Title: Color Palettes for Pro Sports Teams
Description: Provides color palettes corresponding to professional and amateur,
sports teams. These can be useful in creating data graphics that are themed
for particular teams.
Author: Benjamin S. Baumer [aut, cre],
Gregory J. Matthews [aut],
Luke Benz [ctb],
Arielle Dror [ctb],
Clara Rosenberg [ctb],
Paige Patrick [ctb]
Maintainer: Benjamin S. Baumer <ben.baumer@gmail.com>
Diff between teamcolors versions 0.0.3 dated 2019-11-27 and 0.0.4 dated 2020-01-22
DESCRIPTION | 10 ++--- MD5 | 16 +++++---- NAMESPACE | 4 ++ NEWS.md | 4 ++ R/palettes.R | 74 ++++++++++++++++++++++++++++++++++--------- inst/rmarkdown |only man/league_pal.Rd | 39 +++++++++++++++++++--- tests/testthat/test-colors.R | 14 +++++--- 8 files changed, 125 insertions(+), 36 deletions(-)
Title: Client for the 'Pangaea' Database
Description: Tools to interact with the 'Pangaea' Database
(<https://www.pangaea.de>), including functions for searching for data,
fetching 'datasets' by 'dataset' 'ID', and working with the 'Pangaea'
'OAI-PMH' service.
Author: Scott Chamberlain [aut, cre] (<https://orcid.org/0000-0003-1444-9135>),
Kara Woo [aut],
Andrew MacDonald [aut],
Naupaka Zimmerman [aut],
Gavin Simpson [aut]
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between pangaear versions 0.8.2 dated 2019-09-12 and 1.0.0 dated 2020-01-22
pangaear-0.8.2/pangaear/inst/doc/pangaear_vignette.Rmd |only pangaear-0.8.2/pangaear/inst/doc/pangaear_vignette.html |only pangaear-0.8.2/pangaear/inst/vign |only pangaear-0.8.2/pangaear/vignettes/pangaear_vignette.Rmd |only pangaear-1.0.0/pangaear/DESCRIPTION | 16 pangaear-1.0.0/pangaear/LICENSE | 2 pangaear-1.0.0/pangaear/MD5 | 70 pangaear-1.0.0/pangaear/NEWS.md | 9 pangaear-1.0.0/pangaear/R/caching.R | 18 pangaear-1.0.0/pangaear/R/pg_data.R | 2 pangaear-1.0.0/pangaear/R/pg_search.R | 19 pangaear-1.0.0/pangaear/R/pg_search_es.R | 10 pangaear-1.0.0/pangaear/README.md | 207 - pangaear-1.0.0/pangaear/build/vignette.rds |binary pangaear-1.0.0/pangaear/inst/doc/pangaear.Rmd |only pangaear-1.0.0/pangaear/inst/doc/pangaear.html |only pangaear-1.0.0/pangaear/man/pg_cache.Rd | 3 pangaear-1.0.0/pangaear/man/pg_data.Rd | 2 pangaear-1.0.0/pangaear/man/pg_get_record.Rd | 10 pangaear-1.0.0/pangaear/man/pg_identify.Rd | 10 pangaear-1.0.0/pangaear/man/pg_list_identifiers.Rd | 21 pangaear-1.0.0/pangaear/man/pg_list_metadata_formats.Rd | 10 pangaear-1.0.0/pangaear/man/pg_list_records.Rd | 22 pangaear-1.0.0/pangaear/man/pg_list_sets.Rd | 11 pangaear-1.0.0/pangaear/man/pg_search.Rd | 27 pangaear-1.0.0/pangaear/man/pg_search_es.Rd | 29 pangaear-1.0.0/pangaear/tests/fixtures/pg_get_record.yml | 18 pangaear-1.0.0/pangaear/tests/fixtures/pg_identify.yml | 16 pangaear-1.0.0/pangaear/tests/fixtures/pg_identify2.yml | 16 pangaear-1.0.0/pangaear/tests/fixtures/pg_list_metadata_formats.yml | 16 pangaear-1.0.0/pangaear/tests/fixtures/pg_list_sets.yml | 20 pangaear-1.0.0/pangaear/tests/fixtures/pg_search.yml | 102 pangaear-1.0.0/pangaear/tests/fixtures/pg_search_es.yml | 1785 ---------- pangaear-1.0.0/pangaear/tests/fixtures/pg_search_es_pagination.yml | 346 - pangaear-1.0.0/pangaear/tests/fixtures/pg_search_pagination.yml | 51 pangaear-1.0.0/pangaear/tests/testthat/helper-pangaear.R | 2 pangaear-1.0.0/pangaear/tests/testthat/test-pg_data.R | 25 pangaear-1.0.0/pangaear/tests/testthat/test-pg_search_es.R | 10 pangaear-1.0.0/pangaear/vignettes/pangaear.Rmd |only 39 files changed, 388 insertions(+), 2517 deletions(-)
Title: Minimization Randomization
Description: Randomization schedules are generated in the schemes with k (k>=2) treatment groups and any allocation ratios by minimization algorithms.
Author: Man Jin [aut, cre],
Adam Polis [aut],
Jonathan Hartzel [aut]
Maintainer: Man Jin <mj2149@gmail.com>
Diff between Minirand versions 0.1.2 dated 2020-01-10 and 0.1.3 dated 2020-01-22
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- man/Minirand.Rd | 4 ++-- 3 files changed, 8 insertions(+), 8 deletions(-)
Title: Miscellaneous Utilities and Functions
Description: Miscellaneous tools and functions,
including: generate descriptive statistics tables,
format output, visualize relations among variables or check
distributions, and generic functions for residual and
model diagnostics.
Author: Joshua F. Wiley [aut, cre] (<https://orcid.org/0000-0002-0271-6702>)
Maintainer: Joshua F. Wiley <jwiley.psych@gmail.com>
Diff between JWileymisc versions 1.0.1 dated 2019-12-11 and 1.1.0 dated 2020-01-22
DESCRIPTION | 10 - MD5 | 146 ++++++++-------- NAMESPACE | 3 NEWS.md | 5 R/styler.R | 65 +++++++ build/vignette.rds |binary inst/doc/diagnostics-vignette.R | 22 +- inst/doc/diagnostics-vignette.html | 7 inst/doc/exploratory-vignette.R | 48 ++--- inst/doc/exploratory-vignette.html | 19 +- inst/doc/model-test-vignette.R | 12 - inst/doc/model-test-vignette.html | 23 +- man/APAStyler.Rd | 30 +-- man/APAStyler.SEMSummary.Rd | 84 +++++---- man/APAStyler.list.Rd | 86 +++++---- man/APAStyler.lm.Rd | 44 ++--- man/APAStyler.mira.Rd | 49 ++--- man/APAStyler.modelTest.lm.Rd | 104 ++++++----- man/APAStyler.modelTest.vglm.Rd | 179 ++++++++++---------- man/CheckVals.Rd | 44 ++--- man/R2.Rd | 60 +++--- man/SEMSummary.Rd | 201 +++++++++++----------- man/SEMSummary.fit.Rd | 83 ++++----- man/TukeyHSDgg.Rd | 94 +++++----- man/VAConverter.Rd | 190 +++++++++++---------- man/VAObject-class.Rd | 161 +++++++++--------- man/VASummaryObject-class.Rd | 92 +++++----- man/aces_daily.Rd | 84 ++++----- man/as.na.Rd | 56 +++--- man/cd.Rd | 94 +++++----- man/compareIVs.Rd | 89 +++++----- man/cor2cov.Rd | 66 +++---- man/corOK.Rd | 110 ++++++------ man/corplot.Rd | 201 +++++++++++----------- man/cramerV.Rd | 46 ++--- man/dot-fround.Rd | 36 ++-- man/dot-quantilePercentiles.Rd | 64 +++---- man/egltable.Rd | 221 +++++++++++++------------ man/empirical_pvalue.Rd | 60 +++--- man/f.r2.Rd | 48 ++--- man/findSigRegions.Rd | 88 +++++----- man/formatHtest.Rd | 77 ++++---- man/formatMedIQR.Rd | 50 ++--- man/formatPval.Rd | 90 +++++----- man/gglikert.Rd | 134 ++++++++------- man/intSigRegGraph.Rd | 126 +++++++------- man/internalcompareIV.Rd | 91 +++++----- man/internalformulaIt.Rd | 60 +++--- man/internalrunIt.Rd | 50 ++--- man/lagk.Rd | 50 ++--- man/meanCircular.Rd | 64 +++---- man/modelCompare.Rd | 104 +++++------ man/modelDiagnostics.Rd | 170 ++++++++++--------- man/modelPerformance.Rd | 134 +++++++-------- man/modelTest.Rd | 188 ++++++++++----------- man/moments.Rd | 108 ++++++------ man/naz.omit.Rd | 56 +++--- man/param_summary.Rd | 66 +++---- man/param_summary_format.Rd | 72 ++++---- man/plot.SEMSummary.Rd | 68 +++---- man/plot.SEMSummary.list.Rd | 56 +++--- man/plot.modelDiagnostics.lm.Rd | 91 +++++----- man/plot.residualDiagnostics.Rd | 91 +++++----- man/plot.testDistribution.Rd | 221 +++++++++++++------------ man/residualDiagnostics.Rd | 174 ++++++++++--------- man/roundedfivenum.Rd | 56 +++--- man/scoring.Rd | 180 +++++++++++--------- man/smd.Rd | 70 +++---- man/star.Rd | 48 ++--- man/testDistribution.Rd | 324 ++++++++++++++++++------------------- man/timeshift.Rd | 78 ++++---- man/vainternal.Rd | 230 +++++++++++++------------- man/winsorizor.Rd | 100 +++++------ tests/testthat/test-modelTest.R | 2 74 files changed, 3415 insertions(+), 3188 deletions(-)
Title: Interface to the CIMIS Web API
Description: Connect to the California Irrigation Management
Information System (CIMIS) Web API. See the CIMIS main page
<https://cimis.water.ca.gov> and web API documentation
<https://et.water.ca.gov> for more information.
Author: Michael Koohafkan [aut, cre]
Maintainer: Michael Koohafkan <michael.koohafkan@gmail.com>
Diff between cimir versions 0.3-0 dated 2019-06-10 and 0.4-0 dated 2020-01-22
DESCRIPTION | 16 - MD5 | 57 +++--- NAMESPACE | 4 NEWS.md | 42 +++-- R/query.r | 45 ++++- R/setup.r | 7 R/sysdata.rda |binary R/util.r | 54 +++++- build/vignette.rds |binary inst/doc/helper_functions.html |only inst/doc/helper_functions.rmd |only inst/doc/quickstart.Rmd | 205 +++++++++++++++---------- inst/doc/quickstart.html | 327 ++++++++++++++++++++++------------------ man/basic_query.Rd | 34 ++-- man/bind_records.Rd | 36 ++-- man/cimir-defunct.Rd | 130 ++++++++------- man/cimir.Rd | 82 +++++----- man/cimir_handle.Rd | 22 +- man/cimis_compass_to_degrees.Rd | 57 +++--- man/cimis_data.Rd | 130 ++++++++------- man/cimis_degrees_to_compass.Rd |only man/cimis_flags.Rd |only man/cimis_format_location.Rd | 62 +++---- man/cimis_items.Rd | 40 ++-- man/cimis_split_query.Rd | 121 +++++++------- man/cimis_station.Rd | 68 ++++---- man/cimis_to_datetime.Rd | 60 +++---- man/dataitems.Rd | 26 +-- man/record_to_df.Rd | 36 ++-- man/set_key.Rd | 54 +++--- vignettes/helper_functions.rmd |only vignettes/quickstart.Rmd | 205 +++++++++++++++---------- 32 files changed, 1080 insertions(+), 840 deletions(-)
Title: 'Htmlwidget' for 'Vega' and 'Vega-Lite'
Description: 'Vega' and 'Vega-Lite' parse text in 'JSON' notation to render
chart-specifications into 'HTML'. This package is used to facilitate the
rendering. It also provides a means to interact with signals, events,
and datasets in a 'Vega' chart using 'JavaScript' or 'Shiny'.
Author: Ian Lyttle [aut, cre] (<https://orcid.org/0000-0001-9962-4849>),
Vega/Vega-Lite Developers [aut],
Alicia Schep [ctb] (<https://orcid.org/0000-0002-3915-0618>),
Stuart Lee [ctb],
Kanit Wongsuphasawat [ctb] (Vega/Vega-Lite library),
Dominik Moritz [ctb] (Vega/Vega-Lite library),
Arvind Satyanarayan [ctb] (Vega/Vega-Lite library),
Jeffrey Heer [ctb] (Vega/Vega-Lite library),
Mike Bostock [ctb] (D3 library),
David Frank [ctb] (node-fetch library)
Maintainer: Ian Lyttle <ian.lyttle@schneider-electric.com>
Diff between vegawidget versions 0.2.1 dated 2019-06-24 and 0.3.1 dated 2020-01-22
vegawidget-0.2.1/vegawidget/inst/schema/vega-lite/v3.3.0.json |only vegawidget-0.2.1/vegawidget/inst/schema/vega/v5.4.0.json |only vegawidget-0.3.1/vegawidget/DESCRIPTION | 11 vegawidget-0.3.1/vegawidget/MD5 | 64 ++-- vegawidget-0.3.1/vegawidget/NEWS.md | 10 vegawidget-0.3.1/vegawidget/R/autosize.R | 2 vegawidget-0.3.1/vegawidget/R/print.R | 4 vegawidget-0.3.1/vegawidget/R/sysdata.rda |binary vegawidget-0.3.1/vegawidget/R/vega-embed.R | 26 + vegawidget-0.3.1/vegawidget/README.md | 8 vegawidget-0.3.1/vegawidget/build/vignette.rds |binary vegawidget-0.3.1/vegawidget/data/spec_mtcars.rda |binary vegawidget-0.3.1/vegawidget/inst/doc/vegawidget.html | 134 ++++++++-- vegawidget-0.3.1/vegawidget/inst/htmlwidgets/lib/vega-embed/vega-embed.js | 27 +- vegawidget-0.3.1/vegawidget/inst/htmlwidgets/lib/vega-lite/vega-lite.min.js | 16 + vegawidget-0.3.1/vegawidget/inst/htmlwidgets/lib/vega/vega.min.js | 2 vegawidget-0.3.1/vegawidget/inst/htmlwidgets/vegawidget.yaml | 6 vegawidget-0.3.1/vegawidget/inst/schema/vega-lite/v4.0.2.json |only vegawidget-0.3.1/vegawidget/inst/schema/vega/v5.9.0.json |only vegawidget-0.3.1/vegawidget/inst/shiny-demo/data-set-gapminder/server.R | 17 + vegawidget-0.3.1/vegawidget/inst/shiny-demo/data-set-montecarlo/readme.md | 2 vegawidget-0.3.1/vegawidget/inst/shiny-demo/signal-set-get/server.R | 6 vegawidget-0.3.1/vegawidget/man/figures/README-vegawidget-1.svg | 2 vegawidget-0.3.1/vegawidget/man/glue_js.Rd | 2 vegawidget-0.3.1/vegawidget/man/image.Rd | 3 vegawidget-0.3.1/vegawidget/man/use_vegawidget.Rd | 2 vegawidget-0.3.1/vegawidget/man/vega_embed.Rd | 55 ++-- vegawidget-0.3.1/vegawidget/man/vegawidget.Rd | 11 vegawidget-0.3.1/vegawidget/man/vw_examine.Rd | 12 vegawidget-0.3.1/vegawidget/man/vw_handler_signal.Rd | 2 vegawidget-0.3.1/vegawidget/tests/reference/mtcars.svg | 2 vegawidget-0.3.1/vegawidget/tests/spec/spec_mtcars.vg.5.json | 128 ++++++--- vegawidget-0.3.1/vegawidget/tests/testthat/test-autosize.R | 27 +- vegawidget-0.3.1/vegawidget/tests/testthat/test-spec-version.R | 4 vegawidget-0.3.1/vegawidget/vignettes/articles/javascript.Rmd | 6 35 files changed, 439 insertions(+), 152 deletions(-)
Title: Simple Tools for Examining and Cleaning Dirty Data
Description: The main janitor functions can: perfectly format data.frame column
names; provide quick counts of variable combinations (i.e., frequency
tables and crosstabs); and isolate duplicate records. Other janitor functions
nicely format the tabulation results. These tabulate-and-report functions
approximate popular features of SPSS and Microsoft Excel. This package
follows the principles of the "tidyverse" and works well with the pipe function
%>%. janitor was built with beginning-to-intermediate R users in mind and is
optimized for user-friendliness. Advanced R users can already do everything
covered here, but with janitor they can do it faster and save their thinking for
the fun stuff.
Author: Sam Firke [aut, cre],
Bill Denney [ctb],
Chris Haid [ctb],
Ryan Knight [ctb],
Malte Grosser [ctb]
Maintainer: Sam Firke <samuel.firke@gmail.com>
Diff between janitor versions 1.2.0 dated 2019-04-21 and 1.2.1 dated 2020-01-22
DESCRIPTION | 8 LICENSE | 4 MD5 | 172 ++-- NAMESPACE | 98 +- NEWS.md | 465 +++++------ R/adorn_crosstab.R | 194 ++-- R/adorn_ns.R | 198 ++--- R/adorn_pct_formatting.R | 104 +- R/adorn_percentages.R | 148 +-- R/adorn_rounding.R | 92 +- R/adorn_title.R | 176 ++-- R/adorn_totals.R | 234 ++--- R/as_and_untabyl.R | 182 ++-- R/clean_names.R | 172 ++-- R/compare_df_cols.R | 546 ++++++------- R/convert_to_NA.R | 92 +- R/crosstab.R | 256 +++--- R/excel_dates.R | 172 ++-- R/get_dupes.R | 132 +-- R/get_level_groups.R | 56 - R/janitor.R | 60 - R/janitor_deprecated.R | 26 R/make_clean_names.R | 216 ++--- R/print_tabyl.R | 10 R/remove_empties.R | 218 ++--- R/round_half_up.R | 48 - R/round_to_fraction.R | 114 +- R/row_to_names.R | 84 +- R/tabyl.R | 606 +++++++-------- R/tests.R | 378 ++++----- R/top_levels.R | 120 +-- R/use_first_valid_of.R | 160 ++-- R/utils.R | 32 README.md | 550 ++++++------- build/vignette.rds |binary inst/doc/janitor.R | 162 ++-- inst/doc/janitor.Rmd | 398 +++++----- inst/doc/janitor.html | 1067 ++++++++++++++++++++------- inst/doc/tabyls.R | 186 ++-- inst/doc/tabyls.Rmd | 422 +++++----- inst/doc/tabyls.html | 1141 +++++++++++++++++++++-------- man/adorn_crosstab.Rd | 10 man/adorn_pct_formatting.Rd | 8 man/adorn_rounding.Rd | 8 man/adorn_totals.Rd | 3 man/clean_names.Rd | 10 man/compare_df_cols.Rd | 13 man/compare_df_cols_same.Rd | 12 man/crosstab.Rd | 3 man/describe_class.Rd | 5 man/excel_numeric_to_date.Rd | 9 man/janitor.Rd | 1 man/janitor_deprecated.Rd | 2 man/make_clean_names.Rd | 9 man/pipe.Rd | 2 man/remove_constant.Rd | 3 man/remove_empty.Rd | 3 man/remove_empty_cols.Rd | 2 man/remove_empty_rows.Rd | 2 man/row_to_names.Rd | 3 man/tabyl.Rd | 6 tests/testthat.R | 8 tests/testthat/test-add-totals.R | 592 +++++++-------- tests/testthat/test-adorn-crosstab.R | 332 ++++---- tests/testthat/test-adorn-ns.R | 322 ++++---- tests/testthat/test-adorn-pct-formatting.R | 312 +++---- tests/testthat/test-adorn-percentages.R | 314 +++---- tests/testthat/test-adorn-rounding.R | 190 ++-- tests/testthat/test-adorn-title.R | 330 ++++---- tests/testthat/test-clean-NAs.R | 96 +- tests/testthat/test-clean-names.R | 332 ++++---- tests/testthat/test-compare_df_cols.R | 644 ++++++++-------- tests/testthat/test-crosstab.R | 314 +++---- tests/testthat/test-date-conversion.R | 196 ++-- tests/testthat/test-get-dupes.R | 78 - tests/testthat/test-get-level-groups.R | 56 - tests/testthat/test-remove-empties.R | 248 +++--- tests/testthat/test-round_to_fraction.R | 164 ++-- tests/testthat/test-row-to-names.R | 166 ++-- tests/testthat/test-tabyl-classifiers.R | 158 ++-- tests/testthat/test-tabyl.R | 735 +++++++++--------- tests/testthat/test-tests.R | 204 ++--- tests/testthat/test-top-levels.R | 130 +-- tests/testthat/test-use-first-valid-of.R | 170 ++-- tests/testthat/test-utilities.R | 24 vignettes/janitor.Rmd | 398 +++++----- vignettes/tabyls.Rmd | 422 +++++----- 87 files changed, 8867 insertions(+), 7681 deletions(-)
Title: Parametric Voice Synthesis
Description: Tools for sound synthesis and acoustic analysis.
Performs parametric synthesis of sounds with harmonic and noise components
such as animal vocalizations or human voice. Also includes tools for
spectral analysis, pitch tracking, audio segmentation, self-similarity
matrices, morphing, etc.
Author: Andrey Anikin [aut, cre]
Maintainer: Andrey Anikin <rty.anik@rambler.ru>
Diff between soundgen versions 1.6.0 dated 2019-12-09 and 1.6.1 dated 2020-01-22
DESCRIPTION | 8 MD5 | 62 - NEWS | 19 R/SSM.R | 2 R/formants.R | 47 - R/presets.R | 30 R/smoothContours.R | 64 + R/soundgen.R | 133 ++- R/source.R | 123 ++- R/utilities_soundgen.R | 8 R/vtl.R | 3 build/vignette.rds |binary data/defaults.rda |binary data/permittedValues.rda |binary inst/doc/acoustic_analysis.R | 18 inst/doc/acoustic_analysis.Rmd | 24 inst/doc/acoustic_analysis.html | 127 +-- inst/doc/sound_generation.R | 169 +++- inst/doc/sound_generation.Rmd | 261 ++++--- inst/doc/sound_generation.html | 1297 +++++++++++++++++++------------------- inst/shiny/soundgen_main/server.R | 12 inst/shiny/soundgen_main/ui.R | 4 man/divideIntoSyllables.Rd | 5 man/drawContour.Rd | 11 man/generateHarmonics.Rd | 4 man/generateNoise.Rd | 24 man/getDiscreteContour.Rd | 4 man/getSmoothContour.Rd | 10 man/getSpectralEnvelope.Rd | 10 man/soundgen.Rd | 47 - vignettes/acoustic_analysis.Rmd | 24 vignettes/sound_generation.Rmd | 261 ++++--- 32 files changed, 1612 insertions(+), 1199 deletions(-)
Title: Mark-Recapture Distance Sampling
Description: Animal abundance estimation via conventional, multiple covariate
and mark-recapture distance sampling (CDS/MCDS/MRDS). Detection function
fitting is performed via maximum likelihood. Also included are diagnostics
and plotting for fitted detection functions. Abundance estimation is via a
Horvitz-Thompson-like estimator.
Author: Jeff Laake <jeff.laake@noaa.gov>, David Borchers
<dlb@st-and.ac.uk>, Len Thomas <len.thomas@st-and.ac.uk>, David
Miller <dave@ninepointeightone.net> and Jon Bishop
Maintainer: Laura Marshall <lhm@st-andrews.ac.uk>
Diff between mrds versions 2.2.0 dated 2018-06-27 and 2.2.1 dated 2020-01-22
DESCRIPTION | 8 +- MD5 | 131 ++++++++++++++++++------------------- NAMESPACE | 3 NEWS | 11 +++ R/create.ddfobj.R | 3 R/create.model.frame.R | 17 +++- R/ddf.R | 2 R/ddf.ds.R | 4 - R/ddf.io.R | 16 ++-- R/ddf.io.fi.R | 99 ++++++++++++++------------- R/detfct.fit.R | 9 ++ R/detfct.fit.opt.R | 2 R/dht.R | 7 + R/dht.se.R | 12 +-- R/flnl.R | 2 R/mrds-package.R | 3 R/predict.ds.R | 76 +++++++++++++++++---- R/process.data.R | 8 ++ R/setcov.R | 2 R/solvecov.R | 15 +++- R/varn.R | 11 ++- README.md | 15 +++- data/book.tee.data.rda |binary man/cds.Rd | 12 ++- man/check.mono.Rd | 10 ++ man/create.ddfobj.Rd | 2 man/ddf.Rd | 14 +++ man/ddf.ds.Rd | 3 man/ddf.gof.Rd | 11 ++- man/ddf.io.Rd | 3 man/ddf.io.fi.Rd | 3 man/ddf.rem.Rd | 3 man/ddf.rem.fi.Rd | 3 man/ddf.trial.Rd | 3 man/ddf.trial.fi.Rd | 3 man/detfct.fit.Rd | 2 man/dht.Rd | 11 ++- man/dht.se.Rd | 12 ++- man/ds.function.Rd | 10 ++ man/gstdint.Rd | 14 +++ man/histline.Rd | 15 +++- man/integratepdf.Rd | 12 ++- man/io.glm.Rd | 10 ++ man/lfgcwa.Rd | 6 - man/mcds.Rd | 11 ++- man/mrds-package.Rd | 3 man/nlminb_wrapper.Rd | 14 +++ man/pdot.dsr.integrate.logistic.Rd | 14 +++ man/plot.det.tables.Rd | 12 ++- man/plot.ds.Rd | 25 +++++-- man/plot.io.Rd | 25 +++++-- man/plot.io.fi.Rd | 25 +++++-- man/plot.rem.Rd | 25 +++++-- man/plot.rem.fi.Rd | 25 +++++-- man/plot.trial.Rd | 25 +++++-- man/plot.trial.fi.Rd | 25 +++++-- man/plot_cond.Rd | 25 +++++-- man/plot_uncond.Rd | 26 ++++++- man/predict.ds.Rd | 18 +++-- man/print.dht.Rd | 3 man/rem.glm.Rd | 11 ++- man/setcov.Rd | 2 man/solvecov.Rd |only man/summary.io.fi.Rd | 3 man/summary.rem.fi.Rd | 3 man/summary.trial.fi.Rd | 3 man/varn.Rd | 3 67 files changed, 657 insertions(+), 287 deletions(-)
Title: Bootstrap Methods for Various Network Estimation Routines
Description: Bootstrap methods to assess accuracy and stability of estimated network structures
and centrality indices. Allows for flexible specification of any undirected network
estimation procedure in R, and offers default sets for 'qgraph', 'IsingFit', 'IsingSampler',
'glasso', 'huge' and 'parcor' packages.
Author: Sacha Epskamp [aut, cre],
Eiko I. Fried [ctb]
Maintainer: Sacha Epskamp <mail@sachaepskamp.com>
Diff between bootnet versions 1.2.4 dated 2019-08-08 and 1.3 dated 2020-01-22
DESCRIPTION | 6 MD5 | 28 +- NAMESPACE | 3 NEWS | 13 + R/Smetric.R | 15 - R/bootnet.R | 56 ++-- R/checkInput.R | 619 ++++++++++++++++++++++++------------------------- R/defaultFunctions.R | 415 +++++++++++++++++++------------- R/estimateNetwork.R | 48 ++- R/netSimulator.R | 27 +- R/plotMethod.R | 7 R/simGraph.R | 2 man/bootnet.Rd | 29 -- man/estimateNetwork.Rd | 288 +++++++--------------- man/ggmGenerator.Rd | 12 15 files changed, 790 insertions(+), 778 deletions(-)
Title: Entropy Partitioning to Measure Diversity
Description: Measurement and partitioning of diversity, based on Tsallis entropy, following Marcon and Herault (2015) <doi:10.18637/jss.v067.i08>.
'entropart' provides functions to calculate alpha, beta and gamma diversity of communities, including phylogenetic and functional diversity.
Estimation-bias corrections are available.
Author: Eric Marcon [aut, cre] (<https://orcid.org/0000-0002-5249-321X>),
Bruno Herault [aut] (<https://orcid.org/0000-0002-6950-7286>)
Maintainer: Eric Marcon <eric.marcon@ecofog.gf>
Diff between entropart versions 1.6-3 dated 2020-01-08 and 1.6-4 dated 2020-01-22
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- NEWS.md | 8 ++++++++ R/AllenH.R | 4 ++-- R/ChaoPD.R | 2 +- R/Preprocess.Tree.R | 18 ++++++++++++++++++ 6 files changed, 39 insertions(+), 13 deletions(-)
Title: Functions Supporting Packages ChemoSpec and ChemoSpec2D
Description: Functions supporting the common needs of packages 'ChemoSpec' and 'ChemoSpec2D'.
Author: Bryan A. Hanson [aut, cre] (<https://orcid.org/0000-0003-3536-8246>)
Maintainer: Bryan A. Hanson <hanson@depauw.edu>
Diff between ChemoSpecUtils versions 0.3.60 dated 2019-12-06 and 0.4.38 dated 2020-01-22
DESCRIPTION | 12 ++-- MD5 | 41 ++++++++------ NAMESPACE | 7 ++ NEWS.md | 6 ++ R/checkForPackageWithVersion.R | 2 R/colorSymbol.R | 77 +++++++++++++++++++++++++-- R/distPlot.R |only R/groupNcolor.R | 107 ++++++++++++++++++++++++++++---------- R/hcaScores.R | 4 - R/plotScores.R | 4 - R/removeFreq.R | 3 - R/removeFreq.Spectra.R | 17 ++++-- R/removeFreq.Spectra2D.R | 5 - R/sampleDist.R |only R/sampleDist.Spectra.R |only R/sampleDist.Spectra2D.R |only data |only man/checkForPackageWithVersion.Rd | 2 man/colorSymbol.Rd | 77 +++++++++++++++++++++++++-- man/hcaScores.Rd | 4 - man/plotScores.Rd | 4 - man/removeFreq.Rd | 3 - man/sampleDist.Rd |only 23 files changed, 297 insertions(+), 78 deletions(-)
More information about ChemoSpecUtils at CRAN
Permanent link
More information about PoissonBinomial at CRAN
Permanent link
Title: Statistical Modelling for Plant Size Distributions
Description: Developed for the following tasks. I) Computing the probability density function, cumulative distribution function, random generation, and estimating the parameters of the eleven mixture models including mixture of Birnbaum-Saunders, BurrXII, Chen, F, Frechet, gamma, Gompertz, log-logistic, log-normal, Lomax, and Weibull. II) Point estimation of the parameters of two- and three-parameter Weibull distributions. In the case of two-parameter, twelve methods consist of generalized least square type 1, generalized least square type 2, L-moment, maximum likelihood, logarithmic moment, moment, percentile, rank correlation, least square, weighted maximum likelihood, U-statistic, weighted least square are used and investigated methods for the three-parameter case are: maximum likelihood, modified moment type 1, modified moment type 2, modified moment type 3, modified maximum likelihood type 1, modified maximum likelihood type 2, modified maximum likelihood type 3, modified maximum likelihood type 4, moment, maximum product spacing, T-L moment, and weighted maximum likelihood. III) The Bayesian estimators of the three-parameter Weibull distribution developed by Green et al. (1994) <doi:10.2307/2533217>. IV) Estimating parameters of the three-parameter Birnbaum-Saunders, generalized exponential, and Weibull distributions fitted to grouped data using three methods including approximated maximum likelihood, expectation maximization, and maximum likelihood. V) Estimating the parameters of the gamma, log-normal, and Weibull mixture models fitted to the grouped data through the EM algorithm, VI) Estimating parameters of the nonlinear height curve fitted to the height-diameter observation, and VII) estimating parameters, computing probability density function, cumulative distribution function, and generating realizations from gamma shape mixture model introduced by Venturini et al. (2008) <doi:10.1214/07-AOAS156>.
Author: Mahdi Teimouri
Maintainer: Mahdi Teimouri <teimouri@aut.ac.ir>
Diff between ForestFit versions 0.4.6 dated 2019-11-29 and 0.4.7 dated 2020-01-22
ForestFit-0.4.6/ForestFit/man/fitgrowth.Rd |only ForestFit-0.4.6/ForestFit/man/zzz.Rd |only ForestFit-0.4.7/ForestFit/DESCRIPTION | 12 ++++++------ ForestFit-0.4.7/ForestFit/MD5 | 10 +++++----- ForestFit-0.4.7/ForestFit/R/ForestFit.R | 5 ++--- ForestFit-0.4.7/ForestFit/R/zzz.R | 20 ++++++++++---------- ForestFit-0.4.7/ForestFit/man/fitcurve.Rd |only ForestFit-0.4.7/ForestFit/man/welcome.Rd |only 8 files changed, 23 insertions(+), 24 deletions(-)
Title: Business Process Analysis in R
Description: Comprehensive Business Process Analysis toolkit. Creates S3-class for event log objects, and related handler functions. Imports related packages for filtering event data, computation of descriptive statistics, handling of 'Petri Net' objects and visualization of process maps. See also packages 'edeaR','processmapR', 'eventdataR' and 'processmonitR'.
Author: Gert Janssenswillen [aut, cre],
Felix Mannhardt [ctb],
Niels Martin [ctb],
Greg Van Houdt [ctb]
Maintainer: Gert Janssenswillen <gert.janssenswillen@uhasselt.be>
Diff between bupaR versions 0.4.2 dated 2019-02-19 and 0.4.3 dated 2020-01-22
DESCRIPTION | 25 ++++---- MD5 | 101 +++++++++++++++++++-------------- NAMESPACE | 76 ++++++++++++++++++++++++ R/activities.R | 19 ++++++ R/activity_id.R | 12 +++ R/activity_instance_id.R | 17 +++++ R/activitylog.R |only R/assign_instance_id.R |only R/case_id.r | 14 ++++ R/case_list.R | 25 ++++---- R/cases.r | 10 +++ R/convert_timestamps.R |only R/detect_resource_inconsistencies.R |only R/eventlog.R | 7 +- R/events_to_activitylog.R |only R/fix_resource_inconsistencies.R |only R/lifecycle_id.R | 18 +++++ R/lifecycle_ids.R |only R/lifecycles.R |only R/mapping.R | 14 ++++ R/n_cases.R | 5 + R/re_map.R | 41 +++++++++---- R/resource_id.R | 12 +++ R/sample_n.eventlog.R | 13 +++- R/simple_eventlog.R | 15 +++- R/standardize_lifecycle.R |only R/timestamp.R | 14 ++++ R/trace_list.R | 31 +++++----- R/utils.R | 39 ++++++++++++ man/act_collapse.Rd | 1 man/act_recode.Rd | 1 man/act_unite.Rd | 1 man/activity_id.Rd | 17 ++++- man/activity_instance_id.Rd | 17 ++++- man/activitylog.Rd |only man/assign_instance_id.Rd |only man/case_id.Rd | 16 ++++- man/case_labels.Rd | 5 + man/convert_timestamps.Rd |only man/detect_resource_inconsistencies.Rd |only man/eventlog.Rd | 5 - man/events_to_activitylog.Rd |only man/fix_resource_inconsistencies.Rd |only man/lifecycle_id.Rd | 16 ++++- man/lifecycle_ids.Rd |only man/lifecycle_labels.Rd |only man/lifecycles.Rd |only man/mapping.Rd | 11 ++- man/n_activities.Rd | 1 man/n_activity_instances.Rd | 1 man/n_cases.Rd | 6 + man/n_events.Rd | 1 man/n_resources.Rd | 1 man/n_traces.Rd | 1 man/re_map.Rd | 6 - man/reexports.Rd | 14 ++++ man/resource_id.Rd | 16 ++++- man/sample_n.Rd | 7 +- man/simple_eventlog.Rd | 8 +- man/standardize_lifecycle.Rd |only man/timestamp.Rd | 16 ++++- 61 files changed, 546 insertions(+), 130 deletions(-)
Title: An Extended Rao-Stirling Diversity Index to Handle Missing Data
Description: A collection of functions to compute the Rao-Stirling diversity index
(Porter and Rafols, 2009) <DOI:10.1007/s11192-008-2197-2> and its extension to
acknowledge missing data (i.e., uncategorized references) by calculating its
interval of uncertainty using mathematical optimization as proposed in Calatrava
et al. (2016) <DOI:10.1007/s11192-016-1842-4>.
The Rao-Stirling diversity index is a well-established bibliometric indicator
to measure the interdisciplinarity of scientific publications. Apart from the
obligatory dataset of publications with their respective references and a
taxonomy of disciplines that categorizes references as well as a measure of
similarity between the disciplines, the Rao-Stirling diversity index requires
a complete categorization of all references of a publication into disciplines.
Thus, it fails for a incomplete categorization; in this case, the robust
extension has to be used, which encodes the uncertainty caused by missing
bibliographic data as an uncertainty interval.
Classification / ACM - 2012: Information systems ~ Similarity measures,
Theory of computation ~ Quadratic programming, Applied computing ~ Digital
libraries and archives.
Author: María del Carmen Calatrava Moreno [aut, cre],
Thomas Auzinger [aut]
Maintainer: María del Carmen Calatrava Moreno
<mc.calatrava.moreno@gmail.com>
Diff between robustrao versions 1.0-3 dated 2017-08-14 and 1.0-4 dated 2020-01-22
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- R/call_indices.R | 7 ++++--- 3 files changed, 10 insertions(+), 9 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-05-09 2.5.0
2018-03-05 1.6.8
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-11-06 0.2.4
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-11-15 0.13.5
2018-08-25 0.13.0
2018-02-22 0.12.7
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-11-06 0.2.3
2018-05-09 0.2.2
Title: R Commander
Description: A platform-independent basic-statistics GUI (graphical user interface) for R, based on the tcltk package.
Author: John Fox [aut, cre],
Milan Bouchet-Valat [aut],
Liviu Andronic [ctb],
Michael Ash [ctb],
Theophilius Boye [ctb],
Stefano Calza [ctb],
Andy Chang [ctb],
Philippe Grosjean [ctb],
Richard Heiberger [ctb],
Kosar Karimi Pour [ctb],
G. Jay Kerns [ctb],
Renaud Lancelot [ctb],
Matthieu Lesnoff [ctb],
Uwe Ligges [ctb],
Samir Messad [ctb],
Martin Maechler [ctb],
Robert Muenchen [ctb],
Duncan Murdoch [ctb],
Erich Neuwirth [ctb],
Dan Putler [ctb],
Brian Ripley [ctb],
Miroslav Ristic [ctb],
Peter Wolf [ctb],
Kevin Wright [ctb]
Maintainer: John Fox <jfox@mcmaster.ca>
Diff between Rcmdr versions 2.6-1 dated 2019-11-21 and 2.6-2 dated 2020-01-22
DESCRIPTION | 8 ++++---- MD5 | 19 ++++++++++++------- NEWS | 6 ++++++ R/file-menu.R | 4 ++-- build |only inst/doc/Commander-ru.pdf |binary inst/doc/Getting-Started-with-the-Rcmdr.R |only inst/doc/Getting-Started-with-the-Rcmdr.Rnw |only inst/doc/Getting-Started-with-the-Rcmdr.pdf |binary inst/po/hu |only man/Rcmdr-package.Rd | 5 +++-- po/R-Rcmdr.pot | 15 +++++++++++---- po/R-hu.po |only 13 files changed, 38 insertions(+), 19 deletions(-)
Title: Development Utilities for R Packages
Description: Provides some low-level utilities to use for package
development. It currently provides managers for multiple package specific
options and registries, vignette, unit test and bibtex related utilities.
It serves as a base package for packages like NMF, RcppOctave, doRNG, and
as an incubator package for other general purposes utilities, that will
eventually be packaged separately.
It is still under heavy development and changes in the interface(s) are
more than likely to happen.
Author: Renaud Gaujoux [aut, cre]
Maintainer: Renaud Gaujoux <renozao@protonmail.com>
Diff between pkgmaker versions 0.27 dated 2018-05-25 and 0.31 dated 2020-01-22
DESCRIPTION | 14 +-- MD5 | 40 ++++++---- NAMESPACE | 11 +++ R/devutils.R | 161 +++++++++++++++++++++++++++++++++++++++++++- R/is.R | 5 + R/knitr.R | 4 - R/namespace.R | 36 +++++---- R/user.R | 16 +++- R/utils.R | 102 +++++++++++++++++++++++++++ man/addnames.Rd | 4 - man/bibtex.Rd | 3 man/digest_function.Rd |only man/knit_ex.Rd | 12 +-- man/list.data.Rd |only man/load_all_file.Rd |only man/packageData.Rd | 17 ++++ man/quickinstall.Rd | 4 - man/registry.Rd | 4 - man/str_out.Rd | 43 +++++++---- man/sys_call_stack.Rd |only man/unlist_.Rd | 3 man/utest.Rd | 3 tests/testthat/test-utils.r | 32 ++++++++ 23 files changed, 433 insertions(+), 81 deletions(-)
Title: Approximate Bayesian Computations for Phylogenetic Comparative
Methods
Description: Fits by ABC, the parameters of a stochastic process modelling the phylogeny and evolution of a suite of traits following the tree. The user may define an arbitrary Markov process for the trait and phylogeny. Importantly, trait-dependent speciation models are handled and fitted to data. See K. Bartoszek, P. Lio' (2019) <10.5506/APhysPolBSupp.12.25>. The suggested geiger package can be obtained from CRAN's archive <https://cran.r-project.org/src/contrib/Archive/geiger/>, suggested to take latest version. Otherwise its required code is present in the pcmabc package. The suggested distory package can be obtained from CRAN's archive <https://cran.r-project.org/src/contrib/Archive/distory/>, suggested to take latest version. Both distory and geiger are orphaned at the moment.
Author: Krzysztof Bartoszek <krzbar@protonmail.ch>, Pietro Lio'
Maintainer: Krzysztof Bartoszek <krzbar@protonmail.ch>
Diff between pcmabc versions 1.0.4 dated 2019-04-03 and 1.1 dated 2020-01-22
DESCRIPTION | 20 +++++++++-------- MD5 | 11 +++++---- NAMESPACE | 2 - R/ABCdist.R | 36 +++++++++++++++++++++----------- R/from_geiger_2_0_6_2_diversification.R |only man/PCM_ABC.Rd | 4 +++ man/pcmabc-package.Rd | 4 +-- 7 files changed, 47 insertions(+), 30 deletions(-)
Title: Power Analysis for Random Effects in Mixed Models
Description: Simulation functions to assess or explore the power of a dataset to estimates significant random effects (intercept or slope) in a mixed model. The functions are based on the "lme4" and "lmerTest" packages.
Author: Julien Martin [aut, cre]
Maintainer: Julien Martin <julien.martin@uottawa.ca>
Diff between pamm versions 0.9 dated 2015-12-16 and 1.121 dated 2020-01-22
DESCRIPTION | 16 - MD5 | 27 +- NAMESPACE | 14 - R/EAMM.R | 584 ++++++++++++++++++++++++++++--------------------------- R/PAMM.R | 398 ++++++++++++++++++------------------- R/SSF.R | 372 +++++++++++++++++------------------ R/plot.EAMM.R | 220 ++++++++++---------- R/plot.PAMM.R | 321 ++++++++++-------------------- R/plot.SSF.R | 57 ++--- R/utils.R |only man/EAMM.Rd | 34 +-- man/PAMM.Rd | 26 +- man/SSF.Rd | 14 - man/plot.EAMM.Rd | 12 - man/plot.PAMM.Rd | 8 15 files changed, 1005 insertions(+), 1098 deletions(-)
Title: Dynamic Assembly Model of Colonization, Local Extinction and
Speciation
Description: Simulates and computes (maximum) likelihood of a dynamical model of community assembly that takes into account phylogenetic history.
Author: Rampal S. Etienne & Alex L. Pigot
Maintainer: Rampal S. Etienne <r.s.etienne@rug.nl>
Diff between DAMOCLES versions 1.1 dated 2015-03-05 and 2.2 dated 2020-01-22
DAMOCLES-1.1/DAMOCLES/man/DAMOCLES-internal.Rd |only DAMOCLES-1.1/DAMOCLES/man/DAMOCLES-package.Rd |only DAMOCLES-2.2/DAMOCLES/DESCRIPTION | 15 DAMOCLES-2.2/DAMOCLES/MD5 | 30 DAMOCLES-2.2/DAMOCLES/NAMESPACE | 10 DAMOCLES-2.2/DAMOCLES/R/DAMOCLES_DD_loglik.R |only DAMOCLES-2.2/DAMOCLES/R/DAMOCLES_ML.R | 436 +++++++------- DAMOCLES-2.2/DAMOCLES/R/DAMOCLES_bootstrap.R | 188 +++++- DAMOCLES-2.2/DAMOCLES/R/DAMOCLES_loglik.R | 734 +++++++++++++++++++++--- DAMOCLES-2.2/DAMOCLES/R/DAMOCLES_sim.R | 317 +++++++++- DAMOCLES-2.2/DAMOCLES/R/HERACLES_bootstrap.R |only DAMOCLES-2.2/DAMOCLES/R/HERACLES_sim.R |only DAMOCLES-2.2/DAMOCLES/R/data.R |only DAMOCLES-2.2/DAMOCLES/man/DAMOCLES_ML.Rd | 150 ++-- DAMOCLES-2.2/DAMOCLES/man/DAMOCLES_bootstrap.Rd | 268 ++++---- DAMOCLES-2.2/DAMOCLES/man/DAMOCLES_loglik.Rd | 84 +- DAMOCLES-2.2/DAMOCLES/man/DAMOCLES_sim.Rd | 116 ++- DAMOCLES-2.2/DAMOCLES/man/NWPrimates_data.Rd | 41 - DAMOCLES-2.2/DAMOCLES/tests |only 19 files changed, 1715 insertions(+), 674 deletions(-)
Title: Biodiversity Assessment Tools
Description: Includes algorithms to assess alpha and beta
diversity in all their dimensions (taxon, phylogenetic and functional
diversity), whether communities are completely sampled or not. It allows
performing a number of analyses based on either species identities or
phylogenetic/functional trees or functional kernel n-dimensional hypervolumes
depicting species relationships.
Author: Pedro Cardoso, Stefano Mammola, Francois Rigal, Jose Carlos Carvalho
Maintainer: Pedro Cardoso <pedro.cardoso@helsinki.fi>
Diff between BAT versions 1.6.0 dated 2018-08-17 and 2.0.0 dated 2020-01-22
BAT-1.6.0/BAT/man/beta.volumes.Rd |only BAT-2.0.0/BAT/DESCRIPTION | 15 BAT-2.0.0/BAT/MD5 | 43 - BAT-2.0.0/BAT/NAMESPACE | 16 BAT-2.0.0/BAT/R/BAT.R | 1193 ++++++++++++++++++++++++++----- BAT-2.0.0/BAT/man/alpha.accum.Rd | 10 BAT-2.0.0/BAT/man/beta.Rd | 7 BAT-2.0.0/BAT/man/beta.accum.Rd | 17 BAT-2.0.0/BAT/man/beta.multi.Rd | 7 BAT-2.0.0/BAT/man/contribution.Rd | 8 BAT-2.0.0/BAT/man/dispersion.Rd | 20 BAT-2.0.0/BAT/man/evenness.Rd |only BAT-2.0.0/BAT/man/kernel.alpha.Rd |only BAT-2.0.0/BAT/man/kernel.beta.Rd |only BAT-2.0.0/BAT/man/kernel.contribution.Rd |only BAT-2.0.0/BAT/man/kernel.dispersion.Rd |only BAT-2.0.0/BAT/man/kernel.evenness.Rd |only BAT-2.0.0/BAT/man/kernel.originality.Rd |only BAT-2.0.0/BAT/man/kernel.similarity.Rd |only BAT-2.0.0/BAT/man/linnean.Rd |only BAT-2.0.0/BAT/man/optim.beta.Rd | 5 BAT-2.0.0/BAT/man/optim.beta.stats.Rd | 3 BAT-2.0.0/BAT/man/originality.Rd | 8 BAT-2.0.0/BAT/man/raster.alpha.Rd |only BAT-2.0.0/BAT/man/raster.beta.Rd |only BAT-2.0.0/BAT/man/raster.dispersion.Rd |only BAT-2.0.0/BAT/man/raster.evenness.Rd |only BAT-2.0.0/BAT/man/sad.Rd |only BAT-2.0.0/BAT/man/sim.spatial.Rd | 10 BAT-2.0.0/BAT/man/uniqueness.Rd | 3 30 files changed, 1116 insertions(+), 249 deletions(-)
Title: Empirical Bayes Estimation and Inference
Description: Kiefer-Wolfowitz maximum likelihood estimation for mixture models
and some other density estimation and regression methods based on convex
optimization. See Koenker and Gu (2017) REBayes: An R Package for Empirical
Bayes Mixture Methods, Journal of Statistical Software, 82, 1--26,
<DOI:10.18637/jss.v082.i08>.
Author: Roger Koenker [aut, cre],
Jiaying Gu [ctb],
Ivan Mizera [ctb]
Maintainer: Roger Koenker <rkoenker@uiuc.edu>
Diff between REBayes versions 1.8 dated 2019-03-04 and 2.2 dated 2020-01-22
REBayes-1.8/REBayes/demo/meddep.R |only REBayes-2.2/REBayes/DESCRIPTION | 9 ++--- REBayes-2.2/REBayes/MD5 | 54 ++++++++++++++++-------------- REBayes-2.2/REBayes/NAMESPACE | 1 REBayes-2.2/REBayes/R/Guvenen.R | 2 - REBayes-2.2/REBayes/R/KWDual.R | 18 ++++++---- REBayes-2.2/REBayes/R/Umix.R |only REBayes-2.2/REBayes/R/medde.R | 19 +++++----- REBayes-2.2/REBayes/R/predict.Pmix.R | 17 ++++++--- REBayes-2.2/REBayes/build/vignette.rds |binary REBayes-2.2/REBayes/demo/00Index | 4 +- REBayes-2.2/REBayes/demo/Brown.R | 2 - REBayes-2.2/REBayes/demo/Grenander.R |only REBayes-2.2/REBayes/demo/Pmix1.R |only REBayes-2.2/REBayes/demo/medde1.R |only REBayes-2.2/REBayes/inst/ChangeLog | 33 ++++++++++++++++++ REBayes-2.2/REBayes/inst/Readme | 16 +++++--- REBayes-2.2/REBayes/inst/doc/Bdecon.pdf |binary REBayes-2.2/REBayes/inst/doc/medde.pdf |binary REBayes-2.2/REBayes/inst/doc/rebayes.R | 2 - REBayes-2.2/REBayes/inst/doc/rebayes.Rnw | 2 - REBayes-2.2/REBayes/inst/doc/rebayes.pdf |binary REBayes-2.2/REBayes/man/Guvenen.Rd | 2 - REBayes-2.2/REBayes/man/KWDual.Rd | 8 +++- REBayes-2.2/REBayes/man/TLmix.Rd | 3 + REBayes-2.2/REBayes/man/Tncpmix.Rd | 4 +- REBayes-2.2/REBayes/man/Umix.Rd |only REBayes-2.2/REBayes/man/medde.Rd | 10 +++-- REBayes-2.2/REBayes/man/predict.GLmix.Rd | 3 + REBayes-2.2/REBayes/man/predict.Pmix.Rd | 15 ++++++-- REBayes-2.2/REBayes/vignettes/rebayes.Rnw | 2 - 31 files changed, 149 insertions(+), 77 deletions(-)
Title: Efficient and Publishing-Oriented Workflow for Psychological
Science
Description: The main goal of the psycho package is to provide tools for psychologists, neuropsychologists and neuroscientists,
to facilitate and speed up the time spent on data analysis. It aims at supporting best practices and tools to format the output
of statistical methods to directly paste them into a manuscript, ensuring statistical reporting standardization and conformity.
Author: Dominique Makowski [aut, cre, cph]
(<https://orcid.org/0000-0001-5375-9967>),
Hugo Najberg [ctb],
Viliam Simko [ctb],
Sasha Epskamp [rev] (Sasha reviewed the package for JOSS, see
https://github.com/openjournals/joss-reviews/issues/470)
Maintainer: Dominique Makowski <dom.makowski@gmail.com>
Diff between psycho versions 0.4.91 dated 2019-06-19 and 0.5.0 dated 2020-01-22
psycho-0.4.91/psycho/R/format_digit.R |only psycho-0.4.91/psycho/man/HDI.Rd |only psycho-0.4.91/psycho/man/HDImax.Rd |only psycho-0.4.91/psycho/man/HDImin.Rd |only psycho-0.4.91/psycho/man/R2_LOO_Adjusted.Rd |only psycho-0.4.91/psycho/man/R2_nakagawa.Rd |only psycho-0.4.91/psycho/man/R2_tjur.Rd |only psycho-0.4.91/psycho/man/analyze.Rd |only psycho-0.4.91/psycho/man/analyze.aov.Rd |only psycho-0.4.91/psycho/man/analyze.blavaan.Rd |only psycho-0.4.91/psycho/man/analyze.fa.Rd |only psycho-0.4.91/psycho/man/analyze.glm.Rd |only psycho-0.4.91/psycho/man/analyze.glmerMod.Rd |only psycho-0.4.91/psycho/man/analyze.htest.Rd |only psycho-0.4.91/psycho/man/analyze.lavaan.Rd |only psycho-0.4.91/psycho/man/analyze.lm.Rd |only psycho-0.4.91/psycho/man/analyze.lmerModLmerTest.Rd |only psycho-0.4.91/psycho/man/analyze.principal.Rd |only psycho-0.4.91/psycho/man/analyze.stanreg.Rd |only psycho-0.4.91/psycho/man/as.data.frame.density.Rd |only psycho-0.4.91/psycho/man/bayes_cor.Rd |only psycho-0.4.91/psycho/man/bayes_cor.test.Rd |only psycho-0.4.91/psycho/man/cite_packages.Rd |only psycho-0.4.91/psycho/man/correlation.Rd |only psycho-0.4.91/psycho/man/create_intervals.Rd |only psycho-0.4.91/psycho/man/find_best_model.Rd |only psycho-0.4.91/psycho/man/find_best_model.lavaan.Rd |only psycho-0.4.91/psycho/man/find_best_model.lmerModLmerTest.Rd |only psycho-0.4.91/psycho/man/find_best_model.stanreg.Rd |only psycho-0.4.91/psycho/man/find_distance_cluster.Rd |only psycho-0.4.91/psycho/man/find_highest_density_point.Rd |only psycho-0.4.91/psycho/man/find_random_effects.Rd |only psycho-0.4.91/psycho/man/format_bf.Rd |only psycho-0.4.91/psycho/man/format_digit.Rd |only psycho-0.4.91/psycho/man/format_formula.Rd |only psycho-0.4.91/psycho/man/format_loadings.Rd |only psycho-0.4.91/psycho/man/format_p.Rd |only psycho-0.4.91/psycho/man/format_string.Rd |only psycho-0.4.91/psycho/man/get_R2.Rd |only psycho-0.4.91/psycho/man/get_R2.glm.Rd |only psycho-0.4.91/psycho/man/get_R2.lm.Rd 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Title: Parametric Simplex Method for Sparse Learning
Description: Implements a unified framework of parametric simplex method for a variety of sparse learning problems (e.g., Dantzig selector (for linear regression), sparse quantile regression, sparse support vector machines, and compressive sensing) combined with efficient hyper-parameter selection strategies. The core algorithm is implemented in C++ with Eigen3 support for portable high performance linear algebra. For more details about parametric simplex method, see Haotian Pang (2017) <https://papers.nips.cc/paper/6623-parametric-simplex-method-for-sparse-learning.pdf>.
Author: Zichong Li, Qianli Shen
Maintainer: Zichong Li <zichongli5@gmail.com>
Diff between PRIMAL versions 1.0.1 dated 2020-01-12 and 1.0.2 dated 2020-01-22
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- src/api.cpp | 8 ++++---- src/include/PSM/api.hpp | 4 ++-- 4 files changed, 13 insertions(+), 13 deletions(-)
Title: Web Application Framework for 'PhUSE' Scripts
Description: Make it easy to review, download and execute scripts stored in Github
'phuse-scripts' repository <https://github.com/phuse-org/phuse-scripts>. Some examples
included show the web application framework using the script metadata. The 'PhUSE'
is Pharmaceutical Users Software Exchange <http://www.phuse.eu>.
Author: Hanming Tu [aut, cre]
Maintainer: Hanming Tu <hanming.tu@gmail.com>
Diff between phuse versions 0.2.0 dated 2019-10-17 and 0.2.2 dated 2020-01-22
DESCRIPTION | 6 MD5 | 13 + NEWS.md | 6 README.md | 2 inst/examples/07_genTS/app.R | 70 ++++++---- inst/examples/07_genTS/rsconnect/shinyapps.io/geotiger/07_genTS.dcf | 4 inst/examples/07_genTS/www/PhUSE-Utility-feedback-v4.0.xlsx |only man/merge_lists.Rd | 2 8 files changed, 68 insertions(+), 35 deletions(-)
Title: R Interface for the 'H2O' Scalable Machine Learning Platform
Description: R interface for 'H2O', the scalable open source machine learning
platform that offers parallelized implementations of many supervised and
unsupervised machine learning algorithms such as Generalized Linear
Models, Gradient Boosting Machines (including XGBoost), Random Forests,
Deep Neural Networks (Deep Learning), Stacked Ensembles, Naive Bayes, Cox
Proportional Hazards, K-Means, PCA, Word2Vec, as well as a fully automatic
machine learning algorithm (AutoML).
Author: Erin LeDell [aut, cre],
Navdeep Gill [aut],
Spencer Aiello [aut],
Anqi Fu [aut],
Arno Candel [aut],
Cliff Click [aut],
Tom Kraljevic [aut],
Tomas Nykodym [aut],
Patrick Aboyoun [aut],
Michal Kurka [aut],
Michal Malohlava [aut],
Ludi Rehak [ctb],
Eric Eckstrand [ctb],
Brandon Hill [ctb],
Sebastian Vidrio [ctb],
Surekha Jadhawani [ctb],
Amy Wang [ctb],
Raymond Peck [ctb],
Wendy Wong [ctb],
Jan Gorecki [ctb],
Matt Dowle [ctb],
Yuan Tang [ctb],
Lauren DiPerna [ctb],
H2O.ai [cph, fnd]
Maintainer: Erin LeDell <erin@h2o.ai>
Diff between h2o versions 3.26.0.2 dated 2019-08-01 and 3.28.0.2 dated 2020-01-22
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h2o-3.28.0.2/h2o/R/randomforest.R | 56 +- h2o-3.28.0.2/h2o/R/stackedensemble.R | 98 +-- h2o-3.28.0.2/h2o/R/svd.R | 29 - h2o-3.28.0.2/h2o/R/targetencoder.R | 243 +++----- h2o-3.28.0.2/h2o/R/targetencoder_deprecated.R |only h2o-3.28.0.2/h2o/R/w2vutils.R | 2 h2o-3.28.0.2/h2o/R/word2vec.R | 16 h2o-3.28.0.2/h2o/R/xgboost.R | 67 +- h2o-3.28.0.2/h2o/inst/branch.txt | 2 h2o-3.28.0.2/h2o/man/H2OConnection-class.Rd | 4 h2o-3.28.0.2/h2o/man/H2OModel-class.Rd | 1 h2o-3.28.0.2/h2o/man/H2OModelMetrics-class.Rd | 1 h2o-3.28.0.2/h2o/man/Logical-or.Rd | 2 h2o-3.28.0.2/h2o/man/ModelAccessors.Rd | 1 h2o-3.28.0.2/h2o/man/and-and.Rd | 2 h2o-3.28.0.2/h2o/man/dot-h2o.doRawGET.Rd | 9 h2o-3.28.0.2/h2o/man/dot-h2o.doRawPOST.Rd | 10 h2o-3.28.0.2/h2o/man/h2o-package.Rd | 6 h2o-3.28.0.2/h2o/man/h2o.HGLMMetrics.Rd |only h2o-3.28.0.2/h2o/man/h2o.aggregator.Rd | 30 - h2o-3.28.0.2/h2o/man/h2o.aucpr.Rd |only h2o-3.28.0.2/h2o/man/h2o.automl.Rd | 65 +- h2o-3.28.0.2/h2o/man/h2o.centroid_stats.Rd | 3 h2o-3.28.0.2/h2o/man/h2o.computeGram.Rd | 9 h2o-3.28.0.2/h2o/man/h2o.confusionMatrix.Rd | 7 h2o-3.28.0.2/h2o/man/h2o.connect.Rd | 24 h2o-3.28.0.2/h2o/man/h2o.cor.Rd | 7 h2o-3.28.0.2/h2o/man/h2o.coxph.Rd | 27 h2o-3.28.0.2/h2o/man/h2o.createFrame.Rd | 27 h2o-3.28.0.2/h2o/man/h2o.cut.Rd | 22 h2o-3.28.0.2/h2o/man/h2o.decryptionSetup.Rd | 10 h2o-3.28.0.2/h2o/man/h2o.deeplearning.Rd | 143 +++-- h2o-3.28.0.2/h2o/man/h2o.deepwater.Rd | 113 ++-- h2o-3.28.0.2/h2o/man/h2o.download_model.Rd |only h2o-3.28.0.2/h2o/man/h2o.download_mojo.Rd | 9 h2o-3.28.0.2/h2o/man/h2o.download_pojo.Rd | 9 h2o-3.28.0.2/h2o/man/h2o.exportFile.Rd | 10 h2o-3.28.0.2/h2o/man/h2o.gainsLift.Rd | 4 h2o-3.28.0.2/h2o/man/h2o.gbm.Rd | 106 ++- h2o-3.28.0.2/h2o/man/h2o.get_automl.Rd |only h2o-3.28.0.2/h2o/man/h2o.get_leaderboard.Rd |only h2o-3.28.0.2/h2o/man/h2o.get_ntrees_actual.Rd |only h2o-3.28.0.2/h2o/man/h2o.glm.Rd | 125 +++- h2o-3.28.0.2/h2o/man/h2o.glrm.Rd | 61 +- h2o-3.28.0.2/h2o/man/h2o.grep.Rd | 9 h2o-3.28.0.2/h2o/man/h2o.grid.Rd | 41 + h2o-3.28.0.2/h2o/man/h2o.group_by.Rd | 12 h2o-3.28.0.2/h2o/man/h2o.hit_ratio_table.Rd | 3 h2o-3.28.0.2/h2o/man/h2o.importFile.Rd | 66 +- h2o-3.28.0.2/h2o/man/h2o.import_hive_table.Rd | 13 h2o-3.28.0.2/h2o/man/h2o.import_sql_select.Rd | 13 h2o-3.28.0.2/h2o/man/h2o.import_sql_table.Rd | 11 h2o-3.28.0.2/h2o/man/h2o.impute.Rd | 12 h2o-3.28.0.2/h2o/man/h2o.init.Rd | 43 + h2o-3.28.0.2/h2o/man/h2o.interaction.Rd | 10 h2o-3.28.0.2/h2o/man/h2o.isolationForest.Rd | 36 - 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h2o-3.28.0.2/h2o/man/h2o.stringdist.Rd | 8 h2o-3.28.0.2/h2o/man/h2o.svd.Rd | 30 - h2o-3.28.0.2/h2o/man/h2o.tabulate.Rd | 3 h2o-3.28.0.2/h2o/man/h2o.target_encode_apply.Rd | 14 h2o-3.28.0.2/h2o/man/h2o.target_encode_fit.Rd | 8 h2o-3.28.0.2/h2o/man/h2o.target_encode_transform.Rd | 21 h2o-3.28.0.2/h2o/man/h2o.targetencoder.Rd |only h2o-3.28.0.2/h2o/man/h2o.transform-H2OTargetEncoderModel-method.Rd |only h2o-3.28.0.2/h2o/man/h2o.transform-H2OWordEmbeddingModel-method.Rd |only h2o-3.28.0.2/h2o/man/h2o.transform.Rd | 37 - h2o-3.28.0.2/h2o/man/h2o.transform_word2vec.Rd |only h2o-3.28.0.2/h2o/man/h2o.varsplits.Rd | 18 h2o-3.28.0.2/h2o/man/h2o.word2vec.Rd | 21 h2o-3.28.0.2/h2o/man/h2o.xgboost.Rd | 118 +++- h2o-3.28.0.2/h2o/man/length-H2OTree-method.Rd | 1 h2o-3.28.0.2/h2o/man/plot.H2OTabulate.Rd | 3 h2o-3.28.0.2/h2o/man/predict_leaf_node_assignment.H2OModel.Rd | 16 h2o-3.28.0.2/h2o/man/scale.Rd |only h2o-3.28.0.2/h2o/man/summary-H2OCoxPHModel-method.Rd | 1 h2o-3.28.0.2/h2o/man/summary-H2OGrid-method.Rd | 1 h2o-3.28.0.2/h2o/man/summary-H2OModel-method.Rd | 1 h2o-3.28.0.2/h2o/man/use.package.Rd | 11 135 files changed, 2846 insertions(+), 1454 deletions(-)
Title: Graphical Independence Networks
Description: Probability propagation in graphical independence networks, also
known as Bayesian networks or probabilistic expert systems.
Author: Søren Højsgaard <sorenh@math.aau.dk>
Maintainer: Søren Højsgaard <sorenh@math.aau.dk>
Diff between gRain versions 1.3-2 dated 2020-01-12 and 1.3-3 dated 2020-01-22
gRain-1.3-2/gRain/R/CPT-POT-compile.R |only gRain-1.3-2/gRain/R/CPT-POT-extract.R |only gRain-1.3-2/gRain/R/Generics.R |only gRain-1.3-2/gRain/R/evi.R |only gRain-1.3-2/gRain/R/evidence-func.R |only gRain-1.3-2/gRain/R/grain-set-slot.R |only gRain-1.3-2/gRain/R/potentialList.R |only gRain-1.3-2/gRain/R/repeatPattern.R |only gRain-1.3-2/gRain/R/update.R |only gRain-1.3-2/gRain/man/compile_components.Rd |only gRain-1.3-2/gRain/man/extract_components.Rd |only gRain-1.3-2/gRain/man/grain-evi.Rd |only gRain-1.3-2/gRain/man/grain-evidence.Rd |only gRain-1.3-2/gRain/man/grain-main.Rd |only gRain-1.3-2/gRain/man/grain-predict.Rd |only gRain-1.3-2/gRain/man/grain-propagate.Rd |only gRain-1.3-2/gRain/man/grain-simulate.Rd |only gRain-1.3-2/gRain/man/recent.Rd |only gRain-1.3-2/gRain/man/set-jevidence.Rd |only gRain-1.3-2/gRain/man/set-slot.Rd |only gRain-1.3-2/gRain/man/update.cpt_grain.Rd |only gRain-1.3-2/gRain/vignettes/figures/grain-unnamed-chunk-28-1.pdf |only gRain-1.3-2/gRain/vignettes/figures/grain-unnamed-chunk-29-1.pdf |only gRain-1.3-2/gRain/vignettes/figures/grain-unnamed-chunk-30-1.pdf |only gRain-1.3-3/gRain/ChangeLog | 8 gRain-1.3-3/gRain/DESCRIPTION | 11 gRain-1.3-3/gRain/MD5 | 133 ++-- gRain-1.3-3/gRain/NAMESPACE | 255 ++++---- gRain-1.3-3/gRain/NEWS |only gRain-1.3-3/gRain/R/cpt-pot-extract.R |only gRain-1.3-3/gRain/R/cpt-pot-gather.R |only gRain-1.3-3/gRain/R/cptable-create.R | 94 ++- gRain-1.3-3/gRain/R/cptable-special.R | 11 gRain-1.3-3/gRain/R/data.R |only gRain-1.3-3/gRain/R/display.R | 8 gRain-1.3-3/gRain/R/evidence-joint.R | 153 ++--- gRain-1.3-3/gRain/R/evidence-objects.R |only gRain-1.3-3/gRain/R/evidence.R | 296 ++++++++-- gRain-1.3-3/gRain/R/finding.R | 14 gRain-1.3-3/gRain/R/generics.R |only gRain-1.3-3/gRain/R/grain-compile.R | 202 +++--- gRain-1.3-3/gRain/R/grain-internal.R | 19 gRain-1.3-3/gRain/R/grain-main.R | 202 +++--- gRain-1.3-3/gRain/R/grain-recent.R | 71 +- gRain-1.3-3/gRain/R/grain-setcpt.R | 105 +-- gRain-1.3-3/gRain/R/grain-simulate.R | 11 gRain-1.3-3/gRain/R/grain-utilities.R | 16 gRain-1.3-3/gRain/R/loadSaveHuginNet.R | 6 gRain-1.3-3/gRain/R/namespace.R |only gRain-1.3-3/gRain/R/potential_list.R |only gRain-1.3-3/gRain/R/predict.R | 18 gRain-1.3-3/gRain/R/propagate.R | 115 +-- gRain-1.3-3/gRain/R/querygrain.R | 116 +-- gRain-1.3-3/gRain/R/repeat_pattern.R |only gRain-1.3-3/gRain/R/summary.R | 12 gRain-1.3-3/gRain/TODO | 9 gRain-1.3-3/gRain/data |only gRain-1.3-3/gRain/inst/doc/grain-intro.R | 17 gRain-1.3-3/gRain/inst/doc/grain-intro.Rnw | 77 +- gRain-1.3-3/gRain/inst/doc/grain-intro.pdf |binary gRain-1.3-3/gRain/man/chest.Rd |only gRain-1.3-3/gRain/man/components_extract.Rd |only gRain-1.3-3/gRain/man/components_gather.Rd |only gRain-1.3-3/gRain/man/cpt-update.Rd | 49 - gRain-1.3-3/gRain/man/cptable.Rd | 77 +- gRain-1.3-3/gRain/man/evidence_object.Rd | 15 gRain-1.3-3/gRain/man/finding.Rd | 10 gRain-1.3-3/gRain/man/generics.Rd | 38 - gRain-1.3-3/gRain/man/grain_compile.Rd | 50 - gRain-1.3-3/gRain/man/grain_evidence.Rd |only gRain-1.3-3/gRain/man/grain_jevidence.Rd |only gRain-1.3-3/gRain/man/grain_main.Rd |only gRain-1.3-3/gRain/man/grain_predict.Rd |only gRain-1.3-3/gRain/man/grain_propagate.Rd |only gRain-1.3-3/gRain/man/grain_simulate.Rd |only gRain-1.3-3/gRain/man/grass.Rd |only gRain-1.3-3/gRain/man/internal-grain.Rd | 27 gRain-1.3-3/gRain/man/load-save-hugin.Rd | 2 gRain-1.3-3/gRain/man/mendel.Rd | 2 gRain-1.3-3/gRain/man/querygrain.Rd | 47 - gRain-1.3-3/gRain/man/repeatPattern.Rd | 4 gRain-1.3-3/gRain/src/propagate.cpp | 13 gRain-1.3-3/gRain/tests |only gRain-1.3-3/gRain/vignettes/figures/grain-chest-LS-1.pdf |binary gRain-1.3-3/gRain/vignettes/figures/grain-chest-grass-1.pdf |only gRain-1.3-3/gRain/vignettes/figures/grain-unnamed-chunk-31-1.pdf |binary gRain-1.3-3/gRain/vignettes/figures/grain-unnamed-chunk-32-1.pdf |binary gRain-1.3-3/gRain/vignettes/figures/grain-unnamed-chunk-33-1.pdf |binary gRain-1.3-3/gRain/vignettes/figures/grain-unnamed-chunk-34-1.pdf |only gRain-1.3-3/gRain/vignettes/grain-intro.Rnw | 77 +- 90 files changed, 1263 insertions(+), 1127 deletions(-)
Title: Assessment of Regression Models Performance
Description: Utilities for computing measures to assess model quality,
which are not directly provided by R's 'base' or 'stats' packages. These
include e.g. measures like r-squared, intraclass correlation coefficient
(Nakagawa, Johnson & Schielzeth (2017) <doi:10.1098/rsif.2017.0213>),
root mean squared error or functions to check models for overdispersion,
singularity or zero-inflation and more. Functions apply to a large variety of
regression models, including generalized linear models, mixed effects models
and Bayesian models.
Author: Daniel Lüdecke [aut, cre] (<https://orcid.org/0000-0002-8895-3206>),
Dominique Makowski [aut, ctb] (<https://orcid.org/0000-0001-5375-9967>),
Philip Waggoner [aut, ctb] (<https://orcid.org/0000-0002-7825-7573>)
Maintainer: Daniel Lüdecke <d.luedecke@uke.de>
Diff between performance versions 0.4.2 dated 2019-12-11 and 0.4.3 dated 2020-01-22
DESCRIPTION | 20 +-- MD5 | 145 +++++++++++------------ NAMESPACE | 14 ++ NEWS.md | 19 +++ R/check_collinearity.R | 9 + R/check_convergence.R | 23 +-- R/check_distribution.R | 9 - R/check_model.R | 15 +- R/check_outliers.R | 4 R/check_overdispersion.R | 22 +-- R/check_singularity.R | 43 ++++-- R/check_zeroinflation.R | 9 - R/compare_performance.R | 56 ++++++++ R/helpers.R | 22 --- R/icc.R | 7 - R/logLik.R | 4 R/looic.R | 8 - R/model_performance.R | 58 +-------- R/model_performance.bayesian.R | 29 ++-- R/model_performance.lavaan.R | 15 +- R/model_performance.lm.R | 6 R/model_performance.mixed.R | 47 ++++++- R/performance_aicc.R | 34 ++++- R/performance_lrt.R |only R/performance_rmse.R | 13 +- R/performance_score.R | 20 +-- R/print-methods.R | 38 ++++++ R/r2.R | 13 +- R/r2_bayes.R | 37 +++-- R/r2_coxsnell.R | 3 R/r2_loo.R | 8 - R/r2_mcfadden.R | 14 +- R/r2_nagelkerke.R | 3 R/r2_nakagawa.R | 7 - R/r2_zeroinflated.R | 15 +- README.md | 10 - build/partial.rdb |binary man/check_convergence.Rd | 23 +-- man/check_distribution.Rd | 9 - man/check_model.Rd | 15 +- man/check_outliers.Rd | 4 man/check_overdispersion.Rd | 22 +-- man/check_singularity.Rd | 31 ++-- man/check_zeroinflation.Rd | 9 - man/compare_performance.Rd |only man/icc.Rd | 7 - man/looic.Rd | 8 - man/model_performance.Rd | 75 +---------- man/model_performance.lavaan.Rd | 15 +- man/model_performance.lm.Rd | 2 man/model_performance.merMod.Rd | 9 - man/model_performance.stanreg.Rd | 25 ++- man/performance_aicc.Rd | 11 + man/performance_lrt.Rd |only man/performance_rmse.Rd | 13 +- man/performance_score.Rd | 17 +- man/r2.Rd | 7 - man/r2_bayes.Rd | 35 ++--- man/r2_loo.Rd | 8 - man/r2_mcfadden.Rd | 11 - man/r2_nakagawa.Rd | 7 - man/r2_zeroinflated.Rd | 15 +- tests/testthat/test-backticks.R | 2 tests/testthat/test-check_convergence.R | 2 tests/testthat/test-check_singularity.R | 2 tests/testthat/test-check_zeroinflation.R | 2 tests/testthat/test-coxph.R | 2 tests/testthat/test-icc.R | 2 tests/testthat/test-item_difficulty.R | 2 tests/testthat/test-item_splithalf.R | 2 tests/testthat/test-model_performance-various.R | 2 tests/testthat/test-model_performance.bayesian.R | 6 tests/testthat/test-r2_nagelkerke.R | 2 tests/testthat/test-r2_nakagawa.R | 2 tests/testthat/test-r2_tjur.R | 2 75 files changed, 661 insertions(+), 546 deletions(-)
Title: Versatile Curation of Table Metadata
Description: The 'yamlet' package implements a file-based
mechanism for documenting datasets. It reads and writes
YAML-formatted metadata and applies it as data
item attributes. Data and metadata are stored independently
but can be coordinated by using similar file paths with
different extensions. The 'yamlet' dialect is valid 'YAML',
but some conventions are chosen to improve readability.
Defaults and conventions can be over-ridden by the user.
See ?yamlet and ?decorate.data.frame.
See ?read_yamlet ?write_yamlet, and ?io_csv.
Author: Tim Bergsma
Maintainer: Tim Bergsma <bergsmat@gmail.com>
Diff between yamlet versions 0.3.1 dated 2020-01-15 and 0.3.3 dated 2020-01-22
yamlet-0.3.1/yamlet/man/agplot.Rd |only yamlet-0.3.1/yamlet/man/isConditional.character.Rd |only yamlet-0.3.3/yamlet/DESCRIPTION | 11 yamlet-0.3.3/yamlet/MD5 | 132 +++++--- yamlet-0.3.3/yamlet/NAMESPACE | 51 +++ yamlet-0.3.3/yamlet/R/agplot.R | 75 +++-- yamlet-0.3.3/yamlet/R/conditionalize.R |only yamlet-0.3.3/yamlet/R/dplyr.R |only yamlet-0.3.3/yamlet/R/explicit_guide.R |only yamlet-0.3.3/yamlet/R/factorize_codelist.R |only yamlet-0.3.3/yamlet/R/io_csv.R | 15 - yamlet-0.3.3/yamlet/R/io_table.R | 28 + yamlet-0.3.3/yamlet/R/io_yamlet.R | 5 yamlet-0.3.3/yamlet/R/resolve.R |only yamlet-0.3.3/yamlet/R/yamlet.R | 203 ++++++++----- yamlet-0.3.3/yamlet/inst/doc/yamlet-introduction.R | 14 yamlet-0.3.3/yamlet/inst/doc/yamlet-introduction.Rmd | 36 +- yamlet-0.3.3/yamlet/inst/doc/yamlet-introduction.html | 136 ++++----- yamlet-0.3.3/yamlet/man/anti_join.decorated.Rd |only yamlet-0.3.3/yamlet/man/arrange.decorated.Rd |only yamlet-0.3.3/yamlet/man/as.character.yamlet.Rd | 5 yamlet-0.3.3/yamlet/man/as_decorated.Rd |only yamlet-0.3.3/yamlet/man/as_lab.Rd | 3 yamlet-0.3.3/yamlet/man/as_lab.list.Rd | 2 yamlet-0.3.3/yamlet/man/as_yamlet.character.Rd | 1 yamlet-0.3.3/yamlet/man/as_yamlet.data.frame.Rd | 1 yamlet-0.3.3/yamlet/man/as_yamlet.yamlet.Rd | 1 yamlet-0.3.3/yamlet/man/conditionalize.Rd |only yamlet-0.3.3/yamlet/man/conditionalize.data.frame.Rd |only yamlet-0.3.3/yamlet/man/decorate.Rd | 18 - yamlet-0.3.3/yamlet/man/decorate.character.Rd | 45 +-- yamlet-0.3.3/yamlet/man/decorate.data.frame.Rd | 29 + yamlet-0.3.3/yamlet/man/decorate.list.Rd | 30 -- yamlet-0.3.3/yamlet/man/decorations.Rd | 4 yamlet-0.3.3/yamlet/man/decorations.data.frame.Rd | 23 - yamlet-0.3.3/yamlet/man/encode.yamlet.Rd | 7 yamlet-0.3.3/yamlet/man/explicit_guide.Rd |only yamlet-0.3.3/yamlet/man/explicit_guide.data.frame.Rd |only yamlet-0.3.3/yamlet/man/explicit_guide.yamlet.Rd |only yamlet-0.3.3/yamlet/man/factorize_codelist.Rd |only yamlet-0.3.3/yamlet/man/factorize_codelist.character.Rd |only yamlet-0.3.3/yamlet/man/factorize_codelist.data.frame.Rd |only yamlet-0.3.3/yamlet/man/factorize_codelist.default.Rd |only yamlet-0.3.3/yamlet/man/factorize_codelist.factor.Rd |only yamlet-0.3.3/yamlet/man/filter.decorated.Rd |only yamlet-0.3.3/yamlet/man/full_join.decorated.Rd |only yamlet-0.3.3/yamlet/man/ggplot.decorated.Rd |only yamlet-0.3.3/yamlet/man/group_by.decorated.Rd |only yamlet-0.3.3/yamlet/man/inner_join.decorated.Rd |only yamlet-0.3.3/yamlet/man/io_csv.Rd | 17 - yamlet-0.3.3/yamlet/man/io_csv.character.Rd | 20 - yamlet-0.3.3/yamlet/man/io_csv.data.frame.Rd | 13 yamlet-0.3.3/yamlet/man/io_table.Rd | 17 - yamlet-0.3.3/yamlet/man/io_table.character.Rd | 22 - yamlet-0.3.3/yamlet/man/io_table.data.frame.Rd | 13 yamlet-0.3.3/yamlet/man/io_yamlet.Rd | 17 - yamlet-0.3.3/yamlet/man/io_yamlet.character.Rd | 11 yamlet-0.3.3/yamlet/man/io_yamlet.data.frame.Rd | 11 yamlet-0.3.3/yamlet/man/io_yamlet.yamlet.Rd | 18 - yamlet-0.3.3/yamlet/man/isConditional.Rd | 10 yamlet-0.3.3/yamlet/man/isConditional.default.Rd | 6 yamlet-0.3.3/yamlet/man/isConditional.list.Rd |only yamlet-0.3.3/yamlet/man/isLevels.Rd | 2 yamlet-0.3.3/yamlet/man/left_join.decorated.Rd |only yamlet-0.3.3/yamlet/man/mutate.decorated.Rd |only yamlet-0.3.3/yamlet/man/print.ag.Rd | 18 - yamlet-0.3.3/yamlet/man/print.yamlet.Rd | 1 yamlet-0.3.3/yamlet/man/read_yamlet.Rd | 12 yamlet-0.3.3/yamlet/man/reexports.Rd | 5 yamlet-0.3.3/yamlet/man/resolve.Rd |only yamlet-0.3.3/yamlet/man/resolve.data.frame.Rd |only yamlet-0.3.3/yamlet/man/right_join.decorated.Rd |only yamlet-0.3.3/yamlet/man/select.decorated.Rd |only yamlet-0.3.3/yamlet/man/semi_join.decorated.Rd |only yamlet-0.3.3/yamlet/man/singularity.Rd | 3 yamlet-0.3.3/yamlet/man/slice.decorated.Rd |only yamlet-0.3.3/yamlet/man/summarise.decorated.Rd |only yamlet-0.3.3/yamlet/man/summarize.decorated.Rd |only yamlet-0.3.3/yamlet/man/to_yamlet.NULL.Rd | 1 yamlet-0.3.3/yamlet/man/to_yamlet.character.Rd | 1 yamlet-0.3.3/yamlet/man/to_yamlet.default.Rd | 1 yamlet-0.3.3/yamlet/man/to_yamlet.list.Rd | 1 yamlet-0.3.3/yamlet/man/write_yamlet.Rd | 13 yamlet-0.3.3/yamlet/tests/testthat/test-yamlet.R | 223 +++++++++++++-- yamlet-0.3.3/yamlet/vignettes/yamlet-introduction.Rmd | 36 +- 85 files changed, 795 insertions(+), 572 deletions(-)
Title: Embedded JavaScript and WebAssembly Engine for R
Description: An R interface to V8: Google's open source JavaScript and WebAssembly
engine. This package can be compiled either with V8 version 6 and up, a NodeJS
shared library, or the legacy 3.14/3.15 branch of V8.
Author: Jeroen Ooms [aut, cre] (<https://orcid.org/0000-0002-4035-0289>)
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between V8 versions 3.0 dated 2020-01-10 and 3.0.1 dated 2020-01-22
DESCRIPTION | 6 +++--- MD5 | 18 +++++++++--------- NEWS | 3 +++ build/partial.rdb |binary cleanup | 2 +- configure | 16 +++++++++------- inst/doc/npm.html | 4 ++-- inst/doc/v8_intro.html | 6 +++--- src/bindings.cpp | 3 +-- src/legacy/V8.cpp | 3 +-- 10 files changed, 32 insertions(+), 29 deletions(-)