestestR-0.2.5/bayestestR/man/bayesfactor_restricted.Rd |only bayestestR-0.2.5/bayestestR/man/ci.Rd | 90 - bayestestR-0.2.5/bayestestR/man/density_at.Rd | 11 bayestestR-0.2.5/bayestestR/man/describe_posterior.Rd | 8 bayestestR-0.2.5/bayestestR/man/dot-extract_priors_rstanarm.Rd |only bayestestR-0.2.5/bayestestR/man/dot-prior_new_location.Rd |only bayestestR-0.2.5/bayestestR/man/dot-reoder_rows.Rd |only bayestestR-0.2.5/bayestestR/man/effective_sample.Rd | 2 bayestestR-0.2.5/bayestestR/man/estimate_density.Rd | 10 bayestestR-0.2.5/bayestestR/man/eti.Rd |only bayestestR-0.2.5/bayestestR/man/figures |only bayestestR-0.2.5/bayestestR/man/hdi.Rd | 52 bayestestR-0.2.5/bayestestR/man/map_estimate.Rd | 28 bayestestR-0.2.5/bayestestR/man/p_direction.Rd | 6 bayestestR-0.2.5/bayestestR/man/p_map.Rd | 63 - bayestestR-0.2.5/bayestestR/man/p_rope.Rd | 9 bayestestR-0.2.5/bayestestR/man/pd_to_p.Rd | 6 bayestestR-0.2.5/bayestestR/man/point_estimate.Rd | 2 bayestestR-0.2.5/bayestestR/man/reshape_ci.Rd |only bayestestR-0.2.5/bayestestR/man/rope.Rd | 18 bayestestR-0.2.5/bayestestR/man/rope_range.Rd | 4 bayestestR-0.2.5/bayestestR/man/sensitivity_to_prior.Rd |only bayestestR-0.2.5/bayestestR/tests/testthat/test-BFBayesFactor.R | 8 bayestestR-0.2.5/bayestestR/tests/testthat/test-bayesfactor_models.R | 64 - bayestestR-0.2.5/bayestestR/tests/testthat/test-bayesfactor_parameters.R |only bayestestR-0.2.5/bayestestR/tests/testthat/test-bayesfactor_restricted.R |only bayestestR-0.2.5/bayestestR/tests/testthat/test-ci.R | 6 bayestestR-0.2.5/bayestestR/tests/testthat/test-describe_posterior.R | 2 bayestestR-0.2.5/bayestestR/tests/testthat/test-emmGrid.R | 28 bayestestR-0.2.5/bayestestR/tests/testthat/test-p_direction.R | 4 bayestestR-0.2.5/bayestestR/tests/testthat/test-p_rope.R | 10 bayestestR-0.2.5/bayestestR/tests/testthat/test-rope.R | 8 bayestestR-0.2.5/bayestestR/tests/testthat/test-rstanarm.R | 4 bayestestR-0.2.5/bayestestR/vignettes/apa.csl |only bayestestR-0.2.5/bayestestR/vignettes/bayes_factors.Rmd | 446 +++++--- bayestestR-0.2.5/bayestestR/vignettes/bayestestR.Rmd | 9 bayestestR-0.2.5/bayestestR/vignettes/bibliography.bib | 32 bayestestR-0.2.5/bayestestR/vignettes/credible_interval.Rmd | 13 bayestestR-0.2.5/bayestestR/vignettes/example1.Rmd | 9 bayestestR-0.2.5/bayestestR/vignettes/example2.Rmd | 130 ++ bayestestR-0.2.5/bayestestR/vignettes/example3.Rmd | 21 bayestestR-0.2.5/bayestestR/vignettes/guidelines.Rmd | 4 bayestestR-0.2.5/bayestestR/vignettes/indicesEstimationComparison.Rmd | 18 bayestestR-0.2.5/bayestestR/vignettes/indicesExistenceComparison.Rmd | 361 ------ bayestestR-0.2.5/bayestestR/vignettes/probability_of_direction.Rmd | 36 bayestestR-0.2.5/bayestestR/vignettes/region_of_practical_equivalence.Rmd | 1 127 files changed, 2936 insertions(+), 2978 deletions(-)
Title: Bayesian Random-Effects Meta-Analysis
Description: A collection of functions allowing to derive the posterior distribution of the two parameters in a random-effects meta-analysis, and providing functionality to evaluate joint and marginal posterior probability distributions, predictive distributions, shrinkage effects, posterior predictive p-values, etc.
Author: Christian Roever [aut, cre] (<https://orcid.org/0000-0002-6911-698X>),
Tim Friede [ctb] (<https://orcid.org/0000-0001-5347-7441>)
Maintainer: Christian Roever <christian.roever@med.uni-goettingen.de>
Diff between bayesmeta versions 2.3 dated 2018-10-11 and 2.4 dated 2019-08-06
bayesmeta-2.3/bayesmeta/data/Cochran1954.R |only bayesmeta-2.3/bayesmeta/data/CrinsEtAl2014.R |only bayesmeta-2.3/bayesmeta/data/GoralczykEtAl2011.R |only bayesmeta-2.3/bayesmeta/data/HinksEtAl2010.R |only bayesmeta-2.3/bayesmeta/data/Peto1980.R |only bayesmeta-2.3/bayesmeta/data/Rubin1981.R |only bayesmeta-2.3/bayesmeta/data/SidikJonkman2007.R |only bayesmeta-2.3/bayesmeta/data/SnedecorCochran.R |only bayesmeta-2.4/bayesmeta/DESCRIPTION | 8 bayesmeta-2.4/bayesmeta/MD5 | 44 - bayesmeta-2.4/bayesmeta/NAMESPACE | 14 bayesmeta-2.4/bayesmeta/R/bayesmeta.R | 448 +++++++++++++- bayesmeta-2.4/bayesmeta/build/vignette.rds |binary bayesmeta-2.4/bayesmeta/data/Cochran1954.rda |only bayesmeta-2.4/bayesmeta/data/CrinsEtAl2014.rda |only bayesmeta-2.4/bayesmeta/data/GoralczykEtAl2011.rda |only bayesmeta-2.4/bayesmeta/data/HinksEtAl2010.rda |only bayesmeta-2.4/bayesmeta/data/Peto1980.rda |only bayesmeta-2.4/bayesmeta/data/Rubin1981.rda |only bayesmeta-2.4/bayesmeta/data/SidikJonkman2007.rda |only bayesmeta-2.4/bayesmeta/data/SnedecorCochran.rda |only bayesmeta-2.4/bayesmeta/inst/doc/Roever2018-bayesmeta.pdf |binary bayesmeta-2.4/bayesmeta/inst/doc/bayesmeta.html | 8 bayesmeta-2.4/bayesmeta/man/GoralczykEtAl2011.Rd | 2 bayesmeta-2.4/bayesmeta/man/bayesmeta-package.Rd | 4 bayesmeta-2.4/bayesmeta/man/dhalflogistic.Rd | 11 bayesmeta-2.4/bayesmeta/man/dhalfnormal.Rd | 29 bayesmeta-2.4/bayesmeta/man/dinvchi.Rd |only bayesmeta-2.4/bayesmeta/man/dlomax.Rd | 19 bayesmeta-2.4/bayesmeta/man/drayleigh.Rd | 7 bayesmeta-2.4/bayesmeta/man/forestplot.bayesmeta.Rd | 7 bayesmeta-2.4/bayesmeta/man/funnel.bayesmeta.Rd |only 32 files changed, 527 insertions(+), 74 deletions(-)
Title: Easily Create and Style Tables for LaTeX, HTML and Other Formats
Description: Like 'xtable', creates styled tables. Export to HTML, LaTeX, 'Word',
'Excel', 'PowerPoint' and RTF. Simple, modern interface to manipulate
borders, size, position, captions, colours, text styles and number formatting.
Table cells can span multiple rows and/or columns.
Includes a 'huxreg' function for creation of regression tables, and 'quick_*'
one-liners to print data to a new document.
Author: David Hugh-Jones [aut, cre]
Maintainer: David Hugh-Jones <davidhughjones@gmail.com>
Diff between huxtable versions 4.6.0 dated 2019-06-24 and 4.6.1 dated 2019-08-06
DESCRIPTION | 6 +- MD5 | 28 +++++------ NEWS.md | 4 + R/latex.R | 8 ++- R/screen.R | 6 ++ inst/doc/design-principles.html | 47 ++++++++++++------- inst/doc/huxreg.html | 51 +++++++++++++-------- inst/doc/huxtable.html | 91 +++++++++++++++++++++----------------- inst/doc/themes.html | 55 +++++++++++++--------- tests/testthat/bookdown-test.log | 2 tests/testthat/huxreg.log | 4 - tests/testthat/huxtable.log | 4 - tests/testthat/table-tester-2.log | 4 - tests/testthat/test-print.R | 9 +++ tests/testthat/themes.log | 4 - 15 files changed, 196 insertions(+), 127 deletions(-)
Title: Interface Between GRASS 7 Geographical Information System and R
Description: Interpreted interface between 'GRASS' 7 geographical
information system and R, based on starting R from within the 'GRASS' 'GIS'
environment, or running free-standing R in a temporary 'GRASS' location;
the package provides facilities for using all 'GRASS' commands from the
R command line. This package may not be used for 'GRASS' 6, for which
'spgrass6' should be used.
Author: Roger Bivand [cre, aut],
Rainer Krug [ctb],
Markus Neteler [ctb],
Sebastian Jeworutzki [ctb]
Maintainer: Roger Bivand <Roger.Bivand@nhh.no>
Diff between rgrass7 versions 0.1-12 dated 2018-09-28 and 0.2-1 dated 2019-08-06
ChangeLog | 9 ++++ DESCRIPTION | 12 +++--- MD5 | 31 ++++++++------- NAMESPACE | 4 +- R/AAA.R | 1 R/bin_link.R | 67 +++++++++++++++++++++------------- R/initGRASS.R | 17 +++++++- R/rgrass.R | 21 ++++++++++ R/vect_link.R | 107 +++++++++++++++++++++++++++++++++++++------------------ README |only inst/ChangeLog | 9 ++++ man/execGRASS.Rd | 20 +++++++++- man/gmeta.Rd | 21 ++++++++-- man/initGRASS.Rd | 2 - man/readRAST.Rd | 53 +++++++++++++++++++++++---- man/readVECT.Rd | 70 ++++++++++++++++++++++++++++++----- man/rgrass.Rd | 25 ++++++++++-- 17 files changed, 356 insertions(+), 113 deletions(-)
More information about flightplanning at CRAN
Permanent link
More information about correlationfunnel at CRAN
Permanent link
Title: Calculate Sketches using Random Projections to Reduce Large Data
Sets
Description: Calculate sketches of a data set reducing the number of observations using random projections. These can be used for Bayesian or frequentist linear regression on large data sets as described in Geppert et. al (2017) <doi:10.1007/s11222-015-9608-z>.
Author: Leo N. Geppert [aut, cre, cph],
Katja Ickstadt [aut],
Alexander Munteanu [aut],
Jens Quedenfeld [aut, cph],
Ludger Sandig [aut, cph],
Christian Sohler [aut]
Maintainer: Leo N. Geppert <geppert@statistik.uni-dortmund.de>
Diff between RaProR versions 1.1-4 dated 2019-07-23 and 1.1-5 dated 2019-08-06
DESCRIPTION | 14 +++++------ MD5 | 6 ++--- R/sketch.R | 10 ++++++++ src/sketch.c | 69 +++++++++++++++++++++++++++++++++++------------------------ 4 files changed, 61 insertions(+), 38 deletions(-)
Title: A Common API to Modeling and Analysis Functions
Description: A common interface is provided to allow users to specify a model without having to remember the different argument names across different functions or computational engines (e.g. 'R', 'Spark', 'Stan', etc).
Author: Max Kuhn [aut, cre],
Davis Vaughan [aut],
RStudio [cph]
Maintainer: Max Kuhn <max@rstudio.com>
Diff between parsnip versions 0.0.3 dated 2019-07-31 and 0.0.3.1 dated 2019-08-06
DESCRIPTION | 10 +++++----- MD5 | 16 ++++++++-------- NEWS.md | 5 ++++- R/fit.R | 4 ++++ build/parsnip.pdf |binary tests/testthat/test_aaaa.R | 4 ++-- tests/testthat/test_fit_interfaces.R | 19 +++++++++++++++++++ tests/testthat/test_linear_reg_stan.R | 11 +++++++---- tests/testthat/test_logistic_reg_stan.R | 4 ++++ 9 files changed, 53 insertions(+), 20 deletions(-)
Title: Choose Univariate Class Intervals
Description: Selected commonly used methods for choosing univariate class intervals for mapping or other graphics purposes.
Author: Roger Bivand [aut, cre] (<https://orcid.org/0000-0003-2392-6140>),
Hisaji Ono [ctb],
Richard Dunlap [ctb],
Matthieu Stigler [ctb]
Maintainer: Roger Bivand <Roger.Bivand@nhh.no>
Diff between classInt versions 0.3-3 dated 2019-04-26 and 0.4-1 dated 2019-08-06
DESCRIPTION | 10 +++++----- MD5 | 6 +++--- R/classInt.R | 50 +++++++++++++++++++++++++++++++++++++++++++------- man/classIntervals.Rd | 41 ++++++++++++++++++++++++++++++++++++++++- 4 files changed, 91 insertions(+), 16 deletions(-)
Title: Retrieving Information of Proteins from Uniprot
Description: Connect to Uniprot <https://www.uniprot.org/> to retrieve information about proteins using their accession number such information could be name or taxonomy information.
Author: Ali Mostafa [aut],
Mohamed Soudy [aut, cre]
Maintainer: Mohamed Soudy <MohmedSoudy2009@gmail.com>
Diff between UniprotR versions 1.0.1 dated 2019-07-25 and 1.0.2 dated 2019-08-06
UniprotR-1.0.1/UniprotR/man/PlotProteinsLoc.Rd |only UniprotR-1.0.2/UniprotR/DESCRIPTION | 10 UniprotR-1.0.2/UniprotR/MD5 | 111 +++++----- UniprotR-1.0.2/UniprotR/NAMESPACE | 24 +- UniprotR-1.0.2/UniprotR/R/ConstructLocTree.R |only UniprotR-1.0.2/UniprotR/R/ConvertID.R | 4 UniprotR-1.0.2/UniprotR/R/GetAccessionList.R | 2 UniprotR-1.0.2/UniprotR/R/GetCross_references_Information.R | 6 UniprotR-1.0.2/UniprotR/R/GetExpression.R | 5 UniprotR-1.0.2/UniprotR/R/GetFamily_Domains.R | 11 UniprotR-1.0.2/UniprotR/R/GetGeneral_Information.R | 4 UniprotR-1.0.2/UniprotR/R/GetMiscellaneous.R | 7 UniprotR-1.0.2/UniprotR/R/GetNamesTaxa.R | 2 UniprotR-1.0.2/UniprotR/R/GetPTM_Processsing.R | 12 - UniprotR-1.0.2/UniprotR/R/GetPathology_Biotech.R | 10 UniprotR-1.0.2/UniprotR/R/GetProteinFunction.R | 4 UniprotR-1.0.2/UniprotR/R/GetProteinGOInfo.R | 2 UniprotR-1.0.2/UniprotR/R/GetProteinInteractions.R | 5 UniprotR-1.0.2/UniprotR/R/GetProteoAnnotator.R | 3 UniprotR-1.0.2/UniprotR/R/GetPublication.R | 4 UniprotR-1.0.2/UniprotR/R/GetSequences.R | 19 - UniprotR-1.0.2/UniprotR/R/GetSubcellular_location.R | 4 UniprotR-1.0.2/UniprotR/R/GetTaxaidentifier.R | 6 UniprotR-1.0.2/UniprotR/R/GetTaxonomic_lineage.R | 16 - UniprotR-1.0.2/UniprotR/R/GetpdbStructure.R | 4 UniprotR-1.0.2/UniprotR/R/GetproteinNetwork.R | 16 - UniprotR-1.0.2/UniprotR/R/HandleBadRequests.R | 2 UniprotR-1.0.2/UniprotR/R/PlotProteinTaxa.R | 45 ---- UniprotR-1.0.2/UniprotR/R/PlotSummaryInfo.R | 18 - UniprotR-1.0.2/UniprotR/R/UniprotR.r | 26 +- UniprotR-1.0.2/UniprotR/R/plot_GO.R |only UniprotR-1.0.2/UniprotR/man/ConstructLocTree.Rd |only UniprotR-1.0.2/UniprotR/man/ConvertID.Rd | 5 UniprotR-1.0.2/UniprotR/man/GetAccessionList.Rd | 2 UniprotR-1.0.2/UniprotR/man/GetCross_references_Information.Rd | 6 UniprotR-1.0.2/UniprotR/man/GetExpression.Rd | 2 UniprotR-1.0.2/UniprotR/man/GetFamily_Domains.Rd | 4 UniprotR-1.0.2/UniprotR/man/GetGeneral_Information.Rd | 4 UniprotR-1.0.2/UniprotR/man/GetMiscellaneous.Rd | 2 UniprotR-1.0.2/UniprotR/man/GetNamesTaxa.Rd | 2 UniprotR-1.0.2/UniprotR/man/GetPTM_Processsing.Rd | 2 UniprotR-1.0.2/UniprotR/man/GetPathology_Biotech.Rd | 4 UniprotR-1.0.2/UniprotR/man/GetProteinAnnontate.Rd | 2 UniprotR-1.0.2/UniprotR/man/GetProteinFunction.Rd | 4 UniprotR-1.0.2/UniprotR/man/GetProteinGOInfo.Rd | 2 UniprotR-1.0.2/UniprotR/man/GetProteinInteractions.Rd | 4 UniprotR-1.0.2/UniprotR/man/GetPublication.Rd | 4 UniprotR-1.0.2/UniprotR/man/GetSequences.Rd | 2 UniprotR-1.0.2/UniprotR/man/GetSubcellular_location.Rd | 5 UniprotR-1.0.2/UniprotR/man/GetTaxaidentifier.Rd | 4 UniprotR-1.0.2/UniprotR/man/GetTaxonomic_lineage.Rd | 4 UniprotR-1.0.2/UniprotR/man/GetpdbStructure.Rd | 2 UniprotR-1.0.2/UniprotR/man/GetproteinNetwork.Rd | 2 UniprotR-1.0.2/UniprotR/man/HandleBadRequests.Rd | 2 UniprotR-1.0.2/UniprotR/man/PlotProteinGO_bio.Rd |only UniprotR-1.0.2/UniprotR/man/PlotProteinGO_cel.Rd |only UniprotR-1.0.2/UniprotR/man/PlotProteinGO_molc.Rd |only UniprotR-1.0.2/UniprotR/man/PlotProteinTaxa.Rd | 6 UniprotR-1.0.2/UniprotR/man/PlotSummaryInfo.Rd | 4 UniprotR-1.0.2/UniprotR/man/UniprotR.Rd | 21 - 60 files changed, 217 insertions(+), 266 deletions(-)
Title: Class-Agnostic Time Series
Description: Time series toolkit with identical behavior for all
time series classes: 'ts','xts', 'data.frame', 'data.table', 'tibble', 'zoo',
'timeSeries', 'tsibble', 'tis' or 'irts'. Also converts reliably between these classes.
Author: Christoph Sax [aut, cre] (<https://orcid.org/0000-0002-7192-7044>)
Maintainer: Christoph Sax <christoph.sax@gmail.com>
Diff between tsbox versions 0.1.0 dated 2019-04-03 and 0.2.0 dated 2019-08-06
DESCRIPTION | 19 ++-- MD5 | 120 ++++++++++++++++--------------- NAMESPACE | 4 + NEWS.md | 25 ++++++ R/convert_exact.R | 26 ++++-- R/convert_heuristic.R | 3 R/data.table_helpers.R | 14 +-- R/date_utils.R | 4 - R/dts.R | 2 R/dts_default.R |only R/expressions.R |only R/guess_dts.R | 7 + R/to_from_data.table.R | 2 R/to_from_tis.R |only R/to_from_tseries.R |only R/to_from_tsibble.R | 69 +++++++++-------- R/ts_apply.R | 46 ++++------- R/ts_bind.R | 30 +++++-- R/ts_c.R | 24 ++++-- R/ts_default.R | 2 R/ts_first_of_period.R |only R/ts_frequency.R | 13 +-- R/ts_ggplot.R | 21 ++--- R/ts_index.R | 37 +++------ R/ts_lag.R | 12 +-- R/ts_long_wide.R | 11 +- R/ts_pc.R | 5 - R/ts_regular.R | 14 ++- R/ts_scale.R | 4 - R/ts_span.R | 24 ++++-- R/ts_summary.R | 28 ++++--- R/ts_trend.R | 34 ++------ R/tsbox-package.R | 2 README.md | 12 ++- build/vignette.rds |binary man/copy_class.Rd | 2 man/relevant_class.Rd | 2 man/ts_.Rd | 2 man/ts_boxable.Rd | 2 man/ts_default.Rd | 2 man/ts_dts.Rd | 2 man/ts_examples.Rd | 2 man/ts_frequency.Rd | 2 man/ts_index.Rd | 2 man/ts_lag.Rd | 11 +- man/ts_na_omit.Rd | 2 man/ts_pc.Rd | 7 + man/ts_pick.Rd | 2 man/ts_regular.Rd | 2 man/ts_span.Rd | 2 man/ts_summary.Rd | 2 man/ts_trend.Rd | 4 - man/ts_ts.Rd | 12 ++- man/tsbox-deprecated.Rd | 2 man/tsbox-package.Rd | 2 tests/testthat/test_auto.R | 19 ++-- tests/testthat/test_defects.R |only tests/testthat/test_nonstandard_cnames.R | 45 +++++++++++ tests/testthat/test_ts_.R | 24 ++++++ tests/testthat/test_ts_frequency.R | 15 +++ tests/testthat/test_ts_index.R | 3 tests/testthat/test_ts_irregular.R | 5 - tests/testthat/test_ts_summary.R | 20 +++++ tests/testthat/test_tsibble.R | 25 +++++- 64 files changed, 515 insertions(+), 321 deletions(-)
Title: Calculate Quantitative Ethnobotany Indices
Description: Calculate common quantitative ethnobotany indices to assess the cultural significance of plant species based on informant consensus. The package closely follows the paper by Tardio and Pardo-de-Santayana (2008). Tardio, J., and M. Pardo-de-Santayana, 2008. Cultural Importance Indices: A Comparative Analysis Based on the Useful Wild Plants of Southern Cantabria (Northern Spain) 1. Economic Botany, 62(1), 24-39. <doi:10.1007/s12231-007-9004-5>.
Author: Cory Whitney
Maintainer: Cory Whitney <whitney.cory@gmail.com>
Diff between ethnobotanyR versions 0.1.4 dated 2019-02-13 and 0.1.5 dated 2019-08-06
DESCRIPTION | 11 MD5 | 72 ++-- NAMESPACE | 7 NEWS.md | 11 R/CIs.R | 10 R/CVe.R |only R/FCs.R | 13 R/FLs.R | 58 +-- R/NUs.R | 11 R/RFCs.R | 6 R/RIs.R | 8 R/Radial_plot.R | 5 R/URs.R | 11 R/URsum.R | 8 R/UVs.R | 36 +- R/ethnoChord.R | 9 R/ethnoChordUser.R | 8 R/ethnobotanyChord.R |only R/simple_UVs.R |only README.md | 56 ++- build/vignette.rds |binary inst/doc/ethnobotanyr_vignette.R | 59 ++- inst/doc/ethnobotanyr_vignette.Rmd | 181 ++++++++-- inst/doc/ethnobotanyr_vignette.html | 598 +++++++++++++++++++++++++----------- man/CIs.Rd | 2 man/CVe.Rd |only man/FCs.Rd | 14 man/FLs.Rd | 14 man/NUs.Rd | 7 man/RFCs.Rd | 10 man/RIs.Rd | 6 man/Radial_plot.Rd | 10 man/URs.Rd | 12 man/URsum.Rd | 8 man/UVs.Rd | 8 man/ethnoChord.Rd | 11 man/ethnoChordUser.Rd | 11 man/ethnobotanyChord.Rd |only man/simple_UVs.Rd |only vignettes/ethnobotanyr_vignette.Rmd | 181 ++++++++-- 40 files changed, 1023 insertions(+), 449 deletions(-)
Title: 'RStudio' Add-in to Insert Markdown Citations
Description: Functions and an 'RStudio' add-in that search 'Bib(La)TeX'-files or
'Zotero' libraries (via the 'Better BibTeX' plugin) to insert formatted Markdown
citations into the current document.
Author: Frederik Aust [aut, cre] (<https://orcid.org/0000-0003-4900-788X>),
Yihui Xie [ctb],
Robin Lovelace [ctb],
Garrick Aden-Buie [ctb]
Maintainer: Frederik Aust <frederik.aust@uni-koeln.de>
Diff between citr versions 0.3.0 dated 2018-12-18 and 0.3.1 dated 2019-08-06
DESCRIPTION | 21 +++++++++++---------- LICENSE | 2 +- MD5 | 28 ++++++++++++++-------------- NEWS.md | 7 ++++++- R/insert_citation.R | 27 ++++++++++++++++----------- R/query_bib.R | 2 +- R/tidy_bib_file.R | 21 ++++++++++++--------- README.md | 7 +++---- man/insert_citation.Rd | 6 +++--- man/load_betterbiblatex_bib.Rd | 4 ++-- man/md_cite.Rd | 2 +- man/md_cite_zotero.Rd | 2 +- man/query_bib.Rd | 4 ++-- man/tidy_bib_file.Rd | 2 +- tools/images/dependency_plot-1.png |binary 15 files changed, 74 insertions(+), 61 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-02-01 1.3
2018-03-22 1.2
Title: Computation of Optimal Transport Plans and Wasserstein Distances
Description: Solve optimal transport problems. Compute Wasserstein distances (a.k.a. Kantorovitch, Fortet--Mourier, Mallows, Earth Mover's, or minimal L_p distances), return the corresponding transference plans, and display them graphically. Objects that can be compared include grey-scale images, (weighted) point patterns, and mass vectors.
Author: Dominic Schuhmacher [aut, cre],
Björn Bähre [aut] (aha and power diagrams),
Nicolas Bonneel [aut] (networkflow),
Carsten Gottschlich [aut] (simplex and shortlist),
Valentin Hartmann [aut] (semidiscrete1),
Florian Heinemann [aut] (transport_track and networkflow integration),
Bernhard Schmitzer [aut] (shielding),
Jörn Schrieber [aut] (subsampling),
Timo Wilm [ctb] (wpp)
Maintainer: Dominic Schuhmacher <dominic.schuhmacher@mathematik.uni-goettingen.de>
Diff between transport versions 0.11-2 dated 2019-07-06 and 0.12-0 dated 2019-08-06
transport-0.11-2/transport/src/Makevars |only transport-0.12-0/transport/DESCRIPTION | 21 +- transport-0.12-0/transport/MD5 | 58 ++++--- transport-0.12-0/transport/NAMESPACE | 5 transport-0.12-0/transport/NEWS | 29 +++ transport-0.12-0/transport/R/RcppExports.R | 20 ++ transport-0.12-0/transport/R/fix_odd.R |only transport-0.12-0/transport/R/fundament.R | 127 ++++++++++++++-- transport-0.12-0/transport/R/lilhelpers.R | 11 + transport-0.12-0/transport/R/plot_apollonius.R | 2 transport-0.12-0/transport/R/semidiscrete1.R | 1 transport-0.12-0/transport/R/subsampling.R | 2 transport-0.12-0/transport/R/transporttrack.R | 44 ++--- transport-0.12-0/transport/cleanup |only transport-0.12-0/transport/configure |only transport-0.12-0/transport/configure.ac |only transport-0.12-0/transport/man/plot_apollonius.Rd | 3 transport-0.12-0/transport/man/semidiscrete1.Rd | 2 transport-0.12-0/transport/man/subwasserstein.Rd | 6 transport-0.12-0/transport/man/transport-internal.Rd | 3 transport-0.12-0/transport/man/transport-package.Rd | 24 ++- transport-0.12-0/transport/man/transport.Rd | 60 +++++-- transport-0.12-0/transport/man/transport_track.Rd | 15 + transport-0.12-0/transport/man/trcontrol.Rd | 9 - transport-0.12-0/transport/src/Makevars.in |only transport-0.12-0/transport/src/Makevars.win |only transport-0.12-0/transport/src/RcppExports.cpp | 58 ++++++- transport-0.12-0/transport/src/full_bipartitegraph.h |only transport-0.12-0/transport/src/gen_cost.cpp |only transport-0.12-0/transport/src/network_simplex_simple.h |only transport-0.12-0/transport/src/networksimplex.cpp |only transport-0.12-0/transport/src/remember_linkage.cpp |only transport-0.12-0/transport/src/semidiscrete_p1.cpp | 11 - transport-0.12-0/transport/src/shielding.cpp | 12 - transport-0.12-0/transport/src/transport_init.c | 9 - transport-0.12-0/transport/tests |only 36 files changed, 388 insertions(+), 144 deletions(-)
Title: An Automated Cleaning Tool for Semantic and Linguistic Data
Description: Implements several functions that automates the cleaning and spell-checking of text data. Also converges, finalizes, removes plurals and continuous strings, and puts text data in binary format for semantic network analysis. Uses the 'SemNetDictionaries' package to make the cleaning process more accurate, efficient, and reproducible.
Author: Alexander P. Christensen [aut, cre]
(<https://orcid.org/0000-0002-9798-7037>)
Maintainer: Alexander P. Christensen <alexpaulchristensen@gmail.com>
Diff between SemNetCleaner versions 1.0.0 dated 2019-07-01 and 1.1.0 dated 2019-08-06
SemNetCleaner-1.0.0/SemNetCleaner/R/add.let.R |only SemNetCleaner-1.0.0/SemNetCleaner/R/chn.let.R |only SemNetCleaner-1.0.0/SemNetCleaner/R/convmat.R |only SemNetCleaner-1.0.0/SemNetCleaner/R/misnomer.R |only SemNetCleaner-1.0.0/SemNetCleaner/R/miss.let.R |only SemNetCleaner-1.0.0/SemNetCleaner/R/rmat.R |only SemNetCleaner-1.0.0/SemNetCleaner/R/spell.opt.R |only SemNetCleaner-1.0.0/SemNetCleaner/R/trial.R |only SemNetCleaner-1.0.0/SemNetCleaner/data/convmat.RData |only SemNetCleaner-1.0.0/SemNetCleaner/data/rmat.RData |only SemNetCleaner-1.0.0/SemNetCleaner/data/trial.RData |only SemNetCleaner-1.0.0/SemNetCleaner/man/add.let.Rd |only SemNetCleaner-1.0.0/SemNetCleaner/man/chn.let.Rd |only SemNetCleaner-1.0.0/SemNetCleaner/man/convmat.Rd |only SemNetCleaner-1.0.0/SemNetCleaner/man/misnomer.Rd |only SemNetCleaner-1.0.0/SemNetCleaner/man/miss.let.Rd |only SemNetCleaner-1.0.0/SemNetCleaner/man/rmat.Rd |only SemNetCleaner-1.0.0/SemNetCleaner/man/spell.opt.Rd |only SemNetCleaner-1.0.0/SemNetCleaner/man/trial.Rd |only SemNetCleaner-1.1.0/SemNetCleaner/DESCRIPTION | 15 SemNetCleaner-1.1.0/SemNetCleaner/MD5 | 123 +-- SemNetCleaner-1.1.0/SemNetCleaner/NAMESPACE | 7 SemNetCleaner-1.1.0/SemNetCleaner/NEWS | 25 SemNetCleaner-1.1.0/SemNetCleaner/R/autoConverge.R | 18 SemNetCleaner-1.1.0/SemNetCleaner/R/autoDestr.R | 25 SemNetCleaner-1.1.0/SemNetCleaner/R/bad.response.R | 8 SemNetCleaner-1.1.0/SemNetCleaner/R/best.guess.R | 5 SemNetCleaner-1.1.0/SemNetCleaner/R/bin2resp.R | 11 SemNetCleaner-1.1.0/SemNetCleaner/R/combine.responses.R | 2 SemNetCleaner-1.1.0/SemNetCleaner/R/converge.R | 22 SemNetCleaner-1.1.0/SemNetCleaner/R/corr.chn.R | 265 ++++-- SemNetCleaner-1.1.0/SemNetCleaner/R/destr.R | 21 SemNetCleaner-1.1.0/SemNetCleaner/R/dup.match.R |only SemNetCleaner-1.1.0/SemNetCleaner/R/equate.R | 28 SemNetCleaner-1.1.0/SemNetCleaner/R/equate.multi.R | 51 - SemNetCleaner-1.1.0/SemNetCleaner/R/finalize.R | 15 SemNetCleaner-1.1.0/SemNetCleaner/R/full.match.R | 10 SemNetCleaner-1.1.0/SemNetCleaner/R/is.letter.R | 6 SemNetCleaner-1.1.0/SemNetCleaner/R/moniker.R |only SemNetCleaner-1.1.0/SemNetCleaner/R/multi.word.check.R | 13 SemNetCleaner-1.1.0/SemNetCleaner/R/pluralize.R | 15 SemNetCleaner-1.1.0/SemNetCleaner/R/qwerty.dist.R | 14 SemNetCleaner-1.1.0/SemNetCleaner/R/singularize.R | 3 SemNetCleaner-1.1.0/SemNetCleaner/R/spell.check.dictionary.R | 241 +++--- SemNetCleaner-1.1.0/SemNetCleaner/R/splitstr.check.R | 59 - SemNetCleaner-1.1.0/SemNetCleaner/R/starting.letter.R | 7 SemNetCleaner-1.1.0/SemNetCleaner/R/textcleaner.R | 253 ++++-- SemNetCleaner-1.1.0/SemNetCleaner/R/word.check.wrapper.R | 391 ++++++---- SemNetCleaner-1.1.0/SemNetCleaner/inst/CITATION | 4 SemNetCleaner-1.1.0/SemNetCleaner/man/autoConverge.Rd | 18 SemNetCleaner-1.1.0/SemNetCleaner/man/autoDestr.Rd | 25 SemNetCleaner-1.1.0/SemNetCleaner/man/bad.response.Rd | 8 SemNetCleaner-1.1.0/SemNetCleaner/man/best.guess.Rd | 5 SemNetCleaner-1.1.0/SemNetCleaner/man/bin2resp.Rd | 9 SemNetCleaner-1.1.0/SemNetCleaner/man/combine.responses.Rd | 2 SemNetCleaner-1.1.0/SemNetCleaner/man/converge.Rd | 22 SemNetCleaner-1.1.0/SemNetCleaner/man/corr.chn.Rd | 75 + SemNetCleaner-1.1.0/SemNetCleaner/man/destr.Rd | 21 SemNetCleaner-1.1.0/SemNetCleaner/man/dup.match.Rd |only SemNetCleaner-1.1.0/SemNetCleaner/man/equate.Rd | 28 SemNetCleaner-1.1.0/SemNetCleaner/man/equate.multi.Rd | 40 - SemNetCleaner-1.1.0/SemNetCleaner/man/finalize.Rd | 15 SemNetCleaner-1.1.0/SemNetCleaner/man/full.match.Rd | 10 SemNetCleaner-1.1.0/SemNetCleaner/man/is.letter.Rd | 6 SemNetCleaner-1.1.0/SemNetCleaner/man/moniker.Rd |only SemNetCleaner-1.1.0/SemNetCleaner/man/multi.word.check.Rd | 13 SemNetCleaner-1.1.0/SemNetCleaner/man/pluralize.Rd | 15 SemNetCleaner-1.1.0/SemNetCleaner/man/qwerty.dist.Rd | 14 SemNetCleaner-1.1.0/SemNetCleaner/man/singularize.Rd | 3 SemNetCleaner-1.1.0/SemNetCleaner/man/spell.check.dictionary.Rd | 28 SemNetCleaner-1.1.0/SemNetCleaner/man/splitstr.check.Rd | 8 SemNetCleaner-1.1.0/SemNetCleaner/man/starting.letter.Rd | 7 SemNetCleaner-1.1.0/SemNetCleaner/man/textcleaner.Rd | 69 + SemNetCleaner-1.1.0/SemNetCleaner/man/word.check.wrapper.Rd | 61 + 74 files changed, 1334 insertions(+), 825 deletions(-)