Title: 3D Scatter Plot
Description: Plots a three dimensional (3D) point cloud.
Author: Uwe Ligges <ligges@statistik.tu-dortmund.de>, Martin Maechler, Sarah Schnackenberg
Maintainer: Uwe Ligges <ligges@statistik.tu-dortmund.de>
Diff between scatterplot3d versions 0.3-41 dated 2018-03-14 and 0.3-42 dated 2022-09-08
CHANGES | 1 + DESCRIPTION | 8 ++++---- MD5 | 17 +++++++++-------- R/scatterplot3d.R | 6 +++--- build/partial.rdb |only build/vignette.rds |binary inst/CITATION | 2 +- inst/doc/s3d.pdf |binary man/scatterplot3d.Rd | 2 +- vignettes/SFBs3d_Def.tex | 3 ++- 10 files changed, 21 insertions(+), 18 deletions(-)
Title: Accessing Spatial Basemaps in R
Description: A lightweight package to access spatial basemaps from open sources such as 'OpenStreetMap', 'Carto', 'Mapbox' and others in R.
Author: Jakob Schwalb-Willmann [aut, cre]
Maintainer: Jakob Schwalb-Willmann <dev@schwalb-willmann.de>
Diff between basemaps versions 0.0.1 dated 2021-05-19 and 0.0.4 dated 2022-09-08
DESCRIPTION | 16 ++++---- MD5 | 24 ++++++------ NAMESPACE | 4 ++ NEWS.md | 42 ++++++++++++++++++++++ R/basemap.R | 57 ++++++++++++++++++++++++++--- R/cache.R |only R/defaults.R | 1 R/internal.R | 78 ++++++++++++++++++++++++++++++++--------- README.md | 14 ++----- man/basemap.Rd | 35 +++++++++++++++++- man/cache.Rd |only tests/testthat/helper-vars.R | 5 +- tests/testthat/test-basemap.R | 3 + tests/testthat/test-internal.R | 9 ++++ 14 files changed, 233 insertions(+), 55 deletions(-)
Title: Tidy Quantitative Financial Analysis
Description: Bringing business and financial analysis to the 'tidyverse'. The 'tidyquant'
package provides a convenient wrapper to various 'xts', 'zoo', 'quantmod', 'TTR'
and 'PerformanceAnalytics' package
functions and returns the objects in the tidy 'tibble' format. The main
advantage is being able to use quantitative functions with the 'tidyverse'
functions including 'purrr', 'dplyr', 'tidyr', 'ggplot2', 'lubridate', etc. See
the 'tidyquant' website for more information, documentation and examples.
Author: Matt Dancho [aut, cre],
Davis Vaughan [aut]
Maintainer: Matt Dancho <mdancho@business-science.io>
Diff between tidyquant versions 1.0.4 dated 2022-05-20 and 1.0.5 dated 2022-09-08
tidyquant-1.0.4/tidyquant/vignettes/temp |only tidyquant-1.0.5/tidyquant/DESCRIPTION | 8 tidyquant-1.0.5/tidyquant/LICENSE | 4 tidyquant-1.0.5/tidyquant/MD5 | 205 tidyquant-1.0.5/tidyquant/NAMESPACE | 400 - tidyquant-1.0.5/tidyquant/NEWS.md | 544 +- tidyquant-1.0.5/tidyquant/R/api-alphavantager.R | 58 tidyquant-1.0.5/tidyquant/R/api-quandl.R | 124 tidyquant-1.0.5/tidyquant/R/api-tiingo.R | 66 tidyquant-1.0.5/tidyquant/R/data.R | 38 tidyquant-1.0.5/tidyquant/R/deprecated.R | 78 tidyquant-1.0.5/tidyquant/R/excel-date-functions.R | 1216 ++-- tidyquant-1.0.5/tidyquant/R/excel-financial-math-functions.R | 380 - tidyquant-1.0.5/tidyquant/R/excel-if-functions.R | 424 - tidyquant-1.0.5/tidyquant/R/excel-pivot-table.R | 540 +- tidyquant-1.0.5/tidyquant/R/excel-ref-functions.R | 130 tidyquant-1.0.5/tidyquant/R/excel-stat-mutation-functions.R | 382 - tidyquant-1.0.5/tidyquant/R/excel-stat-summary-functions.R | 472 - tidyquant-1.0.5/tidyquant/R/ggplot-coord_date.R | 161 tidyquant-1.0.5/tidyquant/R/ggplot-geom_bbands.R | 670 +- tidyquant-1.0.5/tidyquant/R/ggplot-geom_chart.R | 470 - tidyquant-1.0.5/tidyquant/R/ggplot-geom_ma.R | 492 - tidyquant-1.0.5/tidyquant/R/ggplot-scale_manual.R | 298 - tidyquant-1.0.5/tidyquant/R/ggplot-theme_tq.R | 292 - tidyquant-1.0.5/tidyquant/R/global_vars.R | 296 - tidyquant-1.0.5/tidyquant/R/tidyquant.R | 82 tidyquant-1.0.5/tidyquant/R/tq_get.R | 2578 ++++----- tidyquant-1.0.5/tidyquant/R/tq_mutate.R | 836 +-- tidyquant-1.0.5/tidyquant/R/tq_performance.R | 634 +- tidyquant-1.0.5/tidyquant/R/tq_portfolio.R | 898 +-- tidyquant-1.0.5/tidyquant/R/tq_stock_list.R | 653 +- tidyquant-1.0.5/tidyquant/R/tq_transmute.R | 804 +- tidyquant-1.0.5/tidyquant/R/utils-dates.R | 58 tidyquant-1.0.5/tidyquant/R/utils-downloaders.R | 168 tidyquant-1.0.5/tidyquant/R/utils-formatting.R | 98 tidyquant-1.0.5/tidyquant/R/utils-pipe.R | 22 tidyquant-1.0.5/tidyquant/R/utils-validation.R | 28 tidyquant-1.0.5/tidyquant/R/zzz.R | 68 tidyquant-1.0.5/tidyquant/README.md | 332 - tidyquant-1.0.5/tidyquant/build/vignette.rds |binary tidyquant-1.0.5/tidyquant/inst/doc/TQ00-introduction-to-tidyquant.R | 66 tidyquant-1.0.5/tidyquant/inst/doc/TQ00-introduction-to-tidyquant.Rmd | 244 tidyquant-1.0.5/tidyquant/inst/doc/TQ00-introduction-to-tidyquant.html | 546 +- tidyquant-1.0.5/tidyquant/inst/doc/TQ01-core-functions-in-tidyquant.R | 328 - tidyquant-1.0.5/tidyquant/inst/doc/TQ01-core-functions-in-tidyquant.Rmd | 838 +-- tidyquant-1.0.5/tidyquant/inst/doc/TQ01-core-functions-in-tidyquant.html | 1623 +++--- tidyquant-1.0.5/tidyquant/inst/doc/TQ02-quant-integrations-in-tidyquant.R | 606 +- tidyquant-1.0.5/tidyquant/inst/doc/TQ02-quant-integrations-in-tidyquant.Rmd | 1110 ++-- tidyquant-1.0.5/tidyquant/inst/doc/TQ02-quant-integrations-in-tidyquant.html | 2105 ++++--- tidyquant-1.0.5/tidyquant/inst/doc/TQ03-scaling-and-modeling-with-tidyquant.R | 294 - tidyquant-1.0.5/tidyquant/inst/doc/TQ03-scaling-and-modeling-with-tidyquant.Rmd | 648 +- tidyquant-1.0.5/tidyquant/inst/doc/TQ03-scaling-and-modeling-with-tidyquant.html | 1444 +++-- tidyquant-1.0.5/tidyquant/inst/doc/TQ04-charting-with-tidyquant.R | 574 +- tidyquant-1.0.5/tidyquant/inst/doc/TQ04-charting-with-tidyquant.Rmd | 979 +-- tidyquant-1.0.5/tidyquant/inst/doc/TQ04-charting-with-tidyquant.html | 1543 +++-- tidyquant-1.0.5/tidyquant/inst/doc/TQ05-performance-analysis-with-tidyquant.R | 708 +- tidyquant-1.0.5/tidyquant/inst/doc/TQ05-performance-analysis-with-tidyquant.Rmd | 1400 ++--- tidyquant-1.0.5/tidyquant/inst/doc/TQ05-performance-analysis-with-tidyquant.html | 2690 +++++----- tidyquant-1.0.5/tidyquant/inst/doc/TQ06-excel-in-r.R |only tidyquant-1.0.5/tidyquant/inst/doc/TQ06-excel-in-r.Rmd |only tidyquant-1.0.5/tidyquant/inst/doc/TQ06-excel-in-r.html |only tidyquant-1.0.5/tidyquant/man/FANG.Rd | 62 tidyquant-1.0.5/tidyquant/man/av_api_key.Rd | 60 tidyquant-1.0.5/tidyquant/man/coord_x_date.Rd | 141 tidyquant-1.0.5/tidyquant/man/deprecated.Rd | 87 tidyquant-1.0.5/tidyquant/man/excel_date_functions.Rd | 744 +- tidyquant-1.0.5/tidyquant/man/excel_financial_math_functions.Rd | 216 tidyquant-1.0.5/tidyquant/man/excel_if_functions.Rd | 278 - tidyquant-1.0.5/tidyquant/man/excel_pivot_table.Rd | 170 tidyquant-1.0.5/tidyquant/man/excel_ref_functions.Rd | 124 tidyquant-1.0.5/tidyquant/man/excel_stat_mutation_functions.Rd | 246 tidyquant-1.0.5/tidyquant/man/excel_stat_summary_functions.Rd | 260 tidyquant-1.0.5/tidyquant/man/geom_bbands.Rd | 418 - tidyquant-1.0.5/tidyquant/man/geom_chart.Rd | 296 - tidyquant-1.0.5/tidyquant/man/geom_ma.Rd | 346 - tidyquant-1.0.5/tidyquant/man/palette_tq.Rd | 46 tidyquant-1.0.5/tidyquant/man/pipe.Rd | 24 tidyquant-1.0.5/tidyquant/man/quandl_api_key.Rd | 58 tidyquant-1.0.5/tidyquant/man/quandl_search.Rd | 70 tidyquant-1.0.5/tidyquant/man/scale_manual.Rd | 124 tidyquant-1.0.5/tidyquant/man/theme_tq.Rd | 100 tidyquant-1.0.5/tidyquant/man/tidyquant.Rd | 62 tidyquant-1.0.5/tidyquant/man/tiingo_api_key.Rd | 60 tidyquant-1.0.5/tidyquant/man/tq_get.Rd | 362 - tidyquant-1.0.5/tidyquant/man/tq_index.Rd | 140 tidyquant-1.0.5/tidyquant/man/tq_mutate.Rd | 356 - tidyquant-1.0.5/tidyquant/man/tq_performance.Rd | 208 tidyquant-1.0.5/tidyquant/man/tq_portfolio.Rd | 302 - tidyquant-1.0.5/tidyquant/tests/testthat.R | 14 tidyquant-1.0.5/tidyquant/tests/testthat/test-excel-pivot_table.R | 84 tidyquant-1.0.5/tidyquant/tests/testthat/test-index-tq_index.R | 92 tidyquant-1.0.5/tidyquant/tests/testthat/test-index_tq_exchange.R | 76 tidyquant-1.0.5/tidyquant/tests/testthat/test-tq_get_economic_data.R | 72 tidyquant-1.0.5/tidyquant/tests/testthat/test-tq_get_stock_prices.R | 80 tidyquant-1.0.5/tidyquant/tests/testthat/test-tq_mutate.R | 397 - tidyquant-1.0.5/tidyquant/tests/testthat/test-tq_performance.R | 114 tidyquant-1.0.5/tidyquant/tests/testthat/test-tq_portfolio.R | 152 tidyquant-1.0.5/tidyquant/tests/testthat/test-tq_transmute.R | 381 - tidyquant-1.0.5/tidyquant/vignettes/TQ00-introduction-to-tidyquant.Rmd | 244 tidyquant-1.0.5/tidyquant/vignettes/TQ01-core-functions-in-tidyquant.Rmd | 838 +-- tidyquant-1.0.5/tidyquant/vignettes/TQ02-quant-integrations-in-tidyquant.Rmd | 1110 ++-- tidyquant-1.0.5/tidyquant/vignettes/TQ03-scaling-and-modeling-with-tidyquant.Rmd | 648 +- tidyquant-1.0.5/tidyquant/vignettes/TQ04-charting-with-tidyquant.Rmd | 979 +-- tidyquant-1.0.5/tidyquant/vignettes/TQ05-performance-analysis-with-tidyquant.Rmd | 1400 ++--- tidyquant-1.0.5/tidyquant/vignettes/TQ06-excel-in-r.Rmd |only tidyquant-1.0.5/tidyquant/vignettes/r-for-excel-users.jpg |only 106 files changed, 23527 insertions(+), 21267 deletions(-)
Title: Functional Singular Spectrum Analysis
Description: Methods and tools for implementing functional singular spectrum analysis and related techniques.
Author: Hossein Haghbin [aut, cre] ,
Jordan Trinka [aut],
Seyed Morteza Najibi [aut],
Mehdi Maadooliat [aut]
Maintainer: Hossein Haghbin <haghbin@pgu.ac.ir>
Diff between Rfssa versions 2.0.1 dated 2022-01-09 and 2.1.0 dated 2022-09-08
DESCRIPTION | 21 ++-- MD5 | 81 +++++++++---------- NAMESPACE | 12 ++ R/FTSclass.R | 116 +++++++++++++-------------- R/Rfssa.R | 85 ++++++++------------ R/fforecast.R | 99 ++++++++++++++++++----- R/freconstruct.r | 2 R/fssa.r | 124 +++++++++++++++++++++++------ R/fssaplot.R | 195 +++++++++++++++++++++++++++------------------- R/ftsarithmetic.R | 69 ++++++++++------ R/ftscor.R | 4 R/ftseval.R |only R/ftsplot.r | 183 +++++++++++++++++++++++++++++++------------ R/launchApp.R | 1 R/load_github_data.R | 6 - R/mfforecast.R | 63 +++++--------- R/mfreconstruct.R | 33 +++---- R/mfssa.R | 30 +++---- R/shinyFSSA.R | 4 R/shinyMFSSA.R | 8 - R/ufforecast.R | 18 ++-- R/ufreconstruct.r | 4 R/wcor.r | 11 +- R/wplot.R | 10 +- R/zzz.R |only README.md | 106 ++++++++----------------- inst/shiny/rmd/report.Rmd | 3 man/Rfssa.Rd | 79 +++++++----------- man/cor.fts.Rd | 4 man/dot-fts.Rd | 2 man/eval.fts.Rd |only man/fforecast.Rd | 97 ++++++++++++++++++---- man/fssa.Rd | 119 ++++++++++++++++++++++------ man/fts.Rd | 22 +---- man/fwcor.Rd | 9 -- man/load_github_data.Rd | 6 - man/plot.fssa.Rd | 23 +++-- man/plot.fts.Rd | 26 +++++- man/plus-.fts.Rd | 2 man/sub-.fts.Rd | 2 man/times-.fts.Rd | 2 man/wplot.Rd | 4 src/mwinprod.cpp | 22 ++--- 43 files changed, 1035 insertions(+), 672 deletions(-)
Title: Data Menu for Radiant: Business Analytics using R and Shiny
Description: The Radiant Data menu includes interfaces for loading, saving,
viewing, visualizing, summarizing, transforming, and combining data. It also
contains functionality to generate reproducible reports of the analyses
conducted in the application.
Author: Vincent Nijs [aut, cre]
Maintainer: Vincent Nijs <radiant@rady.ucsd.edu>
Diff between radiant.data versions 1.4.4 dated 2022-07-19 and 1.4.5 dated 2022-09-08
DESCRIPTION | 10 +++--- MD5 | 38 ++++++++++++------------ NAMESPACE | 2 - NEWS.md | 6 +++ R/radiant.R | 11 +++++-- README.md | 2 - inst/app/global.R | 40 ++++++++++++------------- inst/app/radiant.R | 18 +++++------ inst/app/tools/app/about.md | 2 - inst/app/tools/app/report_funs.R | 2 - inst/app/tools/app/report_r.R | 53 ++++++++++++++++++++------------- inst/app/tools/app/report_rmd.R | 58 ++++++++++++++++++++++--------------- inst/app/tools/data/combine_ui.R | 2 - inst/app/tools/data/explore_ui.R | 6 +-- inst/app/tools/data/manage_ui.R | 24 +++++++-------- inst/app/tools/data/pivotr_ui.R | 6 +-- inst/app/tools/data/transform_ui.R | 2 - inst/app/tools/data/view_ui.R | 4 +- inst/app/tools/data/visualize_ui.R | 2 - inst/app/www/style.css | 7 +++- 20 files changed, 168 insertions(+), 127 deletions(-)
Title: Another Approach to Package Installation
Description: The goal of 'pak' is to make package installation faster and
more reliable. In particular, it performs all HTTP operations in parallel,
so metadata resolution and package downloads are fast. Metadata and package
files are cached on the local disk as well. 'pak' has a dependency solver,
so it finds version conflicts before performing the installation. This
version of 'pak' supports CRAN, 'Bioconductor' and 'GitHub' packages as well.
Author: Gabor Csardi [aut, cre],
Jim Hester [aut],
RStudio [cph, fnd]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between pak versions 0.3.0 dated 2022-04-11 and 0.3.1 dated 2022-09-08
DESCRIPTION | 14 MD5 | 50 + NEWS.md | 27 R/aaa-rstudio-detect.R |only R/docs.R |only R/errors.R | 1141 ++++++++++++++++++++++++++-------------- R/extra.R | 4 R/package.R | 4 R/subprocess.R | 43 - inst/header.md |only man/chunks |only man/config.Rd |only man/faq.Rd |only man/features.Rd |only man/figures |only man/handle_package_not_found.Rd | 4 man/install.Rd |only man/local_install.Rd | 4 man/local_install_deps.Rd | 4 man/local_install_dev_deps.Rd | 4 man/lockfile_create.Rd | 4 man/pak_install_extra.Rd | 4 man/pak_package_sources.Rd | 52 + man/pkg_install.Rd | 4 man/repo_add.Rd | 6 man/roxygen |only man/tldr.Rd |only 27 files changed, 905 insertions(+), 464 deletions(-)
Title: Robust Structured Regression via the L2 Criterion
Description: An implementation of a computational framework for performing robust structured regression with the L2 criterion
from Chi and Chi (2021+). Improvements using the majorization-minimization (MM) principle from Liu, Chi, and
Lange (2022+) added in Version 2.0.
Author: Xiaoqian Liu [aut, ctb],
Jocelyn Chi [aut, cre],
Lisa Lin [ctb],
Kenneth Lange [aut],
Eric Chi [aut]
Maintainer: Jocelyn Chi <jocetchi@gmail.com>
Diff between L2E versions 1.0 dated 2022-01-07 and 2.0 dated 2022-09-08
L2E-1.0/L2E/inst/doc/l2e-intro.html |only L2E-1.0/L2E/vignettes/l2e-intro_cache |only L2E-2.0/L2E/DESCRIPTION | 35 +- L2E-2.0/L2E/MD5 | 142 ++++++----- L2E-2.0/L2E/NAMESPACE | 33 ++ L2E-2.0/L2E/R/CV_L2E_TF_dist.R |only L2E-2.0/L2E/R/CV_L2E_TF_lasso.R |only L2E-2.0/L2E/R/CV_L2E_sparse_dist.R |only L2E-2.0/L2E/R/CV_L2E_sparse_ncv.R |only L2E-2.0/L2E/R/L2E_TF_dist.R |only L2E-2.0/L2E/R/L2E_TF_lasso.R |only L2E-2.0/L2E/R/L2E_convex.R |only L2E-2.0/L2E/R/L2E_isotonic.R |only L2E-2.0/L2E/R/L2E_multivariate.R |only L2E-2.0/L2E/R/L2E_sparse_dist.R |only L2E-2.0/L2E/R/L2E_sparse_ncv.R |only L2E-2.0/L2E/R/bank.R | 1 L2E-2.0/L2E/R/l2e_regression.R | 52 +++- L2E-2.0/L2E/R/l2e_regression_MM.R |only L2E-2.0/L2E/R/l2e_regression_TF_dist.R |only L2E-2.0/L2E/R/l2e_regression_TF_lasso.R |only L2E-2.0/L2E/R/l2e_regression_convex.R | 95 ++++--- L2E-2.0/L2E/R/l2e_regression_convex_MM.R |only L2E-2.0/L2E/R/l2e_regression_isotonic.R | 88 ++++--- L2E-2.0/L2E/R/l2e_regression_isotonic_MM.R |only L2E-2.0/L2E/R/l2e_regression_sparse_dist.R |only L2E-2.0/L2E/R/l2e_regression_sparse_ncv.R |only L2E-2.0/L2E/R/myGetDkn.R |only L2E-2.0/L2E/R/objectives.R |only L2E-2.0/L2E/R/update_beta_MM_TF.R |only L2E-2.0/L2E/R/update_beta_MM_convex.R |only L2E-2.0/L2E/R/update_beta_MM_isotonic.R |only L2E-2.0/L2E/R/update_beta_MM_ls.R |only L2E-2.0/L2E/R/update_beta_MM_sparse.R |only L2E-2.0/L2E/R/update_beta_TF_lasso.R |only L2E-2.0/L2E/R/update_beta_convex.R | 52 ++-- L2E-2.0/L2E/R/update_beta_isotonic.R | 48 +-- L2E-2.0/L2E/R/update_beta_qr.R | 52 ++-- L2E-2.0/L2E/R/update_beta_sparse_ncv.R |only L2E-2.0/L2E/R/update_eta_bktk.R |only L2E-2.0/L2E/R/update_tau_R.R | 87 +++---- L2E-2.0/L2E/README.md | 34 +- L2E-2.0/L2E/build/vignette.rds |binary L2E-2.0/L2E/inst/CITATION | 17 + L2E-2.0/L2E/inst/doc/l2e-intro.R | 246 ++++++++++++++----- L2E-2.0/L2E/inst/doc/l2e-intro.Rmd | 320 ++++++++++++++++++-------- L2E-2.0/L2E/inst/doc/l2e-intro.pdf |only L2E-2.0/L2E/man/CV_L2E_TF_dist.Rd |only L2E-2.0/L2E/man/CV_L2E_TF_lasso.Rd |only L2E-2.0/L2E/man/CV_L2E_sparse_dist.Rd |only L2E-2.0/L2E/man/CV_L2E_sparse_ncv.Rd |only L2E-2.0/L2E/man/L2E_TF_dist.Rd |only L2E-2.0/L2E/man/L2E_TF_lasso.Rd |only L2E-2.0/L2E/man/L2E_convex.Rd |only L2E-2.0/L2E/man/L2E_isotonic.Rd |only L2E-2.0/L2E/man/L2E_multivariate.Rd |only L2E-2.0/L2E/man/L2E_sparse_dist.Rd |only L2E-2.0/L2E/man/L2E_sparse_ncv.Rd |only L2E-2.0/L2E/man/bank.Rd | 1 L2E-2.0/L2E/man/l2e_regression.Rd | 24 + L2E-2.0/L2E/man/l2e_regression_MM.Rd |only L2E-2.0/L2E/man/l2e_regression_TF_dist.Rd |only L2E-2.0/L2E/man/l2e_regression_TF_lasso.Rd |only L2E-2.0/L2E/man/l2e_regression_convex.Rd | 50 ++-- L2E-2.0/L2E/man/l2e_regression_convex_MM.Rd |only L2E-2.0/L2E/man/l2e_regression_isotonic.Rd | 49 ++- L2E-2.0/L2E/man/l2e_regression_isotonic_MM.Rd |only L2E-2.0/L2E/man/l2e_regression_sparse_dist.Rd |only L2E-2.0/L2E/man/l2e_regression_sparse_ncv.Rd |only L2E-2.0/L2E/man/myGetDkn.Rd |only L2E-2.0/L2E/man/objective.Rd |only L2E-2.0/L2E/man/objective_tau.Rd |only L2E-2.0/L2E/man/update_beta_MM_TF.Rd |only L2E-2.0/L2E/man/update_beta_MM_convex.Rd |only L2E-2.0/L2E/man/update_beta_MM_isotonic.Rd |only L2E-2.0/L2E/man/update_beta_MM_ls.Rd |only L2E-2.0/L2E/man/update_beta_MM_sparse.Rd |only L2E-2.0/L2E/man/update_beta_TF_lasso.Rd |only L2E-2.0/L2E/man/update_beta_convex.Rd | 4 L2E-2.0/L2E/man/update_beta_isotonic.Rd | 4 L2E-2.0/L2E/man/update_beta_qr.Rd | 4 L2E-2.0/L2E/man/update_beta_sparse_ncv.Rd |only L2E-2.0/L2E/man/update_eta_bktk.Rd |only L2E-2.0/L2E/man/update_tau_R.Rd | 2 L2E-2.0/L2E/vignettes/l2e-intro.Rmd | 320 ++++++++++++++++++-------- L2E-2.0/L2E/vignettes/l2e-ref.bib |only 86 files changed, 1145 insertions(+), 615 deletions(-)
Title: High-Throughput Toxicokinetics
Description: Pre-made models that can be rapidly tailored to various chemicals
and species using chemical-specific in vitro data and physiological
information. These tools allow incorporation of chemical
toxicokinetics ("TK") and in vitro-in vivo extrapolation ("IVIVE")
into bioinformatics, as described by Pearce et al. (2017)
(<doi:10.18637/jss.v079.i04>). Chemical-specific
in vitro data characterizing toxicokinetics can be been obtained
from relatively high-throughput experiments. The
chemical-independent
("generic") physiologically-based ("PBTK") and empirical
(for example, one compartment) "TK" models included here can be
parameterized with in vitro data or in silico predictions which are
provided for thousands of chemicals, multiple exposure routes,
and various species. The models are systems of ordinary
differential equations that are solved
using compiled (C-based) code for speed. A Monte Carlo sampler is
included for simulating human biological variability
(Ring et al., 2017 <doi:1 [...truncated...]
Author: John Wambaugh [aut, cre] ,
Sarah Davidson [aut] ,
Robert Pearce [aut] ,
Caroline Ring [aut] ,
Greg Honda [aut] ,
Mark Sfeir [aut],
Matt Linakis [aut] ,
Dustin Kapraun [aut] ,
Miyuki Breen [ctb] ,
Shannon Bell [ctb] ,
Xiaoqing Chang [ctb] ,
Todor Anto [...truncated...]
Maintainer: John Wambaugh <wambaugh.john@epa.gov>
Diff between httk versions 2.1.0 dated 2022-03-25 and 2.2.0 dated 2022-09-08
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httk-2.2.0/httk/R/calc_analytic_css.R | 119 httk-2.2.0/httk/R/calc_analytic_css_pbtk.R | 1 httk-2.2.0/httk/R/calc_css.R | 39 httk-2.2.0/httk/R/calc_elimination_rate.R | 37 httk-2.2.0/httk/R/calc_hep_clearance.R | 1 httk-2.2.0/httk/R/calc_mc_css.R | 279 httk-2.2.0/httk/R/calc_mc_oral_equiv.R | 265 httk-2.2.0/httk/R/calc_mc_tk.R | 10 httk-2.2.0/httk/R/calc_rblood2plasma.R | 2 httk-2.2.0/httk/R/calc_tkstats.R | 9 httk-2.2.0/httk/R/convert_solve_x.R | 2 httk-2.2.0/httk/R/convert_units.R | 6 httk-2.2.0/httk/R/create_mc_samples.R | 53 httk-2.2.0/httk/R/data.R | 398 httk-2.2.0/httk/R/estimate_gfr.R | 3 httk-2.2.0/httk/R/estimate_hematocrit.R | 133 httk-2.2.0/httk/R/gen_age_height_weight.R | 121 httk-2.2.0/httk/R/gen_height_weight.R | 175 httk-2.2.0/httk/R/gen_serum_creatinine.R | 113 httk-2.2.0/httk/R/get_Wetmore_Css.R | 159 httk-2.2.0/httk/R/get_Wetmore_Oral_Equiv.R | 202 httk-2.2.0/httk/R/get_Wetmore_cheminfo.R | 97 httk-2.2.0/httk/R/get_cheminfo.R | 39 httk-2.2.0/httk/R/get_weight_class.R | 52 httk-2.2.0/httk/R/globals.R | 11 httk-2.2.0/httk/R/hematocrit_infants.R | 1 httk-2.2.0/httk/R/httkpop_direct_resample.R | 17 httk-2.2.0/httk/R/httkpop_direct_resample_inner.R | 15 httk-2.2.0/httk/R/httkpop_generate.R | 209 httk-2.2.0/httk/R/httkpop_mc.R | 17 httk-2.2.0/httk/R/httkpop_virtual_indiv.R | 111 httk-2.2.0/httk/R/invitro_mc.R | 518 httk-2.2.0/httk/R/lump_tissues.R | 2 httk-2.2.0/httk/R/modelinfo_1comp.R | 5 httk-2.2.0/httk/R/modelinfo_3comp.R | 3 httk-2.2.0/httk/R/modelinfo_3compss.R | 3 httk-2.2.0/httk/R/modelinfo_Schmitt.R | 3 httk-2.2.0/httk/R/modelinfo_fetal_pbtk.R | 3 httk-2.2.0/httk/R/modelinfo_gas_pbtk.R | 3 httk-2.2.0/httk/R/modelinfo_pbtk.R | 3 httk-2.2.0/httk/R/monte_carlo.R | 12 httk-2.2.0/httk/R/parameterize_1comp.R | 49 httk-2.2.0/httk/R/parameterize_3comp.R | 42 httk-2.2.0/httk/R/parameterize_fetal_pbtk.R | 5 httk-2.2.0/httk/R/parameterize_gas_pbtk.R | 61 httk-2.2.0/httk/R/parameterize_pbtk.R | 89 httk-2.2.0/httk/R/parameterize_schmitt.R | 29 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8 177 files changed, 25973 insertions(+), 19746 deletions(-)
Title: An API Client for the Environmental Data Initiative Repository
Description: A client for the Environmental Data Initiative repository REST API. The 'EDI' data repository <https://portal.edirepository.org/nis/home.jsp> is for publication and reuse of ecological data with emphasis on metadata accuracy and completeness. It is built upon the 'PASTA+' software stack <https://pastaplus-core.readthedocs.io/en/latest/index.html#> and was developed in collaboration with the US 'LTER' Network <https://lternet.edu/>. 'EDIutils' includes functions to search and access existing data, evaluate and upload new data, and assist other data management tasks common to repository users.
Author: Colin Smith [aut, cre] ,
Corinna Gries [ctb] ,
Jasmine Lai [rev] ,
Rodrigo Pires [rev]
Maintainer: Colin Smith <colin.smith@wisc.edu>
Diff between EDIutils versions 1.0.1 dated 2022-06-28 and 1.0.2 dated 2022-09-08
DESCRIPTION | 6 LICENSE | 2 MD5 | 646 +++---- NAMESPACE | 148 - NEWS.md | 128 - R/check_status_create.R | 174 - R/check_status_evaluate.R | 164 - R/check_status_update.R | 174 - R/create_data_package.R | 126 - R/create_data_package_archive.R | 92 - R/create_dn.R | 62 R/create_event_subscription.R | 136 - R/create_journal_citation.R | 188 +- R/create_reservation.R | 82 R/delete_event_subscription.R | 124 - R/delete_journal_citation.R | 116 - R/delete_reservation.R | 90 R/evaluate_data_package.R | 214 +- R/execute_event_subscription.R | 132 - R/get_audit_count.R | 160 - R/get_audit_record.R | 72 R/get_audit_report.R | 144 - R/get_docid_reads.R | 68 R/get_event_subscription.R | 88 R/get_event_subscription_schema.R | 86 R/get_journal_citation.R | 66 R/get_packageid_reads.R | 68 R/get_provenance_metadata.R | 84 R/get_recent_uploads.R | 116 - R/is_authorized.R | 108 - R/list_active_reservations.R | 60 R/list_data_descendants.R | 72 R/list_data_entities.R | 60 R/list_data_package_citations.R | 76 R/list_data_package_identifiers.R | 56 R/list_data_package_revisions.R | 78 R/list_data_package_scopes.R | 76 R/list_data_sources.R | 82 R/list_deleted_data_packages.R | 54 R/list_principal_owner_citations.R | 72 R/list_recent_changes.R | 106 - R/list_recent_uploads.R | 70 R/list_reservation_identifiers.R | 58 R/list_service_methods.R | 118 - R/list_user_data_packages.R | 68 R/list_working_on.R | 58 R/login.R | 168 - R/logout.R | 38 R/query_event_subscriptions.R | 138 - R/read_data_entity.R | 144 - R/read_data_entity_checksum.R | 90 R/read_data_entity_name.R | 84 R/read_data_entity_names.R | 90 R/read_data_entity_resource_metadata.R | 100 - R/read_data_entity_size.R | 80 R/read_data_entity_sizes.R | 76 R/read_data_package.R | 124 - R/read_data_package_archive.R | 102 - R/read_data_package_citation.R | 342 +-- R/read_data_package_doi.R | 88 R/read_data_package_error.R | 94 - R/read_data_package_from_doi.R | 118 - R/read_data_package_report.R | 160 - R/read_data_package_report_checksum.R | 62 R/read_data_package_report_resource_metadata.R | 70 R/read_data_package_report_summary.R | 108 - R/read_data_package_resource_metadata.R | 70 R/read_evaluate_report.R | 200 +- R/read_evaluate_report_summary.R | 138 - R/read_metadata.R | 78 R/read_metadata_checksum.R | 60 R/read_metadata_dublin_core.R | 74 R/read_metadata_entity.R | 88 R/read_metadata_format.R | 60 R/read_metadata_resource_metadata.R | 72 R/search_data_packages.R | 270 +- R/update_data_package.R | 140 - R/utilities.R | 908 +++++----- README.md | 534 ++--- build/vignette.rds |binary inst/CITATION | 30 inst/doc/evaluate_and_upload.R | 254 +- inst/doc/evaluate_and_upload.Rmd | 418 ++-- inst/doc/evaluate_and_upload.html | 846 +++++---- inst/doc/retrieve_citations.R | 64 inst/doc/retrieve_citations.Rmd | 124 - inst/doc/retrieve_citations.html | 580 ++++-- inst/doc/retrieve_downloads.R | 156 - inst/doc/retrieve_downloads.Rmd | 280 +-- inst/doc/retrieve_downloads.html | 716 +++++-- inst/doc/search_and_access.R | 266 +- inst/doc/search_and_access.Rmd | 386 ++-- inst/doc/search_and_access.html | 780 +++++--- inst/doc/tests_requiring_authentication.R | 86 inst/doc/tests_requiring_authentication.Rmd | 182 +- inst/doc/tests_requiring_authentication.html | 662 ++++--- inst/extdata/eml.xml | 222 +- man/check_status_create.Rd | 132 - man/check_status_evaluate.Rd | 132 - man/check_status_update.Rd | 132 - man/create_data_package.Rd | 134 - man/create_data_package_archive.Rd | 102 - man/create_dn.Rd | 72 man/create_event_subscription.Rd | 130 - man/create_journal_citation.Rd | 166 - man/create_reservation.Rd | 96 - man/delete_event_subscription.Rd | 134 - man/delete_journal_citation.Rd | 112 - man/delete_reservation.Rd | 104 - man/evaluate_data_package.Rd | 216 +- man/execute_event_subscription.Rd | 132 - man/get_audit_count.Rd | 168 - man/get_audit_record.Rd | 94 - man/get_audit_report.Rd | 168 - man/get_docid_reads.Rd | 86 man/get_event_subscription.Rd | 100 - man/get_event_subscription_schema.Rd | 106 - man/get_journal_citation.Rd | 76 man/get_packageid_reads.Rd | 80 man/get_provenance_metadata.Rd | 80 man/get_recent_uploads.Rd | 126 - man/is_authorized.Rd | 110 - man/list_active_reservations.Rd | 76 man/list_data_descendants.Rd | 90 man/list_data_entities.Rd | 86 man/list_data_package_citations.Rd | 90 man/list_data_package_identifiers.Rd | 88 man/list_data_package_revisions.Rd | 106 - man/list_data_package_scopes.Rd | 106 - man/list_data_sources.Rd | 102 - man/list_deleted_data_packages.Rd | 84 man/list_principal_owner_citations.Rd | 90 man/list_recent_changes.Rd | 124 - man/list_recent_uploads.Rd | 92 - man/list_reservation_identifiers.Rd | 76 man/list_service_methods.Rd | 148 - man/list_user_data_packages.Rd | 96 - man/list_working_on.Rd | 62 man/login.Rd | 142 - man/logout.Rd | 58 man/query_event_subscriptions.Rd | 152 - man/read_data_entity.Rd | 192 +- man/read_data_entity_checksum.Rd | 144 - man/read_data_entity_name.Rd | 140 - man/read_data_entity_names.Rd | 128 - man/read_data_entity_resource_metadata.Rd | 160 - man/read_data_entity_size.Rd | 136 - man/read_data_entity_sizes.Rd | 128 - man/read_data_package.Rd | 168 - man/read_data_package_archive.Rd | 148 - man/read_data_package_citation.Rd | 344 +-- man/read_data_package_doi.Rd | 130 - man/read_data_package_error.Rd | 148 - man/read_data_package_from_doi.Rd | 166 - man/read_data_package_report.Rd | 180 - man/read_data_package_report_checksum.Rd | 118 - man/read_data_package_report_resource_metadata.Rd | 130 - man/read_data_package_report_summary.Rd | 160 - man/read_data_package_resource_metadata.Rd | 130 - man/read_evaluate_report.Rd | 208 +- man/read_evaluate_report_summary.Rd | 194 +- man/read_metadata.Rd | 134 - man/read_metadata_checksum.Rd | 116 - man/read_metadata_dublin_core.Rd | 130 - man/read_metadata_entity.Rd | 148 - man/read_metadata_format.Rd | 116 - man/read_metadata_resource_metadata.Rd | 132 - man/search_data_packages.Rd | 242 +- man/update_data_package.Rd | 140 - tests/fixtures/check_status_create.yml | 120 - tests/fixtures/check_status_create_wait.yml | 120 - tests/fixtures/check_status_evaluate.yml | 116 - tests/fixtures/check_status_update.yml | 116 - tests/fixtures/check_status_update_wait.yml | 642 +++---- tests/fixtures/create_data_package_archive.yml | 58 tests/fixtures/create_reservation.yml | 58 tests/fixtures/create_reservation_delete_reservation.yml | 58 tests/fixtures/delete_event_subscription.yml | 54 tests/fixtures/delete_journal_citation.yml | 54 tests/fixtures/delete_reservation.yml | 58 tests/fixtures/execute_event_subscription.yml | 54 tests/fixtures/get_audit_count.yml | 58 tests/fixtures/get_audit_report.yml | 118 - tests/fixtures/get_docid_reads.yml | 136 - tests/fixtures/get_event_subscription.yml | 70 tests/fixtures/get_event_subscription_schema.yml | 66 tests/fixtures/get_journal_citation.yml | 80 tests/fixtures/get_packageid_reads.yml | 136 - tests/fixtures/get_provenance_metadata.yml | 220 +- tests/fixtures/is_authorized.yml | 56 tests/fixtures/list_active_reservations.yml | 70 tests/fixtures/list_data_descendants.yml | 72 tests/fixtures/list_data_entities.yml | 56 tests/fixtures/list_data_package_citations.yml | 84 tests/fixtures/list_data_package_identifiers.yml | 96 - tests/fixtures/list_data_package_revisions.yml | 68 tests/fixtures/list_data_package_revisions_newest.yml | 56 tests/fixtures/list_data_package_revisions_oldest.yml | 56 tests/fixtures/list_data_package_scopes.yml | 66 tests/fixtures/list_data_sources.yml | 72 tests/fixtures/list_deleted_data_packages.yml | 62 tests/fixtures/list_principal_owner_citations.yml | 68 tests/fixtures/list_recent_uploads.yml | 80 tests/fixtures/list_reservation_identifiers.yml | 62 tests/fixtures/list_service_methods.yml | 60 tests/fixtures/list_user_data_packages.yml | 60 tests/fixtures/list_working_on.yml | 60 tests/fixtures/login.yml | 52 tests/fixtures/query_event_subscriptions.yml | 70 tests/fixtures/read_data_entity.yml | 302 +-- tests/fixtures/read_data_entity_checksum.yml | 56 tests/fixtures/read_data_entity_name.yml | 56 tests/fixtures/read_data_entity_names.yml | 62 tests/fixtures/read_data_entity_resource_metadata.yml | 94 - tests/fixtures/read_data_entity_size.yml | 56 tests/fixtures/read_data_entity_sizes.yml | 58 tests/fixtures/read_data_package.yml | 66 tests/fixtures/read_data_package_citation.yml | 68 tests/fixtures/read_data_package_citation_html.yml | 70 tests/fixtures/read_data_package_citation_json.yml | 80 tests/fixtures/read_data_package_doi.yml | 56 tests/fixtures/read_data_package_error.yml | 58 tests/fixtures/read_data_package_from_doi.yml | 64 tests/fixtures/read_data_package_ore.yml | 170 - tests/fixtures/read_data_package_report.yml | 628 +++--- tests/fixtures/read_data_package_report_char.yml | 626 +++--- tests/fixtures/read_data_package_report_checksum.yml | 56 tests/fixtures/read_data_package_report_html.yml | 58 tests/fixtures/read_data_package_report_resource_metadata.yml | 86 tests/fixtures/read_data_package_report_summary.yml | 354 +-- tests/fixtures/read_data_package_report_summary_with_exceptions.yml | 354 +-- tests/fixtures/read_data_package_resource_metadata.yml | 86 tests/fixtures/read_evaluate_report.yml | 62 tests/fixtures/read_evaluate_report_char.yml | 62 tests/fixtures/read_evaluate_report_html.yml | 58 tests/fixtures/read_evaluate_report_summary.yml | 66 tests/fixtures/read_metadata.yml | 74 tests/fixtures/read_metadata_checksum.yml | 56 tests/fixtures/read_metadata_dublin_core.yml | 64 tests/fixtures/read_metadata_entity.yml | 354 +-- tests/fixtures/read_metadata_format.yml | 56 tests/fixtures/read_metadata_resource_metadata.yml | 90 tests/fixtures/report2char.yml | 582 +++--- tests/fixtures/search_data_packages.yml | 456 ++--- tests/testthat.R | 8 tests/testthat/setup-EDIutils.R | 52 tests/testthat/test_check_status_create.R | 54 tests/testthat/test_check_status_evaluate.R | 18 tests/testthat/test_check_status_update.R | 28 tests/testthat/test_create_data_package.R | 36 tests/testthat/test_create_data_package_archive.R | 42 tests/testthat/test_create_dn.R | 28 tests/testthat/test_create_event_subscription.R | 10 tests/testthat/test_create_journal_citation.R | 32 tests/testthat/test_create_reservation.R | 24 tests/testthat/test_delete_event_subscription.R | 22 tests/testthat/test_delete_journal_citation.R | 22 tests/testthat/test_delete_reservation.R | 24 tests/testthat/test_evaluate_data_package.R | 38 tests/testthat/test_evaluate_report_summary.R | 18 tests/testthat/test_execute_event_subscription.R | 50 tests/testthat/test_get_audit_count.R | 18 tests/testthat/test_get_audit_record.R | 28 tests/testthat/test_get_audit_report.R | 38 tests/testthat/test_get_docid_reads.R | 28 tests/testthat/test_get_event_subscription.R | 60 tests/testthat/test_get_event_subscription_schema.R | 26 tests/testthat/test_get_journal_citation.R | 42 tests/testthat/test_get_packageid_reads.R | 28 tests/testthat/test_get_provenance_metadata.R | 22 tests/testthat/test_get_recent_uploads.R | 32 tests/testthat/test_is_authorized.R | 18 tests/testthat/test_list_active_reservations.R | 26 tests/testthat/test_list_data_descendants.R | 26 tests/testthat/test_list_data_entities.R | 20 tests/testthat/test_list_data_package_citations.R | 30 tests/testthat/test_list_data_package_identifiers.R | 18 tests/testthat/test_list_data_package_revisions.R | 44 tests/testthat/test_list_data_package_scopes.R | 18 tests/testthat/test_list_data_sources.R | 26 tests/testthat/test_list_deleted_data_packages.R | 18 tests/testthat/test_list_principal_owner_citations.R | 32 tests/testthat/test_list_recent_changes.R | 34 tests/testthat/test_list_recent_uploads.R | 28 tests/testthat/test_list_reservation_identifiers.R | 18 tests/testthat/test_list_service_methods.R | 18 tests/testthat/test_list_user_data_packages.R | 18 tests/testthat/test_list_working_on.R | 24 tests/testthat/test_login.R | 14 tests/testthat/test_logout.R | 10 tests/testthat/test_query_event_subscriptions.R | 26 tests/testthat/test_read_data_entity.R | 20 tests/testthat/test_read_data_entity_checksum.R | 22 tests/testthat/test_read_data_entity_name.R | 22 tests/testthat/test_read_data_entity_names.R | 22 tests/testthat/test_read_data_entity_resource_metadata.R | 34 tests/testthat/test_read_data_entity_size.R | 22 tests/testthat/test_read_data_entity_sizes.R | 22 tests/testthat/test_read_data_package.R | 34 tests/testthat/test_read_data_package_archive.R | 10 tests/testthat/test_read_data_package_citation.R | 40 tests/testthat/test_read_data_package_doi.R | 18 tests/testthat/test_read_data_package_error.R | 18 tests/testthat/test_read_data_package_from_doi.R | 66 tests/testthat/test_read_data_package_report.R | 52 tests/testthat/test_read_data_package_report_checksum.R | 18 tests/testthat/test_read_data_package_report_resource_metadata.R | 34 tests/testthat/test_read_data_package_report_summary.R | 34 tests/testthat/test_read_data_package_resource_metadata.R | 30 tests/testthat/test_read_evaluate_report.R | 56 tests/testthat/test_read_metadata.R | 20 tests/testthat/test_read_metadata_checksum.R | 18 tests/testthat/test_read_metadata_entity.R | 22 tests/testthat/test_read_metadata_format.R | 18 tests/testthat/test_read_metadata_resource_metadata.R | 28 tests/testthat/test_read_metdata_dublin_core.R | 22 tests/testthat/test_search_data_packages.R | 38 tests/testthat/test_update_data_package.R | 44 tests/testthat/test_utilities.R | 206 +- vignettes/evaluate_and_upload.Rmd | 418 ++-- vignettes/retrieve_citations.Rmd | 124 - vignettes/retrieve_downloads.Rmd | 280 +-- vignettes/search_and_access.Rmd | 386 ++-- vignettes/tests_requiring_authentication.Rmd | 182 +- 324 files changed, 19617 insertions(+), 18633 deletions(-)
Title: Residual Diagnostics for Hierarchical (Multi-Level / Mixed)
Regression Models
Description: The 'DHARMa' package uses a simulation-based approach to create
readily interpretable scaled (quantile) residuals for fitted (generalized) linear mixed
models. Currently supported are linear and generalized linear (mixed) models from 'lme4'
(classes 'lmerMod', 'glmerMod'), 'glmmTMB' 'GLMMadaptive' and 'spaMM', generalized additive models
('gam' from 'mgcv'), 'glm' (including 'negbin' from 'MASS', but excluding quasi-distributions) and
'lm' model classes. Moreover, externally created simulations, e.g. posterior predictive simulations
from Bayesian software such as 'JAGS', 'STAN', or 'BUGS' can be processed as well.
The resulting residuals are standardized to values between 0 and 1 and can be interpreted
as intuitively as residuals from a linear regression. The package also provides a number of
plot and test functions for typical model misspecification problems, such as
over/underdispersion, zero-inflation, and residual spatial and temporal autocorrelation.
Author: Florian Hartig [aut, cre] ,
Lukas Lohse [ctb]
Maintainer: Florian Hartig <florian.hartig@biologie.uni-regensburg.de>
Diff between DHARMa versions 0.4.5 dated 2022-01-16 and 0.4.6 dated 2022-09-08
DHARMa-0.4.5/DHARMa/NEWS |only DHARMa-0.4.6/DHARMa/DESCRIPTION | 10 DHARMa-0.4.6/DHARMa/MD5 | 47 DHARMa-0.4.6/DHARMa/NAMESPACE | 2 DHARMa-0.4.6/DHARMa/NEWS.md |only DHARMa-0.4.6/DHARMa/R/compatibility.R | 24 DHARMa-0.4.6/DHARMa/R/helper.R | 7 DHARMa-0.4.6/DHARMa/R/runBenchmarks.R | 139 + DHARMa-0.4.6/DHARMa/R/simulateLRT.R |only DHARMa-0.4.6/DHARMa/R/simulateResiduals.R | 2 DHARMa-0.4.6/DHARMa/R/tests.R | 100 - DHARMa-0.4.6/DHARMa/inst/doc/DHARMa.R | 2 DHARMa-0.4.6/DHARMa/inst/doc/DHARMa.Rmd | 51 DHARMa-0.4.6/DHARMa/inst/doc/DHARMa.html | 1194 ++++++++++++--- DHARMa-0.4.6/DHARMa/inst/doc/DHARMaForBayesians.Rmd | 2 DHARMa-0.4.6/DHARMa/inst/doc/DHARMaForBayesians.html | 351 +++- DHARMa-0.4.6/DHARMa/inst/examples/benchmarkRuntimeHelp.R |only DHARMa-0.4.6/DHARMa/inst/examples/runBenchmarksHelp.R | 58 DHARMa-0.4.6/DHARMa/inst/examples/simulateLRTHelp.R |only DHARMa-0.4.6/DHARMa/man/benchmarkRuntime.Rd |only DHARMa-0.4.6/DHARMa/man/getQuantile.Rd | 7 DHARMa-0.4.6/DHARMa/man/getSimulations.Rd | 18 DHARMa-0.4.6/DHARMa/man/residuals.DHARMa.Rd | 3 DHARMa-0.4.6/DHARMa/man/runBenchmarks.Rd | 62 DHARMa-0.4.6/DHARMa/man/simulateLRT.Rd |only DHARMa-0.4.6/DHARMa/man/simulateResiduals.Rd | 2 DHARMa-0.4.6/DHARMa/vignettes/DHARMa.Rmd | 51 DHARMa-0.4.6/DHARMa/vignettes/DHARMaForBayesians.Rmd | 2 28 files changed, 1604 insertions(+), 530 deletions(-)
Title: Gaussian Mixture Graphical Model Learning and Inference
Description: Gaussian mixture graphical models include Bayesian networks and
dynamic Bayesian networks (their temporal extension) whose local probability
distributions are described by Gaussian mixture models. They are powerful
tools for graphically and quantitatively representing nonlinear dependencies
between continuous variables. This package provides a complete framework to
create, manipulate, learn the structure and the parameters, and perform
inference in these models. Most of the algorithms are described in the PhD
thesis of Roos (2018) <https://tel.archives-ouvertes.fr/tel-01943718>.
Author: Jeremy Roos [aut, cre, cph],
RATP Group [fnd, cph]
Maintainer: Jeremy Roos <jeremy.roos@gmail.com>
Diff between gmgm versions 1.1.1 dated 2022-05-27 and 1.1.2 dated 2022-09-08
DESCRIPTION | 8 +++--- MD5 | 44 ++++++++++++++++++------------------ NEWS.md | 4 +++ R/AIC.R | 6 +--- R/BIC.R | 12 ++------- R/data_air.R | 4 +-- R/filtering.R | 20 +++++++--------- R/gmbn.R | 44 ++++++++++++++---------------------- R/gmdbn.R | 64 ++++++++++++++++------------------------------------- R/gmm.R | 31 +++++++++---------------- R/prediction.R | 20 +++++++--------- R/propagation.R | 20 ++++++---------- R/smoothing.R | 10 ++++---- man/AIC.Rd | 6 +--- man/BIC.Rd | 12 ++------- man/data_air.Rd | 4 +-- man/filtering.Rd | 20 +++++++--------- man/gmbn.Rd | 44 ++++++++++++++---------------------- man/gmdbn.Rd | 64 ++++++++++++++++------------------------------------- man/gmm.Rd | 31 +++++++++---------------- man/prediction.Rd | 20 +++++++--------- man/propagation.Rd | 20 ++++++---------- man/smoothing.Rd | 10 ++++---- 23 files changed, 202 insertions(+), 316 deletions(-)
Title: HTTP and WebSocket Server Library
Description: Provides low-level socket and protocol support for handling
HTTP and WebSocket requests directly from within R. It is primarily
intended as a building block for other packages, rather than making it
particularly easy to create complete web applications using httpuv alone.
httpuv is built on top of the libuv and http-parser C libraries, both of
which were developed by Joyent, Inc. (See LICENSE file for libuv and
http-parser license information.)
Author: Joe Cheng [aut],
Winston Chang [aut, cre],
RStudio, PBC [cph],
Hector Corrada Bravo [ctb],
Jeroen Ooms [ctb],
Andrzej Krzemienski [cph]
Maintainer: Winston Chang <winston@rstudio.com>
Diff between httpuv versions 1.6.5 dated 2022-01-04 and 1.6.6 dated 2022-09-08
httpuv-1.6.5/httpuv/src/libuv/test/dns-server.c |only httpuv-1.6.6/httpuv/DESCRIPTION | 8 httpuv-1.6.6/httpuv/MD5 | 498 httpuv-1.6.6/httpuv/NEWS.md | 9 httpuv-1.6.6/httpuv/R/httpuv.R | 13 httpuv-1.6.6/httpuv/README.md | 12 httpuv-1.6.6/httpuv/man/PipeServer.Rd | 48 httpuv-1.6.6/httpuv/man/Server.Rd | 42 httpuv-1.6.6/httpuv/man/WebServer.Rd | 48 httpuv-1.6.6/httpuv/man/WebSocket.Rd | 36 httpuv-1.6.6/httpuv/src/Makevars | 3 httpuv-1.6.6/httpuv/src/httpuv.cpp | 2 httpuv-1.6.6/httpuv/src/libuv/AUTHORS | 77 httpuv-1.6.6/httpuv/src/libuv/CMakeLists.txt | 271 httpuv-1.6.6/httpuv/src/libuv/CONTRIBUTING.md | 10 httpuv-1.6.6/httpuv/src/libuv/ChangeLog | 548 httpuv-1.6.6/httpuv/src/libuv/LINKS.md |only httpuv-1.6.6/httpuv/src/libuv/MAINTAINERS.md | 1 httpuv-1.6.6/httpuv/src/libuv/Makefile.am | 33 httpuv-1.6.6/httpuv/src/libuv/Makefile.in | 861 - httpuv-1.6.6/httpuv/src/libuv/README.md | 22 httpuv-1.6.6/httpuv/src/libuv/SUPPORTED_PLATFORMS.md | 6 httpuv-1.6.6/httpuv/src/libuv/aclocal.m4 | 82 httpuv-1.6.6/httpuv/src/libuv/ar-lib | 17 httpuv-1.6.6/httpuv/src/libuv/compile | 6 httpuv-1.6.6/httpuv/src/libuv/config.guess | 1488 +- httpuv-1.6.6/httpuv/src/libuv/config.sub | 2607 +-- httpuv-1.6.6/httpuv/src/libuv/configure | 6771 ++++++---- httpuv-1.6.6/httpuv/src/libuv/configure.ac | 29 httpuv-1.6.6/httpuv/src/libuv/depcomp | 2 httpuv-1.6.6/httpuv/src/libuv/docs/code/dns/main.c | 4 httpuv-1.6.6/httpuv/src/libuv/docs/code/multi-echo-server/main.c | 2 httpuv-1.6.6/httpuv/src/libuv/docs/requirements.txt |only httpuv-1.6.6/httpuv/src/libuv/docs/src/api.rst | 1 httpuv-1.6.6/httpuv/src/libuv/docs/src/async.rst | 2 httpuv-1.6.6/httpuv/src/libuv/docs/src/check.rst | 12 httpuv-1.6.6/httpuv/src/libuv/docs/src/errors.rst | 22 httpuv-1.6.6/httpuv/src/libuv/docs/src/fs.rst | 15 httpuv-1.6.6/httpuv/src/libuv/docs/src/guide/basics.rst | 4 httpuv-1.6.6/httpuv/src/libuv/docs/src/guide/eventloops.rst | 2 httpuv-1.6.6/httpuv/src/libuv/docs/src/guide/filesystem.rst | 11 httpuv-1.6.6/httpuv/src/libuv/docs/src/guide/introduction.rst | 2 httpuv-1.6.6/httpuv/src/libuv/docs/src/guide/networking.rst | 13 httpuv-1.6.6/httpuv/src/libuv/docs/src/guide/processes.rst | 23 httpuv-1.6.6/httpuv/src/libuv/docs/src/guide/threads.rst | 20 httpuv-1.6.6/httpuv/src/libuv/docs/src/guide/utilities.rst | 15 httpuv-1.6.6/httpuv/src/libuv/docs/src/handle.rst | 4 httpuv-1.6.6/httpuv/src/libuv/docs/src/idle.rst | 12 httpuv-1.6.6/httpuv/src/libuv/docs/src/index.rst | 6 httpuv-1.6.6/httpuv/src/libuv/docs/src/loop.rst | 9 httpuv-1.6.6/httpuv/src/libuv/docs/src/metrics.rst |only httpuv-1.6.6/httpuv/src/libuv/docs/src/misc.rst | 80 httpuv-1.6.6/httpuv/src/libuv/docs/src/pipe.rst | 18 httpuv-1.6.6/httpuv/src/libuv/docs/src/poll.rst | 65 httpuv-1.6.6/httpuv/src/libuv/docs/src/prepare.rst | 12 httpuv-1.6.6/httpuv/src/libuv/docs/src/process.rst | 45 httpuv-1.6.6/httpuv/src/libuv/docs/src/request.rst | 11 httpuv-1.6.6/httpuv/src/libuv/docs/src/sphinx-plugins/manpage.py | 2 httpuv-1.6.6/httpuv/src/libuv/docs/src/stream.rst | 25 httpuv-1.6.6/httpuv/src/libuv/docs/src/tcp.rst | 24 httpuv-1.6.6/httpuv/src/libuv/docs/src/timer.rst | 7 httpuv-1.6.6/httpuv/src/libuv/docs/src/tty.rst | 5 httpuv-1.6.6/httpuv/src/libuv/docs/src/udp.rst | 48 httpuv-1.6.6/httpuv/src/libuv/include/uv.h | 74 httpuv-1.6.6/httpuv/src/libuv/include/uv/errno.h | 14 httpuv-1.6.6/httpuv/src/libuv/include/uv/tree.h | 2 httpuv-1.6.6/httpuv/src/libuv/include/uv/unix.h | 4 httpuv-1.6.6/httpuv/src/libuv/include/uv/version.h | 2 httpuv-1.6.6/httpuv/src/libuv/include/uv/win.h | 7 httpuv-1.6.6/httpuv/src/libuv/install-sh | 161 httpuv-1.6.6/httpuv/src/libuv/libuv-static.pc.in |only httpuv-1.6.6/httpuv/src/libuv/m4/ax_pthread.m4 |only httpuv-1.6.6/httpuv/src/libuv/m4/libtool.m4 | 13 httpuv-1.6.6/httpuv/src/libuv/missing | 2 httpuv-1.6.6/httpuv/src/libuv/src/idna.c | 49 httpuv-1.6.6/httpuv/src/libuv/src/inet.c | 3 httpuv-1.6.6/httpuv/src/libuv/src/random.c | 2 httpuv-1.6.6/httpuv/src/libuv/src/strscpy.c | 21 httpuv-1.6.6/httpuv/src/libuv/src/strscpy.h | 21 httpuv-1.6.6/httpuv/src/libuv/src/threadpool.c | 11 httpuv-1.6.6/httpuv/src/libuv/src/timer.c | 9 httpuv-1.6.6/httpuv/src/libuv/src/unix/aix-common.c | 110 httpuv-1.6.6/httpuv/src/libuv/src/unix/aix.c | 72 httpuv-1.6.6/httpuv/src/libuv/src/unix/async.c | 35 httpuv-1.6.6/httpuv/src/libuv/src/unix/atomic-ops.h | 6 httpuv-1.6.6/httpuv/src/libuv/src/unix/bsd-ifaddrs.c | 10 httpuv-1.6.6/httpuv/src/libuv/src/unix/bsd-proctitle.c | 5 httpuv-1.6.6/httpuv/src/libuv/src/unix/core.c | 150 httpuv-1.6.6/httpuv/src/libuv/src/unix/darwin-proctitle.c | 3 httpuv-1.6.6/httpuv/src/libuv/src/unix/darwin-stub.h |only httpuv-1.6.6/httpuv/src/libuv/src/unix/darwin.c | 176 httpuv-1.6.6/httpuv/src/libuv/src/unix/dl.c | 2 httpuv-1.6.6/httpuv/src/libuv/src/unix/epoll.c |only httpuv-1.6.6/httpuv/src/libuv/src/unix/freebsd.c | 52 httpuv-1.6.6/httpuv/src/libuv/src/unix/fs.c | 273 httpuv-1.6.6/httpuv/src/libuv/src/unix/fsevents.c | 79 httpuv-1.6.6/httpuv/src/libuv/src/unix/getaddrinfo.c | 3 httpuv-1.6.6/httpuv/src/libuv/src/unix/ibmi.c | 86 httpuv-1.6.6/httpuv/src/libuv/src/unix/internal.h | 48 httpuv-1.6.6/httpuv/src/libuv/src/unix/kqueue.c | 60 httpuv-1.6.6/httpuv/src/libuv/src/unix/linux-core.c | 612 httpuv-1.6.6/httpuv/src/libuv/src/unix/linux-inotify.c | 2 httpuv-1.6.6/httpuv/src/libuv/src/unix/linux-syscalls.c | 125 httpuv-1.6.6/httpuv/src/libuv/src/unix/linux-syscalls.h | 10 httpuv-1.6.6/httpuv/src/libuv/src/unix/loop.c | 36 httpuv-1.6.6/httpuv/src/libuv/src/unix/no-proctitle.c | 3 httpuv-1.6.6/httpuv/src/libuv/src/unix/os390-proctitle.c |only httpuv-1.6.6/httpuv/src/libuv/src/unix/os390-syscalls.c | 63 httpuv-1.6.6/httpuv/src/libuv/src/unix/os390-syscalls.h | 3 httpuv-1.6.6/httpuv/src/libuv/src/unix/os390.c | 246 httpuv-1.6.6/httpuv/src/libuv/src/unix/pipe.c | 54 httpuv-1.6.6/httpuv/src/libuv/src/unix/poll.c | 14 httpuv-1.6.6/httpuv/src/libuv/src/unix/posix-poll.c | 40 httpuv-1.6.6/httpuv/src/libuv/src/unix/process.c | 210 httpuv-1.6.6/httpuv/src/libuv/src/unix/proctitle.c | 14 httpuv-1.6.6/httpuv/src/libuv/src/unix/pthread-fixes.c | 6 httpuv-1.6.6/httpuv/src/libuv/src/unix/qnx.c |only httpuv-1.6.6/httpuv/src/libuv/src/unix/signal.c | 8 httpuv-1.6.6/httpuv/src/libuv/src/unix/stream.c | 226 httpuv-1.6.6/httpuv/src/libuv/src/unix/sunos.c | 48 httpuv-1.6.6/httpuv/src/libuv/src/unix/tcp.c | 58 httpuv-1.6.6/httpuv/src/libuv/src/unix/thread.c | 32 httpuv-1.6.6/httpuv/src/libuv/src/unix/tty.c | 18 httpuv-1.6.6/httpuv/src/libuv/src/unix/udp.c | 233 httpuv-1.6.6/httpuv/src/libuv/src/uv-common.c | 147 httpuv-1.6.6/httpuv/src/libuv/src/uv-common.h | 49 httpuv-1.6.6/httpuv/src/libuv/src/uv-data-getter-setters.c | 21 httpuv-1.6.6/httpuv/src/libuv/src/win/atomicops-inl.h | 8 httpuv-1.6.6/httpuv/src/libuv/src/win/core.c | 103 httpuv-1.6.6/httpuv/src/libuv/src/win/detect-wakeup.c | 21 httpuv-1.6.6/httpuv/src/libuv/src/win/error.c | 3 httpuv-1.6.6/httpuv/src/libuv/src/win/fs-event.c | 39 httpuv-1.6.6/httpuv/src/libuv/src/win/fs-fd-hash-inl.h | 24 httpuv-1.6.6/httpuv/src/libuv/src/win/fs.c | 309 httpuv-1.6.6/httpuv/src/libuv/src/win/internal.h | 6 httpuv-1.6.6/httpuv/src/libuv/src/win/pipe.c | 240 httpuv-1.6.6/httpuv/src/libuv/src/win/poll.c | 184 httpuv-1.6.6/httpuv/src/libuv/src/win/process-stdio.c | 96 httpuv-1.6.6/httpuv/src/libuv/src/win/process.c | 6 httpuv-1.6.6/httpuv/src/libuv/src/win/signal.c | 5 httpuv-1.6.6/httpuv/src/libuv/src/win/stream.c | 23 httpuv-1.6.6/httpuv/src/libuv/src/win/tcp.c | 325 httpuv-1.6.6/httpuv/src/libuv/src/win/thread.c | 15 httpuv-1.6.6/httpuv/src/libuv/src/win/tty.c | 15 httpuv-1.6.6/httpuv/src/libuv/src/win/udp.c | 44 httpuv-1.6.6/httpuv/src/libuv/src/win/util.c | 246 httpuv-1.6.6/httpuv/src/libuv/src/win/winapi.c | 10 httpuv-1.6.6/httpuv/src/libuv/src/win/winapi.h | 26 httpuv-1.6.6/httpuv/src/libuv/test/benchmark-async-pummel.c | 2 httpuv-1.6.6/httpuv/src/libuv/test/benchmark-async.c | 2 httpuv-1.6.6/httpuv/src/libuv/test/benchmark-list.h | 1 httpuv-1.6.6/httpuv/src/libuv/test/benchmark-million-async.c | 2 httpuv-1.6.6/httpuv/src/libuv/test/benchmark-million-timers.c | 2 httpuv-1.6.6/httpuv/src/libuv/test/benchmark-multi-accept.c | 8 httpuv-1.6.6/httpuv/src/libuv/test/benchmark-pound.c | 8 httpuv-1.6.6/httpuv/src/libuv/test/benchmark-pump.c | 2 httpuv-1.6.6/httpuv/src/libuv/test/benchmark-tcp-write-batch.c | 4 httpuv-1.6.6/httpuv/src/libuv/test/benchmark-udp-pummel.c | 14 httpuv-1.6.6/httpuv/src/libuv/test/blackhole-server.c | 3 httpuv-1.6.6/httpuv/src/libuv/test/echo-server.c | 64 httpuv-1.6.6/httpuv/src/libuv/test/run-benchmarks.c | 12 httpuv-1.6.6/httpuv/src/libuv/test/run-tests.c | 50 httpuv-1.6.6/httpuv/src/libuv/test/runner-unix.c | 4 httpuv-1.6.6/httpuv/src/libuv/test/runner.c | 42 httpuv-1.6.6/httpuv/src/libuv/test/task.h | 82 httpuv-1.6.6/httpuv/src/libuv/test/test-active.c | 2 httpuv-1.6.6/httpuv/src/libuv/test/test-async.c | 2 httpuv-1.6.6/httpuv/src/libuv/test/test-callback-stack.c | 2 httpuv-1.6.6/httpuv/src/libuv/test/test-close-fd.c | 34 httpuv-1.6.6/httpuv/src/libuv/test/test-close-order.c | 2 httpuv-1.6.6/httpuv/src/libuv/test/test-connection-fail.c | 10 httpuv-1.6.6/httpuv/src/libuv/test/test-default-loop-close.c | 4 httpuv-1.6.6/httpuv/src/libuv/test/test-delayed-accept.c | 18 httpuv-1.6.6/httpuv/src/libuv/test/test-dlerror.c | 20 httpuv-1.6.6/httpuv/src/libuv/test/test-env-vars.c | 24 httpuv-1.6.6/httpuv/src/libuv/test/test-error.c | 11 httpuv-1.6.6/httpuv/src/libuv/test/test-fs-copyfile.c | 7 httpuv-1.6.6/httpuv/src/libuv/test/test-fs-event.c | 57 httpuv-1.6.6/httpuv/src/libuv/test/test-fs-open-flags.c | 44 httpuv-1.6.6/httpuv/src/libuv/test/test-fs-poll.c | 4 httpuv-1.6.6/httpuv/src/libuv/test/test-fs-readdir.c | 16 httpuv-1.6.6/httpuv/src/libuv/test/test-fs.c | 285 httpuv-1.6.6/httpuv/src/libuv/test/test-get-currentexe.c | 21 httpuv-1.6.6/httpuv/src/libuv/test/test-get-passwd.c | 19 httpuv-1.6.6/httpuv/src/libuv/test/test-getaddrinfo.c | 32 httpuv-1.6.6/httpuv/src/libuv/test/test-getnameinfo.c | 21 httpuv-1.6.6/httpuv/src/libuv/test/test-getsockname.c | 2 httpuv-1.6.6/httpuv/src/libuv/test/test-getters-setters.c | 35 httpuv-1.6.6/httpuv/src/libuv/test/test-idna.c | 19 httpuv-1.6.6/httpuv/src/libuv/test/test-ip-name.c |only httpuv-1.6.6/httpuv/src/libuv/test/test-ip6-addr.c | 6 httpuv-1.6.6/httpuv/src/libuv/test/test-ipc-heavy-traffic-deadlock-bug.c | 2 httpuv-1.6.6/httpuv/src/libuv/test/test-ipc.c | 9 httpuv-1.6.6/httpuv/src/libuv/test/test-list.h | 84 httpuv-1.6.6/httpuv/src/libuv/test/test-loop-handles.c | 4 httpuv-1.6.6/httpuv/src/libuv/test/test-metrics.c |only httpuv-1.6.6/httpuv/src/libuv/test/test-multiple-listen.c | 6 httpuv-1.6.6/httpuv/src/libuv/test/test-not-readable-nor-writable-on-read-error.c |only httpuv-1.6.6/httpuv/src/libuv/test/test-not-writable-after-shutdown.c |only httpuv-1.6.6/httpuv/src/libuv/test/test-ping-pong.c | 240 httpuv-1.6.6/httpuv/src/libuv/test/test-pipe-bind-error.c | 2 httpuv-1.6.6/httpuv/src/libuv/test/test-pipe-connect-error.c | 2 httpuv-1.6.6/httpuv/src/libuv/test/test-pipe-connect-prepare.c | 2 httpuv-1.6.6/httpuv/src/libuv/test/test-pipe-getsockname.c | 10 httpuv-1.6.6/httpuv/src/libuv/test/test-pipe-server-close.c | 2 httpuv-1.6.6/httpuv/src/libuv/test/test-pipe-set-non-blocking.c | 85 httpuv-1.6.6/httpuv/src/libuv/test/test-platform-output.c | 6 httpuv-1.6.6/httpuv/src/libuv/test/test-poll-multiple-handles.c |only httpuv-1.6.6/httpuv/src/libuv/test/test-poll.c | 17 httpuv-1.6.6/httpuv/src/libuv/test/test-process-title-threadsafe.c | 15 httpuv-1.6.6/httpuv/src/libuv/test/test-readable-on-eof.c |only httpuv-1.6.6/httpuv/src/libuv/test/test-ref.c | 2 httpuv-1.6.6/httpuv/src/libuv/test/test-shutdown-eof.c | 8 httpuv-1.6.6/httpuv/src/libuv/test/test-shutdown-simultaneous.c |only httpuv-1.6.6/httpuv/src/libuv/test/test-signal-multiple-loops.c | 7 httpuv-1.6.6/httpuv/src/libuv/test/test-signal-pending-on-close.c | 4 httpuv-1.6.6/httpuv/src/libuv/test/test-spawn.c | 214 httpuv-1.6.6/httpuv/src/libuv/test/test-tcp-alloc-cb-fail.c | 2 httpuv-1.6.6/httpuv/src/libuv/test/test-tcp-bind-error.c | 51 httpuv-1.6.6/httpuv/src/libuv/test/test-tcp-bind6-error.c | 2 httpuv-1.6.6/httpuv/src/libuv/test/test-tcp-close.c | 2 httpuv-1.6.6/httpuv/src/libuv/test/test-tcp-connect-error.c | 4 httpuv-1.6.6/httpuv/src/libuv/test/test-tcp-connect-timeout.c | 105 httpuv-1.6.6/httpuv/src/libuv/test/test-tcp-connect6-error.c | 4 httpuv-1.6.6/httpuv/src/libuv/test/test-tcp-create-socket-early.c | 2 httpuv-1.6.6/httpuv/src/libuv/test/test-tcp-open.c | 17 httpuv-1.6.6/httpuv/src/libuv/test/test-tcp-read-stop-start.c |only httpuv-1.6.6/httpuv/src/libuv/test/test-tcp-write-after-connect.c | 5 httpuv-1.6.6/httpuv/src/libuv/test/test-tcp-write-fail.c | 4 httpuv-1.6.6/httpuv/src/libuv/test/test-tcp-write-to-half-open-connection.c | 2 httpuv-1.6.6/httpuv/src/libuv/test/test-tcp-writealot.c | 8 httpuv-1.6.6/httpuv/src/libuv/test/test-test-macros.c |only httpuv-1.6.6/httpuv/src/libuv/test/test-thread-equal.c | 6 httpuv-1.6.6/httpuv/src/libuv/test/test-thread.c | 15 httpuv-1.6.6/httpuv/src/libuv/test/test-threadpool-cancel.c | 6 httpuv-1.6.6/httpuv/src/libuv/test/test-timer-again.c | 2 httpuv-1.6.6/httpuv/src/libuv/test/test-timer.c | 12 httpuv-1.6.6/httpuv/src/libuv/test/test-tty-duplicate-key.c | 2 httpuv-1.6.6/httpuv/src/libuv/test/test-tty-escape-sequence-processing.c | 20 httpuv-1.6.6/httpuv/src/libuv/test/test-tty.c | 8 httpuv-1.6.6/httpuv/src/libuv/test/test-udp-alloc-cb-fail.c | 10 httpuv-1.6.6/httpuv/src/libuv/test/test-udp-connect.c | 15 httpuv-1.6.6/httpuv/src/libuv/test/test-udp-connect6.c |only httpuv-1.6.6/httpuv/src/libuv/test/test-udp-mmsg.c |only httpuv-1.6.6/httpuv/src/libuv/test/test-udp-multicast-interface.c | 7 httpuv-1.6.6/httpuv/src/libuv/test/test-udp-multicast-interface6.c | 7 httpuv-1.6.6/httpuv/src/libuv/test/test-udp-multicast-join.c | 6 httpuv-1.6.6/httpuv/src/libuv/test/test-udp-multicast-join6.c | 10 httpuv-1.6.6/httpuv/src/libuv/test/test-udp-multicast-ttl.c | 2 httpuv-1.6.6/httpuv/src/libuv/test/test-udp-open.c | 16 httpuv-1.6.6/httpuv/src/libuv/test/test-udp-options.c | 6 httpuv-1.6.6/httpuv/src/libuv/test/test-udp-send-and-recv.c | 14 httpuv-1.6.6/httpuv/src/libuv/test/test-udp-send-hang-loop.c | 4 httpuv-1.6.6/httpuv/src/libuv/test/test-udp-send-immediate.c | 6 httpuv-1.6.6/httpuv/src/libuv/test/test-udp-send-unreachable.c | 93 httpuv-1.6.6/httpuv/src/libuv/test/test-udp-sendmmsg-error.c |only httpuv-1.6.6/httpuv/src/libuv/test/test-udp-try-send.c | 4 httpuv-1.6.6/httpuv/src/libuv/tools/make_dist_html.py | 8 httpuv-1.6.6/httpuv/src/libuv/uv_win_longpath.manifest |only httpuv-1.6.6/httpuv/tests/testthat/test-utils.R | 4 httpuv-1.6.6/httpuv/tools/submit_to_cran.R |only httpuv-1.6.6/httpuv/tools/update_libuv.R | 2 262 files changed, 13774 insertions(+), 8101 deletions(-)
Title: Functions for Time Series Analysis
Description: Nonparametric estimators and tests for time series analysis. The functions use bootstrap techniques and robust nonparametric difference-based estimators to test for the presence of possibly non-monotonic trends and for synchronicity of trends in multiple time series.
Author: Vyacheslav Lyubchich [aut, cre]
,
Yulia R. Gel [aut],
Alexander Brenning [ctb],
Calvin Chu [ctb],
Xin Huang [ctb],
Umar Islambekov [ctb],
Palina Niamkova [ctb],
Dorcas Ofori-Boateng [ctb],
Ethan D. Schaeffer [ctb],
Srishti Vishwakarma [aut],
Xingyu W [...truncated...]
Maintainer: Vyacheslav Lyubchich <lyubchich@umces.edu>
Diff between funtimes versions 8.2 dated 2022-02-22 and 9.0 dated 2022-09-08
funtimes-8.2/funtimes/vignettes/Aus_Sea_Levels_17.xlsx |only funtimes-9.0/funtimes/DESCRIPTION | 21 funtimes-9.0/funtimes/MD5 | 42 + funtimes-9.0/funtimes/NAMESPACE | 123 ++--- funtimes-9.0/funtimes/R/VAR.R |only funtimes-9.0/funtimes/R/VARselect.R |only funtimes-9.0/funtimes/R/WAVK.R | 74 +-- funtimes-9.0/funtimes/R/causality_pred.R |only funtimes-9.0/funtimes/R/causality_predVAR.R |only funtimes-9.0/funtimes/R/fun_causality.R |only funtimes-9.0/funtimes/R/mcusum_test.R | 96 ++-- funtimes-9.0/funtimes/R/toMlm.R |only funtimes-9.0/funtimes/build/partial.rdb |binary funtimes-9.0/funtimes/build/vignette.rds |binary funtimes-9.0/funtimes/inst/REFERENCES.bib | 20 funtimes-9.0/funtimes/inst/doc/beales.html | 375 ++++++++++++++-- funtimes-9.0/funtimes/inst/doc/trendtests.html | 387 ++++++++++++++--- funtimes-9.0/funtimes/inst/doc/tsclusters.R | 16 funtimes-9.0/funtimes/inst/doc/tsclusters.Rmd | 32 - funtimes-9.0/funtimes/inst/doc/tsclusters.html | 332 ++++++++++++-- funtimes-9.0/funtimes/man/WAVK.Rd | 6 funtimes-9.0/funtimes/man/causality_pred.Rd |only funtimes-9.0/funtimes/man/causality_predVAR.Rd |only funtimes-9.0/funtimes/man/funtimes-package.Rd | 2 funtimes-9.0/funtimes/man/mcusum_test.Rd | 8 funtimes-9.0/funtimes/vignettes/Aus_Sea_Levels_17.rds |only funtimes-9.0/funtimes/vignettes/tsclusters.Rmd | 32 - 27 files changed, 1211 insertions(+), 355 deletions(-)
Title: Analytics & Machine Learning Sidekick
Description: Auxiliary package for better/faster analytics, visualization, data mining, and machine
learning tasks. With a wide variety of family functions, like Machine Learning, Data Wrangling,
Exploratory, API, and Scrapper, it helps the analyst or data scientist to get quick and robust
results, without the need of repetitive coding or extensive R programming skills.
Author: Bernardo Lares [aut, cre]
Maintainer: Bernardo Lares <laresbernardo@gmail.com>
Diff between lares versions 5.1.3 dated 2022-08-26 and 5.1.4 dated 2022-09-08
DESCRIPTION | 6 MD5 | 12 - R/other_functions.R | 11 - R/wordle.R | 8 inst/doc/h2o_automl.html | 417 ++++++++++++++++++++++++----------------------- man/try_require.Rd | 9 - man/wordle.Rd | 2 7 files changed, 241 insertions(+), 224 deletions(-)
Title: Estimation Methods for Markets in Equilibrium and Disequilibrium
Description: Provides estimation methods for markets in equilibrium and
disequilibrium. Supports the estimation of an equilibrium and
four disequilibrium models with both correlated and independent shocks.
Also provides post-estimation analysis tools, such as aggregation,
marginal effect, and shortage calculations. The estimation methods are
based on full information maximum likelihood techniques given in
Maddala and Nelson (1974) <doi:10.2307/1914215>. They are implemented
using the analytic derivative expressions calculated in
Karapanagiotis (2020) <doi:10.2139/ssrn.3525622>. Standard
errors can be estimated by adjusting for heteroscedasticity or clustering.
The equilibrium estimation constitutes a case of a system of linear,
simultaneous equations. Instead, the disequilibrium models replace the
market-clearing condition with a non-linear,
short-side rule and allow for different specifications of price dynamics.
Author: Pantelis Karapanagiotis [aut, cre]
Maintainer: Pantelis Karapanagiotis <pikappa.devel@gmail.com>
Diff between markets versions 1.1.0 dated 2022-07-11 and 1.1.2 dated 2022-09-08
DESCRIPTION | 10 +++++----- MD5 | 18 +++++++++--------- NEWS.md | 9 +++++++++ R/market_fit.R | 18 ++++++++++++------ build/partial.rdb |binary build/vignette.rds |binary configure | 18 +++++++++--------- configure.ac | 2 +- inst/doc/markets.pdf |binary vignettes/markets.pdf |binary 10 files changed, 45 insertions(+), 30 deletions(-)
Title: Estimated Marginal Means, aka Least-Squares Means
Description: Obtain estimated marginal means (EMMs) for many linear, generalized
linear, and mixed models. Compute contrasts or linear functions of EMMs,
trends, and comparisons of slopes. Plots and other displays.
Least-squares means are discussed, and the term "estimated marginal means"
is suggested, in Searle, Speed, and Milliken (1980) Population marginal means
in the linear model: An alternative to least squares means, The American
Statistician 34(4), 216-221 <doi:10.1080/00031305.1980.10483031>.
Author: Russell V. Lenth [aut, cre, cph],
Paul Buerkner [ctb],
Maxime Herve [ctb],
Maarten Jung [ctb],
Jonathon Love [ctb],
Fernando Miguez [ctb],
Hannes Riebl [ctb],
Henrik Singmann [ctb]
Maintainer: Russell V. Lenth <russell-lenth@uiowa.edu>
Diff between emmeans versions 1.8.0 dated 2022-08-05 and 1.8.1-1 dated 2022-09-08
DESCRIPTION | 10 - MD5 | 92 ++++++----- NAMESPACE | 5 NEWS.md | 33 ++++ R/MCMC-support.R | 69 ++++++-- R/emm-example.R |only R/emm-list.R | 7 R/emmGrid-methods.R | 3 R/emmip.R | 8 - R/gam-support.R | 18 +- R/glht-support.R | 18 -- R/nested.R | 4 R/plot.emm.R | 17 +- R/pwpp.R | 14 + R/qdrg.R | 31 +-- R/rbind.R | 42 ++++- R/summary.R | 32 ++-- inst/doc/FAQs.html | 8 - inst/doc/basics.html | 4 inst/doc/comparisons.html | 10 - inst/doc/confidence-intervals.html | 14 - inst/doc/interactions.html | 20 +- inst/doc/messy-data.html | 4 inst/doc/models.html | 4 inst/doc/predictions.html | 4 inst/doc/sophisticated.html | 4 inst/doc/transformations.html | 4 inst/doc/utilities.html | 4 inst/doc/vignette-topics.html | 4 inst/doc/xplanations.html | 4 inst/doc/xtending.html | 8 - inst/extexamples |only man/emm_example.Rd |only man/emm_list-object.Rd | 7 man/emmc-functions.Rd | 3 man/extending-emmeans.Rd | 3 man/glht-support.Rd | 18 -- man/hpd.summary.Rd | 40 ++++- man/manip-factors.Rd | 290 ++++++++++++++++++------------------- man/mcmc-support.Rd | 13 - man/plot.Rd | 14 - man/pwpm.Rd | 4 man/pwpp.Rd | 3 man/qdrg.Rd | 31 +-- man/rbind.emmGrid.Rd | 50 +++--- man/summary.emmGrid.Rd | 7 46 files changed, 556 insertions(+), 426 deletions(-)
Title: Visualization and Tools for Ichimoku Kinko Hyo Strategies
Description: An implementation of 'Ichimoku Kinko Hyo', also commonly known as
'cloud charts'. Static and interactive visualizations with tools for
creating, backtesting and development of quantitative 'ichimoku' strategies.
As described in Sasaki (1996, ISBN:4925152009), the technique is a refinement
on candlestick charting, originating from Japan and now in widespread use in
technical analysis worldwide. Translating as 'one-glance equilibrium chart',
it allows the price action and market structure of financial securities to
be determined 'at-a-glance'. Incorporates an interface with the OANDA
fxTrade API <https://developer.oanda.com/> for retrieving historical and
live streaming price data for major currencies, metals, commodities,
government bonds and stock indices.
Author: Charlie Gao [aut, cre] ,
Hibiki AI Limited [cph]
Maintainer: Charlie Gao <charlie.gao@shikokuchuo.net>
Diff between ichimoku versions 1.3.4 dated 2022-08-23 and 1.4.0 dated 2022-09-08
ichimoku-1.3.4/ichimoku/man/as_tibble.ichimoku.Rd |only ichimoku-1.4.0/ichimoku/DESCRIPTION | 10 - ichimoku-1.4.0/ichimoku/MD5 | 51 +++---- ichimoku-1.4.0/ichimoku/NAMESPACE | 11 - ichimoku-1.4.0/ichimoku/NEWS.md | 15 ++ ichimoku-1.4.0/ichimoku/R/archive.R | 50 ++----- ichimoku-1.4.0/ichimoku/R/ichimoku-package.R | 8 - ichimoku-1.4.0/ichimoku/R/ichimoku.R | 2 ichimoku-1.4.0/ichimoku/R/methods.R | 91 +----------- ichimoku-1.4.0/ichimoku/R/oanda.R | 82 ++++------- ichimoku-1.4.0/ichimoku/R/switch.R | 28 +-- ichimoku-1.4.0/ichimoku/R/utils.R | 16 -- ichimoku-1.4.0/ichimoku/inst/doc/reference.R | 2 ichimoku-1.4.0/ichimoku/inst/doc/reference.Rmd | 16 -- ichimoku-1.4.0/ichimoku/inst/doc/reference.html | 121 ++++++++++------- ichimoku-1.4.0/ichimoku/inst/doc/strategies.R | 2 ichimoku-1.4.0/ichimoku/inst/doc/strategies.Rmd | 2 ichimoku-1.4.0/ichimoku/inst/doc/strategies.html | 50 +++---- ichimoku-1.4.0/ichimoku/man/archive.Rd | 14 - ichimoku-1.4.0/ichimoku/man/ichimoku.Rd | 2 ichimoku-1.4.0/ichimoku/man/more.Rd | 14 - ichimoku-1.4.0/ichimoku/man/print.ichimoku.Rd | 10 - ichimoku-1.4.0/ichimoku/src/shikokuchuo.c | 34 ---- ichimoku-1.4.0/ichimoku/tests/testthat/test-archive.R | 1 ichimoku-1.4.0/ichimoku/tests/testthat/test-ichimoku.R | 9 - ichimoku-1.4.0/ichimoku/vignettes/reference.Rmd | 16 -- ichimoku-1.4.0/ichimoku/vignettes/strategies.Rmd | 2 27 files changed, 275 insertions(+), 384 deletions(-)
Title: Coarsened Exact Matching
Description: Implementation of the Coarsened Exact Matching algorithm discussed
along with its properties in
Iacus, King, Porro (2011) <DOI:10.1198/jasa.2011.tm09599>;
Iacus, King, Porro (2012) <DOI:10.1093/pan/mpr013> and
Iacus, King, Porro (2019) <DOI:10.1017/pan.2018.29>.
Author: Stefano M. Iacus [aut, cre],
Gary King [aut],
Giuseppe Porro [aut],
Richard Nielsen [aut]
Maintainer: Stefano M. Iacus <siacus@iq.harvard.edu>
Diff between cem versions 1.1.30 dated 2022-08-05 and 1.1.31 dated 2022-09-08
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS | 3 +++ inst/doc/cem.Rnw | 8 ++++---- inst/doc/cem.pdf |binary vignettes/cem.Rnw | 8 ++++---- 6 files changed, 19 insertions(+), 16 deletions(-)
Title: Tools for Analyzing Lactate Thresholds
Description: Set of tools for analyzing lactate thresholds from a step incremental test to exhaustion. Easily analyze
the methods Log-log, Onset of Blood Lactate Accumulation (OBLA), Baseline plus (Bsln+), Dmax, Lactate Turning Point (LTP),
and Lactate / Intensity ratio (LTratio) in cycling, running, or swimming.
Beaver WL, Wasserman K, Whipp BJ (1985) <doi:10.1152/jappl.1985.59.6.1936>.
Heck H, Mader A, Hess G, Mücke S, Müller R, Hollmann W (1985) <doi:10.1055/s-2008-1025824>.
Kindermann W, Simon G, Keul J (1979) <doi:10.1007/BF00421101>.
Skinner JS, Mclellan TH (1980) <doi:10.1080/02701367.1980.10609285>.
Berg A, Jakob E, Lehmann M, Dickhuth HH, Huber G, Keul J (1990) <PMID:2408033>.
Zoladz JA, Rademaker AC, Sargeant AJ (1995) <doi:10.1113/jphysiol.1995.sp020959>.
Cheng B, Kuipers H, Snyder A, Keizer H, Jeukendrup A, Hesselink M (1992) <doi:10.1055/s-2007-1021309>.
Bishop D, Jenkins DG, Mackinnon LT (1998) <doi:10.1097/00005768-199808000-00014>.
Hug [...truncated...]
Author: Felipe Mattioni Maturana [aut, cre]
Maintainer: Felipe Mattioni Maturana <felipe.mattioni@med.uni-tuebingen.de>
Diff between lactater versions 0.1.0 dated 2021-12-03 and 0.1.1 dated 2022-09-08
DESCRIPTION | 8 +++---- MD5 | 48 ++++++++++++++++++++++--------------------- NEWS.md | 4 +++ R/fit.R | 4 +-- R/lactate_threshold.R | 4 ++- R/method-bsln-plus.R | 2 - R/method-dmax.R | 2 - R/method-loglog.R | 2 - R/method-ltp.R | 2 - R/method-ltratio.R | 2 - R/method-obla.R | 2 - R/prepare-data.R | 2 - README.md | 17 +++++++++++++++ build |only man/figures/header.png |only man/lactate_threshold.Rd | 4 ++- man/lactater-package.Rd | 4 +-- man/method_bsln_plus.Rd | 2 - man/method_dmax.Rd | 2 - man/method_loglog.Rd | 2 - man/method_ltp.Rd | 2 - man/method_ltratio.Rd | 2 - man/method_obla.Rd | 2 - man/prepare_data.Rd | 2 - man/prepare_fit.Rd | 2 - man/prepare_fit_dmax_mods.Rd | 2 - 26 files changed, 76 insertions(+), 49 deletions(-)
Title: Pseudo-Realizations for Gaussian Process Excursions
Description: Computes pseudo-realizations from the posterior distribution of a Gaussian Process (GP) with the method described in Azzimonti et al. (2016) <doi:10.1137/141000749>. The realizations are obtained from simulations of the field at few well chosen points that minimize the expected distance in measure between the true excursion set of the field and the approximate one. Also implements a R interface for (the main function of) Distance Transform of sampled Functions (<http://cs.brown.edu/people/pfelzens/dt/index.html>).
Author: Dario Azzimonti [aut, cre, cph]
,
Julien Bect [ctb],
Pedro Felzenszwalb [ctb, cph]
Maintainer: Dario Azzimonti <dario.azzimonti@gmail.com>
Diff between pGPx versions 0.1.1 dated 2018-08-20 and 0.1.2 dated 2022-09-08
DESCRIPTION | 11 ++--- MD5 | 32 ++++++++------- README.md | 84 +++++++++++++++++++++++++++------------- man/computeVolumes.Rd | 11 ++++- man/edm_crit.Rd | 16 ++++++- man/edm_crit2.Rd | 17 ++++++-- man/expDistMeasure.Rd | 9 +++- man/grad_kweights.Rd | 3 - man/integrand_edm_crit.Rd | 13 +++++- man/krig_weight_GPsimu.Rd | 9 +++- man/max_distance_measure.Rd | 11 ++++- man/max_integrand_edm.Rd | 11 ++++- man/optim_dist_measure.Rd | 15 +++++-- man/pGPx.Rd | 1 man/simulate_and_interpolate.Rd | 10 +++- src/Makevars |only src/Makevars.win |only src/RcppExports.cpp | 5 ++ 18 files changed, 184 insertions(+), 74 deletions(-)
Title: Linguistic Fuzzy Logic
Description: Various algorithms related to linguistic fuzzy logic: mining for linguistic fuzzy association
rules, composition of fuzzy relations, performing perception-based logical deduction (PbLD),
and forecasting time-series using fuzzy rule-based ensemble (FRBE). The package also contains basic
fuzzy-related algebraic functions capable of handling missing values in different styles (Bochvar,
Sobocinski, Kleene etc.), computation of Sugeno integrals and fuzzy transform.
Author: Michal Burda [aut, cre]
Maintainer: Michal Burda <michal.burda@osu.cz>
Diff between lfl versions 2.1.2 dated 2021-08-23 and 2.2.0 dated 2022-09-08
DESCRIPTION | 14 +-- MD5 | 40 +++++--- NAMESPACE | 7 + NEWS.md | 6 + R/RcppExports.R | 24 +++++ R/algebra.R | 82 +++++++++++++----- R/equidist.R |only R/equifreq.R |only R/fcut.R | 10 +- R/ft.R |only R/ftinv.R |only R/lfl-package.R | 6 + README.md | 25 +++-- build/vignette.rds |binary inst/CITATION | 2 man/equidist.Rd |only man/equifreq.Rd |only man/fcut.Rd | 10 +- man/ft.Rd |only man/ftinv.Rd |only man/is.ft.Rd |only man/lfl.Rd | 7 + src/RcppExports.cpp | 72 +++++++++++++++ src/algebra.cpp | 186 ++++++++++++++++++++++++----------------- tests/testthat/test-equidist.R |only tests/testthat/test-equifreq.R |only tests/testthat/test-ft.R |only 27 files changed, 359 insertions(+), 132 deletions(-)
Title: Simple and Scalable Statistical Modelling in R
Description: Write statistical models in R and fit them by MCMC and
optimisation on CPUs and GPUs, using Google 'TensorFlow'. greta lets
you write your own model like in BUGS, JAGS and Stan, except that you
write models right in R, it scales well to massive datasets, and it’s
easy to extend and build on. See the website for more information,
including tutorials, examples, package documentation, and the greta
forum.
Author: Nick Golding [aut] ,
Nicholas Tierney [aut, cre] ,
Simon Dirmeier [ctb],
Adam Fleischhacker [ctb],
Shirin Glander [ctb],
Martin Ingram [ctb],
Lee Hazel [ctb],
Lionel Hertzog [ctb],
Tiphaine Martin [ctb],
Matt Mulvahill [ctb],
Michael Quinn [ctb],
Dav [...truncated...]
Maintainer: Nicholas Tierney <nicholas.tierney@gmail.com>
Diff between greta versions 0.4.2 dated 2022-03-22 and 0.4.3 dated 2022-09-08
greta-0.4.2/greta/tests/testthat/_snaps/greta-sitrep.md |only greta-0.4.3/greta/DESCRIPTION | 9 greta-0.4.3/greta/MD5 | 60 greta-0.4.3/greta/NAMESPACE | 1 greta-0.4.3/greta/NEWS.md | 11 greta-0.4.3/greta/R/checkers.R | 52 greta-0.4.3/greta/R/dag_class.R | 5 greta-0.4.3/greta/R/extract_replace_combine.R | 4 greta-0.4.3/greta/R/greta_stash.R | 2 greta-0.4.3/greta/R/inference.R | 3 greta-0.4.3/greta/R/install_greta_deps.R | 2 greta-0.4.3/greta/R/node_types.R | 2 greta-0.4.3/greta/R/optimisers.R | 2 greta-0.4.3/greta/R/reinstallers.R | 18 greta-0.4.3/greta/build/vignette.rds |binary greta-0.4.3/greta/inst/doc/example_models.R | 577 ++++ greta-0.4.3/greta/inst/doc/example_models.html | 1174 +++++++++- greta-0.4.3/greta/inst/doc/faq.html | 70 greta-0.4.3/greta/inst/doc/get_started.R | 178 - greta-0.4.3/greta/inst/doc/get_started.html | 667 ++++- greta-0.4.3/greta/man/install_greta_deps.Rd | 14 greta-0.4.3/greta/man/optimisers.Rd | 2 greta-0.4.3/greta/man/stash-notes.Rd | 8 greta-0.4.3/greta/tests/testthat/_snaps/future.md | 45 greta-0.4.3/greta/tests/testthat/_snaps/inference.md | 13 greta-0.4.3/greta/tests/testthat/_snaps/install_greta_deps.md |only greta-0.4.3/greta/tests/testthat/_snaps/misc.md | 33 greta-0.4.3/greta/tests/testthat/_snaps/tensorflow-rpkg-stability.md | 8 greta-0.4.3/greta/tests/testthat/test-tensorflow-rpkg-stability.R | 4 greta-0.4.3/greta/tests/testthat/test_future.R | 25 greta-0.4.3/greta/tests/testthat/test_inference.R | 14 greta-0.4.3/greta/tests/testthat/test_install_greta_deps.R | 12 32 files changed, 2639 insertions(+), 376 deletions(-)
Title: Detecting UN Sustainable Development Goals in Text
Description: The United Nations’ Sustainable Development Goals (SDGs) have become an important guideline for organisations to monitor and plan their contributions to social, economic, and environmental transformations. The 'text2sdg' package is an open-source analysis package that identifies SDGs in text using scientifically developed query systems, opening up the opportunity to monitor any type of text-based data, such as scientific output or corporate publications. For more information regarding the methodology see Meier, Mata & Wulff (2022) <arXiv:2110.05856>.
Author: Dirk U. Wulff [aut] ,
Dominik S. Meier [aut, cre] ,
Rui Mata [ctb]
Maintainer: Dominik S. Meier <dominikmeier@outlook.com>
Diff between text2sdg versions 0.1.5 dated 2022-08-30 and 0.1.6 dated 2022-09-08
text2sdg-0.1.5/text2sdg/R/test.R |only text2sdg-0.1.6/text2sdg/DESCRIPTION | 10 +++++----- text2sdg-0.1.6/text2sdg/MD5 | 11 +++++------ text2sdg-0.1.6/text2sdg/NEWS.md | 4 ++++ text2sdg-0.1.6/text2sdg/R/detect_any.R | 8 ++++---- text2sdg-0.1.6/text2sdg/inst/doc/text2sdg.html | 14 +++++++++++--- text2sdg-0.1.6/text2sdg/man/detect_any.Rd | 4 ++-- 7 files changed, 31 insertions(+), 20 deletions(-)
Title: Common R Scripts and Utilities Used by the Statnet Project
Software
Description: Non-statistical utilities used by the software developed by the Statnet Project. They may also be of use to others.
Author: Pavel N. Krivitsky [aut, cre] ,
Skye Bender-deMoll [ctb],
Chad Klumb [ctb]
Maintainer: Pavel N. Krivitsky <pavel@statnet.org>
Diff between statnet.common versions 4.6.0 dated 2022-05-02 and 4.7.0 dated 2022-09-08
DESCRIPTION | 10 +- LICENSE | 1 MD5 | 35 ++++---- NAMESPACE | 7 + NEWS | 24 ++++- NEWS.md | 16 +++ R/formula.utilities.R | 202 ++++++++++++++++++++++++++++++++++++++--------- build/statnet.common.pdf |binary inst/CITATION | 4 man/NVL.Rd | 18 ++-- man/Welford.Rd | 4 man/as.control.list.Rd | 6 - man/diff.control.list.Rd | 6 - man/formula.utilities.Rd | 82 +++++++++++++------ man/locate_function.Rd | 6 - man/snctrl-API.Rd | 8 - man/snctrl.Rd | 6 - man/term_list.Rd |only man/trim_env.Rd | 6 - 19 files changed, 320 insertions(+), 121 deletions(-)
More information about statnet.common at CRAN
Permanent link
Title: Robust Survey Statistics Estimation
Description: Robust (outlier-resistant) estimators of finite population
characteristics like of means, totals, ratios, regression, etc. Available
methods are M- and GM-estimators of regression, weight reduction,
trimming, and winsorization. The package extends the 'survey'
<https://CRAN.R-project.org/package=survey> package.
Author: Beat Hulliger [aut],
Tobias Schoch [aut, cre] ,
Martin Sterchi [ctr, com]
Maintainer: Tobias Schoch <tobias.schoch@fhnw.ch>
Diff between robsurvey versions 0.3 dated 2022-06-10 and 0.4 dated 2022-09-08
robsurvey-0.3/robsurvey/inst/TODO.md |only robsurvey-0.3/robsurvey/inst/varia |only robsurvey-0.4/robsurvey/.Rinstignore | 7 robsurvey-0.4/robsurvey/DESCRIPTION | 6 robsurvey-0.4/robsurvey/MD5 | 143 +++---- robsurvey-0.4/robsurvey/NAMESPACE | 10 robsurvey-0.4/robsurvey/NEWS.md | 30 + robsurvey-0.4/robsurvey/R/class_svyreg_rob.R | 63 +-- robsurvey-0.4/robsurvey/R/class_svystat_rob.R | 49 +- robsurvey-0.4/robsurvey/R/huber2.R | 2 robsurvey-0.4/robsurvey/R/mer.R | 2 robsurvey-0.4/robsurvey/R/robsurvey-internal.R | 7 robsurvey-0.4/robsurvey/R/robsvyreg.R | 13 robsurvey-0.4/robsurvey/R/svymean_dalen.R | 4 robsurvey-0.4/robsurvey/R/svymean_huber.R | 4 robsurvey-0.4/robsurvey/R/svymean_ratio.R |only robsurvey-0.4/robsurvey/R/svymean_reg.R | 309 ++++++++-------- robsurvey-0.4/robsurvey/R/svymean_trimmed.R | 4 robsurvey-0.4/robsurvey/R/svymean_tukey.R | 4 robsurvey-0.4/robsurvey/R/svymean_winsorized.R | 8 robsurvey-0.4/robsurvey/R/svyratio_huber.R |only robsurvey-0.4/robsurvey/R/svyreg.R | 14 robsurvey-0.4/robsurvey/R/svyreg_huber.R | 4 robsurvey-0.4/robsurvey/R/svyreg_tukey.R | 4 robsurvey-0.4/robsurvey/build/partial.rdb |binary robsurvey-0.4/robsurvey/build/vignette.rds |binary robsurvey-0.4/robsurvey/data/MU284pps.RData |only robsurvey-0.4/robsurvey/inst/doc/basic.R |only robsurvey-0.4/robsurvey/inst/doc/basic.Rmd | 4 robsurvey-0.4/robsurvey/inst/doc/basic.html | 4 robsurvey-0.4/robsurvey/inst/doc/doc_comparison.html | 15 robsurvey-0.4/robsurvey/inst/doc/doc_greg.html |only robsurvey-0.4/robsurvey/inst/doc/greg.R |only robsurvey-0.4/robsurvey/inst/doc/greg.Rmd |only robsurvey-0.4/robsurvey/inst/doc/greg.html |only robsurvey-0.4/robsurvey/inst/doc/regression.R |only robsurvey-0.4/robsurvey/inst/doc/regression.Rmd | 7 robsurvey-0.4/robsurvey/inst/doc/regression.html | 14 robsurvey-0.4/robsurvey/inst/doc/rht.R |only robsurvey-0.4/robsurvey/inst/doc/rht.Rmd | 6 robsurvey-0.4/robsurvey/inst/doc/rht.html | 10 robsurvey-0.4/robsurvey/man/MU284pps.Rd |only robsurvey-0.4/robsurvey/man/MU284strat.Rd | 3 robsurvey-0.4/robsurvey/man/class_svyreg_rob.Rd | 7 robsurvey-0.4/robsurvey/man/huber2.Rd | 10 robsurvey-0.4/robsurvey/man/mer.Rd | 11 robsurvey-0.4/robsurvey/man/package.Rd | 16 robsurvey-0.4/robsurvey/man/svymean_dalen.Rd | 22 - robsurvey-0.4/robsurvey/man/svymean_huber.Rd | 16 robsurvey-0.4/robsurvey/man/svymean_ratio.Rd |only robsurvey-0.4/robsurvey/man/svymean_reg.Rd | 169 ++++++-- robsurvey-0.4/robsurvey/man/svymean_trimmed.Rd | 8 robsurvey-0.4/robsurvey/man/svymean_tukey.Rd | 16 robsurvey-0.4/robsurvey/man/svymean_winsorized.Rd | 14 robsurvey-0.4/robsurvey/man/svyratio_huber.Rd |only robsurvey-0.4/robsurvey/man/svyreg.Rd | 30 - robsurvey-0.4/robsurvey/man/svyreg_huber.Rd | 14 robsurvey-0.4/robsurvey/man/svyreg_tukey.Rd | 12 robsurvey-0.4/robsurvey/man/weighted_IQR.Rd | 3 robsurvey-0.4/robsurvey/man/weighted_line.Rd | 8 robsurvey-0.4/robsurvey/man/weighted_mad.Rd | 3 robsurvey-0.4/robsurvey/man/weighted_mean.Rd | 3 robsurvey-0.4/robsurvey/man/weighted_mean_dalen.Rd | 13 robsurvey-0.4/robsurvey/man/weighted_mean_huber.Rd | 16 robsurvey-0.4/robsurvey/man/weighted_mean_trimmed.Rd | 46 +- robsurvey-0.4/robsurvey/man/weighted_mean_tukey.Rd | 16 robsurvey-0.4/robsurvey/man/weighted_mean_winsorized.Rd | 10 robsurvey-0.4/robsurvey/man/weighted_median.Rd | 8 robsurvey-0.4/robsurvey/man/weighted_median_line.Rd | 10 robsurvey-0.4/robsurvey/man/weighted_median_ratio.Rd | 10 robsurvey-0.4/robsurvey/man/weighted_quantile.Rd | 14 robsurvey-0.4/robsurvey/man/wgt_functions.Rd | 2 robsurvey-0.4/robsurvey/man/workplace.Rd | 8 robsurvey-0.4/robsurvey/src/huber2.c | 2 robsurvey-0.4/robsurvey/src/huber2.h | 2 robsurvey-0.4/robsurvey/src/robsurvey_init.c | 2 robsurvey-0.4/robsurvey/vignettes/basic.Rmd | 4 robsurvey-0.4/robsurvey/vignettes/greg.Rmd |only robsurvey-0.4/robsurvey/vignettes/regression.Rmd | 7 robsurvey-0.4/robsurvey/vignettes/rht.Rmd | 6 80 files changed, 754 insertions(+), 534 deletions(-)
Title: Prediction Intervals for Synthetic Control Methods with Multiple
Treated Units and Staggered Adoption
Description: Implementation of estimation and inference procedures for Synthetic Control methods using least square, lasso, ridge, or simplex-type constraints. Uncertainty is quantified with prediction intervals as developed in Cattaneo, Feng, and Titiunik (2021) <https://cattaneo.princeton.edu/papers/Cattaneo-Feng-Titiunik_2021_JASA.pdf>.
Author: Matias Cattaneo [aut],
Yingjie Feng [aut],
Filippo Palomba [aut, cre],
Rocio Titiunik [aut]
Maintainer: Filippo Palomba <fpalomba@princeton.edu>
Diff between scpi versions 0.2.1 dated 2022-03-25 and 1.0.0 dated 2022-09-08
DESCRIPTION | 25 MD5 | 38 - NAMESPACE | 73 +- R/scdata.R | 295 +++------ R/scdataMulti.R |only R/scest.R | 311 +++++++--- R/scest_methods.R | 188 ++++-- R/scpi-package.R | 13 R/scpi.R | 848 +++++++++++++++++----------- R/scpi_methods.R | 180 +++--- R/scplot.R | 206 +++--- R/scplotMulti.R |only R/supporting_functions.R | 1409 +++++++++++++++++++++++++++++++++++------------ man/print.scest.Rd | 2 man/scdata.Rd | 18 man/scdataMulti.Rd |only man/scest.Rd | 55 + man/scpi-package.Rd | 10 man/scpi.Rd | 69 +- man/scplot.Rd | 35 - man/scplotMulti.Rd |only man/summary.scest.Rd | 2 22 files changed, 2500 insertions(+), 1277 deletions(-)
Title: Libraries, Data Dictionaries, and a Data Step for R
Description: Contains a set of functions to create data libraries,
generate data dictionaries, and simulate a data step.
The libname() function will load a directory of data into
a library in one line of code. The dictionary() function
will generate data dictionaries for individual
data frames or an entire library. And the datestep() function
will perform row-by-row data processing.
Author: David J. Bosak
Maintainer: David Bosak <dbosak01@gmail.com>
Diff between libr versions 1.2.5 dated 2022-08-08 and 1.2.8 dated 2022-09-08
libr-1.2.5/libr/man/images/libr1.png |only libr-1.2.5/libr/man/images/libr_blue.png |only libr-1.2.8/libr/DESCRIPTION | 6 libr-1.2.8/libr/MD5 | 71 - libr-1.2.8/libr/NAMESPACE | 2 libr-1.2.8/libr/NEWS.md | 22 libr-1.2.8/libr/R/datastep.R | 840 ++++++++++++++- libr-1.2.8/libr/R/dictionary.R | 98 + libr-1.2.8/libr/R/dshelpers.R | 32 libr-1.2.8/libr/R/libname.R | 27 libr-1.2.8/libr/R/utilities.R | 19 libr-1.2.8/libr/README.md | 7 libr-1.2.8/libr/inst/doc/libr-basics.Rmd | 2 libr-1.2.8/libr/inst/doc/libr-basics.html | 14 libr-1.2.8/libr/inst/doc/libr-datastep.R | 199 +++ libr-1.2.8/libr/inst/doc/libr-datastep.Rmd | 260 ++++ libr-1.2.8/libr/inst/doc/libr-datastep.html | 241 ++++ libr-1.2.8/libr/inst/doc/libr-faq.Rmd | 2 libr-1.2.8/libr/inst/doc/libr-faq.html | 2 libr-1.2.8/libr/man/datastep.Rd | 140 ++ libr-1.2.8/libr/man/delete.Rd |only libr-1.2.8/libr/man/dictionary.Rd | 27 libr-1.2.8/libr/man/dsarray.Rd | 4 libr-1.2.8/libr/man/dsattr.Rd | 4 libr-1.2.8/libr/man/images/archive/libr1.png |binary libr-1.2.8/libr/man/images/archive/libr_blue.png |only libr-1.2.8/libr/man/images/libr_new.png |only libr-1.2.8/libr/man/images/logr_new.png |only libr-1.2.8/libr/man/length.dsarray.Rd | 4 libr-1.2.8/libr/man/lib_export.Rd | 2 libr-1.2.8/libr/man/libname.Rd | 15 libr-1.2.8/libr/man/output.Rd |only libr-1.2.8/libr/man/sub-.dsarray.Rd | 4 libr-1.2.8/libr/tests/testthat/data/demo_studya.rda |only libr-1.2.8/libr/tests/testthat/data/demo_studyb.rda |only libr-1.2.8/libr/tests/testthat/test-datastep.R | 1069 +++++++++++++++++++- libr-1.2.8/libr/tests/testthat/test-dictionary.R | 34 libr-1.2.8/libr/tests/testthat/test-libname.R | 114 +- libr-1.2.8/libr/vignettes/libr-basics.Rmd | 2 libr-1.2.8/libr/vignettes/libr-datastep.Rmd | 260 ++++ libr-1.2.8/libr/vignettes/libr-faq.Rmd | 2 41 files changed, 3310 insertions(+), 215 deletions(-)
Title: Bayesian Hierarchical Multi-Subject Multiscale Analysis of
Functional MRI (fMRI) Data
Description: Package BHMSMAfMRI performs Bayesian hierarchical multi-subject multiscale analysis of fMRI data as described in Sanyal & Ferreira (2012) <DOI:10.1016/j.neuroimage.2012.08.041>, or other multiscale data, using wavelet based prior that borrows strength across subjects and provides posterior smoothed images of the effect sizes and samples from the posterior distribution.
Author: Nilotpal Sanyal [aut, cre],
Marco A.R. Ferreira [aut]
Maintainer: Nilotpal Sanyal <nilotpal.sanyal@gmail.com>
Diff between BHMSMAfMRI versions 1.3 dated 2019-05-16 and 2.0 dated 2022-09-08
BHMSMAfMRI-1.3/BHMSMAfMRI/R/01.glmcoeff.r |only BHMSMAfMRI-1.3/BHMSMAfMRI/R/02.waveletcoeff.r |only BHMSMAfMRI-1.3/BHMSMAfMRI/R/03.hyperparamest.r |only BHMSMAfMRI-1.3/BHMSMAfMRI/R/04.pikljbar.r |only BHMSMAfMRI-1.3/BHMSMAfMRI/R/05.postwaveletcoeff.r |only BHMSMAfMRI-1.3/BHMSMAfMRI/R/06.postglmcoeff.r |only BHMSMAfMRI-1.3/BHMSMAfMRI/R/07.postsamples.r |only BHMSMAfMRI-1.3/BHMSMAfMRI/R/08.BHMSMA.r |only BHMSMAfMRI-1.3/BHMSMAfMRI/R/09.postgroupcoeff.r |only BHMSMAfMRI-1.3/BHMSMAfMRI/R/10.read.fmridata.r |only BHMSMAfMRI-1.3/BHMSMAfMRI/inst/doc/BHMSMAfMRIvignette.Rnw |only BHMSMAfMRI-1.3/BHMSMAfMRI/man/BHMSMAfMRI.Rd |only BHMSMAfMRI-1.3/BHMSMAfMRI/man/glmcoeff.Rd |only BHMSMAfMRI-1.3/BHMSMAfMRI/man/pikljbar.Rd |only BHMSMAfMRI-1.3/BHMSMAfMRI/man/postglmcoeff.Rd |only BHMSMAfMRI-1.3/BHMSMAfMRI/man/postgroupcoeff.Rd |only BHMSMAfMRI-1.3/BHMSMAfMRI/man/postwaveletcoeff.Rd |only BHMSMAfMRI-1.3/BHMSMAfMRI/man/read.fmridata.Rd |only BHMSMAfMRI-1.3/BHMSMAfMRI/man/waveletcoeff.Rd |only BHMSMAfMRI-1.3/BHMSMAfMRI/vignettes/BHMSMAfMRIvignette.Rnw |only BHMSMAfMRI-1.3/BHMSMAfMRI/vignettes/BOLDMATH2.TEX |only BHMSMAfMRI-1.3/BHMSMAfMRI/vignettes/GLMCoeff.pdf |only BHMSMAfMRI-1.3/BHMSMAfMRI/vignettes/PostCoeff.pdf |only BHMSMAfMRI-1.3/BHMSMAfMRI/vignettes/PostDiscovery.pdf |only BHMSMAfMRI-1.3/BHMSMAfMRI/vignettes/PostGroupCoeff.pdf |only BHMSMAfMRI-1.3/BHMSMAfMRI/vignettes/TrueCoeff.pdf |only BHMSMAfMRI-1.3/BHMSMAfMRI/vignettes/jasa.bst |only BHMSMAfMRI-2.0/BHMSMAfMRI/DESCRIPTION | 29 ++- BHMSMAfMRI-2.0/BHMSMAfMRI/MD5 | 66 +++----- BHMSMAfMRI-2.0/BHMSMAfMRI/NAMESPACE | 10 - BHMSMAfMRI-2.0/BHMSMAfMRI/NEWS | 24 ++- BHMSMAfMRI-2.0/BHMSMAfMRI/R/BHMSMA.R |only BHMSMAfMRI-2.0/BHMSMAfMRI/R/RcppExports.R |only BHMSMAfMRI-2.0/BHMSMAfMRI/build/vignette.rds |binary BHMSMAfMRI-2.0/BHMSMAfMRI/inst/doc/BHMSMAfMRIvignette.R |only BHMSMAfMRI-2.0/BHMSMAfMRI/inst/doc/BHMSMAfMRIvignette.Rmd |only BHMSMAfMRI-2.0/BHMSMAfMRI/inst/doc/BHMSMAfMRIvignette.pdf |binary BHMSMAfMRI-2.0/BHMSMAfMRI/inst/extdata |only BHMSMAfMRI-2.0/BHMSMAfMRI/man/BHMSMA.Rd | 89 ++++++++--- BHMSMAfMRI-2.0/BHMSMAfMRI/man/BHMSMAfMRI-package.Rd |only BHMSMAfMRI-2.0/BHMSMAfMRI/man/fmridata.Rd | 2 BHMSMAfMRI-2.0/BHMSMAfMRI/man/glmcoef.Rd |only BHMSMAfMRI-2.0/BHMSMAfMRI/man/hyperparamest.Rd | 33 ++-- BHMSMAfMRI-2.0/BHMSMAfMRI/man/postglmcoef.Rd |only BHMSMAfMRI-2.0/BHMSMAfMRI/man/postgroupglmcoef.Rd |only BHMSMAfMRI-2.0/BHMSMAfMRI/man/postmixprob.Rd |only BHMSMAfMRI-2.0/BHMSMAfMRI/man/postsamples.Rd | 59 ++++--- BHMSMAfMRI-2.0/BHMSMAfMRI/man/postwaveletcoef.Rd |only BHMSMAfMRI-2.0/BHMSMAfMRI/man/readfmridata.Rd |only BHMSMAfMRI-2.0/BHMSMAfMRI/man/substituteWaveletCoef.Rd |only BHMSMAfMRI-2.0/BHMSMAfMRI/man/waveletcoef.Rd |only BHMSMAfMRI-2.0/BHMSMAfMRI/src |only BHMSMAfMRI-2.0/BHMSMAfMRI/vignettes/BHMSMAfMRIvignette.Rmd |only BHMSMAfMRI-2.0/BHMSMAfMRI/vignettes/mybib.bib | 102 +++++++------ 54 files changed, 250 insertions(+), 164 deletions(-)
Title: Compute High Dimensional Orthant Probabilities
Description: Computationally efficient method to estimate orthant probabilities of high-dimensional Gaussian vectors. Further implements a function to compute conservative estimates of excursion sets under Gaussian random field priors.
Author: Dario Azzimonti [aut, cre, cph]
Maintainer: Dario Azzimonti <dario.azzimonti@gmail.com>
Diff between anMC versions 0.2.2 dated 2019-10-25 and 0.2.3 dated 2022-09-08
DESCRIPTION | 13 ++++------ MD5 | 33 +++++++++++++------------- NEWS.md | 9 ++++++- R/ProbaMax.R | 1 R/ProbaMin.R | 3 -- R/help.R | 2 - README.md | 55 ++++++++++++++++++++++++++++++++++---------- build |only man/ANMC_Gauss.Rd | 11 +++++++- man/MC_Gauss.Rd | 13 ++++++++-- man/ProbaMax.Rd | 20 ++++++++++++---- man/ProbaMin.Rd | 22 +++++++++++++---- man/anMC.Rd | 3 -- man/conservativeEstimate.Rd | 13 ++++++++-- man/get_chronotime.Rd | 2 - man/selectActiveDims.Rd | 13 ++++++++-- man/selectQdims.Rd | 15 +++++++++--- src/RcppExports.cpp | 5 ++++ 18 files changed, 169 insertions(+), 64 deletions(-)
Title: Interact with Peak Flow Data in the United Kingdom
Description: Obtain information on peak flow data from the National River Flow Archive (NRFA) in the United Kingdom, either from the Peak Flow Dataset files <https://nrfa.ceh.ac.uk/peak-flow-dataset> once these have been downloaded to the user's computer or using the NRFA's API. These files are in a format suitable for direct use in the 'WINFAP' software, hence the name of the package.
Author: Ilaria Prosdocimi [aut, cre] ,
Luke Shaw [aut]
Maintainer: Ilaria Prosdocimi <prosdocimi.ilaria@gmail.com>
Diff between winfapReader versions 0.1-3 dated 2021-02-19 and 0.1-5 dated 2022-09-08
DESCRIPTION | 10 MD5 | 22 NAMESPACE | 36 - NEWS.md | 37 - R/get_winfapapi.R | 594 ++++++++--------- R/known_Oct1.R | 273 ++++--- R/readerFuncs.R | 642 +++++++++--------- build/vignette.rds |binary data/known_Oct1.rda |binary inst/doc/winfapReader.R | 248 +++---- inst/doc/winfapReader.html | 1551 ++++++++++++++++++++++++--------------------- man/known_Oct1.Rd | 6 12 files changed, 1785 insertions(+), 1634 deletions(-)
Title: Analysis and Visualization of Archaeological Count Data
Description: An easy way to examine archaeological count data. This
package provides several tests and measures of diversity:
heterogeneity and evenness (Brillouin, Shannon, Simpson, etc.),
richness and rarefaction (Chao1, Chao2, ACE, ICE, etc.), turnover and
similarity (Brainerd-Robinson, etc.). The package make it easy to
visualize count data and statistical thresholds: rank vs abundance
plots, heatmaps, Ford (1962) and Bertin (1977) diagrams.
Author: Nicolas Frerebeau [aut, cre] ,
Brice Lebrun [ctb] ,
Matthew Peeples [ctb] ,
Ben Marwick [ctb] ,
Anne Philippe [ctb] ,
Jean-Baptiste Fourvel [ctb]
Maintainer: Nicolas Frerebeau <nicolas.frerebeau@u-bordeaux-montaigne.fr>
Diff between tabula versions 1.7.0 dated 2022-06-23 and 1.8.0 dated 2022-09-08
tabula-1.7.0/tabula/man/DiversityIndex.Rd |only tabula-1.7.0/tabula/man/stats_bootstrap.Rd |only tabula-1.7.0/tabula/man/stats_jackknife.Rd |only tabula-1.7.0/tabula/tests/testthat/test-classes.R |only tabula-1.8.0/tabula/DESCRIPTION | 22 tabula-1.8.0/tabula/MD5 | 178 tabula-1.8.0/tabula/NAMESPACE | 15 tabula-1.8.0/tabula/NEWS.md | 11 tabula-1.8.0/tabula/R/AllClasses.R | 23 tabula-1.8.0/tabula/R/AllGenerics.R | 147 tabula-1.8.0/tabula/R/data.R |only tabula-1.8.0/tabula/R/deprecate.R | 550 - tabula-1.8.0/tabula/R/index_heterogeneity.R | 46 tabula-1.8.0/tabula/R/index_rarefaction.R | 25 tabula-1.8.0/tabula/R/plot_diversity.R | 12 tabula-1.8.0/tabula/R/plot_ford.R | 2 tabula-1.8.0/tabula/R/plot_heatmap.R | 1 tabula-1.8.0/tabula/R/statistics.R | 48 tabula-1.8.0/tabula/R/tabula-package.R | 2 tabula-1.8.0/tabula/R/zzz.R | 2 tabula-1.8.0/tabula/README.md | 15 tabula-1.8.0/tabula/build/partial.rdb |binary tabula-1.8.0/tabula/build/vignette.rds |binary tabula-1.8.0/tabula/data |only tabula-1.8.0/tabula/inst/doc/bibliography.html | 44 tabula-1.8.0/tabula/inst/doc/diversity.R | 6 tabula-1.8.0/tabula/inst/doc/diversity.Rmd | 6 tabula-1.8.0/tabula/inst/doc/diversity.html | 80 tabula-1.8.0/tabula/inst/examples/ex-diversity.R | 6 tabula-1.8.0/tabula/inst/examples/ex-independance.R | 8 tabula-1.8.0/tabula/inst/examples/ex-occurrence.R | 6 tabula-1.8.0/tabula/inst/examples/ex-plot_bar.R | 2 tabula-1.8.0/tabula/inst/examples/ex-plot_diversity.R | 7 tabula-1.8.0/tabula/inst/examples/ex-plot_matrix.R | 9 tabula-1.8.0/tabula/inst/examples/ex-plot_rank.R | 8 tabula-1.8.0/tabula/inst/examples/ex-plot_spot.R | 10 tabula-1.8.0/tabula/inst/examples/ex-rarefaction.R |only tabula-1.8.0/tabula/inst/examples/ex-richness.R | 7 tabula-1.8.0/tabula/inst/examples/ex-test.R | 5 tabula-1.8.0/tabula/man/DiversityIndex-class.Rd |only tabula-1.8.0/tabula/man/cantabria.Rd |only tabula-1.8.0/tabula/man/deprecate.Rd | 195 tabula-1.8.0/tabula/man/heterogeneity.Rd | 27 tabula-1.8.0/tabula/man/independance.Rd | 12 tabula-1.8.0/tabula/man/occurrence.Rd | 6 tabula-1.8.0/tabula/man/plot_bar.Rd | 2 tabula-1.8.0/tabula/man/plot_diversity.Rd | 7 tabula-1.8.0/tabula/man/plot_heatmap.Rd | 9 tabula-1.8.0/tabula/man/plot_line.Rd | 8 tabula-1.8.0/tabula/man/plot_spot.Rd | 10 tabula-1.8.0/tabula/man/rarefaction.Rd | 54 tabula-1.8.0/tabula/man/richness.Rd | 7 tabula-1.8.0/tabula/man/simulate.Rd | 10 tabula-1.8.0/tabula/man/tabula-package.Rd | 2 tabula-1.8.0/tabula/man/test_diversity.Rd | 5 tabula-1.8.0/tabula/tests/testthat/_snaps/diversity.md | 76 tabula-1.8.0/tabula/tests/testthat/_snaps/diversity/idx-heterogeneity.svg | 67 tabula-1.8.0/tabula/tests/testthat/_snaps/plots/bertin-scale.svg | 507 - tabula-1.8.0/tabula/tests/testthat/_snaps/plots/bertin-threshold.svg | 522 - tabula-1.8.0/tabula/tests/testthat/_snaps/plots/bertin.svg | 506 - tabula-1.8.0/tabula/tests/testthat/_snaps/plots/ford-count-eppm-false.svg | 525 - tabula-1.8.0/tabula/tests/testthat/_snaps/plots/ford-count-eppm-true.svg | 955 +-- tabula-1.8.0/tabula/tests/testthat/_snaps/plots/mtx-count.svg | 550 + tabula-1.8.0/tabula/tests/testthat/_snaps/plots/mtx-freq.svg | 556 + tabula-1.8.0/tabula/tests/testthat/_snaps/plots/mtx-incid.svg | 536 - tabula-1.8.0/tabula/tests/testthat/_snaps/plots/rank-count-facet-false.svg | 424 - tabula-1.8.0/tabula/tests/testthat/_snaps/plots/rank-count-facet-true.svg | 1038 --- tabula-1.8.0/tabula/tests/testthat/_snaps/plots/rank-count-log-x.svg | 422 - tabula-1.8.0/tabula/tests/testthat/_snaps/plots/rank-count-log-xy.svg | 416 - tabula-1.8.0/tabula/tests/testthat/_snaps/plots/rank-count-log-y.svg | 418 - tabula-1.8.0/tabula/tests/testthat/_snaps/plots/rank-count-log-yx.svg | 416 - tabula-1.8.0/tabula/tests/testthat/_snaps/plots/spot-count.svg | 881 +-- tabula-1.8.0/tabula/tests/testthat/_snaps/plots/spot-freq.svg | 881 +-- tabula-1.8.0/tabula/tests/testthat/_snaps/plots/spot-mean-count.svg | 873 +-- tabula-1.8.0/tabula/tests/testthat/_snaps/plots/spot-mean-freq.svg | 867 +-- tabula-1.8.0/tabula/tests/testthat/_snaps/plots/spot-plain-count.svg | 388 - tabula-1.8.0/tabula/tests/testthat/_snaps/plots/spot-plain-freq.svg | 386 - tabula-1.8.0/tabula/tests/testthat/_snaps/rarefaction |only tabula-1.8.0/tabula/tests/testthat/_snaps/rarefaction.md | 9 tabula-1.8.0/tabula/tests/testthat/_snaps/richness.md | 38 tabula-1.8.0/tabula/tests/testthat/_snaps/richness/idx-richness.svg | 65 tabula-1.8.0/tabula/tests/testthat/_snaps/similarity/mtx-occ.svg | 1156 +++- tabula-1.8.0/tabula/tests/testthat/_snaps/similarity/mtx-sim.svg | 304 - tabula-1.8.0/tabula/tests/testthat/_snaps/similarity/spot-occ.svg | 2878 +++++++++- tabula-1.8.0/tabula/tests/testthat/_snaps/similarity/spot-plain-sim.svg | 332 - tabula-1.8.0/tabula/tests/testthat/_snaps/similarity/spot-ring-sim.svg | 729 -- tabula-1.8.0/tabula/tests/testthat/_snaps/statistics.md | 142 tabula-1.8.0/tabula/tests/testthat/test-diversity.R | 21 tabula-1.8.0/tabula/tests/testthat/test-plots.R | 51 tabula-1.8.0/tabula/tests/testthat/test-rarefaction.R | 14 tabula-1.8.0/tabula/tests/testthat/test-richness.R | 13 tabula-1.8.0/tabula/tests/testthat/test-similarity.R | 10 tabula-1.8.0/tabula/tests/testthat/test-statistics.R | 15 tabula-1.8.0/tabula/vignettes/bibliography.bib | 282 tabula-1.8.0/tabula/vignettes/diversity.Rmd | 6 95 files changed, 10404 insertions(+), 9528 deletions(-)
Title: MR Spectroscopy Analysis Tools
Description: Tools for reading, visualising and processing Magnetic Resonance
Spectroscopy data. The package includes methods for spectral fitting: Wilson
(2021) <DOI:10.1002/mrm.28385> and spectral alignment: Wilson (2018)
<DOI:10.1002/mrm.27605>.
Author: Martin Wilson [cre, aut] ,
Yong Wang [ctb],
John Muschelli [ctb]
Maintainer: Martin Wilson <martin@pipegrep.co.uk>
Diff between spant versions 2.1.0 dated 2022-07-21 and 2.2.0 dated 2022-09-08
DESCRIPTION | 10 MD5 | 158 ++++++------- NAMESPACE | 2 NEWS.md | 11 R/mrs_data_display.R | 9 R/mrs_data_proc.R | 109 +++++++-- R/mrs_read_nifti.R | 5 R/mrs_read_twix.R | 21 + R/mrs_write_nifti.R | 18 - R/rats.R | 2 R/varpro_3_para.R | 10 build/vignette.rds |binary inst/doc/abfit-baseline-opts.html | 273 +---------------------- inst/doc/spant-basis-simulation.html | 239 +------------------- inst/doc/spant-intro.html | 350 ++++++------------------------ inst/doc/spant-metabolite-simulation.html | 249 +-------------------- inst/doc/spant-preprocessing.html | 222 +------------------ man/acquire.Rd | 46 +-- man/append_coils.Rd | 38 +-- man/append_dyns.Rd | 38 +-- man/apply_axes.Rd | 60 ++--- man/apply_mrs.Rd | 44 +-- man/auto_phase.Rd | 50 ++-- man/bbase.Rd | 46 +-- man/bc_als.Rd | 12 - man/bc_constant.Rd | 2 man/calc_ed_from_lambda.Rd | 42 +-- man/calc_peak_info_vec.Rd | 40 +-- man/calc_spec_diff.Rd | 42 +-- man/calc_spec_snr.Rd | 88 +++---- man/comb_coils.Rd | 6 man/crop_td_pts.Rd | 42 +-- man/crop_td_pts_pot.Rd |only man/ecc.Rd | 52 ++-- man/fit_amps.Rd | 58 ++-- man/fp_phase_correct.Rd | 44 +-- man/get_1h_brain_basis_paras.Rd | 48 ++-- man/get_1h_brain_basis_paras_v1.Rd | 48 ++-- man/get_1h_brain_basis_paras_v2.Rd | 48 ++-- man/get_mrsi_voxel.Rd | 50 ++-- man/get_mrsi_voxel_xy_psf.Rd | 50 ++-- man/get_seg_ind.Rd | 42 +-- man/get_voi_seg.Rd | 38 +-- man/get_voi_seg_psf.Rd | 38 +-- man/get_voxel.Rd | 54 ++-- man/grid_shift_xy.Rd | 42 +-- man/mod_td.Rd |only man/mrs_data2basis.Rd | 42 +-- man/mrs_data2vec.Rd | 54 ++-- man/nifti_flip_lr.Rd | 42 +-- man/peak_info.Rd | 72 +++--- man/plot.mrs_data.Rd | 4 man/plot_bc.Rd | 36 +-- man/plot_slice_map.Rd | 94 ++++---- man/rats.Rd | 2 man/read_lcm_coord.Rd | 36 +-- man/read_mrs_tqn.Rd | 64 ++--- man/read_tqn_result.Rd | 48 ++-- man/resample_img.Rd | 42 +-- man/seq_cpmg_ideal.Rd | 50 ++-- man/seq_mega_press_ideal.Rd | 84 +++---- man/seq_press_ideal.Rd | 50 ++-- man/seq_pulse_acquire.Rd | 42 +-- man/seq_pulse_acquire_31p.Rd | 42 +-- man/seq_slaser_ideal.Rd | 54 ++-- man/seq_spin_echo_ideal.Rd | 46 +-- man/seq_spin_echo_ideal_31p.Rd | 46 +-- man/seq_steam_ideal.Rd | 50 ++-- man/set_lw.Rd | 4 man/sim_basis.Rd | 64 ++--- man/sim_basis_1h_brain.Rd | 70 +++--- man/sim_basis_1h_brain_press.Rd | 70 +++--- man/sim_basis_tqn.Rd | 66 ++--- man/sim_brain_1h.Rd | 82 +++---- man/sim_mol.Rd | 80 +++--- man/spin_sys.Rd | 42 +-- man/spm_pve2categorical.Rd | 38 +-- man/td_conv_filt.Rd | 42 +-- man/varpro_3_para_opts.Rd | 14 - man/varpro_opts.Rd | 96 ++++---- man/write_basis_tqn.Rd | 46 +-- 81 files changed, 1845 insertions(+), 2765 deletions(-)
Title: Approximate POMDP Planning Software
Description: A toolkit for Partially Observed Markov Decision Processes (POMDP). Provides
bindings to C++ libraries implementing the algorithm SARSOP (Successive Approximations
of the Reachable Space under Optimal Policies) and described in Kurniawati et al (2008),
<doi:10.15607/RSS.2008.IV.009>. This package also provides a high-level interface
for generating, solving and simulating POMDP problems and their solutions.
Author: Carl Boettiger [cre, aut, cph]
,
Jeroen Ooms [aut],
Milad Memarzadeh [aut],
Hanna Kurniawati [ctb, cph],
David Hsu [ctb, cph],
Hanna Kurniawati [ctb, cph],
Wee Sun Lee [ctb, cph],
Yanzhu Du [ctb],
Xan Huang [ctb],
Trey Smith [ctb, cph],
Tony Cassandr [...truncated...]
Maintainer: Carl Boettiger <cboettig@gmail.com>
Diff between sarsop versions 0.6.9 dated 2021-08-04 and 0.6.10 dated 2022-09-08
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 4 ++++ src/appl-0.96/Core/BeliefForest.cpp | 28 ++++++++++++++-------------- 4 files changed, 24 insertions(+), 20 deletions(-)
Title: R Interface to Stan
Description: User-facing R functions are provided to parse, compile, test,
estimate, and analyze Stan models by accessing the header-only Stan library
provided by the 'StanHeaders' package. The Stan project develops a probabilistic
programming language that implements full Bayesian statistical inference
via Markov Chain Monte Carlo, rough Bayesian inference via 'variational'
approximation, and (optionally penalized) maximum likelihood estimation via
optimization. In all three cases, automatic differentiation is used to quickly
and accurately evaluate gradients without burdening the user with the need to
derive the partial derivatives.
Author: Jiqiang Guo [aut],
Jonah Gabry [aut],
Ben Goodrich [cre, aut],
Sebastian Weber [aut],
Daniel Lee [ctb],
Krzysztof Sakrejda [ctb],
Modrak Martin [ctb],
Trustees of Columbia University [cph],
Oleg Sklyar [cph] ,
The R Core Team [cph] ,
Jens Oehlschlaeg [...truncated...]
Maintainer: Ben Goodrich <benjamin.goodrich@columbia.edu>
Diff between rstan versions 2.21.5 dated 2022-04-11 and 2.21.7 dated 2022-09-08
DESCRIPTION | 8 - MD5 | 14 +- R/extract_sparse_parts.R | 6 - inst/doc/SBC.html | 78 ++----------- inst/doc/external.html | 90 +++------------ inst/doc/rstan.html | 216 ++++++++++++++------------------------ inst/doc/stanfit-objects.html | 238 ++++++++++++++++-------------------------- man/stanfit-method-loo.Rd | 1 8 files changed, 221 insertions(+), 430 deletions(-)
Title: Package Dependency Resolution and Downloads
Description: Find recursive dependencies of 'R' packages from various
sources. Solve the dependencies to obtain a consistent set of packages
to install. Download packages, and install them. It supports packages
on 'CRAN', 'Bioconductor' and other 'CRAN-like' repositories,
'GitHub', package 'URLs', and local package trees and files. It caches
metadata and package files via the 'pkgcache' package, and performs
all 'HTTP' requests, downloads, builds and installations in parallel.
'pkgdepends' is the workhorse of the 'pak' package.
Author: Gabor Csardi [aut, cre],
RStudio [cph, fnd]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between pkgdepends versions 0.3.1 dated 2022-04-08 and 0.3.2 dated 2022-09-08
DESCRIPTION | 17 MD5 | 43 - R/aaa-rstudio-detect.R |only R/dep-utils.R | 16 R/errors.R | 1146 +++++++++++++++++++++++---------- R/install-binary.R | 58 - R/install-plan.R | 11 R/platform.R | 2 R/resolution.R | 6 R/solve.R | 20 R/type-github.R | 2 R/type-url.R | 25 R/utils.R | 21 man/as_pkg_dependencies.Rd | 6 man/default_platforms.Rd | 2 man/pkg_deps.Rd | 90 +- man/pkg_download_proposal.Rd | 82 +- man/pkg_installation_plan.Rd | 102 +- man/pkg_installation_proposal.Rd | 144 ++-- man/pkg_refs.Rd | 104 ++ man/pkgdepends-package.Rd | 28 tests/testthat/_snaps/install-parts.md | 4 tests/testthat/test-utils.R | 14 23 files changed, 1244 insertions(+), 699 deletions(-)
Title: Optimal Project Prioritization
Description: A decision support tool for prioritizing conservation projects.
Prioritizations can be developed by maximizing expected feature richness,
expected phylogenetic diversity, the number of features that meet
persistence targets, or identifying a set of projects that meet persistence
targets for minimal cost. Constraints (e.g. lock in specific actions) and
feature weights can also be specified to further customize prioritizations.
After defining a project prioritization problem, solutions can be obtained
using exact algorithms, heuristic algorithms, or random processes. In
particular, it is recommended to install the 'Gurobi' optimizer (available
from <https://www.gurobi.com>) because it can identify optimal solutions
very quickly. Finally, methods are provided for comparing different
prioritizations and evaluating their benefits. For more information, see
Hanson et al. (2019) <doi:10.1111/2041-210X.13264>.
Author: Jeffrey O Hanson [aut, cre] ,
Richard Schuster [aut] ,
Matthew Strimas-Mackey [aut] ,
Joseph R Bennett [aut]
Maintainer: Jeffrey O Hanson <jeffrey.hanson@uqconnect.edu.au>
Diff between oppr versions 1.0.3 dated 2021-05-11 and 1.0.4 dated 2022-09-08
DESCRIPTION | 15 MD5 | 93 +- NEWS.md | 26 R/ProjectProblem-proto.R | 18 R/add_lpsolveapi_solver.R | 2 R/add_lpsymphony_solver.R | 2 R/add_max_phylo_div_objective.R | 2 R/add_max_richness_objective.R | 2 R/add_max_targets_met_objective.R | 2 R/add_min_set_objective.R | 2 R/add_rsymphony_solver.R | 2 R/data.R | 2 R/internal.R | 58 + R/plot_feature_persistence.R | 4 R/plot_phylo_persistence.R | 43 - R/problem.R | 6 R/project_cost_effectiveness.R | 4 R/replacement_costs.R | 2 R/solution_statistics.R | 6 R/solvers.R | 2 README.md | 12 build/vignette.rds |binary inst/doc/oppr.Rmd | 2 inst/doc/oppr.html | 1105 +++++++++++++------------------- man/add_lsymphony_solver.Rd | 2 man/add_rsymphony_solver.Rd | 2 man/figures/README-readme-plot-1.png |binary man/plot_phylo_persistence.Rd | 13 man/problem.Rd | 6 man/replacement_costs.Rd | 2 man/sim_data.Rd | 2 man/solvers.Rd | 2 src/RcppExports.cpp | 5 src/functions.cpp | 2 src/functions.h | 1 src/optimization_problem.h | 1 src/package.h | 1 src/rcpp_funded_projects.cpp | 2 src/rcpp_heuristic_solution.cpp | 2 src/rcpp_random_solution.cpp | 2 tests/testthat/helper_functions.R | 2 tests/testthat/test_as_Matrix.R |only tests/testthat/test_branch_matrix.R | 2 tests/testthat/test_internal_rcpp.R | 6 tests/testthat/test_problem.R | 24 tests/testthat/test_simulate_ppp_data.R | 13 tests/testthat/test_simulate_ptm_data.R | 12 vignettes/oppr.Rmd | 2 48 files changed, 727 insertions(+), 791 deletions(-)
Title: Landscape Meteorology Tools
Description: Functions to estimate weather variables at any position of a landscape [De Caceres et al. (2018) <doi:10.1016/j.envsoft.2018.08.003>].
Author: Miquel De Caceres [aut, cre] ,
Nicolas Martin [aut] ,
Victor Granda [aut] ,
Antoine Cabon [aut]
Maintainer: Miquel De Caceres <miquelcaceres@gmail.com>
Diff between meteoland versions 1.0.2 dated 2022-01-05 and 1.0.3 dated 2022-09-08
meteoland-1.0.2/meteoland/R/sysdata.rda |only meteoland-1.0.3/meteoland/DESCRIPTION | 24 meteoland-1.0.3/meteoland/MD5 | 47 meteoland-1.0.3/meteoland/NEWS.md | 6 meteoland-1.0.3/meteoland/R/DefineProcedureClasses.R | 4 meteoland-1.0.3/meteoland/R/MeteorologyInterpolationData.R | 9 meteoland-1.0.3/meteoland/R/interpolationgrid.R | 2 meteoland-1.0.3/meteoland/R/interpolationpixels.R | 2 meteoland-1.0.3/meteoland/R/interpolationpoints.R | 2 meteoland-1.0.3/meteoland/R/readmeteorologypoints.R | 2 meteoland-1.0.3/meteoland/build/vignette.rds |binary meteoland-1.0.3/meteoland/inst/doc/UserGuide.html | 785 ++++++++-- meteoland-1.0.3/meteoland/man/SpatialGridMeteorology-class.Rd | 21 meteoland-1.0.3/meteoland/man/SpatialGridTopography-class.Rd | 18 meteoland-1.0.3/meteoland/man/SpatialPixelsMeteorology-class.Rd | 22 meteoland-1.0.3/meteoland/man/SpatialPixelsTopography-class.Rd | 20 meteoland-1.0.3/meteoland/man/SpatialPointsMeteorology-class.Rd | 19 meteoland-1.0.3/meteoland/man/SpatialPointsTopography-class.Rd | 17 meteoland-1.0.3/meteoland/man/penman.Rd | 2 meteoland-1.0.3/meteoland/src/landutils.cpp | 4 meteoland-1.0.3/meteoland/src/precipitation.cpp | 2 meteoland-1.0.3/meteoland/src/relativehumidity.cpp | 6 meteoland-1.0.3/meteoland/src/temperature.cpp | 2 meteoland-1.0.3/meteoland/src/utils.cpp | 17 meteoland-1.0.3/meteoland/src/wind.cpp | 8 25 files changed, 800 insertions(+), 241 deletions(-)
Title: Seamless Integration Between R and 'Julia'
Description: Provides an R interface to 'Julia',
which is a high-level, high-performance dynamic programming language
for numerical computing, see <https://julialang.org/> for more information.
It provides a high-level interface as well as a low-level interface.
Using the high level interface, you could call any 'Julia' function just like
any R function with automatic type conversion. Using the low level interface,
you could deal with C-level SEXP directly while enjoying the convenience of
using a high-level programming language like 'Julia'.
Author: Changcheng Li [aut, cre],
Randy Lai [ctb],
Dmitri Grominski [ctb],
Nagi Teramo [ctb]
Maintainer: Changcheng Li <cxl508@psu.edu>
Diff between JuliaCall versions 0.17.4 dated 2021-05-16 and 0.17.5 dated 2022-09-08
DESCRIPTION | 14 LICENSE | 4 MD5 | 194 +++--- NAMESPACE | 166 ++--- NEWS.md | 651 ++++++++++---------- R/JuliaCall.R | 116 +-- R/JuliaObject.R | 298 ++++----- R/JuliaObjectExt.R | 106 +-- R/JuliaPlain.R | 52 - R/Jupyter.R | 10 R/RMarkdown.R | 402 ++++++------ R/aaa.R | 204 +++--- R/argument.R | 18 R/console.R | 132 ++-- R/dispatch.R | 364 +++++------ R/installJulia.R | 131 +++- R/interface.R | 456 +++++++------- R/internal_generic.R | 34 - R/package.R | 121 ++- R/package_wrap.R | 154 ++-- R/piper.R | 52 - R/plotsViewer.R | 42 - R/util.R | 30 R/zzz.R | 7 README.md | 714 +++++++++++------------ build/vignette.rds |binary inst/CITATION | 30 inst/doc/JuliaCall_in_Jupyter_R_Notebook.Rmd | 48 - inst/doc/JuliaCall_in_Jupyter_R_Notebook.html | 366 ++++++++++- inst/doc/Julia_in_RMarkdown.Rmd | 28 inst/doc/Julia_in_RMarkdown.html | 239 +++++++ inst/js/plotly-latest.min.js | 154 ++-- inst/julia/JuliaObject.jl | 198 +++--- inst/julia/REPLhook.jl | 26 inst/julia/RmdStd.jl | 58 - inst/julia/asR.jl | 28 inst/julia/convert.jl | 34 - inst/julia/dispatch.jl | 200 +++--- inst/julia/display/IRjulia.jl | 132 ++-- inst/julia/display/RmdJulia.jl | 78 +- inst/julia/display/basic.jl | 96 +-- inst/julia/display/plotsViewer.jl | 90 +- inst/julia/incomplete_console.jl | 16 inst/julia/install_dependency.jl | 84 +- inst/julia/interface1.jl | 70 +- inst/julia/libjulia.jl | 34 - inst/julia/rebuildRCall.jl | 116 +-- inst/julia/setup.jl | 494 ++++++++------- man/JuliaCall.Rd | 118 +-- man/JuliaObject.Rd | 56 - man/JuliaObjectFields.Rd | 68 +- man/autowrap.Rd | 38 - man/call.Rd | 116 +-- man/eng_juliacall.Rd | 38 - man/grapes-greater-than-J-grapes.Rd | 50 - man/install_julia.Rd | 36 - man/julia_assign.Rd | 54 - man/julia_command.Rd | 64 +- man/julia_console.Rd | 34 - man/julia_eval.Rd | 74 +- man/julia_exists.Rd | 46 - man/julia_help.Rd | 46 - man/julia_markdown_setup.Rd | 36 - man/julia_notebook_setup.Rd | 30 man/julia_package.Rd | 94 +-- man/julia_pkg_wrap.Rd | 90 +- man/julia_setup.Rd | 124 +-- man/julia_source.Rd | 28 man/plotsViewer.Rd | 22 src/RcppExports.cpp | 5 tests/testthat.R | 8 tests/testthat/Rmd_error_test.Rmd | 38 - tests/testthat/Rmd_error_test1.Rmd | 40 - tests/testthat/Rmd_test.Rmd | 78 +- tests/testthat/Rmd_test.md | 96 +-- tests/testthat/simplesource.jl | 2 tests/testthat/test_AD.R | 168 ++--- tests/testthat/test_JuliaObject.R | 138 ++-- tests/testthat/test_JuliaTuple.R | 30 tests/testthat/test_RCall.R | 28 tests/testthat/test_arguments.R | 28 tests/testthat/test_array_related_dispatching.R | 82 +- tests/testthat/test_asR.R | 18 tests/testthat/test_autowrap_JuliaObject.R | 56 - tests/testthat/test_basic.R | 56 - tests/testthat/test_dispatch.R | 238 +++---- tests/testthat/test_error.R | 24 tests/testthat/test_ifelse_related_dispatching.R | 132 ++-- tests/testthat/test_julia_package.R | 32 - tests/testthat/test_julia_source.R | 22 tests/testthat/test_pkgwrap.R | 30 tests/testthat/test_rebuild.R | 22 tests/testthat/test_rmd.R | 26 tests/testthat/test_rmd_error.R | 24 vignettes/JuliaCall_in_Jupyter_R_Notebook.Rmd | 48 - vignettes/JuliaCall_in_Jupyter_R_Notebook1.md | 530 ++++++++--------- vignettes/JuliaCall_in_RMarkdown.md | 124 +-- vignettes/Julia_in_RMarkdown.Rmd | 28 98 files changed, 5562 insertions(+), 4942 deletions(-)
Title: 'GitHub' 'API'
Description: Minimal client to access the 'GitHub' 'API'.
Author: Gabor Csardi [cre, ctb],
Jennifer Bryan [aut],
Hadley Wickham [aut],
RStudio [cph, fnd]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between gh versions 1.3.0 dated 2021-04-30 and 1.3.1 dated 2022-09-08
gh-1.3.0/gh/R/errors.R |only gh-1.3.1/gh/DESCRIPTION | 34 +- gh-1.3.1/gh/MD5 | 58 +-- gh-1.3.1/gh/NEWS.md | 8 gh-1.3.1/gh/R/gh.R | 78 ++--- gh-1.3.1/gh/R/gh_gql.R | 17 + gh-1.3.1/gh/R/gh_rate_limit.R | 8 gh-1.3.1/gh/R/gh_request.R | 53 +-- gh-1.3.1/gh/R/gh_response.R | 44 +-- gh-1.3.1/gh/R/gh_token.R | 22 - gh-1.3.1/gh/R/gh_whoami.R | 24 - gh-1.3.1/gh/R/git.R | 25 - gh-1.3.1/gh/R/pagination.R | 19 - gh-1.3.1/gh/R/utils.R | 14 gh-1.3.1/gh/README.md | 55 ++- gh-1.3.1/gh/build/vignette.rds |binary gh-1.3.1/gh/inst/doc/managing-personal-access-tokens.html | 204 +++++++++----- gh-1.3.1/gh/man/gh.Rd | 22 - gh-1.3.1/gh/man/gh_gql.Rd | 15 + gh-1.3.1/gh/man/gh_whoami.Rd | 10 gh-1.3.1/gh/tests/testthat/_snaps |only gh-1.3.1/gh/tests/testthat/helper.R | 17 - gh-1.3.1/gh/tests/testthat/test-errors.R | 2 gh-1.3.1/gh/tests/testthat/test-gh.R | 9 gh-1.3.1/gh/tests/testthat/test-gh_rate_limit.R | 11 gh-1.3.1/gh/tests/testthat/test-gh_request.R | 24 + gh-1.3.1/gh/tests/testthat/test-gh_token.R | 8 gh-1.3.1/gh/tests/testthat/test-gh_whoami.R | 8 gh-1.3.1/gh/tests/testthat/test-git.R | 4 gh-1.3.1/gh/tests/testthat/test-mock-repos.R | 14 gh-1.3.1/gh/tests/testthat/test-utils.R | 23 + 31 files changed, 499 insertions(+), 331 deletions(-)
Title: Quantify the Relationship Between Development Rate and
Temperature in Ectotherms
Description: A set of functions to quantify the relationship between development
rate and temperature and to build phenological models. The package comprises
a set of models and estimated parameters borrowed from a literature review
in ectotherms. The methods and literature review are described in Rebaudo
et al. (2018) <doi:10.1111/2041-210X.12935>, Rebaudo and Rabhi (2018)
<doi:10.1111/eea.12693>, and Regnier et al. (2021) <doi:10.1093/ee/nvab115>.
An example can be found in Rebaudo et al. (2017)
<doi:10.1007/s13355-017-0480-5>.
Author: Francois Rebaudo [aut, cre] ,
Baptiste Regnier [aut] ,
Camila Benavides [ctb] ,
Tanusson Selvarajah [ctb] ,
Nicolas Bonnal [ctb] ,
Badre Rabhi [ctb] ,
Quentin Struelens [ctb]
Maintainer: Francois Rebaudo <francois.rebaudo@ird.fr>
Diff between devRate versions 0.2.2 dated 2022-06-29 and 0.2.3 dated 2022-09-08
DESCRIPTION | 6 - MD5 | 88 +++++++++++++------------- R/devRate_qualityFits.R | 4 - README.md | 4 - data/analytis_77.RData |binary data/bayoh_03.RData |binary data/beta_16.RData |binary data/beta_95.RData |binary data/bieri1_83.RData |binary data/briere1_99.RData |binary data/briere2_99.RData |binary data/campbell_74.RData |binary data/damos_08.RData |binary data/damos_11.RData |binary data/davidson_44.RData |binary data/devRateEqList.RData |binary data/harcourtYee_82.RData |binary data/hilbertLogan_83.RData |binary data/janisch_32.RData |binary data/kontodimas_04.RData |binary data/lactin1_95.RData |binary data/lactin2_95.RData |binary data/lamb_92.RData |binary data/logan10_76.RData |binary data/logan6_76.RData |binary data/perf2_11.RData |binary data/poly2.RData |binary data/poly4.RData |binary data/ratkowsky_82.RData |binary data/ratkowsky_83.RData |binary data/regniere_12.RData |binary data/rootsq_82.RData |binary data/schoolfieldHigh_81.RData |binary data/schoolfieldLow_81.RData |binary data/schoolfield_81.RData |binary data/sharpeDeMichele_77.RData |binary data/shi_11.RData |binary data/stinner_74.RData |binary data/taylor_81.RData |binary data/wagner_88.RData |binary data/wang_82.RData |binary data/wangengel_98.RData |binary inst/doc/guiaDelUsuario.html | 138 +++++++++++++++++++++--------------------- inst/doc/modelEvaluation.html | 4 - inst/doc/quickUserGuide.html | 132 ++++++++++++++++++++-------------------- 45 files changed, 188 insertions(+), 188 deletions(-)
Title: A Generator of Multidimensional Noise
Description: Generation of natural looking noise has many application within
simulation, procedural generation, and art, to name a few. The 'ambient'
package provides an interface to the 'FastNoise' C++ library and allows for
efficient generation of perlin, simplex, worley, cubic, value, and white
noise with optional perturbation in either 2, 3, or 4 (in case of simplex and
white noise) dimensions.
Author: Thomas Lin Pedersen [cre, aut]
,
Jordan Peck [aut]
Maintainer: Thomas Lin Pedersen <thomasp85@gmail.com>
Diff between ambient versions 1.0.1 dated 2022-08-15 and 1.0.2 dated 2022-09-08
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 4 ++++ src/FastNoise.cpp | 14 +++++++------- 4 files changed, 17 insertions(+), 13 deletions(-)
Title: Cross-Platform 'zip' Compression
Description: Cross-Platform 'zip' Compression Library. A replacement
for the 'zip' function, that does not require any additional
external tools on any platform.
Author: Gabor Csardi, Kuba Podgorski, Rich Geldreich
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between zip versions 2.2.0 dated 2021-05-31 and 2.2.1 dated 2022-09-08
zip-2.2.0/zip/inst/doc |only zip-2.2.1/zip/DESCRIPTION | 8 ++--- zip-2.2.1/zip/MD5 | 20 ++++++-------- zip-2.2.1/zip/NEWS.md | 4 ++ zip-2.2.1/zip/R/zip.R | 5 +-- zip-2.2.1/zip/README.md | 2 - zip-2.2.1/zip/man/unzip.Rd | 4 -- zip-2.2.1/zip/man/unzip_process.Rd | 10 ++----- zip-2.2.1/zip/man/zip.Rd | 52 +++++++++++++++++++------------------ zip-2.2.1/zip/man/zip_list.Rd | 4 -- zip-2.2.1/zip/man/zip_process.Rd | 10 ++----- 11 files changed, 55 insertions(+), 64 deletions(-)
Title: Fake Web Apps for HTTP Testing
Description: Create a web app that makes it easier to test web clients
without using the internet. It includes a web app framework with path
matching, parameters and templates. Can parse various 'HTTP' request
bodies. Can send 'JSON' data or files from the disk. Includes a web app
that implements the <https://httpbin.org> web service.
Author: Gabor Csardi [aut, cre],
RStudio, Pbc. [cph],
Civetweb contributors [ctb] ,
Redoc contributors [ctb] ,
L. Peter Deutsch [ctb] ,
Martin Purschke [ctb] ,
Aladdin Enterprises [cph] ,
Maelle Salmon [ctb]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between webfakes versions 1.1.3 dated 2021-04-30 and 1.1.4 dated 2022-09-08
DESCRIPTION | 8 +++--- MD5 | 18 ++++++++------ NEWS.md | 3 ++ R/docs.R |only README.md | 55 +++++++++++++++++++++++---------------------- man/glossary.Rd |only man/httpbin_app.Rd | 4 ++- man/mw_log.Rd | 6 +++- man/new_app.Rd | 54 ++++++++++++++++++++++++++++++++------------ man/new_app_process.Rd | 4 ++- man/oauth2_resource_app.Rd | 6 +++- 11 files changed, 100 insertions(+), 58 deletions(-)
Title: Wavelet ANN Model
Description: The wavelet and ANN technique have been combined to reduce the effect of data noise. This wavelet-ANN conjunction model is able to forecast time series data with better accuracy than the traditional time series model. This package fits hybrid Wavelet ANN model for time series forecasting using algorithm by Anjoy and Paul (2017) <DOI: 10.1007/s00521-017-3289-9>.
Author: Dr. Ranjit Kumar Paul [aut, cre],
Dr. Md Yeasin [aut]
Maintainer: Dr. Ranjit Kumar Paul <ranjitstat@gmail.com>
Diff between WaveletANN versions 0.1.0 dated 2019-03-17 and 0.1.2 dated 2022-09-08
WaveletANN-0.1.0/WaveletANN/R/WaveletANN.R |only WaveletANN-0.1.2/WaveletANN/DESCRIPTION | 20 +-- WaveletANN-0.1.2/WaveletANN/MD5 | 10 - WaveletANN-0.1.2/WaveletANN/NAMESPACE | 15 +- WaveletANN-0.1.2/WaveletANN/R/Waveletann.R |only WaveletANN-0.1.2/WaveletANN/man/WaveletFitting.Rd | 83 +++++-------- WaveletANN-0.1.2/WaveletANN/man/WaveletFittingann.Rd | 121 ++++++++++--------- 7 files changed, 130 insertions(+), 119 deletions(-)
Title: UK National River Flow Archive Data from R
Description: Utility functions to retrieve data from the UK National River Flow
Archive (<https://nrfa.ceh.ac.uk/>, terms and conditions:
<https://nrfa.ceh.ac.uk/costs-terms-and-conditions>).
The package contains R wrappers to the UK NRFA data temporary-API. There are
functions to retrieve stations falling in a bounding box, to generate a map
and extracting time series and general information. The package is fully
described in Vitolo et al (2016) "rnrfa: An R package to Retrieve, Filter and
Visualize Data from the UK National River Flow Archive"
<https://journal.r-project.org/archive/2016/RJ-2016-036/RJ-2016-036.pdf>.
Author: Ilaria Prosdocimi [ctb, cre] ,
Claudia Vitolo [aut] ,
Matthew Fry [ctb] ,
Wouter Buytaert [ctb] ,
Michael Spencer [ctb] ,
Tobias Gauster [ctb]
Maintainer: Ilaria Prosdocimi <prosdocimi.ilaria@gmail.com>
Diff between rnrfa versions 2.0.6 dated 2022-08-09 and 2.1.0 dated 2022-09-08
DESCRIPTION | 6 +- MD5 | 11 ++-- NEWS.md | 8 +++ README.md | 2 inst/doc/rnrfa-vignette.html | 17 ++++--- tests/testthat/test-catalogue.R | 97 +++++++++++++++++++--------------------- vignettes/file219c155919c3.html |only 7 files changed, 78 insertions(+), 63 deletions(-)
Title: Create Contour Polygons from Regular Grids
Description: Regularly spaced grids containing continuous data are transformed
to contour polygons. A grid can be defined by a data.frame (x, y, value),
an 'sf' object or a raster from 'terra'.
Author: Timothee Giraud [cre, aut]
Maintainer: Timothee Giraud <timothee.giraud@cnrs.fr>
Diff between mapiso versions 0.1.2 dated 2022-07-07 and 0.2.0 dated 2022-09-08
DESCRIPTION | 8 +- MD5 | 18 +++--- NAMESPACE | 1 NEWS.md | 12 ++++ R/mapiso.R | 98 +++++++++++++++++++++++++----------- README.md | 13 ++++ inst/tinytest/test_mapiso.R | 45 +++++++--------- man/figures/README-data.frame-1.png |binary man/figures/README-raster-1.png |binary man/mapiso.Rd | 20 +++++-- 10 files changed, 140 insertions(+), 75 deletions(-)
Title: Query 'git' Credentials from 'R'
Description: Query, set, delete credentials from the 'git' credential
store. Manage 'GitHub' tokens and other 'git' credentials. This
package is to be used by other packages that need to authenticate to
'GitHub' and/or other 'git' repositories.
Author: Gabor Csardi [aut, cre],
RStudio [cph, fnd]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between gitcreds versions 0.1.1 dated 2020-12-04 and 0.1.2 dated 2022-09-08
DESCRIPTION | 35 +- MD5 | 28 + NEWS.md | 3 R/aaa-doc.R | 6 R/git-auth.R | 6 R/gitcreds-package.R |only README.md | 26 + build/vignette.rds |binary inst/doc/helper-survey.Rmd | 14 inst/doc/helper-survey.html | 505 +++++++++++++++++++++--------------- inst/doc/package.html | 310 ++++++++++++---------- man/gitcreds-package.Rd |only man/gitcreds_get.Rd | 42 +- tests/testthat/helper.R | 7 tests/testthat/test-gitcreds-list.R | 61 ---- vignettes/helper-survey.Rmd | 14 16 files changed, 578 insertions(+), 479 deletions(-)
Title: A Grammar of Animated Graphics
Description: The grammar of graphics as implemented in the 'ggplot2' package has
been successful in providing a powerful API for creating static
visualisation. In order to extend the API for animated graphics this package
provides a completely new set of grammar, fully compatible with 'ggplot2'
for specifying transitions and animations in a flexible and extensible way.
Author: Thomas Lin Pedersen [aut, cre]
,
David Robinson [aut],
RStudio [cph]
Maintainer: Thomas Lin Pedersen <thomasp85@gmail.com>
Diff between gganimate versions 1.0.7 dated 2020-10-15 and 1.0.8 dated 2022-09-08
DESCRIPTION | 13 MD5 | 80 +++--- NAMESPACE | 1 NEWS.md | 29 ++ R/animate.R | 6 R/animation_store.R | 4 R/gganimate-package.r | 6 R/ggplot2_reimpl.R | 24 + R/renderers.R | 24 + R/scene.R | 11 R/transformr.R | 6 R/transition-.R | 9 R/transition-components.R | 6 R/transition-events.R | 2 R/transition-filter.R | 6 R/transition-layers.R | 9 R/transition-manual.R | 2 R/transition-states.R | 3 R/transition-time.R | 20 - R/transition_reveal.R | 13 R/view-.R | 4 R/view-follow.R | 9 R/view-step.R | 4 build/vignette.rds |binary inst/doc/gganimate.Rmd | 4 inst/doc/gganimate.html | 412 +++++++++++++++++-------------- man/animate.Rd | 6 man/figures/README-unnamed-chunk-2-1.gif |binary man/figures/README-unnamed-chunk-4-1.gif |binary man/gganimate-package.Rd | 14 - man/last_animation.Rd | 3 man/transition_components.Rd | 4 man/transition_reveal.Rd | 4 man/transition_states.Rd | 2 man/transition_time.Rd | 2 man/view_step.Rd | 8 man/view_zoom.Rd | 8 tests/testthat/test-anim_save.R | 4 tests/testthat/test-transition-states.R | 1 vignettes/extra/talks.Rmd | 4 vignettes/gganimate.Rmd | 4 41 files changed, 452 insertions(+), 319 deletions(-)
Title: Manipulate DESCRIPTION Files
Description: Tools to read, write, create, and manipulate DESCRIPTION
files. It is intended for packages that create or manipulate other
packages.
Author: Gabor Csardi [aut, cre],
Kirill Mueller [aut],
Jim Hester [aut],
Maelle Salmon [ctb] ,
RStudio [cph, fnd]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between desc versions 1.4.1 dated 2022-03-06 and 1.4.2 dated 2022-09-08
desc-1.4.1/desc/inst/README.Rmd |only desc-1.4.2/desc/DESCRIPTION | 11 +-- desc-1.4.2/desc/MD5 | 79 +++++++++++------------- desc-1.4.2/desc/NEWS.md | 4 + desc-1.4.2/desc/R/description.R | 24 ++++--- desc-1.4.2/desc/R/non-oo-api.R | 2 desc-1.4.2/desc/R/utils.R | 10 ++- desc-1.4.2/desc/README.md | 12 +-- desc-1.4.2/desc/man/desc-package.Rd | 2 desc-1.4.2/desc/man/desc_add_author.Rd | 2 desc-1.4.2/desc/man/desc_add_author_gh.Rd | 2 desc-1.4.2/desc/man/desc_add_me.Rd | 2 desc-1.4.2/desc/man/desc_add_orcid.Rd | 2 desc-1.4.2/desc/man/desc_add_remotes.Rd | 2 desc-1.4.2/desc/man/desc_add_role.Rd | 2 desc-1.4.2/desc/man/desc_add_to_collate.Rd | 2 desc-1.4.2/desc/man/desc_add_urls.Rd | 2 desc-1.4.2/desc/man/desc_bump_version.Rd | 2 desc-1.4.2/desc/man/desc_change_maintainer.Rd | 2 desc-1.4.2/desc/man/desc_clear_remotes.Rd | 2 desc-1.4.2/desc/man/desc_clear_urls.Rd | 2 desc-1.4.2/desc/man/desc_coerce_authors_at_r.Rd | 2 desc-1.4.2/desc/man/desc_del.Rd | 2 desc-1.4.2/desc/man/desc_del_author.Rd | 2 desc-1.4.2/desc/man/desc_del_collate.Rd | 2 desc-1.4.2/desc/man/desc_del_dep.Rd | 2 desc-1.4.2/desc/man/desc_del_deps.Rd | 2 desc-1.4.2/desc/man/desc_del_from_collate.Rd | 2 desc-1.4.2/desc/man/desc_del_remotes.Rd | 2 desc-1.4.2/desc/man/desc_del_role.Rd | 2 desc-1.4.2/desc/man/desc_del_urls.Rd | 2 desc-1.4.2/desc/man/desc_get_built.Rd | 2 desc-1.4.2/desc/man/desc_set.Rd | 2 desc-1.4.2/desc/man/desc_set_authors.Rd | 2 desc-1.4.2/desc/man/desc_set_collate.Rd | 2 desc-1.4.2/desc/man/desc_set_dep.Rd | 2 desc-1.4.2/desc/man/desc_set_deps.Rd | 2 desc-1.4.2/desc/man/desc_set_remotes.Rd | 2 desc-1.4.2/desc/man/desc_set_urls.Rd | 2 desc-1.4.2/desc/man/desc_set_version.Rd | 2 desc-1.4.2/desc/man/description.Rd | 78 +++++++++++++++++------ 41 files changed, 171 insertions(+), 113 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-08-22 0.0.1
Title: QTL Mapping and Hotspots Detection
Description: For QTL mapping, it consists of several functions to perform various tasks, including
simulating or analyzing data, computing the significance thresholds and visualizing the
QTL mapping results. The single-QTL or multiple-QTL method that allows a host of
statistical models to be fitted and compared is applied to analyze the data for the
estimation of QTL parameters. The models include the linear regression, permutation test,
normal mixture model and truncated normal mixture model. The Gaussian stochastic process
is implemented to compute the significance thresholds for QTL detection onto a genetic
linkage map in the experimental populations. Two types of data, the complete genotyping
or selective genotyping data, from various experimental populations, including backcross,
F2, recombinant inbred (RI) populations, advanced intercrossed (AI) populations, are
considered in the QTL mapping analysis. For QTL hotpot detection, the statistical methods
can be developed based on either using the [...truncated...]
Author: Ping-Yuan Chung [cre],
Chen-Hung Kao [aut]
Maintainer: Ping-Yuan Chung <pychung@webmail.stat.sinica.edu.tw>
Diff between QTLEMM versions 1.1.0 dated 2021-10-13 and 1.1.2 dated 2022-09-08
DESCRIPTION | 18 ++++++++------- MD5 | 47 +++++++++++++++++++++-------------------- NAMESPACE | 1 R/D.make.R | 5 ---- R/EM.MIM2.R | 4 +-- R/EQF.permu.R | 13 ++++++----- R/EQF.plot.R | 13 +++++------ R/IM.search.R | 2 + R/IM.search2.R | 8 ++++-- R/LOD.QTLdetect.R | 23 +++++++++++++------- R/MIM.points2.R | 4 +-- R/MIM.search.R | 8 +++--- R/MIM.search2.R | 8 +++--- R/Qhot.R |only inst/extdata/QHOTexample.RDATA |only man/D.make.Rd | 5 ---- man/EM.MIM2.Rd | 4 +-- man/EQF.permu.Rd | 2 - man/EQF.plot.Rd | 2 - man/IM.search.Rd | 2 + man/IM.search2.Rd | 8 ++++-- man/LOD.QTLdetect.Rd | 2 - man/MIM.points2.Rd | 4 +-- man/MIM.search.Rd | 2 - man/MIM.search2.Rd | 2 - man/Qhot.Rd |only 26 files changed, 103 insertions(+), 84 deletions(-)
Title: Cache 'CRAN'-Like Metadata and R Packages
Description: Metadata and package cache for CRAN-like repositories. This
is a utility package to be used by package management tools that want
to take advantage of caching.
Author: Gabor Csardi [aut, cre],
RStudio [cph, fnd]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between pkgcache versions 2.0.1 dated 2022-02-18 and 2.0.2 dated 2022-09-08
DESCRIPTION | 41 - MD5 | 74 +- NEWS.md | 6 R/aaa-async.R | 370 ++-------- R/aaa-rstudio-detect.R |only R/archive.R | 2 R/bioc.R | 3 R/errors.R | 1127 +++++++++++++++++++------------ R/metadata-cache.R | 2 R/onload.R | 1 R/package-cache.R | 6 R/platform.R | 2 R/utils.R | 4 README.md | 87 +- inst/WORDLIST | 5 man/cran_archive_cache.Rd | 6 man/cranlike_metadata_cache.Rd | 6 man/package_cache.Rd | 6 man/pkgcache-package.Rd | 28 man/repo_get.Rd | 6 tests/async/_snaps |only tests/async/test-backoff.R |only tests/async/test-call-function.R | 3 tests/async/test-http-file.R |only tests/testthat/_snaps/platform.md | 11 tests/testthat/test-1-metadata-cache-1.R | 10 tests/testthat/test-1-metadata-cache-2.R | 2 tests/testthat/test-1-metadata-cache-3.R | 2 tests/testthat/test-2-metadata-api.R | 2 tests/testthat/test-3-cran-metadata.R | 2 tests/testthat/test-4-async-http.R | 28 tests/testthat/test-5-cache.R | 2 tests/testthat/test-assertions.R | 2 tests/testthat/test-cache-api.R | 2 tests/testthat/test-data-frame.R | 2 tests/testthat/test-metadata-errors.R | 2 tests/testthat/test-metadata-utils.R | 2 tests/testthat/test-packages-gz.R | 1 tests/testthat/test-spelling.R | 2 tests/testthat/test-utils.R | 2 40 files changed, 1016 insertions(+), 843 deletions(-)
Title: Raw System Credential Store Access from R
Description: Aims to support all features of the system credential store,
including non-portable ones. Supports 'Keychain' on 'macOS', and
'Credential Manager' on 'Windows'. See the 'keyring' package if you
need a portable 'API'.
Author: Gabor Csardi [aut, cre],
RStudio [cph, fnd]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between oskeyring versions 0.1.3 dated 2022-03-11 and 0.1.4 dated 2022-09-08
DESCRIPTION | 29 +++++++---- MD5 | 20 ++++--- NEWS.md | 11 ++-- R/macos.R | 103 +++++++++++++++++++++++++--------------- R/oskeyring-package.R |only R/windows.R | 25 ++++++--- README.md | 15 ++++- man/macos_keychain.Rd | 106 ++++++++++++++++++++++++++---------------- man/oskeyring-package.Rd |only man/windows_credentials.Rd | 40 ++++++++++----- tests/testthat/helper.R | 30 +++++++---- tests/testthat/test-windows.R | 1 12 files changed, 239 insertions(+), 141 deletions(-)
Title: Interpretable Machine Learning
Description: Interpretability methods to analyze the behavior and
predictions of any machine learning model. Implemented methods are:
Feature importance described by Fisher et al. (2018)
<arXiv:1801.01489>, accumulated local effects plots described by Apley
(2018) <arXiv:1612.08468>, partial dependence plots described by
Friedman (2001) <www.jstor.org/stable/2699986>, individual conditional
expectation ('ice') plots described by Goldstein et al. (2013)
<doi:10.1080/10618600.2014.907095>, local models (variant of 'lime')
described by Ribeiro et. al (2016) <arXiv:1602.04938>, the Shapley
Value described by Strumbelj et. al (2014)
<doi:10.1007/s10115-013-0679-x>, feature interactions described by
Friedman et. al <doi:10.1214/07-AOAS148> and tree surrogate models.
Author: Christoph Molnar [aut, cre],
Patrick Schratz [aut]
Maintainer: Christoph Molnar <christoph.molnar@gmail.com>
Diff between iml versions 0.11.0 dated 2022-05-12 and 0.11.1 dated 2022-09-08
DESCRIPTION | 8 +++---- MD5 | 31 +++++++++++++++-------------- NEWS.md | 10 +++++++++ build/vignette.rds |binary inst/doc/intro.html | 13 +++++++++--- inst/doc/parallel.html | 33 +++++++++++++++++++------------ man/FeatureEffect.Rd | 46 ++++++++++++++++++++++---------------------- man/FeatureEffects.Rd | 32 ++++++++++++++++-------------- man/FeatureImp.Rd | 38 ++++++++++++++++++++---------------- man/Interaction.Rd | 32 ++++++++++++++++-------------- man/InterpretationMethod.Rd | 24 +++++++++++----------- man/LocalModel.Rd | 40 +++++++++++++++++++------------------- man/Partial.Rd | 34 ++++++++++++++++---------------- man/Predictor.Rd | 30 +++++++++++++++------------- man/Shapley.Rd | 34 ++++++++++++++++---------------- man/TreeSurrogate.Rd | 34 ++++++++++++++++---------------- tests/testthat/Rplots.pdf |only 17 files changed, 237 insertions(+), 202 deletions(-)
Title: Package for Community Ecology and Suitability Analysis
Description: Graphical User Interface (via the R-Commander) and utility functions (often based on the vegan package) for statistical analysis of biodiversity and ecological communities, including species accumulation curves, diversity indices, Renyi profiles, GLMs for analysis of species abundance and presence-absence, distance matrices, Mantel tests, and cluster, constrained and unconstrained ordination analysis. A book on biodiversity and community ecology analysis is available for free download from the website. In 2012, methods for (ensemble) suitability modelling and mapping were expanded in the package.
Author: Roeland Kindt [cre, aut]
Maintainer: Roeland Kindt <RoelandCEKindt@gmail.com>
Diff between BiodiversityR versions 2.14-3 dated 2022-08-06 and 2.14-4 dated 2022-09-08
DESCRIPTION | 10 +++++----- MD5 | 17 +++++++++++------ build/partial.rdb |binary inst/ChangeLog | 7 ++++++- inst/etc/Rcmdr-RMarkdown-Template.Rmd | 11 +++++++++++ inst/etc/Rcmdr-menus.txt | 19 ++++++++++--------- inst/etc/Rcmdr-model-capabilities.txt | 23 +++++++++++++---------- inst/etc/Rcmdr-operations.txt |only inst/etc/error.gif |only inst/etc/info.gif |only inst/etc/question.gif |only inst/etc/warning.gif |only 12 files changed, 56 insertions(+), 31 deletions(-)
Title: A 'ggplot2' Implement of Venn Diagram
Description: Easy-to-use functions to generate 2-7 sets Venn plot in publication quality.
'ggVennDiagram' plot Venn using well-defined geometry dataset and 'ggplot2'. The shapes of 2-4 sets
Venn use circles and ellipses, while the shapes of 4-7 sets Venn use irregular polygons (4 has both forms), which
are developed and imported from another package 'venn', authored by Adrian Dusa. We provided internal functions to
integrate shape data with user provided sets data, and calculated the geometry of every regions/intersections
of them, then separately plot Venn in three components: set edges, set labels, and regions.
From version 1.0, it is possible to customize these components as you demand in ordinary 'ggplot2' grammar.
Author: Chun-Hui Gao [aut, cre] ,
Guangchuang Yu [ctb] ,
Adrian Dusa [ctb]
Maintainer: Chun-Hui Gao <gaospecial@gmail.com>
Diff between ggVennDiagram versions 1.2.0 dated 2021-10-22 and 1.2.2 dated 2022-09-08
DESCRIPTION | 12 MD5 | 50 NEWS.md | 116 R/ggVennDiagram.R | 392 +-- R/shape_generator.R | 14 R/sysdata.rda |binary README.md | 626 ++--- build/vignette.rds |binary inst/doc/fully-customed.R | 150 - inst/doc/fully-customed.Rmd | 256 +- inst/doc/fully-customed.html | 2735 ++++++++++++++++++++--- inst/doc/using-ggVennDiagram.R | 168 - inst/doc/using-ggVennDiagram.html | 2703 ++++++++++++++++++++-- inst/doc/using-new-shapes.R | 180 - inst/doc/using-new-shapes.html | 748 ++++-- inst/doc/venn-plot-with-more-than-four-sets.R | 52 inst/doc/venn-plot-with-more-than-four-sets.html | 566 +++- man/figures/README-unnamed-chunk-10-1.png |binary man/figures/README-unnamed-chunk-12-1.png |binary man/figures/README-unnamed-chunk-3-1.png |binary man/figures/README-unnamed-chunk-3-2.png |binary man/figures/README-unnamed-chunk-4-1.png |binary man/figures/README-unnamed-chunk-4-2.png |binary man/figures/README-unnamed-chunk-5-1.png |binary man/vennplot-shapes.Rd | 8 vignettes/fully-customed.Rmd | 256 +- 26 files changed, 6841 insertions(+), 2191 deletions(-)
Title: Read and Write Frictionless Data Packages
Description: Read and write Frictionless Data Packages. A 'Data Package'
(<https://specs.frictionlessdata.io/data-package/>) is a simple container
format and standard to describe and package a collection of (tabular) data.
It is typically used to publish FAIR
(<https://www.go-fair.org/fair-principles/>) and open datasets.
Author: Peter Desmet [aut, cre] ,
Damiano Oldoni [aut] ,
Research Institute for Nature and Forest [cph]
,
LifeWatch Belgium [fnd] ,
Beatriz Milz [rev] ,
Joao Martins [rev]
Maintainer: Peter Desmet <peter.desmet.work@gmail.com>
Diff between frictionless versions 1.0.0 dated 2022-02-16 and 1.0.1 dated 2022-09-08
DESCRIPTION | 32 +++++++++++--------- MD5 | 22 +++++++------- NEWS.md | 9 +++++ R/read_package.R | 3 - R/read_resource.R | 4 +- README.md | 7 +++- inst/CITATION | 28 +++++------------- inst/doc/frictionless.Rmd | 4 +- inst/doc/frictionless.html | 68 +++++++++++++++++++++++++------------------- man/frictionless-package.Rd | 5 +-- man/read_resource.Rd | 8 +++-- vignettes/frictionless.Rmd | 4 +- 12 files changed, 104 insertions(+), 90 deletions(-)
Title: Tidy Messy Data
Description: Tools to help to create tidy data, where each column is a
variable, each row is an observation, and each cell contains a single
value. 'tidyr' contains tools for changing the shape (pivoting) and
hierarchy (nesting and 'unnesting') of a dataset, turning deeply
nested lists into rectangular data frames ('rectangling'), and
extracting values out of string columns. It also includes tools for
working with missing values (both implicit and explicit).
Author: Hadley Wickham [aut, cre],
Maximilian Girlich [aut],
RStudio [cph]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between tidyr versions 1.2.0 dated 2022-02-01 and 1.2.1 dated 2022-09-08
DESCRIPTION | 8 MD5 | 82 +-- NEWS.md | 6 R/data.R | 2 build/vignette.rds |binary inst/doc/in-packages.Rmd | 6 inst/doc/in-packages.html | 446 ++++++++++++++--- inst/doc/nest.html | 249 ++++++++- inst/doc/pivot.html | 917 ++++++++++++++++++++++++++--------- inst/doc/programming.html | 296 ++++++++++- inst/doc/rectangle.R | 86 +-- inst/doc/rectangle.html | 719 ++++++++++++++++++++++----- inst/doc/tidy-data.html | 632 ++++++++++++++++++++---- man/deprecated-se.Rd | 6 man/extract.Rd | 2 man/gather.Rd | 4 man/nest.Rd | 6 man/nest_legacy.Rd | 10 man/pivot_longer_spec.Rd | 43 - man/pivot_wider_spec.Rd | 10 man/relig_income.Rd | 2 man/separate.Rd | 2 man/spread.Rd | 2 man/tidyr-package.Rd | 2 man/unite.Rd | 4 tests/testthat/_snaps/chop.md | 9 tests/testthat/_snaps/drop-na.md | 6 tests/testthat/_snaps/expand.md | 34 - tests/testthat/_snaps/extract.md | 3 tests/testthat/_snaps/gather.md | 4 tests/testthat/_snaps/nest-legacy.md | 9 tests/testthat/_snaps/nest.md | 34 - tests/testthat/_snaps/pack.md | 6 tests/testthat/_snaps/pivot-long.md | 54 +- tests/testthat/_snaps/pivot-wide.md | 59 +- tests/testthat/_snaps/pivot.md | 15 tests/testthat/_snaps/rectangle.md | 124 ++-- tests/testthat/_snaps/replace_na.md | 9 tests/testthat/_snaps/separate.md | 15 tests/testthat/_snaps/spread.md | 3 tests/testthat/_snaps/uncount.md | 3 vignettes/in-packages.Rmd | 6 42 files changed, 3060 insertions(+), 875 deletions(-)
Title: Estimates of Standard Errors for Risk and Performance Measures
Description: Estimates of standard errors of popular risk and performance
measures for asset or portfolio returns using methods as described in
Chen and Martin (2021) <doi:10.21314/JOR.2020.446>.
Author: Anthony Christidis <anthony.christidis@stat.ubc.ca>,
Xin Chen <chenx26@uw.edu>
Maintainer: Anthony Christidis <anthony.christidis@stat.ubc.ca>
Diff between RPESE versions 1.2.4 dated 2021-09-22 and 1.2.5 dated 2022-09-08
DESCRIPTION | 10 +++++----- MD5 | 32 ++++++++++++++++---------------- NEWS.md | 3 +++ R/DSR_SE.R | 5 +++-- R/Measures.R | 2 +- R/VaR_SE.R | 6 +++--- build/vignette.rds |binary inst/doc/RPESEVignette.pdf |binary man/DSR.SE.Rd | 4 ++-- man/ESratio.SE.Rd | 3 +-- man/Mean.SE.Rd | 3 +-- man/OmegaRatio.SE.Rd | 3 +-- man/RachevRatio.SE.Rd | 3 +-- man/SR.SE.Rd | 3 +-- man/SoR.SE.Rd | 3 +-- man/VaRratio.SE.Rd | 3 +-- man/robMean.SE.Rd | 3 +-- 17 files changed, 41 insertions(+), 45 deletions(-)
Title: Helpers for Developing Command Line Interfaces
Description: A suite of tools to build attractive command line interfaces
('CLIs'), from semantic elements: headings, lists, alerts, paragraphs,
etc. Supports custom themes via a 'CSS'-like language. It also
contains a number of lower level 'CLI' elements: rules, boxes, trees,
and 'Unicode' symbols with 'ASCII' alternatives. It support ANSI
colors and text styles as well.
Author: Gabor Csardi [aut, cre],
Hadley Wickham [ctb],
Kirill Mueller [ctb],
RStudio [cph, fnd]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between cli versions 3.3.0 dated 2022-04-25 and 3.4.0 dated 2022-09-08
cli-3.3.0/cli/man/figures/README/progress-setup.svg |only cli-3.3.0/cli/man/figures/alert-danger.svg |only cli-3.3.0/cli/man/figures/alert-info.svg |only cli-3.3.0/cli/man/figures/alert-success.svg |only cli-3.3.0/cli/man/figures/alert-warning.svg |only cli-3.3.0/cli/man/figures/alert-wrap.svg |only cli-3.3.0/cli/man/figures/ansi-align-center.svg |only cli-3.3.0/cli/man/figures/ansi-align-right.svg |only cli-3.3.0/cli/man/figures/ansi-align.svg |only cli-3.3.0/cli/man/figures/ansi-column.svg |only cli-3.3.0/cli/man/figures/box-bg-color.svg |only cli-3.3.0/cli/man/figures/box-border-color.svg |only cli-3.3.0/cli/man/figures/box-border.svg |only cli-3.3.0/cli/man/figures/box-custom.svg |only cli-3.3.0/cli/man/figures/box-default.svg |only cli-3.3.0/cli/man/figures/box-float.svg |only cli-3.3.0/cli/man/figures/box-label-align.svg |only cli-3.3.0/cli/man/figures/box-lines.svg |only cli-3.3.0/cli/man/figures/box-padding.svg |only cli-3.3.0/cli/man/figures/box-text-color.svg |only 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Title: Asynchronous Code Constructs: Generators, Yield, Async, Await
Description: Write sequential-looking code that pauses and resumes.
gen() creates a generator, an iterator that returns a
value and pauses each time it reaches a yield() call.
async() creates a promise, which runs until it reaches
a call to await(), then resumes when information is available.
These work similarly to generator and async constructs
from 'Python' or 'JavaScript'. Objects produced are
compatible with the 'iterators' and 'promises' packages.
Author: Peter Meilstrup [aut, cre]
Maintainer: Peter Meilstrup <peter.meilstrup@gmail.com>
Diff between async versions 0.2.1 dated 2022-05-26 and 0.2.2 dated 2022-09-08
DESCRIPTION | 10 +++++----- MD5 | 39 ++++++++++++++++++++++++++++++++++----- NEWS.md | 4 ++++ build/vignette.rds |binary man/async.Rd | 12 ++++++++---- man/gen.Rd | 8 ++++++-- tests/testthat/achain.dot |only tests/testthat/achain.pdf |only tests/testthat/achain.svg |only tests/testthat/achain2.dot |only tests/testthat/achain2.pdf |only tests/testthat/achain2.svg |only tests/testthat/collatz11.dot |only tests/testthat/collatz11.pdf |only tests/testthat/collatz11.svg |only tests/testthat/fizz.dot |only tests/testthat/fizz.pdf |only tests/testthat/fizz.svg |only tests/testthat/fizzbuzz.dot |only tests/testthat/fizzbuzz.pdf |only tests/testthat/fizzbuzz.svg |only tests/testthat/fizztry.dot |only tests/testthat/fizztry.pdf |only tests/testthat/fizztry.svg |only tests/testthat/genprimes.dot |only tests/testthat/genprimes.pdf |only tests/testthat/genprimes.svg |only tests/testthat/incomplete.dot |only tests/testthat/incomplete.pdf |only tests/testthat/incomplete.svg |only tests/testthat/temp.dot |only tests/testthat/temp.dot.pdf |only tests/testthat/tryfin.dot |only tests/testthat/tryfin.pdf |only tests/testthat/tryfin.svg |only 35 files changed, 57 insertions(+), 16 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-04-30 0.4.0
2021-12-16 0.3.0
2021-08-04 0.2.4
2021-07-26 0.2.3
2021-07-09 0.2.2
2021-07-08 0.2.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-05-02 0.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-09-07 0.8.82
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-08-12 0.6.2
2021-09-20 0.6.1
2021-05-18 0.5.1
2021-04-14 0.5.0
2021-02-05 0.4.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-06-20 0.1.1
2016-05-04 0.1.0
2014-05-06 0.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-09-25 0.0.4
2019-09-05 0.0.3
2018-12-21 0.0.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-09-21 1.10
2019-08-07 1.9
2018-03-02 1.8
2017-10-17 1.7
2017-08-14 1.6
2017-08-11 1.5
2017-06-22 1.4
2017-03-30 1.3
2017-02-07 1.2
2016-11-23 1.1
2016-11-12 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-05-15 0.2.5
2021-11-16 0.2.4
2021-11-10 0.2.3
2021-01-21 0.2.1
2021-01-19 0.2.0
2020-03-15 0.1.0
2019-05-05 0.0.9
More information about IterativeHardThresholding at CRAN
Permanent link
Title: Easily Apply Formats to Data
Description: Contains a set of functions that can be used to apply
formats to data frames or vectors. The package aims to provide to
functionality similar to that of SAS® formats. Formats are assigned to
the format attribute on data frame columns. Then when the fdata()
function is called, a new data frame is created with the column data
formatted as specified. The package also contains a value() function
to create a user-defined format, similar to a SAS® user-defined format.
Author: David Bosak
Maintainer: David Bosak <dbosak01@gmail.com>
Diff between fmtr versions 1.5.8 dated 2022-08-08 and 1.5.9 dated 2022-09-08
fmtr-1.5.8/fmtr/man/images/fmtr2.png |only fmtr-1.5.8/fmtr/man/images/fmtr2_back.png |only fmtr-1.5.9/fmtr/DESCRIPTION | 8 - fmtr-1.5.9/fmtr/MD5 | 59 +++++---- fmtr-1.5.9/fmtr/NEWS.md | 11 + fmtr-1.5.9/fmtr/R/fapply.R | 87 +++++++++++++- fmtr-1.5.9/fmtr/R/fcat.R | 93 +++++++++++++++ fmtr-1.5.9/fmtr/R/fmt.R | 27 ++++ fmtr-1.5.9/fmtr/R/helpers.R | 10 + fmtr-1.5.9/fmtr/R/utilities.R |only fmtr-1.5.9/fmtr/README.md | 2 fmtr-1.5.9/fmtr/inst/doc/fmtr-convenience.Rmd | 2 fmtr-1.5.9/fmtr/inst/doc/fmtr-convenience.html | 11 - fmtr-1.5.9/fmtr/inst/doc/fmtr-fapply.R | 12 ++ fmtr-1.5.9/fmtr/inst/doc/fmtr-fapply.Rmd | 16 ++ fmtr-1.5.9/fmtr/inst/doc/fmtr-fapply.html | 130 ++++++++++++---------- fmtr-1.5.9/fmtr/inst/doc/fmtr-fcat.html | 4 fmtr-1.5.9/fmtr/inst/doc/fmtr-fdata.html | 4 fmtr-1.5.9/fmtr/inst/doc/fmtr-helpers.html | 4 fmtr-1.5.9/fmtr/man/condition.Rd | 4 fmtr-1.5.9/fmtr/man/fapply2.Rd | 6 - fmtr-1.5.9/fmtr/man/fcat.Rd | 5 fmtr-1.5.9/fmtr/man/fmt_quantile_range.Rd | 14 ++ fmtr-1.5.9/fmtr/man/images/archive/fmtr2.png |binary fmtr-1.5.9/fmtr/man/images/archive/fmtr2_back.png |only fmtr-1.5.9/fmtr/man/images/fmtr_new.png |only fmtr-1.5.9/fmtr/man/value.Rd | 21 +++ fmtr-1.5.9/fmtr/tests/testthat/data |only fmtr-1.5.9/fmtr/tests/testthat/test-fapply.R | 52 +++++++- fmtr-1.5.9/fmtr/tests/testthat/test-fcat.R | 95 +++++++++++++--- fmtr-1.5.9/fmtr/tests/testthat/test-fmt.R | 73 +++++++++--- fmtr-1.5.9/fmtr/tests/testthat/test-utilities.R |only fmtr-1.5.9/fmtr/vignettes/fmtr-convenience.Rmd | 2 fmtr-1.5.9/fmtr/vignettes/fmtr-fapply.Rmd | 16 ++ 34 files changed, 606 insertions(+), 162 deletions(-)