Title: Infrastructure to Assemble Multi-Panel Figures (from Grobs)
Description: Tools to create a layout for figures made of multiple panels, and
to fill the panels with base, 'lattice', 'ggplot2' and 'ComplexHeatmap'
plots, grobs, and PNG, JPEG, SVG and TIFF images.
Author: Johannes Graumann [cre, aut],
Richard Cotton [ctb]
Maintainer: Johannes Graumann <johannes.graumann@mpi-bn.mpg.de>
Diff between multipanelfigure versions 1.0.0 dated 2018-04-23 and 1.1.2 dated 2018-07-06
DESCRIPTION | 16 ++++++------- MD5 | 16 ++++++------- NAMESPACE | 1 NEWS | 2 + R/fill_panel.R | 41 ++++++++++++++-------------------- build/vignette.rds |binary inst/doc/panel-positioning.html | 7 ++++- inst/doc/scaling-clipping-images.html | 9 ++++--- man/fill_panel.Rd | 12 +++------ 9 files changed, 51 insertions(+), 53 deletions(-)
More information about multipanelfigure at CRAN
Permanent link
Title: A Framework for Reproducible and Collaborative Data Science
Description: Combines literate programming ('knitr' and 'rmarkdown') and version
control ('Git', via 'git2r') to generate a website containing time-stamped,
versioned, and documented results.
Author: John Blischak [aut, cre],
Peter Carbonetto [aut],
Matthew Stephens [aut]
Maintainer: John Blischak <jdblischak@uchicago.edu>
Diff between workflowr versions 1.1.0 dated 2018-07-04 and 1.1.1 dated 2018-07-06
DESCRIPTION | 8 +-- MD5 | 18 +++--- NEWS.md | 4 + inst/doc/wflow-01-getting-started.html | 34 ++++++------- inst/doc/wflow-02-customization.html | 6 +- inst/doc/wflow-03-migrating.html | 6 +- inst/doc/wflow-04-how-it-works.html | 6 +- inst/doc/wflow-05-faq.html | 6 +- tests/testthat/files/test-wflow_update/post/_workflowr.yml | 2 tests/testthat/test-wflow_open.R | 4 + 10 files changed, 51 insertions(+), 43 deletions(-)
Title: Process and Analyze Mouse-Tracking Data
Description: Mouse-tracking, the analysis of mouse movements in computerized
experiments, is a method that is becoming increasingly popular in the
cognitive sciences. The mousetrap package offers functions for importing,
preprocessing, analyzing, aggregating, and visualizing mouse-tracking data.
Author: Pascal J. Kieslich [aut, cre],
Dirk U. Wulff [aut],
Felix Henninger [aut],
Jonas M. B. Haslbeck [aut],
Sarah Brockhaus [ctb]
Maintainer: Pascal J. Kieslich <kieslich@psychologie.uni-mannheim.de>
Diff between mousetrap versions 3.1.0 dated 2017-05-20 and 3.1.1 dated 2018-07-06
mousetrap-3.1.0/mousetrap/src/mousetrap_init.c |only mousetrap-3.1.1/mousetrap/DESCRIPTION | 8 mousetrap-3.1.1/mousetrap/MD5 | 129 ++--- mousetrap-3.1.1/mousetrap/NEWS.md | 26 - mousetrap-3.1.1/mousetrap/R/RcppExports.R | 342 +++++++------- mousetrap-3.1.1/mousetrap/R/aggregate.R | 20 mousetrap-3.1.1/mousetrap/R/align.R | 4 mousetrap-3.1.1/mousetrap/R/animate.R | 2 mousetrap-3.1.1/mousetrap/R/bimodality.R | 20 mousetrap-3.1.1/mousetrap/R/cluster.R | 42 - mousetrap-3.1.1/mousetrap/R/cluster_k.R | 28 - mousetrap-3.1.1/mousetrap/R/data.R | 54 +- mousetrap-3.1.1/mousetrap/R/derivatives.R | 6 mousetrap-3.1.1/mousetrap/R/export.R | 12 mousetrap-3.1.1/mousetrap/R/heatmap.R | 278 ++++++++--- mousetrap-3.1.1/mousetrap/R/import.R | 8 mousetrap-3.1.1/mousetrap/R/map.R | 144 ++++- mousetrap-3.1.1/mousetrap/R/measures.R | 45 + mousetrap-3.1.1/mousetrap/R/mousetrap.R | 102 ++-- mousetrap-3.1.1/mousetrap/R/preprocess.R | 39 - mousetrap-3.1.1/mousetrap/R/read_mt.R | 2 mousetrap-3.1.1/mousetrap/R/reshape.R | 21 mousetrap-3.1.1/mousetrap/R/riverbed.R | 32 - mousetrap-3.1.1/mousetrap/R/sample_entropy.R | 2 mousetrap-3.1.1/mousetrap/R/standardize.R | 18 mousetrap-3.1.1/mousetrap/R/startupmessage.R | 5 mousetrap-3.1.1/mousetrap/R/visualize.R | 34 - mousetrap-3.1.1/mousetrap/README.md | 113 +++- mousetrap-3.1.1/mousetrap/man/KH2017.Rd | 14 mousetrap-3.1.1/mousetrap/man/KH2017_raw.Rd | 18 mousetrap-3.1.1/mousetrap/man/bimodality_coefficient.Rd | 6 mousetrap-3.1.1/mousetrap/man/mousetrap.Rd | 102 ++-- mousetrap-3.1.1/mousetrap/man/mt_aggregate.Rd | 8 mousetrap-3.1.1/mousetrap/man/mt_aggregate_per_subject.Rd | 8 mousetrap-3.1.1/mousetrap/man/mt_align.Rd | 4 mousetrap-3.1.1/mousetrap/man/mt_align_start.Rd | 2 mousetrap-3.1.1/mousetrap/man/mt_align_start_end.Rd | 4 mousetrap-3.1.1/mousetrap/man/mt_animate.Rd | 2 mousetrap-3.1.1/mousetrap/man/mt_average.Rd | 4 mousetrap-3.1.1/mousetrap/man/mt_check_bimodality.Rd | 8 mousetrap-3.1.1/mousetrap/man/mt_cluster.Rd | 36 - mousetrap-3.1.1/mousetrap/man/mt_cluster_k.Rd | 26 - mousetrap-3.1.1/mousetrap/man/mt_count.Rd | 4 mousetrap-3.1.1/mousetrap/man/mt_derivatives.Rd | 6 mousetrap-3.1.1/mousetrap/man/mt_diffmap.Rd | 45 + mousetrap-3.1.1/mousetrap/man/mt_example_raw.Rd | 16 mousetrap-3.1.1/mousetrap/man/mt_export_long.Rd | 8 mousetrap-3.1.1/mousetrap/man/mt_heatmap.Rd | 25 - mousetrap-3.1.1/mousetrap/man/mt_heatmap_ggplot.Rd | 54 +- mousetrap-3.1.1/mousetrap/man/mt_heatmap_raw.Rd | 23 mousetrap-3.1.1/mousetrap/man/mt_import_mousetrap.Rd | 8 mousetrap-3.1.1/mousetrap/man/mt_map.Rd | 46 + mousetrap-3.1.1/mousetrap/man/mt_measures.Rd | 37 - mousetrap-3.1.1/mousetrap/man/mt_plot.Rd | 33 - mousetrap-3.1.1/mousetrap/man/mt_plot_riverbed.Rd | 14 mousetrap-3.1.1/mousetrap/man/mt_prototypes.Rd | 5 mousetrap-3.1.1/mousetrap/man/mt_resample.Rd | 6 mousetrap-3.1.1/mousetrap/man/mt_reshape.Rd | 16 mousetrap-3.1.1/mousetrap/man/mt_sample_entropy.Rd | 2 mousetrap-3.1.1/mousetrap/man/mt_standardize.Rd | 8 mousetrap-3.1.1/mousetrap/man/mt_subset.Rd | 6 mousetrap-3.1.1/mousetrap/man/mt_time_normalize.Rd | 4 mousetrap-3.1.1/mousetrap/man/read_mt.Rd | 2 mousetrap-3.1.1/mousetrap/man/scale_within.Rd | 2 mousetrap-3.1.1/mousetrap/src/RcppExports.cpp | 135 +++-- mousetrap-3.1.1/mousetrap/src/getLength.cpp | 4 66 files changed, 1397 insertions(+), 890 deletions(-)
Title: Quantitative Analysis of Mass Spectrometry Data
Description: A complete analysis pipeline for matrix-assisted laser
desorption/ionization-time-of-flight (MALDI-TOF) and other
two-dimensional mass spectrometry data. In addition to commonly
used plotting and processing methods it includes distinctive
features, namely baseline subtraction methods such as
morphological filters (TopHat) or the statistics-sensitive
non-linear iterative peak-clipping algorithm (SNIP), peak
alignment using warping functions, handling of replicated
measurements as well as allowing spectra with different
resolutions.
Author: Sebastian Gibb [aut, cre] (<https://orcid.org/0000-0001-7406-4443>),
Korbinian Strimmer [ths]
Maintainer: Sebastian Gibb <mail@sebastiangibb.de>
Diff between MALDIquant versions 1.17 dated 2017-11-12 and 1.18 dated 2018-07-06
DESCRIPTION | 15 +++--- MD5 | 32 ++++++------- NEWS | 33 +++++++++++++- R/alignSpectra-functions.R | 10 ++-- R/determineWarpingFunctions-functions.R | 28 ++++++++++- R/plot-methods.R | 4 - R/warp-functions.R | 31 +++++++++---- build/vignette.rds |binary inst/doc/MALDIquant-intro.pdf |binary man/alignSpectra-functions.Rd | 19 +++++++- man/binPeaks-functions.Rd | 3 - man/determineWarpingFunctions-functions.Rd | 14 ++++- man/plot-methods.Rd | 4 - man/referencePeaks-functions.Rd | 3 - man/warp-functions.Rd | 17 ++++++- tests/testthat/test_determineWarpingFunctions-functions.R | 14 +++++ tests/testthat/test_warp-functions.R | 20 ++++++++ 17 files changed, 192 insertions(+), 55 deletions(-)
Title: A GUI for Planar Location Problems
Description: A GUI for the orloca package is provided as a Rcmdr plug-in. The package deals with location problems on the plane.
Author: Manuel Munoz-Marquez <manuel.munoz@uca.es>
Maintainer: Manuel Munoz-Marquez <manuel.munoz@uca.es>
Diff between RcmdrPlugin.orloca versions 4.5 dated 2018-05-06 and 4.6 dated 2018-07-06
ChangeLog | 3 ++ DESCRIPTION | 14 ++++++------ MD5 | 26 +++++++++++------------ R/RcmdrPlugin.Orloca.R | 14 +++++++----- build/vignette.rds |binary inst/doc/localizacionplana.html | 4 +-- inst/doc/planarlocation.html | 4 +-- inst/etc/menus.txt | 4 +-- inst/po/es/LC_MESSAGES/R-RcmdrPlugin.orloca.mo |binary man/RcmdrPlugin.orloca-package.Rd | 4 +-- man/RcmdrPlugin.orloca.es-package.Rd | 4 +-- po/R-RcmdrPlugin.orloca-es.mo |binary po/R-RcmdrPlugin.orloca-es.po | 28 +++++++++++++++++-------- po/R-RcmdrPlugin.orloca.pot | 20 ++++++++++++++++- 14 files changed, 80 insertions(+), 45 deletions(-)
More information about RcmdrPlugin.orloca at CRAN
Permanent link
Title: Multivariate Data Analysis for Chemometrics
Description: Package implements projection based methods for preprocessing,
exploring and analysis of multivariate data used in chemometrics.
Author: Sergey Kucheryavskiy
Maintainer: Sergey Kucheryavskiy <svkucheryavski@gmail.com>
Diff between mdatools versions 0.8.2 dated 2017-01-30 and 0.9.1 dated 2018-07-06
mdatools-0.8.2/mdatools/NEWS |only mdatools-0.8.2/mdatools/man/ldecomp.getResLimits.Rd |only mdatools-0.9.1/mdatools/DESCRIPTION | 13 mdatools-0.9.1/mdatools/MD5 | 567 ++++----- mdatools-0.9.1/mdatools/NAMESPACE | 18 mdatools-0.9.1/mdatools/NEWS.md |only mdatools-0.9.1/mdatools/R/classres.R | 191 ++- mdatools-0.9.1/mdatools/R/defaults.R | 95 + mdatools-0.9.1/mdatools/R/ldecomp.R | 380 ++++-- mdatools-0.9.1/mdatools/R/mdaplots.R | 236 ++- mdatools-0.9.1/mdatools/R/pca.R | 592 +++++++--- mdatools-0.9.1/mdatools/R/pcares.R | 121 +- mdatools-0.9.1/mdatools/R/pls.R | 165 +- mdatools-0.9.1/mdatools/R/plsda.R | 73 - mdatools-0.9.1/mdatools/R/regcoeffs.R | 133 +- mdatools-0.9.1/mdatools/R/regres.R | 32 mdatools-0.9.1/mdatools/R/simca.R | 255 +++- mdatools-0.9.1/mdatools/R/simcam.R | 3 mdatools-0.9.1/mdatools/R/simcamres.R | 19 mdatools-0.9.1/mdatools/R/simcares.R | 106 + mdatools-0.9.1/mdatools/README.md | 18 mdatools-0.9.1/mdatools/data/pellets.RData |binary mdatools-0.9.1/mdatools/data/people.RData |binary mdatools-0.9.1/mdatools/data/simdata.RData |binary mdatools-0.9.1/mdatools/man/as.matrix.classres.Rd | 1 mdatools-0.9.1/mdatools/man/as.matrix.ldecomp.Rd | 1 mdatools-0.9.1/mdatools/man/as.matrix.plsdares.Rd | 1 mdatools-0.9.1/mdatools/man/as.matrix.plsres.Rd | 1 mdatools-0.9.1/mdatools/man/as.matrix.regcoeffs.Rd | 1 mdatools-0.9.1/mdatools/man/as.matrix.regres.Rd | 1 mdatools-0.9.1/mdatools/man/bars.Rd | 1 mdatools-0.9.1/mdatools/man/classify.plsda.Rd | 1 mdatools-0.9.1/mdatools/man/classres.Rd | 5 mdatools-0.9.1/mdatools/man/crossval.Rd | 1 mdatools-0.9.1/mdatools/man/crossval.str.Rd | 1 mdatools-0.9.1/mdatools/man/erfinv.Rd | 1 mdatools-0.9.1/mdatools/man/errorbars.Rd | 1 mdatools-0.9.1/mdatools/man/getB.Rd |only mdatools-0.9.1/mdatools/man/getCalibrationData.Rd | 1 mdatools-0.9.1/mdatools/man/getCalibrationData.pca.Rd | 1 mdatools-0.9.1/mdatools/man/getCalibrationData.simcam.Rd | 1 mdatools-0.9.1/mdatools/man/getClassificationPerformance.Rd | 1 mdatools-0.9.1/mdatools/man/getConfusionMatrix.Rd |only mdatools-0.9.1/mdatools/man/getConfusionMatrix.classres.Rd |only mdatools-0.9.1/mdatools/man/getMainTitle.Rd | 1 mdatools-0.9.1/mdatools/man/getProbabilities.Rd |only mdatools-0.9.1/mdatools/man/getProbabilities.simca.Rd |only mdatools-0.9.1/mdatools/man/getRegcoeffs.Rd | 1 mdatools-0.9.1/mdatools/man/getRegcoeffs.pls.Rd | 14 mdatools-0.9.1/mdatools/man/getSelectedComponents.Rd | 1 mdatools-0.9.1/mdatools/man/getSelectedComponents.classres.Rd | 1 mdatools-0.9.1/mdatools/man/getSelectivityRatio.Rd | 1 mdatools-0.9.1/mdatools/man/getSelectivityRatio.pls.Rd | 1 mdatools-0.9.1/mdatools/man/getVIPScores.Rd | 1 mdatools-0.9.1/mdatools/man/getVIPScores.pls.Rd | 1 mdatools-0.9.1/mdatools/man/imshow.Rd | 1 mdatools-0.9.1/mdatools/man/ipls.Rd | 1 mdatools-0.9.1/mdatools/man/ipls.backward.Rd | 1 mdatools-0.9.1/mdatools/man/ipls.forward.Rd | 1 mdatools-0.9.1/mdatools/man/ldecomp.Rd | 1 mdatools-0.9.1/mdatools/man/ldecomp.getDistances.Rd | 1 mdatools-0.9.1/mdatools/man/ldecomp.getVariances.Rd | 4 mdatools-0.9.1/mdatools/man/ldecomp.plotLimits.Rd |only mdatools-0.9.1/mdatools/man/mda.cbind.Rd | 1 mdatools-0.9.1/mdatools/man/mda.data2im.Rd | 1 mdatools-0.9.1/mdatools/man/mda.df2mat.Rd | 1 mdatools-0.9.1/mdatools/man/mda.exclcols.Rd | 1 mdatools-0.9.1/mdatools/man/mda.exclrows.Rd | 1 mdatools-0.9.1/mdatools/man/mda.getattr.Rd | 1 mdatools-0.9.1/mdatools/man/mda.getexclind.Rd | 1 mdatools-0.9.1/mdatools/man/mda.im2data.Rd | 1 mdatools-0.9.1/mdatools/man/mda.inclcols.Rd | 1 mdatools-0.9.1/mdatools/man/mda.inclrows.Rd | 1 mdatools-0.9.1/mdatools/man/mda.rbind.Rd | 1 mdatools-0.9.1/mdatools/man/mda.setattr.Rd | 1 mdatools-0.9.1/mdatools/man/mda.setimbg.Rd | 1 mdatools-0.9.1/mdatools/man/mda.show.Rd | 1 mdatools-0.9.1/mdatools/man/mda.subset.Rd | 1 mdatools-0.9.1/mdatools/man/mda.t.Rd | 1 mdatools-0.9.1/mdatools/man/mdaplot.Rd | 27 mdatools-0.9.1/mdatools/man/mdaplot.areColors.Rd | 1 mdatools-0.9.1/mdatools/man/mdaplot.formatValues.Rd | 1 mdatools-0.9.1/mdatools/man/mdaplot.getAxesLim.Rd | 1 mdatools-0.9.1/mdatools/man/mdaplot.getColors.Rd | 6 mdatools-0.9.1/mdatools/man/mdaplot.plotAxes.Rd | 1 mdatools-0.9.1/mdatools/man/mdaplot.showColorbar.Rd | 1 mdatools-0.9.1/mdatools/man/mdaplot.showGrid.Rd | 1 mdatools-0.9.1/mdatools/man/mdaplot.showLabels.Rd | 1 mdatools-0.9.1/mdatools/man/mdaplot.showLegend.Rd | 1 mdatools-0.9.1/mdatools/man/mdaplot.showLines.Rd | 1 mdatools-0.9.1/mdatools/man/mdaplot.showRegressionLine.Rd | 1 mdatools-0.9.1/mdatools/man/mdaplotg.Rd | 1 mdatools-0.9.1/mdatools/man/mdatools.Rd | 2 mdatools-0.9.1/mdatools/man/pca.Rd | 97 + mdatools-0.9.1/mdatools/man/pca.cal.Rd | 11 mdatools-0.9.1/mdatools/man/pca.crossval.Rd | 1 mdatools-0.9.1/mdatools/man/pca.mvreplace.Rd | 11 mdatools-0.9.1/mdatools/man/pca.nipals.Rd | 1 mdatools-0.9.1/mdatools/man/pca.run.Rd | 5 mdatools-0.9.1/mdatools/man/pca.svd.Rd | 1 mdatools-0.9.1/mdatools/man/pcares.Rd | 1 mdatools-0.9.1/mdatools/man/pinv.Rd | 1 mdatools-0.9.1/mdatools/man/plot.classres.Rd | 1 mdatools-0.9.1/mdatools/man/plot.ipls.Rd | 1 mdatools-0.9.1/mdatools/man/plot.pca.Rd | 1 mdatools-0.9.1/mdatools/man/plot.pcares.Rd | 1 mdatools-0.9.1/mdatools/man/plot.pls.Rd | 1 mdatools-0.9.1/mdatools/man/plot.plsda.Rd | 1 mdatools-0.9.1/mdatools/man/plot.plsdares.Rd | 1 mdatools-0.9.1/mdatools/man/plot.plsres.Rd | 1 mdatools-0.9.1/mdatools/man/plot.randtest.Rd | 1 mdatools-0.9.1/mdatools/man/plot.regcoeffs.Rd | 6 mdatools-0.9.1/mdatools/man/plot.regres.Rd | 1 mdatools-0.9.1/mdatools/man/plot.simca.Rd | 1 mdatools-0.9.1/mdatools/man/plot.simcam.Rd | 1 mdatools-0.9.1/mdatools/man/plot.simcamres.Rd | 1 mdatools-0.9.1/mdatools/man/plotBiplot.Rd | 1 mdatools-0.9.1/mdatools/man/plotBiplot.pca.Rd | 1 mdatools-0.9.1/mdatools/man/plotCooman.Rd | 1 mdatools-0.9.1/mdatools/man/plotCooman.simcam.Rd | 1 mdatools-0.9.1/mdatools/man/plotCooman.simcamres.Rd | 1 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mdatools-0.9.1/mdatools/man/plotModellingPower.Rd | 1 mdatools-0.9.1/mdatools/man/plotModellingPower.simca.Rd | 1 mdatools-0.9.1/mdatools/man/plotModellingPower.simcam.Rd | 1 mdatools-0.9.1/mdatools/man/plotPerformance.Rd | 1 mdatools-0.9.1/mdatools/man/plotPerformance.classmodel.Rd | 1 mdatools-0.9.1/mdatools/man/plotPerformance.classres.Rd | 1 mdatools-0.9.1/mdatools/man/plotPredictions.Rd | 1 mdatools-0.9.1/mdatools/man/plotPredictions.classmodel.Rd | 1 mdatools-0.9.1/mdatools/man/plotPredictions.classres.Rd | 7 mdatools-0.9.1/mdatools/man/plotPredictions.pls.Rd | 1 mdatools-0.9.1/mdatools/man/plotPredictions.plsres.Rd | 1 mdatools-0.9.1/mdatools/man/plotPredictions.regres.Rd | 10 mdatools-0.9.1/mdatools/man/plotProbabilities.Rd |only mdatools-0.9.1/mdatools/man/plotProbabilities.classres.Rd |only mdatools-0.9.1/mdatools/man/plotRMSE.Rd | 1 mdatools-0.9.1/mdatools/man/plotRMSE.ipls.Rd | 1 mdatools-0.9.1/mdatools/man/plotRMSE.pls.Rd | 1 mdatools-0.9.1/mdatools/man/plotRMSE.regres.Rd | 1 mdatools-0.9.1/mdatools/man/plotRegcoeffs.Rd | 1 mdatools-0.9.1/mdatools/man/plotRegcoeffs.pls.Rd | 1 mdatools-0.9.1/mdatools/man/plotResiduals.Rd | 1 mdatools-0.9.1/mdatools/man/plotResiduals.ldecomp.Rd | 6 mdatools-0.9.1/mdatools/man/plotResiduals.pca.Rd | 20 mdatools-0.9.1/mdatools/man/plotResiduals.pcares.Rd |only mdatools-0.9.1/mdatools/man/plotResiduals.simcam.Rd | 1 mdatools-0.9.1/mdatools/man/plotResiduals.simcamres.Rd | 1 mdatools-0.9.1/mdatools/man/plotResiduals.simcares.Rd | 22 mdatools-0.9.1/mdatools/man/plotScores.Rd | 1 mdatools-0.9.1/mdatools/man/plotScores.ldecomp.Rd | 1 mdatools-0.9.1/mdatools/man/plotScores.pca.Rd | 1 mdatools-0.9.1/mdatools/man/plotSelection.Rd | 1 mdatools-0.9.1/mdatools/man/plotSelection.ipls.Rd | 1 mdatools-0.9.1/mdatools/man/plotSelectivityRatio.Rd | 1 mdatools-0.9.1/mdatools/man/plotSelectivityRatio.pls.Rd | 1 mdatools-0.9.1/mdatools/man/plotSensitivity.Rd | 1 mdatools-0.9.1/mdatools/man/plotSensitivity.classmodel.Rd | 1 mdatools-0.9.1/mdatools/man/plotSensitivity.classres.Rd | 1 mdatools-0.9.1/mdatools/man/plotSpecificity.Rd | 1 mdatools-0.9.1/mdatools/man/plotSpecificity.classmodel.Rd | 1 mdatools-0.9.1/mdatools/man/plotSpecificity.classres.Rd | 1 mdatools-0.9.1/mdatools/man/plotVIPScores.Rd | 1 mdatools-0.9.1/mdatools/man/plotVIPScores.pls.Rd | 1 mdatools-0.9.1/mdatools/man/plotVariance.Rd | 1 mdatools-0.9.1/mdatools/man/plotVariance.ldecomp.Rd | 1 mdatools-0.9.1/mdatools/man/plotVariance.pca.Rd | 1 mdatools-0.9.1/mdatools/man/plotVariance.pls.Rd | 1 mdatools-0.9.1/mdatools/man/plotXCumVariance.Rd | 1 mdatools-0.9.1/mdatools/man/plotXCumVariance.pls.Rd | 1 mdatools-0.9.1/mdatools/man/plotXCumVariance.plsres.Rd | 1 mdatools-0.9.1/mdatools/man/plotXLoadings.Rd | 1 mdatools-0.9.1/mdatools/man/plotXLoadings.pls.Rd | 1 mdatools-0.9.1/mdatools/man/plotXResiduals.Rd | 1 mdatools-0.9.1/mdatools/man/plotXResiduals.pls.Rd | 1 mdatools-0.9.1/mdatools/man/plotXResiduals.plsres.Rd | 1 mdatools-0.9.1/mdatools/man/plotXScores.Rd | 1 mdatools-0.9.1/mdatools/man/plotXScores.pls.Rd | 1 mdatools-0.9.1/mdatools/man/plotXScores.plsres.Rd | 1 mdatools-0.9.1/mdatools/man/plotXVariance.Rd | 1 mdatools-0.9.1/mdatools/man/plotXVariance.pls.Rd | 1 mdatools-0.9.1/mdatools/man/plotXVariance.plsres.Rd | 1 mdatools-0.9.1/mdatools/man/plotXYLoadings.Rd | 1 mdatools-0.9.1/mdatools/man/plotXYLoadings.pls.Rd | 1 mdatools-0.9.1/mdatools/man/plotXYScores.Rd | 1 mdatools-0.9.1/mdatools/man/plotXYScores.pls.Rd | 1 mdatools-0.9.1/mdatools/man/plotXYScores.plsres.Rd | 1 mdatools-0.9.1/mdatools/man/plotYCumVariance.Rd | 1 mdatools-0.9.1/mdatools/man/plotYCumVariance.pls.Rd | 1 mdatools-0.9.1/mdatools/man/plotYCumVariance.plsres.Rd | 1 mdatools-0.9.1/mdatools/man/plotYResiduals.Rd | 1 mdatools-0.9.1/mdatools/man/plotYResiduals.pls.Rd | 1 mdatools-0.9.1/mdatools/man/plotYResiduals.regres.Rd | 1 mdatools-0.9.1/mdatools/man/plotYVariance.Rd | 1 mdatools-0.9.1/mdatools/man/plotYVariance.pls.Rd | 1 mdatools-0.9.1/mdatools/man/plotYVariance.plsres.Rd | 1 mdatools-0.9.1/mdatools/man/pls.Rd | 11 mdatools-0.9.1/mdatools/man/pls.cal.Rd | 1 mdatools-0.9.1/mdatools/man/pls.calculateSelectivityRatio.Rd | 1 mdatools-0.9.1/mdatools/man/pls.calculateVIPScores.Rd | 1 mdatools-0.9.1/mdatools/man/pls.crossval.Rd | 1 mdatools-0.9.1/mdatools/man/pls.run.Rd | 1 mdatools-0.9.1/mdatools/man/pls.simpls.Rd | 1 mdatools-0.9.1/mdatools/man/plsda.Rd | 15 mdatools-0.9.1/mdatools/man/plsda.cal.Rd | 6 mdatools-0.9.1/mdatools/man/plsda.crossval.Rd | 5 mdatools-0.9.1/mdatools/man/plsdares.Rd | 1 mdatools-0.9.1/mdatools/man/plsres.Rd | 1 mdatools-0.9.1/mdatools/man/predict.pca.Rd | 1 mdatools-0.9.1/mdatools/man/predict.pls.Rd | 1 mdatools-0.9.1/mdatools/man/predict.plsda.Rd | 1 mdatools-0.9.1/mdatools/man/predict.simca.Rd | 1 mdatools-0.9.1/mdatools/man/predict.simcam.Rd | 1 mdatools-0.9.1/mdatools/man/prep.autoscale.Rd | 1 mdatools-0.9.1/mdatools/man/prep.msc.Rd | 1 mdatools-0.9.1/mdatools/man/prep.norm.Rd | 1 mdatools-0.9.1/mdatools/man/prep.savgol.Rd | 1 mdatools-0.9.1/mdatools/man/prep.snv.Rd | 1 mdatools-0.9.1/mdatools/man/print.classres.Rd | 1 mdatools-0.9.1/mdatools/man/print.ipls.Rd | 1 mdatools-0.9.1/mdatools/man/print.ldecomp.Rd | 5 mdatools-0.9.1/mdatools/man/print.pca.Rd | 1 mdatools-0.9.1/mdatools/man/print.pcares.Rd | 1 mdatools-0.9.1/mdatools/man/print.pls.Rd | 1 mdatools-0.9.1/mdatools/man/print.plsda.Rd | 1 mdatools-0.9.1/mdatools/man/print.plsdares.Rd | 1 mdatools-0.9.1/mdatools/man/print.plsres.Rd | 1 mdatools-0.9.1/mdatools/man/print.randtest.Rd | 1 mdatools-0.9.1/mdatools/man/print.regcoeffs.Rd | 1 mdatools-0.9.1/mdatools/man/print.regres.Rd | 1 mdatools-0.9.1/mdatools/man/print.simca.Rd | 1 mdatools-0.9.1/mdatools/man/print.simcam.Rd | 1 mdatools-0.9.1/mdatools/man/print.simcamres.Rd | 1 mdatools-0.9.1/mdatools/man/print.simcares.Rd | 1 mdatools-0.9.1/mdatools/man/randtest.Rd | 1 mdatools-0.9.1/mdatools/man/regcoeffs.Rd | 5 mdatools-0.9.1/mdatools/man/regcoeffs.getStat.Rd | 5 mdatools-0.9.1/mdatools/man/regres.Rd | 1 mdatools-0.9.1/mdatools/man/regres.bias.Rd | 1 mdatools-0.9.1/mdatools/man/regres.r2.Rd | 1 mdatools-0.9.1/mdatools/man/regres.rmse.Rd | 1 mdatools-0.9.1/mdatools/man/regres.slope.Rd | 1 mdatools-0.9.1/mdatools/man/reslim.chisq.Rd |only mdatools-0.9.1/mdatools/man/reslim.dd.Rd |only mdatools-0.9.1/mdatools/man/reslim.hotelling.Rd |only mdatools-0.9.1/mdatools/man/reslim.jm.Rd |only mdatools-0.9.1/mdatools/man/selectCompNum.Rd | 1 mdatools-0.9.1/mdatools/man/selectCompNum.pca.Rd | 1 mdatools-0.9.1/mdatools/man/selectCompNum.pls.Rd | 1 mdatools-0.9.1/mdatools/man/setResLimits.Rd |only mdatools-0.9.1/mdatools/man/setResLimits.pca.Rd |only mdatools-0.9.1/mdatools/man/showPredictions.Rd | 1 mdatools-0.9.1/mdatools/man/showPredictions.classres.Rd | 1 mdatools-0.9.1/mdatools/man/simca.Rd | 17 mdatools-0.9.1/mdatools/man/simca.classify.Rd | 1 mdatools-0.9.1/mdatools/man/simca.crossval.Rd | 1 mdatools-0.9.1/mdatools/man/simcam.Rd | 1 mdatools-0.9.1/mdatools/man/simcam.getPerformanceStatistics.Rd | 1 mdatools-0.9.1/mdatools/man/simcamres.Rd | 1 mdatools-0.9.1/mdatools/man/simcares.Rd | 1 mdatools-0.9.1/mdatools/man/summary.classres.Rd | 1 mdatools-0.9.1/mdatools/man/summary.ipls.Rd | 1 mdatools-0.9.1/mdatools/man/summary.ldecomp.Rd | 4 mdatools-0.9.1/mdatools/man/summary.pca.Rd | 1 mdatools-0.9.1/mdatools/man/summary.pcares.Rd | 1 mdatools-0.9.1/mdatools/man/summary.pls.Rd | 1 mdatools-0.9.1/mdatools/man/summary.plsda.Rd | 1 mdatools-0.9.1/mdatools/man/summary.plsdares.Rd | 1 mdatools-0.9.1/mdatools/man/summary.plsres.Rd | 1 mdatools-0.9.1/mdatools/man/summary.randtest.Rd | 1 mdatools-0.9.1/mdatools/man/summary.regcoeffs.Rd |only mdatools-0.9.1/mdatools/man/summary.regres.Rd | 1 mdatools-0.9.1/mdatools/man/summary.simca.Rd | 1 mdatools-0.9.1/mdatools/man/summary.simcam.Rd | 1 mdatools-0.9.1/mdatools/man/summary.simcamres.Rd | 1 mdatools-0.9.1/mdatools/man/summary.simcares.Rd | 1 mdatools-0.9.1/mdatools/tests |only 294 files changed, 2315 insertions(+), 1254 deletions(-)
Title: Co-Expression Differential Network Analysis
Description: Categorize links and nodes from multiple networks in 3 categories: Common links (alpha) specific links (gamma), and different links (beta). Also categorizes the links into sub-categories and groups. The package includes a visualization tool for the networks. More information about the methodology can be found at: Gysi et. al., 2018 <arXiv:1802.00828>.
Author: Deisy Morselli Gysi, Tiago de Miranda Fragoso, Eivind Almaas and Katja Nowick.
Maintainer: Deisy Morselli Gysi <deisy@bioinf.uni-leipzig.de>
Diff between CoDiNA versions 1.0.0 dated 2018-02-08 and 1.1 dated 2018-07-06
CoDiNA-1.0.0/CoDiNA/R/plot.R |only CoDiNA-1.0.0/CoDiNA/data/datalist |only CoDiNA-1.0.0/CoDiNA/inst/CITATION |only CoDiNA-1.0.0/CoDiNA/man/makeDiffNet.Rd |only CoDiNA-1.1/CoDiNA/DESCRIPTION | 14 ++-- CoDiNA-1.1/CoDiNA/MD5 | 57 +++++++++++-------- CoDiNA-1.1/CoDiNA/NAMESPACE | 6 +- CoDiNA-1.1/CoDiNA/R/ClusterNodes.R |only CoDiNA-1.1/CoDiNA/R/CoDiNA_Categorize.R | 16 ++--- CoDiNA-1.1/CoDiNA/R/Create_full_base.R | 14 +++- CoDiNA-1.1/CoDiNA/R/OrderNames.R | 6 +- CoDiNA-1.1/CoDiNA/R/Recode.R |only CoDiNA-1.1/CoDiNA/R/as.igraph.R | 16 ++--- CoDiNA-1.1/CoDiNA/R/makeDiffNet.R | 93 +++++++++++++++++++++----------- CoDiNA-1.1/CoDiNA/R/normalize.R | 5 + CoDiNA-1.1/CoDiNA/R/plot2.R |only CoDiNA-1.1/CoDiNA/R/print.R | 4 - CoDiNA-1.1/CoDiNA/R/summary.R | 9 ++- CoDiNA-1.1/CoDiNA/build |only CoDiNA-1.1/CoDiNA/data/AST.RData |binary CoDiNA-1.1/CoDiNA/data/CTR.RData |binary CoDiNA-1.1/CoDiNA/data/GLI.RData |binary CoDiNA-1.1/CoDiNA/data/OLI.RData |binary CoDiNA-1.1/CoDiNA/inst/doc |only CoDiNA-1.1/CoDiNA/man/ClusterNodes.Rd |only CoDiNA-1.1/CoDiNA/man/MakeDiffNet.Rd |only CoDiNA-1.1/CoDiNA/man/OrderNames.Rd | 2 CoDiNA-1.1/CoDiNA/man/PhiCategory.Rd | 2 CoDiNA-1.1/CoDiNA/man/Random.seed.Rd |only CoDiNA-1.1/CoDiNA/man/Recode.Rd |only CoDiNA-1.1/CoDiNA/man/as.igraph.Rd | 7 +- CoDiNA-1.1/CoDiNA/man/plot.CoDiNA.Rd | 13 ++-- CoDiNA-1.1/CoDiNA/man/print.CoDiNA.Rd | 3 - CoDiNA-1.1/CoDiNA/man/summary.CoDiNA.Rd | 3 - CoDiNA-1.1/CoDiNA/vignettes |only 35 files changed, 160 insertions(+), 110 deletions(-)
Title: Agricultural Datasets
Description: Datasets from books, papers, and websites related to agriculture.
Example graphics and analyses are included. Data come from small-plot trials,
multi-environment trials, uniformity trials, yield monitors, and more.
Author: Kevin Wright [aut, cre] (<https://orcid.org/0000-0002-0617-8673>)
Maintainer: Kevin Wright <kw.stat@gmail.com>
Diff between agridat versions 1.15 dated 2018-06-27 and 1.16 dated 2018-07-06
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- inst/doc/agridat_data.html | 4 ++-- inst/doc/agridat_examples.html | 4 ++-- inst/doc/agridat_papadakis.html | 4 ++-- man/mead.lamb.Rd | 26 +++++++++++++------------- 6 files changed, 27 insertions(+), 27 deletions(-)
Title: Tidyverse-Friendly Introductory Linear Regression
Description: Datasets and wrapper functions for tidyverse-friendly introductory linear regression, used in ModernDive: An Introduction to Statistical and Data Sciences via R available at <http://moderndive.com/> and DataCamp's Modeling with Data in the Tidyverse available at <https://www.datacamp.com/courses/modeling-with-data-in-the-tidyverse>.
Author: Albert Y. Kim [cre],
Chester Ismay [aut],
Andrew Bray [ctb]
Maintainer: Albert Y. Kim <albert.ys.kim@gmail.com>
Diff between moderndive versions 0.1.0 dated 2018-01-22 and 0.2.0 dated 2018-07-06
moderndive-0.1.0/moderndive/man/rep_sample_n.Rd |only moderndive-0.1.0/moderndive/tests/testthat/test-functions.R |only moderndive-0.2.0/moderndive/DESCRIPTION | 20 - moderndive-0.2.0/moderndive/MD5 | 58 ++- moderndive-0.2.0/moderndive/NAMESPACE | 18 - moderndive-0.2.0/moderndive/NEWS.md | 22 + moderndive-0.2.0/moderndive/R/bowl_samples.R | 4 moderndive-0.2.0/moderndive/R/evals.R |only moderndive-0.2.0/moderndive/R/get_correlation.R |only moderndive-0.2.0/moderndive/R/house_prices.R |only moderndive-0.2.0/moderndive/R/moderndive.R | 32 - moderndive-0.2.0/moderndive/R/mythbusters_yawn.R |only moderndive-0.2.0/moderndive/R/pennies.R | 8 moderndive-0.2.0/moderndive/R/pennies_sample.R |only moderndive-0.2.0/moderndive/R/regression_functions.R | 178 +++++++--- moderndive-0.2.0/moderndive/R/rep_sample_n.R | 42 -- moderndive-0.2.0/moderndive/R/tactile_prop_red.R |only moderndive-0.2.0/moderndive/R/utils-pipe.R |only moderndive-0.2.0/moderndive/data/bowl.rda |binary moderndive-0.2.0/moderndive/data/bowl_samples.rda |binary moderndive-0.2.0/moderndive/data/evals.rda |only moderndive-0.2.0/moderndive/data/house_prices.rda |only moderndive-0.2.0/moderndive/data/mythbusters_yawn.rda |only moderndive-0.2.0/moderndive/data/pennies.rda |binary moderndive-0.2.0/moderndive/data/pennies_sample.rda |only moderndive-0.2.0/moderndive/data/tactile_prop_red.rda |only moderndive-0.2.0/moderndive/man/bowl_samples.Rd | 2 moderndive-0.2.0/moderndive/man/evals.Rd |only moderndive-0.2.0/moderndive/man/get_correlation.Rd |only moderndive-0.2.0/moderndive/man/get_regression_points.Rd | 40 +- moderndive-0.2.0/moderndive/man/get_regression_summaries.Rd | 19 - moderndive-0.2.0/moderndive/man/get_regression_table.Rd | 22 - moderndive-0.2.0/moderndive/man/house_prices.Rd |only moderndive-0.2.0/moderndive/man/moderndive.Rd | 30 - moderndive-0.2.0/moderndive/man/mythbusters_yawn.Rd |only moderndive-0.2.0/moderndive/man/pennies.Rd | 6 moderndive-0.2.0/moderndive/man/pennies_sample.Rd |only moderndive-0.2.0/moderndive/man/pipe.Rd |only moderndive-0.2.0/moderndive/man/reexports.Rd |only moderndive-0.2.0/moderndive/man/tactile_prop_red.Rd |only moderndive-0.2.0/moderndive/tests/testthat/test-get_regression_functions.R |only moderndive-0.2.0/moderndive/tests/testthat/test_get_correlation.R |only 42 files changed, 327 insertions(+), 174 deletions(-)
Title: MNREAD Parameters Estimation and Curve Plotting
Description: Allows to analyze the reading data obtained with the MNREAD Acuity
Chart, a continuous-text reading acuity chart for normal and low vision.
Provides the necessary functions to plot the MNREAD curve and estimate
automatically the four MNREAD parameters: Maximum Reading Speed,
Critical Print Size, Reading Acuity and Reading Accessibility Index.
Parameters can be estimated either with the standard method
or with a nonlinear mixed-effects (NLME) modeling.
See Calabrese et al. 2018 for more details <doi.org/10.1167/18.1.8>.
Author: Aurélie Calabrèse [aut, cre],
Gordon E. Legge [aut]
Maintainer: Aurélie Calabrèse <acalabre@umn.edu>
Diff between mnreadR versions 2.0.0 dated 2018-06-12 and 2.1.0 dated 2018-07-06
DESCRIPTION | 8 - MD5 | 34 +++-- NAMESPACE | 3 R/all_mnread_param.R | 2 R/curve_param.R | 9 + R/mansfield_algorithm.R | 4 R/mnread_curve.R | 53 +++++++- R/nlmePredict_PS.R |only R/nlmePredict_RS.R |only R/nlme_curve.R | 294 ++++++++++++++++++------------------------------ R/nlme_model.R |only R/nlme_param.R | 166 ++++----------------------- R/zzz.R | 2 man/curveParam_RT.Rd | 9 + man/mnreadCurve.Rd | 34 +++++ man/mnreadParam.Rd | 2 man/nlmeCurve.Rd | 98 +++++++--------- man/nlmeModel.Rd |only man/nlmeParam.Rd | 77 ++---------- man/nlmePredict_PS.Rd |only man/nlmePredict_RS.Rd |only 21 files changed, 328 insertions(+), 467 deletions(-)
Title: Alluvial Diagrams in 'ggplot2'
Description: Alluvial diagrams use x-splines, sometimes augmented with stacked
histograms, to visualize multi-dimensional or repeated-measures data with
categorical or ordinal variables. This package provides ggplot2 layers to
produce alluvial diagrams from tidy data.
Author: Jason Cory Brunson [aut, cre]
Maintainer: Jason Cory Brunson <cornelioid@gmail.com>
Diff between ggalluvial versions 0.6.0 dated 2018-02-03 and 0.9.0 dated 2018-07-06
DESCRIPTION | 26 +- MD5 | 97 ++++----- NAMESPACE | 6 NEWS.md | 50 ++++ R/alluvial-data.r | 334 +++++++++++++++++-------------- R/data.r | 4 R/devel.r | 82 ++++++- R/geom-alluvium.r | 75 ++---- R/geom-flow.r | 90 ++++---- R/geom-lode.r | 46 +--- R/geom-stratum.r | 43 +-- R/geom-utils.r | 30 -- R/lode-guidance-functions.r | 21 + R/self-adjoin.r |only R/stat-alluvium.r | 77 ++++--- R/stat-flow.r | 50 ++-- R/stat-stratum.r | 58 +++-- R/stat-utils.r | 41 +-- README.md | 96 ++++++-- build/vignette.rds |binary inst/doc/ggalluvial.R | 31 +- inst/doc/ggalluvial.html | 202 ++++++++++++------ inst/doc/ggalluvial.rmd | 45 ++-- inst/doc/labels.R |only inst/doc/labels.html |only inst/doc/labels.rmd |only inst/examples/ex-alluvial-data.r | 70 +++--- inst/examples/ex-geom-alluvium.r | 10 inst/examples/ex-geom-flow.r | 17 - inst/examples/ex-geom-lode.r | 6 inst/examples/ex-geom-stratum.r | 9 inst/examples/ex-self-adjoin.r |only inst/examples/ex-stat-alluvium.r | 24 +- inst/examples/ex-stat-flow.r | 15 - inst/examples/ex-stat-stratum.r | 18 - man/alluvial-data.Rd | 184 ++++++++--------- man/figures/README-unnamed-chunk-6-1.png |binary man/figures/README-unnamed-chunk-7-1.png |binary man/geom_alluvium.Rd | 27 +- man/geom_flow.Rd | 35 +-- man/geom_lode.Rd | 20 + man/geom_stratum.Rd | 19 + man/ggalluvial-deprecated.Rd | 24 ++ man/lode-guidance-functions.Rd | 11 - man/majors.Rd | 2 man/self-adjoin.Rd |only man/stat_alluvium.Rd | 48 ++-- man/stat_flow.Rd | 29 +- man/stat_stratum.Rd | 32 +- man/vaccinations.Rd | 2 tests/testthat/test-is-alluvial.r | 83 +++++-- vignettes/ggalluvial.rmd | 45 ++-- vignettes/labels.rmd |only 53 files changed, 1291 insertions(+), 943 deletions(-)
Title: Linear and Nonlinear Methods for Analyzing Dendroclimatological
Data
Description: Provides novel dendroclimatological methods, primarily used by the
Tree-ring research community. There are two core functions. The first one is
daily_response(), which finds the optimal sequence of days that are related
to one or more tree-ring proxy records. The second one is compare_methods(),
which effectively compares several linear and nonlinear regression algorithms.
Author: Jernej Jevsenak [aut, cre], Tom Levanic [ctb]
Maintainer: Jernej Jevsenak <jernej.jevsenak@gmail.com>
Diff between dendroTools versions 0.0.9 dated 2018-05-29 and 1.0.0 dated 2018-07-06
DESCRIPTION | 6 MD5 | 44 +- NAMESPACE | 1 NEWS.md | 7 R/compare_methods.R | 431 ++++++++++++++++-------- R/daily_response.R | 590 +++++++++++++++++++++++++++----- R/plot_extreme.R | 576 +++++--------------------------- R/plot_heatmap.R | 95 ++--- R/plot_specific.R | 592 ++++----------------------------- R/round2.R |only inst/doc/Examples_daily_response.R | 55 +-- inst/doc/Examples_daily_response.Rmd | 72 ++-- inst/doc/Examples_daily_response.html | 157 ++++---- inst/doc/compare_methods_vignette.R | 14 inst/doc/compare_methods_vignette.Rmd | 20 - inst/doc/compare_methods_vignette.html | 483 +++++++++++++------------- man/compare_methods.Rd | 60 ++- man/daily_response.Rd | 43 +- man/plot_extreme.Rd | 16 man/plot_heatmap.Rd | 15 man/plot_specific.Rd | 15 man/round2.Rd |only vignettes/Examples_daily_response.Rmd | 72 ++-- vignettes/compare_methods_vignette.Rmd | 20 - 24 files changed, 1636 insertions(+), 1748 deletions(-)
Title: Article Formats for R Markdown
Description: A suite of custom R Markdown formats and templates for
authoring journal articles and conference submissions.
Author: JJ Allaire [aut],
Yihui Xie [aut, cre] (<https://orcid.org/0000-0003-0645-5666>),
R Foundation [aut, cph],
Hadley Wickham [aut],
Journal of Statistical Software [aut, cph],
RStudio [cph],
Ramnath Vaidyanathan [aut, cph],
Association for Computing Machinery [aut, cph],
Carl Boettiger [aut, cph],
Elsevier [aut, cph],
Karl Broman [aut, cph],
Kirill Mueller [aut, cph],
Bastiaan Quast [aut, cph],
Randall Pruim [aut, cph],
Ben Marwick [aut, cph],
Charlotte Wickham [aut, cph],
Oliver Keyes [aut, cph],
Miao Yu [aut, cph],
Daniel Emaasit [aut, cph],
Thierry Onkelinx [aut, cph],
Alessandro Gasparini [aut, cph],
Marc-Andre Desautels [aut, cph],
Dominik Leutnant [aut, cph],
MDPI [aut, cph]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between rticles versions 0.4.1 dated 2017-05-16 and 0.5 dated 2018-07-06
rticles-0.4.1/rticles/inst/NEWS |only rticles-0.4.1/rticles/inst/rmarkdown/templates/elsevier_article/skeleton/skeleton.pdf |only rticles-0.4.1/rticles/inst/rmarkdown/templates/elsevier_article/skeleton/skeleton.tex |only rticles-0.4.1/rticles/inst/rmarkdown/templates/pnas_article/skeleton/algorithm.sty |only rticles-0.4.1/rticles/inst/rmarkdown/templates/pnas_article/skeleton/algorithmicx.sty |only rticles-0.4.1/rticles/inst/rmarkdown/templates/pnas_article/skeleton/algpseudocode.sty |only rticles-0.4.1/rticles/inst/rmarkdown/templates/sim_article/resources/simauth.cls |only rticles-0.4.1/rticles/inst/rmarkdown/templates/sim_article/skeleton/simauth.cls |only rticles-0.4.1/rticles/inst/rmarkdown/templates/sim_article/skeleton/wileyj.bst |only rticles-0.4.1/rticles/tests/testthat |only rticles-0.4.1/rticles/tests/testthat.R |only rticles-0.5/rticles/DESCRIPTION | 37 +- rticles-0.5/rticles/MD5 | 148 ++++++--- rticles-0.5/rticles/NAMESPACE | 12 rticles-0.5/rticles/NEWS |only rticles-0.5/rticles/R/amq_article.R |only rticles-0.5/rticles/R/ieee_article.R |only rticles-0.5/rticles/R/jss_article.R | 64 ++- rticles-0.5/rticles/R/mdpi_article.R |only rticles-0.5/rticles/R/mnras_article.R |only rticles-0.5/rticles/R/peerj_article.R |only rticles-0.5/rticles/R/rjournal_article.R | 31 + rticles-0.5/rticles/R/rsos_article.R |only rticles-0.5/rticles/R/sim_article.R | 21 + rticles-0.5/rticles/R/springer_article.R |only rticles-0.5/rticles/R/utils.R | 7 rticles-0.5/rticles/README.md | 71 ++-- rticles-0.5/rticles/inst/rmarkdown/templates/acm_article/resources/template.tex | 3 rticles-0.5/rticles/inst/rmarkdown/templates/acm_article/template.yaml | 2 rticles-0.5/rticles/inst/rmarkdown/templates/aea_article/resources/template.tex | 3 rticles-0.5/rticles/inst/rmarkdown/templates/aea_article/skeleton/skeleton.Rmd | 4 rticles-0.5/rticles/inst/rmarkdown/templates/amq_article |only rticles-0.5/rticles/inst/rmarkdown/templates/asa_article/resources/template.tex | 154 +++++---- rticles-0.5/rticles/inst/rmarkdown/templates/ctex/resources/default.latex | 1 rticles-0.5/rticles/inst/rmarkdown/templates/ctex/skeleton/skeleton.Rmd | 9 rticles-0.5/rticles/inst/rmarkdown/templates/elsevier_article/resources/template.tex | 33 -- rticles-0.5/rticles/inst/rmarkdown/templates/elsevier_article/skeleton/skeleton.Rmd | 6 rticles-0.5/rticles/inst/rmarkdown/templates/ieee_article |only rticles-0.5/rticles/inst/rmarkdown/templates/jss_article/resources/template.tex | 5 rticles-0.5/rticles/inst/rmarkdown/templates/mdpi_article |only rticles-0.5/rticles/inst/rmarkdown/templates/mnras_article |only rticles-0.5/rticles/inst/rmarkdown/templates/peerj_article |only rticles-0.5/rticles/inst/rmarkdown/templates/plos_article/resources/template.tex | 10 rticles-0.5/rticles/inst/rmarkdown/templates/pnas_article/skeleton/frog.png |binary rticles-0.5/rticles/inst/rmarkdown/templates/pnas_article/skeleton/skeleton.Rmd | 4 rticles-0.5/rticles/inst/rmarkdown/templates/rjournal_article/resources/RJwrapper.tex | 5 rticles-0.5/rticles/inst/rmarkdown/templates/rjournal_article/resources/template.tex | 8 rticles-0.5/rticles/inst/rmarkdown/templates/rjournal_article/skeleton/Rlogo.png |binary rticles-0.5/rticles/inst/rmarkdown/templates/rjournal_article/skeleton/preamble.tex |only rticles-0.5/rticles/inst/rmarkdown/templates/rjournal_article/skeleton/skeleton.Rmd | 7 rticles-0.5/rticles/inst/rmarkdown/templates/rsos_article |only rticles-0.5/rticles/inst/rmarkdown/templates/rss_article/resources/template.tex | 5 rticles-0.5/rticles/inst/rmarkdown/templates/sim_article/resources/WileyNJD-v2.cls |only rticles-0.5/rticles/inst/rmarkdown/templates/sim_article/resources/template.tex | 76 +++- rticles-0.5/rticles/inst/rmarkdown/templates/sim_article/skeleton/WileyNJD-AMA.bst |only rticles-0.5/rticles/inst/rmarkdown/templates/sim_article/skeleton/WileyNJD-v2.cls |only rticles-0.5/rticles/inst/rmarkdown/templates/sim_article/skeleton/bibfile.bib | 58 +-- rticles-0.5/rticles/inst/rmarkdown/templates/sim_article/skeleton/skeleton.Rmd | 164 ++++------ rticles-0.5/rticles/inst/rmarkdown/templates/springer_article |only rticles-0.5/rticles/man/amq_article.Rd |only rticles-0.5/rticles/man/ieee_article.Rd |only rticles-0.5/rticles/man/mdpi_article.Rd |only rticles-0.5/rticles/man/mnras_article.Rd |only rticles-0.5/rticles/man/peerj_article.Rd |only rticles-0.5/rticles/man/rsos_article.Rd |only rticles-0.5/rticles/man/sim_article.Rd | 22 + rticles-0.5/rticles/man/springer_article.Rd |only rticles-0.5/rticles/tests/test-all.R |only rticles-0.5/rticles/tests/testit |only 69 files changed, 587 insertions(+), 383 deletions(-)
Title: Interface to the Global 'Biodiversity' Information Facility API
Description: A programmatic interface to the Web Service methods
provided by the Global Biodiversity Information Facility ('GBIF';
<https://www.gbif.org/developer/summary>). 'GBIF' is a database
of species occurrence records from sources all over the globe.
'rgbif' includes functions for searching for taxonomic names,
retrieving information on data providers, getting species occurrence
records, getting counts of occurrence records, and using the 'GBIF'
tile map service to make 'rasters' summarizing huge amounts of data.
Author: Scott Chamberlain [aut, cre] (<https://orcid.org/0000-0003-1444-9135>),
Vijay Barve [ctb],
Dan Mcglinn [ctb],
Damiano Oldoni [ctb],
Laurens Geffert [ctb],
Karthik Ram [ctb]
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between rgbif versions 1.0.0 dated 2018-07-03 and 1.0.2 dated 2018-07-06
DESCRIPTION | 8 +-- MD5 | 83 +++++++++++++++++++-------------------- NAMESPACE | 2 NEWS.md | 14 ++++++ R/count_facet.r | 4 - R/download_queue.R | 34 +++++++++++++-- R/gbif_citation.R | 22 +++++----- R/map_fetch.R | 53 +++++++++++++----------- R/name_lookup.r | 6 +- R/name_usage.r | 4 - R/networks.r | 10 +--- R/occ_download_import.R | 12 ++--- R/occ_download_queue.R | 13 ++++-- R/occ_get.r | 6 +- R/rgbif-package.r | 1 R/zzz.r | 4 + README.md | 6 +- inst/doc/issues_vignette.Rmd | 6 +- inst/doc/issues_vignette.html | 6 +- inst/doc/rgbif_vignette.Rmd | 36 ++++++++++------ inst/doc/rgbif_vignette.html | 38 ++++++++++------- inst/doc/taxonomic_names.Rmd | 8 +-- inst/doc/taxonomic_names.html | 8 +-- inst/vign/figure/gbifmap1-1.png |binary inst/vign/issues_vignette.md | 6 +- inst/vign/rgbif_vignette.md | 36 ++++++++++------ inst/vign/taxonomic_names.md | 8 +-- man/DownReq.Rd | 11 ++--- man/GbifQueue.Rd | 22 ++++++++++ man/count_facet.Rd | 4 - man/gbif_citation.Rd | 22 +++++----- man/map_fetch.Rd | 53 +++++++++++++----------- man/name_lookup.Rd | 6 +- man/name_usage.Rd | 4 - man/networks.Rd | 10 +--- man/occ_download_import.Rd | 12 ++--- man/occ_download_queue.Rd | 6 +- man/occ_get.Rd | 6 +- tests/testthat/test-downloads.R |only tests/testthat/test-name_usage.r | 10 ++++ vignettes/issues_vignette.Rmd | 6 +- vignettes/rgbif_vignette.Rmd | 36 ++++++++++------ vignettes/taxonomic_names.Rmd | 8 +-- 43 files changed, 380 insertions(+), 270 deletions(-)
Title: Interface to 'Python'
Description: Interface to 'Python' modules, classes, and functions. When calling
into 'Python', R data types are automatically converted to their equivalent 'Python'
types. When values are returned from 'Python' to R they are converted back to R
types. Compatible with all versions of 'Python' >= 2.7.
Author: JJ Allaire [aut, cre],
Kevin Ushey [aut],
RStudio [cph, fnd],
Yuan Tang [aut, cph] (<https://orcid.org/0000-0001-5243-233X>),
Dirk Eddelbuettel [ctb, cph],
Bryan Lewis [ctb, cph],
Marcus Geelnard [ctb, cph] (TinyThread library,
http://tinythreadpp.bitsnbites.eu/)
Maintainer: JJ Allaire <jj@rstudio.com>
Diff between reticulate versions 1.8 dated 2018-06-08 and 1.9 dated 2018-07-06
DESCRIPTION | 6 - MD5 | 39 +++++------ NAMESPACE | 1 NEWS.md | 17 ++++ R/config.R | 4 - R/install.R | 33 ++++++--- R/python.R | 6 + R/repl.R | 2 R/virtualenv.R | 32 ++++++--- inst/config/config.py | 17 ++++ inst/doc/calling_python.Rmd | 1 inst/doc/calling_python.html | 5 + inst/python/rpytools/call.pyc |binary inst/python/rpytools/help.pyc |binary src/libpython.cpp | 4 + src/libpython.h | 5 + src/python.cpp | 66 ++++++++++++++----- tests/testthat/helper-utils.R | 3 tests/testthat/resources/eng-reticulate-example.html | 4 - tests/testthat/test-python-raw.R |only vignettes/calling_python.Rmd | 1 21 files changed, 180 insertions(+), 66 deletions(-)
Title: Magnitude-Based Inferences
Description: Allows practitioners and researchers a wholesale approach for deriving magnitude-based inferences from raw data. A major goal of 'mbir' is to programmatically detect appropriate statistical tests to run in lieu of relying on practitioners to determine correct stepwise procedures independently.
Author: Kyle Peterson [aut, cre],
Aaron Caldwell [aut]
Maintainer: Kyle Peterson <petersonkdon@gmail.com>
Diff between mbir versions 1.3.1 dated 2018-05-06 and 1.3.2 dated 2018-07-06
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/smd_test.R | 4 +++- inst/doc/mbir-vignette.html | 8 ++++---- 4 files changed, 14 insertions(+), 12 deletions(-)
Title: Interface to the Greek National Data Bank for
Hydrometeorological Information
Description: R interface to the Greek National Data Bank for Hydrological and
Meteorological Information <http://www.hydroscope.gr/>. It covers
Hydroscope's data sources and provides functions to transliterate,
translate and download them into tidy dataframes (tibbles).
Author: Konstantinos Vantas [aut, cre]
(<https://orcid.org/0000-0001-6387-8791>),
Sharla Gelfand [ctb, rev] (Sharla Gelfand reviewed the package for
rOpenSci, see https://github.com/ropensci/onboarding/issues/185),
Tim Trice [rev] (Tim Trice reviewed the package for rOpenSci, see
https://github.com/ropensci/onboarding/issues/185)
Maintainer: Konstantinos Vantas <kon.vantas@gmail.com>
Diff between hydroscoper versions 1.0.0 dated 2018-03-16 and 1.1.0 dated 2018-07-06
DESCRIPTION | 12 MD5 | 41 +- NAMESPACE | 1 NEWS.md | 101 +++--- R/data.R | 118 ++++---- R/enhydris_api.R | 234 +++++++-------- R/find_stations.R |only R/get_tables.R | 442 ++++++++++++++---------------- R/hydro_translate.R | 327 ++++++++++------------ R/utils.R | 51 ++- README.md | 49 ++- build/vignette.rds |binary inst/CITATION | 4 inst/doc/intro_hydroscoper.html | 28 - inst/doc/stations_with_data.html | 8 man/figures/README-plot_time_series-1.png |binary man/find_stations.Rd |only man/get_tables.Rd | 6 man/greece_borders.Rd | 2 man/hydro_translate.Rd | 4 tests/testthat/test_enhydris.R | 20 + tests/testthat/test_find_stations.R |only tests/testthat/test_utils.R | 11 23 files changed, 764 insertions(+), 695 deletions(-)
Title: Build Error Correction Models
Description: Functions for easy building of error correction models (ECM) for time series regression.
Author: Gaurav Bansal
Maintainer: Gaurav Bansal <gaurbans@gmail.com>
Diff between ecm versions 4.0.0 dated 2018-07-04 and 4.1.0 dated 2018-07-06
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/ecmaveback.r | 2 +- README.md | 4 ++-- 4 files changed, 9 insertions(+), 9 deletions(-)
Title: Bayesian Additive Regression Trees Using Particle Gibbs Sampler
and Gibbs/Metropolis-Hastings Sampler
Description: The Particle Gibbs sampler and Gibbs/Metropolis-Hastings sampler were implemented
to fit Bayesian additive regression tree model. Construction of the model (training) and prediction
for a new data set (testing) can be separated. Our reference papers are:
Lakshminarayanan B, Roy D, Teh Y W. Particle Gibbs for Bayesian additive regression trees[C],
Artificial Intelligence and Statistics. 2015: 553-561,
<http://proceedings.mlr.press/v38/lakshminarayanan15.pdf>
and Chipman, H., George, E., and McCulloch R. (2010) Bayesian Additive Regression Trees. The Annals of Applied Statistics, 4,1, 266-298, <https://doi.org/10.1214/09-aoas285>.
Author: Pingyu Wang [aut, cre],
Dai Feng [aut],
Yang Bai [aut],
Qiuyue Shi [aut],
Zhicheng Zhao [aut],
Fei Su [aut],
Hugh Chipman [aut],
Robert McCulloch [aut]
Maintainer: Pingyu Wang <applewangpingyu@gmail.com>
Diff between pgbart versions 0.6.11 dated 2018-07-01 and 0.6.12 dated 2018-07-06
DESCRIPTION | 11 ++++++----- MD5 | 10 +++++----- inst/CITATION | 24 +++++++++++++++++++++--- man/pdpgbart.Rd | 6 ------ man/pgbart_predict.Rd | 6 ------ man/pgbart_train.Rd | 7 ------- 6 files changed, 32 insertions(+), 32 deletions(-)
Title: Tools for Survey Statistics in Educational Assessment
Description: Contains tools for survey statistics (especially in educational
assessment) for datasets with replication designs (jackknife,
bootstrap, replicate weights; see Kolenikov, 2010).
Descriptive statistics, linear and logistic regression,
path models for manifest variables with measurement error
correction and two-level hierarchical regressions for weighted
samples are included. Statistical inference can be conducted for
multiply imputed datasets and nested multiply imputed datasets.
This package is developed by BIFIE (Federal Institute for
Educational Research, Innovation and Development of the Austrian
School System; Salzburg, Austria).
Author: BIFIE
Maintainer: Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>
Diff between BIFIEsurvey versions 2.5-44 dated 2018-05-22 and 2.18-6 dated 2018-07-06
DESCRIPTION | 11 ++--- MD5 | 44 ++++++++++---------- R/BIFIE.by.R | 6 +- R/BIFIE.data.R | 48 +++++++++++----------- R/BIFIE.mva.R | 65 +++++++++++------------------- R/BIFIE.univar.test.R | 100 +++++++++++++++++++++-------------------------- R/BIFIE.waldtest.R | 37 ++++++----------- R/RcppExports.R | 2 R/clean_summary_table.R | 26 +++++------- R/save.BIFIE.data.R | 38 ++++++++--------- R/summary.BIFIE.data.R | 18 ++++---- data/data.bifie01.rda |binary data/data.pisaNLD.rda |binary data/data.test1.rda |binary data/data.timss1.ind.rda |binary data/data.timss1.rda |binary data/data.timss2.rda |binary data/data.timss3.rda |binary data/data.timss4.rda |binary data/data.timssrep.rda |binary inst/NEWS | 12 ++++- man/BIFIE.twolevelreg.Rd | 8 ++- src/RcppExports.cpp | 2 23 files changed, 194 insertions(+), 223 deletions(-)
Title: Tidy Temporal Data Frames and Tools
Description: Provides a 'tbl_ts' class (the 'tsibble') to store and manage
temporal-context data in a data-centric format, which is built on top of
the 'tibble'. The 'tsibble' aims at easily manipulating and analysing temporal
data, including counting and filling time gaps, aggregate over calendar periods,
performing rolling window calculations, and etc.
Author: Earo Wang [aut, cre] (<https://orcid.org/0000-0001-6448-5260>),
Di Cook [aut, ths] (<https://orcid.org/0000-0002-3813-7155>),
Rob Hyndman [aut, ths] (<https://orcid.org/0000-0002-2140-5352>),
Mitchell O'Hara-Wild [ctb]
Maintainer: Earo Wang <earo.wang@gmail.com>
Diff between tsibble versions 0.3.0 dated 2018-05-29 and 0.4.0 dated 2018-07-06
tsibble-0.3.0/tsibble/R/window.R |only tsibble-0.3.0/tsibble/src/utils-cpp.cpp |only tsibble-0.3.0/tsibble/tests/testthat/test-window.R |only tsibble-0.4.0/tsibble/DESCRIPTION | 14 - tsibble-0.4.0/tsibble/MD5 | 107 +++++++------ tsibble-0.4.0/tsibble/NAMESPACE | 70 ++++++++ tsibble-0.4.0/tsibble/NEWS.md | 45 +++++ tsibble-0.4.0/tsibble/R/RcppExports.R | 4 tsibble-0.4.0/tsibble/R/as-tsibble.R | 73 ++++----- tsibble-0.4.0/tsibble/R/dplyr-join.R | 2 tsibble-0.4.0/tsibble/R/dplyr-verbs.R | 14 - tsibble-0.4.0/tsibble/R/fill-na.R | 20 +- tsibble-0.4.0/tsibble/R/format.R | 10 + tsibble-0.4.0/tsibble/R/holiday.R |only tsibble-0.4.0/tsibble/R/index-by.R | 26 +-- tsibble-0.4.0/tsibble/R/interval.R | 25 +-- tsibble-0.4.0/tsibble/R/parse-key.R | 10 - tsibble-0.4.0/tsibble/R/period.R | 134 ++++++++++++++--- tsibble-0.4.0/tsibble/R/slide.R |only tsibble-0.4.0/tsibble/R/stretch.R |only tsibble-0.4.0/tsibble/R/subset.R | 50 +++++- tsibble-0.4.0/tsibble/R/tidyr-verbs.R | 79 +++------- tsibble-0.4.0/tsibble/R/tile.R |only tsibble-0.4.0/tsibble/R/time-wise.R | 4 tsibble-0.4.0/tsibble/R/ts2tsibble.R | 8 - tsibble-0.4.0/tsibble/R/tsibble-pkg.R | 3 tsibble-0.4.0/tsibble/R/tsibble2ts.R | 16 +- tsibble-0.4.0/tsibble/R/type-sum.R | 24 ++- tsibble-0.4.0/tsibble/R/utils.R | 21 +- tsibble-0.4.0/tsibble/README.md | 93 ++++++----- tsibble-0.4.0/tsibble/inst/doc/intro-tsibble.html | 54 +++--- tsibble-0.4.0/tsibble/man/as-tsibble.Rd | 3 tsibble-0.4.0/tsibble/man/build_tsibble.Rd | 2 tsibble-0.4.0/tsibble/man/difference.Rd | 6 tsibble-0.4.0/tsibble/man/holiday_aus.Rd |only tsibble-0.4.0/tsibble/man/key.Rd | 2 tsibble-0.4.0/tsibble/man/key_sum.Rd |only tsibble-0.4.0/tsibble/man/key_update.Rd | 2 tsibble-0.4.0/tsibble/man/mutate.Rd | 6 tsibble-0.4.0/tsibble/man/period.Rd | 8 + tsibble-0.4.0/tsibble/man/slide.Rd | 108 ++++++------- tsibble-0.4.0/tsibble/man/slide2.Rd |only tsibble-0.4.0/tsibble/man/slider.Rd |only tsibble-0.4.0/tsibble/man/stretch.Rd | 83 ++++++---- tsibble-0.4.0/tsibble/man/stretch2.Rd |only tsibble-0.4.0/tsibble/man/stretcher.Rd |only tsibble-0.4.0/tsibble/man/tile.Rd | 83 ++++++---- tsibble-0.4.0/tsibble/man/tile2.Rd |only tsibble-0.4.0/tsibble/man/tiler.Rd |only tsibble-0.4.0/tsibble/man/units_since.Rd |only tsibble-0.4.0/tsibble/src/RcppExports.cpp | 10 - tsibble-0.4.0/tsibble/src/utils.cpp |only tsibble-0.4.0/tsibble/tests/testthat/test-dplyr.R | 9 - tsibble-0.4.0/tsibble/tests/testthat/test-fill-na.R | 17 ++ tsibble-0.4.0/tsibble/tests/testthat/test-holiday.R |only tsibble-0.4.0/tsibble/tests/testthat/test-index-fun.R | 28 +++ tsibble-0.4.0/tsibble/tests/testthat/test-misc.R | 8 - tsibble-0.4.0/tsibble/tests/testthat/test-slide.R |only tsibble-0.4.0/tsibble/tests/testthat/test-stretch.R |only tsibble-0.4.0/tsibble/tests/testthat/test-subset.R | 6 tsibble-0.4.0/tsibble/tests/testthat/test-tidyr.R | 16 -- tsibble-0.4.0/tsibble/tests/testthat/test-tile.R |only tsibble-0.4.0/tsibble/tests/testthat/test-timewise.R | 4 tsibble-0.4.0/tsibble/tests/testthat/test-tsibble.R | 24 ++- tsibble-0.4.0/tsibble/tests/testthat/test-tsibble2ts.R | 14 + 65 files changed, 861 insertions(+), 484 deletions(-)
Title: Interactive Cluster Heat Maps Using 'plotly'
Description: Create interactive cluster 'heatmaps' that can be saved as a stand-
alone HTML file, embedded in 'R Markdown' documents or in a 'Shiny' app, and
available in the 'RStudio' viewer pane. Hover the mouse pointer over a cell to
show details or drag a rectangle to zoom. A 'heatmap' is a popular graphical
method for visualizing high-dimensional data, in which a table of numbers
are encoded as a grid of colored cells. The rows and columns of the matrix
are ordered to highlight patterns and are often accompanied by 'dendrograms'.
'Heatmaps' are used in many fields for visualizing observations, correlations,
missing values patterns, and more. Interactive 'heatmaps' allow the inspection
of specific value by hovering the mouse over a cell, as well as zooming into
a region of the 'heatmap' by dragging a rectangle around the relevant area.
This work is based on the 'ggplot2' and 'plotly.js' engine. It produces
similar 'heatmaps' as 'heatmap.2' or 'd3heatmap', with the advantage of speed
('plotly.js' is able to handle larger size matrix), the ability to zoom from
the 'dendrogram' panes, and the placing of factor variables in the sides of the
'heatmap'.
Author: Tal Galili [aut, cre, cph] (https://www.r-statistics.com),
Jonathan Sidi [ctb] (https://github.com/yonicd),
Alan O'Callaghan [ctb] (https://github.com/Alanocallaghan),
Yoav Benjamini [ths]
Maintainer: Tal Galili <tal.galili@gmail.com>
Diff between heatmaply versions 0.15.0 dated 2018-06-23 and 0.15.2 dated 2018-07-06
ChangeLog | 76 ++++++++++++++++++++++++++++++++---------------- DESCRIPTION | 8 ++--- MD5 | 12 +++---- NEWS | 8 +++++ NEWS.md | 8 +++++ R/heatmaply.R | 29 +++++++++++------- inst/doc/heatmaply.html | 70 ++++++++++++++++++++++---------------------- 7 files changed, 131 insertions(+), 80 deletions(-)
Title: Identify and Correct Invalid HGNC Human Gene Symbols and MGI
Mouse Gene Symbols
Description: Contains functions for
identifying and correcting HGNC human gene symbols and MGI mouse gene symbols
which have been converted to date format by Excel, withdrawn, or aliased.
Also contains functions for reversibly converting between HGNC
symbols and valid R names.
Author: Levi Waldron and Markus Riester
Maintainer: Levi Waldron <lwaldron.research@gmail.com>
Diff between HGNChelper versions 0.3.6 dated 2017-08-29 and 0.5.2 dated 2018-07-06
HGNChelper-0.3.6/HGNChelper/CHANGELOG |only HGNChelper-0.3.6/HGNChelper/inst/extdata/genenames_org.rda |only HGNChelper-0.3.6/HGNChelper/inst/hgncLookup.R |only HGNChelper-0.3.6/HGNChelper/inst/hgncLookup.Rout |only HGNChelper-0.3.6/HGNChelper/tests/checkGeneSymbols.R |only HGNChelper-0.3.6/HGNChelper/tests/rToSymbol.R |only HGNChelper-0.3.6/HGNChelper/tests/symbolToR.R |only HGNChelper-0.5.2/HGNChelper/DESCRIPTION | 28 + HGNChelper-0.5.2/HGNChelper/MD5 | 53 +-- HGNChelper-0.5.2/HGNChelper/NAMESPACE | 19 + HGNChelper-0.5.2/HGNChelper/NEWS |only HGNChelper-0.5.2/HGNChelper/R/affyToR.R | 20 - HGNChelper-0.5.2/HGNChelper/R/checkGeneSymbols.R | 150 ++++++---- HGNChelper-0.5.2/HGNChelper/R/data.R |only HGNChelper-0.5.2/HGNChelper/R/findExcelGeneSymbols.R | 82 +++-- HGNChelper-0.5.2/HGNChelper/R/getCurrentMaps.R |only HGNChelper-0.5.2/HGNChelper/R/rToAffy.R | 14 HGNChelper-0.5.2/HGNChelper/R/rToSymbol.R | 15 - HGNChelper-0.5.2/HGNChelper/R/symbolToR.R | 25 - HGNChelper-0.5.2/HGNChelper/README.md |only HGNChelper-0.5.2/HGNChelper/build/HGNChelper.pdf |binary HGNChelper-0.5.2/HGNChelper/data/datalist |only HGNChelper-0.5.2/HGNChelper/data/hgnc.table.rda |binary HGNChelper-0.5.2/HGNChelper/data/mouse.table.rda |only HGNChelper-0.5.2/HGNChelper/inst/extdata/HGNChelper_mog_map_MGI_AMC_2016_03_30.csv |only HGNChelper-0.5.2/HGNChelper/man/affyToR.Rd | 38 +- HGNChelper-0.5.2/HGNChelper/man/checkGeneSymbols.Rd | 107 +++---- HGNChelper-0.5.2/HGNChelper/man/findExcelGeneSymbols.Rd | 68 ++-- HGNChelper-0.5.2/HGNChelper/man/getCurrentMaps.Rd |only HGNChelper-0.5.2/HGNChelper/man/hgnc.table.Rd | 32 +- HGNChelper-0.5.2/HGNChelper/man/mouse.table.Rd |only HGNChelper-0.5.2/HGNChelper/man/rToAffy.Rd | 34 +- HGNChelper-0.5.2/HGNChelper/man/rToSymbol.Rd | 42 +- HGNChelper-0.5.2/HGNChelper/man/symbolToR.Rd | 51 +-- HGNChelper-0.5.2/HGNChelper/tests/testthat |only HGNChelper-0.5.2/HGNChelper/tests/testthat.R |only 36 files changed, 444 insertions(+), 334 deletions(-)
Title: Coding Sound Files for Use with NDL
Description: Make acoustic cues to use with the R packages 'ndl' or 'ndl2'. The package implements functions used
in the PLoS ONE paper:
Denis Arnold, Fabian Tomaschek, Konstantin Sering, Florence Lopez, and R. Harald Baayen (2017).
Words from spontaneous conversational speech can be recognized with human-like accuracy by
an error-driven learning algorithm that discriminates between meanings straight from smart
acoustic features, bypassing the phoneme as recognition unit. PLoS ONE 12(4):e0174623
<doi:10.1371/journal.pone.0174623>
More details can be found in the paper and the supplement.
'ndl' is available on CRAN. 'ndl2' is available by request from <konstantin.sering@uni-tuebingen.de>.
Author: Denis Arnold [aut, dtc, cre],
Elnaz Shafaei Bajestan [ctb]
Maintainer: Denis Arnold <arnold@ids-mannheim.de>
Diff between AcousticNDLCodeR versions 1.0.1 dated 2017-04-11 and 1.0.2 dated 2018-07-06
DESCRIPTION | 16 ++++--- MD5 | 9 ++-- R/CorpusCoder.R | 2 R/readAnnotation.R | 97 +++++++++++++++++++++++++++--------------------- README.md |only man/readTextGridFast.Rd | 4 + 6 files changed, 75 insertions(+), 53 deletions(-)
More information about AcousticNDLCodeR at CRAN
Permanent link
Title: Animal Social Network Inference and Permutations for Ecologists
Description: Implements several tools that are used in animal social network analysis. In particular, this package provides the tools to infer groups and generate networks from observation data, perform permutation tests on the data, calculate lagged association rates, and performed multiple regression analysis on social network data.
Author: Damien R. Farine <dfarine@orn.mpg.de>
Maintainer: Damien R. Farine <dfarine@orn.mpg.de>
Diff between asnipe versions 1.1.9 dated 2018-04-04 and 1.1.10 dated 2018-07-06
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/undefined.R | 4 ++-- man/asnipe-package.Rd | 4 ++-- 4 files changed, 11 insertions(+), 11 deletions(-)
Title: Cognitive Diagnosis Modeling
Description: Functions for cognitive diagnosis modeling and multidimensional item response modeling
for dichotomous and polytomous item responses. This package enables the estimation of
the DINA and DINO model (Junker & Sijtsma, 2001, <doi:10.1177/01466210122032064>),
the multiple group (polytomous) GDINA model (de la Torre, 2011,
<doi:10.1007/s11336-011-9207-7>), the multiple choice DINA model (de la Torre, 2009,
<doi:10.1177/0146621608320523>), the general diagnostic model (GDM; von Davier, 2008,
<doi:10.1348/000711007X193957>), the structured latent class model (SLCA; Formann, 1992,
<doi:10.1080/01621459.1992.10475229>) and regularized latent class analysis
(Chen, Li, Liu, & Ying, 2017, <doi:10.1007/s11336-016-9545-6>).
See George, Robitzsch, Kiefer, Gross, and Uenlue (2017) <doi:10.18637/jss.v074.i02>
for further details on estimation and the package structure.
For tutorials on how to use the CDM package see
George and Robitzsch (2015, <doi:10.20982/tqmp.11.3.p189>) as well as
Ravand and Robitzsch (2015).
Author: Alexander Robitzsch [aut, cre], Thomas Kiefer [aut],
Ann Cathrice George [aut], Ali Uenlue [aut]
Maintainer: Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>
Diff between CDM versions 6.3-45 dated 2018-05-28 and 6.4-23 dated 2018-07-06
CDM-6.3-45/CDM/R/mcdina.est.item.R |only CDM-6.3-45/CDM/R/mcdina.postproc.R |only CDM-6.3-45/CDM/R/mcdina_prepare.R |only CDM-6.4-23/CDM/DESCRIPTION | 11 CDM-6.4-23/CDM/MD5 | 163 +++++----- CDM-6.4-23/CDM/NAMESPACE | 2 CDM-6.4-23/CDM/R/IRT.RMSD.R | 2 CDM-6.4-23/CDM/R/IRT_RMSD_calc_rmsd.R | 5 CDM-6.4-23/CDM/R/RcppExports.R | 2 CDM-6.4-23/CDM/R/cdm_matrixstring.R |only CDM-6.4-23/CDM/R/cdm_print_summary_call.R | 14 CDM-6.4-23/CDM/R/cdm_print_summary_computation_time.R | 12 CDM-6.4-23/CDM/R/cdm_print_summary_information_criteria.R | 33 -- CDM-6.4-23/CDM/R/cdm_print_summary_information_criteria_one_criterium.R |only CDM-6.4-23/CDM/R/gdina.R | 22 - CDM-6.4-23/CDM/R/gdina_calc_ic.R | 7 CDM-6.4-23/CDM/R/gdina_mstep_item_ml.R | 16 CDM-6.4-23/CDM/R/gdina_mstep_item_ml_rrum.R | 67 +++- CDM-6.4-23/CDM/R/gdina_mstep_item_parameters.R | 21 - CDM-6.4-23/CDM/R/gdina_mstep_item_parameters_number_of_regularized_parameters.R |only CDM-6.4-23/CDM/R/gdina_mstep_item_uls.R | 4 CDM-6.4-23/CDM/R/gdina_proc_regularization.R | 10 CDM-6.4-23/CDM/R/gdina_proc_spec_rrum.R | 7 CDM-6.4-23/CDM/R/gdina_progress_em_algorithm.R | 18 - CDM-6.4-23/CDM/R/gdina_reduced_skillspace.R | 4 CDM-6.4-23/CDM/R/mcdina.R | 125 +++---- CDM-6.4-23/CDM/R/mcdina_calc_ic.R |only CDM-6.4-23/CDM/R/mcdina_calc_se_delta.R |only CDM-6.4-23/CDM/R/mcdina_collect_itempars.R |only CDM-6.4-23/CDM/R/mcdina_est_item.R |only CDM-6.4-23/CDM/R/mcdina_est_reduced_skillspace.R |only CDM-6.4-23/CDM/R/mcdina_init_delta.R |only CDM-6.4-23/CDM/R/mcdina_proc_item_latent_response.R |only CDM-6.4-23/CDM/R/mcdina_proc_modify_qmatrix.R |only CDM-6.4-23/CDM/R/mcdina_proc_qmatrix.R |only CDM-6.4-23/CDM/R/mcdina_proc_test_latent_response.R |only CDM-6.4-23/CDM/R/mcdina_skill_patt.R |only CDM-6.4-23/CDM/R/numerical_Hessian.R | 4 CDM-6.4-23/CDM/R/reglca.R | 5 CDM-6.4-23/CDM/R/reglca_calc_ic.R | 6 CDM-6.4-23/CDM/R/reglca_progress_em_algorithm.R | 18 - CDM-6.4-23/CDM/R/rrum.param.R | 4 CDM-6.4-23/CDM/R/summary.gdina.R | 56 +-- CDM-6.4-23/CDM/R/summary.mcdina.R | 60 +-- CDM-6.4-23/CDM/R/summary.reglca.R | 28 - CDM-6.4-23/CDM/R/summary.slca.R | 32 - CDM-6.4-23/CDM/data/data.Students.rda |binary CDM-6.4-23/CDM/data/data.cdm01.rda |binary CDM-6.4-23/CDM/data/data.cdm02.rda |binary CDM-6.4-23/CDM/data/data.cdm03.rda |binary CDM-6.4-23/CDM/data/data.cdm04.rda |binary CDM-6.4-23/CDM/data/data.cdm05.rda |binary CDM-6.4-23/CDM/data/data.cdm06.rda |binary CDM-6.4-23/CDM/data/data.cdm07.rda |binary CDM-6.4-23/CDM/data/data.cdm08.rda |binary CDM-6.4-23/CDM/data/data.dcm.rda |binary CDM-6.4-23/CDM/data/data.dtmr.rda |binary CDM-6.4-23/CDM/data/data.ecpe.rda |binary CDM-6.4-23/CDM/data/data.fraction1.rda |binary CDM-6.4-23/CDM/data/data.fraction2.rda |binary CDM-6.4-23/CDM/data/data.fraction3.rda |binary CDM-6.4-23/CDM/data/data.fraction4.rda |binary CDM-6.4-23/CDM/data/data.fraction5.rda |binary CDM-6.4-23/CDM/data/data.hr.rda |binary CDM-6.4-23/CDM/data/data.jang.rda |binary CDM-6.4-23/CDM/data/data.melab.rda |binary CDM-6.4-23/CDM/data/data.mg.rda |binary CDM-6.4-23/CDM/data/data.pgdina.rda |binary CDM-6.4-23/CDM/data/data.pisa00R.cc.rda |binary CDM-6.4-23/CDM/data/data.pisa00R.ct.rda |binary CDM-6.4-23/CDM/data/data.sda6.rda |binary CDM-6.4-23/CDM/data/data.timss03.G8.su.rda |binary CDM-6.4-23/CDM/data/data.timss07.G4.Qdomains.rda |binary CDM-6.4-23/CDM/data/data.timss07.G4.lee.rda |binary CDM-6.4-23/CDM/data/data.timss07.G4.py.rda |binary CDM-6.4-23/CDM/data/data.timss11.G4.AUT.part.rda |binary CDM-6.4-23/CDM/data/data.timss11.G4.AUT.rda |binary CDM-6.4-23/CDM/data/data.timss11.G4.sa.rda |binary CDM-6.4-23/CDM/data/fraction.subtraction.data.rda |binary CDM-6.4-23/CDM/data/fraction.subtraction.qmatrix.rda |binary CDM-6.4-23/CDM/data/sim.dina.rda |binary CDM-6.4-23/CDM/data/sim.dino.rda |binary CDM-6.4-23/CDM/data/sim.qmatrix.rda |binary CDM-6.4-23/CDM/inst/NEWS | 24 + CDM-6.4-23/CDM/man/CDM-utilities.Rd | 18 - CDM-6.4-23/CDM/man/IRT.RMSD.Rd | 10 CDM-6.4-23/CDM/man/data.ecpe.Rd | 4 CDM-6.4-23/CDM/man/gdina.Rd | 24 + CDM-6.4-23/CDM/man/mcdina.Rd | 8 CDM-6.4-23/CDM/src/RcppExports.cpp | 2 CDM-6.4-23/CDM/src/init.c | 2 91 files changed, 481 insertions(+), 369 deletions(-)
Title: Generate PMML for Various Models
Description: The Predictive Model Markup Language (PMML) is an XML-based
language which provides a way for applications to define statistical and
data mining models and to share models between PMML compliant applications.
More information about PMML and the Data Mining Group can be found at <http://
www.dmg.org>. The generated PMML can be imported into any PMML consuming
application, such as the Software AG Zementis scoring engine, which allows for
predictive models built in R to be deployed and executed on site, in the cloud
(Amazon, IBM, and FICO), in-database (IBM Netezza, Pivotal, Sybase IQ, Teradata
and Teradata Aster) or Hadoop (Datameer and Hive).
Author: Graham Williams, Tridivesh Jena, Wen Ching Lin, Michael Hahsler
(arules), Software AG, Hemant Ishwaran, Udaya B. Kogalur, Rajarshi Guha,
Dmitriy Bolotov
Maintainer: Dmitriy Bolotov <dmitriy.bolotov@softwareag.com>
Diff between pmml versions 1.5.4 dated 2018-01-08 and 1.5.5 dated 2018-07-06
DESCRIPTION | 19 ++++---- MD5 | 103 +++++++++++++++++++++++++----------------------- R/AddAttributes.R | 2 R/addDDAttributes.R | 2 R/addDFChildren.R | 2 R/addLT.R | 2 R/addMSAttributes.R | 2 R/addOutputField.R | 2 R/fileToXMLNode.R | 2 R/functionToPMML.R | 2 R/makeIntervals.R | 2 R/makeOutputNodes.R | 2 R/makeValues.R | 2 R/pmml.R | 29 +++++++++---- R/pmml.ada.R | 30 +++++++++++-- R/pmml.coxph.R | 16 +++---- R/pmml.cv.glmnet.R | 87 ++++++++++++++++++++++++++++------------ R/pmml.datadictionary.R | 68 +++++++++++++++---------------- R/pmml.gbm.R | 15 +++--- R/pmml.glm.R | 45 ++++++++++++++------ R/pmml.hclust.R | 4 - R/pmml.itemsets.R | 2 R/pmml.kmeans.R | 15 +++++- R/pmml.ksvm.R | 6 +- R/pmml.lm.R | 18 +------- R/pmml.miningschema.R | 70 +++++++++++++++----------------- R/pmml.multinom.R | 2 R/pmml.naiveBayes.R | 2 R/pmml.neighbr.R | 2 R/pmml.nnet.R | 4 - R/pmml.randomForest.R | 4 - R/pmml.rfsrc.R | 4 - R/pmml.rpart.R | 19 +------- R/pmml.rules.R | 2 R/pmml.survreg.R | 9 ---- R/pmml.svm.R | 18 ++++++-- R/pmml.utils.R | 2 R/pmml.xgboost.R | 51 +++++++++++------------ build |only inst/ChangeLog | 8 +++ inst/doc |only man/AddAttributes.Rd | 2 man/addDDAttributes.Rd | 2 man/addDFChildren.Rd | 2 man/addLT.Rd | 2 man/addMSAttributes.Rd | 2 man/fileToXMLNode.Rd | 2 man/pmml.Rd | 8 ++- man/pmml.cv.glmnet.Rd | 4 + man/pmml.gbm.Rd | 2 man/pmml.xgb.Booster.Rd | 3 + man/savePMML.Rd | 2 vignettes |only 53 files changed, 397 insertions(+), 310 deletions(-)
Title: Correlated Trait Locus (CTL) Mapping in R
Description: Analysis of genetical genomic data to identify genetic loci associated with correlation changes in quantitative traits (CTL).
Author: Danny Arends <Danny.Arends@gmail.com>
Maintainer: Danny Arends <Danny.Arends@gmail.com>
Diff between ctl versions 1.0.0-0 dated 2016-09-20 and 1.0.0-1 dated 2018-07-06
DESCRIPTION | 8 - MD5 | 72 ++++++++------- NAMESPACE | 2 R/ctl.correlation.R | 24 +++-- R/ctl.lineplot.R | 2 R/ctl.network.R | 8 + R/ctl.plot.R | 79 ++++++++++------- R/ctl.print.R | 8 - R/ctl.profiles.R | 9 + R/ctl.scan.R | 166 ++++++++++++++++++++---------------- R/ctl.statistics.R | 38 ++++---- R/qtl.scan.R |only build/vignette.rds |binary data/yeast.brem.RData |binary inst/CITATION | 18 ++- inst/doc/manual.R | 72 ++++++--------- inst/doc/manual.Rnw | 168 ++++++++++++++++++++----------------- inst/doc/manual.pdf |binary man/ctl-internal.Rd | 3 man/ctl.mapping.Rd | 8 + man/ctl.plot.ctlscan.Rd | 6 - man/ctl.profiles.Rd | 3 man/ctl.scan.Rd | 13 +- man/ctl.scan.cross.Rd | 12 +- man/qtl.mapping.Rd |only src/Makevars |only src/R_init.c |only src/R_init.h |only src/correlation.c | 76 +++++++++++----- src/correlation.h | 4 src/ctl.h | 8 - src/mapctl.c | 58 ++++++++++-- src/mapctl.h | 9 + src/permutation.c | 19 ++-- src/permutation.h | 6 - src/rmapctl.c | 13 +- src/rmapctl.h | 9 + tests/GeneExpression_Yeast_RBrem.R | 9 + tests/test_openmp.R |only vignettes/manual.Rnw | 168 ++++++++++++++++++++----------------- 40 files changed, 631 insertions(+), 467 deletions(-)
Title: Make Fake Data
Description: Make fake data, supporting addresses, person names, dates,
times, colors, coordinates, currencies, digital object identifiers
('DOIs'), jobs, phone numbers, 'DNA' sequences, doubles and integers
from distributions and within a range.
Author: Scott Chamberlain [aut, cre] (<https://orcid.org/0000-0003-1444-9135>),
Kyle Voytovich [aut],
Brooke Anderson [rev] (Brooke Anderson reviewed the package for
rOpenSci, see https://github.com/ropensci/onboarding/issues/94),
Tristan Mahr [rev] (Tristan Mahr reviewed the package for rOpenSci, see
https://github.com/ropensci/onboarding/issues/94)
Maintainer: Scott Chamberlain <myrmecocystus+r@gmail.com>
Diff between charlatan versions 0.2.0 dated 2018-07-04 and 0.2.2 dated 2018-07-06
DESCRIPTION | 6 - MD5 | 12 +- NEWS.md | 8 + R/internet-provider.R | 9 + README.md | 132 +++++++++++++-------------- inst/doc/charlatan_vignette.html | 188 +++++++++++++++++++-------------------- man/InternetProvider.Rd | 9 + 7 files changed, 193 insertions(+), 171 deletions(-)
Title: Aster Models
Description: Aster models are exponential family regression models for life
history analysis. They are like generalized linear models except that
elements of the response vector can have different families (e. g.,
some Bernoulli, some Poisson, some zero-truncated Poisson, some normal)
and can be dependent, the dependence indicated by a graphical structure.
Discrete time survival analysis, zero-inflated Poisson regression, and
generalized linear models that are exponential family (e. g., logistic
regression and Poisson regression with log link) are special cases.
Main use is for data in which there is survival over discrete time periods
and there is additional data about what happens conditional on survival
(e. g., number of offspring). Uses the exponential family canonical
parameterization (aster transform of usual parameterization).
There are also random effects versions of these models.
Author: Charles J. Geyer <charlie@stat.umn.edu>
Maintainer: Charles J. Geyer <charlie@stat.umn.edu>
Diff between aster versions 0.9.1.1 dated 2018-02-15 and 1.0-2 dated 2018-07-06
CHANGES | 26 +++++ DESCRIPTION | 19 +-- MD5 | 52 +++++----- R/predict.aster.R | 28 +++++ build/vignette.rds |binary inst/doc/design.pdf |binary inst/doc/design.tex | 2 inst/doc/linkingTo.Rnw | 4 inst/doc/linkingTo.pdf |binary inst/doc/re.Rnw | 2 inst/doc/re.pdf |binary inst/doc/trunc.pdf |binary inst/doc/tutor.pdf |binary man/anova.asterOrReaster.Rd | 6 + man/aster.Rd | 5 - man/chamae.Rd | 8 - man/chamae2.Rd | 8 - man/chamae3.Rd | 8 - man/echin2.Rd | 2 man/echinacea.Rd | 2 man/predict.aster.Rd | 96 ++++++++++++++++---- src/astfam.c | 211 +++++++++++++++++++++++--------------------- src/init.c | 2 src/mlogl.c | 16 +-- tests/bogus.R |only tests/bogus.Rout.save |only vignettes/linkingTo.Rnw | 4 vignettes/re.Rnw | 2 28 files changed, 317 insertions(+), 186 deletions(-)
Title: Micro-Electro Array (MEA) Analysis
Description: Core algorithms for MEA spike train analysis, feature extraction, statistical analysis and plotting of multiple MEA recordings with multiple genotypes and treatments, published by Gelfman et al (2017) at <https://github.com/igm-team/meaRtools/>.
Author: Quanli Wang [aut, ctb],
Sahar Gelfman [aut, ctb, cre],
Diana Hall [aut, ctb],
Ryan Dhindsa [aut, ctb],
Matt Halvorsen [aut, ctb],
Ellese Cotterill [aut, ctb],
Tom Edinburgh [aut, ctb],
Stephen J. Eglen [aut, ctb, ths]
Maintainer: Sahar Gelfman <sahar.gelfman@columbia.edu>
Diff between meaRtools versions 1.0.3 dated 2018-04-20 and 1.0.4 dated 2018-07-06
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Title: Quantify the Relationship Between Development Rate and
Temperature in Ectotherms
Description: A set of functions to quantify the relationship between development
rate and temperature and to build phenological models. The package comprises
a set of models and estimated parameters borrowed from a literature review
in ectotherms. The methods and literature review are described in Rebaudo
et al. (2018) <doi:10.1111/2041-210X.12935> and Rebaudo and Rabhi (2018)
<doi:10.1111/eea.12693>. An example can be found in Rebaudo et al. (2017)
<doi:10.1007/s13355-017-0480-5>.
Author: Francois Rebaudo [aut, cre] (2016-2018),
Camila Benavides [ctb] (M2 student; 2018),
Tanusson Selvarajah [ctb] (L2 student; 2018),
Nicolas Bonnal [ctb] (M1 student; 2018),
Badre Rabhi [ctb] (L2 student; 2017),
Quentin Struelens [ctb] (VIA; 2016)
Maintainer: Francois Rebaudo <francois.rebaudo@ird.fr>
Diff between devRate versions 0.1.7 dated 2018-04-30 and 0.1.8 dated 2018-07-06
DESCRIPTION | 15 + MD5 | 94 +++++------ NEWS.md | 4 build/vignette.rds |binary data/analytis_77.RData |binary data/bayoh_03.RData |binary data/beta_16.RData |binary data/beta_95.RData |binary data/bieri1_83.RData |binary data/briere1_99.RData |binary data/briere2_99.RData |binary data/campbell_74.RData |binary data/damos_08.RData |binary data/damos_11.RData |binary data/davidson_44.RData |binary data/devRateEqList.RData |binary data/harcourtYee_82.RData |binary data/hilbertLogan_83.RData |binary data/janisch_32.RData |binary data/kontodimas_04.RData |binary data/lactin1_95.RData |binary data/lactin2_95.RData |binary data/lamb_92.RData |binary data/logan10_76.RData |binary data/logan6_76.RData |binary data/perf2_11.RData |binary data/poly2.RData |binary data/poly4.RData |binary data/ratkowsky_82.RData |binary data/ratkowsky_83.RData |binary data/regniere_12.RData |binary data/rootsq_82.RData |binary data/schoolfieldHigh_81.RData |binary data/schoolfieldLow_81.RData |binary data/schoolfield_81.RData |binary data/sharpeDeMichele_77.RData |binary data/shi_11.RData |binary data/stinner_74.RData |binary data/taylor_81.RData |binary data/wagner_88.RData |binary data/wang_82.RData |binary data/wangengel_98.RData |binary inst/doc/guiaDelUsuario.R | 8 inst/doc/guiaDelUsuario.Rmd | 349 +++++++++++++++++++++--------------------- inst/doc/guiaDelUsuario.html | 277 +++++++++++++++++---------------- inst/doc/modelEvaluation.html | 10 - inst/doc/quickUserGuide.html | 146 ++++++++--------- vignettes/guiaDelUsuario.Rmd | 349 +++++++++++++++++++++--------------------- 48 files changed, 643 insertions(+), 609 deletions(-)
Title: Cytobank API Wrapper for R
Description: Tools to interface with Cytobank's API via R, organized by various
endpoints that represent various areas of Cytobank functionality. Learn more
about Cytobank at <https://www.cytobank.org>.
Author: Preston Ng [aut, cre],
Chris Ciccolella [aut],
Katherine Drake [aut]
Maintainer: Preston Ng <preston@cytobank.org>
Diff between CytobankAPI versions 1.1.2 dated 2018-05-06 and 1.2.0 dated 2018-07-06
DESCRIPTION | 6 ++-- MD5 | 14 +++++----- R/experiments.R | 43 ++++++++++++++++++++++++++++--- build/vignette.rds |binary inst/NEWS | 10 +++++++ inst/doc/cytobank-advanced-analyses.html | 4 ++ inst/doc/cytobank-quickstart.html | 3 ++ man/experiments.Rd | 17 +++++++++++- 8 files changed, 82 insertions(+), 15 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-03-12 1.15.4
2018-03-06 1.15.3
Title: Tools for R Markdown to Docx Documents
Description: A set of helper functions for using R Markdown to create documents
in docx format, especially documents for use in a classroom or workshop
setting.
Author: Richard Layton [aut, cre]
Maintainer: Richard Layton <graphdoctor@gmail.com>
Diff between docxtools versions 0.1.3 dated 2018-06-20 and 0.2.0 dated 2018-07-06
docxtools-0.1.3/docxtools/inst/doc/introduction-to-docxtools.R |only docxtools-0.1.3/docxtools/inst/doc/introduction-to-docxtools.Rmd |only docxtools-0.1.3/docxtools/inst/doc/introduction-to-docxtools.html |only docxtools-0.1.3/docxtools/man/align_pander.Rd |only docxtools-0.1.3/docxtools/tests/testthat/test_align_pander.R |only docxtools-0.1.3/docxtools/vignettes/introduction-to-docxtools.Rmd |only docxtools-0.2.0/docxtools/DESCRIPTION | 11 - docxtools-0.2.0/docxtools/MD5 | 36 +-- docxtools-0.2.0/docxtools/NAMESPACE | 7 docxtools-0.2.0/docxtools/NEWS.md | 26 ++ docxtools-0.2.0/docxtools/R/align_pander.R | 78 +------ docxtools-0.2.0/docxtools/R/docxtools-deprecated.R |only docxtools-0.2.0/docxtools/R/docxtools.R | 1 docxtools-0.2.0/docxtools/R/format_engr.R | 3 docxtools-0.2.0/docxtools/README.md | 14 - docxtools-0.2.0/docxtools/build/vignette.rds |binary docxtools-0.2.0/docxtools/inst/doc/numbers-in-engineering-format.html | 109 ---------- docxtools-0.2.0/docxtools/inst/doc/put-workspace-in-docx.html | 2 docxtools-0.2.0/docxtools/man/align_pander-deprecated.Rd |only docxtools-0.2.0/docxtools/man/docxtools-deprecated.Rd |only docxtools-0.2.0/docxtools/man/docxtools.Rd | 1 docxtools-0.2.0/docxtools/man/figures/put-workspace-axes12-1.png |binary docxtools-0.2.0/docxtools/tests/testthat/Rplots.pdf |only docxtools-0.2.0/docxtools/tests/testthat/test_put.R | 22 -- 24 files changed, 84 insertions(+), 226 deletions(-)
Title: Miscellaneous Functions by 'Yihui Xie'
Description: Miscellaneous functions commonly used in other packages maintained by 'Yihui Xie'.
Author: Yihui Xie [aut, cre, cph] (<https://orcid.org/0000-0003-0645-5666>),
Daijiang Li [ctb]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between xfun versions 0.2 dated 2018-06-16 and 0.3 dated 2018-07-06
DESCRIPTION | 10 +++++---- MD5 | 26 ++++++++++++++---------- NAMESPACE | 4 +++ NEWS.md | 10 +++++++++ R/encoding.R | 13 ++++++++++++ R/packages.R | 16 +++++++++++++++ R/revcheck.R | 7 ------ R/string.R |only R/utils.R | 50 ++++++++++++++++++++++++++++++++++++++++++++++++ inst/doc/xfun.R | 8 +++++++ inst/doc/xfun.Rmd | 13 ++++++++++++ inst/doc/xfun.html | 35 ++++++++++++++++++++++++++------- man/download_file.Rd |only man/is_ascii.Rd |only man/numbers_to_words.Rd |only vignettes/xfun.Rmd | 13 ++++++++++++ 16 files changed, 177 insertions(+), 28 deletions(-)
Title: Fit Text Inside a Box in 'ggplot2'
Description: Provides 'ggplot2' geoms to fit text into a box by growing, shrinking
or wrapping the text.
Author: David Wilkins [aut, cre]
Maintainer: David Wilkins <david@wilkox.org>
Diff between ggfittext versions 0.5.0 dated 2017-11-17 and 0.6.0 dated 2018-07-06
DESCRIPTION | 6 MD5 | 36 +-- NEWS.md | 17 + R/geom_fit_text.R | 193 ++++++++++++++---- README.md | 14 - build/vignette.rds |binary inst/doc/introduction-to-ggfittext.R | 4 inst/doc/introduction-to-ggfittext.Rmd | 21 +- inst/doc/introduction-to-ggfittext.html | 320 ++++++++++++++++--------------- man/figures/README-doesnt_fit-1.png |binary man/figures/README-geom_fit_text_2-1.png |binary man/figures/README-geom_fit_text_3-1.png |binary man/figures/README-heatmap-1.png |binary man/figures/README-hero-1.png |binary man/figures/README-reflow-1.png |binary man/figures/README-reflow_and_grow-1.png |binary man/geom_fit_text.Rd | 18 + tests/testthat/test-ggtextfit.R | 170 ++++++++++++++-- vignettes/introduction-to-ggfittext.Rmd | 21 +- 19 files changed, 542 insertions(+), 278 deletions(-)