Title: Robust Inference for Absolute Abundance in Microbiome Analysis
Description: This package offers a robust approach to make inference on the association of covariates with the absolute abundance (AA) of microbiome in an ecosystem. It can be also directly applied to relative abundance (RA) data to make inference on AA because the ratio of two RA is equal ratio of their AA. This algorithm can estimate and test the associations of interest while adjusting for potential confounders. High-dimensional covariates are handled with regularization. The estimates of this method have easy interpretation like a typical regression analysis. High-dimensional covariates are handled with regularization and it is implemented by parallel computing. False discovery rate is automatically controlled by this approach. Zeros do not need to be imputed by a positive value for the analysis. The IFAA package also offers the 'MZILN' function for estimating and testing associations of abundance ratios with covariates.
Author: Quran Wu [aut],
Zhigang Li [aut, cre]
Maintainer: Zhigang Li <zhigang.li@ufl.edu>
Diff between IFAA versions 1.0.8 dated 2022-08-26 and 1.0.9 dated 2022-09-15
IFAA-1.0.8/IFAA/inst/doc/IFAA.html |only IFAA-1.0.9/IFAA/DESCRIPTION | 10 IFAA-1.0.9/IFAA/MD5 | 32 +- IFAA-1.0.9/IFAA/NAMESPACE | 1 IFAA-1.0.9/IFAA/R/AIcalculation.R | 247 +++++++++--------- IFAA-1.0.9/IFAA/R/IFAAfunc.R | 3 IFAA-1.0.9/IFAA/R/allUserDefinedFuncs.R | 19 - IFAA-1.0.9/IFAA/R/bootResuHDCI.R | 17 - IFAA-1.0.9/IFAA/R/dataRecovTrans.R | 417 +++++++++++++++----------------- IFAA-1.0.9/IFAA/R/lm_sparse.R |only IFAA-1.0.9/IFAA/R/originDataScreen.R | 2 IFAA-1.0.9/IFAA/README.md | 46 +-- IFAA-1.0.9/IFAA/build/IFAA.pdf |binary IFAA-1.0.9/IFAA/build/vignette.rds |binary IFAA-1.0.9/IFAA/inst/doc/IFAA.R | 2 IFAA-1.0.9/IFAA/inst/doc/IFAA.Rmd | 25 - IFAA-1.0.9/IFAA/inst/doc/IFAA.pdf |only IFAA-1.0.9/IFAA/vignettes/IFAA.Rmd | 25 - IFAA-1.0.9/IFAA/vignettes/IFAA.html |only 19 files changed, 418 insertions(+), 428 deletions(-)
Title: Animated Interactive Grammar of Graphics
Description: Functions are provided for defining animated,
interactive data visualizations in R code, and rendering
on a web page. The 2018 Journal of Computational and
Graphical Statistics paper,
<doi:10.1080/10618600.2018.1513367>
describes the concepts implemented.
Author: Toby Hocking [aut, cre] ,
Hadley Wickham [aut] ,
Winston Chang [aut] ,
RStudio [cph] ,
Nicholas Lewin-Koh [aut] ,
Martin Maechler [aut] ,
Randall Prium [aut] ,
Susan VanderPlas [aut] ,
Carson Sievert [aut] ,
Kevin Ferris [aut] ,
Jun Cai [aut] ,
Faiza [...truncated...]
Maintainer: Toby Hocking <toby.hocking@r-project.org>
Diff between animint2 versions 2022.1.25 dated 2022-01-26 and 2022.9.14 dated 2022-09-15
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animint2-2022.9.14/animint2/man/getLegend.Rd | 34 animint2-2022.9.14/animint2/man/getLegendList.Rd | 34 animint2-2022.9.14/animint2/man/getTextSize.Rd |only animint2-2022.9.14/animint2/man/getUniqueAxisLabels.Rd | 34 animint2-2022.9.14/animint2/man/gg-add.Rd | 160 animint2-2022.9.14/animint2/man/gg_dep.Rd | 72 animint2-2022.9.14/animint2/man/gganimintproto.Rd | 98 animint2-2022.9.14/animint2/man/ggplot.Rd | 176 animint2-2022.9.14/animint2/man/ggplotGrob.Rd | 30 animint2-2022.9.14/animint2/man/ggplot_build.Rd | 74 animint2-2022.9.14/animint2/man/ggplot_gtable.Rd | 58 animint2-2022.9.14/animint2/man/ggsave.Rd | 148 animint2-2022.9.14/animint2/man/ggtheme.Rd | 184 animint2-2022.9.14/animint2/man/guide_colourbar.Rd | 410 animint2-2022.9.14/animint2/man/guide_legend.Rd | 388 animint2-2022.9.14/animint2/man/guides.Rd | 148 animint2-2022.9.14/animint2/man/hmisc.Rd | 64 animint2-2022.9.14/animint2/man/intreg.Rd | 44 animint2-2022.9.14/animint2/man/is.Coord.Rd | 24 animint2-2022.9.14/animint2/man/is.facet.Rd | 30 animint2-2022.9.14/animint2/man/is.gganimintproto.Rd | 28 animint2-2022.9.14/animint2/man/is.ggplot.Rd | 30 animint2-2022.9.14/animint2/man/is.rel.Rd | 28 animint2-2022.9.14/animint2/man/is.rgb.Rd | 34 animint2-2022.9.14/animint2/man/is.theme.Rd | 28 animint2-2022.9.14/animint2/man/issueSelectorWarnings.Rd | 42 animint2-2022.9.14/animint2/man/knit_print.animint.Rd | 48 animint2-2022.9.14/animint2/man/label_bquote.Rd | 64 animint2-2022.9.14/animint2/man/labeller.Rd | 244 animint2-2022.9.14/animint2/man/labellers.Rd | 238 animint2-2022.9.14/animint2/man/labs.Rd | 118 animint2-2022.9.14/animint2/man/last_plot.Rd | 28 animint2-2022.9.14/animint2/man/layer.Rd | 162 animint2-2022.9.14/animint2/man/limits.Rd | 48 animint2-2022.9.14/animint2/man/lims.Rd | 96 animint2-2022.9.14/animint2/man/luv_colours.Rd | 40 animint2-2022.9.14/animint2/man/make_bar.Rd | 52 animint2-2022.9.14/animint2/man/make_tallrect.Rd | 64 animint2-2022.9.14/animint2/man/make_tallrect_or_widerect.Rd | 100 animint2-2022.9.14/animint2/man/make_text.Rd | 56 animint2-2022.9.14/animint2/man/make_widerect.Rd | 64 animint2-2022.9.14/animint2/man/map_data.Rd | 90 animint2-2022.9.14/animint2/man/margin.Rd | 46 animint2-2022.9.14/animint2/man/mean_se.Rd | 38 animint2-2022.9.14/animint2/man/merge_recurse.Rd | 34 animint2-2022.9.14/animint2/man/midwest.Rd | 92 animint2-2022.9.14/animint2/man/mpg.Rd | 64 animint2-2022.9.14/animint2/man/msleep.Rd | 74 animint2-2022.9.14/animint2/man/newEnvironment.Rd | 30 animint2-2022.9.14/animint2/man/parsePlot.Rd | 42 animint2-2022.9.14/animint2/man/position_dodge.Rd | 108 animint2-2022.9.14/animint2/man/position_identity.Rd | 40 animint2-2022.9.14/animint2/man/position_jitter.Rd | 86 animint2-2022.9.14/animint2/man/position_jitterdodge.Rd | 66 animint2-2022.9.14/animint2/man/position_nudge.Rd | 76 animint2-2022.9.14/animint2/man/position_stack.Rd | 124 animint2-2022.9.14/animint2/man/presidential.Rd | 34 animint2-2022.9.14/animint2/man/print.animint.Rd | 46 animint2-2022.9.14/animint2/man/print.gganimintplot.Rd | 58 animint2-2022.9.14/animint2/man/print.gganimintproto.Rd | 44 animint2-2022.9.14/animint2/man/pt.to.lines.Rd | 40 animint2-2022.9.14/animint2/man/qplot.Rd | 226 animint2-2022.9.14/animint2/man/reexports.Rd | 54 animint2-2022.9.14/animint2/man/rel.Rd | 40 animint2-2022.9.14/animint2/man/remove_missing.Rd | 54 animint2-2022.9.14/animint2/man/renderAnimint.Rd | 46 animint2-2022.9.14/animint2/man/resolution.Rd | 60 animint2-2022.9.14/animint2/man/saveChunks.Rd | 44 animint2-2022.9.14/animint2/man/scale_alpha.Rd | 74 animint2-2022.9.14/animint2/man/scale_brewer.Rd | 246 animint2-2022.9.14/animint2/man/scale_continuous.Rd | 364 animint2-2022.9.14/animint2/man/scale_date.Rd | 272 animint2-2022.9.14/animint2/man/scale_discrete.Rd | 120 animint2-2022.9.14/animint2/man/scale_gradient.Rd | 324 animint2-2022.9.14/animint2/man/scale_grey.Rd | 96 animint2-2022.9.14/animint2/man/scale_hue.Rd | 190 animint2-2022.9.14/animint2/man/scale_identity.Rd | 136 animint2-2022.9.14/animint2/man/scale_linetype.Rd | 66 animint2-2022.9.14/animint2/man/scale_manual.Rd | 136 animint2-2022.9.14/animint2/man/scale_shape.Rd | 78 animint2-2022.9.14/animint2/man/scale_size.Rd | 220 animint2-2022.9.14/animint2/man/scale_size_animint.Rd | 36 animint2-2022.9.14/animint2/man/seals.Rd | 48 animint2-2022.9.14/animint2/man/selectSSandCS.Rd | 36 animint2-2022.9.14/animint2/man/setPlotSizes.Rd | 38 animint2-2022.9.14/animint2/man/should_stop.Rd | 38 animint2-2022.9.14/animint2/man/split.x.Rd | 38 animint2-2022.9.14/animint2/man/stat_ecdf.Rd | 178 animint2-2022.9.14/animint2/man/stat_ellipse.Rd | 212 animint2-2022.9.14/animint2/man/stat_function.Rd | 240 animint2-2022.9.14/animint2/man/stat_identity.Rd | 124 animint2-2022.9.14/animint2/man/stat_qq.Rd | 230 animint2-2022.9.14/animint2/man/stat_summary.Rd | 261 animint2-2022.9.14/animint2/man/stat_summary_2d.Rd | 270 animint2-2022.9.14/animint2/man/stat_unique.Rd | 142 animint2-2022.9.14/animint2/man/summary.gganimintplot.Rd | 44 animint2-2022.9.14/animint2/man/switch_axes.Rd | 38 animint2-2022.9.14/animint2/man/theme.Rd | 614 animint2-2022.9.14/animint2/man/theme_animint.Rd | 68 animint2-2022.9.14/animint2/man/theme_update.Rd | 136 animint2-2022.9.14/animint2/man/toRGB.Rd | 34 animint2-2022.9.14/animint2/man/train_position.Rd | 44 animint2-2022.9.14/animint2/man/transform_position.Rd | 36 animint2-2022.9.14/animint2/man/transform_shape.Rd | 34 animint2-2022.9.14/animint2/man/translate_qplot_ggplot.Rd | 170 animint2-2022.9.14/animint2/man/translate_qplot_lattice.Rd | 152 animint2-2022.9.14/animint2/man/txhousing.Rd | 54 animint2-2022.9.14/animint2/man/update_defaults.Rd | 52 animint2-2022.9.14/animint2/man/update_labels.Rd | 46 animint2-2022.9.14/animint2/man/varied.chunk.Rd | 38 animint2-2022.9.14/animint2/man/waiver.Rd | 30 animint2-2022.9.14/animint2/man/worldPop.Rd | 50 animint2-2022.9.14/animint2/man/zeroGrob.Rd | 24 animint2-2022.9.14/animint2/tests/namespace.R |only animint2-2022.9.14/animint2/tests/testthat/helper-functions.R | 37 animint2-2022.9.14/animint2/tests/testthat/helper-plot-data.r | 52 animint2-2022.9.14/animint2/tests/testthat/pids.txt |only animint2-2022.9.14/animint2/tests/testthat/test-compiler-aes-ggplot.r | 120 animint2-2022.9.14/animint2/tests/testthat/test-compiler-aes-grouping.r | 88 animint2-2022.9.14/animint2/tests/testthat/test-compiler-aes-setting.r | 72 animint2-2022.9.14/animint2/tests/testthat/test-compiler-aes.R | 42 animint2-2022.9.14/animint2/tests/testthat/test-compiler-animation.R | 210 animint2-2022.9.14/animint2/tests/testthat/test-compiler-annotate.r | 38 animint2-2022.9.14/animint2/tests/testthat/test-compiler-build.r | 102 animint2-2022.9.14/animint2/tests/testthat/test-compiler-coord-polar.r | 116 animint2-2022.9.14/animint2/tests/testthat/test-compiler-coord-train.r | 70 animint2-2022.9.14/animint2/tests/testthat/test-compiler-data.r | 75 animint2-2022.9.14/animint2/tests/testthat/test-compiler-dotplot.r | 130 animint2-2022.9.14/animint2/tests/testthat/test-compiler-empty-data.r | 210 animint2-2022.9.14/animint2/tests/testthat/test-compiler-errors.R | 361 animint2-2022.9.14/animint2/tests/testthat/test-compiler-facet-labels.r | 298 animint2-2022.9.14/animint2/tests/testthat/test-compiler-facet-layout.r | 292 animint2-2022.9.14/animint2/tests/testthat/test-compiler-facet-locate.r | 326 animint2-2022.9.14/animint2/tests/testthat/test-compiler-facet-strips.r | 224 animint2-2022.9.14/animint2/tests/testthat/test-compiler-facet.r | 110 animint2-2022.9.14/animint2/tests/testthat/test-compiler-fortify.r | 74 animint2-2022.9.14/animint2/tests/testthat/test-compiler-function-args.r | 78 animint2-2022.9.14/animint2/tests/testthat/test-compiler-geom-freqpoly.R | 24 animint2-2022.9.14/animint2/tests/testthat/test-compiler-geom-line-path.R | 306 animint2-2022.9.14/animint2/tests/testthat/test-compiler-geom-ribbon.R | 20 animint2-2022.9.14/animint2/tests/testthat/test-compiler-geom-rule.R | 68 animint2-2022.9.14/animint2/tests/testthat/test-compiler-geom-text.R | 66 animint2-2022.9.14/animint2/tests/testthat/test-compiler-geom-tile.R | 26 animint2-2022.9.14/animint2/tests/testthat/test-compiler-geom-violin.R | 54 animint2-2022.9.14/animint2/tests/testthat/test-compiler-ggsave.R | 118 animint2-2022.9.14/animint2/tests/testthat/test-compiler-grid-utils.R | 16 animint2-2022.9.14/animint2/tests/testthat/test-compiler-guides.R | 20 animint2-2022.9.14/animint2/tests/testthat/test-compiler-labels.r | 50 animint2-2022.9.14/animint2/tests/testthat/test-compiler-layer.r | 130 animint2-2022.9.14/animint2/tests/testthat/test-compiler-munch.r | 102 animint2-2022.9.14/animint2/tests/testthat/test-compiler-plot-named-timexxx.R | 130 animint2-2022.9.14/animint2/tests/testthat/test-compiler-plot-names.R | 42 animint2-2022.9.14/animint2/tests/testthat/test-compiler-point-fill-numeric.R | 46 animint2-2022.9.14/animint2/tests/testthat/test-compiler-print.R | 48 animint2-2022.9.14/animint2/tests/testthat/test-compiler-pt-to-lines.r | 32 animint2-2022.9.14/animint2/tests/testthat/test-compiler-qplot.r | 54 animint2-2022.9.14/animint2/tests/testthat/test-compiler-range.r | 48 animint2-2022.9.14/animint2/tests/testthat/test-compiler-sanitise-dim.r | 68 animint2-2022.9.14/animint2/tests/testthat/test-compiler-save-separate-chunks.R | 676 animint2-2022.9.14/animint2/tests/testthat/test-compiler-scale-discrete.R | 36 animint2-2022.9.14/animint2/tests/testthat/test-compiler-scale-manual.r | 114 animint2-2022.9.14/animint2/tests/testthat/test-compiler-scales-breaks-labels.r | 514 animint2-2022.9.14/animint2/tests/testthat/test-compiler-scales.r | 356 animint2-2022.9.14/animint2/tests/testthat/test-compiler-selectors.R | 50 animint2-2022.9.14/animint2/tests/testthat/test-compiler-stat-bin.R | 252 animint2-2022.9.14/animint2/tests/testthat/test-compiler-stat-bin2d.R | 62 animint2-2022.9.14/animint2/tests/testthat/test-compiler-stat-density.R | 26 animint2-2022.9.14/animint2/tests/testthat/test-compiler-stat-density2d.R | 34 animint2-2022.9.14/animint2/tests/testthat/test-compiler-stat-sum.R | 86 animint2-2022.9.14/animint2/tests/testthat/test-compiler-stat-summary.R | 24 animint2-2022.9.14/animint2/tests/testthat/test-compiler-stats-function.r | 72 animint2-2022.9.14/animint2/tests/testthat/test-compiler-stats.r | 26 animint2-2022.9.14/animint2/tests/testthat/test-compiler-tallrect.R | 40 animint2-2022.9.14/animint2/tests/testthat/test-compiler-theme.r | 380 animint2-2022.9.14/animint2/tests/testthat/test-compiler-unlink-previous.R | 70 animint2-2022.9.14/animint2/tests/testthat/test-compiler-utilities.r | 58 animint2-2022.9.14/animint2/tests/testthat/test-renderer1-PeakConsistency.R | 292 animint2-2022.9.14/animint2/tests/testthat/test-renderer1-WorldBank-NA.R | 195 animint2-2022.9.14/animint2/tests/testthat/test-renderer1-axis-angle-rotate.R | 186 animint2-2022.9.14/animint2/tests/testthat/test-renderer1-character.R | 56 animint2-2022.9.14/animint2/tests/testthat/test-renderer1-coord.R | 92 animint2-2022.9.14/animint2/tests/testthat/test-renderer1-facet-coord.R | 78 animint2-2022.9.14/animint2/tests/testthat/test-renderer1-facet-lines.R | 129 animint2-2022.9.14/animint2/tests/testthat/test-renderer1-facet-space.R | 360 animint2-2022.9.14/animint2/tests/testthat/test-renderer1-facet-trivial.R | 84 animint2-2022.9.14/animint2/tests/testthat/test-renderer1-facets-strips.R | 162 animint2-2022.9.14/animint2/tests/testthat/test-renderer1-geom-abline.R | 62 animint2-2022.9.14/animint2/tests/testthat/test-renderer1-global-variables.R | 74 animint2-2022.9.14/animint2/tests/testthat/test-renderer1-hjust-text-anchor.R | 512 animint2-2022.9.14/animint2/tests/testthat/test-renderer1-hline.R | 72 animint2-2022.9.14/animint2/tests/testthat/test-renderer1-href.R | 140 animint2-2022.9.14/animint2/tests/testthat/test-renderer1-html-title.R | 38 animint2-2022.9.14/animint2/tests/testthat/test-renderer1-interactive-facets.R | 186 animint2-2022.9.14/animint2/tests/testthat/test-renderer1-interactivity.R | 488 animint2-2022.9.14/animint2/tests/testthat/test-renderer1-labels.R | 206 animint2-2022.9.14/animint2/tests/testthat/test-renderer1-legends.R | 228 animint2-2022.9.14/animint2/tests/testthat/test-renderer1-linetype.R | 100 animint2-2022.9.14/animint2/tests/testthat/test-renderer1-many-facets.R | 130 animint2-2022.9.14/animint2/tests/testthat/test-renderer1-panels.R | 458 animint2-2022.9.14/animint2/tests/testthat/test-renderer1-params.R | 105 animint2-2022.9.14/animint2/tests/testthat/test-renderer1-rect-size.R | 72 animint2-2022.9.14/animint2/tests/testthat/test-renderer1-segment-size.R | 50 animint2-2022.9.14/animint2/tests/testthat/test-renderer1-text.R | 118 animint2-2022.9.14/animint2/tests/testthat/test-renderer1-theme-text-size.R |only animint2-2022.9.14/animint2/tests/testthat/test-renderer1-tooltip.R | 247 animint2-2022.9.14/animint2/tests/testthat/test-renderer1-url-fragment.R | 122 animint2-2022.9.14/animint2/tests/testthat/test-renderer1-variable-value.R | 602 animint2-2022.9.14/animint2/tests/testthat/test-renderer2-colour.R |only animint2-2022.9.14/animint2/tests/testthat/test-renderer2-no-axes.R | 62 animint2-2022.9.14/animint2/tests/testthat/test-renderer2-opacity.R |only animint2-2022.9.14/animint2/tests/testthat/test-renderer2-showSelected-same.R | 260 animint2-2022.9.14/animint2/tests/testthat/test-renderer2-widerect.R | 17 animint2-2022.9.14/animint2/tests/testthat/test-renderer3-ChromHMMinit.R | 176 animint2-2022.9.14/animint2/tests/testthat/test-renderer3-FunctionalPruning.R | 122 animint2-2022.9.14/animint2/tests/testthat/test-renderer3-knn.R | 2 animint2-2022.9.14/animint2/tests/testthat/test-renderer3-lilac_chaser.R | 203 animint2-2022.9.14/animint2/tests/testthat/test-renderer3-path-key.R | 112 animint2-2022.9.14/animint2/tests/testthat/test-renderer3-point-fill-NA.R | 58 animint2-2022.9.14/animint2/tests/testthat/test-renderer3-roc.R | 236 animint2-2022.9.14/animint2/tests/testthat/test-renderer3-stat-bin.R | 122 animint2-2022.9.14/animint2/tests/testthat/test-renderer4-Inf.R | 310 animint2-2022.9.14/animint2/tests/testthat/test-renderer4-NA-separate-lines.R | 86 animint2-2022.9.14/animint2/tests/testthat/test-renderer4-geom-point-stroke.R | 82 animint2-2022.9.14/animint2/tests/testthat/test-renderer4-make-xrect.R | 130 animint2-2022.9.14/animint2/tests/testthat/test-renderer4-prostateLasso.R | 228 animint2-2022.9.14/animint2/tests/testthat/test-renderer4-update-axes-multiple-ss.R | 612 animint2-2022.9.14/animint2/tests/testthat/test-renderer5-ChromHMMiterations.R | 135 animint2-2022.9.14/animint2/tests/testthat/test-shiny.R | 268 animint2-2022.9.14/animint2/tests/testthat/test-tt-inter.R | 144 513 files changed, 56250 insertions(+), 55970 deletions(-)
Title: All Things Data and Springsteen
Description: An R data package containing setlists from all Bruce Springsteen concerts over 1973-2021.
Also includes all his song details such as lyrics and albums. Data extracted from:
<http://brucebase.wikidot.com/>.
Author: Joey O'Brien [aut, cre]
Maintainer: Joey O'Brien <obrienjoeyd@gmail.com>
Diff between spRingsteen versions 0.0.1 dated 2022-02-22 and 0.1.0 dated 2022-09-15
DESCRIPTION | 12 +++--- MD5 | 36 +++++++++++--------- NAMESPACE | 2 + NEWS.md | 7 +++ R/concerts.R | 4 +- R/data_refresh.R |only R/setlists.R | 4 +- R/songs.R | 4 +- R/tours.R | 4 +- README.md | 57 +++++++++++++++++++++----------- data/concerts.rda |binary data/setlists.rda |binary data/songs.rda |binary data/tours.rda |binary man/concerts.Rd | 92 +++++++++++++++++++++++++-------------------------- man/figures |only man/setlists.Rd | 82 +++++++++++++++++++++++----------------------- man/songs.Rd | 94 ++++++++++++++++++++++++++--------------------------- man/tours.Rd | 76 +++++++++++++++++++++--------------------- man/update_data.Rd |only 20 files changed, 255 insertions(+), 219 deletions(-)
Title: Functions for Generating PostgreSQL Statements/Scripts
Description: Create PostgreSQL statements/scripts from R, optionally executing the SQL statements.
Common SQL operations are included, although not every configurable option is available at this time.
SQL output is intended to be compliant with PostgreSQL syntax specifications. PostgreSQL documentation is available here
<https://www.postgresql.org/docs/current/index.html>.
Author: Timothy Conwell
Maintainer: Timothy Conwell <timconwell@gmail.com>
Diff between pgTools versions 1.0.0 dated 2022-06-24 and 1.0.1 dated 2022-09-15
DESCRIPTION | 6 MD5 | 7 R/pgTools.R | 429 ++++++++++++++++++++++++++------------------------ man/vecToArrayStr.Rd | 8 man/vecToArrayStr2.Rd |only 5 files changed, 238 insertions(+), 212 deletions(-)
Title: Report of Statistical Findings in 'bookdown'
Description: A report of statistical findings (RSF) project template is
generated using a 'bookdown' format. 'YAML' fields can be further
customized. Additional helper functions provide extra features to the
RSF.
Author: Derek Chiu [aut, cre]
Maintainer: Derek Chiu <dchiu@bccrc.ca>
Diff between rsf versions 0.2.2 dated 2020-04-10 and 0.3.0 dated 2022-09-15
DESCRIPTION | 27 +--- LICENSE | 4 MD5 | 50 ++++---- NAMESPACE | 12 - NEWS.md | 61 +++++---- R/git_ignore_outputs.R | 72 +++++------ R/rsf-package.R | 14 +- R/use_references.R | 174 ++++++++++++++-------------- R/use_rsf.R | 51 ++++---- R/write_bookdown_yml.R | 30 ++-- R/write_gitignore.R | 16 +- R/write_index.R | 48 +++---- R/write_output_yml.R | 38 +++--- R/write_preamble.R | 52 ++++---- R/write_src.R | 69 ++++++----- README.md | 81 ++++++------- inst/extdata/_bookdown.yml | 8 - inst/extdata/_output.yml | 18 +- inst/extdata/gitignore | 8 - inst/extdata/index.Rmd | 30 ++-- inst/extdata/preamble.tex | 30 ++-- inst/rstudio/templates/project/skeleton.dcf | 32 +++-- man/git_ignore_outputs.Rd | 56 ++++----- man/rsf-package.Rd | 51 +++----- man/use_references.Rd | 54 ++++---- man/use_rsf.Rd | 51 ++++---- 26 files changed, 588 insertions(+), 549 deletions(-)
Title: Multivariate Covariance Generalized Linear Models
Description: Fitting multivariate covariance generalized linear
models (McGLMs) to data. McGLM is a general framework for non-normal
multivariate data analysis, designed to handle multivariate response
variables, along with a wide range of temporal and spatial correlation
structures defined in terms of a covariance link function combined
with a matrix linear predictor involving known matrices.
The models take non-normality into account in the conventional way
by means of a variance function, and the mean structure is modelled
by means of a link function and a linear predictor.
The models are fitted using an efficient Newton scoring algorithm
based on quasi-likelihood and Pearson estimating functions, using
only second-moment assumptions. This provides a unified approach to
a wide variety of different types of response variables and covariance
structures, including multivariate extensions of repeated measures,
time series, longitudinal, spatial and spatio-temporal structures.
The package offers a u [...truncated...]
Author: Wagner Hugo Bonat [aut, cre]
Maintainer: Wagner Hugo Bonat <wbonat@ufpr.br>
Diff between mcglm versions 0.7.0 dated 2021-07-11 and 0.8.0 dated 2022-09-15
DESCRIPTION | 22 - MD5 | 38 +-- R/mc_KLIC.R | 4 R/mc_ess.R | 4 R/mc_main_function.R | 8 R/mc_pBIC.R | 4 R/mc_plogLik.R | 4 R/mc_sensitivity.R | 2 R/mc_variability.R | 4 build/vignette.rds |binary inst/doc/GLMExamples.R | 55 ++-- inst/doc/GLMExamples.Rmd | 7 inst/doc/GLMExamples.html | 397 ++++++++++++++++++++++++++++--- inst/doc/UniModels.R | 42 +-- inst/doc/UniModels.Rmd | 4 inst/doc/UniModels.html | 442 +++++++++++++++++++++++++++++++---- src/RcppExports.cpp | 5 tests/testthat/test_mc_build_sigma.R | 2 vignettes/GLMExamples.Rmd | 7 vignettes/UniModels.Rmd | 4 20 files changed, 871 insertions(+), 184 deletions(-)
Title: Fast Algorithms for Robust Slopes
Description: Fast algorithms for the Theil-Sen estimator,
Siegel's repeated median slope estimator, and Passing-Bablok regression.
The implementation is based on algorithms by
Dillencourt et. al (1992) <doi:10.1142/S0218195992000020> and Matousek et. al (1998) <doi:10.1007/PL00009190>.
The implementation of Passing-Bablok regression is explained in detail in
Raymaekers J., Dufey F. (2022). Equivariant Passing-Bablok regression in quasilinear time. <arXiv:2202.08060>.
All algorithms run in quasilinear time.
Author: Jakob Raymaekers
Maintainer: Jakob Raymaekers <j.raymaekers@maastrichtuniversity.nl>
Diff between robslopes versions 1.1.1 dated 2022-04-11 and 1.1.2 dated 2022-09-15
DESCRIPTION | 8 ++++---- MD5 | 13 ++++++++----- NAMESPACE | 5 +++++ R/PassingBablok.R | 4 ++-- R/RepeatedMedian.R | 4 ++-- R/TheilSen.R | 4 ++-- R/robslope.R |only man/robslope.Rd |only man/robslopefit.Rd |only 9 files changed, 23 insertions(+), 15 deletions(-)
Title: Dynamic Function-Oriented 'Make'-Like Declarative Workflows
Description: As a pipeline toolkit for Statistics and data science in R,
the 'targets' package brings together function-oriented programming and
'Make'-like declarative workflows.
It analyzes the dependency relationships among the tasks of a workflow,
skips steps that are already up to date, runs the necessary
computation with optional parallel workers, abstracts files as
R objects, and provides tangible evidence that the results match
the underlying code and data. The methodology in this package
borrows from GNU 'Make' (2015, ISBN:978-9881443519)
and 'drake' (2018, <doi:10.21105/joss.00550>).
Author: William Michael Landau [aut, cre]
,
Matthew T. Warkentin [ctb],
Mark Edmondson [ctb] ,
Samantha Oliver [rev] ,
Tristan Mahr [rev] ,
Eli Lilly and Company [cph]
Maintainer: William Michael Landau <will.landau@gmail.com>
Diff between targets versions 0.13.1 dated 2022-08-05 and 0.13.4 dated 2022-09-15
DESCRIPTION | 6 MD5 | 245 ++++++++++++++-------------- NAMESPACE | 4 NEWS.md | 28 +++ R/class_feather.R | 12 - R/class_imports.R | 49 +++++ R/class_parquet.R | 12 - R/class_progress.R | 15 + R/class_timestamp.R | 3 R/class_verbose.R | 6 R/class_workspace.R | 1 R/tar_branch_index.R | 1 R/tar_branch_names_raw.R | 2 R/tar_branches.R | 3 R/tar_delete.R | 1 R/tar_load.R | 1 R/tar_load_raw.R | 1 R/tar_make.R | 5 R/tar_manifest.R | 28 ++- R/tar_meta.R | 4 R/tar_newer.R | 4 R/tar_older.R | 4 R/tar_option_set.R | 40 +++- R/tar_package.R | 4 R/tar_process.R | 4 R/tar_progress.R | 4 R/tar_progress_branches.R | 4 R/tar_progress_summary.R | 4 R/tar_read.R | 1 R/tar_read_raw.R | 1 R/utils_assert.R | 17 + R/utils_callr.R | 100 ++++++++--- R/utils_cli.R | 27 ++- build/partial.rdb |binary build/vignette.rds |binary man/tar_assert.Rd | 5 man/tar_callr_inner_try.Rd |only man/tar_make.Rd | 5 man/tar_make_clustermq.Rd | 5 man/tar_make_future.Rd | 5 man/tar_manifest.Rd | 8 man/tar_option_set.Rd | 34 ++- tests/testthat/helper-aws.R | 2 tests/testthat/helper-gcp.R | 2 tests/testthat/helper-utils.R | 7 tests/testthat/test-class_aws.R | 4 tests/testthat/test-class_build.R | 8 tests/testthat/test-class_builder.R | 35 +++- tests/testthat/test-class_clustermq.R | 13 - tests/testthat/test-class_database.R | 2 tests/testthat/test-class_feather.R | 22 +- tests/testthat/test-class_file.R | 2 tests/testthat/test-class_fst.R | 2 tests/testthat/test-class_future.R | 11 - tests/testthat/test-class_gcp.R | 2 tests/testthat/test-class_imports.R | 16 + tests/testthat/test-class_keras.R | 5 tests/testthat/test-class_outdated.R | 14 + tests/testthat/test-class_parquet.R | 22 +- tests/testthat/test-class_pattern.R | 2 tests/testthat/test-class_process.R | 2 tests/testthat/test-class_progress.R | 7 tests/testthat/test-class_stem.R | 15 + tests/testthat/test-class_store_custom.R | 2 tests/testthat/test-class_target.R | 21 ++ tests/testthat/test-class_torch.R | 8 tests/testthat/test-class_url.R | 22 +- tests/testthat/test-class_visnetwork.R | 12 + tests/testthat/test-tar_active.R | 2 tests/testthat/test-tar_bind.R | 5 tests/testthat/test-tar_branch_index.R | 4 tests/testthat/test-tar_branch_names.R | 2 tests/testthat/test-tar_branches.R | 4 tests/testthat/test-tar_built.R | 2 tests/testthat/test-tar_call.R | 2 tests/testthat/test-tar_canceled.R | 2 tests/testthat/test-tar_config_set.R | 24 ++ tests/testthat/test-tar_deduplicate.R | 2 tests/testthat/test-tar_definition.R | 2 tests/testthat/test-tar_delete.R | 2 tests/testthat/test-tar_destroy.R | 2 tests/testthat/test-tar_engine_knitr.R | 17 + tests/testthat/test-tar_envir.R | 4 tests/testthat/test-tar_errored.R | 2 tests/testthat/test-tar_exist_meta.R | 2 tests/testthat/test-tar_exist_objects.R | 2 tests/testthat/test-tar_exist_process.R | 2 tests/testthat/test-tar_exist_progress.R | 2 tests/testthat/test-tar_exist_script.R | 2 tests/testthat/test-tar_glimpse.R | 4 tests/testthat/test-tar_group.R | 4 tests/testthat/test-tar_invalidate.R | 2 tests/testthat/test-tar_load.R | 2 tests/testthat/test-tar_make.R | 41 ++-- tests/testthat/test-tar_make_clustermq.R | 26 ++ tests/testthat/test-tar_make_future.R | 22 +- tests/testthat/test-tar_manifest.R | 52 +++++ tests/testthat/test-tar_mermaid.R | 8 tests/testthat/test-tar_meta.R | 6 tests/testthat/test-tar_network.R | 4 tests/testthat/test-tar_outdated.R | 9 - tests/testthat/test-tar_path.R | 2 tests/testthat/test-tar_pid.R | 2 tests/testthat/test-tar_process.R | 2 tests/testthat/test-tar_progress.R | 2 tests/testthat/test-tar_progress_branches.R | 6 tests/testthat/test-tar_progress_summary.R | 16 + tests/testthat/test-tar_prune.R | 9 - tests/testthat/test-tar_read.R | 2 tests/testthat/test-tar_renv.R | 2 tests/testthat/test-tar_sitrep.R | 17 + tests/testthat/test-tar_skipped.R | 2 tests/testthat/test-tar_source.R | 2 tests/testthat/test-tar_started.R | 2 tests/testthat/test-tar_timestamp.R | 2 tests/testthat/test-tar_traceback.R | 2 tests/testthat/test-tar_unscript.R | 4 tests/testthat/test-tar_validate.R | 7 tests/testthat/test-tar_visnetwork.R | 16 - tests/testthat/test-tar_workspace.R | 15 + tests/testthat/test-tar_workspaces.R | 2 tests/testthat/test-use_targets.R | 5 tests/testthat/test-utils_assert.R | 39 ++++ tests/testthat/test-utils_callr.R | 2 124 files changed, 995 insertions(+), 396 deletions(-)
Title: R Interface to 'Mapbox' Web Services
Description: Includes support for 'Mapbox' Navigation APIs, including directions,
isochrones, and route optimization; the Search API for forward and reverse geocoding;
the Maps API for interacting with 'Mapbox' vector tilesets and visualizing
'Mapbox' maps in R; and 'Mapbox Tiling Service' and 'tippecanoe' for generating map tiles.
See <https://docs.mapbox.com/api/> for more information about the 'Mapbox' APIs.
Author: Kyle Walker [aut, cre],
Eli Pousson [ctb],
Anthony North [ctb, cph],
Miles McBain [ctb]
Maintainer: Kyle Walker <kyle@walker-data.com>
Diff between mapboxapi versions 0.4 dated 2022-06-27 and 0.5 dated 2022-09-15
DESCRIPTION | 12 ++++++------ LICENSE | 2 +- MD5 | 23 ++++++++++++++++++----- NAMESPACE | 13 +++++++++++++ NEWS.md | 5 +++++ R/mapboxapi-package.R | 2 +- R/mts.R |only man/feature_options.Rd |only man/mts_create_source.Rd |only man/mts_create_tileset.Rd |only man/mts_get_recipe.Rd |only man/mts_list_sources.Rd |only man/mts_list_tilesets.Rd |only man/mts_make_recipe.Rd |only man/mts_publish_tileset.Rd |only man/mts_update_recipe.Rd |only man/mts_validate_recipe.Rd |only man/recipe_layer.Rd |only man/tile_options.Rd |only 19 files changed, 44 insertions(+), 13 deletions(-)
Title: Create Blogs and Websites with R Markdown
Description: Write blog posts and web pages in R Markdown. This package
supports the static site generator 'Hugo' (<https://gohugo.io>) best,
and it also supports 'Jekyll' (<https://jekyllrb.com>) and 'Hexo'
(<https://hexo.io>).
Author: Yihui Xie [aut, cre] ,
Christophe Dervieux [aut] ,
Alison Presmanes Hill [aut] ,
Amber Thomas [ctb],
Beilei Bian [ctb],
Brandon Greenwell [ctb],
Brian Barkley [ctb],
Deependra Dhakal [ctb],
Eric Nantz [ctb],
Forest Fang [ctb],
Garrick Aden-Buie [ctb] [...truncated...]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between blogdown versions 1.11 dated 2022-08-09 and 1.12 dated 2022-09-15
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/hugo.R | 19 ++++++++++++++++--- R/install.R | 14 +++++++++----- 4 files changed, 31 insertions(+), 14 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-09-14 1.0.0
Title: Easy Data Wrangling and Statistical Transformations
Description: A lightweight package to easily manipulate, clean, transform,
and prepare your data for analysis. It also forms the data wrangling
backend for the packages in the 'easystats' ecosystem.
Author: Indrajeet Patil [aut, cre] ,
Dominique Makowski [aut] ,
Daniel Luedecke [aut] ,
Mattan S. Ben-Shachar [aut] ,
Brenton M. Wiernik [aut] ,
Etienne Bacher [aut] ,
Remi Theriault [ctb]
Maintainer: Indrajeet Patil <patilindrajeet.science@gmail.com>
Diff between datawizard versions 0.5.1 dated 2022-08-17 and 0.6.0 dated 2022-09-15
datawizard-0.5.1/datawizard/R/change_code.R |only datawizard-0.5.1/datawizard/R/format_text.R |only datawizard-0.5.1/datawizard/R/utils_strings.R |only datawizard-0.5.1/datawizard/man/change_code.Rd |only datawizard-0.5.1/datawizard/man/format_text.Rd |only datawizard-0.5.1/datawizard/tests/testthat/test-format_text.R |only datawizard-0.6.0/datawizard/DESCRIPTION | 20 datawizard-0.6.0/datawizard/MD5 | 244 ++--- datawizard-0.6.0/datawizard/NAMESPACE | 28 datawizard-0.6.0/datawizard/NEWS.md | 91 +- datawizard-0.6.0/datawizard/R/adjust.R | 14 datawizard-0.6.0/datawizard/R/categorize.R | 118 +- datawizard-0.6.0/datawizard/R/center.R | 23 datawizard-0.6.0/datawizard/R/convert_na_to.R | 13 datawizard-0.6.0/datawizard/R/convert_to_na.R | 32 datawizard-0.6.0/datawizard/R/data_addprefix.R | 34 datawizard-0.6.0/datawizard/R/data_arrange.R |only datawizard-0.6.0/datawizard/R/data_extract.R | 9 datawizard-0.6.0/datawizard/R/data_find.R | 63 - datawizard-0.6.0/datawizard/R/data_group.R | 34 datawizard-0.6.0/datawizard/R/data_match.R | 109 ++ datawizard-0.6.0/datawizard/R/data_merge.R | 44 datawizard-0.6.0/datawizard/R/data_partition.R | 14 datawizard-0.6.0/datawizard/R/data_peek.r |only datawizard-0.6.0/datawizard/R/data_relocate.R | 35 datawizard-0.6.0/datawizard/R/data_remove.R | 17 datawizard-0.6.0/datawizard/R/data_rename.R | 22 datawizard-0.6.0/datawizard/R/data_rescale.R | 28 datawizard-0.6.0/datawizard/R/data_reshape.R | 36 datawizard-0.6.0/datawizard/R/data_reverse.R | 29 datawizard-0.6.0/datawizard/R/data_tabulate.R | 26 datawizard-0.6.0/datawizard/R/demean.R | 15 datawizard-0.6.0/datawizard/R/describe_distribution.R | 57 - datawizard-0.6.0/datawizard/R/descriptives.R |only datawizard-0.6.0/datawizard/R/normalize.R | 37 datawizard-0.6.0/datawizard/R/ranktransform.R | 20 datawizard-0.6.0/datawizard/R/recode_values.R |only datawizard-0.6.0/datawizard/R/rescale_weights.R | 24 datawizard-0.6.0/datawizard/R/select_helpers.R | 238 ++++- datawizard-0.6.0/datawizard/R/skewness_kurtosis.R | 25 datawizard-0.6.0/datawizard/R/slide.R | 16 datawizard-0.6.0/datawizard/R/standardize.R | 18 datawizard-0.6.0/datawizard/R/standardize.models.R | 46 - datawizard-0.6.0/datawizard/R/text_format.R |only datawizard-0.6.0/datawizard/R/to_factor.R | 20 datawizard-0.6.0/datawizard/R/to_numeric.R | 17 datawizard-0.6.0/datawizard/R/unnormalize.R | 9 datawizard-0.6.0/datawizard/R/utils_standardize_center.R | 32 datawizard-0.6.0/datawizard/R/winsorize.R | 52 - datawizard-0.6.0/datawizard/README.md | 4 datawizard-0.6.0/datawizard/build/vignette.rds |binary datawizard-0.6.0/datawizard/inst/doc/selection_syntax.R |only datawizard-0.6.0/datawizard/inst/doc/selection_syntax.Rmd |only datawizard-0.6.0/datawizard/inst/doc/selection_syntax.html |only datawizard-0.6.0/datawizard/inst/doc/tidyverse_translation.R | 42 datawizard-0.6.0/datawizard/inst/doc/tidyverse_translation.Rmd | 95 ++ datawizard-0.6.0/datawizard/inst/doc/tidyverse_translation.html | 445 +++++----- datawizard-0.6.0/datawizard/man/adjust.Rd | 25 datawizard-0.6.0/datawizard/man/categorize.Rd | 28 datawizard-0.6.0/datawizard/man/center.Rd | 16 datawizard-0.6.0/datawizard/man/coef_var.Rd |only datawizard-0.6.0/datawizard/man/convert_na_to.Rd | 16 datawizard-0.6.0/datawizard/man/convert_to_na.Rd | 16 datawizard-0.6.0/datawizard/man/data_arrange.Rd |only datawizard-0.6.0/datawizard/man/data_extract.Rd | 16 datawizard-0.6.0/datawizard/man/data_group.Rd | 22 datawizard-0.6.0/datawizard/man/data_match.Rd | 22 datawizard-0.6.0/datawizard/man/data_merge.Rd | 2 datawizard-0.6.0/datawizard/man/data_partition.Rd | 2 datawizard-0.6.0/datawizard/man/data_peek.Rd |only datawizard-0.6.0/datawizard/man/data_relocate.Rd | 42 datawizard-0.6.0/datawizard/man/data_rename.Rd | 23 datawizard-0.6.0/datawizard/man/data_rotate.Rd | 2 datawizard-0.6.0/datawizard/man/data_tabulate.Rd | 27 datawizard-0.6.0/datawizard/man/data_to_long.Rd | 10 datawizard-0.6.0/datawizard/man/data_to_wide.Rd | 2 datawizard-0.6.0/datawizard/man/describe_distribution.Rd | 19 datawizard-0.6.0/datawizard/man/distribution_mode.Rd | 8 datawizard-0.6.0/datawizard/man/find_columns.Rd | 62 - datawizard-0.6.0/datawizard/man/normalize.Rd | 17 datawizard-0.6.0/datawizard/man/ranktransform.Rd | 17 datawizard-0.6.0/datawizard/man/recode_values.Rd |only datawizard-0.6.0/datawizard/man/rescale.Rd | 17 datawizard-0.6.0/datawizard/man/reverse.Rd | 17 datawizard-0.6.0/datawizard/man/slide.Rd | 21 datawizard-0.6.0/datawizard/man/standardize.Rd | 16 datawizard-0.6.0/datawizard/man/text_format.Rd |only datawizard-0.6.0/datawizard/man/to_factor.Rd | 19 datawizard-0.6.0/datawizard/man/to_numeric.Rd | 19 datawizard-0.6.0/datawizard/man/winsorize.Rd | 8 datawizard-0.6.0/datawizard/tests/testthat/_snaps/data_peek.md |only datawizard-0.6.0/datawizard/tests/testthat/_snaps/data_rescale.md | 4 datawizard-0.6.0/datawizard/tests/testthat/_snaps/text_format.md |only datawizard-0.6.0/datawizard/tests/testthat/test-adjust.R | 12 datawizard-0.6.0/datawizard/tests/testthat/test-center.R | 12 datawizard-0.6.0/datawizard/tests/testthat/test-coef_var.R |only datawizard-0.6.0/datawizard/tests/testthat/test-convert_na_to.R | 12 datawizard-0.6.0/datawizard/tests/testthat/test-convert_to_na.R | 12 datawizard-0.6.0/datawizard/tests/testthat/test-data_addprefix.R | 12 datawizard-0.6.0/datawizard/tests/testthat/test-data_arrange.R |only datawizard-0.6.0/datawizard/tests/testthat/test-data_cut.R | 31 datawizard-0.6.0/datawizard/tests/testthat/test-data_extract.R | 12 datawizard-0.6.0/datawizard/tests/testthat/test-data_group.R | 8 datawizard-0.6.0/datawizard/tests/testthat/test-data_match.R | 152 +++ datawizard-0.6.0/datawizard/tests/testthat/test-data_merge.R | 36 datawizard-0.6.0/datawizard/tests/testthat/test-data_peek.R |only datawizard-0.6.0/datawizard/tests/testthat/test-data_read.R | 19 datawizard-0.6.0/datawizard/tests/testthat/test-data_recode.R | 64 - datawizard-0.6.0/datawizard/tests/testthat/test-data_relocate.R | 14 datawizard-0.6.0/datawizard/tests/testthat/test-data_remove.R | 12 datawizard-0.6.0/datawizard/tests/testthat/test-data_rename.R | 6 datawizard-0.6.0/datawizard/tests/testthat/test-data_rescale.R | 8 datawizard-0.6.0/datawizard/tests/testthat/test-data_reshape.R | 24 datawizard-0.6.0/datawizard/tests/testthat/test-data_restoretype.R | 3 datawizard-0.6.0/datawizard/tests/testthat/test-data_reverse.R | 8 datawizard-0.6.0/datawizard/tests/testthat/test-data_shift.R | 8 datawizard-0.6.0/datawizard/tests/testthat/test-data_tabulate.R | 223 +++-- datawizard-0.6.0/datawizard/tests/testthat/test-data_to_factor.R | 13 datawizard-0.6.0/datawizard/tests/testthat/test-data_to_numeric.R | 13 datawizard-0.6.0/datawizard/tests/testthat/test-demean.R | 21 datawizard-0.6.0/datawizard/tests/testthat/test-describe_distribution.R | 8 datawizard-0.6.0/datawizard/tests/testthat/test-find_columns.R | 90 +- datawizard-0.6.0/datawizard/tests/testthat/test-get_columns.R | 88 + datawizard-0.6.0/datawizard/tests/testthat/test-labelled_data.R | 6 datawizard-0.6.0/datawizard/tests/testthat/test-normalize.R | 8 datawizard-0.6.0/datawizard/tests/testthat/test-ranktransform.R | 8 datawizard-0.6.0/datawizard/tests/testthat/test-select_nse.R | 27 datawizard-0.6.0/datawizard/tests/testthat/test-smoothness.R | 1 datawizard-0.6.0/datawizard/tests/testthat/test-standardize-data.R | 8 datawizard-0.6.0/datawizard/tests/testthat/test-standardize_models.R | 16 datawizard-0.6.0/datawizard/tests/testthat/test-std_center.R | 72 + datawizard-0.6.0/datawizard/tests/testthat/test-text_format.R |only datawizard-0.6.0/datawizard/tests/testthat/test-unnormalize.R | 9 datawizard-0.6.0/datawizard/tests/testthat/test-utils_data.R | 6 datawizard-0.6.0/datawizard/vignettes/selection_syntax.Rmd |only datawizard-0.6.0/datawizard/vignettes/tidyverse_translation.Rmd | 95 ++ 136 files changed, 3030 insertions(+), 957 deletions(-)
Title: Web Interface to 'IsoplotR'
Description: Provides a graphical user interface to the 'IsoplotR' package for radiometric geochronology. The GUI runs in an internet browser and can either be used offline, or hosted on a server to provide online access to the 'IsoplotR' toolbox.
Author: Pieter Vermeesch [aut, cre],
Tim Band [ctb]
Maintainer: Pieter Vermeesch <p.vermeesch@ucl.ac.uk>
Diff between IsoplotRgui versions 4.4 dated 2022-05-21 and 5.0 dated 2022-09-15
IsoplotRgui-4.4/IsoplotRgui/man/encodePlot.Rd |only IsoplotRgui-4.4/IsoplotRgui/man/encodePlotAsPdf.Rd |only IsoplotRgui-4.4/IsoplotRgui/man/encodePlotAsPng.Rd |only IsoplotRgui-5.0/IsoplotRgui/DESCRIPTION | 13 IsoplotRgui-5.0/IsoplotRgui/MD5 | 131 - IsoplotRgui-5.0/IsoplotRgui/R/IsoplotR.R | 799 +++++++-- IsoplotRgui-5.0/IsoplotRgui/R/server.R | 151 - IsoplotRgui-5.0/IsoplotRgui/build/docker.sh | 4 IsoplotRgui-5.0/IsoplotRgui/build/git.md | 2 IsoplotRgui-5.0/IsoplotRgui/build/install.R | 2 IsoplotRgui-5.0/IsoplotRgui/inst/www/css/IsoplotR.css | 88 + IsoplotRgui-5.0/IsoplotRgui/inst/www/help/average.html | 26 IsoplotRgui-5.0/IsoplotRgui/inst/www/help/concordia.html | 75 IsoplotRgui-5.0/IsoplotRgui/inst/www/help/evolution.html | 60 IsoplotRgui-5.0/IsoplotRgui/inst/www/help/helioplot.html | 26 IsoplotRgui-5.0/IsoplotRgui/inst/www/help/isochron.html | 51 IsoplotRgui-5.0/IsoplotRgui/inst/www/help/radial.html | 22 IsoplotRgui-5.0/IsoplotRgui/inst/www/help/regression.html | 45 IsoplotRgui-5.0/IsoplotRgui/inst/www/help/spectrum.html | 10 IsoplotRgui-5.0/IsoplotRgui/inst/www/home/commandline.html | 44 IsoplotRgui-5.0/IsoplotRgui/inst/www/home/map.html | 142 - IsoplotRgui-5.0/IsoplotRgui/inst/www/home/news.html | 29 IsoplotRgui-5.0/IsoplotRgui/inst/www/home/world.svg | 141 - IsoplotRgui-5.0/IsoplotRgui/inst/www/index.html | 4 IsoplotRgui-5.0/IsoplotRgui/inst/www/js/IsoplotR.js | 665 ++++--- IsoplotRgui-5.0/IsoplotRgui/inst/www/js/js2R.js | 861 +--------- IsoplotRgui-5.0/IsoplotRgui/inst/www/js/languages.json | 6 IsoplotRgui-5.0/IsoplotRgui/inst/www/js/settings.json | 219 +- IsoplotRgui-5.0/IsoplotRgui/inst/www/js/toolbox.js | 56 IsoplotRgui-5.0/IsoplotRgui/inst/www/locales/cy |only IsoplotRgui-5.0/IsoplotRgui/inst/www/locales/en/contextual_help.json | 15 IsoplotRgui-5.0/IsoplotRgui/inst/www/locales/en/dictionary_class.json | 4 IsoplotRgui-5.0/IsoplotRgui/inst/www/locales/en/dictionary_id.json | 75 IsoplotRgui-5.0/IsoplotRgui/inst/www/locales/en/home_id.json | 6 IsoplotRgui-5.0/IsoplotRgui/inst/www/locales/es/contextual_help.json | 23 IsoplotRgui-5.0/IsoplotRgui/inst/www/locales/es/dictionary_class.json | 2 IsoplotRgui-5.0/IsoplotRgui/inst/www/locales/es/dictionary_id.json | 26 IsoplotRgui-5.0/IsoplotRgui/inst/www/locales/es/home_id.json | 10 IsoplotRgui-5.0/IsoplotRgui/inst/www/locales/zh_Hans/dictionary_class.json | 2 IsoplotRgui-5.0/IsoplotRgui/inst/www/locales/zh_Hans/dictionary_id.json | 49 IsoplotRgui-5.0/IsoplotRgui/inst/www/locales/zh_Hans/home_id.json | 2 IsoplotRgui-5.0/IsoplotRgui/inst/www/options/Ar-Ar.html | 29 IsoplotRgui-5.0/IsoplotRgui/inst/www/options/CAD.html | 10 IsoplotRgui-5.0/IsoplotRgui/inst/www/options/K-Ca.html | 26 IsoplotRgui-5.0/IsoplotRgui/inst/www/options/Lu-Hf.html | 26 IsoplotRgui-5.0/IsoplotRgui/inst/www/options/MDS.html | 26 IsoplotRgui-5.0/IsoplotRgui/inst/www/options/Pb-Pb.html | 26 IsoplotRgui-5.0/IsoplotRgui/inst/www/options/Rb-Sr.html | 26 IsoplotRgui-5.0/IsoplotRgui/inst/www/options/Re-Os.html | 26 IsoplotRgui-5.0/IsoplotRgui/inst/www/options/Sm-Nd.html | 26 IsoplotRgui-5.0/IsoplotRgui/inst/www/options/Th-Pb.html | 26 IsoplotRgui-5.0/IsoplotRgui/inst/www/options/Th-U.html | 26 IsoplotRgui-5.0/IsoplotRgui/inst/www/options/U-Pb.html | 29 IsoplotRgui-5.0/IsoplotRgui/inst/www/options/U-Th-He.html | 26 IsoplotRgui-5.0/IsoplotRgui/inst/www/options/average.html | 35 IsoplotRgui-5.0/IsoplotRgui/inst/www/options/concordia.html | 35 IsoplotRgui-5.0/IsoplotRgui/inst/www/options/evolution.html | 39 IsoplotRgui-5.0/IsoplotRgui/inst/www/options/fissiontracks.html | 26 IsoplotRgui-5.0/IsoplotRgui/inst/www/options/helioplot.html | 35 IsoplotRgui-5.0/IsoplotRgui/inst/www/options/index.html | 9 IsoplotRgui-5.0/IsoplotRgui/inst/www/options/isochron.html | 44 IsoplotRgui-5.0/IsoplotRgui/inst/www/options/other.html | 24 IsoplotRgui-5.0/IsoplotRgui/inst/www/options/radial.html | 33 IsoplotRgui-5.0/IsoplotRgui/inst/www/options/regression.html | 39 IsoplotRgui-5.0/IsoplotRgui/inst/www/options/spectrum.html | 39 IsoplotRgui-5.0/IsoplotRgui/inst/www/version.txt | 2 IsoplotRgui-5.0/IsoplotRgui/man/IsoplotR.Rd | 9 67 files changed, 2524 insertions(+), 2059 deletions(-)
Title: Create, Modify and Analyse Phylogenetic Trees
Description: Efficient implementations of functions for the creation,
modification and analysis of phylogenetic trees.
Applications include:
generation of trees with specified shapes;
tree rearrangement;
analysis of tree shape;
rooting of trees and extraction of subtrees;
calculation and depiction of split support;
plotting the position of rogue taxa (Klopfstein & Spasojevic 2019)
<doi:10.1371/journal.pone.0212942>;
calculation of ancestor-descendant relationships,
of 'stemwardness' (Asher & Smith, 2022) <doi:10.1093/sysbio/syab072>,
and of tree balance (Mir et al. 2013) <doi:10.1016/j.mbs.2012.10.005>;
artificial extinction (Asher & Smith, 2022) <doi:10.1093/sysbio/syab072>;
import and export of trees from Newick, Nexus (Maddison et al. 1997)
<doi:10.1093/sysbio/46.4.590>,
and TNT <https://www.lillo.org.ar/phylogeny/tnt/> formats;
and analysis of splits and cladistic information.
Author: Martin R. Smith [aut, cre, cph]
,
Emmanuel Paradis [cph]
Maintainer: Martin R. Smith <martin.smith@durham.ac.uk>
Diff between TreeTools versions 1.7.3 dated 2022-07-20 and 1.8.0 dated 2022-09-15
TreeTools-1.7.3/TreeTools/tests/benchmark |only TreeTools-1.8.0/TreeTools/DESCRIPTION | 10 TreeTools-1.8.0/TreeTools/MD5 | 240 +++++----- TreeTools-1.8.0/TreeTools/NAMESPACE | 15 TreeTools-1.8.0/TreeTools/NEWS.md | 24 + TreeTools-1.8.0/TreeTools/R/AddTip.R | 6 TreeTools-1.8.0/TreeTools/R/ArtificialExtinction.R | 34 - TreeTools-1.8.0/TreeTools/R/Combinatorics.R | 8 TreeTools-1.8.0/TreeTools/R/Consensus.R | 14 TreeTools-1.8.0/TreeTools/R/DropTip.R | 24 - TreeTools-1.8.0/TreeTools/R/ImposeConstraint.R | 22 TreeTools-1.8.0/TreeTools/R/Information.R | 4 TreeTools-1.8.0/TreeTools/R/ReadTntTree.R |only TreeTools-1.8.0/TreeTools/R/SplitFunctions.R | 24 - TreeTools-1.8.0/TreeTools/R/Splits.R | 160 ++++-- TreeTools-1.8.0/TreeTools/R/Stemwardness.R | 20 TreeTools-1.8.0/TreeTools/R/Support.R | 14 TreeTools-1.8.0/TreeTools/R/TotalCopheneticIndex.R | 12 TreeTools-1.8.0/TreeTools/R/TreeNumber.R | 40 - TreeTools-1.8.0/TreeTools/R/TreeTools-package.R | 8 TreeTools-1.8.0/TreeTools/R/as.multiPhylo.R | 36 - TreeTools-1.8.0/TreeTools/R/data.R | 4 TreeTools-1.8.0/TreeTools/R/helper_functions.R | 51 +- TreeTools-1.8.0/TreeTools/R/parse_files.R | 213 -------- TreeTools-1.8.0/TreeTools/R/phylo.R | 28 - TreeTools-1.8.0/TreeTools/R/split_analysis.R | 10 TreeTools-1.8.0/TreeTools/R/tree_display.R | 2 TreeTools-1.8.0/TreeTools/R/tree_generation.R | 59 +- TreeTools-1.8.0/TreeTools/R/tree_information.R | 8 TreeTools-1.8.0/TreeTools/R/tree_numbering.R | 77 +++ TreeTools-1.8.0/TreeTools/R/tree_properties.R | 30 - TreeTools-1.8.0/TreeTools/R/tree_rearrangement.R | 40 - TreeTools-1.8.0/TreeTools/R/tree_shape.R | 24 - TreeTools-1.8.0/TreeTools/R/tree_write.R | 44 - TreeTools-1.8.0/TreeTools/R/zzz.R | 4 TreeTools-1.8.0/TreeTools/build/partial.rdb |binary TreeTools-1.8.0/TreeTools/data/nUnrootedShapes.R | 120 ++--- TreeTools-1.8.0/TreeTools/inst/REFERENCES.bib | 5 TreeTools-1.8.0/TreeTools/inst/WORDLIST | 1 TreeTools-1.8.0/TreeTools/inst/doc/filesystem-navigation.html | 4 TreeTools-1.8.0/TreeTools/inst/doc/load-data.Rmd | 38 - TreeTools-1.8.0/TreeTools/inst/doc/load-data.html | 45 - TreeTools-1.8.0/TreeTools/inst/doc/load-trees.Rmd | 2 TreeTools-1.8.0/TreeTools/inst/doc/load-trees.html | 8 TreeTools-1.8.0/TreeTools/inst/extdata/tests/tnt-tree.tre | 19 TreeTools-1.8.0/TreeTools/man/AddTip.Rd | 4 TreeTools-1.8.0/TreeTools/man/ArtificialExtinction.Rd | 10 TreeTools-1.8.0/TreeTools/man/CharacterInformation.Rd | 2 TreeTools-1.8.0/TreeTools/man/CladisticInfo.Rd | 2 TreeTools-1.8.0/TreeTools/man/CollapseNode.Rd | 4 TreeTools-1.8.0/TreeTools/man/ConsensusWithout.Rd | 4 TreeTools-1.8.0/TreeTools/man/DescendantEdges.Rd | 2 TreeTools-1.8.0/TreeTools/man/DropTip.Rd | 2 TreeTools-1.8.0/TreeTools/man/EdgeAncestry.Rd | 2 TreeTools-1.8.0/TreeTools/man/EdgeDistances.Rd | 2 TreeTools-1.8.0/TreeTools/man/GenerateTree.Rd | 2 TreeTools-1.8.0/TreeTools/man/Hamming.Rd | 12 TreeTools-1.8.0/TreeTools/man/ImposeConstraint.Rd | 2 TreeTools-1.8.0/TreeTools/man/LabelSplits.Rd | 20 TreeTools-1.8.0/TreeTools/man/MakeTreeBinary.Rd | 2 TreeTools-1.8.0/TreeTools/man/NJTree.Rd | 2 TreeTools-1.8.0/TreeTools/man/NodeDepth.Rd | 4 TreeTools-1.8.0/TreeTools/man/ReadTntTree.Rd | 29 - TreeTools-1.8.0/TreeTools/man/Renumber.Rd | 6 TreeTools-1.8.0/TreeTools/man/Reorder.Rd | 27 + TreeTools-1.8.0/TreeTools/man/RootTree.Rd | 2 TreeTools-1.8.0/TreeTools/man/SingleTaxonTree.Rd | 6 TreeTools-1.8.0/TreeTools/man/SortTree.Rd | 2 TreeTools-1.8.0/TreeTools/man/SpectrumLegend.Rd | 31 + TreeTools-1.8.0/TreeTools/man/SplitFrequency.Rd | 16 TreeTools-1.8.0/TreeTools/man/Splits.Rd | 5 TreeTools-1.8.0/TreeTools/man/Stemwardness.Rd | 16 TreeTools-1.8.0/TreeTools/man/Subtree.Rd | 4 TreeTools-1.8.0/TreeTools/man/SupportColour.Rd | 16 TreeTools-1.8.0/TreeTools/man/TipLabels.Rd | 2 TreeTools-1.8.0/TreeTools/man/TipsInSplits.Rd | 6 TreeTools-1.8.0/TreeTools/man/TotalCopheneticIndex.Rd | 8 TreeTools-1.8.0/TreeTools/man/TreeShape.Rd | 2 TreeTools-1.8.0/TreeTools/man/TreeTools-package.Rd | 8 TreeTools-1.8.0/TreeTools/man/WriteTntCharacters.Rd | 6 TreeTools-1.8.0/TreeTools/man/as.multiPhylo.Rd | 4 TreeTools-1.8.0/TreeTools/man/brewer.Rd | 4 TreeTools-1.8.0/TreeTools/man/dot-RandomParent.Rd | 4 TreeTools-1.8.0/TreeTools/src/consensus.cpp | 23 TreeTools-1.8.0/TreeTools/src/minimum_spanning_tree.cpp | 25 - TreeTools-1.8.0/TreeTools/src/tree_shape.cpp | 7 TreeTools-1.8.0/TreeTools/tests/spelling.R | 2 TreeTools-1.8.0/TreeTools/tests/testthat.R | 4 TreeTools-1.8.0/TreeTools/tests/testthat/Rplots.pdf |only TreeTools-1.8.0/TreeTools/tests/testthat/_snaps/helper_functions/spectrumlegend.svg | 12 TreeTools-1.8.0/TreeTools/tests/testthat/test-AddTip.R | 22 TreeTools-1.8.0/TreeTools/tests/testthat/test-ArtificialExtinction.R | 38 - TreeTools-1.8.0/TreeTools/tests/testthat/test-ClusterTable.R | 38 + TreeTools-1.8.0/TreeTools/tests/testthat/test-DropTip.R | 28 - TreeTools-1.8.0/TreeTools/tests/testthat/test-ImposeConstraint.R | 16 TreeTools-1.8.0/TreeTools/tests/testthat/test-ReadTntTree.R |only TreeTools-1.8.0/TreeTools/tests/testthat/test-SplitFunctions.R | 22 TreeTools-1.8.0/TreeTools/tests/testthat/test-Splits.R | 120 +++-- TreeTools-1.8.0/TreeTools/tests/testthat/test-Stemwardness.R | 10 TreeTools-1.8.0/TreeTools/tests/testthat/test-Support.R | 30 - TreeTools-1.8.0/TreeTools/tests/testthat/test-TreeNumber.R | 8 TreeTools-1.8.0/TreeTools/tests/testthat/test-as.multiPhylo.R | 26 - TreeTools-1.8.0/TreeTools/tests/testthat/test-consensus.R | 54 +- TreeTools-1.8.0/TreeTools/tests/testthat/test-helper_functions.R | 17 TreeTools-1.8.0/TreeTools/tests/testthat/test-information.R | 2 TreeTools-1.8.0/TreeTools/tests/testthat/test-int_to_tree.cpp.R | 18 TreeTools-1.8.0/TreeTools/tests/testthat/test-mst.R | 13 TreeTools-1.8.0/TreeTools/tests/testthat/test-parsers.R | 90 --- TreeTools-1.8.0/TreeTools/tests/testthat/test-phylo.R | 6 TreeTools-1.8.0/TreeTools/tests/testthat/test-root_tree.h.R | 4 TreeTools-1.8.0/TreeTools/tests/testthat/test-sort.R | 2 TreeTools-1.8.0/TreeTools/tests/testthat/test-split_analysis.R | 2 TreeTools-1.8.0/TreeTools/tests/testthat/test-tree_comparison.R | 6 TreeTools-1.8.0/TreeTools/tests/testthat/test-tree_display.R | 10 TreeTools-1.8.0/TreeTools/tests/testthat/test-tree_generation.R | 48 +- TreeTools-1.8.0/TreeTools/tests/testthat/test-tree_numbering.R | 8 TreeTools-1.8.0/TreeTools/tests/testthat/test-tree_properties.R | 36 - TreeTools-1.8.0/TreeTools/tests/testthat/test-tree_rearrange.R | 65 +- TreeTools-1.8.0/TreeTools/tests/testthat/test-tree_shape.R | 8 TreeTools-1.8.0/TreeTools/tests/testthat/test-tree_write.R | 20 TreeTools-1.8.0/TreeTools/vignettes/load-data.Rmd | 38 - TreeTools-1.8.0/TreeTools/vignettes/load-trees.Rmd | 2 122 files changed, 1459 insertions(+), 1254 deletions(-)
Title: 'RStudio' Package Manager
Description: Enables binary package installations on Linux distributions.
Provides access to 'RStudio' public repositories at
<https://packagemanager.rstudio.com>, and transparent management of
system requirements without administrative privileges. Currently supported
distributions are 'CentOS' / 'RHEL' 7 and 8, and several 'RHEL' derivatives
('Rocky Linux' 8, 'AlmaLinux' 8, 'Oracle Linux' 7 and 8, 'Amazon Linux' 2),
'openSUSE' / 'SLES' 15.3, and 'Ubuntu' 18.04, 20.04 and 22.04.
Author: Inaki Ucar [aut, cph, cre] ,
R Core Team [aut, cph]
Maintainer: Inaki Ucar <iucar@fedoraproject.org>
Diff between rspm versions 0.2.1 dated 2022-08-16 and 0.2.2 dated 2022-09-15
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- NEWS.md | 5 +++++ R/centos.R | 2 +- R/integration.R | 12 ++++++++++++ R/utils.R | 12 ++++++++---- inst/tinytest/test_manager_ci.R | 1 - tests/tinytest.R | 5 +++++ 8 files changed, 41 insertions(+), 16 deletions(-)
Title: Economics and Pricing Tools
Description: Functions to aid in micro and macro economic analysis and handling of price and
currency data. Includes extraction of relevant inflation and exchange rate data from World Bank
API, data cleaning/parsing, and standardisation. Inflation adjustment
calculations as found in Principles of Macroeconomics by Gregory Mankiw et al (2014). Current
and historical end of day exchange rates for 171 currencies from the European Central Bank
Statistical Data Warehouse (2020) <https://sdw.ecb.europa.eu/curConverter.do>.
Author: Steve Condylios [aut, cre],
Bruno Mioto [ctb],
Bryan Shalloway [ctb]
Maintainer: Steve Condylios <steve.condylios@gmail.com>
Diff between priceR versions 0.1.66 dated 2022-09-14 and 0.1.67 dated 2022-09-15
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/adjust_for_inflation.R | 2 ++ man/url_all_results.Rd | 2 ++ 4 files changed, 10 insertions(+), 6 deletions(-)
Title: Explore Our Planet's Oceans with NOAA
Description: Provides tools for easy exploration of the world ocean atlas of
the US agency National Oceanic and Atmospheric Administration (NOAA). It
includes functions to extract NetCDF data from the repository and code to
visualize several physical and chemical parameters of the ocean. A Shiny app
further allows interactive exploration of the data. The methods for data
collecting and quality checks are described in several papers, which can be
found here: <https://www.ncei.noaa.gov/products/world-ocean-atlas>.
Author: Martin Schobben [aut, cre, cph]
,
Peter Bijl [ctb]
Maintainer: Martin Schobben <schobbenmartin@gmail.com>
Diff between oceanexplorer versions 0.0.1 dated 2022-09-07 and 0.0.2 dated 2022-09-15
oceanexplorer-0.0.1/oceanexplorer/inst/www/img/erc-logo.jpg |only oceanexplorer-0.0.1/oceanexplorer/inst/www/img/oceanice-logo.jpg |only oceanexplorer-0.0.1/oceanexplorer/man/figures/erc-logo.jpg |only oceanexplorer-0.0.1/oceanexplorer/man/figures/oceanice-logo.jpg |only oceanexplorer-0.0.2/oceanexplorer/DESCRIPTION | 6 - oceanexplorer-0.0.2/oceanexplorer/MD5 | 27 +++--- oceanexplorer-0.0.2/oceanexplorer/NEWS.md |only oceanexplorer-0.0.2/oceanexplorer/R/NOAA_app.R | 5 - oceanexplorer-0.0.2/oceanexplorer/README.md | 17 +--- oceanexplorer-0.0.2/oceanexplorer/data/NOAA_data.rda |binary oceanexplorer-0.0.2/oceanexplorer/inst/WORDLIST | 3 oceanexplorer-0.0.2/oceanexplorer/inst/doc/oceanexplorer.R | 22 ++++- oceanexplorer-0.0.2/oceanexplorer/inst/doc/oceanexplorer.Rmd | 27 +++++- oceanexplorer-0.0.2/oceanexplorer/inst/doc/oceanexplorer.html | 40 ++++++---- oceanexplorer-0.0.2/oceanexplorer/inst/www/img/oceanice-logo.png |only oceanexplorer-0.0.2/oceanexplorer/man/figures/oceanice-logo.png |only oceanexplorer-0.0.2/oceanexplorer/vignettes/NOAA_plot1.png |only oceanexplorer-0.0.2/oceanexplorer/vignettes/NOAA_plot2.png |only oceanexplorer-0.0.2/oceanexplorer/vignettes/oceanexplorer.Rmd | 27 +++++- 19 files changed, 114 insertions(+), 60 deletions(-)
Title: Necessary Condition Analysis
Description: Performs a Necessary Condition Analysis (NCA). (Dul, J. 2016. Necessary Condition Analysis (NCA). ''Logic and Methodology of 'Necessary but not Sufficient' causality." Organizational Research Methods 19(1), 10-52,
<https://journals.sagepub.com/doi/full/10.1177/1094428115584005>).
NCA identifies necessary (but not sufficient) conditions in datasets, where x causes (e.g. precedes) y. Instead of drawing a regression line ''through the middle of the data'' in an xy-plot, NCA draws the ceiling line. The ceiling line y = f(x) separates the area with observations from the area without observations.
(Nearly) all observations are below the ceiling line: y <= f(x). The empty zone is in the upper left hand corner of the xy-plot (with the convention that the x-axis is ''horizontal'' and the y-axis is ''vertical'' and that values increase ''upwards'' and ''to the right''). The ceiling line is a (piecewise) linear non-decreasing line: a linear step function or a straight line. It indicates [...truncated...]
Author: Jan Dul <jdul@rsm.nl>
Maintainer: Govert Buijs <buijs@rsm.nl>
Diff between NCA versions 3.2.0 dated 2022-04-05 and 3.2.1 dated 2022-09-15
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/nca_outliers.R | 7 ++++++- man/NCA-package.Rd | 4 ++-- 4 files changed, 15 insertions(+), 10 deletions(-)
Title: Statistical Toolbox for Radiometric Geochronology
Description: Plots U-Pb data on Wetherill and Tera-Wasserburg concordia diagrams. Calculates concordia and discordia ages. Performs linear regression of measurements with correlated errors using 'York', 'Titterington' and 'Ludwig' approaches. Generates Kernel Density Estimates (KDEs) and Cumulative Age Distributions (CADs). Produces Multidimensional Scaling (MDS) configurations and Shepard plots of multi-sample detrital datasets using the Kolmogorov-Smirnov distance as a dissimilarity measure. Calculates 40Ar/39Ar ages, isochrons, and age spectra. Computes weighted means accounting for overdispersion. Calculates U-Th-He (single grain and central) ages, logratio plots and ternary diagrams. Processes fission track data using the external detector method and LA-ICP-MS, calculates central ages and plots fission track and other data on radial (a.k.a. 'Galbraith') plots. Constructs total Pb-U, Pb-Pb, Th-Pb, K-Ca, Re-Os, Sm-Nd, Lu-Hf, Rb-Sr and 230Th-U isochrons as well as 230Th-U evolution plots.
Author: Pieter Vermeesch [aut, cre]
Maintainer: Pieter Vermeesch <p.vermeesch@ucl.ac.uk>
Diff between IsoplotR versions 4.4 dated 2022-05-21 and 5.0 dated 2022-09-15
DESCRIPTION | 10 MD5 | 106 ++++--- NAMESPACE | 1 R/ArAr.R | 6 R/KCa.R | 4 R/PD.R | 7 R/PbPb.R | 9 R/ThU.R | 20 - R/UPb.R | 22 - R/UThHe.R | 20 - R/age.R | 181 ++++++++----- R/agespectrum.R | 112 +++----- R/cad.R | 23 + R/central.R | 116 ++++---- R/ci.R | 363 ++++++++++++++------------ R/concordia.R | 108 ++++---- R/constants.R | 19 + R/discordia.R | 155 ++++------- R/errorellipse.R | 42 ++- R/evolution.R | 109 +++----- R/fissiontracks.R | 88 ++++-- R/helioplot.R | 76 ++--- R/io.R | 6 R/irr.R |only R/isochron.R | 700 +++++++++++++++++++++------------------------------- R/json.R | 28 -- R/ludwig.R | 10 R/nearPD.R | 4 R/peakfit.R | 216 ++++++++-------- R/radialplot.R | 194 +++++++------- R/regression.R | 36 +- R/titterington.R | 26 - R/toolbox.R | 53 --- R/weightedmean.R | 346 +++++++++++-------------- R/york.R | 23 - inst/constants.json | 3 man/age.Rd | 55 +++- man/agespectrum.Rd | 60 +--- man/cad.Rd | 16 - man/central.Rd | 43 +-- man/ci.Rd |only man/concordia.Rd | 52 ++- man/evolution.Rd | 22 + man/helioplot.Rd | 22 + man/isochron.Rd | 167 +++++------- man/ludwig.Rd | 6 man/peakfit.Rd | 81 ++++-- man/radialplot.Rd | 61 +++- man/read.data.Rd | 4 man/scatterplot.Rd | 24 + man/set.zeta.Rd | 31 ++ man/settings.Rd | 4 man/titterington.Rd | 4 man/weightedmean.Rd | 71 +++-- man/york.Rd | 6 55 files changed, 1981 insertions(+), 1990 deletions(-)
Title: Dose Rate Estimation from in-Situ Gamma-Ray Spectrometry
Measurements
Description: Process in-situ Gamma-Ray Spectrometry for
Luminescence Dating. This package allows to import, inspect and
correct the energy shifts of Gamma-ray spectra. It provides methods
for estimating the gamma dose rate by the use of a calibration curve
as described in Mercier and Falguères (2007).
The package only supports Canberra CNF and TKA files.
Author: Nicolas Frerebeau [aut] ,
Brice Lebrun [aut] ,
Guilhem Paradol [aut] ,
Magali Rizza [ctb] ,
Christelle Lahaye [ctb] ,
Archeosciences Bordeaux [cre],
Universite Bordeaux Montaigne [cph, fnd],
CNRS [fnd],
LabEx Sciences archeologiques de Bordeaux [fnd] [...truncated...]
Maintainer: Archeosciences Bordeaux <services-archeosciences@u-bordeaux-montaigne.fr>
Diff between gamma versions 1.0.2 dated 2022-08-23 and 1.0.3 dated 2022-09-15
gamma-1.0.2/gamma/tests/testthat/_snaps/plot/spectra-facet-false.svg |only gamma-1.0.2/gamma/tests/testthat/_snaps/plot/spectra-facet-true.svg |only gamma-1.0.3/gamma/DESCRIPTION | 9 +- gamma-1.0.3/gamma/MD5 | 34 ++++----- gamma-1.0.3/gamma/NAMESPACE | 1 gamma-1.0.3/gamma/NEWS.md | 5 + gamma-1.0.3/gamma/R/AllGenerics.R | 10 ++ gamma-1.0.3/gamma/R/dose_fit.R | 18 +---- gamma-1.0.3/gamma/R/energy_calibrate.R | 20 +++++ gamma-1.0.3/gamma/R/gamma-package.R | 8 +- gamma-1.0.3/gamma/inst/doc/doserate.R | 2 gamma-1.0.3/gamma/inst/doc/doserate.Rmd | 2 gamma-1.0.3/gamma/inst/doc/doserate.html | 35 ++++++---- gamma-1.0.3/gamma/inst/doc/gamma.html | 19 +++-- gamma-1.0.3/gamma/man/doserate.Rd | 5 - gamma-1.0.3/gamma/man/energy.Rd | 11 ++- gamma-1.0.3/gamma/man/gamma-package.Rd | 10 +- gamma-1.0.3/gamma/tests/testthat/test-plot.R | 1 gamma-1.0.3/gamma/vignettes/doserate.Rmd | 2 19 files changed, 116 insertions(+), 76 deletions(-)
Title: Fixed Rank Kriging
Description: 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 basis functions. This fixed-rank basis-function representation facilitates the modelling of big data, and 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 also supports the modelling of non-Gaussian data (e.g., Poisson, binomial, negative-binomial, gamma, and inverse-Gaussian) by employing a generalised linear mixed model (GLMM) framew [...truncated...]
Author: Andrew Zammit-Mangion [aut, cre],
Matthew Sainsbury-Dale [aut]
Maintainer: Andrew Zammit-Mangion <andrewzm@gmail.com>
Diff between FRK versions 2.0.6 dated 2022-09-01 and 2.1.0 dated 2022-09-15
DESCRIPTION | 10 MD5 | 59 NAMESPACE | 13 R/AllGeneric.R | 40 R/FRK_wrapper.R | 541 ++--- R/SRE.R | 145 - R/SREfit.R | 1711 ++++++++--------- R/SREpredict.R | 1704 ++++++++--------- R/SREutils.R | 29 R/SREvalidation.R |only R/basisfns.R | 90 R/check_args.R | 4 R/geometryfns.R | 4055 ++++++++++++++++++++--------------------- R/linalgfns.R | 36 R/misc.R | 296 +- R/plottingfns.R | 52 R/zzz.R | 43 build/vignette.rds |binary inst/doc/FRK_intro.Rnw | 6 inst/doc/FRK_intro.pdf |binary inst/doc/FRK_non-Gaussian.Rnw | 12 inst/doc/FRK_non-Gaussian.pdf |binary man/SRE.Rd | 156 - man/auto_basis.Rd | 21 man/local_basis.Rd | 10 man/loglik.Rd | 10 man/plot.Rd | 3 src/FRK.cpp | 181 - tests/testthat/test_linalg.R | 6 vignettes/FRK_intro.Rnw | 6 vignettes/FRK_non-Gaussian.Rnw | 12 31 files changed, 4566 insertions(+), 4685 deletions(-)
Title: FAIR Data - Workflow Management
Description: Tools, methods and processes for the management
of analysis workflows. These lightweight solutions facilitate
structuring R&D activities. These solutions were developed to comply with FAIR
principles as discussed by Jacobsen et al. (2017) <doi:10.1162/dint_r_00024>,
and with ALCOA+ principles as proposed by the U.S. FDA.
Author: Gregoire Thomas [aut, cre]
Maintainer: Gregoire Thomas <gregoire.thomas@SQU4RE.com>
Diff between D4TAlink.light versions 2.1.7 dated 2022-09-05 and 2.1.8 dated 2022-09-15
DESCRIPTION | 14 +++--- MD5 | 59 +++++++++++++++------------- NAMESPACE | 7 ++- NEWS | 15 +++++-- R/createTask.R | 1 R/init.R | 2 R/initTask.R | 10 ++-- R/listTasks.R |only R/loadTask.R | 12 ++++- R/pathGenerators.R | 2 R/taskArchive.R | 81 ++++++++++++++++++++++++++++----------- R/taskFiles.R | 49 +++++++++++++---------- R/taskGlobals.R | 39 +++++++++++++++++- R/taskPaths.R | 15 +++++-- inst/doc/D4TAlink_basics.R | 6 ++ inst/doc/D4TAlink_basics.Rmd | 14 ++++++ inst/doc/D4TAlink_basics.html | 12 +++++ inst/template/SQU4REtemplate.Rmd | 55 ++++++++++++++++++++++---- inst/template/template.R | 16 +++++-- inst/template/template.Rmd | 52 ++++++++++++++++++++----- man/archiveTask.Rd | 4 + man/createTask.Rd | 1 man/datasourceFn.Rd | 6 -- man/getTaskEnckey.Rd |only man/initTask.Rd | 7 ++- man/listTaskFiles.Rd |only man/listTasks.Rd |only man/loadTask.Rd | 5 +- man/readBinary.Rd | 13 +++++- man/restoreTask.Rd | 6 +- man/saveBinary.Rd | 5 +- man/setTaskEnckey.Rd |only vignettes/D4TAlink_basics.Rmd | 14 ++++++ 33 files changed, 387 insertions(+), 135 deletions(-)
More information about D4TAlink.light at CRAN
Permanent link
Title: Translates an R Function to a C++ Function
Description: Enable translation of a tiny subset of R to C++. The user has to define a R function which gets translated. For a full list of possible functions check the documentation. After translation an R function is returned which is a shallow wrapper around the C++ code. Alternatively an external pointer to the C++ function is returned to the user. The intention of the package is to generate fast functions which can be used as ode-system or during optimization.
Author: Kraemer Konrad [aut, cre]
Maintainer: Kraemer Konrad <konrad_kraemer@yahoo.de>
Diff between ast2ast versions 0.1 dated 2022-03-14 and 0.2 dated 2022-09-15
ast2ast-0.1/ast2ast/inst/include/etr_bits/looping.hpp |only ast2ast-0.1/ast2ast/inst/tinytest/test_rtests.R |only ast2ast-0.2/ast2ast/DESCRIPTION | 19 ast2ast-0.2/ast2ast/MD5 | 66 ast2ast-0.2/ast2ast/NAMESPACE | 1 ast2ast-0.2/ast2ast/R/codelinesclass.R | 116 ast2ast-0.2/ast2ast/R/compiling.R |only ast2ast-0.2/ast2ast/R/masterclass.R |only ast2ast-0.2/ast2ast/R/node_classes.R | 399 ++ ast2ast-0.2/ast2ast/R/translate.R | 371 -- ast2ast-0.2/ast2ast/build/vignette.rds |binary ast2ast-0.2/ast2ast/inst/doc/DetailedDocumentation.R | 103 ast2ast-0.2/ast2ast/inst/doc/DetailedDocumentation.Rmd | 195 - ast2ast-0.2/ast2ast/inst/doc/DetailedDocumentation.html | 1512 +++++---- ast2ast-0.2/ast2ast/inst/doc/InformationForPackageAuthors.R | 193 - ast2ast-0.2/ast2ast/inst/doc/InformationForPackageAuthors.Rmd | 413 +- ast2ast-0.2/ast2ast/inst/doc/InformationForPackageAuthors.html | 1623 ++++++---- ast2ast-0.2/ast2ast/inst/include/etr.hpp | 7 ast2ast-0.2/ast2ast/inst/include/etr_bits/add.hpp | 18 ast2ast-0.2/ast2ast/inst/include/etr_bits/allocation.hpp | 15 ast2ast-0.2/ast2ast/inst/include/etr_bits/checks_na_inf.hpp |only ast2ast-0.2/ast2ast/inst/include/etr_bits/colon.hpp | 30 ast2ast-0.2/ast2ast/inst/include/etr_bits/comparison.hpp | 1 ast2ast-0.2/ast2ast/inst/include/etr_bits/distri.hpp |only ast2ast-0.2/ast2ast/inst/include/etr_bits/divide.hpp | 12 ast2ast-0.2/ast2ast/inst/include/etr_bits/exponent.hpp | 80 ast2ast-0.2/ast2ast/inst/include/etr_bits/header.hpp | 22 ast2ast-0.2/ast2ast/inst/include/etr_bits/mul.hpp | 14 ast2ast-0.2/ast2ast/inst/include/etr_bits/pointer_storage.hpp | 139 ast2ast-0.2/ast2ast/inst/include/etr_bits/print.hpp | 126 ast2ast-0.2/ast2ast/inst/include/etr_bits/subtract.hpp | 12 ast2ast-0.2/ast2ast/inst/include/etr_bits/util.hpp | 15 ast2ast-0.2/ast2ast/inst/include/etr_bits/vec.hpp | 215 - ast2ast-0.2/ast2ast/inst/include/idea_for_adding_SEXP_as_type.cpp |only ast2ast-0.2/ast2ast/inst/tinytest/test_all.R |only ast2ast-0.2/ast2ast/man/translate.Rd | 325 +- ast2ast-0.2/ast2ast/vignettes/DetailedDocumentation.Rmd | 195 - ast2ast-0.2/ast2ast/vignettes/InformationForPackageAuthors.Rmd | 413 +- 38 files changed, 3648 insertions(+), 3002 deletions(-)
Title: Multivariate Functional Principal Component Analysis for Data
Observed on Different Dimensional Domains
Description: Calculate a multivariate functional principal component analysis
for data observed on different dimensional domains. The estimation algorithm
relies on univariate basis expansions for each element of the multivariate
functional data (Happ & Greven, 2018) <doi:10.1080/01621459.2016.1273115>.
Multivariate and univariate functional data objects are
represented by S4 classes for this type of data implemented in the package
'funData'. For more details on the general concepts of both packages and a case
study, see Happ-Kurz (2020) <doi:10.18637/jss.v093.i05>.
Author: Clara Happ-Kurz [aut, cre]
Maintainer: Clara Happ-Kurz <chk_R@gmx.de>
Diff between MFPCA versions 1.3-9 dated 2021-10-17 and 1.3-10 dated 2022-09-15
DESCRIPTION | 14 +++++++------- MD5 | 12 ++++++------ NEWS.md | 7 +++++++ R/univDecomp.R | 4 ++-- R/univariateExpansions.R | 6 +++--- build/partial.rdb |binary configure.ac | 2 +- 7 files changed, 26 insertions(+), 19 deletions(-)
Title: Linear Regression Interface
Description: An interface to accelerate linear regression (Ordinary least squares) modelling, which
allows users to build models quickly, while automatically generating interactive visualizations of the results.
Non-linear models specification (e.g. y = b1*x1 + b2*log(x2)) can be easily constructed using user-defined transformations.
Functions for testing wide ranges of model specifications (e.g. y = b*log(x,10) , y = b*log(x,20) , ...), all at once, are also available.
Finally, models can be imported and exported as Excel files where all the information necessary for re-running the models is stored in separate sheets.
Author: Claudio Paladini [aut, cre]
Maintainer: Claudio Paladini <claudio.paladini@bath.edu>
Diff between linea versions 0.0.3 dated 2022-08-19 and 0.1.1 dated 2022-09-15
DESCRIPTION | 14 MD5 | 55 +-- NAMESPACE | 5 NEWS.md | 20 - R/charting.R | 707 ++++++++++++++++++++++++++---------------- R/global.R | 8 R/google_trends.R | 23 - R/model_file.R | 12 R/model_next_step.R | 225 +++++++------ R/model_run.R | 611 +++++++++++++++++------------------- R/model_spec.R | 78 +++- R/seasonality.R | 2 README.md | 17 - man/add_total_pool.Rd |only man/add_total_pool_to_data.Rd |only man/apply_normalisation.Rd | 17 - man/apply_transformation.Rd | 26 + man/build_formula.Rd | 4 man/decomping.Rd | 7 man/filter_decomp_pool.Rd |only man/get_variable_t.Rd | 76 ++-- man/gt_f.Rd | 2 man/re_run_model.Rd | 11 man/response_curves.Rd | 146 ++++---- man/run_combo_model.Rd | 128 +++---- man/run_model.Rd | 15 man/what_combo.Rd | 155 ++++----- man/what_next.Rd | 65 ++- man/what_trans.Rd | 126 +++---- tests/testthat.R | 91 ++++- 30 files changed, 1505 insertions(+), 1141 deletions(-)
Title: K-Medians
Description: Online, Semi-online, and Offline K-medians algorithms are
given. For both methods, the algorithms can be initialized
randomly or with the help of a robust hierarchical
clustering. The number of clusters can be selected with the
help of a penalized criterion. We provide functions to provide
robust clustering. Function gen_K() enables to generate a sample
of data following a contaminated Gaussian mixture.
Functions Kmedians() and Kmeans() consists in a K-median and a
K-means algorithms while Kplot() enables to produce graph for both
methods.
Cardot, H., Cenac, P. and Zitt, P-A. (2013). "Efficient and fast estimation of the geometric median in Hilbert spaces with an averaged stochastic gradient algorithm". Bernoulli, 19, 18-43. <doi:10.3150/11-BEJ390>.
Cardot, H. and Godichon-Baggioni, A. (2017). "Fast Estimation of the Median Covariation Matrix with Application to Online Robust Principal Components Analysis". Test, 26(3), 461-480 <doi:10.1007/s11749-016-0519-x>.
Godichon-Bagg [...truncated...]
Author: Antoine Godichon-Baggioni [aut, cre, cph],
Sobihan Surendran [aut]
Maintainer: Antoine Godichon-Baggioni <antoine.godichon_baggioni@upmc.fr>
Diff between Kmedians versions 0.1.0 dated 2022-09-06 and 0.2.0 dated 2022-09-15
DESCRIPTION | 7 ++++--- MD5 | 8 ++++---- build/partial.rdb |binary man/Kmedians-package.Rd | 4 ++++ man/Kmedians.Rd | 2 ++ 5 files changed, 14 insertions(+), 7 deletions(-)
Title: Generate, Visualise, and Evaluate Fast-and-Frugal Decision Trees
Description: Create, visualize, and test fast-and-frugal decision trees (FFTs) using the algorithms and methods described in Phillips, Neth, Woike & Gaissmaier (2017).
FFTs are simple and transparent decision trees for solving binary classification problems.
FFTs can be preferable to more complex algorithms because they require very little information, are easy to communicate, and are robust against overfitting.
Author: Nathaniel Phillips [aut] ,
Hansjoerg Neth [aut, cre] ,
Jan Woike [aut] ,
Wolfgang Gaissmaier [aut]
Maintainer: Hansjoerg Neth <h.neth@uni.kn>
Diff between FFTrees versions 1.7.0 dated 2022-08-31 and 1.7.5 dated 2022-09-15
FFTrees-1.7.0/FFTrees/man/comp.pred.Rd |only FFTrees-1.7.0/FFTrees/man/factclean.Rd |only FFTrees-1.7.5/FFTrees/DESCRIPTION | 10 FFTrees-1.7.5/FFTrees/MD5 | 107 - FFTrees-1.7.5/FFTrees/NAMESPACE | 2 FFTrees-1.7.5/FFTrees/NEWS.md | 79 FFTrees-1.7.5/FFTrees/R/FFTrees.R | 28 FFTrees-1.7.5/FFTrees/R/fftrees_apply.R | 9 FFTrees-1.7.5/FFTrees/R/fftrees_create.R | 4 FFTrees-1.7.5/FFTrees/R/fftrees_cuerank.R | 94 FFTrees-1.7.5/FFTrees/R/fftrees_ffttowords.R | 44 FFTrees-1.7.5/FFTrees/R/fftrees_fitcomp.R | 61 FFTrees-1.7.5/FFTrees/R/fftrees_grow_fan.R | 51 FFTrees-1.7.5/FFTrees/R/helper.R | 447 +--- FFTrees-1.7.5/FFTrees/R/helper_plot.R |only FFTrees-1.7.5/FFTrees/R/inwords.R | 47 FFTrees-1.7.5/FFTrees/R/plotFFTrees_function.R | 948 ++++------ FFTrees-1.7.5/FFTrees/R/printFFTrees_function.R | 59 FFTrees-1.7.5/FFTrees/R/summaryFFTrees_function.R | 14 FFTrees-1.7.5/FFTrees/README.md | 73 FFTrees-1.7.5/FFTrees/inst/CITATION | 2 FFTrees-1.7.5/FFTrees/inst/doc/FFTrees_accuracy_statistics.Rmd | 26 FFTrees-1.7.5/FFTrees/inst/doc/FFTrees_accuracy_statistics.html | 25 FFTrees-1.7.5/FFTrees/inst/doc/FFTrees_examples.R | 14 FFTrees-1.7.5/FFTrees/inst/doc/FFTrees_examples.Rmd | 20 FFTrees-1.7.5/FFTrees/inst/doc/FFTrees_examples.html | 34 FFTrees-1.7.5/FFTrees/inst/doc/FFTrees_function.Rmd | 4 FFTrees-1.7.5/FFTrees/inst/doc/FFTrees_function.html | 12 FFTrees-1.7.5/FFTrees/inst/doc/FFTrees_heart.R | 22 FFTrees-1.7.5/FFTrees/inst/doc/FFTrees_heart.Rmd | 42 FFTrees-1.7.5/FFTrees/inst/doc/FFTrees_heart.html | 79 FFTrees-1.7.5/FFTrees/inst/doc/FFTrees_mytree.Rmd | 2 FFTrees-1.7.5/FFTrees/inst/doc/FFTrees_mytree.html | 10 FFTrees-1.7.5/FFTrees/inst/doc/FFTrees_plot.R | 25 FFTrees-1.7.5/FFTrees/inst/doc/FFTrees_plot.Rmd | 109 - FFTrees-1.7.5/FFTrees/inst/doc/FFTrees_plot.html | 106 - FFTrees-1.7.5/FFTrees/inst/doc/guide.Rmd | 6 FFTrees-1.7.5/FFTrees/inst/doc/guide.html | 14 FFTrees-1.7.5/FFTrees/man/FFTrees.Rd | 29 FFTrees-1.7.5/FFTrees/man/classtable.Rd | 13 FFTrees-1.7.5/FFTrees/man/comp_pred.Rd |only FFTrees-1.7.5/FFTrees/man/fact_clean.Rd |only FFTrees-1.7.5/FFTrees/man/fftrees_apply.Rd | 7 FFTrees-1.7.5/FFTrees/man/fftrees_cuerank.Rd | 12 FFTrees-1.7.5/FFTrees/man/fftrees_ffttowords.Rd | 8 FFTrees-1.7.5/FFTrees/man/figures/README-example-heart-plot-1.png |binary FFTrees-1.7.5/FFTrees/man/figures/README-example-heart-verbal-1.png |binary FFTrees-1.7.5/FFTrees/man/inwords.Rd | 14 FFTrees-1.7.5/FFTrees/man/plot.FFTrees.Rd | 92 FFTrees-1.7.5/FFTrees/man/print.FFTrees.Rd | 11 FFTrees-1.7.5/FFTrees/vignettes/FFTrees_accuracy_statistics.Rmd | 26 FFTrees-1.7.5/FFTrees/vignettes/FFTrees_examples.Rmd | 20 FFTrees-1.7.5/FFTrees/vignettes/FFTrees_function.Rmd | 4 FFTrees-1.7.5/FFTrees/vignettes/FFTrees_heart.Rmd | 42 FFTrees-1.7.5/FFTrees/vignettes/FFTrees_mytree.Rmd | 2 FFTrees-1.7.5/FFTrees/vignettes/FFTrees_plot.Rmd | 109 - FFTrees-1.7.5/FFTrees/vignettes/guide.Rmd | 6 57 files changed, 1531 insertions(+), 1493 deletions(-)
Title: Relative Simulator
Description: A set of tools to explore the behaviour statistics used for forensic DNA interpretation when close relatives are involved. The package also offers some useful tools for exploring other forensic DNA situations.
Author: James M. Curran
Maintainer: James M. Curran <j.curran@auckland.ac.nz>
Diff between relSim versions 0.3-1 dated 2019-12-06 and 0.3-3 dated 2022-09-15
relSim-0.3-1/relSim/R/ISweights.R |only relSim-0.3-3/relSim/DESCRIPTION | 12 - relSim-0.3-3/relSim/MD5 | 55 ++--- relSim-0.3-3/relSim/NAMESPACE | 3 relSim-0.3-3/relSim/R/Importance.R |only relSim-0.3-3/relSim/R/RcppExports.R | 28 ++ relSim-0.3-3/relSim/R/calcFStats.R | 4 relSim-0.3-3/relSim/R/calcFst.R | 5 relSim-0.3-3/relSim/R/data-description.R | 2 relSim-0.3-3/relSim/R/lrSibDebug.R | 338 +++++++++++++++---------------- relSim-0.3-3/relSim/R/randomSample.R | 4 relSim-0.3-3/relSim/R/readFreqs.R | 17 + relSim-0.3-3/relSim/R/testIS.R | 2 relSim-0.3-3/relSim/R/toNexus.R | 2 relSim-0.3-3/relSim/inst |only relSim-0.3-3/relSim/man/IS.Rd |only relSim-0.3-3/relSim/man/USCaucs.Rd | 6 relSim-0.3-3/relSim/man/allPairsLR.Rd |only relSim-0.3-3/relSim/man/blockSim.Rd | 14 + relSim-0.3-3/relSim/man/errorRate.Rd | 12 - relSim-0.3-3/relSim/man/fbiCaucs.Rd | 6 relSim-0.3-3/relSim/man/lrPC.Rd | 3 relSim-0.3-3/relSim/man/lrSib.Rd | 3 relSim-0.3-3/relSim/man/readProfiles.Rd | 10 relSim-0.3-3/relSim/man/readResults.Rd | 10 relSim-0.3-3/relSim/man/relSim.Rd | 1 relSim-0.3-3/relSim/man/sim.Rd | 12 - relSim-0.3-3/relSim/man/writePop.Rd | 3 relSim-0.3-3/relSim/src/RcppExports.cpp | 19 + relSim-0.3-3/relSim/src/importance.cpp | 6 relSim-0.3-3/relSim/src/relSim.cpp | 53 ++++ 31 files changed, 392 insertions(+), 238 deletions(-)
Title: Simple Git Client for R
Description: Simple git client for R based on 'libgit2' <https://libgit2.org> with
support for SSH and HTTPS remotes. All functions in 'gert' use basic R data
types (such as vectors and data-frames) for their arguments and return values.
User credentials are shared with command line 'git' through the git-credential
store and ssh keys stored on disk or ssh-agent.
Author: Jeroen Ooms [aut, cre] ,
Jennifer Bryan [ctb]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between gert versions 1.8.0 dated 2022-09-06 and 1.9.0 dated 2022-09-15
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- NAMESPACE | 1 + NEWS | 3 +++ R/credentials.R | 4 ++-- configure | 4 +--- inst/doc/gert.html | 10 +++++----- man/gert-package.Rd | 2 ++ tests/testthat/test-auth.R | 2 +- 9 files changed, 27 insertions(+), 23 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-01-31 0.6.0
2021-12-20 0.5.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-09-04 0.2.1
2022-06-21 0.2.0
2020-04-08 0.1.4
2020-03-20 0.1.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-07-18 0.1.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-03-11 0.2.0