Title: Density Based Clustering of Applications with Noise (DBSCAN) and
Related Algorithms
Description: A fast reimplementation of several density-based algorithms of
the DBSCAN family for spatial data. Includes the clustering algorithms
DBSCAN (density-based spatial clustering of applications with noise)
and HDBSCAN (hierarchical DBSCAN), the ordering algorithm
OPTICS (ordering points to identify the clustering structure),
and the outlier detection algorithm LOF (local outlier factor).
The implementations use the kd-tree data structure (from library ANN) for faster k-nearest neighbor search.
An R interface to fast kNN and fixed-radius NN search is also provided.
Hahsler, Piekenbrock and Doran (2019) <doi:10.18637/jss.v091.i01>.
Author: Michael Hahsler [aut, cre, cph],
Matthew Piekenbrock [aut, cph],
Sunil Arya [ctb, cph],
David Mount [ctb, cph]
Maintainer: Michael Hahsler <mhahsler@lyle.smu.edu>
Diff between dbscan versions 1.1-8 dated 2021-04-27 and 1.1-9 dated 2022-01-10
dbscan-1.1-8/dbscan/R/optics_extractDBSCAN.R |only dbscan-1.1-8/dbscan/R/optics_extractXi.R |only dbscan-1.1-8/dbscan/man/fosc.Rd |only dbscan-1.1-9/dbscan/DESCRIPTION | 10 dbscan-1.1-9/dbscan/MD5 | 99 +-- dbscan-1.1-9/dbscan/NAMESPACE | 6 dbscan-1.1-9/dbscan/NEWS.md | 8 dbscan-1.1-9/dbscan/R/DS3.R |only dbscan-1.1-9/dbscan/R/GLOSH.R | 102 +++ dbscan-1.1-9/dbscan/R/LOF.R | 168 ++++-- dbscan-1.1-9/dbscan/R/NN.R | 104 ++- dbscan-1.1-9/dbscan/R/dbscan.R | 409 +++++++++++--- dbscan-1.1-9/dbscan/R/dendrogram.R | 54 + dbscan-1.1-9/dbscan/R/extractFOSC.R | 382 +++++++++++-- dbscan-1.1-9/dbscan/R/frNN.R | 331 ++++++++---- dbscan-1.1-9/dbscan/R/hdbscan.R | 427 +++++++++++---- dbscan-1.1-9/dbscan/R/hullplot.R | 143 ++++- dbscan-1.1-9/dbscan/R/jpclust.R | 122 +++- dbscan-1.1-9/dbscan/R/kNN.R | 387 ++++++++++---- dbscan-1.1-9/dbscan/R/kNNdist.R | 61 ++ dbscan-1.1-9/dbscan/R/moons.R |only dbscan-1.1-9/dbscan/R/optics.R | 717 +++++++++++++++++++++++--- dbscan-1.1-9/dbscan/R/pointdensity.R | 96 +++ dbscan-1.1-9/dbscan/R/predict.R | 83 ++- dbscan-1.1-9/dbscan/R/reachability.R | 202 ++++++- dbscan-1.1-9/dbscan/R/sNN.R | 171 +++++- dbscan-1.1-9/dbscan/R/sNNclust.R | 67 ++ dbscan-1.1-9/dbscan/README.md | 8 dbscan-1.1-9/dbscan/build/partial.rdb |binary dbscan-1.1-9/dbscan/build/vignette.rds |binary dbscan-1.1-9/dbscan/inst/doc/dbscan.pdf |binary dbscan-1.1-9/dbscan/inst/doc/hdbscan.html | 7 dbscan-1.1-9/dbscan/man/DS3.Rd | 45 - dbscan-1.1-9/dbscan/man/NN.Rd | 84 +-- dbscan-1.1-9/dbscan/man/dbscan.Rd | 227 ++++---- dbscan-1.1-9/dbscan/man/dendrogram.Rd |only dbscan-1.1-9/dbscan/man/extractFOSC.Rd |only dbscan-1.1-9/dbscan/man/frNN.Rd | 133 +++- dbscan-1.1-9/dbscan/man/glosh.Rd | 85 +-- dbscan-1.1-9/dbscan/man/hdbscan.Rd | 174 ++++-- dbscan-1.1-9/dbscan/man/hullplot.Rd | 82 +- dbscan-1.1-9/dbscan/man/jpclust.Rd | 99 +-- dbscan-1.1-9/dbscan/man/kNN.Rd | 150 +++-- dbscan-1.1-9/dbscan/man/kNNdist.Rd | 75 +- dbscan-1.1-9/dbscan/man/lof.Rd | 75 +- dbscan-1.1-9/dbscan/man/moons.Rd | 58 +- dbscan-1.1-9/dbscan/man/optics.Rd | 232 ++++---- dbscan-1.1-9/dbscan/man/pointdensity.Rd | 102 ++- dbscan-1.1-9/dbscan/man/predict.Rd |only dbscan-1.1-9/dbscan/man/reachability.Rd | 168 +++--- dbscan-1.1-9/dbscan/man/sNN.Rd | 131 ++-- dbscan-1.1-9/dbscan/man/sNNclust.Rd | 108 ++- dbscan-1.1-9/dbscan/src/RcppExports.cpp | 5 dbscan-1.1-9/dbscan/tests/testthat/Rplots.pdf |only dbscan-1.1-9/dbscan/tests/testthat/test-kNN.R | 8 55 files changed, 4561 insertions(+), 1644 deletions(-)
Title: Shiny App. Idiograms with Marks and Karyotype Indices
Description: Plot idiograms of karyotypes, plasmids, circular chr. having a set of data.frames for chromosome data and optionally mark data. Two styles of chromosomes can be used: without or with visible chromatids. Supports micrometers, cM and Mb or any unit. Three styles of centromeres are available: triangle, rounded and inProtein; and six styles of marks are available: square (squareLeft), dots, cM (cMLeft), cenStyle, upArrow (downArrow), exProtein (inProtein); its legend (label) can be drawn inline or to the right of karyotypes. Idiograms can also be plotted in concentric circles. It is possible to calculate chromosome indices by Levan et al. (1964) <https:onlinelibrary.wiley.com/doi/abs/10.1111/j.1601-5223.1964.tb01953.x>, karyotype indices of Watanabe et al. (1999) <doi:10.1007/PL00013869> and Romero-Zarco (1986) <doi:10.2307/1221906> and classify chromosomes by morphology Guerra (1986) and Levan et al. (1964).
Author: Fernando Roa [aut, cre],
Mariana PC Telles [ctb]
Maintainer: Fernando Roa <froao@unal.edu.co>
Diff between idiogramFISH versions 2.0.6 dated 2021-09-30 and 2.0.8 dated 2022-01-10
idiogramFISH-2.0.6/idiogramFISH/R/roundPlotMark.R |only idiogramFISH-2.0.6/idiogramFISH/man/roundPlotMark.Rd |only idiogramFISH-2.0.8/idiogramFISH/DESCRIPTION | 10 idiogramFISH-2.0.8/idiogramFISH/MD5 | 203 idiogramFISH-2.0.8/idiogramFISH/NEWS.md | 32 idiogramFISH-2.0.8/idiogramFISH/R/addAttributesDfChrSize.R | 85 idiogramFISH-2.0.8/idiogramFISH/R/arrowPlotMark.R | 45 idiogramFISH-2.0.8/idiogramFISH/R/cMPlotMark.R | 80 idiogramFISH-2.0.8/idiogramFISH/R/checkNameChrDfMarks.R | 25 idiogramFISH-2.0.8/idiogramFISH/R/dfMarkStyle.R | 3 idiogramFISH-2.0.8/idiogramFISH/R/fixChrNameDupDF.R | 44 idiogramFISH-2.0.8/idiogramFISH/R/mapGGChr.R | 13 idiogramFISH-2.0.8/idiogramFISH/R/mapXY.R | 174 idiogramFISH-2.0.8/idiogramFISH/R/markDistCenGISHfix.R | 2 idiogramFISH-2.0.8/idiogramFISH/R/markdataholo.R | 13 idiogramFISH-2.0.8/idiogramFISH/R/mimicCenPlotMark.R | 77 idiogramFISH-2.0.8/idiogramFISH/R/orientation.R | 193 idiogramFISH-2.0.8/idiogramFISH/R/plotDotMarks.R | 20 idiogramFISH-2.0.8/idiogramFISH/R/plotIdiograms.R | 9025 +++++----- idiogramFISH-2.0.8/idiogramFISH/R/plotlabelsright.R | 57 idiogramFISH-2.0.8/idiogramFISH/R/posCalc.R | 6 idiogramFISH-2.0.8/idiogramFISH/R/runBoard.R | 13 idiogramFISH-2.0.8/idiogramFISH/R/sqPlotMarkCP.R |only idiogramFISH-2.0.8/idiogramFISH/R/textLabel.R | 67 idiogramFISH-2.0.8/idiogramFISH/README.md | 106 idiogramFISH-2.0.8/idiogramFISH/build/vignette.rds |binary idiogramFISH-2.0.8/idiogramFISH/data/bigdfMarkPosHolo.rda |binary idiogramFISH-2.0.8/idiogramFISH/data/bigdfMarkPosHolo2.rda |only idiogramFISH-2.0.8/idiogramFISH/data/dfAlloParentMarks.rda |binary idiogramFISH-2.0.8/idiogramFISH/data/dfMarkColorIn.rda |only idiogramFISH-2.0.8/idiogramFISH/data/humMarkColor.rda |binary idiogramFISH-2.0.8/idiogramFISH/data/humMarkPos.rda |binary idiogramFISH-2.0.8/idiogramFISH/inst/doc/index.R | 339 idiogramFISH-2.0.8/idiogramFISH/inst/doc/index.Rmd | 29 idiogramFISH-2.0.8/idiogramFISH/inst/doc/index.html | 759 idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/obser/obserColumnMod.R | 49 idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/obser/obserDataframes.R | 354 idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/obser/obserNuccore.R | 3 idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/obser/obserPlot.R | 289 idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/obser/obserPosButtons.R | 20 idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/obser/obserPresets.R | 519 idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/output/outputDataframes.R | 53 idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/output/outputMenu.R | 21 idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/output/outputNuccore.R | 8 idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/output/outputPanels.R | 1155 - idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/output/outputPlot.R | 233 idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/output/outputTabsetpanels.R | 11 idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/presetVals.R | 33 idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/reactiveV.R | 18 idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/server.R | 12 idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/ui.R | 6 idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/www/DESCRIPTION | 6 idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/www/README2.Rmd | 17 idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/www/man/figures/cranmanualbookdown.svg | 2 idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/www/man/figures/cranversion.svg | 6 idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/www/man/figures/develmanualvignette.svg | 2 idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/www/man/figures/gitbadge.svg | 2 idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/www/man/figures/logo.png |binary idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/www/man/figures/pkgdownver.svg | 2 idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/www/paramValues.rds |binary idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/www/paramValues_old.rds |only idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/www/paramVec.rds |binary idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/www/paramVec_old.rds |only idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/www/rda/citrusMaxima.rda |only idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/www/rda/citrusMaximaMarkPos.rda |only idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/www/rda/citrusReticulata.rda |only idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/www/rda/citrusReticulataMarkPosDF.rda |only idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/www/rda/leftNotesdfCiLi.rda |only idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/www/rda/leftNotesdfCiMa.rda |only idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/www/rda/leftNotesdfCiRe.rda |only idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/www/rda/markStyleDFCiLi.rda |only idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/www/rda/markStyleDFCiMa.rda |only idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/www/rda/markStyleDFCiRe.rda |only idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/www/rda/mydfMarkPosHolo2.rda |binary idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/www/rda/mydfOfMarks.rda |binary idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/www/rda/notesdfCiLi.rda |only idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/www/rda/notesdfCiMa.rda |only idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/www/rda/notesdfCiRe.rda |only idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/www/rda/threeMarkPosCiLi.rda |only idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/www/rda/threeSizeCiLi.rda |only idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/www/rda/traspaMarks2.rda |only idiogramFISH-2.0.8/idiogramFISH/inst/shinyApps/iBoard/www/rda/traspadf2.rda |only idiogramFISH-2.0.8/idiogramFISH/man/addAttributesDfChrSize.Rd | 4 idiogramFISH-2.0.8/idiogramFISH/man/arrowPlotMark.Rd | 4 idiogramFISH-2.0.8/idiogramFISH/man/cMPlotMark.Rd | 4 idiogramFISH-2.0.8/idiogramFISH/man/checkNameChrDfMarks.Rd | 4 idiogramFISH-2.0.8/idiogramFISH/man/citrusSize.Rd | 128 idiogramFISH-2.0.8/idiogramFISH/man/dfMarkStyle.Rd | 7 idiogramFISH-2.0.8/idiogramFISH/man/figures/README-example-1.png |binary idiogramFISH-2.0.8/idiogramFISH/man/figures/README-example2-1.png |binary idiogramFISH-2.0.8/idiogramFISH/man/figures/README-unnamed-chunk-19-1.png |binary idiogramFISH-2.0.8/idiogramFISH/man/figures/README-unnamed-chunk-20-1.png |binary idiogramFISH-2.0.8/idiogramFISH/man/figures/circular.png |binary idiogramFISH-2.0.8/idiogramFISH/man/figures/cranmanualbookdown.svg | 2 idiogramFISH-2.0.8/idiogramFISH/man/figures/cranversion.svg | 6 idiogramFISH-2.0.8/idiogramFISH/man/figures/develmanualvignette.svg | 2 idiogramFISH-2.0.8/idiogramFISH/man/figures/gitbadge.svg | 2 idiogramFISH-2.0.8/idiogramFISH/man/figures/logo.png |binary idiogramFISH-2.0.8/idiogramFISH/man/figures/manual.svg | 2 idiogramFISH-2.0.8/idiogramFISH/man/figures/pkgdownver.svg | 2 idiogramFISH-2.0.8/idiogramFISH/man/figures/shiny.jpg |binary idiogramFISH-2.0.8/idiogramFISH/man/fixChrNameDupDF.Rd | 2 idiogramFISH-2.0.8/idiogramFISH/man/idiogramFISH-package.Rd | 2 idiogramFISH-2.0.8/idiogramFISH/man/mapXY.Rd | 15 idiogramFISH-2.0.8/idiogramFISH/man/markdataholo.Rd | 7 idiogramFISH-2.0.8/idiogramFISH/man/markposDFs.Rd | 2 idiogramFISH-2.0.8/idiogramFISH/man/mimicCenPlotMark.Rd | 5 idiogramFISH-2.0.8/idiogramFISH/man/namesToColumns.Rd | 21 idiogramFISH-2.0.8/idiogramFISH/man/plotIdiograms.Rd | 269 idiogramFISH-2.0.8/idiogramFISH/man/plotSqMarks.Rd |only idiogramFISH-2.0.8/idiogramFISH/man/plotlabelsright.Rd | 4 idiogramFISH-2.0.8/idiogramFISH/man/textLabel.Rd | 6 idiogramFISH-2.0.8/idiogramFISH/man/yVertoHor.Rd | 2 idiogramFISH-2.0.8/idiogramFISH/vignettes/index.Rmd | 29 idiogramFISH-2.0.8/idiogramFISH/vignettes/refs/normal_noabs.bib | 1 115 files changed, 7831 insertions(+), 6942 deletions(-)
Title: Plotting Tools for Anyone Working in Deep Time
Description: Extends the functionality of other plotting packages like
'ggplot2' and 'lattice' to help facilitate the plotting of data over long time
intervals, including, but not limited to, geological, evolutionary, and ecological
data. The primary goal of 'deeptime' is to enable users to add highly customizable
timescales to their visualizations. Other functions are also included to assist
with other areas of deep time visualization.
Author: William Gearty [aut, cre]
Maintainer: William Gearty <willgearty@gmail.com>
Diff between deeptime versions 0.2.0 dated 2021-09-02 and 0.2.1 dated 2022-01-10
DESCRIPTION | 8 MD5 | 59 ++-- NEWS.md | 10 R/data.R | 34 +- R/gggeo_scale.R | 3 R/gggeo_scale_old.R | 1 README.md | 2 data/eons.rda |binary data/epochs.rda |binary data/eras.rda |binary data/periods.rda |binary data/stages.rda |binary man/eons.Rd | 8 man/epochs.Rd | 6 man/eras.Rd | 6 man/gggeo_scale.Rd | 4 man/gggeo_scale_old.Rd | 2 man/periods.Rd | 6 man/stages.Rd | 8 tests/testthat/Rplots.pdf |only tests/testthat/_snaps/coord_geo/geom-fit-text.svg | 44 +-- tests/testthat/_snaps/coord_geo/scale-on-all-facets.svg | 144 ++++++------ tests/testthat/_snaps/coord_geo/scale-on-fossil-ggtree.svg | 68 ++--- tests/testthat/_snaps/coord_geo/scale-on-ggtree.svg | 12 - tests/testthat/_snaps/coord_geo/scale-on-only-one-facet.svg | 52 ++-- tests/testthat/_snaps/coord_geo/stacked-scales.svg | 64 ++--- tests/testthat/_snaps/ggarrange2/double-ggarrange2.svg | 44 +-- tests/testthat/_snaps/gggeo_scale/gggeo-scale-top.svg | 48 ++-- tests/testthat/_snaps/gggeo_scale/gggeo-scale.svg | 46 +-- tests/testthat/test-coord_geo.R | 2 tests/testthat/test-ggarrange2.R | 1 31 files changed, 348 insertions(+), 334 deletions(-)
Title: Load and Process Passive Acoustic Data
Description: Tools for loading and processing passive acoustic data. Read in data
that has been processed in 'Pamguard' (<https://www.pamguard.org/>), apply a suite
processing functions, and export data for reports or external modeling tools. Parameter
calculations implement methods by Oswald et al (2007) <doi:10.1121/1.2743157>,
Griffiths et al (2020) <doi:10.1121/10.0001229> and Baumann-Pickering et al (2010)
<doi:10.1121/1.3479549>.
Author: Taiki Sakai [aut, cre],
Jay Barlow [ctb],
Emily Griffiths [ctb],
Michael Oswald [ctb],
Simone Baumann-Pickering [ctb],
Julie Oswald [ctb]
Maintainer: Taiki Sakai <taiki.sakai@noaa.gov>
Diff between PAMpal versions 0.14.4 dated 2021-10-09 and 0.15.0 dated 2022-01-10
PAMpal-0.14.4/PAMpal/data/testClick.RData |only PAMpal-0.15.0/PAMpal/DESCRIPTION | 16 +-- PAMpal-0.15.0/PAMpal/MD5 | 60 ++++++------- PAMpal-0.15.0/PAMpal/NAMESPACE | 6 - PAMpal-0.15.0/PAMpal/NEWS.md | 17 +++ PAMpal-0.15.0/PAMpal/R/PAMpalSettings.R | 1 PAMpal-0.15.0/PAMpal/R/addBinaries.R | 2 PAMpal-0.15.0/PAMpal/R/addFunction.R | 23 ++++- PAMpal-0.15.0/PAMpal/R/addGps.R | 8 - PAMpal-0.15.0/PAMpal/R/addHydrophoneDepth.R | 1 PAMpal-0.15.0/PAMpal/R/calculateAverageSpectra.R | 48 ++++++++-- PAMpal-0.15.0/PAMpal/R/calculateICI.R | 16 ++- PAMpal-0.15.0/PAMpal/R/calculateModuleData.R | 82 ++++++++++++++++++ PAMpal-0.15.0/PAMpal/R/data.R | 16 +++ PAMpal-0.15.0/PAMpal/R/export_banter.R | 11 +- PAMpal-0.15.0/PAMpal/R/getBinaryData.R | 7 - PAMpal-0.15.0/PAMpal/R/getDetectorData.R | 31 ++++++ PAMpal-0.15.0/PAMpal/R/matchEnvData.R | 17 ++- PAMpal-0.15.0/PAMpal/R/processPgDetections.R | 38 +++++--- PAMpal-0.15.0/PAMpal/R/roccaWhistleCalcs.R | 32 +++++-- PAMpal-0.15.0/PAMpal/R/setSpecies.R | 65 ++++++++------ PAMpal-0.15.0/PAMpal/R/utils.R | 11 +- PAMpal-0.15.0/PAMpal/README.md | 2 PAMpal-0.15.0/PAMpal/data/testClick.rda |only PAMpal-0.15.0/PAMpal/data/testGPL.rda |only PAMpal-0.15.0/PAMpal/man/calculateAverageSpectra.Rd | 3 PAMpal-0.15.0/PAMpal/man/calculateICI.Rd | 11 +- PAMpal-0.15.0/PAMpal/man/getBinaryData.Rd | 2 PAMpal-0.15.0/PAMpal/man/getDetectorData.Rd | 6 + PAMpal-0.15.0/PAMpal/man/testClick.Rd | 2 PAMpal-0.15.0/PAMpal/man/testGPL.Rd |only PAMpal-0.15.0/PAMpal/tests/testthat/test-processPps.R | 2 PAMpal-0.15.0/PAMpal/tests/testthat/test-workStudy.R | 2 33 files changed, 401 insertions(+), 137 deletions(-)
Title: Miscellaneous Functions for Passive Acoustic Analysis
Description: A collection of miscellaneous functions for passive acoustics.
Much of the content here is adapted to R from code written by other people.
If you have any ideas of functions to add, please contact Taiki Sakai.
Author: Taiki Sakai [aut, cre],
Jay Barlow [ctb],
Julie Oswald [ctb],
Val Schmidt [ctb]
Maintainer: Taiki Sakai <taiki.sakai@noaa.gov>
Diff between PAMmisc versions 1.7.0 dated 2021-10-08 and 1.8.0 dated 2022-01-10
PAMmisc-1.7.0/PAMmisc/data/erddapList.RData |only PAMmisc-1.8.0/PAMmisc/DESCRIPTION | 10 +- PAMmisc-1.8.0/PAMmisc/MD5 | 42 ++++++------ PAMmisc-1.8.0/PAMmisc/NAMESPACE | 5 + PAMmisc-1.8.0/PAMmisc/NEWS.md | 16 ++++ PAMmisc-1.8.0/PAMmisc/R/addPgGps.R | 5 + PAMmisc-1.8.0/PAMmisc/R/browseEdinfo.R | 13 +++ PAMmisc-1.8.0/PAMmisc/R/createSSP.R |only PAMmisc-1.8.0/PAMmisc/R/data.R | 11 +++ PAMmisc-1.8.0/PAMmisc/R/downloadEnv.R | 23 ++++-- PAMmisc-1.8.0/PAMmisc/R/erddapToEdinfo.R | 92 +++++++++++++++++++++++++-- PAMmisc-1.8.0/PAMmisc/R/formatURL.R | 2 PAMmisc-1.8.0/PAMmisc/R/getEdinfo.R | 95 +++++++++++++++------------- PAMmisc-1.8.0/PAMmisc/R/matchEnvData.R | 84 +++++++++++++++++++++--- PAMmisc-1.8.0/PAMmisc/R/ncToData.R | 41 ++++++++---- PAMmisc-1.8.0/PAMmisc/R/ncUtils.R | 62 ++++++++++++++++-- PAMmisc-1.8.0/PAMmisc/README.md | 6 + PAMmisc-1.8.0/PAMmisc/data/erddapList.rda |only PAMmisc-1.8.0/PAMmisc/data/hycomList.rda |only PAMmisc-1.8.0/PAMmisc/man/addPgGps.Rd | 3 PAMmisc-1.8.0/PAMmisc/man/createSSP.Rd |only PAMmisc-1.8.0/PAMmisc/man/downloadEnv.Rd | 10 ++ PAMmisc-1.8.0/PAMmisc/man/erddapToEdinfo.Rd | 14 +++- PAMmisc-1.8.0/PAMmisc/man/hycomList.Rd |only PAMmisc-1.8.0/PAMmisc/man/ncToData.Rd | 4 + 25 files changed, 420 insertions(+), 118 deletions(-)
Title: Rewrite of gWidgets API for Simplified GUI Construction
Description: Re-implementation of the 'gWidgets' API. The API is defined in this
package. A second, toolkit-specific package is required to use it. At this point only 'gWidgets2tcltk' is viable.
Author: John Verzani
Maintainer: John Verzani <jverzani@gmail.com>
Diff between gWidgets2 versions 1.0-8 dated 2019-02-27 and 1.0-9 dated 2022-01-10
gWidgets2-1.0-8/gWidgets2/inst/doc |only gWidgets2-1.0-9/gWidgets2/DESCRIPTION | 13 gWidgets2-1.0-9/gWidgets2/MD5 | 172 ++++----- gWidgets2-1.0-9/gWidgets2/R/guiToolkit.R | 14 gWidgets2-1.0-9/gWidgets2/man/S4-classes.Rd | 41 -- gWidgets2-1.0-9/gWidgets2/man/XXX.Rd | 1 gWidgets2-1.0-9/gWidgets2/man/add.Rd | 8 gWidgets2-1.0-9/gWidgets2/man/call_meth.Rd | 1 gWidgets2-1.0-9/gWidgets2/man/check_deprecated.Rd | 1 gWidgets2-1.0-9/gWidgets2/man/check_return_class.Rd | 1 gWidgets2-1.0-9/gWidgets2/man/dispose.Rd | 3 gWidgets2-1.0-9/gWidgets2/man/editable.Rd | 7 gWidgets2-1.0-9/gWidgets2/man/enabled.Rd | 7 gWidgets2-1.0-9/gWidgets2/man/flatten.Rd | 1 gWidgets2-1.0-9/gWidgets2/man/focus.Rd | 5 gWidgets2-1.0-9/gWidgets2/man/font.Rd | 11 gWidgets2-1.0-9/gWidgets2/man/gWidgets-handlers.Rd | 181 ++-------- gWidgets2-1.0-9/gWidgets2/man/gWidgets2-S3methods.Rd | 46 -- gWidgets2-1.0-9/gWidgets2/man/gWidgets2-package.Rd | 7 gWidgets2-1.0-9/gWidgets2/man/gWidgets2-undocumented.Rd | 1 gWidgets2-1.0-9/gWidgets2/man/gaction.Rd | 34 + gWidgets2-1.0-9/gWidgets2/man/galert.Rd | 13 gWidgets2-1.0-9/gWidgets2/man/gbasicdialog.Rd | 31 + gWidgets2-1.0-9/gWidgets2/man/gbutton.Rd | 17 gWidgets2-1.0-9/gWidgets2/man/gcalendar.Rd | 31 + gWidgets2-1.0-9/gWidgets2/man/gcheckbox.Rd | 34 + gWidgets2-1.0-9/gWidgets2/man/gcheckboxgroup.Rd | 37 +- gWidgets2-1.0-9/gWidgets2/man/gcombobox.Rd | 39 +- gWidgets2-1.0-9/gWidgets2/man/gconfirm.Rd | 25 - gWidgets2-1.0-9/gWidgets2/man/gcontainer.Rd | 1 gWidgets2-1.0-9/gWidgets2/man/gdf.Rd | 27 - gWidgets2-1.0-9/gWidgets2/man/gdfnotebook.Rd | 3 gWidgets2-1.0-9/gWidgets2/man/gedit.Rd | 35 + gWidgets2-1.0-9/gWidgets2/man/getToolkitWidget.Rd | 23 - gWidgets2-1.0-9/gWidgets2/man/getWithDefault.Rd | 1 gWidgets2-1.0-9/gWidgets2/man/get_index_in_list.Rd | 1 gWidgets2-1.0-9/gWidgets2/man/get_object_from_string.Rd | 1 gWidgets2-1.0-9/gWidgets2/man/gexpandgroup.Rd | 36 + gWidgets2-1.0-9/gWidgets2/man/gfile.Rd | 77 ++-- gWidgets2-1.0-9/gWidgets2/man/gfilter.Rd | 52 +- gWidgets2-1.0-9/gWidgets2/man/gformlayout.Rd | 14 gWidgets2-1.0-9/gWidgets2/man/gframe.Rd | 33 + gWidgets2-1.0-9/gWidgets2/man/ggraphics.Rd | 34 + gWidgets2-1.0-9/gWidgets2/man/ggraphicsnotebook.Rd | 16 gWidgets2-1.0-9/gWidgets2/man/ggroup.Rd | 40 +- gWidgets2-1.0-9/gWidgets2/man/ghtml.Rd | 5 gWidgets2-1.0-9/gWidgets2/man/gimage.Rd | 32 + gWidgets2-1.0-9/gWidgets2/man/ginput.Rd | 27 + gWidgets2-1.0-9/gWidgets2/man/glabel.Rd | 31 + gWidgets2-1.0-9/gWidgets2/man/glayout.Rd | 17 gWidgets2-1.0-9/gWidgets2/man/gmenu.Rd | 13 gWidgets2-1.0-9/gWidgets2/man/gmessage.Rd | 13 gWidgets2-1.0-9/gWidgets2/man/gnotebook.Rd | 11 gWidgets2-1.0-9/gWidgets2/man/gpanedgroup.Rd | 8 gWidgets2-1.0-9/gWidgets2/man/gprogressbar.Rd | 3 gWidgets2-1.0-9/gWidgets2/man/gradio.Rd | 33 + gWidgets2-1.0-9/gWidgets2/man/gseparator.Rd | 8 gWidgets2-1.0-9/gWidgets2/man/gslider.Rd | 39 +- gWidgets2-1.0-9/gWidgets2/man/gspinbutton.Rd | 38 +- gWidgets2-1.0-9/gWidgets2/man/gstackwidget.Rd | 5 gWidgets2-1.0-9/gWidgets2/man/gstatusbar.Rd | 3 gWidgets2-1.0-9/gWidgets2/man/gtable.Rd | 41 +- gWidgets2-1.0-9/gWidgets2/man/gtext.Rd | 69 ++- gWidgets2-1.0-9/gWidgets2/man/gtimer.Rd | 15 gWidgets2-1.0-9/gWidgets2/man/gtoolbar.Rd | 28 - gWidgets2-1.0-9/gWidgets2/man/gtoolkit.Rd | 1 gWidgets2-1.0-9/gWidgets2/man/gtree.Rd | 47 +- gWidgets2-1.0-9/gWidgets2/man/guiToolkit.Rd | 1 gWidgets2-1.0-9/gWidgets2/man/gvarbrowser.Rd | 25 - gWidgets2-1.0-9/gWidgets2/man/gwidget.Rd | 10 gWidgets2-1.0-9/gWidgets2/man/gwindow.Rd | 39 +- gWidgets2-1.0-9/gWidgets2/man/icons.Rd | 15 gWidgets2-1.0-9/gWidgets2/man/installing_gWidgets_toolkits.Rd | 1 gWidgets2-1.0-9/gWidgets2/man/isExtant.Rd | 3 gWidgets2-1.0-9/gWidgets2/man/is_MacOSX.Rd | 1 gWidgets2-1.0-9/gWidgets2/man/is_Windows.Rd | 1 gWidgets2-1.0-9/gWidgets2/man/is_empty.Rd | 1 gWidgets2-1.0-9/gWidgets2/man/methods.Rd | 5 gWidgets2-1.0-9/gWidgets2/man/observer.Rd | 1 gWidgets2-1.0-9/gWidgets2/man/redo.Rd | 3 gWidgets2-1.0-9/gWidgets2/man/short_summary.Rd | 13 gWidgets2-1.0-9/gWidgets2/man/size.Rd | 7 gWidgets2-1.0-9/gWidgets2/man/svalue.Rd | 5 gWidgets2-1.0-9/gWidgets2/man/tag.Rd | 7 gWidgets2-1.0-9/gWidgets2/man/tooltip.Rd | 1 gWidgets2-1.0-9/gWidgets2/man/undo.Rd | 3 gWidgets2-1.0-9/gWidgets2/man/visible.Rd | 7 87 files changed, 982 insertions(+), 830 deletions(-)
Title: R Interface to Google Charts
Description: R interface to Google's chart tools, allowing users
to create interactive charts based on data frames. Charts
are displayed locally via the R HTTP help server. A modern
browser with an Internet connection is required. The data
remains local and is not uploaded to Google.
Author: Markus Gesmann [aut, cre],
Diego de Castillo [aut],
Joe Cheng [ctb],
Ashley Baldry [ctb],
Durey Ingeniería [ctb]
Maintainer: Markus Gesmann <markus.gesmann@googlemail.com>
Diff between googleVis versions 0.6.10 dated 2021-02-19 and 0.6.11 dated 2022-01-10
googleVis-0.6.10/googleVis/NEWS |only googleVis-0.6.10/googleVis/vignettes/mystyles.css |only googleVis-0.6.11/googleVis/DESCRIPTION | 17 googleVis-0.6.11/googleVis/MD5 | 47 googleVis-0.6.11/googleVis/NEWS.md |only googleVis-0.6.11/googleVis/R/gvis.R | 3 googleVis-0.6.11/googleVis/R/gvisAnnotatedTimeLine.R | 52 googleVis-0.6.11/googleVis/R/gvisAnnotationChart.R | 49 googleVis-0.6.11/googleVis/R/gvisMotionChart.R | 6 googleVis-0.6.11/googleVis/R/zzz.R | 2 googleVis-0.6.11/googleVis/README.md | 11 googleVis-0.6.11/googleVis/build/googleVis.pdf |binary googleVis-0.6.11/googleVis/build/vignette.rds |binary googleVis-0.6.11/googleVis/data/Cats.RData |binary googleVis-0.6.11/googleVis/inst/doc/googleVis_examples.R | 9 googleVis-0.6.11/googleVis/inst/doc/googleVis_examples.Rmd | 24 googleVis-0.6.11/googleVis/inst/doc/googleVis_examples.html | 2328 ++++-------- googleVis-0.6.11/googleVis/inst/doc/googleVis_intro.R | 4 googleVis-0.6.11/googleVis/inst/doc/googleVis_intro.Rmd | 44 googleVis-0.6.11/googleVis/inst/doc/googleVis_intro.html | 1846 +++++---- googleVis-0.6.11/googleVis/inst/googleVis_hexagon.R |only googleVis-0.6.11/googleVis/man/figures |only googleVis-0.6.11/googleVis/man/gvisAnnotatedTimeLine.Rd | 49 googleVis-0.6.11/googleVis/man/gvisAnnotationChart.Rd | 49 googleVis-0.6.11/googleVis/man/gvisMotionChart.Rd | 4 googleVis-0.6.11/googleVis/vignettes/googleVis_examples.Rmd | 24 googleVis-0.6.11/googleVis/vignettes/googleVis_intro.Rmd | 44 27 files changed, 2047 insertions(+), 2565 deletions(-)
Title: Download Crypto Currency Data from 'CoinMarketCap' without 'API'
Description: Retrieves crypto currency information and historical prices as well as information on the exchanges they are listed on. Historical data contains daily open, high, low and close values for all crypto currencies. All data is scraped from <https://coinmarketcap.com> via their 'web-api'.
Author: Sebastian Stoeckl [aut, cre] (<https://orcid.org/0000-0002-4196-6093>,
Package commissioner and maintainer.),
Jesse Vent [ctb] (Creator of the crypto package that provided the idea
and basis for this package.)
Maintainer: Sebastian Stoeckl <sebastian.stoeckl@uni.li>
Diff between crypto2 versions 1.3.0 dated 2021-06-24 and 1.4.0 dated 2022-01-10
DESCRIPTION | 12 +-- MD5 | 22 +++--- NAMESPACE | 1 NEWS.md | 6 + R/crypto_history.R | 93 +++++++++++++++++------------ R/crypto_info.R | 151 ++++++++++++++++++++++++++++++----------------- R/crypto_list.R | 14 +++- R/globals.R | 2 README.md | 158 +++++++++++++++++++++++++++----------------------- man/crypto_history.Rd | 11 ++- man/crypto_info.Rd | 11 +++ man/exchange_info.Rd | 11 +++ 12 files changed, 305 insertions(+), 187 deletions(-)
Title: Recurrent Neural Network
Description: Implementation of a Recurrent Neural Network architectures in native R, including Long Short-Term Memory (Hochreiter and Schmidhuber, <doi:10.1162/neco.1997.9.8.1735>), Gated Recurrent Unit (Chung et al., <arXiv:1412.3555>) and vanilla RNN.
Author: Bastiaan Quast [aut, cre] (<https://orcid.org/0000-0002-2951-3577>),
Dimitri Fichou [aut]
Maintainer: Bastiaan Quast <bquast@gmail.com>
Diff between rnn versions 1.4.0 dated 2020-07-03 and 1.5.0 dated 2022-01-10
rnn-1.4.0/rnn/tests/testthat/test_rnn.R |only rnn-1.5.0/rnn/DESCRIPTION | 15 rnn-1.5.0/rnn/MD5 | 26 - rnn-1.5.0/rnn/R/rnn.R | 2 rnn-1.5.0/rnn/README.md | 16 rnn-1.5.0/rnn/build/vignette.rds |binary rnn-1.5.0/rnn/inst/CITATION | 2 rnn-1.5.0/rnn/inst/doc/GRU_units.html | 276 +++----------- rnn-1.5.0/rnn/inst/doc/LSTM_units.html | 277 +++----------- rnn-1.5.0/rnn/inst/doc/basic_rnn.html | 589 ++++++++++++++----------------- rnn-1.5.0/rnn/inst/doc/rnn.html | 605 ++++++++++++-------------------- rnn-1.5.0/rnn/inst/doc/rnn_units.html | 227 ++---------- rnn-1.5.0/rnn/inst/doc/sinus.html | 393 ++++++++------------ rnn-1.5.0/rnn/man/rnn.Rd | 2 rnn-1.5.0/rnn/tests/testthat/test-rnn.R |only 15 files changed, 893 insertions(+), 1537 deletions(-)
Title: Extend the 'copula' Package with Families and Models from
'VineCopula'
Description: Provides new classes for (rotated) BB1, BB6, BB7, BB8, and
Tawn copulas, extends the existing Gumbel and Clayton families with
rotations, and allows to set up a vine copula model using the 'copula' API.
Corresponding objects from the 'VineCopula' API can easily be converted.
Author: Thomas Nagler [aut, cre],
Benedikt Graeler [ctb]
Maintainer: Thomas Nagler <mail@tnagler.com>
Diff between VC2copula versions 0.1.1 dated 2020-10-23 and 0.1.2 dated 2022-01-10
DESCRIPTION | 7 - MD5 | 33 ++++---- NEWS.md | 7 + R/0_wrappers.R | 126 ++++++++++++++++++++++----------- R/BB1copula.R | 6 + R/BB6copula.R | 6 + R/BB7copula.R | 6 + R/BB8copula.R | 6 + R/joeBiCopula.R | 7 + R/surClaytonCopula.R | 5 + R/surGumbelCopula.R | 6 + R/tawnT1Copula.R | 7 + R/tawnT2Copula.R | 22 +++-- R/vineCopulas.R | 1 README.md | 6 - man/VC2copula-package.Rd | 5 - man/fitCopula.Rd |only tests/testthat/test-bivariate-models.R | 17 ++-- 18 files changed, 189 insertions(+), 84 deletions(-)
Title: Custom Inputs Widgets for Shiny
Description: Collection of custom input controls and user interface components for 'Shiny' applications.
Give your applications a unique and colorful style !
Author: Victor Perrier [aut, cre, cph],
Fanny Meyer [aut],
David Granjon [aut],
Ian Fellows [ctb] (Methods for mutating vertical tabs &
updateMultiInput),
Wil Davis [ctb] (numericRangeInput function),
Spencer Matthews [ctb] (autoNumeric methods),
JavaScript and CSS libraries authors [ctb, cph] (All authors are listed
in LICENSE.md)
Maintainer: Victor Perrier <victor.perrier@dreamrs.fr>
Diff between shinyWidgets versions 0.6.2 dated 2021-09-17 and 0.6.3 dated 2022-01-10
shinyWidgets-0.6.2/shinyWidgets/inst/assets/bounty |only shinyWidgets-0.6.2/shinyWidgets/inst/assets/numeric |only shinyWidgets-0.6.2/shinyWidgets/inst/assets/vertical-tab-panel/vertical-tab-panel.js |only shinyWidgets-0.6.3/shinyWidgets/DESCRIPTION | 12 shinyWidgets-0.6.3/shinyWidgets/MD5 | 281 ++-- shinyWidgets-0.6.3/shinyWidgets/NAMESPACE | 5 shinyWidgets-0.6.3/shinyWidgets/NEWS.md | 600 +++++----- shinyWidgets-0.6.3/shinyWidgets/R/actionBttn.R | 48 shinyWidgets-0.6.3/shinyWidgets/R/bootstrap-utils.R | 15 shinyWidgets-0.6.3/shinyWidgets/R/color-pickr.R | 2 shinyWidgets-0.6.3/shinyWidgets/R/dependencies.R | 70 - shinyWidgets-0.6.3/shinyWidgets/R/input-actiongroupbuttons.R | 7 shinyWidgets-0.6.3/shinyWidgets/R/input-airDatepicker.R | 2 shinyWidgets-0.6.3/shinyWidgets/R/input-autonumeric.R | 203 +-- shinyWidgets-0.6.3/shinyWidgets/R/input-awesomecheckbox.R | 2 shinyWidgets-0.6.3/shinyWidgets/R/input-awesomeradio.R | 4 shinyWidgets-0.6.3/shinyWidgets/R/input-checkboxgroupbuttons.R | 305 +---- shinyWidgets-0.6.3/shinyWidgets/R/input-circlebutton.R | 2 shinyWidgets-0.6.3/shinyWidgets/R/input-dropdown.R | 46 shinyWidgets-0.6.3/shinyWidgets/R/input-icon.R | 157 +- shinyWidgets-0.6.3/shinyWidgets/R/input-knob.R | 8 shinyWidgets-0.6.3/shinyWidgets/R/input-materialswitch.R | 2 shinyWidgets-0.6.3/shinyWidgets/R/input-multi.R | 2 shinyWidgets-0.6.3/shinyWidgets/R/input-noUiSlider.R | 12 shinyWidgets-0.6.3/shinyWidgets/R/input-numericRange.R | 31 shinyWidgets-0.6.3/shinyWidgets/R/input-pretty.R | 22 shinyWidgets-0.6.3/shinyWidgets/R/input-radiogroupbuttons.R | 245 +--- shinyWidgets-0.6.3/shinyWidgets/R/input-search.R | 2 shinyWidgets-0.6.3/shinyWidgets/R/input-selectpicker.R | 2 shinyWidgets-0.6.3/shinyWidgets/R/input-sliderText.R | 2 shinyWidgets-0.6.3/shinyWidgets/R/input-spectrum.R | 6 shinyWidgets-0.6.3/shinyWidgets/R/input-switch.R | 5 shinyWidgets-0.6.3/shinyWidgets/R/input-textaddon.R | 9 shinyWidgets-0.6.3/shinyWidgets/R/module-selectizeGroup.R | 49 shinyWidgets-0.6.3/shinyWidgets/R/pickerOptions.R | 12 shinyWidgets-0.6.3/shinyWidgets/R/progressBars.R | 11 shinyWidgets-0.6.3/shinyWidgets/R/stati-card.R | 7 shinyWidgets-0.6.3/shinyWidgets/R/sw-dropdown.R | 4 shinyWidgets-0.6.3/shinyWidgets/R/sweetalert.R | 120 +- shinyWidgets-0.6.3/shinyWidgets/R/useBs4Dash.R | 121 -- shinyWidgets-0.6.3/shinyWidgets/R/vertical-tab.R | 139 -- shinyWidgets-0.6.3/shinyWidgets/README.md | 476 +++---- shinyWidgets-0.6.3/shinyWidgets/inst/assets/bootstrap-select/picker-bindings.js | 190 +-- shinyWidgets-0.6.3/shinyWidgets/inst/assets/bootstrap-switch/bootstrap-switch-3.4 |only shinyWidgets-0.6.3/shinyWidgets/inst/assets/buttons-group/checkboxGroupButtons-bindings.js | 18 shinyWidgets-0.6.3/shinyWidgets/inst/assets/buttons-group/checkboxGroupButtons.css | 48 shinyWidgets-0.6.3/shinyWidgets/inst/assets/buttons-group/radioGroupButtons-bindings.js | 18 shinyWidgets-0.6.3/shinyWidgets/inst/assets/buttons-group/radioGroupButtons.css | 94 - shinyWidgets-0.6.3/shinyWidgets/inst/assets/input-icon |only shinyWidgets-0.6.3/shinyWidgets/inst/assets/numericRange/js/numericRange-bindings.js | 9 shinyWidgets-0.6.3/shinyWidgets/inst/assets/shinyWidgets-bindings.min.js | 2 shinyWidgets-0.6.3/shinyWidgets/inst/assets/shinyWidgets.min.css | 2 shinyWidgets-0.6.3/shinyWidgets/inst/assets/stati/bounty.js |only shinyWidgets-0.6.3/shinyWidgets/inst/assets/stati/stati.js |only shinyWidgets-0.6.3/shinyWidgets/inst/assets/sweetalert2/sweetalert-bindings.js | 232 +-- shinyWidgets-0.6.3/shinyWidgets/inst/assets/tools.R | 2 shinyWidgets-0.6.3/shinyWidgets/inst/assets/vertical-tab-panel/vertical-tab-panel-bindings.js | 124 +- shinyWidgets-0.6.3/shinyWidgets/inst/assets/vertical-tab-panel/vtb-custom.scss |only shinyWidgets-0.6.3/shinyWidgets/inst/examples/checkboxGroupButtons/server.R | 2 shinyWidgets-0.6.3/shinyWidgets/inst/examples/checkboxGroupButtons/ui.R | 198 ++- shinyWidgets-0.6.3/shinyWidgets/inst/examples/dropdown/ex-sw-dropdown.R | 2 shinyWidgets-0.6.3/shinyWidgets/inst/examples/radioGroupButtons/server.R | 2 shinyWidgets-0.6.3/shinyWidgets/inst/examples/radioGroupButtons/ui.R | 119 + shinyWidgets-0.6.3/shinyWidgets/inst/examples/shinyWidgets/code_dropdown.R | 2 shinyWidgets-0.6.3/shinyWidgets/inst/examples/shinyWidgets/code_dropdownButton.R | 2 shinyWidgets-0.6.3/shinyWidgets/man/actionBttn.Rd | 4 shinyWidgets-0.6.3/shinyWidgets/man/actionGroupButtons.Rd | 2 shinyWidgets-0.6.3/shinyWidgets/man/addSpinner.Rd | 4 shinyWidgets-0.6.3/shinyWidgets/man/airDatepicker.Rd | 4 shinyWidgets-0.6.3/shinyWidgets/man/animateOptions.Rd | 2 shinyWidgets-0.6.3/shinyWidgets/man/autonumericInput.Rd | 244 ++-- shinyWidgets-0.6.3/shinyWidgets/man/awesomeRadio.Rd | 2 shinyWidgets-0.6.3/shinyWidgets/man/checkboxGroupButtons.Rd | 120 +- shinyWidgets-0.6.3/shinyWidgets/man/circleButton.Rd | 2 shinyWidgets-0.6.3/shinyWidgets/man/colorPickr.Rd | 9 shinyWidgets-0.6.3/shinyWidgets/man/downloadBttn.Rd | 16 shinyWidgets-0.6.3/shinyWidgets/man/dropMenu.Rd | 2 shinyWidgets-0.6.3/shinyWidgets/man/dropMenuOptions.Rd | 4 shinyWidgets-0.6.3/shinyWidgets/man/dropdown.Rd | 2 shinyWidgets-0.6.3/shinyWidgets/man/execute_safely.Rd | 4 shinyWidgets-0.6.3/shinyWidgets/man/formaNumericInputUpdate.Rd | 4 shinyWidgets-0.6.3/shinyWidgets/man/formatNumericInput.Rd | 36 shinyWidgets-0.6.3/shinyWidgets/man/html-dependencies.Rd | 2 shinyWidgets-0.6.3/shinyWidgets/man/inputSweetAlert.Rd | 8 shinyWidgets-0.6.3/shinyWidgets/man/knobInput.Rd | 2 shinyWidgets-0.6.3/shinyWidgets/man/materialSwitch.Rd | 2 shinyWidgets-0.6.3/shinyWidgets/man/multiInput.Rd | 2 shinyWidgets-0.6.3/shinyWidgets/man/noUiSliderInput.Rd | 8 shinyWidgets-0.6.3/shinyWidgets/man/numericInputIcon.Rd | 120 +- shinyWidgets-0.6.3/shinyWidgets/man/numericRangeInput.Rd | 7 shinyWidgets-0.6.3/shinyWidgets/man/pickerGroup-module.Rd | 2 shinyWidgets-0.6.3/shinyWidgets/man/pickerInput.Rd | 10 shinyWidgets-0.6.3/shinyWidgets/man/pickerOptions.Rd | 14 shinyWidgets-0.6.3/shinyWidgets/man/prettyCheckbox.Rd | 2 shinyWidgets-0.6.3/shinyWidgets/man/prettyCheckboxGroup.Rd | 2 shinyWidgets-0.6.3/shinyWidgets/man/prettyRadioButtons.Rd | 2 shinyWidgets-0.6.3/shinyWidgets/man/prettySwitch.Rd | 2 shinyWidgets-0.6.3/shinyWidgets/man/prettyToggle.Rd | 2 shinyWidgets-0.6.3/shinyWidgets/man/progress-bar.Rd | 4 shinyWidgets-0.6.3/shinyWidgets/man/progressSweetAlert.Rd | 12 shinyWidgets-0.6.3/shinyWidgets/man/radioGroupButtons.Rd | 117 + shinyWidgets-0.6.3/shinyWidgets/man/searchInput.Rd | 2 shinyWidgets-0.6.3/shinyWidgets/man/selectizeGroup-module.Rd | 14 shinyWidgets-0.6.3/shinyWidgets/man/show_toast.Rd | 3 shinyWidgets-0.6.3/shinyWidgets/man/sliderTextInput.Rd | 2 shinyWidgets-0.6.3/shinyWidgets/man/spectrumInput.Rd | 2 shinyWidgets-0.6.3/shinyWidgets/man/stati-card.Rd | 2 shinyWidgets-0.6.3/shinyWidgets/man/sweetalert-confirmation.Rd | 5 shinyWidgets-0.6.3/shinyWidgets/man/sweetalert.Rd | 7 shinyWidgets-0.6.3/shinyWidgets/man/switchInput.Rd | 2 shinyWidgets-0.6.3/shinyWidgets/man/textInputAddon.Rd | 4 shinyWidgets-0.6.3/shinyWidgets/man/textInputIcon.Rd | 105 - shinyWidgets-0.6.3/shinyWidgets/man/toggleDropdownButton.Rd | 2 shinyWidgets-0.6.3/shinyWidgets/man/updateAirDateInput.Rd | 2 shinyWidgets-0.6.3/shinyWidgets/man/updateAutonumericInput.Rd | 2 shinyWidgets-0.6.3/shinyWidgets/man/updateAwesomeCheckboxGroup.Rd | 2 shinyWidgets-0.6.3/shinyWidgets/man/updateAwesomeRadio.Rd | 2 shinyWidgets-0.6.3/shinyWidgets/man/updateCheckboxGroupButtons.Rd | 136 +- shinyWidgets-0.6.3/shinyWidgets/man/updateKnobInput.Rd | 8 shinyWidgets-0.6.3/shinyWidgets/man/updateNoUiSliderInput.Rd | 2 shinyWidgets-0.6.3/shinyWidgets/man/updateNumericInputIcon.Rd | 9 shinyWidgets-0.6.3/shinyWidgets/man/updateNumericRangeInput.Rd | 54 shinyWidgets-0.6.3/shinyWidgets/man/updatePrettyCheckbox.Rd | 7 shinyWidgets-0.6.3/shinyWidgets/man/updatePrettyCheckboxGroup.Rd | 2 shinyWidgets-0.6.3/shinyWidgets/man/updatePrettyRadioButtons.Rd | 2 shinyWidgets-0.6.3/shinyWidgets/man/updatePrettySwitch.Rd | 7 shinyWidgets-0.6.3/shinyWidgets/man/updatePrettyToggle.Rd | 7 shinyWidgets-0.6.3/shinyWidgets/man/updateRadioGroupButtons.Rd | 76 - shinyWidgets-0.6.3/shinyWidgets/man/updateSpectrumInput.Rd | 2 shinyWidgets-0.6.3/shinyWidgets/man/updateSwitchInput.Rd | 2 shinyWidgets-0.6.3/shinyWidgets/man/updateTextInputIcon.Rd | 11 shinyWidgets-0.6.3/shinyWidgets/man/useBs4Dash.Rd | 169 +- shinyWidgets-0.6.3/shinyWidgets/man/useSweetAlert.Rd | 8 shinyWidgets-0.6.3/shinyWidgets/man/useTablerDash.Rd | 4 shinyWidgets-0.6.3/shinyWidgets/man/vertical-tab.Rd | 22 shinyWidgets-0.6.3/shinyWidgets/tests/testthat/test-checkboxGroupButtons.R | 29 shinyWidgets-0.6.3/shinyWidgets/tests/testthat/test-dropdown.R | 4 shinyWidgets-0.6.3/shinyWidgets/tests/testthat/test-dropdownButton.R | 4 shinyWidgets-0.6.3/shinyWidgets/tests/testthat/test-numericRange.R | 6 shinyWidgets-0.6.3/shinyWidgets/tests/testthat/test-panel.R | 7 shinyWidgets-0.6.3/shinyWidgets/tests/testthat/test-radioGroupButtons.R | 29 shinyWidgets-0.6.3/shinyWidgets/tests/testthat/test-updateCheckboxGroupButtons.R | 2 shinyWidgets-0.6.3/shinyWidgets/tests/testthat/test-updateRadioGroupButtons.R | 2 143 files changed, 2979 insertions(+), 2685 deletions(-)
Title: Summary Tables and Plots for Statistical Models and Data:
Beautiful, Customizable, and Publication-Ready
Description: Create beautiful and customizable tables to summarize several
statistical models side-by-side. Draw coefficient plots, multi-level
cross-tabs, dataset summaries, balance tables (a.k.a. "Table 1s"), and
correlation matrices. This package supports dozens of statistical models,
and it can produce tables in HTML, LaTeX, Word, Markdown, PDF, PowerPoint,
Excel, RTF, JPG, or PNG. Tables can easily be embedded in 'Rmarkdown' or
'knitr' dynamic documents.
Author: Vincent Arel-Bundock [aut, cre]
(<https://orcid.org/0000-0003-2042-7063>),
Joachim Gassen [ctb] (<https://orcid.org/0000-0003-4364-2911>),
Nathan Eastwood [ctb],
Nick Huntington-Klein [ctb] (<https://orcid.org/0000-0002-7352-3991>),
Moritz Schwarz [ctb] (<https://orcid.org/0000-0003-0340-3780>),
Benjamin Elbers [ctb] (0000-0001-5392-3448),
Grant McDermott [ctb] (<https://orcid.org/0000-0001-7883-8573>)
Maintainer: Vincent Arel-Bundock <vincent.arel-bundock@umontreal.ca>
Diff between modelsummary versions 0.9.4 dated 2021-11-05 and 0.9.5 dated 2022-01-10
DESCRIPTION | 11 ++-- MD5 | 44 +++++++++-------- NEWS.md | 22 ++++++++ R/datasummary.R | 8 +++ R/datasummary_skim.R | 19 ++++++- R/factory_kableExtra.R | 2 R/get_estimates.R | 10 +++- R/get_gof.R | 10 +++- R/modelsummary.R | 5 +- R/sanitize_gof_map.R | 7 ++ R/sanitize_output.R | 8 +++ R/sanitize_vcov.R | 94 ++++++++++++++------------------------ README.md | 2 build/modelsummary.pdf |binary man/get_estimates.Rd | 10 ++-- man/modelplot.Rd | 5 +- man/modelsummary.Rd | 19 ++++++- man/modelsummary_wide.Rd | 5 +- man/msummary.Rd | 19 ++++++- tests/testthat/helper-requiet.R | 1 tests/testthat/test-datasummary.R | 9 +++ tests/testthat/test-gof_map.R |only tests/testthat/test-missing.R | 2 tests/testthat/test-pkg-lme4.R |only 24 files changed, 203 insertions(+), 109 deletions(-)
Title: Some EM-Type Estimation Methods for the Heckman Selection Model
Description: Some EM-type algorithms to estimate parameters for the well-known Heckman selection model are provided in the package. Such algorithms are as follow: ECM(Expectation/Conditional Maximization), ECM(NR)(the Newton-Raphson method is adapted to the ECM) and ECME(Expectation/Conditional Maximization Either). Since the algorithms are based on the EM algorithm, they also have EM’s main advantages, namely, stability and ease of implementation. Further details and explanations of the algorithms can be found in Zhao et al. (2020) <doi: 10.1016/j.csda.2020.106930>.
Author: Kexuan Yang <717260446@qq.com>, Sang Kyu Lee <leesa111@msu.edu>, Jun Zhao <zhaojun2021@hotmail.com>, and Hyoung-Moon Kim <hmk966a@gmail.com >
Maintainer: Sang Kyu Lee <leesa111@msu.edu>
Diff between EMSS versions 1.1.0 dated 2021-05-10 and 1.1.1 dated 2022-01-10
DESCRIPTION | 8 MD5 | 12 NAMESPACE | 1 NEWS.md | 14 R/EMSS.R | 2168 +++++++++++++++++++++--------------------- tests/testthat.R | 8 tests/testthat/test-summary.R | 12 7 files changed, 1118 insertions(+), 1105 deletions(-)
Title: Global Value Chain Decomposition
Description: Three global value chain (GVC) decompositions are implemented.
The Leontief decomposition derives the value added origin of exports by
country and industry as in Hummels, Ishii and Yi (2001). The Koopman,
Wang and Wei (2014) decomposition splits country-level exports into 9
value added components, and the Wang, Wei and Zhu (2013) decomposition
splits bilateral exports into 16 value added components. Various GVC
indicators based on these decompositions are computed in the
complimentary 'gvc' package.
--- References: ---
Hummels, D., Ishii, J., & Yi, K. M. (2001). The nature and growth of
vertical specialization in world trade. Journal of international
Economics, 54(1), 75-96.
Koopman, R., Wang, Z., & Wei, S. J. (2014). Tracing value-added and double
counting in gross exports. American Economic Review, 104(2), 459-94.
Wang, Z., Wei, S. J., & Zhu, K. (2013). Quantifying international production
sharing at the bilateral and sector levels (No. w19677).
National Bureau of Economic Research.
Author: Bastiaan Quast [aut, cre] (<https://orcid.org/0000-0002-2951-3577>),
Fei Wang [aut],
Victor Stolzenburg [aut],
Oliver Reiter [ctb],
Sebastian Krantz [ctb]
Maintainer: Bastiaan Quast <bquast@gmail.com>
Diff between decompr versions 6.0.0 dated 2021-05-09 and 6.2.0 dated 2022-01-10
decompr-6.0.0/decompr/NEWS |only decompr-6.2.0/decompr/DESCRIPTION | 16 ++++++++-------- decompr-6.2.0/decompr/MD5 | 15 +++++++-------- decompr-6.2.0/decompr/R/decompr.R | 11 ++++++----- decompr-6.2.0/decompr/README.md | 4 ++-- decompr-6.2.0/decompr/build/vignette.rds |binary decompr-6.2.0/decompr/inst/CITATION | 2 +- decompr-6.2.0/decompr/inst/doc/decompr.html | 9 +++++---- decompr-6.2.0/decompr/man/decompr-package.Rd | 4 ++-- 9 files changed, 31 insertions(+), 30 deletions(-)
Title: Interfaces for Loading Datasets
Description: Visual interface for loading datasets in RStudio from all installed (including unloaded) packages, also includes command line interfaces.
Author: Bastiaan quast [aut, cre] (<https://orcid.org/0000-0002-2951-3577>)
Maintainer: Bastiaan quast <bquast@gmail.com>
Diff between datasets.load versions 1.6.0 dated 2021-05-10 and 2.0.0 dated 2022-01-10
DESCRIPTION | 12 ++++++------ MD5 | 10 +++++----- NEWS.md | 4 ++++ R/datasets.R | 4 ---- README.md | 2 +- man/datasets.Rd | 5 ----- 6 files changed, 16 insertions(+), 21 deletions(-)
Title: Interface to 'Keras Tuner'
Description: 'Keras Tuner' <https://keras-team.github.io/keras-tuner/> is a hypertuning framework made for humans.
It aims at making the life of AI practitioners, hypertuner
algorithm creators and model designers as simple as possible by
providing them with a clean and easy to use API for hypertuning.
'Keras Tuner' makes moving from a base model to a hypertuned one quick and
easy by only requiring you to change a few lines of code.
Author: Turgut Abdullayev [aut, cre],
Google Inc. [cph]
Maintainer: Turgut Abdullayev <turqut.a.314@gmail.com>
Diff between kerastuneR versions 0.1.0.3 dated 2020-10-04 and 0.1.0.4 dated 2022-01-10
DESCRIPTION | 13 MD5 | 38 +- R/install.R | 2 R/package.R | 2 README.md | 17 - build/vignette.rds |binary inst/doc/BayesianOptimisation.html | 484 +++++++++++-------------------------- inst/doc/HyperModel_subclass.html | 406 ++++++++----------------------- inst/doc/Introduction.Rmd | 4 inst/doc/Introduction.html | 213 +--------------- inst/doc/MNIST.html | 386 +++++++---------------------- inst/doc/best_practice.html | 420 +++++++++----------------------- tests/testthat/test-BayesOptim.R | 2 tests/testthat/test-MNIST-conv.R | 6 tests/testthat/test-build.R | 2 tests/testthat/test-hp-space.R | 4 tests/testthat/test-hyper_class.R | 2 tests/testthat/test-resnet.R | 4 vignettes/Introduction.Rmd | 4 vignettes/Introduction.md | 4 20 files changed, 556 insertions(+), 1457 deletions(-)
Title: Introduction to Statistical Learning, Second Edition
Description: We provide the collection of data-sets used in the book 'An Introduction to Statistical Learning with Applications in R, Second Edition'. These include many data-sets that we used in the first edition (some with minor changes), and some new datasets.
Author: Gareth James [aut],
Daniela Witten [aut],
Trevor Hastie [aut, cre],
Rob Tibshirani [aut],
Balasubramanian Narasimhan [ctb]
Maintainer: Trevor Hastie <hastie@stanford.edu>
Diff between ISLR2 versions 1.3 dated 2021-10-05 and 1.3-1 dated 2022-01-10
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- inst/helpers/install.R | 2 +- 3 files changed, 7 insertions(+), 7 deletions(-)
Title: Cluster Gauss-Newton Method
Description: Find multiple solutions of a nonlinear least squares problem. Cluster Gauss-Newton method does not assume uniqueness of the solution of the nonlinear least squares problem and compute approximate multiple minimizers. Please cite the following paper when this software is used in your research: Aoki et al. (2020) <doi:10.1007/s11081-020-09571-2>. Cluster Gauss–Newton method. Optimization and Engineering, 1-31.
Author: Yasunori Aoki
Maintainer: Yasunori Aoki <yaoki@uwaterloo.ca>
Diff between CGNM versions 0.1.0 dated 2022-01-06 and 0.1.1 dated 2022-01-10
DESCRIPTION | 6 +-- MD5 | 8 ++-- R/Cluster_Gauss_Newton_method.R | 1 R/PostProcess.R | 2 - inst/doc/my-vignette.html | 66 ++++++++++++++++++++-------------------- 5 files changed, 42 insertions(+), 41 deletions(-)
Title: A Wrapper of the JavaScript Library 'jsTree'
Description: Creates interactive trees that can be included in 'Shiny' apps and R markdown documents. A tree allows to represent hierarchical data (e.g. the contents of a directory). Similar to the 'shinyTree' package but offers more features and options, such as the grid extension, restricting the drag-and-drop behavior, and settings for the search functionality. It is possible to attach some data to the nodes of a tree and then to get these data in 'Shiny' when a node is selected. Also provides a 'Shiny' gadget allowing to manipulate one or more folders.
Author: Stéphane Laurent [aut, cre],
jQuery contributors [ctb, cph] (jQuery),
Ivan Bozhanov [ctb, cph] (jsTree),
Vedran Opacic [ctb, cph] (jsTree bootstrap theme),
Avi Deitcher [ctb, cph] (jsTreeGrid),
Philip Hutchison [ctb, cph] (PDFObject),
Terence Eden [ctb, cph] (SuperTinyIcons)
Maintainer: Stéphane Laurent <laurent_step@outlook.fr>
Diff between jsTreeR versions 1.4.0 dated 2021-09-19 and 1.5.0 dated 2022-01-10
DESCRIPTION | 8 - MD5 | 11 +- NAMESPACE | 75 +++++++------- NEWS.md | 6 + R/jstree-shiny.R | 13 ++ inst/htmlwidgets/jstreer.js | 234 +++++++++++++++++++++----------------------- man/jstreeDestroy.Rd |only 7 files changed, 181 insertions(+), 166 deletions(-)
Title: Selected ISO Codes
Description: ISO language, territory, currency, script and character codes.
Provides ISO 639 language codes, ISO 3166 territory codes, ISO 4217
currency codes, ISO 15924 script codes, and the ISO 8859 character codes
as well as the UN M.49 area codes.
Author: Christian Buchta [aut],
Kurt Hornik [aut, cre] (<https://orcid.org/0000-0003-4198-9911>)
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between ISOcodes versions 2021.02.24 dated 2021-02-24 and 2022.01.10 dated 2022-01-10
DESCRIPTION | 6 +++--- MD5 | 28 ++++++++++++++-------------- data/ISO_15924.rda |binary data/ISO_3166_1.rda |binary data/ISO_3166_2.rda |binary data/ISO_3166_3.rda |binary data/ISO_4217.rda |binary data/ISO_4217_Historic.rda |binary data/ISO_639_2.rda |binary data/ISO_639_3.rda |binary data/ISO_639_3_Retirements.rda |binary data/ISO_639_5.rda |binary data/ISO_8859.rda |binary data/UN_M.49_Countries.rda |binary data/UN_M.49_Regions.rda |binary 15 files changed, 17 insertions(+), 17 deletions(-)
Title: Estimation and Prediction Methods for High-Dimensional Mixed
Frequency Time Series Data
Description: The 'midasml' package implements estimation and prediction methods for high-dimensional mixed-frequency (MIDAS) time-series and panel data regression models. The regularized MIDAS models are estimated using orthogonal (e.g. Legendre) polynomials and sparse-group LASSO (sg-LASSO) estimator. For more information on the 'midasml' approach see Babii, Ghysels, and Striaukas (2021, JBES forthcoming) <doi:10.1080/07350015.2021.1899933>. The package is equipped with the fast implementation of the sg-LASSO estimator by means of proximal block coordinate descent. High-dimensional mixed frequency time-series data can also be easily manipulated with functions provided in the package.
Author: Jonas Striaukas [cre, aut],
Andrii Babii [aut],
Eric Ghysels [aut],
Alex Kostrov [ctb] (Contributions to analytical gradients for
non-linear low-dimensional MIDAS estimation code)
Maintainer: Jonas Striaukas <jonas.striaukas@gmail.com>
Diff between midasml versions 0.1.8 dated 2021-12-16 and 0.1.9 dated 2022-01-10
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- R/reg.sgl.R | 2 +- R/thetafit.R | 6 +++--- man/thetafit.Rd | 2 +- 5 files changed, 12 insertions(+), 12 deletions(-)
Title: Proteomics Data Analysis Functions
Description: Data analysis of proteomics experiments by mass spectrometry is supported by this collection of functions mostly dedicated to the analysis of (bottom-up) quantitative (XIC) data.
Fasta-formatted proteomes (eg from UniProt Consortium <doi:10.1093/nar/gky1049>) can be read with automatic parsing and multiple annotation types (like species origin, abbreviated gene names, etc) extracted.
Quantitative proteomics measurements frequently contain multiple NA values, due to physical absence of given peptides in some samples, limitations in sensitivity or other reasons.
The functions provided here help to inspect graphically the data to investigate the nature of NA-values via their respective replicate measurements and to help/confirm the choice of NA-replacement by low random values.
Dedicated filtering and statistical testing using the framework of package 'limma' <doi:10.18129/B9.bioc.limma> can be run, enhanced by multiple rounds of NA-replacements to provide robustness towards rare stochastic events.
Multi-species samples, as frequently used in benchmark-tests (eg Navarro et al 2016 <doi:10.1038/nbt.3685>, Ramus et al 2016 <doi:10.1016/j.jprot.2015.11.011>), can be run with special options separating
the data into sub-groups during normalization and testing.
As example the data-set from Ramus et al 2016 <doi:10.1016/j.jprot.2015.11.011>) is provided quantified by MaxQuant (Tyanova et al 2016 <doi:10.1038/nprot.2016.136>), ProteomeDiscoverer,
OpenMS (<doi:10.1038/nmeth.3959>) and Proline (Bouyssie et al 2020 <doi:10.1093/bioinformatics/btaa118>). Meta-data provided in sdrf format can be integrated to the analysis.
Subsequently, ROC curves (Hand and Till 2001 <doi:10.1023/A:1010920819831>) can be constructed to compare multiple analysis approaches.
Author: Wolfgang Raffelsberger [aut, cre]
Maintainer: Wolfgang Raffelsberger <w.raffelsberger@gmail.com>
Diff between wrProteo versions 1.4.3 dated 2021-07-13 and 1.5.0 dated 2022-01-10
DESCRIPTION | 17 MD5 | 80 - NAMESPACE | 1 R/AucRoc.R | 1 R/VolcanoPlotW2.R | 2 R/combineMultFilterNAimput.R | 11 R/corColumnOrder.R | 54 R/extractTestingResults.R | 4 R/foldChangeArrow2.R | 7 R/isolNAneighb.R | 46 R/matrixNAinspect.R | 13 R/matrixNAneighbourImpute.R | 404 +++---- R/plotROC.R | 3 R/razorNoFilter.R | 26 R/readFasta2.R | 50 R/readMassChroQFile.R | 9 R/readMaxQuantFile.R | 102 + R/readProlineFile.R | 180 ++- R/readProtDiscovFile.R | 105 + R/readSdrf.R |only R/readUniProtExport.R | 3 R/removeSampleInList.R | 35 R/summarizeForROC.R | 7 R/test2grp.R | 12 R/testRobustToNAimputation.R | 310 ++--- build/vignette.rds |binary inst/doc/wrProteoVignette1.R | 15 inst/doc/wrProteoVignette1.Rmd | 51 inst/doc/wrProteoVignette1.html | 361 +++--- inst/doc/wrProteoVignetteUPS1.R | 194 ++- inst/doc/wrProteoVignetteUPS1.Rmd | 220 ++- inst/doc/wrProteoVignetteUPS1.html | 2090 ++++++++++++++++++------------------- man/combineMultFilterNAimput.Rd | 6 man/isolNAneighb.Rd | 11 man/matrixNAneighbourImpute.Rd | 7 man/readProlineFile.Rd | 10 man/readProtDiscovFile.Rd | 2 man/readSdrf.Rd |only man/removeSampleInList.Rd | 6 man/test2grp.Rd | 2 vignettes/wrProteoVignette1.Rmd | 51 vignettes/wrProteoVignetteUPS1.Rmd | 220 ++- 42 files changed, 2579 insertions(+), 2149 deletions(-)
Title: Open Source OCR Engine
Description: Bindings to 'Tesseract' <https://opensource.google/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 4.2.0 dated 2021-12-03 and 5.0.0 dated 2022-01-10
DESCRIPTION | 6 - MD5 | 20 +-- NEWS | 5 configure | 4 inst/doc/intro.R | 36 +++--- inst/doc/intro.Rmd | 4 inst/doc/intro.html | 293 +++++++++++++++++++++++++++----------------------- src/Makevars.win | 12 -- src/tesseract.cpp | 35 ++--- src/tesseract_types.h | 5 vignettes/intro.Rmd | 4 11 files changed, 219 insertions(+), 205 deletions(-)
Title: Toolbox for Regression Discontinuity Design ('RDD')
Description: Set of functions for Regression Discontinuity Design ('RDD'), for
data visualisation, estimation and testing.
Author: Matthieu Stigler [aut] (<https://orcid.org/0000-0002-6802-4290>),
Bastiaan Quast [aut, cre] (<https://orcid.org/0000-0002-2951-3577>)
Maintainer: Bastiaan Quast <bquast@gmail.com>
Diff between rddtools versions 1.5.0 dated 2021-05-16 and 1.6.0 dated 2022-01-10
DESCRIPTION | 14 +++++++------- MD5 | 12 ++++++------ NEWS.md | 4 ++++ R/various_code.R | 7 +++++++ build/vignette.rds |binary inst/doc/morocco.html | 6 +++--- inst/doc/rddtools.html | 6 +++--- 7 files changed, 30 insertions(+), 19 deletions(-)
Title: Algebraic Tools for the Analysis of Multiple Social Networks
Description: Algebraic procedures for the analysis of multiple social networks are delivered with this
package as described in Ostoic (2020) <DOI:10.18637/jss.v092.i11>. Among other things, it
makes it possible to create and manipulate multiplex, multimode, and multilevel network data
with different formats. There are effective ways available to treat multiple networks with
routines that combine algebraic systems like the partially ordered semigroup or the semiring
structure with the relational bundles occurring in different types of multivariate network
data sets. It also provides an algebraic approach for affiliation networks through Galois
derivations between families of the pairs of subsets in the two domains.
Author: Antonio Rivero Ostoic [aut, cre]
Maintainer: Antonio Rivero Ostoic <multiplex@post.com>
Diff between multiplex versions 2.9.6 dated 2021-09-08 and 2.9.7 dated 2022-01-10
DESCRIPTION | 8 +++---- MD5 | 36 +++++++++++++++++---------------- NAMESPACE | 1 R/diagram.R | 42 ++++++++++++++++++++++++++------------- R/mlvl.R | 15 ++++++++++++-- R/read.srt.R | 46 ++++++++++++++++++++++--------------------- R/transf.R | 8 +++++++ R/zbindd.R |only data/incA.rda |binary data/incB.rda |binary data/incubA.rda |binary data/incubB.rda |binary data/incubs.rda |binary inst/CHANGELOG | 11 +++++++++- inst/doc/TwoModeNetworks.pdf |binary man/diagram.Rd | 11 +++++++--- man/expos.Rd | 2 - man/mlvl.Rd | 40 +++++++++++++++++++++---------------- man/multiplex-package.Rd | 4 +-- man/zbindd.Rd |only 20 files changed, 141 insertions(+), 83 deletions(-)
Title: Java GUI for R
Description: Java GUI for R - cross-platform, universal and unified Graphical User Interface for R. For full functionality on Windows and Mac OS X JGR requires a start application which depends on your OS.
Author: Markus Helbig <mhelbig81@googlemail.com>, Simon Urbanek, Ian Fellows
Maintainer: Markus Helbig <mhelbig81@googlemail.com>
Diff between JGR versions 1.9-0 dated 2022-01-03 and 1.9-1 dated 2022-01-10
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS | 3 +++ R/JGR.R | 2 +- inst/java/JGR.jar |binary java/org/rosuda/JGR/JGR.java | 10 ++++------ 6 files changed, 17 insertions(+), 16 deletions(-)
Title: Group Subset Selection
Description: Provides tools for sparse regression modelling with grouped predictors using the group
subset selection penalty. Uses coordinate descent and local search algorithms to rapidly deliver
near optimal estimates. The group subset penalty can be combined with a group lasso or ridge
penalty for added shrinkage. Linear and logistic regression are supported, as are overlapping
groups.
Author: Ryan Thompson [aut, cre] (<https://orcid.org/0000-0002-9002-0448>)
Maintainer: Ryan Thompson <ryan.thompson@monash.edu>
Diff between grpsel versions 1.1.1 dated 2021-07-13 and 1.2.0 dated 2022-01-10
grpsel-1.1.1/grpsel/tests/testthat/test-grpsel-cv.R |only grpsel-1.2.0/grpsel/DESCRIPTION | 8 - grpsel-1.2.0/grpsel/MD5 | 24 +-- grpsel-1.2.0/grpsel/NEWS.md | 16 +- grpsel-1.2.0/grpsel/R/cv-grpsel.R | 27 ---- grpsel-1.2.0/grpsel/R/grpsel.R | 2 grpsel-1.2.0/grpsel/build/vignette.rds |binary grpsel-1.2.0/grpsel/inst/doc/vignette.html | 126 ++++++++++---------- grpsel-1.2.0/grpsel/man/cv.grpsel.Rd | 9 - grpsel-1.2.0/grpsel/man/grpsel.Rd | 2 grpsel-1.2.0/grpsel/src/loss.cpp | 2 grpsel-1.2.0/grpsel/src/ls.cpp | 2 grpsel-1.2.0/grpsel/tests/testthat/test-cv-grpsel.R |only grpsel-1.2.0/grpsel/tests/testthat/test-grpsel.R | 46 ++++++- 14 files changed, 143 insertions(+), 121 deletions(-)
Title: Estimation Methods for Markets in Equilibrium and Disequilibrium
Description: Provides estimation methods for markets in equilibrium and
disequilibrium. Supports the estimation of an equilibrium and
four disequilibrium models with both correlated and independent shocks.
Also provides post-estimation analysis tools, such as aggregation,
marginal effect, and shortage calculations. The estimation methods are
based on full information maximum likelihood techniques given in
Maddala and Nelson (1974) <doi:10.2307/1914215>. They are implemented
using the analytic derivative expressions calculated in
Karapanagiotis (2020) <doi:10.2139/ssrn.3525622>. Standard
errors can be estimated by adjusting for heteroscedasticity or clustering.
The equilibrium estimation constitutes a case of a system of linear,
simultaneous equations. Instead, the disequilibrium models replace the
market-clearing condition with a non-linear,
short-side rule and allow for different specifications of price dynamics.
Author: Pantelis Karapanagiotis [aut, cre]
(<https://orcid.org/0000-0001-9871-1908>)
Maintainer: Pantelis Karapanagiotis <pikappa.devel@gmail.com>
Diff between diseq versions 0.3.1 dated 2021-05-11 and 0.4.1 dated 2022-01-10
diseq-0.3.1/diseq/man/number_of_observations.Rd |only diseq-0.3.1/diseq/man/summary.Rd |only diseq-0.4.1/diseq/DESCRIPTION | 19 diseq-0.4.1/diseq/MD5 | 146 - diseq-0.4.1/diseq/NAMESPACE | 22 diseq-0.4.1/diseq/NEWS.md | 39 diseq-0.4.1/diseq/R/diseq_basic.R | 64 diseq-0.4.1/diseq/R/diseq_deterministic_adjustment.R | 47 diseq-0.4.1/diseq/R/diseq_directional.R | 63 diseq-0.4.1/diseq/R/diseq_stochastic_adjustment.R | 86 diseq-0.4.1/diseq/R/disequilibrium_model.R | 282 +- diseq-0.4.1/diseq/R/equation_base.R | 154 - diseq-0.4.1/diseq/R/equation_basic.R | 4 diseq-0.4.1/diseq/R/equation_deterministic_adjustment.R | 4 diseq-0.4.1/diseq/R/equation_directional.R | 4 diseq-0.4.1/diseq/R/equation_stochastic_adjustment.R | 6 diseq-0.4.1/diseq/R/equilibrium_model.R | 104 diseq-0.4.1/diseq/R/market_fit.R |only diseq-0.4.1/diseq/R/market_model.R | 840 ++++---- diseq-0.4.1/diseq/R/model_simulation.R | 238 +- diseq-0.4.1/diseq/R/system_base.R | 54 diseq-0.4.1/diseq/R/system_basic.R | 20 diseq-0.4.1/diseq/R/system_deterministic_adjustment.R | 35 diseq-0.4.1/diseq/R/system_directional.R | 24 diseq-0.4.1/diseq/R/system_equilibrium.R | 19 diseq-0.4.1/diseq/R/system_stochastic_adjustment.R | 51 diseq-0.4.1/diseq/README.md | 236 -- diseq-0.4.1/diseq/build/partial.rdb |binary diseq-0.4.1/diseq/build/vignette.rds |binary diseq-0.4.1/diseq/configure | 18 diseq-0.4.1/diseq/configure.ac | 2 diseq-0.4.1/diseq/inst/WORDLIST | 1 diseq-0.4.1/diseq/inst/doc/basic_usage.R | 219 -- diseq-0.4.1/diseq/inst/doc/basic_usage.Rmd | 269 -- diseq-0.4.1/diseq/inst/doc/basic_usage.html | 1047 ++++------ diseq-0.4.1/diseq/inst/doc/market_clearing_assessment.R | 127 - diseq-0.4.1/diseq/inst/doc/market_clearing_assessment.Rmd | 132 - diseq-0.4.1/diseq/inst/doc/market_clearing_assessment.html | 821 +++---- diseq-0.4.1/diseq/inst/doc/model_details.R |only diseq-0.4.1/diseq/inst/doc/model_details.Rmd |only diseq-0.4.1/diseq/inst/doc/model_details.html |only diseq-0.4.1/diseq/inst/doc/package.html | 29 diseq-0.4.1/diseq/man/coef.Rd |only diseq-0.4.1/diseq/man/equation_classes.Rd | 12 diseq-0.4.1/diseq/man/estimate.Rd | 50 diseq-0.4.1/diseq/man/figures/design.png |binary diseq-0.4.1/diseq/man/figures/diseq_basic.png |binary diseq-0.4.1/diseq/man/figures/diseq_deterministic_adjustment.png |binary diseq-0.4.1/diseq/man/figures/diseq_directional.png |binary diseq-0.4.1/diseq/man/figures/diseq_stochastic_adjustment.png |binary diseq-0.4.1/diseq/man/figures/equilibrium_model.png |binary diseq-0.4.1/diseq/man/figures/implementation.png |binary diseq-0.4.1/diseq/man/formula-market_model-method.Rd |only diseq-0.4.1/diseq/man/initialize_market_model.Rd | 129 - diseq-0.4.1/diseq/man/logLik.Rd |only diseq-0.4.1/diseq/man/marginal_effects.Rd | 71 diseq-0.4.1/diseq/man/market_aggregation.Rd | 52 diseq-0.4.1/diseq/man/market_descriptives.Rd | 6 diseq-0.4.1/diseq/man/market_models.Rd | 26 diseq-0.4.1/diseq/man/market_quantities.Rd | 47 diseq-0.4.1/diseq/man/maximize_log_likelihood.Rd | 10 diseq-0.4.1/diseq/man/nobs.Rd |only diseq-0.4.1/diseq/man/plot.Rd | 46 diseq-0.4.1/diseq/man/scores.Rd | 45 diseq-0.4.1/diseq/man/shortage_analysis.Rd | 115 - diseq-0.4.1/diseq/man/show.Rd | 5 diseq-0.4.1/diseq/man/single_call_estimation.Rd |only diseq-0.4.1/diseq/man/summaries.Rd |only diseq-0.4.1/diseq/man/system_classes.Rd | 12 diseq-0.4.1/diseq/man/vcov.Rd |only diseq-0.4.1/diseq/src/RcppExports.cpp | 5 diseq-0.4.1/diseq/src/equilibrium.cpp | 5 diseq-0.4.1/diseq/tests/testthat/helper-common.R | 114 - diseq-0.4.1/diseq/tests/testthat/test-basic.R | 55 diseq-0.4.1/diseq/tests/testthat/test-deterministic_adjustment.R | 46 diseq-0.4.1/diseq/tests/testthat/test-directional.R | 43 diseq-0.4.1/diseq/tests/testthat/test-equilibrium.R | 38 diseq-0.4.1/diseq/tests/testthat/test-stochastic_adjustment.R | 49 diseq-0.4.1/diseq/vignettes/basic_usage.Rmd | 269 -- diseq-0.4.1/diseq/vignettes/market_clearing_assessment.Rmd | 132 - diseq-0.4.1/diseq/vignettes/model_details.Rmd |only 81 files changed, 3268 insertions(+), 3340 deletions(-)
Title: An Implementation of the Critical Path Method
Description: An R implementation of the Critical Path Method (CPM).
CPM is a method used to estimate the minimum project duration and determine
the amount of scheduling flexibility on the logical network paths within the
schedule model. The flexibility is in terms of early start, early finish,
late start, late finish, total float and free float. Beside, it permits
to quantify the complexity of network diagram through the analysis of
topological indicators. Finally, it permits to change the activities duration
to perform what-if scenario analysis. The package was built based on following
references: To make topological sorting and other graph operation, we use
Csardi, G. & Nepusz, T. (2005)
<https://www.researchgate.net/publication/221995787_The_Igraph_Software_Package_for_Complex_Network_Research>;
For schedule concept, the reference was Project Management Institute (2017)
<https://www.pmi.org/pmbok-guide-standards/foundational/pmbok>;
For standards terms, we use Project Management Institute (2017)
<https://www.pmi.org/pmbok-guide-standards/lexicon>;
For algorithms on Critical Path Method development, we use
Vanhoucke, M. (2013) <doi:10.1007/978-3-642-40438-2> and
Vanhoucke, M. (2014) <doi:10.1007/978-3-319-04331-9>;
And, finally, for topological definitions, we use
Vanhoucke, M. (2009) <doi:10.1007/978-1-4419-1014-1>.
Author: Rubens Jose Rosa [aut, cre],
Marcos dos Santos [aut],
Thiago Marques [aut]
Maintainer: Rubens Jose Rosa <rubens@rubensjoserosa.com>
Diff between criticalpath versions 0.1.0 dated 2021-02-05 and 0.2.0 dated 2022-01-10
criticalpath-0.1.0/criticalpath/tests/testthat/test-add_act_rel.R |only criticalpath-0.1.0/criticalpath/tests/testthat/test-add_activity.R |only criticalpath-0.1.0/criticalpath/tests/testthat/test-add_relation.R |only criticalpath-0.1.0/criticalpath/tests/testthat/test-all_predecessors.R |only criticalpath-0.1.0/criticalpath/tests/testthat/test-all_successors.R |only criticalpath-0.1.0/criticalpath/tests/testthat/test-change_durations.R |only criticalpath-0.1.0/criticalpath/tests/testthat/test-early_start_finish_by_relation_type.R |only criticalpath-0.1.0/criticalpath/tests/testthat/test-gantt_matrix.R |only criticalpath-0.1.0/criticalpath/tests/testthat/test-is_redundant.R |only criticalpath-0.1.0/criticalpath/tests/testthat/test-make_empty_schedule.R |only criticalpath-0.1.0/criticalpath/tests/testthat/test-schedule_from_data_frame.R |only criticalpath-0.1.0/criticalpath/tests/testthat/test-topological_indicators.R |only criticalpath-0.2.0/criticalpath/DESCRIPTION | 19 criticalpath-0.2.0/criticalpath/MD5 | 109 criticalpath-0.2.0/criticalpath/NAMESPACE | 38 criticalpath-0.2.0/criticalpath/NEWS.md | 20 criticalpath-0.2.0/criticalpath/R/Schedule.R | 807 ---- criticalpath-0.2.0/criticalpath/R/cpt_calculate_critical_path.R |only criticalpath-0.2.0/criticalpath/R/cpt_schedule_status.R |only criticalpath-0.2.0/criticalpath/R/cpt_topological_organization.R |only criticalpath-0.2.0/criticalpath/R/cpt_utils.R |only criticalpath-0.2.0/criticalpath/R/criticalpath.R | 41 criticalpath-0.2.0/criticalpath/R/sch_activity.R |only criticalpath-0.2.0/criticalpath/R/sch_relation.R |only criticalpath-0.2.0/criticalpath/R/sch_schedule.R |only criticalpath-0.2.0/criticalpath/R/sch_topological_indicators.R |only criticalpath-0.2.0/criticalpath/R/utils-pipe.R |only criticalpath-0.2.0/criticalpath/README.md | 108 criticalpath-0.2.0/criticalpath/build/vignette.rds |binary criticalpath-0.2.0/criticalpath/inst/doc/criticalpath-introduction.R | 589 +-- criticalpath-0.2.0/criticalpath/inst/doc/criticalpath-introduction.Rmd | 1036 ++--- criticalpath-0.2.0/criticalpath/inst/doc/criticalpath-introduction.html | 1943 ++++------ criticalpath-0.2.0/criticalpath/man/Schedule.Rd | 1129 ----- criticalpath-0.2.0/criticalpath/man/criticalpath.Rd | 69 criticalpath-0.2.0/criticalpath/man/pipe.Rd |only criticalpath-0.2.0/criticalpath/man/pipeAssign.Rd |only criticalpath-0.2.0/criticalpath/man/sch_activities.Rd |only criticalpath-0.2.0/criticalpath/man/sch_add_activities.Rd |only criticalpath-0.2.0/criticalpath/man/sch_add_activity.Rd |only criticalpath-0.2.0/criticalpath/man/sch_add_relation.Rd |only criticalpath-0.2.0/criticalpath/man/sch_add_relations.Rd |only criticalpath-0.2.0/criticalpath/man/sch_all_predecessors.Rd |only criticalpath-0.2.0/criticalpath/man/sch_all_successors.Rd |only criticalpath-0.2.0/criticalpath/man/sch_change_activities_duration.Rd |only criticalpath-0.2.0/criticalpath/man/sch_critical_activities.Rd |only criticalpath-0.2.0/criticalpath/man/sch_critical_relations.Rd |only criticalpath-0.2.0/criticalpath/man/sch_duration.Rd |only criticalpath-0.2.0/criticalpath/man/sch_gantt_matrix.Rd |only criticalpath-0.2.0/criticalpath/man/sch_get_activity.Rd |only criticalpath-0.2.0/criticalpath/man/sch_has_any_activity.Rd |only criticalpath-0.2.0/criticalpath/man/sch_has_any_relation.Rd |only criticalpath-0.2.0/criticalpath/man/sch_is_redundant.Rd |only criticalpath-0.2.0/criticalpath/man/sch_new.Rd |only criticalpath-0.2.0/criticalpath/man/sch_non_critical_activities.Rd |only criticalpath-0.2.0/criticalpath/man/sch_non_critical_relations.Rd |only criticalpath-0.2.0/criticalpath/man/sch_nr_activities.Rd |only criticalpath-0.2.0/criticalpath/man/sch_nr_relations.Rd |only criticalpath-0.2.0/criticalpath/man/sch_plan.Rd |only criticalpath-0.2.0/criticalpath/man/sch_predecessors.Rd |only criticalpath-0.2.0/criticalpath/man/sch_reference.Rd |only criticalpath-0.2.0/criticalpath/man/sch_relations.Rd |only criticalpath-0.2.0/criticalpath/man/sch_successors.Rd |only criticalpath-0.2.0/criticalpath/man/sch_title.Rd |only criticalpath-0.2.0/criticalpath/man/sch_topoi_ad.Rd |only criticalpath-0.2.0/criticalpath/man/sch_topoi_la.Rd |only criticalpath-0.2.0/criticalpath/man/sch_topoi_sp.Rd |only criticalpath-0.2.0/criticalpath/man/sch_topoi_tf.Rd |only criticalpath-0.2.0/criticalpath/man/sch_validate.Rd |only criticalpath-0.2.0/criticalpath/man/sch_xy_gantt_matrix.Rd |only criticalpath-0.2.0/criticalpath/tests/testthat/Deprecated-test-add_act_rel.R |only criticalpath-0.2.0/criticalpath/tests/testthat/Deprecated-test-add_activity.R |only criticalpath-0.2.0/criticalpath/tests/testthat/Deprecated-test-add_relation.R |only criticalpath-0.2.0/criticalpath/tests/testthat/Deprecated-test-all_predecessors.R |only criticalpath-0.2.0/criticalpath/tests/testthat/Deprecated-test-all_successors.R |only criticalpath-0.2.0/criticalpath/tests/testthat/Deprecated-test-change_durations.R |only criticalpath-0.2.0/criticalpath/tests/testthat/Deprecated-test-early_start_finish_by_relation_type.R |only criticalpath-0.2.0/criticalpath/tests/testthat/Deprecated-test-gantt_matrix.R |only criticalpath-0.2.0/criticalpath/tests/testthat/Deprecated-test-is_redundant.R |only criticalpath-0.2.0/criticalpath/tests/testthat/Deprecated-test-make_empty_schedule.R |only criticalpath-0.2.0/criticalpath/tests/testthat/Deprecated-test-schedule_from_data_frame.R |only criticalpath-0.2.0/criticalpath/tests/testthat/Deprecated-test-topological_indicators.R |only criticalpath-0.2.0/criticalpath/tests/testthat/test-cpt-add_act_rel.R |only criticalpath-0.2.0/criticalpath/tests/testthat/test-cpt-add_activity.R |only criticalpath-0.2.0/criticalpath/tests/testthat/test-cpt-add_relation.R |only criticalpath-0.2.0/criticalpath/tests/testthat/test-cpt-all_predecessors.R |only criticalpath-0.2.0/criticalpath/tests/testthat/test-cpt-all_successors.R |only criticalpath-0.2.0/criticalpath/tests/testthat/test-cpt-change_durations.R |only criticalpath-0.2.0/criticalpath/tests/testthat/test-cpt-create_schedule_from_tibbles.R |only criticalpath-0.2.0/criticalpath/tests/testthat/test-cpt-early_start_finish_by_relation_type.R |only criticalpath-0.2.0/criticalpath/tests/testthat/test-cpt-empty_schedule.R |only criticalpath-0.2.0/criticalpath/tests/testthat/test-cpt-gantt_matrix.R |only criticalpath-0.2.0/criticalpath/tests/testthat/test-cpt-is_redundant.R |only criticalpath-0.2.0/criticalpath/tests/testthat/test-cpt-schedule_from_data_frame.R |only criticalpath-0.2.0/criticalpath/tests/testthat/test-cpt-topological_indicators.R |only criticalpath-0.2.0/criticalpath/tests/testthat/test-cpt-utils.R |only criticalpath-0.2.0/criticalpath/tests/testthat/test-cpt-validate_schedule.R |only criticalpath-0.2.0/criticalpath/vignettes/criticalpath-introduction.Rmd | 1036 ++--- 97 files changed, 2649 insertions(+), 4295 deletions(-)
Title: Partition/Decomposition of Breeding Values by Paths of
Information
Description: A software that implements a method for partitioning genetic trends to
quantify the sources of genetic gain in breeding programmes.
The partitioning method is described in Garcia-Cortes et al.
(2008) <doi:10.1017/S175173110800205X>. The package includes the
main function AlphaPart for partitioning breeding values and auxiliary
functions for manipulating data and summarizing, visualizing, and saving
results.
Author: Gregor Gorjanc [aut, cre] (<https://orcid.org/0000-0001-8008-2787>),
Jana Obsteter [aut] (<https://orcid.org/0000-0003-1511-3916>),
Thiago de Paula Oliveira [aut]
(<https://orcid.org/0000-0002-4555-2584>)
Maintainer: Gregor Gorjanc <highlander.research.lab@gmail.com>
Diff between AlphaPart versions 0.8.4 dated 2021-10-22 and 0.9.0 dated 2022-01-10
DESCRIPTION | 20 +- MD5 | 29 +-- NAMESPACE | 11 + R/AlphaPart.R | 86 ++++------ R/methods.R | 309 ++++++++++++++++++++++++++++++++----- build/partial.rdb |binary build/vignette.rds |binary inst/doc/alphapart-vignette.html | 33 +++ inst/examples/examples_AlphaPart.R | 6 man/AlphaPart.Rd | 24 +- man/centerPop.Rd |only man/getScale.Rd |only man/print.AlphaPart.Rd | 6 man/sEBV.Rd |only man/summary.AlphaPart.Rd | 9 - src/AlphaPartDrop.cpp | 2 src/AlphaPartDropGroup.cpp | 3 17 files changed, 405 insertions(+), 133 deletions(-)
Title: Simulate Forest Resources with the European Forestry Dynamics
Model
Description: An implementation of European Forestry Dynamics Model (EFDM) and
an estimation algorithm for the transition probabilities.
The EFDM is a large-scale forest model that simulates the development of
the forest and estimates volume of wood harvested for any given forested
area. This estimate can be broken down by, for example, species, site
quality, management regime and ownership category.
See Packalen et al. (2015) <doi:10.2788/153990>.
Author: Mikko Kuronen [aut, cre] (<https://orcid.org/0000-0002-8089-7895>),
Minna Räty [aut] (<https://orcid.org/0000-0001-9898-8712>)
Maintainer: Mikko Kuronen <mikko.kuronen@luke.fi>
Diff between efdm versions 0.1.0 dated 2021-08-16 and 0.2.0 dated 2022-01-10
efdm-0.1.0/efdm/R/transition.r |only efdm-0.1.0/efdm/man/build_complex_statespace.Rd |only efdm-0.1.0/efdm/man/build_statespace.Rd |only efdm-0.2.0/efdm/DESCRIPTION | 13 efdm-0.2.0/efdm/MD5 | 53 +- efdm-0.2.0/efdm/NAMESPACE | 2 efdm-0.2.0/efdm/R/activity.r | 123 +--- efdm-0.2.0/efdm/R/core.r | 2 efdm-0.2.0/efdm/R/data-example.r | 15 efdm-0.2.0/efdm/R/estim.r | 91 ++- efdm-0.2.0/efdm/R/prior.r | 7 efdm-0.2.0/efdm/data/MetsaKasvVyoh.rda |only efdm-0.2.0/efdm/inst/doc/example.R | 223 ++++++-- efdm-0.2.0/efdm/inst/doc/example.Rmd | 419 ++++++++++++---- efdm-0.2.0/efdm/inst/doc/example.html | 622 ++++++++++++++++-------- efdm-0.2.0/efdm/man/MetsaKasvVyoh.Rd |only efdm-0.2.0/efdm/man/define_activity.Rd | 36 - efdm-0.2.0/efdm/man/estimatetransprobs.Rd | 53 +- efdm-0.2.0/efdm/man/example.Rd | 2 efdm-0.2.0/efdm/man/prior_ff.Rd | 7 efdm-0.2.0/efdm/man/runEFDM.Rd | 2 efdm-0.2.0/efdm/man/transprobs.Rd | 11 efdm-0.2.0/efdm/tests/test_estim.R | 30 - efdm-0.2.0/efdm/tests/test_estim.Rout.save | 376 +++++++------- efdm-0.2.0/efdm/tests/test_factors.R | 10 efdm-0.2.0/efdm/tests/test_prior_ff.R | 9 efdm-0.2.0/efdm/tests/test_split.R | 25 efdm-0.2.0/efdm/tests/test_split.Rout.save | 25 efdm-0.2.0/efdm/tests/test_transprobs.R | 5 efdm-0.2.0/efdm/vignettes/example.Rmd | 419 ++++++++++++---- 30 files changed, 1692 insertions(+), 888 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-10-22 0.1.0
Title: Permutation-Based All-Resolutions Inference Method
Description: It computes the All-Resolution Inference method in the permutation framework, i.e., simultaneous lower confidence bounds for the number of true discoveries. <arXiv:2012.00368>.
Author: Angela Andreella [aut, cre] (Main author,
<https://orcid.org/0000-0002-1141-3041>)
Maintainer: Angela Andreella <angela.andreella@unipd.it>
Diff between pARI versions 1.1.0 dated 2021-11-18 and 1.1.1 dated 2022-01-10
pARI-1.1.0/pARI/inst/extdata |only pARI-1.1.0/pARI/man/discoveriesPerm.Rd |only pARI-1.1.0/pARI/man/oneSamplePar.Rd |only pARI-1.1.0/pARI/man/rowVariance.Rd |only pARI-1.1.1/pARI/DESCRIPTION | 8 ++--- pARI-1.1.1/pARI/MD5 | 43 ++++++++++++---------------- pARI-1.1.1/pARI/NAMESPACE | 1 pARI-1.1.1/pARI/NEWS.md | 4 ++ pARI-1.1.1/pARI/R/dI.R | 8 ++++- pARI-1.1.1/pARI/R/discoveriesPerm.R | 14 ++++----- pARI-1.1.1/pARI/R/lambdaOpt.R | 8 ++++- pARI-1.1.1/pARI/R/oneSamplePar.R | 19 +++++------- pARI-1.1.1/pARI/R/pARIbrain.R | 23 +++++++------- pARI-1.1.1/pARI/R/plotNullDistribution.R | 10 +++++- pARI-1.1.1/pARI/R/rowVariance.R | 14 ++++----- pARI-1.1.1/pARI/R/simulateData.R | 3 + pARI-1.1.1/pARI/R/summary_perm_roi.R | 5 +-- pARI-1.1.1/pARI/inst/doc/pARI_vignette.R | 2 - pARI-1.1.1/pARI/inst/doc/pARI_vignette.Rmd | 2 - pARI-1.1.1/pARI/inst/doc/pARI_vignette.html | 16 +++++----- pARI-1.1.1/pARI/man/lambdaOpt.Rd | 8 ++++- pARI-1.1.1/pARI/man/pARIbrain.Rd | 22 +++++++------- pARI-1.1.1/pARI/man/plotNullDistribution.Rd | 12 +++++++ pARI-1.1.1/pARI/vignettes/pARI_vignette.Rmd | 2 - 24 files changed, 131 insertions(+), 93 deletions(-)
Title: Fixed Rank Kriging
Description: Fixed Rank Kriging is a tool for spatial/spatio-temporal modelling and prediction with large datasets. The approach models the field, and hence the covariance function, using a set of r basis functions, where r is typically much smaller than the number of data points (or polygons) m. This low-rank basis-function representation facilitates the modelling of 'big' spatial/spatio-temporal data. The method naturally allows for non-stationary, anisotropic covariance functions. Discretisation of the spatial domain into so-called basic areal units (BAUs) facilitates the use of observations with varying support (i.e., both point-referenced and areal supports, potentially simultaneously), and prediction over arbitrary user-specified regions. `FRK` also supports inference over various manifolds, including the 2D plane and 3D sphere, and it provides helper functions to model, fit, predict, and plot with relative ease. Version 2.0.0 and above of the package `FRK` also supports modelling of non-Gaussian data, by employing a spatial generalised linear mixed model (GLMM) framework to cater for Poisson, binomial, negative-binomial, gamma, and inverse-Gaussian distributions. Zammit-Mangion and Cressie <doi:10.18637/jss.v098.i04> describe `FRK` in a Gaussian setting, and detail its use of basis functions and BAUs.
Author: Andrew Zammit-Mangion [aut, cre],
Matthew Sainsbury-Dale [aut]
Maintainer: Andrew Zammit-Mangion <andrewzm@gmail.com>
Diff between FRK versions 2.0.2 dated 2021-11-16 and 2.0.3 dated 2022-01-10
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- R/SRE.R | 8 ++++---- R/SREfit.R | 12 +++++++----- R/basisfns.R | 15 ++++++++++----- R/check_args.R | 8 ++++---- inst/doc/FRK_intro.pdf |binary inst/doc/FRK_non-Gaussian.pdf |binary 8 files changed, 36 insertions(+), 29 deletions(-)
Title: Mappable Vector Library for Handling Large Datasets
Description: Mappable vector library provides convenient way to access large datasets. Use all of your data at once, with few limits. Memory mapped data can be shared between multiple R processes. Access speed depends on storage medium, so solid state drive is recommended, preferably with PCI Express (or M.2 nvme) interface or a fast network file system. The data is memory mapped into R and then accessed using usual R list and array subscription operators. Convenience functions are provided for merging, grouping and indexing large vectors and data.frames. The layout of underlying MVL files is optimized for large datasets. The vectors are stored to guarantee alignment for vector intrinsics after memory map. The package is built on top of libMVL, which can be used as a standalone C library. libMVL has simple C API making it easy to interchange datasets with outside programs.
Author: Vladimir Dergachev [aut, cre] (<https://orcid.org/0000-0003-4708-6625>)
Maintainer: Vladimir Dergachev <support@altumrete.com>
Diff between RMVL versions 0.0.4.1 dated 2021-12-07 and 0.0.4.3 dated 2022-01-10
DESCRIPTION | 6 MD5 | 26 + NAMESPACE | 2 R/RMVL.R | 216 ++++++++++++---- man/mvl2R.Rd |only man/mvl_open.Rd | 2 man/mvl_write_serialized_object.Rd |only src/RlibMVL.c | 411 +++++++++++++++++++++---------- src/libMVL.c | 28 +- src/libMVL.h | 42 ++- src/libMVL_sort.cc | 6 tests/test_bracket1.R | 87 ++++++ tests/test_bracket1.Rout.save | 111 +++++++- tests/test_fused_write_object1.R | 2 tests/test_fused_write_object1.Rout.save | 6 15 files changed, 720 insertions(+), 225 deletions(-)
Title: Multivariate Difference Between Two Groups
Description: Estimation of multivariate differences between two groups (e.g., multivariate sex differences) with regularized regression methods and predictive approach. See Lönnqvist & Ilmarinen (2021) <doi:10.1007/s11109-021-09681-2> and Ilmarinen et al. (2021) <doi:10.31234/osf.io/j59bs>.
Author: Ville-Juhani Ilmarinen [aut, cre]
(<https://orcid.org/0000-0001-9493-379X>)
Maintainer: Ville-Juhani Ilmarinen <vj.ilmarinen@gmail.com>
Diff between multid versions 0.2.0 dated 2021-10-22 and 0.3.0 dated 2022-01-10
DESCRIPTION | 8 +- MD5 | 14 +++- NAMESPACE | 2 NEWS.md | 4 + R/ml_dadas.R |only R/sem_dadas.R |only README.md | 93 +++++++++++++++++++++++++++++-- man/figures/README-unnamed-chunk-4-2.png |binary man/ml_dadas.Rd |only man/sem_dadas.Rd |only 10 files changed, 106 insertions(+), 15 deletions(-)
Title: Hidden Hybrid Markov/Semi-Markov Model Fitting
Description: Develops algorithms for fitting, prediction, simulation
and initialization of the hidden hybrid Markov/semi-Markov model,
introduced by Guedon (2005) <doi:10.1016/j.csda.2004.05.033>,
which also includes several tools for handling missing data,
nonparametric mixture of B-splines emissions (Langrock et al., 2015
<doi:10.1111/biom.12282>), fitting regime switching regression
(Kim et al., 2008 <doi:10.1016/j.jeconom.2007.10.002>) and auto-regressive
hidden hybrid Markov/semi-Markov model, and many other useful tools
(read for more description: <arXiv:2109.12489>).
Author: Morteza Amini [aut, cre, cph],
Afarin Bayat [aut],
Reza Salehian [aut]
Maintainer: Morteza Amini <morteza.amini@ut.ac.ir>
Diff between hhsmm versions 0.2.3 dated 2021-12-01 and 0.2.4 dated 2022-01-10
DESCRIPTION | 23 ++++++++----- MD5 | 70 ++++++++++++++++++++++------------------- NAMESPACE | 6 +++ R/cov-miss-mix-wt.R | 2 - R/dmixlm.R | 27 ++++++++------- R/dnonpar.R |only R/gammafit.R | 2 - R/hhsmmdata.R | 2 - R/hhsmmfit.R | 1 R/homogeneity.R | 2 - R/initial-cluster.R | 73 +++++++++++++++++++++++-------------------- R/initial-estimate.R | 68 ++++++++++++++++++++++++---------------- R/lagdata.R | 2 - R/ltr_reg_clus.R | 2 - R/mixdiagmvnorm_mstep.R | 2 - R/mstep-missing-mix-mvnorm.R | 2 - R/mstep-mix-lm.R | 4 +- R/nonpar_mstep.R |only R/rmixar.R | 8 ++-- R/rmixlm.R | 8 ++-- R/score.R |only R/train-test-split.R | 2 - R/weibullfit.R | 2 - man/cov.miss.mix.wt.Rd | 2 - man/dmixlm.Rd | 6 +-- man/dnonpar.Rd |only man/hhsmmdata.Rd | 2 - man/homogeneity.Rd | 2 - man/initial_cluster.Rd | 2 + man/lagdata.Rd | 2 - man/ltr_reg_clus.Rd | 2 - man/miss_mixmvnorm_mstep.Rd | 2 - man/mixdiagmvnorm_mstep.Rd | 2 - man/mixlm_mstep.Rd | 4 +- man/nonpar_mstep.Rd |only man/rmixar.Rd | 8 ++-- man/rmixlm.Rd | 8 ++-- man/score.Rd |only man/train_test_split.Rd | 2 - 39 files changed, 197 insertions(+), 155 deletions(-)
Title: Easily Scrape and Process AFL Data
Description: An easy package for scraping and processing Australia Rules Football (AFL)
data. 'fitzRoy' provides a range of functions for accessing publicly available data
from 'AFL Tables' <https://afltables.com/afl/afl_index.html>, 'Footy Wire' <https://www.footywire.com> and
'The Squiggle' <https://squiggle.com.au>. Further functions allow for easy processing,
cleaning and transformation of this data into formats that can be used for analysis.
Author: James Day [cre, aut],
Robert Nguyen [aut],
Matthew Erbs [ctb],
Oscar Lane [aut],
Jason Zivkovic [ctb],
Jacob Holden [ctb]
Maintainer: James Day <jamesthomasday@gmail.com>
Diff between fitzRoy versions 1.0.0 dated 2021-03-16 and 1.1.0 dated 2022-01-10
DESCRIPTION | 18 - MD5 | 104 +++--- NAMESPACE | 7 R/calculate_coaches_vote_possibilities.R |only R/fetch-betting-odds.R | 13 R/fetch-coaches-votes.R |only R/fetch-fixture.R | 27 - R/fetch-ladder.R | 97 +++--- R/fetch-player-details.R |only R/fetch-player-stats.R | 122 ++++--- R/fetch-results.R | 69 ++-- R/fetch-squiggle-data.R | 4 R/fetch_lineup.R | 63 ++-- R/helper-aflcoaches.R |only R/helpers-afl.R | 278 +++++++++++++----- R/helpers-afltables-playerdetails.R |only R/helpers-afltables-playerstats.R | 37 +- R/helpers-afltables.R | 36 ++ R/helpers-footywire-playerdetails.R |only R/helpers-footywire.R | 59 +++ R/helpers-general.R | 23 + R/sysdata.rda |binary R/womens_stats.R | 13 R/z_aflw-player_stats.R | 2 R/z_footywire-calcs.R | 3 build/vignette.rds |binary inst/doc/aflca-coaches-votes.R |only inst/doc/aflca-coaches-votes.Rmd |only inst/doc/aflca-coaches-votes.html |only inst/doc/docker-support.Rmd | 2 inst/doc/docker-support.html | 2 inst/doc/elo-ratings-example.html | 4 inst/doc/main-fetch-functions.Rmd | 5 inst/doc/main-fetch-functions.html | 5 man/calculate_coaches_vote_possibilities.Rd |only man/fetch_coaches_votes.Rd |only man/fetch_player_details.Rd |only man/fitzRoy-package.Rd | 1 man/get_aflw_match_data.Rd | 2 man/team_abr_afl.Rd |only tests/spelling.R | 9 tests/testthat/test-coaches-votes.R |only tests/testthat/test-fetch-betting-odds.R | 50 +-- tests/testthat/test-fetch-fixture.R | 29 - tests/testthat/test-fetch-ladder.R | 4 tests/testthat/test-fetch-player-details.R |only tests/testthat/test-fetch-player-stats-legacy.R | 40 +- tests/testthat/test-fetch-player-stats.R | 47 +-- tests/testthat/test-fetch-results.R | 11 tests/testthat/test-fetch-squiggle_data.R | 13 tests/testthat/test-fetch_lineup.R | 39 +- tests/testthat/test-helpers-afl.R | 6 tests/testthat/test-helpers-afltables-playerdetails.R |only tests/testthat/test-helpers-afltables-playerstats.R | 15 tests/testthat/test-helpers-afltables.R | 4 tests/testthat/test-helpers-footywire-playerdetails.R |only tests/testthat/test-helpers-footywire.R | 7 tests/testthat/test-helpers-general.R | 40 +- tests/testthat/test-womens_stats.R | 6 vignettes/aflca-coaches-votes.Rmd |only vignettes/docker-support.Rmd | 2 vignettes/main-fetch-functions.Rmd | 5 62 files changed, 808 insertions(+), 515 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-10-25 0.0.1.1
2021-09-27 0.0.1.0
Title: Modelling Actual, Potential and Reference Crop
Evapotranspiration
Description: Uses data and constants to calculate potential evapotranspiration (PET) and actual evapotranspiration (AET) from 21 different formulations including Penman, Penman-Monteith FAO 56, Priestley-Taylor and Morton formulations.
Author: Danlu Guo [aut, cre] <danlu.guo@adelaide.edu.au>, Seth Westra [aut] <swestra@civeng.adelaide.edu.au>, Tim Peterson [ctb] <tim.peterson@monash.edu>
Maintainer: Danlu Guo <danlu.guo@unimelb.edu.au>
Diff between Evapotranspiration versions 1.15 dated 2020-06-01 and 1.16 dated 2022-01-10
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS | 11 ++++++----- R/Evapotranspiration.R | 27 ++++++++++++++++----------- man/constants.Rd | 28 +++++++++++++++++++++++++++- 5 files changed, 57 insertions(+), 25 deletions(-)
More information about Evapotranspiration at CRAN
Permanent link