Title: Tutorials for Learning 'Positron' and Related Tools
Description: Collection of tutorials for working with 'Positron'. Covers scripts,
'Quarto' documents, 'Git', 'GitHub', and 'Quarto' websites. Makes extensive use of
the tools in the 'tutorial.helpers' package.
Author: David Kane [aut, cre, cph]
Maintainer: David Kane <dave.kane@gmail.com>
Diff between positron.tutorials versions 0.1.2 dated 2025-03-24 and 0.2.0 dated 2025-06-08
positron.tutorials-0.1.2/positron.tutorials/R |only positron.tutorials-0.1.2/positron.tutorials/inst/tutorials/01-code/images/r-version.png |only positron.tutorials-0.1.2/positron.tutorials/inst/tutorials/01-code/images/set-project.png |only positron.tutorials-0.1.2/positron.tutorials/inst/tutorials/01-code/tutorial.html |only positron.tutorials-0.1.2/positron.tutorials/inst/tutorials/01-code/tutorial_files |only positron.tutorials-0.1.2/positron.tutorials/inst/tutorials/06-websites-1/tutorial.html |only positron.tutorials-0.1.2/positron.tutorials/man |only positron.tutorials-0.1.2/positron.tutorials/tests/testthat/fixtures |only positron.tutorials-0.1.2/positron.tutorials/tests/testthat/setup.R |only positron.tutorials-0.1.2/positron.tutorials/tests/testthat/teardown.R |only positron.tutorials-0.1.2/positron.tutorials/tests/testthat/test-process_submissions.R |only positron.tutorials-0.2.0/positron.tutorials/DESCRIPTION | 16 positron.tutorials-0.2.0/positron.tutorials/MD5 | 62 positron.tutorials-0.2.0/positron.tutorials/NAMESPACE | 12 positron.tutorials-0.2.0/positron.tutorials/NEWS.md | 8 positron.tutorials-0.2.0/positron.tutorials/README.md | 6 positron.tutorials-0.2.0/positron.tutorials/inst/tutorials/01-code/images/restart-console.png |only positron.tutorials-0.2.0/positron.tutorials/inst/tutorials/01-code/images/set-project-1.png |only positron.tutorials-0.2.0/positron.tutorials/inst/tutorials/01-code/images/set-project-4.png |binary positron.tutorials-0.2.0/positron.tutorials/inst/tutorials/01-code/images/set-project-5.png |only positron.tutorials-0.2.0/positron.tutorials/inst/tutorials/01-code/images/start-up-2.png |only positron.tutorials-0.2.0/positron.tutorials/inst/tutorials/01-code/images/start-up.png |only positron.tutorials-0.2.0/positron.tutorials/inst/tutorials/01-code/tutorial.Rmd | 798 +++++++--- positron.tutorials-0.2.0/positron.tutorials/inst/tutorials/02-quarto/images/example-chunk.txt |only positron.tutorials-0.2.0/positron.tutorials/inst/tutorials/02-quarto/images/example-quarto.txt |only positron.tutorials-0.2.0/positron.tutorials/inst/tutorials/02-quarto/tutorial.Rmd | 329 ++-- positron.tutorials-0.2.0/positron.tutorials/inst/tutorials/03-terminal/images/tut-terminal-1.png |only positron.tutorials-0.2.0/positron.tutorials/inst/tutorials/03-terminal/images/tut-terminal-2.png |only positron.tutorials-0.2.0/positron.tutorials/inst/tutorials/03-terminal/tutorial.Rmd | 355 +++- positron.tutorials-0.2.0/positron.tutorials/inst/tutorials/04-github-1/images/new-from-git.png |binary positron.tutorials-0.2.0/positron.tutorials/inst/tutorials/04-github-1/tutorial.Rmd | 238 +- positron.tutorials-0.2.0/positron.tutorials/inst/tutorials/05-github-2/images/quarto-1-1.txt |only positron.tutorials-0.2.0/positron.tutorials/inst/tutorials/05-github-2/images/quarto-1-2.txt |only positron.tutorials-0.2.0/positron.tutorials/inst/tutorials/05-github-2/images/quarto-2-1.txt |only positron.tutorials-0.2.0/positron.tutorials/inst/tutorials/05-github-2/images/quarto-2-2.txt |only positron.tutorials-0.2.0/positron.tutorials/inst/tutorials/05-github-2/tutorial.Rmd | 274 +-- positron.tutorials-0.2.0/positron.tutorials/inst/tutorials/06-websites-1/tutorial.Rmd | 93 - positron.tutorials-0.2.0/positron.tutorials/inst/tutorials/07-websites-2/tutorial.Rmd | 158 - 38 files changed, 1433 insertions(+), 916 deletions(-)
More information about positron.tutorials at CRAN
Permanent link
Title: Sparse Online Principal Component for Truncated Factor Model
Description: The Truncated Factor Model is a statistical model designed to handle specific data structures in data analysis. This R package focuses on the Sparse Online Principal Component Estimation method, which is used to calculate data such as the loading matrix and specific variance matrix for truncated data, thereby better explaining the relationship between common factors and original variables. Additionally, the R package also provides other equations for comparison with the Sparse Online Principal Component Estimation method.The philosophy of the package is described in thesis. (2023) <doi:10.1007/s00180-022-01270-z>.
Author: Beibei Wu [aut],
Guangbao Guo [aut, cre]
Maintainer: Guangbao Guo <ggb11111111@163.com>
Diff between TFM versions 0.4.0 dated 2025-05-16 and 0.5.2 dated 2025-06-08
TFM-0.4.0/TFM/data/datalist |only TFM-0.5.2/TFM/DESCRIPTION | 10 + TFM-0.5.2/TFM/MD5 | 91 ++++++++++------- TFM-0.5.2/TFM/NAMESPACE | 2 TFM-0.5.2/TFM/R/FanPC_TFM.R | 12 -- TFM-0.5.2/TFM/R/GOOG_dataset.R |only TFM-0.5.2/TFM/R/GulPC_TFM.R | 12 -- TFM-0.5.2/TFM/R/IPC_TFM.R | 25 ---- TFM-0.5.2/TFM/R/OPC_TFM.R | 12 -- TFM-0.5.2/TFM/R/PC1_TFM.R | 16 --- TFM-0.5.2/TFM/R/PC2_TFM.R | 12 -- TFM-0.5.2/TFM/R/PPC1_TFM.R | 24 ---- TFM-0.5.2/TFM/R/PPC2_TFM.R | 11 -- TFM-0.5.2/TFM/R/Protein_Dataset.R |only TFM-0.5.2/TFM/R/SAPC.R | 23 ---- TFM-0.5.2/TFM/R/SOPC_TFM.R | 23 ---- TFM-0.5.2/TFM/R/SPC_TFM.R | 24 ---- TFM-0.5.2/TFM/R/TFM.R | 100 +++++++++--------- TFM-0.5.2/TFM/R/admission_predict_dataset.R |only TFM-0.5.2/TFM/R/concrete_dataset.R |only TFM-0.5.2/TFM/R/real_estate_valuation_dataset.R |only TFM-0.5.2/TFM/R/taxi_trip_pricing_dataset.R |only TFM-0.5.2/TFM/R/winequality.white.R |only TFM-0.5.2/TFM/R/yacht_hydrodynamics_dataset.R |only TFM-0.5.2/TFM/data/GOOG.rda |only TFM-0.5.2/TFM/data/admission_predict.rda |only TFM-0.5.2/TFM/data/concrete.rda |binary TFM-0.5.2/TFM/data/protein.rda |binary TFM-0.5.2/TFM/data/real_estate_valuation.rda |only TFM-0.5.2/TFM/data/review.rda |binary TFM-0.5.2/TFM/data/taxi_trip_pricing.rda |only TFM-0.5.2/TFM/data/winequality.rda |only TFM-0.5.2/TFM/data/yacht_hydrodynamics.rda |binary TFM-0.5.2/TFM/man/FanPC_TFM.Rd | 12 -- TFM-0.5.2/TFM/man/GOOG.Rd |only TFM-0.5.2/TFM/man/GulPC_TFM.Rd | 12 -- TFM-0.5.2/TFM/man/IPC_TFM.Rd | 118 ++++++++-------------- TFM-0.5.2/TFM/man/OPC_TFM.Rd | 12 -- TFM-0.5.2/TFM/man/PC1_TFM.Rd | 12 -- TFM-0.5.2/TFM/man/PC2_TFM.Rd | 12 -- TFM-0.5.2/TFM/man/PPC1_TFM.Rd | 115 ++++++++------------- TFM-0.5.2/TFM/man/PPC2_TFM.Rd | 88 +++++++--------- TFM-0.5.2/TFM/man/SAPC_TFM.Rd | 125 ++++++++--------------- TFM-0.5.2/TFM/man/SOPC_TFM.Rd | 128 +++++++++--------------- TFM-0.5.2/TFM/man/SPC_TFM.Rd | 126 ++++++++--------------- TFM-0.5.2/TFM/man/admission_predict.Rd |only TFM-0.5.2/TFM/man/concrete.Rd | 72 ++++++------- TFM-0.5.2/TFM/man/protein.Rd | 54 ++++------ TFM-0.5.2/TFM/man/real_estate_valuation.Rd |only TFM-0.5.2/TFM/man/review.Rd | 46 ++++---- TFM-0.5.2/TFM/man/riboflavin.Rd | 12 -- TFM-0.5.2/TFM/man/riboflavinv100.Rd | 10 - TFM-0.5.2/TFM/man/taxi_trip_pricing.Rd |only TFM-0.5.2/TFM/man/ttest.TFM.Rd | 98 +++++++----------- TFM-0.5.2/TFM/man/winequality.white.Rd |only TFM-0.5.2/TFM/man/yacht_hydrodynamics.Rd | 63 +++++++---- 56 files changed, 560 insertions(+), 952 deletions(-)
Title: The Maraca Plot: Visualizing Hierarchical Composite Endpoints
Description: Supports visual interpretation of hierarchical composite
endpoints (HCEs). HCEs are complex constructs used as primary endpoints in
clinical trials, combining outcomes of different types into ordinal endpoints,
in which each patient contributes the most clinically important event (one and
only one) to the analysis. See Karpefors M et al. (2022)
<doi:10.1177/17407745221134949>.
Author: Martin Karpefors [aut] ,
Samvel B. Gasparyan [aut] ,
Stefano Borini [ctb],
Monika Huhn [aut, cre]
Maintainer: Monika Huhn <monika.huhn@astrazeneca.com>
Diff between maraca versions 0.7.1 dated 2025-01-13 and 1.0.0 dated 2025-06-08
maraca-0.7.1/maraca/man/component_plot.hce.Rd |only maraca-0.7.1/maraca/man/component_plot.maraca.Rd |only maraca-0.7.1/maraca/man/cumulative_plot.hce.Rd |only maraca-0.7.1/maraca/man/cumulative_plot.maraca.Rd |only maraca-1.0.0/maraca/DESCRIPTION | 15 maraca-1.0.0/maraca/MD5 | 43 +- maraca-1.0.0/maraca/NAMESPACE | 6 maraca-1.0.0/maraca/NEWS.md | 17 maraca-1.0.0/maraca/R/maraca.R | 36 - maraca-1.0.0/maraca/R/mosaicPlot.R |only maraca-1.0.0/maraca/R/themes.R | 64 +++ maraca-1.0.0/maraca/R/winOddsPlots.R | 293 ++++++-------- maraca-1.0.0/maraca/build/partial.rdb |only maraca-1.0.0/maraca/build/vignette.rds |binary maraca-1.0.0/maraca/inst/doc/faq.html | 459 ++++++---------------- maraca-1.0.0/maraca/inst/doc/maraca.html | 325 +++------------ maraca-1.0.0/maraca/inst/doc/mosaic.R |only maraca-1.0.0/maraca/inst/doc/mosaic.Rmd |only maraca-1.0.0/maraca/inst/doc/mosaic.html |only maraca-1.0.0/maraca/inst/doc/otherEndpoints.html | 409 +++++-------------- maraca-1.0.0/maraca/inst/doc/themes.html | 345 ++++------------ maraca-1.0.0/maraca/inst/doc/validation.html | 447 ++++++--------------- maraca-1.0.0/maraca/inst/doc/winOdds.html | 333 +++------------ maraca-1.0.0/maraca/man/component_plot.Rd | 104 ++++ maraca-1.0.0/maraca/man/cumulative_plot.Rd | 128 +++++- maraca-1.0.0/maraca/man/maraca.Rd | 25 + maraca-1.0.0/maraca/man/mosaic_plot.Rd |only maraca-1.0.0/maraca/vignettes/mosaic.Rmd |only 28 files changed, 1146 insertions(+), 1903 deletions(-)
Title: Flexible Bayes Factor Testing of Scientific Expectations
Description: Implementation of default Bayes factors
for testing statistical hypotheses under various statistical models. The package is
intended for applied quantitative researchers in the
social and behavioral sciences, medical research,
and related fields. The Bayes factor tests can be
executed for statistical models such as
univariate and multivariate normal linear models,
correlation analysis, generalized linear models, special cases of
linear mixed models, survival models, relational
event models. Parameters that can be tested are
location parameters (e.g., group means, regression coefficients),
variances (e.g., group variances), and measures of
association (e.g,. polychoric/polyserial/biserial/tetrachoric/product
moments correlations), among others.
The statistical underpinnings are
described in
O'Hagan (1995) <DOI:10.1111/j.2517-6161.1995.tb02017.x>,
De Santis and Spezzaferri (2001) <DOI:10.1016/S0378-3758(00)00240-8>,
Mulder and Xin (2022) <DOI:10.1080/00273171.2021.1904809& [...truncated...]
Author: Joris Mulder [aut, cre],
Caspar van Lissa [aut, ctb],
Donald R. Williams [aut, ctb],
Xin Gu [aut, ctb],
Anton Olsson-Collentine [aut, ctb],
Florian Boeing-Messing [aut, ctb],
Jean-Paul Fox [aut, ctb],
Janosch Menke [ctb],
Robbie van Aert [ctb],
Barry [...truncated...]
Maintainer: Joris Mulder <j.mulder3@tilburguniversity.edu>
Diff between BFpack versions 1.4.2 dated 2025-02-09 and 1.5.0 dated 2025-06-08
DESCRIPTION | 8 MD5 | 32 - NAMESPACE | 5 NEWS.md | 5 R/BF.cortest.R | 381 ++++++++++++++++- R/BF.gaussian.R | 40 + R/BF.lm.R | 50 +- R/BF.meta.R | 400 ++++++++++++++---- R/BF.ttest.R | 3 R/BF.var.R | 2 inst/doc/vignette_BFpack.html | 4 man/cor_test.Rd | 13 src/bct_mixedordinal.f90 | 37 + tests/testthat/test_BFcortest.R | 35 + tests/testthat/test_BFmeta.R | 8 tests/testthat/test_application5_BF.glm_BF_Gaussian.R | 3 tests/testthat/test_ttest.R | 2 17 files changed, 855 insertions(+), 173 deletions(-)
Title: Microeconometrics with R
Description: Functions, data sets and examples for the book: Yves Croissant (2025) "Microeconometrics with R", Chapman and Hall/CRC The R Series <doi:10.1201/9781003100263>. The package includes a set of estimators for models used in microeconometrics, especially for count data and limited dependent variables. Test functions include score test, Hausman test, Vuong test, Sargan test and conditional moment test. A small subset of the data set used in the book is also included.
Author: Yves Croissant [aut, cre]
Maintainer: Yves Croissant <yves.croissant@univ-reunion.fr>
Diff between micsr versions 0.1-1 dated 2024-02-17 and 0.1-2 dated 2025-06-08
micsr |only 1 file changed
Title: Karl Broman's R Code
Description: Miscellaneous R functions, including functions related to
graphics (mostly for base graphics), permutation tests, running
mean/median, and general utilities.
Author: Karl W Broman [aut, cre] ,
Aimee Teo Broman [ctb]
Maintainer: Karl W Broman <broman@wisc.edu>
Diff between broman versions 0.84 dated 2024-05-18 and 0.86 dated 2025-06-08
DESCRIPTION | 15 ++++++++------- MD5 | 22 ++++++++++++++-------- NAMESPACE | 1 + NEWS.md | 7 +++++++ R/runningmean.R | 8 ++++---- R/runningratio2.R |only data/numbers-cap.RData |binary data/numbers.RData |binary man/runningmean.Rd | 2 +- man/runningratio.Rd | 2 +- man/runningratio2.Rd |only src/runningratio2.c |only src/runningratio2.h |only tests/testthat/test-runningratio.R |only tests/testthat/test-runningratio2.R |only 15 files changed, 36 insertions(+), 21 deletions(-)
Title: Summary Tables and Plots for Statistical Models and Data:
Beautiful, Customizable, and Publication-Ready
Description: Create beautiful and customizable tables to summarize several
statistical models side-by-side. Draw coefficient plots, multi-level
cross-tabs, dataset summaries, balance tables (a.k.a. "Table 1s"), and
correlation matrices. This package supports dozens of statistical models, and
it can produce tables in HTML, LaTeX, Word, Markdown, PDF, PowerPoint, Excel,
RTF, JPG, or PNG. Tables can easily be embedded in 'Rmarkdown' or 'knitr'
dynamic documents. Details can be found in Arel-Bundock (2022)
<doi:10.18637/jss.v103.i01>.
Author: Vincent Arel-Bundock [aut, cre] ,
Joachim Gassen [ctb] ,
Nathan Eastwood [ctb],
Nick Huntington-Klein [ctb] ,
Moritz Schwarz [ctb] ,
Benjamin Elbers [ctb] ,
Grant McDermott [ctb] ,
Lukas Wallrich [ctb]
Maintainer: Vincent Arel-Bundock <vincent.arel-bundock@umontreal.ca>
Diff between modelsummary versions 2.3.0 dated 2025-02-02 and 2.4.0 dated 2025-06-08
DESCRIPTION | 31 MD5 | 314 ++-- NEWS.md | 33 R/bind_est_gof.R | 3 R/coef_rename.R | 18 R/config_modelsummary.R | 169 +- R/convenience.R | 3 R/datasummary.R | 70 - R/datasummary_balance.R | 131 + R/datasummary_correlation.R | 101 - R/datasummary_crosstab.R | 80 - R/datasummary_df.R | 30 R/datasummary_extract.R | 58 R/datasummary_functions.R | 17 R/datasummary_skim.R | 302 +++- R/dvnames.R | 74 - R/escape.R | 63 R/factory.R | 63 R/factory_DT.R | 7 R/factory_dataframe.R | 29 R/factory_flextable.R | 35 R/factory_gt.R | 55 R/factory_huxtable.R | 27 R/factory_kableExtra.R | 155 +- R/factory_markdown.R | 200 +-- R/factory_tinytable.R | 62 R/factory_typst.R | 146 +- R/fmt_factory.R | 660 +++++----- R/format_estimates.R | 109 + R/format_gof.R | 4 R/format_msg.R | 8 R/get_estimates.R | 602 +++++---- R/get_gof.R | 319 ++-- R/get_vcov.R | 49 R/gof_map.R | 3 R/hush.R | 17 R/map_estimates.R | 188 +- R/map_gof.R | 3 R/methods_estimatr.R | 18 R/methods_fixest.R | 71 - R/methods_lfe.R | 18 R/methods_stats.R | 44 R/modelplot.R | 117 + R/modelsummary.R | 346 +++-- R/modelsummary_cbind.R | 75 - R/modelsummary_rbind.R | 506 +++---- R/poorman.R | 164 ++ R/rename_statistics.R | 67 - R/sanitize_conf_level.R | 43 R/sanitize_fmt.R | 39 R/sanitize_gof_map.R | 23 R/sanitize_models.R | 62 R/sanitize_output.R | 88 - R/sanitize_shape.R | 129 - R/sanitize_statistic.R | 34 R/sanitize_vcov.R | 102 - R/sanity_checks.R | 213 ++- R/settings.R | 131 + R/shape_estimates.R | 24 R/span.R | 114 - R/stars.R | 11 R/supported_models.R | 2 R/themes.R | 68 - R/update_modelsummary.R | 30 R/utils_labels.R | 119 - R/utils_pad.R | 36 R/utils_print.R | 4 R/utils_replace.R | 23 R/utils_stats.R | 5 R/utils_warn.R | 16 README.md | 53 inst/tinytest/_tinysnapshot/escape-escape.html | 169 +- inst/tinytest/_tinysnapshot/escape-escape_html_false.html | 169 +- inst/tinytest/_tinysnapshot/escape-modelsummary.html | 169 +- inst/tinytest/_tinysnapshot/html-gof_omit.html | 87 - inst/tinytest/_tinysnapshot/mathmode-html_anything.html | 161 +- inst/tinytest/_tinysnapshot/mathmode-html_dollars.html | 161 +- inst/tinytest/_tinysnapshot/mathmode-latex_ldd.txt | 1 inst/tinytest/_tinysnapshot/mathmode-null.html | 161 +- inst/tinytest/_tinysnapshot/modelplot-coef_map_color_shape_background.svg |only inst/tinytest/_tinysnapshot/modelplot-coef_omit.svg |only inst/tinytest/_tinysnapshot/modelplot-issue861.svg |only inst/tinytest/_tinysnapshot/modelplot-multiple_plots_vanilla.svg |only inst/tinytest/_tinysnapshot/modelplot-vanilla.svg |only inst/tinytest/_tinysnapshot/modeplot-model_order.svg |only inst/tinytest/_tinysnapshot/modeplot-multiple_plots_facet.svg |only inst/tinytest/_tinysnapshot/output-title_not_indented.txt |only inst/tinytest/_tinysnapshot/shape-multinom_wide.txt | 12 inst/tinytest/helpers.R | 30 inst/tinytest/test-aaa.R | 2 inst/tinytest/test-add_columns.R | 22 inst/tinytest/test-add_rows.R | 41 inst/tinytest/test-align.R | 5 inst/tinytest/test-bad-input.R | 20 inst/tinytest/test-coef_map.R | 42 inst/tinytest/test-coef_omit.R | 24 inst/tinytest/test-coef_rename.R | 18 inst/tinytest/test-conf_level.R | 30 inst/tinytest/test-corner-cases.R | 10 inst/tinytest/test-custom.R | 33 inst/tinytest/test-datasummary.R | 120 + inst/tinytest/test-datasummary_balance.R | 268 ++-- inst/tinytest/test-datasummary_correlation.R | 27 inst/tinytest/test-datasummary_crosstab.R | 105 + inst/tinytest/test-datasummary_df.R | 17 inst/tinytest/test-datasummary_skim.R | 83 - inst/tinytest/test-dvnames.R | 2 inst/tinytest/test-ellipses.R | 11 inst/tinytest/test-escape.R | 211 ++- inst/tinytest/test-estimate.R | 25 inst/tinytest/test-exponentiate.R | 147 +- inst/tinytest/test-extract_estimates.R | 8 inst/tinytest/test-flextable.R | 10 inst/tinytest/test-fmt.R | 139 +- inst/tinytest/test-fstat.R | 2 inst/tinytest/test-get_vcov_type.R | 17 inst/tinytest/test-glue.R | 54 inst/tinytest/test-gof.R | 13 inst/tinytest/test-gof_map.R | 50 inst/tinytest/test-gt.R | 32 inst/tinytest/test-html.R | 6 inst/tinytest/test-huxtable.R | 31 inst/tinytest/test-interaction.R | 14 inst/tinytest/test-kableExtra.R | 23 inst/tinytest/test-labels.R | 41 inst/tinytest/test-latex.R | 19 inst/tinytest/test-mathmode.R | 41 inst/tinytest/test-modelplot.R | 77 - inst/tinytest/test-modelsummary_list.R | 11 inst/tinytest/test-output.R | 56 inst/tinytest/test-pkg-MASS.R | 14 inst/tinytest/test-pkg-brms.R | 16 inst/tinytest/test-pkg-fixest.R | 81 - inst/tinytest/test-pkg-lavaan.R | 6 inst/tinytest/test-pkg-lme4.R | 181 +- inst/tinytest/test-pkg-marginaleffects.R | 44 inst/tinytest/test-pkg-mgcv.R | 22 inst/tinytest/test-pkg-stats.R | 28 inst/tinytest/test-pkg-survival.R | 18 inst/tinytest/test-rbind.R | 248 ++- inst/tinytest/test-rmarkdown.R | 12 inst/tinytest/test-rounding.R | 49 inst/tinytest/test-shape.R | 292 +++- inst/tinytest/test-stars.R | 81 - inst/tinytest/test-statistic.R | 43 inst/tinytest/test-supported.R | 120 + inst/tinytest/test-tidy_custom.R | 21 inst/tinytest/test-unsupported.R | 2 inst/tinytest/test-vcov.R | 269 +++- inst/tinytest/test-zzz-modelsummary_get.R | 29 inst/tinytest/test-zzz.R | 16 inst/tinytest/tozggxbzatfkrjnbcbljoxpomwwnuy.log |only man/datasummary.Rd | 14 man/datasummary_balance.Rd | 14 man/datasummary_correlation.Rd | 14 man/datasummary_crosstab.Rd | 14 man/datasummary_df.Rd | 10 man/datasummary_skim.Rd | 4 man/dsummary.Rd | 14 man/modelplot.Rd | 15 man/modelsummary.Rd | 22 man/msummary.Rd | 22 tests/tinytest |only 163 files changed, 7237 insertions(+), 4558 deletions(-)
Title: Unicode Text Processing
Description: Process and print 'UTF-8' encoded international
text (Unicode). Input, validate, normalize, encode, format, and
display.
Author: Patrick O. Perry [aut, cph],
Kirill Mueller [cre] ,
Unicode, Inc. [cph, dtc]
Maintainer: Kirill Mueller <kirill@cynkra.com>
Diff between utf8 versions 1.2.5 dated 2025-05-01 and 1.2.6 dated 2025-06-08
DESCRIPTION | 15 - MD5 | 34 +-- NEWS.md | 15 + R/coerce.R | 9 R/output.R | 3 R/utf8.R | 10 R/utf8_encode.R | 2 R/utf8_format.R | 16 + R/utf8_print.R | 367 +++++++++++++++++++++++---------- R/util.R | 4 README.md | 6 man/utf8-package.Rd | 8 tests/testthat/helper-capture_output.R | 8 tests/testthat/helper-options.R | 1 tests/testthat/test-utf8_format.R | 113 +++++++--- tests/testthat/test-utf8_print.R | 87 +++++-- tests/testthat/test-utf8_valid.R | 18 + tests/testthat/test-utf8_width.R | 10 18 files changed, 499 insertions(+), 227 deletions(-)
Title: R Interface to DSDP Semidefinite Programming Library
Description: R interface to DSDP semidefinite programming library. The DSDP software is a free open source implementation of an interior-point method for semidefinite programming. It provides primal and dual solutions, exploits low-rank structure and sparsity in the data, and has relatively low memory requirements for an interior-point method.
Author: Zhisu Zhu [aut, cre],
Yinyu Ye [aut]
Maintainer: Zhisu Zhu <zhuzhisu@alumni.stanford.edu>
Diff between Rdsdp versions 1.0.5.2.1 dated 2023-05-19 and 1.0.6 dated 2025-06-08
DESCRIPTION | 17 MD5 | 91 ++-- configure | 644 +++++++++++++++++++---------------- configure.ac | 18 src/Makevars.in | 6 src/Makevars.win | 6 src/dsdp/include/dsdp_io.h |only src/dsdp/include/dsdpmem.h | 4 src/dsdp/include/dsdpsys.h | 5 src/dsdp/src/bounds/allbounds.c | 6 src/dsdp/src/bounds/dbounds.c | 6 src/dsdp/src/lp/dsdplp.c | 24 - src/dsdp/src/sdp/dsdpadddata.c | 24 - src/dsdp/src/sdp/dsdpblock.c | 18 src/dsdp/src/sdp/dsdpdatamat.c | 2 src/dsdp/src/sdp/dsdpdsmat.c | 2 src/dsdp/src/sdp/dsdpstep.c | 8 src/dsdp/src/sdp/dsdpxmat.c | 10 src/dsdp/src/sdp/sdpconevec.c | 10 src/dsdp/src/sdp/sdpsss.c | 6 src/dsdp/src/solver/dsdpobjcone.c | 2 src/dsdp/src/solver/dsdpprintout.c | 12 src/dsdp/src/solver/dsdpsetoptions.c | 50 +- src/dsdp/src/solver/dsdpsetup.c | 2 src/dsdp/src/solver/dualalg.c | 6 src/dsdp/src/sys/dsdperror.c | 22 - src/dsdp/src/sys/dsdploginfo.c | 24 + src/dsdp/src/vecmat/cholmat.c | 6 src/dsdp/src/vecmat/diag.c | 2 src/dsdp/src/vecmat/dlpack.c | 8 src/dsdp/src/vecmat/drowcol.c | 6 src/dsdp/src/vecmat/dufull.c | 30 - src/dsdp/src/vecmat/identity.c | 2 src/dsdp/src/vecmat/numchol.h | 1 src/dsdp/src/vecmat/onemat.c | 2 src/dsdp/src/vecmat/rmmat.c | 6 src/dsdp/src/vecmat/sdpalloc.c | 2 src/dsdp/src/vecmat/sdpexit.c | 12 src/dsdp/src/vecmat/sdpmatx.c | 8 src/dsdp/src/vecmat/sdpnfac.c | 32 - src/dsdp/src/vecmat/sdporder.c | 8 src/dsdp/src/vecmat/sdpsymb.c | 2 src/dsdp/src/vecmat/sdpvec.c | 4 src/dsdp/src/vecmat/spds.c | 8 src/dsdp/src/vecmat/vech.c | 6 src/dsdp/src/vecmat/vechu.c | 6 src/dsdp/src/vecmat/zeromat.c | 2 47 files changed, 633 insertions(+), 545 deletions(-)
Title: Climate Window Analysis
Description: Contains functions to detect and visualise periods of climate
sensitivity (climate windows) for a given biological response.
Please see van de Pol et al. (2016) <doi:10.1111/2041-210X.12590>
and Bailey and van de Pol (2016) <doi:10.1371/journal.pone.0167980> for details.
Author: Liam D. Bailey [aut, cre],
Martijn van de Pol [aut]
Maintainer: Liam D. Bailey <liam.bailey@liamdbailey.com>
Diff between climwin versions 1.2.3 dated 2020-05-26 and 1.2.31 dated 2025-06-08
DESCRIPTION | 24 MD5 | 176 - NAMESPACE | 84 NEWS.md | 507 +-- R/autowin.R | 1274 ++++---- R/crosswin.R | 857 ++--- R/datasets.R | 364 +- R/explore.R | 154 R/medwin.R | 70 R/merge_results.R | 162 - R/otherfunctions.R | 5859 ++++++++++++++++++------------------- R/plotall.R | 400 +- R/plotbest.R | 206 - R/plotbetas.R | 476 +-- R/plotcor.R | 264 - R/plotdelta.R | 196 - R/plothist.R | 138 R/plotweights.R | 366 +- R/plotwin.R | 124 R/pvalue.R | 166 - R/randwin.R | 730 ++-- R/singlewin.R | 1936 ++++++------ R/slidingwin.R | 706 ++-- R/weightwin.R | 563 +-- R/wgdev.R | 100 R/wgmean.R | 102 R/zzz.R | 16 README.md | 36 build/vignette.rds |binary inst/CITATION | 96 inst/doc/advanced_climwin.R | 308 - inst/doc/advanced_climwin.Rmd | 894 ++--- inst/doc/advanced_climwin.html | 2189 +++++++------ inst/doc/climwin.R | 308 - inst/doc/climwin.Rmd | 1062 +++--- inst/doc/climwin.html | 2260 ++++++++------ man/Chaff.Rd | 34 man/ChaffClim.Rd | 36 man/Mass.Rd | 34 man/MassClimate.Rd | 32 man/MassOutput.Rd | 64 man/MassRand.Rd | 68 man/Monthly_data.Rd | 32 man/Offspring.Rd | 40 man/OffspringClimate.Rd | 34 man/Size.Rd | 40 man/SizeClimate.Rd | 40 man/autowin.Rd | 380 +- man/crosswin.Rd | 280 - man/explore.Rd | 88 man/medwin.Rd | 60 man/merge_results.Rd | 162 - man/plotall.Rd | 198 - man/plotbest.Rd | 98 man/plotbetas.Rd | 80 man/plotcor.Rd | 174 - man/plotdelta.Rd | 80 man/plothist.Rd | 72 man/plotweights.Rd | 110 man/plotwin.Rd | 66 man/pvalue.Rd | 88 man/randwin.Rd | 480 +-- man/singlewin.Rd | 346 +- man/slidingwin.Rd | 480 +-- man/weightwin.Rd | 454 +- man/wgdev.Rd | 90 man/wgmean.Rd | 90 tests/testthat.R | 8 tests/testthat/testautowin.R | 184 - tests/testthat/testcrosswin.R | 154 tests/testthat/testdateconverter.R | 950 ++--- tests/testthat/testexplore.R | 34 tests/testthat/testmedwin.R | 48 tests/testthat/testplotall.R | 146 tests/testthat/testplotbest.R | 50 tests/testthat/testplotbetas.R | 72 tests/testthat/testplotcor.R | 34 tests/testthat/testplotdelta.R | 32 tests/testthat/testplothist.R | 40 tests/testthat/testplotweights.R | 32 tests/testthat/testplotwin.R | 32 tests/testthat/testpvalue.R | 112 tests/testthat/testrandwin.R | 370 +- tests/testthat/testsinglewin.R | 1312 ++++---- tests/testthat/testslidingwin.R | 3776 +++++++++++------------ tests/testthat/testweightfuncWG.R | 102 tests/testthat/testweightwin.R | 1446 ++++----- vignettes/advanced_climwin.Rmd | 894 ++--- vignettes/climwin.Rmd | 1062 +++--- 89 files changed, 19479 insertions(+), 18914 deletions(-)
Title: Tools for Bayesian Analyses
Description: Provides tools for conducting Bayesian analyses and Bayesian model averaging
(Kass and Raftery, 1995, <doi:10.1080/01621459.1995.10476572>,
Hoeting et al., 1999, <doi:10.1214/ss/1009212519>). The package contains
functions for creating a wide range of prior distribution objects, mixing posterior
samples from 'JAGS' and 'Stan' models, plotting posterior distributions, and etc...
The tools for working with prior distribution span from visualization, generating 'JAGS'
and 'bridgesampling' syntax to basic functions such as rng, quantile, and distribution functions.
Author: Frantisek Bartos [aut, cre]
Maintainer: Frantisek Bartos <f.bartos96@gmail.com>
Diff between BayesTools versions 0.2.18 dated 2025-01-14 and 0.2.19 dated 2025-06-08
DESCRIPTION | 11 +++--- MD5 | 32 ++++++++--------- NEWS.md | 12 ++++++ R/JAGS-diagnostics.R | 3 + R/JAGS-fit.R | 81 +++++++++++++++++++++++++++++++++++---------- R/JAGS-formula.R | 6 ++- R/JAGS-marglik.R | 9 +++-- R/marginal-distributions.R | 46 +++++++++++++++++++------ R/model-averaging-plots.R | 18 +++++++--- R/model-averaging.R | 12 +++--- R/summary-tables.R | 2 - R/tools.R | 33 +++++++++++++----- build/partial.rdb |binary inst/doc/ComparisonR.html | 4 +- inst/doc/SpikeAndSlab.html | 4 +- man/JAGS_check_and_list.Rd | 1 man/JAGS_fit.Rd | 12 +++++- 17 files changed, 206 insertions(+), 80 deletions(-)
Title: Indexed Data Frames
Description: Provides extended data frames, with a special data frame column which contains two indexes, with potentially a nesting structure.
Author: Yves Croissant [aut, cre]
Maintainer: Yves Croissant <yves.croissant@univ-reunion.fr>
Diff between dfidx versions 0.1-1 dated 2025-06-03 and 0.1-2 dated 2025-06-08
dfidx-0.1-1/dfidx/R/dplyr.R |only dfidx-0.1-1/dfidx/man/dplyr.Rd |only dfidx-0.1-1/dfidx/man/reexports.Rd |only dfidx-0.1-2/dfidx/DESCRIPTION | 12 +- dfidx-0.1-2/dfidx/MD5 | 37 +++----- dfidx-0.1-2/dfidx/NAMESPACE | 38 -------- dfidx-0.1-2/dfidx/NEWS.md | 5 + dfidx-0.1-2/dfidx/R/dfidx-package.R | 38 +++----- dfidx-0.1-2/dfidx/R/dfidx.R | 37 ++++---- dfidx-0.1-2/dfidx/R/methods.R | 135 ++++++++--------------------- dfidx-0.1-2/dfidx/R/miscellaneous.R | 20 +++- dfidx-0.1-2/dfidx/R/model.R | 14 +-- dfidx-0.1-2/dfidx/build/partial.rdb |binary dfidx-0.1-2/dfidx/data/munnell.rda |binary dfidx-0.1-2/dfidx/data/munnell_wide.rda |binary dfidx-0.1-2/dfidx/inst/doc/dfidx.R | 84 +++++++----------- dfidx-0.1-2/dfidx/inst/doc/dfidx.pdf |binary dfidx-0.1-2/dfidx/inst/doc/dfidx.qmd | 146 ++++++++------------------------ dfidx-0.1-2/dfidx/man/methods.dfidx.Rd | 13 -- dfidx-0.1-2/dfidx/man/munnell.Rd | 2 dfidx-0.1-2/dfidx/vignettes/dfidx.qmd | 146 ++++++++------------------------ 21 files changed, 234 insertions(+), 493 deletions(-)
Title: Simple Data Frames
Description: Provides a 'tbl_df' class (the 'tibble') with stricter checking and better formatting than the traditional
data frame.
Author: Kirill Mueller [aut, cre] ,
Hadley Wickham [aut],
Romain Francois [ctb],
Jennifer Bryan [ctb],
RStudio [cph, fnd]
Maintainer: Kirill Mueller <kirill@cynkra.com>
Diff between tibble versions 3.2.1 dated 2023-03-20 and 3.3.0 dated 2025-06-08
tibble-3.2.1/tibble/R/fansi.R |only tibble-3.2.1/tibble/tests/testthat/helper-api.R |only tibble-3.3.0/tibble/DESCRIPTION | 23 tibble-3.3.0/tibble/MD5 | 137 tibble-3.3.0/tibble/NAMESPACE | 1 tibble-3.3.0/tibble/NEWS.md | 37 tibble-3.3.0/tibble/R/add.R | 2 tibble-3.3.0/tibble/R/ansi.R |only tibble-3.3.0/tibble/R/as_tibble.R | 16 tibble-3.3.0/tibble/R/galley.R | 6 tibble-3.3.0/tibble/R/names.R | 6 tibble-3.3.0/tibble/R/new.R | 21 tibble-3.3.0/tibble/R/print.R | 2 tibble-3.3.0/tibble/R/tibble-package.R | 3 tibble-3.3.0/tibble/R/tibble.R | 8 tibble-3.3.0/tibble/R/view.R | 57 tibble-3.3.0/tibble/README.md | 166 tibble-3.3.0/tibble/build/vignette.rds |binary tibble-3.3.0/tibble/inst/doc/digits.html | 245 - tibble-3.3.0/tibble/inst/doc/extending.html | 59 tibble-3.3.0/tibble/inst/doc/formats.R | 6 tibble-3.3.0/tibble/inst/doc/formats.Rmd | 5 tibble-3.3.0/tibble/inst/doc/formats.html | 237 - tibble-3.3.0/tibble/inst/doc/invariants.R | 320 - tibble-3.3.0/tibble/inst/doc/invariants.html | 2068 ++++------ tibble-3.3.0/tibble/inst/doc/numbers.R | 4 tibble-3.3.0/tibble/inst/doc/numbers.Rmd | 2 tibble-3.3.0/tibble/inst/doc/numbers.html | 295 - tibble-3.3.0/tibble/inst/doc/tibble.R | 30 tibble-3.3.0/tibble/inst/doc/tibble.html | 280 - tibble-3.3.0/tibble/inst/doc/types.R | 41 tibble-3.3.0/tibble/inst/doc/types.Rmd | 10 tibble-3.3.0/tibble/inst/doc/types.html | 47 tibble-3.3.0/tibble/man/add_column.Rd | 5 tibble-3.3.0/tibble/man/as_tibble.Rd | 16 tibble-3.3.0/tibble/man/char.Rd | 2 tibble-3.3.0/tibble/man/deprecated.Rd | 2 tibble-3.3.0/tibble/man/formatting.Rd | 4 tibble-3.3.0/tibble/man/frame_matrix.Rd | 4 tibble-3.3.0/tibble/man/lst.Rd | 10 tibble-3.3.0/tibble/man/subsetting.Rd | 4 tibble-3.3.0/tibble/man/tibble.Rd | 22 tibble-3.3.0/tibble/man/tribble.Rd | 6 tibble-3.3.0/tibble/src/coerce.c | 2 tibble-3.3.0/tibble/src/matrixToDataFrame.c | 6 tibble-3.3.0/tibble/tests/testthat/_snaps/print.md | 35 tibble-3.3.0/tibble/tests/testthat/_snaps/subsetting.md | 14 tibble-3.3.0/tibble/tests/testthat/_snaps/tbl_df.md | 10 tibble-3.3.0/tibble/tests/testthat/_snaps/vignette-digits/digits.md | 21 tibble-3.3.0/tibble/tests/testthat/_snaps/vignette-extending/extending.md | 11 tibble-3.3.0/tibble/tests/testthat/_snaps/vignette-formats/formats.md | 19 tibble-3.3.0/tibble/tests/testthat/_snaps/vignette-invariants/invariants.md | 784 +-- tibble-3.3.0/tibble/tests/testthat/_snaps/vignette-numbers/numbers.md | 29 tibble-3.3.0/tibble/tests/testthat/_snaps/vignette-tibble/tibble.md | 39 tibble-3.3.0/tibble/tests/testthat/_snaps/vignette-types/types.md | 10 tibble-3.3.0/tibble/tests/testthat/setup.R | 13 tibble-3.3.0/tibble/tests/testthat/test-as_tibble.R | 41 tibble-3.3.0/tibble/tests/testthat/test-new.R | 17 tibble-3.3.0/tibble/tests/testthat/test-print.R | 2 tibble-3.3.0/tibble/tests/testthat/test-string-to-indices.R | 1 tibble-3.3.0/tibble/tests/testthat/test-subsetting.R | 18 tibble-3.3.0/tibble/tests/testthat/test-vignette-formats.R | 4 tibble-3.3.0/tibble/tests/testthat/test-vignette-numbers.R | 2 tibble-3.3.0/tibble/tests/testthat/test-vignette-types.R | 7 tibble-3.3.0/tibble/tests/testthat/vignettes |only tibble-3.3.0/tibble/vignettes/formats.Rmd | 5 tibble-3.3.0/tibble/vignettes/numbers.Rmd | 2 tibble-3.3.0/tibble/vignettes/types.Rmd | 10 68 files changed, 2798 insertions(+), 2513 deletions(-)
Title: Multivariate Meta-Analysis
Description: Multiple 2 by 2 tables often arise in meta-analysis which combines statistical evidence from multiple studies. Two risks within the same study are possibly correlated because they share some common factors such as environment and population structure. This package implements a set of novel Bayesian approaches for multivariate meta analysis when the risks within the same study are independent or correlated. The exact posterior inference of odds ratio, relative risk, and risk difference given either a single 2 by 2 table or multiple 2 by 2 tables is provided. Luo, Chen, Su, Chu, (2014) <doi:10.18637/jss.v056.i11>, Chen, Luo, (2011) <doi:10.1002/sim.4248>, Chen, Chu, Luo, Nie, Chen, (2015) <doi:10.1177/0962280211430889>, Chen, Luo, Chu, Su, Nie, (2014) <doi:10.1080/03610926.2012.700379>, Chen, Luo, Chu, Wei, (2013) <doi:10.1080/19466315.2013.791483>.
Author: Sheng Luo [aut],
Yong Chen [aut],
Xiao Su [aut],
Haitao Chu [aut],
Bingyu Zhang [cre],
Wally Gilks [ctb],
Giovanni Petris [ctb],
Luca Tardella [ctb]
Maintainer: Bingyu Zhang <bingyuz7@sas.upenn.edu>
Diff between mmeta versions 3.0.1 dated 2025-02-27 and 3.0.2 dated 2025-06-08
DESCRIPTION | 14 +++++++------- MD5 | 4 ++-- NEWS.md | 7 +++++++ 3 files changed, 16 insertions(+), 9 deletions(-)
Title: R Interface for Apache Sedona
Description: R interface for 'Apache Sedona' based on 'sparklyr'
(<https://sedona.apache.org>).
Author: Apache Sedona [aut, cre],
Jia Yu [ctb, cph],
Yitao Li [aut, cph] ,
The Apache Software Foundation [cph],
RStudio [cph]
Maintainer: Apache Sedona <private@sedona.apache.org>
Diff between apache.sedona versions 1.7.1 dated 2025-03-16 and 1.7.2 dated 2025-06-08
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- R/dependencies.R | 4 ++-- 3 files changed, 8 insertions(+), 8 deletions(-)
Title: Partitioning of Individual Autozygosity into Multiple
Homozygous-by-Descent Classes
Description: Functions to identify Homozygous-by-Descent (HBD) segments associated with runs of homozygosity (ROH) and to
estimate individual autozygosity (or inbreeding coefficient). HBD segments and autozygosity are assigned to multiple HBD classes
with a model-based approach relying on a mixture of exponential distributions. The rate of the exponential distribution is distinct
for each HBD class and defines the expected length of the HBD segments. These HBD classes are therefore related to the age of the
segments (longer segments and smaller rates for recent autozygosity / recent common ancestor). The functions allow to estimate the
parameters of the model (rates of the exponential distributions, mixing proportions), to estimate global and local autozygosity
probabilities and to identify HBD segments with the Viterbi decoding. The method is fully described in Druet and Gautier (2017)
<doi:10.1111/mec.14324> and Druet and Gautier (2022) <doi:10.1016/j.tpb.2022.03.001>.
Author: Tom Druet [aut, cre],
Naveen Kumar Kadri [aut],
Amandine Bertrand [ctb],
Mathieu Gautier [aut]
Maintainer: Tom Druet <tom.druet@uliege.be>
Diff between RZooRoH versions 0.4.0 dated 2025-06-06 and 0.4.1 dated 2025-06-08
DESCRIPTION | 6 +++--- MD5 | 30 +++++++++++++++--------------- inst/doc/zooroh-vignette.pdf |binary src/Freqem_AD.f90 | 12 ++++++------ src/Freqem_GP.f90 | 10 +++++----- src/Freqem_PL.f90 | 10 +++++----- src/RZooRoH_init.c | 2 +- src/zoolayerFB.f90 | 10 +++++----- src/zoolayerViterbi.f90 | 15 ++++++--------- src/zoolayerlik.f90 | 12 +++++------- src/zoosumlayerFB.f90 | 8 ++++---- src/zoosumlayerFB2.f90 | 8 ++++---- src/zoosumlayerViterbi.f90 | 11 +++++------ src/zoosumlayerViterbi2.f90 | 13 ++++++------- src/zoosumlayerlik.f90 | 8 ++++---- src/zoosumlayerlik2.f90 | 8 ++++---- 16 files changed, 78 insertions(+), 85 deletions(-)
Title: SQLite Interface for R
Description: Embeds the SQLite database engine in R and provides an
interface compliant with the DBI package. The source for the SQLite
engine and for various extensions in a recent version is included.
System libraries will never be consulted because this package relies
on static linking for the plugins it includes; this also ensures a
consistent experience across all installations.
Author: Kirill Mueller [aut, cre] ,
Hadley Wickham [aut],
David A. James [aut],
Seth Falcon [aut],
D. Richard Hipp [ctb] ,
Dan Kennedy [ctb] ,
Joe Mistachkin [ctb] ,
SQLite Authors [ctb] ,
Liam Healy [ctb] ,
R Consortium [fnd],
RStudio [cph]
Maintainer: Kirill Mueller <kirill@cynkra.com>
Diff between RSQLite versions 2.4.0 dated 2025-05-31 and 2.4.1 dated 2025-06-08
DESCRIPTION | 8 +-- MD5 | 8 +-- NEWS.md | 7 ++ src/vendor/sqlite3/sqlite3.c | 102 +++++++++++++++++++++++++++++-------------- src/vendor/sqlite3/sqlite3.h | 6 +- 5 files changed, 88 insertions(+), 43 deletions(-)
Title: Retinal Reconstruction Program
Description: Reconstructs retinae by morphing a flat surface with cuts
(a dissected flat-mount retina) onto a curvilinear surface (the
standard retinal shape). It can estimate the position of a point
on the intact adult retina to within 8 degrees of arc (3.6% of
nasotemporal axis). The coordinates in reconstructed retinae can
be transformed to visuotopic coordinates. For more details see
Sterratt, D. C., Lyngholm, D., Willshaw, D. J. and Thompson, I. D.
(2013) <doi:10.1371/journal.pcbi.1002921>.
Author: David C. Sterratt [aut, cre, cph],
Daniel Lyngholm [aut, cph],
Jan Okul [aut, cph]
Maintainer: David C. Sterratt <david.c.sterratt@ed.ac.uk>
Diff between retistruct versions 0.8.0 dated 2025-03-10 and 0.8.1 dated 2025-06-08
DESCRIPTION | 10 ++++----- MD5 | 20 +++++++++---------- NEWS | 33 +++++++++++++++++++++++++++++--- R/ReconstructedOutline.R | 10 +++------ R/app.R | 2 - R/server-handlers.R | 4 +-- R/server.R | 24 ++++++++++------------- R/ui.R | 34 +++++++++++++++++---------------- man/directories.Rd | 7 ------ man/ui.Rd | 7 ------ tests/testthat/test-stitched-outline.R | 4 +-- 11 files changed, 85 insertions(+), 70 deletions(-)
Title: Retrieve and Analyze Clinical Trials Data from Public Registers
Description: A system for querying, retrieving and analyzing
protocol- and results-related information on clinical trials from
four public registers, the 'European Union Clinical Trials Register'
('EUCTR', <https://www.clinicaltrialsregister.eu/>),
'ClinicalTrials.gov' (<https://clinicaltrials.gov/> and also
translating queries the retired classic interface), the
'ISRCTN' (<http://www.isrctn.com/>) and the
'European Union Clinical Trials Information System'
('CTIS', <https://euclinicaltrials.eu/>).
Trial information is downloaded, converted and stored in a database
('PostgreSQL', 'SQLite', 'DuckDB' or 'MongoDB'; via package 'nodbi').
Protocols, statistical analysis plans, informed consent sheets and other
documents in registers associated with trials can also be downloaded.
Other functions implement trial concepts canonically across registers,
identify deduplicated records, easily find and extract variables
(fields) of interest even from complex nested data as used by the
re [...truncated...]
Author: Ralf Herold [aut, cre] ,
Marek Kubica [cph] ,
Ivan Bozhanov [cph]
Maintainer: Ralf Herold <ralf.herold@mailbox.org>
Diff between ctrdata versions 1.22.2 dated 2025-05-17 and 1.22.3 dated 2025-06-08
DESCRIPTION | 6 - MD5 | 71 +++++++------- NEWS.md | 7 + R/ctrGetQueryUrl.R | 2 R/ctrLoadQueryIntoDbCtgov2.R | 25 ++--- R/ctrLoadQueryIntoDbCtis.R | 45 +++++---- R/ctrRerunQuery.R | 4 R/ctrShowOneTrial.R | 14 ++ R/ctrdata-registers.R | 22 ++-- R/ctrdata-trial-concepts.R | 8 - R/dbGetFieldsIntoDf.R | 13 +- R/dfMergeVariablesRelevel.R | 7 - R/f_likelyPlatformTrial.R | 93 ++++++++++++------- R/f_primaryEndpointDescription.R | 5 - R/f_statusRecruitment.R | 2 R/util_fields.R | 4 R/util_functions.R | 4 README.md | 48 +++++---- build/partial.rdb |only build/vignette.rds |binary inst/WORDLIST | 5 - inst/doc/ctrdata_retrieve.R | 38 +++---- inst/doc/ctrdata_retrieve.Rmd | 52 +++++----- inst/doc/ctrdata_retrieve.html | 84 ++++++++--------- inst/doc/ctrdata_summarise.R | 8 - inst/doc/ctrdata_summarise.Rmd | 10 +- inst/doc/ctrdata_summarise.html | 12 +- inst/tinytest/test_ctrdata_function_trial-concepts.R | 10 +- inst/tinytest/test_ctrdata_function_various.R | 16 ++- man/ctrShowOneTrial.Rd | 12 +- man/ctrdata-registers.Rd | 22 ++-- man/ctrdata-trial-concepts.Rd | 8 - man/dbGetFieldsIntoDf.Rd | 11 +- man/dfMergeVariablesRelevel.Rd | 1 man/f.likelyPlatformTrial.Rd | 28 +++-- vignettes/ctrdata_retrieve.Rmd | 52 +++++----- vignettes/ctrdata_summarise.Rmd | 10 +- 37 files changed, 419 insertions(+), 340 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-07-11 1.0.2
Title: Analyzing and Visualizing Differential Correlation Networks in
Biological Data
Description: A method for identifying pattern changes between 2
experimental conditions in correlation networks (e.g., gene
co-expression networks), which builds on a commonly used association
measure, such as Pearson's correlation coefficient. This package
includes functions to calculate correlation matrices for
high-dimensional dataset and to test differential correlation, which
means the changes in the correlation relationship among variables
(e.g., genes and metabolites) between 2 experimental conditions.
Author: Atsushi Fukushima [aut, cre],
Kozo Nishida [aut]
Maintainer: Atsushi Fukushima <afukushima@gmail.com>
Diff between DiffCorr versions 0.4.4 dated 2024-09-29 and 0.4.5 dated 2025-06-08
DESCRIPTION | 12 ++--- MD5 | 20 +++++---- NEWS.md | 36 +++++++++-------- R/data.R | 20 +++++++++ README.md | 100 +++++++++++++++++++++++++------------------------ build/vignette.rds |binary data/golub.df.RData |only inst/doc/DiffCorr.R | 41 +++++++++----------- inst/doc/DiffCorr.Rmd | 5 -- inst/doc/DiffCorr.html | 30 ++++++++------ man/golub.df.Rd |only vignettes/DiffCorr.Rmd | 5 -- 12 files changed, 150 insertions(+), 119 deletions(-)