diff --git a/.gitignore b/.gitignore index 96f8628..f01e823 100644 --- a/.gitignore +++ b/.gitignore @@ -15,3 +15,4 @@ app_stable app page demo +visuals diff --git a/CITATION.cff b/CITATION.cff index b3fc5ff..d271600 100644 --- a/CITATION.cff +++ b/CITATION.cff @@ -361,7 +361,7 @@ references: authors: - family-names: Lüdecke given-names: Daniel - email: d.luedecke@uke.de + email: officialeasystats@gmail.com orcid: https://orcid.org/0000-0002-8895-3206 - family-names: Makowski given-names: Dominique @@ -409,7 +409,7 @@ references: authors: - family-names: Lüdecke given-names: Daniel - email: d.luedecke@uke.de + email: officialeasystats@gmail.com orcid: https://orcid.org/0000-0002-8895-3206 - family-names: Makowski given-names: Dominique diff --git a/NEWS.md b/NEWS.md index 1edc3e3..04658d4 100644 --- a/NEWS.md +++ b/NEWS.md @@ -1,10 +1,14 @@ -# FreesearchR 25.7.2 - DEV +# FreesearchR 25.7.3 - DEV + +- *NEW* preparing to automatically only show relevant tabs to simplify interface. NOT IMPLEMENTED YET + +# FreesearchR 25.7.2 - *FIX* refining hiding drop downs. All JavaScript is now in separate file. Coded with GAI help from claude.ai. - *FIX* refined iconography and navigation -- *NEW* preparing to automatically only show relevant tabs to simplify interface. NOT IMPLEMENTED YET +- *FIX* updated intro and docs. # FreesearchR 25.7.1 diff --git a/R/hosted_version.R b/R/hosted_version.R index c2122db..4ae8ba6 100644 --- a/R/hosted_version.R +++ b/R/hosted_version.R @@ -1 +1 @@ -hosted_version <- function()'v25.7.2-250704' +hosted_version <- function()'v25.7.2-250722' diff --git a/R/sysdata.rda b/R/sysdata.rda index 252c2f4..aa14d24 100644 Binary files a/R/sysdata.rda and b/R/sysdata.rda differ diff --git a/SESSION.md b/SESSION.md index 1e58599..345551a 100644 --- a/SESSION.md +++ b/SESSION.md @@ -11,11 +11,11 @@ |collate |en_US.UTF-8 | |ctype |en_US.UTF-8 | |tz |Europe/Copenhagen | -|date |2025-07-03 | +|date |2025-07-22 | |rstudio |2025.05.0+496 Mariposa Orchid (desktop) | |pandoc |3.6.4 @ /opt/homebrew/bin/ (via rmarkdown) | |quarto |1.7.30 @ /usr/local/bin/quarto | -|FreesearchR |25.7.2.250703 | +|FreesearchR |25.7.2.250722 | -------------------------------------------------------------------------------- @@ -26,11 +26,9 @@ |apexcharter |0.4.4 |2024-09-06 |CRAN (R 4.4.1) | |askpass |1.2.1 |2024-10-04 |CRAN (R 4.4.1) | |assertthat |0.2.1 |2019-03-21 |CRAN (R 4.4.1) | -|attachment |0.4.5 |2025-03-14 |CRAN (R 4.4.1) | -|attempt |0.3.1 |2020-05-03 |CRAN (R 4.4.1) | |backports |1.5.0 |2024-05-23 |CRAN (R 4.4.1) | |base64enc |0.1-3 |2015-07-28 |CRAN (R 4.4.1) | -|bayestestR |0.15.3 |2025-04-28 |CRAN (R 4.4.1) | +|bayestestR |0.16.1 |2025-07-01 |CRAN (R 4.4.1) | |bit |4.6.0 |2025-03-06 |CRAN (R 4.4.1) | |bit64 |4.6.0-1 |2025-01-16 |CRAN (R 4.4.1) | |bitops |1.0-9 |2024-10-03 |CRAN (R 4.4.1) | @@ -41,11 +39,10 @@ |bsicons |0.1.2 |2023-11-04 |CRAN (R 4.4.0) | |bslib |0.9.0 |2025-01-30 |CRAN (R 4.4.1) | |cachem |1.1.0 |2024-05-16 |CRAN (R 4.4.1) | -|cards |0.6.0 |2025-04-11 |CRAN (R 4.4.1) | -|cardx |0.2.4 |2025-04-12 |CRAN (R 4.4.1) | +|cards |0.6.1 |2025-07-03 |CRAN (R 4.4.1) | +|cardx |0.2.5 |2025-07-03 |CRAN (R 4.4.1) | |caTools |1.18.3 |2024-09-04 |CRAN (R 4.4.1) | |cellranger |1.1.0 |2016-07-27 |CRAN (R 4.4.0) | -|cffr |1.2.0 |2025-01-25 |CRAN (R 4.4.1) | |checkmate |2.3.2 |2024-07-29 |CRAN (R 4.4.0) | |class |7.3-23 |2025-01-01 |CRAN (R 4.4.1) | |classInt |0.4-11 |2025-01-08 |CRAN (R 4.4.1) | @@ -53,35 +50,30 @@ |cluster |2.1.8.1 |2025-03-12 |CRAN (R 4.4.1) | |codetools |0.2-20 |2024-03-31 |CRAN (R 4.4.1) | |colorspace |2.1-1 |2024-07-26 |CRAN (R 4.4.1) | -|commonmark |1.9.5 |2025-03-17 |CRAN (R 4.4.1) | +|commonmark |2.0.0 |2025-07-07 |CRAN (R 4.4.1) | |crayon |1.5.3 |2024-06-20 |CRAN (R 4.4.1) | -|credentials |2.0.2 |2024-10-04 |CRAN (R 4.4.1) | -|crosstalk |1.2.1 |2023-11-23 |CRAN (R 4.4.0) | -|curl |6.2.2 |2025-03-24 |CRAN (R 4.4.1) | -|data.table |1.17.0 |2025-02-22 |CRAN (R 4.4.1) | +|data.table |1.17.8 |2025-07-10 |CRAN (R 4.4.1) | |datamods |1.5.3 |2024-10-02 |CRAN (R 4.4.1) | -|datawizard |1.0.2 |2025-03-24 |CRAN (R 4.4.1) | +|datawizard |1.2.0 |2025-07-17 |CRAN (R 4.4.1) | |DEoptimR |1.1-3-1 |2024-11-23 |CRAN (R 4.4.1) | |desc |1.4.3 |2023-12-10 |CRAN (R 4.4.1) | |devtools |2.4.5 |2022-10-11 |CRAN (R 4.4.0) | |DHARMa |0.4.7 |2024-10-18 |CRAN (R 4.4.1) | |digest |0.6.37 |2024-08-19 |CRAN (R 4.4.1) | -|dockerfiler |0.2.5 |2025-05-07 |CRAN (R 4.4.1) | |doParallel |1.0.17 |2022-02-07 |CRAN (R 4.4.0) | |dplyr |1.1.4 |2023-11-17 |CRAN (R 4.4.0) | |DT |0.33 |2024-04-04 |CRAN (R 4.4.0) | |e1071 |1.7-16 |2024-09-16 |CRAN (R 4.4.1) | -|easystats |0.7.4 |2025-02-06 |CRAN (R 4.4.1) | -|effectsize |1.0.0 |2024-12-10 |CRAN (R 4.4.1) | +|easystats |0.7.5 |2025-07-11 |CRAN (R 4.4.1) | |ellipsis |0.3.2 |2021-04-29 |CRAN (R 4.4.1) | -|emmeans |1.11.1 |2025-05-04 |CRAN (R 4.4.1) | +|emmeans |1.11.2 |2025-07-11 |CRAN (R 4.4.1) | |esquisse |2.1.0 |2025-02-21 |CRAN (R 4.4.1) | |estimability |1.5.1 |2024-05-12 |CRAN (R 4.4.0) | |eulerr |7.0.2 |2024-03-28 |CRAN (R 4.4.0) | -|evaluate |1.0.3 |2025-01-10 |CRAN (R 4.4.1) | +|evaluate |1.0.4 |2025-06-18 |CRAN (R 4.4.1) | |farver |2.1.2 |2024-05-13 |CRAN (R 4.4.1) | |fastmap |1.2.0 |2024-05-15 |CRAN (R 4.4.1) | -|flextable |0.9.7 |2024-10-27 |CRAN (R 4.4.1) | +|flextable |0.9.9 |2025-05-31 |CRAN (R 4.4.1) | |fontawesome |0.5.3 |2024-11-16 |CRAN (R 4.4.1) | |fontBitstreamVera |0.1.1 |2017-02-01 |CRAN (R 4.4.1) | |fontLiberation |0.1.0 |2016-10-15 |CRAN (R 4.4.1) | @@ -93,22 +85,19 @@ |FreesearchR |25.7.2 |NA |NA | |fs |1.6.6 |2025-04-12 |CRAN (R 4.4.1) | |gdtools |0.4.2 |2025-03-27 |CRAN (R 4.4.1) | -|generics |0.1.3 |2022-07-05 |CRAN (R 4.4.1) | -|gert |2.1.5 |2025-03-25 |CRAN (R 4.4.1) | +|generics |0.1.4 |2025-05-09 |CRAN (R 4.4.1) | |ggalluvial |0.12.5 |2023-02-22 |CRAN (R 4.4.0) | |ggcorrplot |0.1.4.1 |2023-09-05 |CRAN (R 4.4.0) | -|ggforce |0.4.2 |2024-02-19 |CRAN (R 4.4.0) | +|ggforce |0.5.0 |2025-06-18 |CRAN (R 4.4.1) | |ggplot2 |3.5.2 |2025-04-09 |CRAN (R 4.4.1) | |ggridges |0.5.6 |2024-01-23 |CRAN (R 4.4.0) | -|ggstats |0.9.0 |2025-03-10 |CRAN (R 4.4.1) | -|gh |1.4.1 |2024-03-28 |CRAN (R 4.4.0) | -|gitcreds |0.1.2 |2022-09-08 |CRAN (R 4.4.1) | +|ggstats |0.10.0 |2025-07-02 |CRAN (R 4.4.1) | |glue |1.8.0 |2024-09-30 |CRAN (R 4.4.1) | |gridExtra |2.3 |2017-09-09 |CRAN (R 4.4.1) | |gt |1.0.0 |2025-04-05 |CRAN (R 4.4.1) | |gtable |0.3.6 |2024-10-25 |CRAN (R 4.4.1) | -|gtsummary |2.2.0 |2025-04-14 |CRAN (R 4.4.1) | -|haven |2.5.4 |2023-11-30 |CRAN (R 4.4.0) | +|gtsummary |2.3.0 |2025-07-03 |CRAN (R 4.4.1) | +|haven |2.5.5 |2025-05-30 |CRAN (R 4.4.1) | |here |1.0.1 |2020-12-13 |CRAN (R 4.4.1) | |Hmisc |5.2-3 |2025-03-16 |CRAN (R 4.4.1) | |hms |1.1.3 |2023-03-21 |CRAN (R 4.4.0) | @@ -116,30 +105,23 @@ |htmltools |0.5.8.1 |2024-04-04 |CRAN (R 4.4.1) | |htmlwidgets |1.6.4 |2023-12-06 |CRAN (R 4.4.0) | |httpuv |1.6.16 |2025-04-16 |CRAN (R 4.4.1) | -|httr2 |1.1.2 |2025-03-26 |CRAN (R 4.4.1) | |IDEAFilter |0.2.0 |2024-04-15 |CRAN (R 4.4.0) | -|insight |1.2.0 |2025-04-22 |CRAN (R 4.4.1) | +|insight |1.3.1 |2025-06-30 |CRAN (R 4.4.1) | |iterators |1.0.14 |2022-02-05 |CRAN (R 4.4.1) | |jquerylib |0.1.4 |2021-04-26 |CRAN (R 4.4.0) | |jsonlite |2.0.0 |2025-03-27 |CRAN (R 4.4.1) | -|jsonvalidate |1.5.0 |2025-02-07 |CRAN (R 4.4.1) | |KernSmooth |2.23-26 |2025-01-01 |CRAN (R 4.4.1) | -|keyring |1.3.2 |2023-12-11 |CRAN (R 4.4.0) | +|keyring |1.4.1 |2025-06-15 |CRAN (R 4.4.1) | |knitr |1.50 |2025-03-16 |CRAN (R 4.4.1) | -|labeling |0.4.3 |2023-08-29 |CRAN (R 4.4.1) | -|labelled |2.14.0 |2025-01-08 |CRAN (R 4.4.1) | |later |1.4.2 |2025-04-08 |CRAN (R 4.4.1) | |lattice |0.22-7 |2025-04-02 |CRAN (R 4.4.1) | |lifecycle |1.0.4 |2023-11-07 |CRAN (R 4.4.1) | -|litedown |0.7 |2025-04-08 |CRAN (R 4.4.1) | |lme4 |1.1-37 |2025-03-26 |CRAN (R 4.4.1) | |lubridate |1.9.4 |2024-12-08 |CRAN (R 4.4.1) | |magrittr |2.0.3 |2022-03-30 |CRAN (R 4.4.1) | -|markdown |2.0 |2025-03-23 |CRAN (R 4.4.1) | |MASS |7.3-65 |2025-02-28 |CRAN (R 4.4.1) | |Matrix |1.7-3 |2025-03-11 |CRAN (R 4.4.1) | |memoise |2.0.1 |2021-11-26 |CRAN (R 4.4.0) | -|mgcv |1.9-3 |2025-04-04 |CRAN (R 4.4.1) | |mime |0.13 |2025-03-17 |CRAN (R 4.4.1) | |miniUI |0.1.2 |2025-04-17 |CRAN (R 4.4.1) | |minqa |1.2.8 |2024-08-17 |CRAN (R 4.4.1) | @@ -147,18 +129,17 @@ |nlme |3.1-168 |2025-03-31 |CRAN (R 4.4.1) | |nloptr |2.2.1 |2025-03-17 |CRAN (R 4.4.1) | |nnet |7.3-20 |2025-01-01 |CRAN (R 4.4.1) | -|officer |0.6.8 |2025-03-23 |CRAN (R 4.4.1) | +|officer |0.6.10 |2025-05-30 |CRAN (R 4.4.1) | |opdisDownsampling |1.0.1 |2024-04-15 |CRAN (R 4.4.0) | -|openssl |2.3.2 |2025-02-03 |CRAN (R 4.4.1) | -|openxlsx2 |1.15 |2025-04-25 |CRAN (R 4.4.1) | -|pak |0.8.0.2 |2025-04-08 |CRAN (R 4.4.1) | -|parameters |0.24.2 |2025-03-04 |CRAN (R 4.4.1) | -|patchwork |1.3.0 |2024-09-16 |CRAN (R 4.4.1) | +|openssl |2.3.3 |2025-05-26 |CRAN (R 4.4.1) | +|openxlsx2 |1.17 |2025-07-04 |CRAN (R 4.4.1) | +|parameters |0.27.0 |2025-07-09 |CRAN (R 4.4.1) | +|patchwork |1.3.1 |2025-06-21 |CRAN (R 4.4.1) | |pbmcapply |1.5.1 |2022-04-28 |CRAN (R 4.4.1) | -|performance |0.13.0 |2025-01-15 |CRAN (R 4.4.1) | +|performance |0.15.0 |2025-07-10 |CRAN (R 4.4.1) | |phosphoricons |0.2.1 |2024-04-08 |CRAN (R 4.4.0) | -|pillar |1.10.2 |2025-04-05 |CRAN (R 4.4.1) | -|pkgbuild |1.4.7 |2025-03-24 |CRAN (R 4.4.1) | +|pillar |1.11.0 |2025-07-04 |CRAN (R 4.4.1) | +|pkgbuild |1.4.8 |2025-05-26 |CRAN (R 4.4.1) | |pkgconfig |2.0.3 |2019-09-22 |CRAN (R 4.4.1) | |pkgload |1.4.0 |2024-06-28 |CRAN (R 4.4.0) | |plyr |1.8.9 |2023-10-02 |CRAN (R 4.4.1) | @@ -166,25 +147,20 @@ |pracma |2.4.4 |2023-11-10 |CRAN (R 4.4.1) | |processx |3.8.6 |2025-02-21 |CRAN (R 4.4.1) | |profvis |0.4.0 |2024-09-20 |CRAN (R 4.4.1) | -|promises |1.3.2 |2024-11-28 |CRAN (R 4.4.1) | +|promises |1.3.3 |2025-05-29 |CRAN (R 4.4.1) | |proxy |0.4-27 |2022-06-09 |CRAN (R 4.4.1) | |ps |1.9.1 |2025-04-12 |CRAN (R 4.4.1) | -|purrr |1.0.4 |2025-02-05 |CRAN (R 4.4.1) | +|purrr |1.1.0 |2025-07-10 |CRAN (R 4.4.1) | |qqconf |1.3.2 |2023-04-14 |CRAN (R 4.4.0) | |qqplotr |0.0.6 |2023-01-25 |CRAN (R 4.4.0) | |quarto |1.4.4 |2024-07-20 |CRAN (R 4.4.0) | -|R.cache |0.16.0 |2022-07-21 |CRAN (R 4.4.0) | -|R.methodsS3 |1.8.2 |2022-06-13 |CRAN (R 4.4.1) | -|R.oo |1.27.0 |2024-11-01 |CRAN (R 4.4.1) | -|R.utils |2.13.0 |2025-02-24 |CRAN (R 4.4.1) | |R6 |2.6.1 |2025-02-15 |CRAN (R 4.4.1) | |ragg |1.4.0 |2025-04-10 |CRAN (R 4.4.1) | |rankinPlot |1.1.0 |2023-01-30 |CRAN (R 4.4.0) | -|rappdirs |0.3.3 |2021-01-31 |CRAN (R 4.4.1) | |rbibutils |2.3 |2024-10-04 |CRAN (R 4.4.1) | |RColorBrewer |1.1-3 |2022-04-03 |CRAN (R 4.4.1) | -|Rcpp |1.0.14 |2025-01-12 |CRAN (R 4.4.1) | -|RcppArmadillo |14.4.2-1 |2025-04-25 |CRAN (R 4.4.1) | +|Rcpp |1.1.0 |2025-07-02 |CRAN (R 4.4.1) | +|RcppArmadillo |14.6.0-1 |2025-07-02 |CRAN (R 4.4.1) | |Rdpack |2.6.4 |2025-04-09 |CRAN (R 4.4.1) | |reactable |0.4.4 |2023-03-12 |CRAN (R 4.4.0) | |readODS |2.3.2 |2025-01-13 |CRAN (R 4.4.1) | @@ -192,7 +168,7 @@ |readxl |1.4.5 |2025-03-07 |CRAN (R 4.4.1) | |REDCapCAST |25.3.2 |2025-03-10 |CRAN (R 4.4.1) | |REDCapR |1.4.0 |2025-01-11 |CRAN (R 4.4.1) | -|reformulas |0.4.0 |2024-11-03 |CRAN (R 4.4.1) | +|reformulas |0.4.1 |2025-04-30 |CRAN (R 4.4.1) | |remotes |2.5.0 |2024-03-17 |CRAN (R 4.4.1) | |rempsyc |0.1.9 |2025-02-01 |CRAN (R 4.4.1) | |renv |1.1.4 |2025-03-20 |CRAN (R 4.4.1) | @@ -203,29 +179,25 @@ |robustbase |0.99-4-1 |2024-09-27 |CRAN (R 4.4.1) | |roxygen2 |7.3.2 |2024-06-28 |CRAN (R 4.4.0) | |rpart |4.1.24 |2025-01-07 |CRAN (R 4.4.1) | -|rprojroot |2.0.4 |2023-11-05 |CRAN (R 4.4.1) | -|rsconnect |1.3.4 |2025-01-22 |CRAN (R 4.4.1) | +|rprojroot |2.1.0 |2025-07-12 |CRAN (R 4.4.1) | +|rsconnect |1.5.0 |2025-06-26 |CRAN (R 4.4.1) | |rstudioapi |0.17.1 |2024-10-22 |CRAN (R 4.4.1) | |sass |0.4.10 |2025-04-11 |CRAN (R 4.4.1) | |scales |1.4.0 |2025-04-24 |CRAN (R 4.4.1) | |see |0.11.0 |2025-03-11 |CRAN (R 4.4.1) | |sessioninfo |1.2.3 |2025-02-05 |CRAN (R 4.4.1) | -|shiny |1.10.0 |2024-12-14 |CRAN (R 4.4.1) | -|shiny2docker |0.0.2 |2025-02-09 |CRAN (R 4.4.1) | +|shiny |1.11.1 |2025-07-03 |CRAN (R 4.4.1) | |shinybusy |0.3.3 |2024-03-09 |CRAN (R 4.4.0) | |shinyjs |2.1.0 |2021-12-23 |CRAN (R 4.4.0) | |shinyTime |1.0.3 |2022-08-19 |CRAN (R 4.4.0) | |shinyWidgets |0.9.0 |2025-02-21 |CRAN (R 4.4.1) | -|sourcetools |0.1.7-1 |2023-02-01 |CRAN (R 4.4.1) | |stringi |1.8.7 |2025-03-27 |CRAN (R 4.4.1) | |stringr |1.5.1 |2023-11-14 |CRAN (R 4.4.0) | -|styler |1.10.3 |2024-04-07 |CRAN (R 4.4.0) | -|sys |3.4.3 |2024-10-04 |CRAN (R 4.4.1) | -|systemfonts |1.2.2 |2025-04-04 |CRAN (R 4.4.1) | +|systemfonts |1.2.3 |2025-04-30 |CRAN (R 4.4.1) | |testthat |3.2.3 |2025-01-13 |CRAN (R 4.4.1) | -|textshaping |1.0.0 |2025-01-20 |CRAN (R 4.4.1) | -|thematic |0.1.6 |2024-07-29 |CRAN (R 4.4.0) | -|tibble |3.2.1 |2023-03-20 |CRAN (R 4.4.0) | +|textshaping |1.0.1 |2025-05-01 |CRAN (R 4.4.1) | +|thematic |0.1.7 |2025-06-19 |CRAN (R 4.4.1) | +|tibble |3.3.0 |2025-06-08 |CRAN (R 4.4.1) | |tidyr |1.3.1 |2024-01-24 |CRAN (R 4.4.1) | |tidyselect |1.2.1 |2024-03-11 |CRAN (R 4.4.0) | |timechange |0.3.0 |2024-01-18 |CRAN (R 4.4.1) | @@ -236,7 +208,6 @@ |urlchecker |1.0.1 |2021-11-30 |CRAN (R 4.4.1) | |usethis |3.1.0 |2024-11-26 |CRAN (R 4.4.1) | |uuid |1.2-1 |2024-07-29 |CRAN (R 4.4.1) | -|V8 |6.0.3 |2025-03-26 |CRAN (R 4.4.1) | |vctrs |0.6.5 |2023-12-01 |CRAN (R 4.4.0) | |vroom |1.6.5 |2023-12-05 |CRAN (R 4.4.0) | |withr |3.0.2 |2024-10-28 |CRAN (R 4.4.1) | @@ -245,5 +216,4 @@ |xml2 |1.3.8 |2025-03-14 |CRAN (R 4.4.1) | |xtable |1.8-4 |2019-04-21 |CRAN (R 4.4.1) | |yaml |2.3.10 |2024-07-26 |CRAN (R 4.4.1) | -|yesno |0.1.3 |2024-07-26 |CRAN (R 4.4.1) | -|zip |2.3.2 |2025-02-01 |CRAN (R 4.4.1) | +|zip |2.3.3 |2025-05-13 |CRAN (R 4.4.1) | diff --git a/app_docker/Dockerfile b/app_docker/Dockerfile index 201620a..877787f 100644 --- a/app_docker/Dockerfile +++ b/app_docker/Dockerfile @@ -1,5 +1,5 @@ FROM rocker/geospatial:4.4.1 -RUN apt-get update -y && apt-get install -y cmake make libcurl4-openssl-dev libicu-dev libssl-dev pandoc zlib1g-dev libsecret-1-dev libxml2-dev libx11-dev libcairo2-dev libfontconfig1-dev libfreetype6-dev libfribidi-dev libharfbuzz-dev libjpeg-dev libpng-dev libtiff-dev libfftw3-dev libsodium-dev && rm -rf /var/lib/apt/lists/* +RUN apt-get update -y && apt-get install -y cmake make libcurl4-openssl-dev libicu-dev libssl-dev pandoc zlib1g-dev libsecret-1-dev libxml2-dev libx11-dev libcairo2-dev libfontconfig1-dev libfreetype6-dev libfribidi-dev libharfbuzz-dev libjpeg-dev libpng-dev libtiff-dev libfftw3-dev && rm -rf /var/lib/apt/lists/* RUN mkdir -p /usr/local/lib/R/etc/ /usr/lib/R/etc/ RUN echo "options(renv.config.pak.enabled = FALSE, repos = c(CRAN = 'https://cran.rstudio.com/'), download.file.method = 'libcurl', Ncpus = 4)" | tee /usr/local/lib/R/etc/Rprofile.site | tee /usr/lib/R/etc/Rprofile.site RUN R -e 'install.packages("remotes")' diff --git a/app_docker/app.R b/app_docker/app.R index b3b5a1b..84f8aa6 100644 --- a/app_docker/app.R +++ b/app_docker/app.R @@ -49,7 +49,7 @@ library(rlang) #### Current file: /Users/au301842/FreesearchR/R//app_version.R ######## -app_version <- function()'25.7.1' +app_version <- function()'25.7.2' ######## @@ -4026,7 +4026,7 @@ simple_snake <- function(data){ #### Current file: /Users/au301842/FreesearchR/R//hosted_version.R ######## -hosted_version <- function()'v25.7.1-250703' +hosted_version <- function()'v25.7.2-250722' ######## @@ -8296,6 +8296,615 @@ gg_theme_export <- function() { } +######## +#### Current file: /Users/au301842/FreesearchR/R//ui_elements.R +######## + +#' FreesearchR UI elements list +#' +#' @param selection specify element to output +#' +#' @returns Shinu UI elements +#' @export +#' +ui_elements <- function(selection) { + out <- list( + ############################################################################## + ######### + ######### Home panel + ######### + ############################################################################## + "home" = bslib::nav_panel( + title = "FreesearchR", + # title = shiny::div(htmltools::img(src="FreesearchR-logo-white-nobg-h80.png")), + icon = shiny::icon("house"), + shiny::fluidRow( + ## On building the dev-version for shinyapps.io, the dev_banner() is redefined + ## Default just output "NULL" + ## This could probably be achieved more legantly, but this works. + dev_banner(), + shiny::column(width = 2), + shiny::column( + width = 8, + shiny::markdown(readLines("www/intro.md")), + shiny::column(width = 2) + ) + ) + ), + ############################################################################## + ######### + ######### Import panel + ######### + ############################################################################## + "import" = bslib::nav_panel( + title = "Get started", + icon = shiny::icon("play"), + value = "nav_import", + shiny::fluidRow( + shiny::column(width = 2), + shiny::column( + width = 8, + shiny::h4("Choose your data source"), + shiny::br(), + # shiny::uiOutput(outputId = "source"), + shinyWidgets::radioGroupButtons( + inputId = "source", + selected = "file", + choices = c( + "File upload" = "file", + "REDCap server export" = "redcap", + "Local or sample data" = "env" + ), + size = "lg" + ), + shiny::tags$script('document.querySelector("#source div").style.width = "100%"'), + shiny::helpText("Upload a file from your device, get data directly from REDCap or select a sample data set for testing from the app."), + shiny::br(), + shiny::br(), + shiny::conditionalPanel( + condition = "input.source=='file'", + import_file_ui( + id = "file_import", + layout_params = "dropdown", + # title = "Choose a datafile to upload", + file_extensions = c(".csv", ".tsv", ".txt", ".xls", ".xlsx", ".rds", ".ods", ".dta") + ) + ), + shiny::conditionalPanel( + condition = "input.source=='redcap'", + shinyWidgets::alert( + id = "redcap-warning", + status = "info", + shiny::tags$h2(shiny::markdown("Careful with sensitive data")), + shiny::tags$p("The", shiny::tags$i(shiny::tags$b("FreesearchR")), "app only stores data for analyses, but please only use with sensitive data when running locally.", "", shiny::tags$a("Read more here", href = "https://agdamsbo.github.io/FreesearchR/#run-locally-on-your-own-machine"), "."), + dismissible = TRUE + ), + m_redcap_readUI( + id = "redcap_import", + title = "" + ) + ), + shiny::conditionalPanel( + condition = "input.source=='env'", + import_globalenv_ui(id = "env", title = NULL) + ), + # shiny::conditionalPanel( + # condition = "input.source=='redcap'", + # DT::DTOutput(outputId = "redcap_prev") + # ), + shiny::conditionalPanel( + condition = "output.data_loaded == true", + shiny::br(), + shiny::actionButton( + inputId = "modal_initial_view", + label = "Quick overview", + width = "100%", + icon = shiny::icon("binoculars"), + disabled = FALSE + ), + shiny::br(), + shiny::br(), + shiny::h5("Select variables for final import"), + shiny::fluidRow( + shiny::column( + width = 6, + shiny::p("Exclude incomplete variables:"), + shiny::br(), + shinyWidgets::noUiSliderInput( + inputId = "complete_cutoff", + label = NULL, + update_on = "end", + min = 0, + max = 100, + step = 5, + value = 30, + format = shinyWidgets::wNumbFormat(decimals = 0), + color = datamods:::get_primary_color() + ), + shiny::helpText("Only include variables missing less observations than the specified percentage."), + shiny::br() + ), + shiny::column( + width = 6, + shiny::p("Manual selection:"), + shiny::br(), + shiny::uiOutput(outputId = "import_var"), + shiny::br() + ) + ), + shiny::uiOutput(outputId = "data_info_import", inline = TRUE), + shiny::br(), + shiny::br(), + shiny::actionButton( + inputId = "act_start", + label = "Start", + width = "100%", + icon = shiny::icon("play"), + disabled = TRUE + ), + shiny::helpText('After importing, hit "Start" or navigate to the desired tab.'), + shiny::br(), + shiny::br() + ), + shiny::column(width = 2) + ), + shiny::br(), + shiny::br() + ) + ), + ############################################################################## + ######### + ######### Data overview panel + ######### + ############################################################################## + "prepare" = bslib::nav_menu( + title = "Prepare", + icon = shiny::icon("pen-to-square"), + value = "nav_prepare", + bslib::nav_panel( + title = "Overview", + icon = shiny::icon("eye"), + value = "nav_prepare_overview", + tags$h3("Overview and filtering"), + fluidRow( + shiny::column( + width = 9, + shiny::uiOutput(outputId = "data_info", inline = TRUE), + shiny::tags$p( + "Below is a short summary table, on the right you can click to visualise data classes or browse data and create different data filters." + ) + ), + shiny::column( + width = 3, + shiny::actionButton( + inputId = "modal_visual_overview", + label = "Visual overview", + width = "100%", + disabled = TRUE + ), + shiny::br(), + shiny::br(), + shiny::actionButton( + inputId = "modal_browse", + label = "Browse data", + width = "100%", + disabled = TRUE + ), + shiny::br(), + shiny::br() + ) + ), + fluidRow( + shiny::column( + width = 9, + data_summary_ui(id = "data_summary"), + shiny::br(), + shiny::br(), + shiny::br(), + shiny::br(), + shiny::br() + ), + shiny::column( + width = 3, + shiny::tags$h6("Filter data types"), + shiny::uiOutput( + outputId = "column_filter" + ), + shiny::helpText("Read more on how ", tags$a( + "data types", + href = "https://agdamsbo.github.io/FreesearchR/articles/data-types.html", + target = "_blank", + rel = "noopener noreferrer" + ), " are defined."), + shiny::br(), + shiny::br(), + shiny::tags$h6("Filter observations"), + shiny::tags$p("Filter on observation level"), + IDEAFilter::IDEAFilter_ui("data_filter"), + shiny::br(), + shiny::br() + ) + ), + shiny::br(), + shiny::br(), + shiny::br() + ), + bslib::nav_panel( + title = "Modify", + icon = shiny::icon("file-pen"), + tags$h3("Subset, rename and convert variables"), + fluidRow( + shiny::column( + width = 9, + shiny::tags$p( + shiny::markdown("Below, are several options for simple data manipulation like update variables by renaming, creating new labels (for nicer tables in the report) and changing variable classes (numeric, factor/categorical etc.)."), + shiny::markdown("There are more advanced options to modify factor/categorical variables as well as create new factor from a continous variable or new variables with *R* code. At the bottom you can restore the original data."), + shiny::markdown("Please note that data modifications are applied before any filtering.") + ) + ) + ), + update_variables_ui("modal_variables"), + shiny::tags$br(), + shiny::tags$br(), + shiny::tags$h4("Advanced data manipulation"), + shiny::tags$p("Below options allow more advanced varaible manipulations."), + shiny::tags$br(), + shiny::tags$br(), + shiny::fluidRow( + shiny::column( + width = 4, + shiny::actionButton( + inputId = "modal_update", + label = "Reorder factor levels", + width = "100%" + ), + shiny::tags$br(), + shiny::helpText("Reorder the levels of factor/categorical variables."), + shiny::tags$br(), + shiny::tags$br() + ), + shiny::column( + width = 4, + shiny::actionButton( + inputId = "modal_cut", + label = "New factor", + width = "100%" + ), + shiny::tags$br(), + shiny::helpText("Create factor/categorical variable from a continous variable (number/date/time)."), + shiny::tags$br(), + shiny::tags$br() + ), + shiny::column( + width = 4, + shiny::actionButton( + inputId = "modal_column", + label = "New variable", + width = "100%" + ), + shiny::tags$br(), + shiny::helpText(shiny::markdown("Create a new variable/column based on an *R*-expression.")), + shiny::tags$br(), + shiny::tags$br() + ) + ), + tags$h4("Compare modified data to original"), + shiny::tags$br(), + shiny::tags$p( + "Raw print of the original vs the modified data." + ), + shiny::tags$br(), + shiny::fluidRow( + shiny::column( + width = 6, + shiny::tags$b("Original data:"), + shiny::verbatimTextOutput("original_str") + ), + shiny::column( + width = 6, + shiny::tags$b("Modified data:"), + shiny::verbatimTextOutput("modified_str") + ) + ), + shiny::tags$br(), + shiny::actionButton( + inputId = "data_reset", + label = "Restore original data", + width = "100%" + ), + shiny::tags$br(), + shiny::helpText("Reset to original imported dataset. Careful! There is no un-doing."), + shiny::tags$br() + ) + # ) + ), + ############################################################################## + ######### + ######### Descriptive analyses panel + ######### + ############################################################################## + "describe" = + bslib::nav_menu( + title = "Evaluate", + icon = shiny::icon("magnifying-glass-chart"), + value = "nav_describe", + # id = "navdescribe", + # bslib::navset_bar( + # title = "", + bslib::nav_panel( + title = "Characteristics", + icon = bsicons::bs_icon("table"), + bslib::layout_sidebar( + sidebar = bslib::sidebar( + shiny::uiOutput(outputId = "data_info_nochar", inline = TRUE), + bslib::accordion( + open = "acc_chars", + multiple = FALSE, + bslib::accordion_panel( + open = TRUE, + value = "acc_chars", + title = "Settings", + icon = bsicons::bs_icon("table"), + shiny::uiOutput("strat_var"), + shiny::helpText("Only factor/categorical variables are available for stratification. Go back to the 'Prepare' tab to reclass a variable if it's not on the list."), + shiny::conditionalPanel( + condition = "input.strat_var!='none'", + shiny::radioButtons( + inputId = "add_p", + label = "Compare strata?", + selected = "no", + inline = TRUE, + choices = list( + "No" = "no", + "Yes" = "yes" + ) + ), + shiny::helpText("Option to perform statistical comparisons between strata in baseline table.") + ), + shiny::br(), + shiny::br(), + shiny::actionButton( + inputId = "act_eval", + label = "Evaluate", + width = "100%", + icon = shiny::icon("calculator"), + disabled = TRUE + ) + ) + ) + ), + gt::gt_output(outputId = "table1") + ) + ), + bslib::nav_panel( + title = "Correlations", + icon = bsicons::bs_icon("bounding-box"), + bslib::layout_sidebar( + sidebar = bslib::sidebar( + shiny::uiOutput(outputId = "data_info_nochar", inline = TRUE), + bslib::accordion( + open = "acc_chars", + multiple = FALSE, + bslib::accordion_panel( + value = "acc_cor", + title = "Correlations", + icon = bsicons::bs_icon("bounding-box"), + shiny::uiOutput("outcome_var_cor"), + shiny::helpText("To avoid evaluating the correlation of the outcome variable, this can be excluded from the plot or select 'none'."), + shiny::br(), + shinyWidgets::noUiSliderInput( + inputId = "cor_cutoff", + label = "Correlation cut-off", + min = 0, + max = 1, + step = .01, + value = .8, + format = shinyWidgets::wNumbFormat(decimals = 2), + color = datamods:::get_primary_color() + ), + shiny::helpText("Set the cut-off for considered 'highly correlated'.") + ) + ) + ), + data_correlations_ui(id = "correlations", height = 600) + ) + ), + bslib::nav_panel( + title = "Missings", + icon = bsicons::bs_icon("x-circle"), + bslib::layout_sidebar( + sidebar = bslib::sidebar( + bslib::accordion( + open = "acc_chars", + multiple = FALSE, + bslib::accordion_panel( + vlaue = "acc_mis", + title = "Missings", + icon = bsicons::bs_icon("x-circle"), + shiny::uiOutput("missings_var"), + shiny::helpText("To consider if data is missing by random, choose the outcome/dependent variable, if it has any missings to evaluate if there is a significant difference across other variables depending on missing data or not.") + ) + ) + ), + data_missings_ui(id = "missingness") + ) + ) + ), + ############################################################################## + ######### + ######### Download panel + ######### + ############################################################################## + "visuals" = do.call( + bslib::nav_panel, + c( + list( + title = "Visuals", + icon = shiny::icon("chart-line"), + value = "nav_visuals" + ), + data_visuals_ui("visuals") + ) + # do.call( + # bslib::navset_bar, + # data_visuals_ui("visuals")#, + # c( + + # ) + # ) + ), + ############################################################################## + ######### + ######### Regression analyses panel + ######### + ############################################################################## + "analyze" = + bslib::nav_panel( + title = "Regression", + icon = shiny::icon("calculator"), + value = "nav_analyses", + do.call( + bslib::navset_card_tab, + regression_ui("regression") + ) + ), + ############################################################################## + ######### + ######### Download panel + ######### + ############################################################################## + "download" = + bslib::nav_panel( + title = "Download", + icon = shiny::icon("download"), + value = "nav_download", + shiny::fluidRow( + shiny::column(width = 2), + shiny::column( + width = 8, + shiny::fluidRow( + shiny::column( + width = 6, + shiny::h4("Report"), + shiny::helpText("Choose your favourite output file format for further work, and download, when the analyses are done."), + shiny::br(), + shiny::br(), + shiny::selectInput( + inputId = "output_type", + label = "Output format", + selected = NULL, + choices = list( + "MS Word" = "docx", + "LibreOffice" = "odt" + # , + # "PDF" = "pdf", + # "All the above" = "all" + ) + ), + shiny::br(), + # Button + shiny::downloadButton( + outputId = "report", + label = "Download report", + icon = shiny::icon("download") + ) + # shiny::helpText("If choosing to output to MS Word, please note, that when opening the document, two errors will pop-up. Choose to repair and choose not to update references. The issue is being worked on. You can always choose LibreOffice instead."), + ), + shiny::column( + width = 6, + shiny::h4("Data"), + shiny::helpText("Choose your favourite output data format to download the modified data."), + shiny::br(), + shiny::br(), + shiny::selectInput( + inputId = "data_type", + label = "Data format", + selected = NULL, + choices = list( + "R" = "rds", + "stata" = "dta", + "CSV" = "csv" + ) + ), + shiny::helpText("No metadata is saved when exporting to csv."), + shiny::br(), + shiny::br(), + # Button + shiny::downloadButton( + outputId = "data_modified", + label = "Download data", + icon = shiny::icon("download") + ) + ) + ), + shiny::br(), + shiny::br(), + shiny::h4("Code snippets"), + shiny::tags$p("Below are the code bits used to create the final data set and the main analyses."), + shiny::tags$p("This can be used as a starting point for learning to code and for reproducibility."), + shiny::tagList( + lapply( + paste0("code_", c( + "import", "format", "data", "variables", "filter", "table1", "univariable", "multivariable" + )), + \(.x)shiny::htmlOutput(outputId = .x) + ) + ), + shiny::tags$br(), + shiny::br() + ), + shiny::column(width = 2) + ) + ), + ############################################################################## + ######### + ######### Feedback link + ######### + ############################################################################## + "feedback" = bslib::nav_item( + # shiny::img(shiny::icon("book")), + shiny::tags$a( + href = "https://redcap.au.dk/surveys/?s=JPCLPTXYDKFA8DA8", + "Feedback", shiny::icon("arrow-up-right-from-square"), + target = "_blank", + rel = "noopener noreferrer" + ) + ), + ############################################################################## + ######### + ######### Documentation link + ######### + ############################################################################## + "docs" = bslib::nav_item( + # shiny::img(shiny::icon("book")), + shiny::tags$a( + href = "https://agdamsbo.github.io/FreesearchR/", + "Docs", shiny::icon("arrow-up-right-from-square"), + target = "_blank", + rel = "noopener noreferrer" + ) + ) + # bslib::nav_panel( + # title = "Documentation", + # # shiny::tags$iframe("www/docs.html", height=600, width=535), + # shiny::htmlOutput("docs_file"), + # shiny::br() + # ) + ) +if (!is.null(selection)){ + out[[selection]] +} else { + out +} + + } + + +# ls <- list("home"=1:4, +# "test"=1:4) +# + + ######## #### Current file: /Users/au301842/FreesearchR/R//update-factor-ext.R ######## @@ -9868,7 +10477,8 @@ grepl_fix <- function(data, pattern, type = c("prefix", "infix", "suffix")) { header_include <- function(){ shiny::tags$head( includeHTML("www/umami-app.html"), - tags$link(rel = "stylesheet", type = "text/css", href = "style.css")) + tags$link(rel = "stylesheet", type = "text/css", href = "style.css"), + tags$script(src="scripts.js")) } @@ -9889,586 +10499,7 @@ dev_banner <- function(){ -ui_elements <- list( - ############################################################################## - ######### - ######### Home panel - ######### - ############################################################################## - "home" = bslib::nav_panel( - title = "FreesearchR", - # title = shiny::div(htmltools::img(src="FreesearchR-logo-white-nobg-h80.png")), - icon = shiny::icon("house"), - shiny::fluidRow( - ## On building the dev-version for shinyapps.io, the dev_banner() is redefined - ## Default just output "NULL" - ## This could probably be achieved more legantly, but this works. - dev_banner(), - shiny::column(width = 2), - shiny::column( - width = 8, - shiny::markdown(readLines("www/intro.md")), - shiny::column(width = 2) - ) - ) - ), - ############################################################################## - ######### - ######### Import panel - ######### - ############################################################################## - "import" = bslib::nav_panel( - title = "Get started", - icon = shiny::icon("upload"), - shiny::fluidRow( - shiny::column(width = 2), - shiny::column( - width = 8, - shiny::h4("Choose your data source"), - shiny::br(), - # shiny::uiOutput(outputId = "source"), - shinyWidgets::radioGroupButtons( - inputId = "source", - selected = "file", - choices = c( - "File upload" = "file", - "REDCap server export" = "redcap", - "Local or sample data" = "env" - ), - size = "lg" - ), - shiny::tags$script('document.querySelector("#source div").style.width = "100%"'), - shiny::helpText("Upload a file from your device, get data directly from REDCap or select a sample data set for testing from the app."), - shiny::br(), - shiny::br(), - shiny::conditionalPanel( - condition = "input.source=='file'", - import_file_ui( - id = "file_import", - layout_params = "dropdown", - # title = "Choose a datafile to upload", - file_extensions = c(".csv", ".tsv", ".txt", ".xls", ".xlsx", ".rds", ".ods", ".dta") - ) - ), - shiny::conditionalPanel( - condition = "input.source=='redcap'", - shinyWidgets::alert( - id = "redcap-warning", - status = "info", - shiny::tags$h2(shiny::markdown("Careful with sensitive data")), - shiny::tags$p("The", shiny::tags$i(shiny::tags$b("FreesearchR")), "app only stores data for analyses, but please only use with sensitive data when running locally.", "", shiny::tags$a("Read more here", href = "https://agdamsbo.github.io/FreesearchR/#run-locally-on-your-own-machine"), "."), - dismissible = TRUE - ), - m_redcap_readUI( - id = "redcap_import", - title = "" - ) - ), - shiny::conditionalPanel( - condition = "input.source=='env'", - import_globalenv_ui(id = "env", title = NULL) - ), - # shiny::conditionalPanel( - # condition = "input.source=='redcap'", - # DT::DTOutput(outputId = "redcap_prev") - # ), - shiny::conditionalPanel( - condition = "output.data_loaded == true", - shiny::br(), - shiny::actionButton( - inputId = "modal_initial_view", - label = "Quick overview", - width = "100%", - icon = shiny::icon("binoculars"), - disabled = FALSE - ), - shiny::br(), - shiny::br(), - shiny::h5("Select variables for final import"), - shiny::fluidRow( - shiny::column( - width = 6, - shiny::p("Exclude incomplete variables:"), - shiny::br(), - shinyWidgets::noUiSliderInput( - inputId = "complete_cutoff", - label = NULL, - update_on = "end", - min = 0, - max = 100, - step = 5, - value = 30, - format = shinyWidgets::wNumbFormat(decimals = 0), - color = datamods:::get_primary_color() - ), - shiny::helpText("Only include variables missing less observations than the specified percentage."), - shiny::br() - ), - shiny::column( - width = 6, - shiny::p("Manual selection:"), - shiny::br(), - shiny::uiOutput(outputId = "import_var"), - shiny::br() - ) - ), - shiny::uiOutput(outputId = "data_info_import", inline = TRUE), - shiny::br(), - shiny::br(), - shiny::actionButton( - inputId = "act_start", - label = "Start", - width = "100%", - icon = shiny::icon("play"), - disabled = TRUE - ), - shiny::helpText('After importing, hit "Start" or navigate to the desired tab.'), - shiny::br(), - shiny::br() - ), - shiny::column(width = 2) - ), - shiny::br(), - shiny::br() - ) - ), - ############################################################################## - ######### - ######### Data overview panel - ######### - ############################################################################## - "prepare" = bslib::nav_menu( - title = "Prepare", - icon = shiny::icon("pen-to-square"), - bslib::nav_panel( - title = "Overview", - icon = shiny::icon("eye"), - value = "nav_prepare_overview", - tags$h3("Overview and filtering"), - fluidRow( - shiny::column( - width = 9, - shiny::uiOutput(outputId = "data_info", inline = TRUE), - shiny::tags$p( - "Below is a short summary table, on the right you can click to visualise data classes or browse data and create different data filters." - ) - ), - shiny::column( - width = 3, - shiny::actionButton( - inputId = "modal_visual_overview", - label = "Visual overview", - width = "100%", - disabled = TRUE - ), - shiny::br(), - shiny::br(), - shiny::actionButton( - inputId = "modal_browse", - label = "Browse data", - width = "100%", - disabled = TRUE - ), - shiny::br(), - shiny::br() - ) - ), - fluidRow( - shiny::column( - width = 9, - data_summary_ui(id = "data_summary"), - shiny::br(), - shiny::br(), - shiny::br(), - shiny::br(), - shiny::br() - ), - shiny::column( - width = 3, - shiny::tags$h6("Filter data types"), - shiny::uiOutput( - outputId = "column_filter" - ), - shiny::helpText("Read more on how ", tags$a( - "data types", - href = "https://agdamsbo.github.io/FreesearchR/articles/data-types.html", - target = "_blank", - rel = "noopener noreferrer" - ), " are defined."), - shiny::br(), - shiny::br(), - shiny::tags$h6("Filter observations"), - shiny::tags$p("Filter on observation level"), - IDEAFilter::IDEAFilter_ui("data_filter"), - shiny::br(), - shiny::br() - ) - ), - shiny::br(), - shiny::br(), - shiny::br() - ), - bslib::nav_panel( - title = "Modify", - icon = shiny::icon("file-pen"), - tags$h3("Subset, rename and convert variables"), - fluidRow( - shiny::column( - width = 9, - shiny::tags$p( - shiny::markdown("Below, are several options for simple data manipulation like update variables by renaming, creating new labels (for nicer tables in the report) and changing variable classes (numeric, factor/categorical etc.)."), - shiny::markdown("There are more advanced options to modify factor/categorical variables as well as create new factor from a continous variable or new variables with *R* code. At the bottom you can restore the original data."), - shiny::markdown("Please note that data modifications are applied before any filtering.") - ) - ) - ), - update_variables_ui("modal_variables"), - shiny::tags$br(), - shiny::tags$br(), - shiny::tags$h4("Advanced data manipulation"), - shiny::tags$p("Below options allow more advanced varaible manipulations."), - shiny::tags$br(), - shiny::tags$br(), - shiny::fluidRow( - shiny::column( - width = 4, - shiny::actionButton( - inputId = "modal_update", - label = "Reorder factor levels", - width = "100%" - ), - shiny::tags$br(), - shiny::helpText("Reorder the levels of factor/categorical variables."), - shiny::tags$br(), - shiny::tags$br() - ), - shiny::column( - width = 4, - shiny::actionButton( - inputId = "modal_cut", - label = "New factor", - width = "100%" - ), - shiny::tags$br(), - shiny::helpText("Create factor/categorical variable from a continous variable (number/date/time)."), - shiny::tags$br(), - shiny::tags$br() - ), - shiny::column( - width = 4, - shiny::actionButton( - inputId = "modal_column", - label = "New variable", - width = "100%" - ), - shiny::tags$br(), - shiny::helpText(shiny::markdown("Create a new variable/column based on an *R*-expression.")), - shiny::tags$br(), - shiny::tags$br() - ) - ), - tags$h4("Compare modified data to original"), - shiny::tags$br(), - shiny::tags$p( - "Raw print of the original vs the modified data." - ), - shiny::tags$br(), - shiny::fluidRow( - shiny::column( - width = 6, - shiny::tags$b("Original data:"), - shiny::verbatimTextOutput("original_str") - ), - shiny::column( - width = 6, - shiny::tags$b("Modified data:"), - shiny::verbatimTextOutput("modified_str") - ) - ), - shiny::tags$br(), - shiny::actionButton( - inputId = "data_reset", - label = "Restore original data", - width = "100%" - ), - shiny::tags$br(), - shiny::helpText("Reset to original imported dataset. Careful! There is no un-doing."), - shiny::tags$br() - ) - # ) - ), - ############################################################################## - ######### - ######### Descriptive analyses panel - ######### - ############################################################################## - "describe" = - bslib::nav_menu( - title = "Evaluate", - icon = shiny::icon("magnifying-glass-chart"), - # id = "navdescribe", - # bslib::navset_bar( - # title = "", - bslib::nav_panel( - title = "Characteristics", - icon = bsicons::bs_icon("table"), - bslib::layout_sidebar( - sidebar = bslib::sidebar( - shiny::uiOutput(outputId = "data_info_nochar", inline = TRUE), - bslib::accordion( - open = "acc_chars", - multiple = FALSE, - bslib::accordion_panel( - open = TRUE, - value = "acc_chars", - title = "Settings", - icon = bsicons::bs_icon("table"), - shiny::uiOutput("strat_var"), - shiny::helpText("Only factor/categorical variables are available for stratification. Go back to the 'Prepare' tab to reclass a variable if it's not on the list."), - shiny::conditionalPanel( - condition = "input.strat_var!='none'", - shiny::radioButtons( - inputId = "add_p", - label = "Compare strata?", - selected = "no", - inline = TRUE, - choices = list( - "No" = "no", - "Yes" = "yes" - ) - ), - shiny::helpText("Option to perform statistical comparisons between strata in baseline table.") - ), - shiny::br(), - shiny::br(), - shiny::actionButton( - inputId = "act_eval", - label = "Evaluate", - width = "100%", - icon = shiny::icon("calculator"), - disabled = TRUE - ) - ) - ) - ), - gt::gt_output(outputId = "table1") - ) - ), - bslib::nav_panel( - title = "Correlations", - icon = bsicons::bs_icon("bounding-box"), - bslib::layout_sidebar( - sidebar = bslib::sidebar( - shiny::uiOutput(outputId = "data_info_nochar", inline = TRUE), - bslib::accordion( - open = "acc_chars", - multiple = FALSE, - bslib::accordion_panel( - value = "acc_cor", - title = "Correlations", - icon = bsicons::bs_icon("bounding-box"), - shiny::uiOutput("outcome_var_cor"), - shiny::helpText("To avoid evaluating the correlation of the outcome variable, this can be excluded from the plot or select 'none'."), - shiny::br(), - shinyWidgets::noUiSliderInput( - inputId = "cor_cutoff", - label = "Correlation cut-off", - min = 0, - max = 1, - step = .01, - value = .8, - format = shinyWidgets::wNumbFormat(decimals = 2), - color = datamods:::get_primary_color() - ), - shiny::helpText("Set the cut-off for considered 'highly correlated'.") - ) - ) - ), - data_correlations_ui(id = "correlations", height = 600) - ) - ), - bslib::nav_panel( - title = "Missings", - icon = bsicons::bs_icon("x-circle"), - bslib::layout_sidebar( - sidebar = bslib::sidebar( - bslib::accordion( - open = "acc_chars", - multiple = FALSE, - bslib::accordion_panel( - vlaue = "acc_mis", - title = "Missings", - icon = bsicons::bs_icon("x-circle"), - shiny::uiOutput("missings_var"), - shiny::helpText("To consider if data is missing by random, choose the outcome/dependent variable, if it has any missings to evaluate if there is a significant difference across other variables depending on missing data or not.") - ) - ) - ), - data_missings_ui(id = "missingness") - ) - ) - ), - ############################################################################## - ######### - ######### Download panel - ######### - ############################################################################## - "visuals" = do.call( - bslib::nav_panel, - c( - list( - title = "Visuals", - icon = shiny::icon("chart-line"), - id = "navvisuals" - ), - data_visuals_ui("visuals") - ) - # do.call( - # bslib::navset_bar, - # data_visuals_ui("visuals")#, - # c( - # ) - # ) - ), - ############################################################################## - ######### - ######### Regression analyses panel - ######### - ############################################################################## - "analyze" = - bslib::nav_panel( - title = "Regression", - icon = shiny::icon("calculator"), - id = "navanalyses", - do.call( - bslib::navset_card_tab, - regression_ui("regression") - ) - ), - ############################################################################## - ######### - ######### Download panel - ######### - ############################################################################## - "download" = - bslib::nav_panel( - title = "Download", - icon = shiny::icon("download"), - id = "navdownload", - shiny::fluidRow( - shiny::column(width = 2), - shiny::column( - width = 8, - shiny::fluidRow( - shiny::column( - width = 6, - shiny::h4("Report"), - shiny::helpText("Choose your favourite output file format for further work, and download, when the analyses are done."), - shiny::br(), - shiny::br(), - shiny::selectInput( - inputId = "output_type", - label = "Output format", - selected = NULL, - choices = list( - "MS Word" = "docx", - "LibreOffice" = "odt" - # , - # "PDF" = "pdf", - # "All the above" = "all" - ) - ), - shiny::br(), - # Button - shiny::downloadButton( - outputId = "report", - label = "Download report", - icon = shiny::icon("download") - ) - # shiny::helpText("If choosing to output to MS Word, please note, that when opening the document, two errors will pop-up. Choose to repair and choose not to update references. The issue is being worked on. You can always choose LibreOffice instead."), - ), - shiny::column( - width = 6, - shiny::h4("Data"), - shiny::helpText("Choose your favourite output data format to download the modified data."), - shiny::br(), - shiny::br(), - shiny::selectInput( - inputId = "data_type", - label = "Data format", - selected = NULL, - choices = list( - "R" = "rds", - "stata" = "dta", - "CSV" = "csv" - ) - ), - shiny::helpText("No metadata is saved when exporting to csv."), - shiny::br(), - shiny::br(), - # Button - shiny::downloadButton( - outputId = "data_modified", - label = "Download data", - icon = shiny::icon("download") - ) - ) - ), - shiny::br(), - shiny::br(), - shiny::h4("Code snippets"), - shiny::tags$p("Below are the code bits used to create the final data set and the main analyses."), - shiny::tags$p("This can be used as a starting point for learning to code and for reproducibility."), - shiny::tagList( - lapply( - paste0("code_", c( - "import", "format", "data", "variables", "filter", "table1", "univariable", "multivariable" - )), - \(.x)shiny::htmlOutput(outputId = .x) - ) - ), - shiny::tags$br(), - shiny::br() - ), - shiny::column(width = 2) - ) - ), - ############################################################################## - ######### - ######### Feedback link - ######### - ############################################################################## - "feedback" = bslib::nav_item( - # shiny::img(shiny::icon("book")), - shiny::tags$a( - href = "https://redcap.au.dk/surveys/?s=JPCLPTXYDKFA8DA8", - "Feedback", shiny::icon("arrow-up-right-from-square"), - target = "_blank", - rel = "noopener noreferrer" - ) - ), - ############################################################################## - ######### - ######### Documentation link - ######### - ############################################################################## - "docs" = bslib::nav_item( - # shiny::img(shiny::icon("book")), - shiny::tags$a( - href = "https://agdamsbo.github.io/FreesearchR/", - "Docs", shiny::icon("arrow-up-right-from-square"), - target = "_blank", - rel = "noopener noreferrer" - ) - ) - # bslib::nav_panel( - # title = "Documentation", - # # shiny::tags$iframe("www/docs.html", height=600, width=535), - # shiny::htmlOutput("docs_file"), - # shiny::br() - # ) -) # Initial attempt at creating light and dark versions light <- custom_theme() dark <- custom_theme( @@ -10485,20 +10516,6 @@ ui <- bslib::page_fixed( prismRDependency, ## Version dependent header header_include(), - ## Automatically close drop-downs on navigation - ## Thanks to claude.ai - tags$script(" - $(document).on('shown.bs.tab', '#main_panel', function(e) { - // Close dropdown in this specific navset only - $('#main_panel .dropdown-menu').removeClass('show'); - $('#main_panel .dropdown-toggle').removeClass('show').attr('aria-expanded', 'false'); - - // THE BELOW DOES NOT WORK - // Close navbar collapse (burger menu) - $('#main_panel .navbar-collapse collapse').removeClass('show'); - $('#main_panel .navbar-toggle').removeClass('collapsed').attr('aria-expanded', 'false'); - }); - "), ## This adds the actual favicon ## png and ico versions are kept for compatibility shiny::tags$head(tags$link(rel = "shortcut icon", href = "favicon.svg")), @@ -10516,13 +10533,13 @@ ui <- bslib::page_fixed( id = "main_content", bslib::page_navbar( id = "main_panel", - ui_elements$home, - ui_elements$import, - ui_elements$prepare, - ui_elements$describe, - ui_elements$visuals, - ui_elements$analyze, - ui_elements$download, + ui_elements("home"), + ui_elements("import"), + ui_elements("prepare"), + ui_elements("describe"), + ui_elements("visuals"), + ui_elements("analyze"), + ui_elements("download"), bslib::nav_spacer(), # ui_elements$feedback, # ui_elements$docs, @@ -10754,11 +10771,17 @@ server <- function(input, output, session) { shiny::updateActionButton(inputId = "modal_browse", disabled = TRUE) shiny::updateActionButton(inputId = "modal_visual_overview", disabled = TRUE) shiny::updateActionButton(inputId = "act_eval", disabled = TRUE) + + # bslib::nav_hide(id = "main_panel", + # target = "nav_visuals") } else { shiny::updateActionButton(inputId = "act_start", disabled = FALSE) shiny::updateActionButton(inputId = "modal_browse", disabled = FALSE) shiny::updateActionButton(inputId = "modal_visual_overview", disabled = FALSE) shiny::updateActionButton(inputId = "act_eval", disabled = FALSE) + + # bslib::nav_show(id = "main_panel", + # target = "nav_visuals") } }) diff --git a/app_docker/renv.lock b/app_docker/renv.lock index 074b3f4..57077d0 100644 --- a/app_docker/renv.lock +++ b/app_docker/renv.lock @@ -413,7 +413,7 @@ }, "R.oo": { "Package": "R.oo", - "Version": "1.27.0", + "Version": "1.27.1", "Source": "Repository", "Depends": [ "R (>= 2.13.0)", @@ -433,7 +433,7 @@ "Description": "Methods and classes for object-oriented programming in R with or without references. Large effort has been made on making definition of methods as simple as possible with a minimum of maintenance for package developers. The package has been developed since 2001 and is now considered very stable. This is a cross-platform package implemented in pure R that defines standard S3 classes without any tricks.", "License": "LGPL (>= 2.1)", "LazyLoad": "TRUE", - "URL": "https://github.com/HenrikBengtsson/R.oo", + "URL": "https://henrikbengtsson.github.io/R.oo/, https://github.com/HenrikBengtsson/R.oo", "BugReports": "https://github.com/HenrikBengtsson/R.oo/issues", "NeedsCompilation": "no", "Repository": "CRAN" @@ -624,10 +624,10 @@ }, "Rcpp": { "Package": "Rcpp", - "Version": "1.0.14", + "Version": "1.1.0", "Source": "Repository", "Title": "Seamless R and C++ Integration", - "Date": "2025-01-11", + "Date": "2025-07-01", "Authors@R": "c(person(\"Dirk\", \"Eddelbuettel\", role = c(\"aut\", \"cre\"), email = \"edd@debian.org\", comment = c(ORCID = \"0000-0001-6419-907X\")), person(\"Romain\", \"Francois\", role = \"aut\", comment = c(ORCID = \"0000-0002-2444-4226\")), person(\"JJ\", \"Allaire\", role = \"aut\", comment = c(ORCID = \"0000-0003-0174-9868\")), person(\"Kevin\", \"Ushey\", role = \"aut\", comment = c(ORCID = \"0000-0003-2880-7407\")), person(\"Qiang\", \"Kou\", role = \"aut\", comment = c(ORCID = \"0000-0001-6786-5453\")), person(\"Nathan\", \"Russell\", role = \"aut\"), person(\"Iñaki\", \"Ucar\", role = \"aut\", comment = c(ORCID = \"0000-0001-6403-5550\")), person(\"Doug\", \"Bates\", role = \"aut\", comment = c(ORCID = \"0000-0001-8316-9503\")), person(\"John\", \"Chambers\", role = \"aut\"))", "Description": "The 'Rcpp' package provides R functions as well as C++ classes which offer a seamless integration of R and C++. Many R data types and objects can be mapped back and forth to C++ equivalents which facilitates both writing of new code as well as easier integration of third-party libraries. Documentation about 'Rcpp' is provided by several vignettes included in this package, via the 'Rcpp Gallery' site at , the paper by Eddelbuettel and Francois (2011, ), the book by Eddelbuettel (2013, ) and the paper by Eddelbuettel and Balamuta (2018, ); see 'citation(\"Rcpp\")' for details.", "Imports": [ @@ -647,17 +647,17 @@ "RoxygenNote": "6.1.1", "Encoding": "UTF-8", "NeedsCompilation": "yes", - "Author": "Dirk Eddelbuettel [aut, cre] (), Romain Francois [aut] (), JJ Allaire [aut] (), Kevin Ushey [aut] (), Qiang Kou [aut] (), Nathan Russell [aut], Iñaki Ucar [aut] (), Doug Bates [aut] (), John Chambers [aut]", + "Author": "Dirk Eddelbuettel [aut, cre] (ORCID: ), Romain Francois [aut] (ORCID: ), JJ Allaire [aut] (ORCID: ), Kevin Ushey [aut] (ORCID: ), Qiang Kou [aut] (ORCID: ), Nathan Russell [aut], Iñaki Ucar [aut] (ORCID: ), Doug Bates [aut] (ORCID: ), John Chambers [aut]", "Maintainer": "Dirk Eddelbuettel ", "Repository": "CRAN" }, "RcppArmadillo": { "Package": "RcppArmadillo", - "Version": "14.4.2-1", + "Version": "14.6.0-1", "Source": "Repository", "Type": "Package", "Title": "'Rcpp' Integration for the 'Armadillo' Templated Linear Algebra Library", - "Date": "2025-04-25", + "Date": "2025-07-02", "Authors@R": "c(person(\"Dirk\", \"Eddelbuettel\", role = c(\"aut\", \"cre\"), email = \"edd@debian.org\", comment = c(ORCID = \"0000-0001-6419-907X\")), person(\"Romain\", \"Francois\", role = \"aut\", comment = c(ORCID = \"0000-0002-2444-4226\")), person(\"Doug\", \"Bates\", role = \"aut\", comment = c(ORCID = \"0000-0001-8316-9503\")), person(\"Binxiang\", \"Ni\", role = \"aut\"), person(\"Conrad\", \"Sanderson\", role = \"aut\", comment = c(ORCID = \"0000-0002-0049-4501\")))", "Description": "'Armadillo' is a templated C++ linear algebra library (by Conrad Sanderson) that aims towards a good balance between speed and ease of use. Integer, floating point and complex numbers are supported, as well as a subset of trigonometric and statistics functions. Various matrix decompositions are provided through optional integration with LAPACK and ATLAS libraries. The 'RcppArmadillo' package includes the header files from the templated 'Armadillo' library. Thus users do not need to install 'Armadillo' itself in order to use 'RcppArmadillo'. From release 7.800.0 on, 'Armadillo' is licensed under Apache License 2; previous releases were under licensed as MPL 2.0 from version 3.800.0 onwards and LGPL-3 prior to that; 'RcppArmadillo' (the 'Rcpp' bindings/bridge to Armadillo) is licensed under the GNU GPL version 2 or later, as is the rest of 'Rcpp'.", "License": "GPL (>= 2)", @@ -685,7 +685,7 @@ "BugReports": "https://github.com/RcppCore/RcppArmadillo/issues", "RoxygenNote": "6.0.1", "NeedsCompilation": "yes", - "Author": "Dirk Eddelbuettel [aut, cre] (), Romain Francois [aut] (), Doug Bates [aut] (), Binxiang Ni [aut], Conrad Sanderson [aut] ()", + "Author": "Dirk Eddelbuettel [aut, cre] (ORCID: ), Romain Francois [aut] (ORCID: ), Doug Bates [aut] (ORCID: ), Binxiang Ni [aut], Conrad Sanderson [aut] (ORCID: )", "Maintainer": "Dirk Eddelbuettel ", "Repository": "CRAN" }, @@ -762,7 +762,7 @@ }, "V8": { "Package": "V8", - "Version": "6.0.3", + "Version": "6.0.4", "Source": "Repository", "Type": "Package", "Title": "Embedded JavaScript and WebAssembly Engine for R", @@ -792,7 +792,7 @@ "Language": "en-US", "Encoding": "UTF-8", "Biarch": "true", - "Author": "Jeroen Ooms [aut, cre] (), Jan Marvin Garbuszus [ctb]", + "Author": "Jeroen Ooms [aut, cre] (ORCID: ), Jan Marvin Garbuszus [ctb]", "Maintainer": "Jeroen Ooms ", "Repository": "CRAN" }, @@ -967,7 +967,7 @@ }, "bayestestR": { "Package": "bayestestR", - "Version": "0.15.3", + "Version": "0.16.1", "Source": "Repository", "Type": "Package", "Title": "Understand and Describe Bayesian Models and Posterior Distributions", @@ -978,8 +978,8 @@ "R (>= 3.6)" ], "Imports": [ - "insight (>= 1.1.0)", - "datawizard (>= 1.0.2)", + "insight (>= 1.3.1)", + "datawizard (>= 1.1.0)", "graphics", "methods", "stats", @@ -1008,7 +1008,7 @@ "lavaan", "lme4", "logspline (>= 2.1.21)", - "marginaleffects (>= 0.25.0)", + "marginaleffects (>= 0.26.0)", "MASS", "mclust", "mediation", @@ -1041,7 +1041,7 @@ "Config/Needs/website": "easystats/easystatstemplate", "Config/Needs/check": "stan-dev/cmdstanr", "NeedsCompilation": "no", - "Author": "Dominique Makowski [aut, cre] (), Daniel Lüdecke [aut] (), Mattan S. Ben-Shachar [aut] (), Indrajeet Patil [aut] (), Micah K. Wilson [aut] (), Brenton M. Wiernik [aut] (), Paul-Christian Bürkner [rev], Tristan Mahr [rev] (), Henrik Singmann [ctb] (), Quentin F. Gronau [ctb] (), Sam Crawley [ctb] ()", + "Author": "Dominique Makowski [aut, cre] (ORCID: ), Daniel Lüdecke [aut] (ORCID: ), Mattan S. Ben-Shachar [aut] (ORCID: ), Indrajeet Patil [aut] (ORCID: ), Micah K. Wilson [aut] (ORCID: ), Brenton M. Wiernik [aut] (ORCID: ), Paul-Christian Bürkner [rev], Tristan Mahr [rev] (ORCID: ), Henrik Singmann [ctb] (ORCID: ), Quentin F. Gronau [ctb] (ORCID: ), Sam Crawley [ctb] (ORCID: )", "Repository": "CRAN" }, "bigD": { @@ -1567,7 +1567,7 @@ }, "cards": { "Package": "cards", - "Version": "0.6.0", + "Version": "0.6.1", "Source": "Repository", "Title": "Analysis Results Data", "Authors@R": "c( person(\"Daniel D.\", \"Sjoberg\", , \"danield.sjoberg@gmail.com\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0003-0862-2018\")), person(\"Becca\", \"Krouse\", , \"becca.z.krouse@gsk.com\", role = \"aut\"), person(\"Emily\", \"de la Rua\", , \"emily.de_la_rua@contractors.roche.com\", role = \"aut\"), person(\"F. Hoffmann-La Roche AG\", role = c(\"cph\", \"fnd\")), person(\"GlaxoSmithKline Research & Development Limited\", role = \"cph\") )", @@ -1592,7 +1592,7 @@ "withr (>= 3.0.0)" ], "Config/Needs/coverage": "hms", - "Config/Needs/website": "rmarkdown, jsonlite, yaml, gtsummary, tfrmt, cardx, gt, fontawesome, insightsengineering/nesttemplate", + "Config/Needs/website": "rmarkdown, jsonlite, yaml, ddsjoberg/gtsummary, tfrmt, cardx, gt, fontawesome, insightsengineering/nesttemplate", "Config/testthat/edition": "3", "Config/testthat/parallel": "true", "Encoding": "UTF-8", @@ -1600,13 +1600,13 @@ "LazyData": "true", "RoxygenNote": "7.3.2", "NeedsCompilation": "no", - "Author": "Daniel D. Sjoberg [aut, cre] (), Becca Krouse [aut], Emily de la Rua [aut], F. Hoffmann-La Roche AG [cph, fnd], GlaxoSmithKline Research & Development Limited [cph]", + "Author": "Daniel D. Sjoberg [aut, cre] (ORCID: ), Becca Krouse [aut], Emily de la Rua [aut], F. Hoffmann-La Roche AG [cph, fnd], GlaxoSmithKline Research & Development Limited [cph]", "Maintainer": "Daniel D. Sjoberg ", "Repository": "CRAN" }, "cardx": { "Package": "cardx", - "Version": "0.2.4", + "Version": "0.2.5", "Source": "Repository", "Title": "Extra Analysis Results Data Utilities", "Authors@R": "c( person(\"Daniel D.\", \"Sjoberg\", , \"danield.sjoberg@gmail.com\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0003-0862-2018\")), person(\"Abinaya\", \"Yogasekaram\", , \"abinaya.yogasekaram@contractors.roche.com\", role = \"aut\"), person(\"Emily\", \"de la Rua\", , \"emily.de_la_rua@contractors.roche.com\", role = \"aut\"), person(\"F. Hoffmann-La Roche AG\", role = c(\"cph\", \"fnd\")) )", @@ -1618,7 +1618,7 @@ "R (>= 4.2)" ], "Imports": [ - "cards (>= 0.5.1)", + "cards (>= 0.6.1)", "cli (>= 3.6.1)", "dplyr (>= 1.1.2)", "glue (>= 1.6.2)", @@ -1651,7 +1651,7 @@ "Language": "en-US", "RoxygenNote": "7.3.2", "NeedsCompilation": "no", - "Author": "Daniel D. Sjoberg [aut, cre] (), Abinaya Yogasekaram [aut], Emily de la Rua [aut], F. Hoffmann-La Roche AG [cph, fnd]", + "Author": "Daniel D. Sjoberg [aut, cre] (ORCID: ), Abinaya Yogasekaram [aut], Emily de la Rua [aut], F. Hoffmann-La Roche AG [cph, fnd]", "Maintainer": "Daniel D. Sjoberg ", "Repository": "CRAN" }, @@ -1984,7 +1984,7 @@ }, "commonmark": { "Package": "commonmark", - "Version": "1.9.5", + "Version": "2.0.0", "Source": "Repository", "Type": "Package", "Title": "High Performance CommonMark and Github Markdown Rendering in R", @@ -2002,13 +2002,13 @@ "Language": "en-US", "Encoding": "UTF-8", "NeedsCompilation": "yes", - "Author": "Jeroen Ooms [aut, cre] (), John MacFarlane [cph] (Author of cmark)", + "Author": "Jeroen Ooms [aut, cre] (ORCID: ), John MacFarlane [cph] (Author of cmark)", "Maintainer": "Jeroen Ooms ", "Repository": "CRAN" }, "correlation": { "Package": "correlation", - "Version": "0.8.7", + "Version": "0.8.8", "Source": "Repository", "Type": "Package", "Title": "Methods for Correlation Analysis", @@ -2022,11 +2022,11 @@ "R (>= 4.1)" ], "Imports": [ - "bayestestR (>= 0.15.0)", + "bayestestR (>= 0.16.0)", "datasets", - "datawizard (>= 1.0.0)", - "insight (>= 1.0.0)", - "parameters (>= 0.24.0)", + "datawizard (>= 1.1.0)", + "insight (>= 1.3.1)", + "parameters (>= 0.26.0)", "stats" ], "Suggests": [ @@ -2061,7 +2061,7 @@ "Config/testthat/edition": "3", "Config/Needs/website": "rstudio/bslib, r-lib/pkgdown, easystats/easystatstemplate", "NeedsCompilation": "no", - "Author": "Dominique Makowski [aut, inv] (), Brenton M. Wiernik [aut, cre] (), Indrajeet Patil [aut] (), Daniel Lüdecke [aut] (), Mattan S. Ben-Shachar [aut] (), Rémi Thériault [aut] (), Mark White [rev], Maximilian M. Rabe [rev] ()", + "Author": "Dominique Makowski [aut, inv] (ORCID: ), Brenton M. Wiernik [aut, cre] (ORCID: ), Indrajeet Patil [aut] (ORCID: ), Daniel Lüdecke [aut] (ORCID: ), Mattan S. Ben-Shachar [aut] (ORCID: ), Rémi Thériault [aut] (ORCID: ), Mark White [rev], Maximilian M. Rabe [rev] (ORCID: )", "Repository": "CRAN" }, "cpp11": { @@ -2174,14 +2174,14 @@ }, "curl": { "Package": "curl", - "Version": "6.2.2", + "Version": "6.4.0", "Source": "Repository", "Type": "Package", "Title": "A Modern and Flexible Web Client for R", "Authors@R": "c( person(\"Jeroen\", \"Ooms\", role = c(\"aut\", \"cre\"), email = \"jeroenooms@gmail.com\", comment = c(ORCID = \"0000-0002-4035-0289\")), person(\"Hadley\", \"Wickham\", role = \"ctb\"), person(\"Posit Software, PBC\", role = \"cph\"))", "Description": "Bindings to 'libcurl' for performing fully configurable HTTP/FTP requests where responses can be processed in memory, on disk, or streaming via the callback or connection interfaces. Some knowledge of 'libcurl' is recommended; for a more-user-friendly web client see the 'httr2' package which builds on this package with http specific tools and logic.", "License": "MIT + file LICENSE", - "SystemRequirements": "libcurl (>= 7.62): libcurl-devel (rpm) or libcurl4-openssl-dev (deb)", + "SystemRequirements": "libcurl (>= 7.73): libcurl-devel (rpm) or libcurl4-openssl-dev (deb)", "URL": "https://jeroen.r-universe.dev/curl", "BugReports": "https://github.com/jeroen/curl/issues", "Suggests": [ @@ -2202,13 +2202,13 @@ "Encoding": "UTF-8", "Language": "en-US", "NeedsCompilation": "yes", - "Author": "Jeroen Ooms [aut, cre] (), Hadley Wickham [ctb], Posit Software, PBC [cph]", + "Author": "Jeroen Ooms [aut, cre] (ORCID: ), Hadley Wickham [ctb], Posit Software, PBC [cph]", "Maintainer": "Jeroen Ooms ", "Repository": "CRAN" }, "data.table": { "Package": "data.table", - "Version": "1.17.0", + "Version": "1.17.8", "Source": "Repository", "Title": "Extension of `data.frame`", "Depends": [ @@ -2236,7 +2236,7 @@ "ByteCompile": "TRUE", "Authors@R": "c( person(\"Tyson\",\"Barrett\", role=c(\"aut\",\"cre\"), email=\"t.barrett88@gmail.com\", comment = c(ORCID=\"0000-0002-2137-1391\")), person(\"Matt\",\"Dowle\", role=\"aut\", email=\"mattjdowle@gmail.com\"), person(\"Arun\",\"Srinivasan\", role=\"aut\", email=\"asrini@pm.me\"), person(\"Jan\",\"Gorecki\", role=\"aut\"), person(\"Michael\",\"Chirico\", role=\"aut\", comment = c(ORCID=\"0000-0003-0787-087X\")), person(\"Toby\",\"Hocking\", role=\"aut\", comment = c(ORCID=\"0000-0002-3146-0865\")), person(\"Benjamin\",\"Schwendinger\",role=\"aut\", comment = c(ORCID=\"0000-0003-3315-8114\")), person(\"Ivan\", \"Krylov\", role=\"aut\", email=\"ikrylov@disroot.org\", comment = c(ORCID=\"0000-0002-0172-3812\")), person(\"Pasha\",\"Stetsenko\", role=\"ctb\"), person(\"Tom\",\"Short\", role=\"ctb\"), person(\"Steve\",\"Lianoglou\", role=\"ctb\"), person(\"Eduard\",\"Antonyan\", role=\"ctb\"), person(\"Markus\",\"Bonsch\", role=\"ctb\"), person(\"Hugh\",\"Parsonage\", role=\"ctb\"), person(\"Scott\",\"Ritchie\", role=\"ctb\"), person(\"Kun\",\"Ren\", role=\"ctb\"), person(\"Xianying\",\"Tan\", role=\"ctb\"), person(\"Rick\",\"Saporta\", role=\"ctb\"), person(\"Otto\",\"Seiskari\", role=\"ctb\"), person(\"Xianghui\",\"Dong\", role=\"ctb\"), person(\"Michel\",\"Lang\", role=\"ctb\"), person(\"Watal\",\"Iwasaki\", role=\"ctb\"), person(\"Seth\",\"Wenchel\", role=\"ctb\"), person(\"Karl\",\"Broman\", role=\"ctb\"), person(\"Tobias\",\"Schmidt\", role=\"ctb\"), person(\"David\",\"Arenburg\", role=\"ctb\"), person(\"Ethan\",\"Smith\", role=\"ctb\"), person(\"Francois\",\"Cocquemas\", role=\"ctb\"), person(\"Matthieu\",\"Gomez\", role=\"ctb\"), person(\"Philippe\",\"Chataignon\", role=\"ctb\"), person(\"Nello\",\"Blaser\", role=\"ctb\"), person(\"Dmitry\",\"Selivanov\", role=\"ctb\"), person(\"Andrey\",\"Riabushenko\", role=\"ctb\"), person(\"Cheng\",\"Lee\", role=\"ctb\"), person(\"Declan\",\"Groves\", role=\"ctb\"), person(\"Daniel\",\"Possenriede\", role=\"ctb\"), person(\"Felipe\",\"Parages\", role=\"ctb\"), person(\"Denes\",\"Toth\", role=\"ctb\"), person(\"Mus\",\"Yaramaz-David\", role=\"ctb\"), person(\"Ayappan\",\"Perumal\", role=\"ctb\"), person(\"James\",\"Sams\", role=\"ctb\"), person(\"Martin\",\"Morgan\", role=\"ctb\"), person(\"Michael\",\"Quinn\", role=\"ctb\"), person(\"@javrucebo\",\"\", role=\"ctb\"), person(\"@marc-outins\",\"\", role=\"ctb\"), person(\"Roy\",\"Storey\", role=\"ctb\"), person(\"Manish\",\"Saraswat\", role=\"ctb\"), person(\"Morgan\",\"Jacob\", role=\"ctb\"), person(\"Michael\",\"Schubmehl\", role=\"ctb\"), person(\"Davis\",\"Vaughan\", role=\"ctb\"), person(\"Leonardo\",\"Silvestri\", role=\"ctb\"), person(\"Jim\",\"Hester\", role=\"ctb\"), person(\"Anthony\",\"Damico\", role=\"ctb\"), person(\"Sebastian\",\"Freundt\", role=\"ctb\"), person(\"David\",\"Simons\", role=\"ctb\"), person(\"Elliott\",\"Sales de Andrade\", role=\"ctb\"), person(\"Cole\",\"Miller\", role=\"ctb\"), person(\"Jens Peder\",\"Meldgaard\", role=\"ctb\"), person(\"Vaclav\",\"Tlapak\", role=\"ctb\"), person(\"Kevin\",\"Ushey\", role=\"ctb\"), person(\"Dirk\",\"Eddelbuettel\", role=\"ctb\"), person(\"Tony\",\"Fischetti\", role=\"ctb\"), person(\"Ofek\",\"Shilon\", role=\"ctb\"), person(\"Vadim\",\"Khotilovich\", role=\"ctb\"), person(\"Hadley\",\"Wickham\", role=\"ctb\"), person(\"Bennet\",\"Becker\", role=\"ctb\"), person(\"Kyle\",\"Haynes\", role=\"ctb\"), person(\"Boniface Christian\",\"Kamgang\", role=\"ctb\"), person(\"Olivier\",\"Delmarcell\", role=\"ctb\"), person(\"Josh\",\"O'Brien\", role=\"ctb\"), person(\"Dereck\",\"de Mezquita\", role=\"ctb\"), person(\"Michael\",\"Czekanski\", role=\"ctb\"), person(\"Dmitry\", \"Shemetov\", role=\"ctb\"), person(\"Nitish\", \"Jha\", role=\"ctb\"), person(\"Joshua\", \"Wu\", role=\"ctb\"), person(\"Iago\", \"Giné-Vázquez\", role=\"ctb\"), person(\"Anirban\", \"Chetia\", role=\"ctb\"), person(\"Doris\", \"Amoakohene\", role=\"ctb\"), person(\"Angel\", \"Feliz\", role=\"ctb\"), person(\"Michael\",\"Young\", role=\"ctb\"), person(\"Mark\", \"Seeto\", role=\"ctb\"), person(\"Philippe\", \"Grosjean\", role=\"ctb\"), person(\"Vincent\", \"Runge\", role=\"ctb\"), person(\"Christian\", \"Wia\", role=\"ctb\"), person(\"Elise\", \"Maigné\", role=\"ctb\"), person(\"Vincent\", \"Rocher\", role=\"ctb\"), person(\"Vijay\", \"Lulla\", role=\"ctb\"), person(\"Aljaž\", \"Sluga\", role=\"ctb\"), person(\"Bill\", \"Evans\", role=\"ctb\") )", "NeedsCompilation": "yes", - "Author": "Tyson Barrett [aut, cre] (), Matt Dowle [aut], Arun Srinivasan [aut], Jan Gorecki [aut], Michael Chirico [aut] (), Toby Hocking [aut] (), Benjamin Schwendinger [aut] (), Ivan Krylov [aut] (), Pasha Stetsenko [ctb], Tom Short [ctb], Steve Lianoglou [ctb], Eduard Antonyan [ctb], Markus Bonsch [ctb], Hugh Parsonage [ctb], Scott Ritchie [ctb], Kun Ren [ctb], Xianying Tan [ctb], Rick Saporta [ctb], Otto Seiskari [ctb], Xianghui Dong [ctb], Michel Lang [ctb], Watal Iwasaki [ctb], Seth Wenchel [ctb], Karl Broman [ctb], Tobias Schmidt [ctb], David Arenburg [ctb], Ethan Smith [ctb], Francois Cocquemas [ctb], Matthieu Gomez [ctb], Philippe Chataignon [ctb], Nello Blaser [ctb], Dmitry Selivanov [ctb], Andrey Riabushenko [ctb], Cheng Lee [ctb], Declan Groves [ctb], Daniel Possenriede [ctb], Felipe Parages [ctb], Denes Toth [ctb], Mus Yaramaz-David [ctb], Ayappan Perumal [ctb], James Sams [ctb], Martin Morgan [ctb], Michael Quinn [ctb], @javrucebo [ctb], @marc-outins [ctb], Roy Storey [ctb], Manish Saraswat [ctb], Morgan Jacob [ctb], Michael Schubmehl [ctb], Davis Vaughan [ctb], Leonardo Silvestri [ctb], Jim Hester [ctb], Anthony Damico [ctb], Sebastian Freundt [ctb], David Simons [ctb], Elliott Sales de Andrade [ctb], Cole Miller [ctb], Jens Peder Meldgaard [ctb], Vaclav Tlapak [ctb], Kevin Ushey [ctb], Dirk Eddelbuettel [ctb], Tony Fischetti [ctb], Ofek Shilon [ctb], Vadim Khotilovich [ctb], Hadley Wickham [ctb], Bennet Becker [ctb], Kyle Haynes [ctb], Boniface Christian Kamgang [ctb], Olivier Delmarcell [ctb], Josh O'Brien [ctb], Dereck de Mezquita [ctb], Michael Czekanski [ctb], Dmitry Shemetov [ctb], Nitish Jha [ctb], Joshua Wu [ctb], Iago Giné-Vázquez [ctb], Anirban Chetia [ctb], Doris Amoakohene [ctb], Angel Feliz [ctb], Michael Young [ctb], Mark Seeto [ctb], Philippe Grosjean [ctb], Vincent Runge [ctb], Christian Wia [ctb], Elise Maigné [ctb], Vincent Rocher [ctb], Vijay Lulla [ctb], Aljaž Sluga [ctb], Bill Evans [ctb]", + "Author": "Tyson Barrett [aut, cre] (ORCID: ), Matt Dowle [aut], Arun Srinivasan [aut], Jan Gorecki [aut], Michael Chirico [aut] (ORCID: ), Toby Hocking [aut] (ORCID: ), Benjamin Schwendinger [aut] (ORCID: ), Ivan Krylov [aut] (ORCID: ), Pasha Stetsenko [ctb], Tom Short [ctb], Steve Lianoglou [ctb], Eduard Antonyan [ctb], Markus Bonsch [ctb], Hugh Parsonage [ctb], Scott Ritchie [ctb], Kun Ren [ctb], Xianying Tan [ctb], Rick Saporta [ctb], Otto Seiskari [ctb], Xianghui Dong [ctb], Michel Lang [ctb], Watal Iwasaki [ctb], Seth Wenchel [ctb], Karl Broman [ctb], Tobias Schmidt [ctb], David Arenburg [ctb], Ethan Smith [ctb], Francois Cocquemas [ctb], Matthieu Gomez [ctb], Philippe Chataignon [ctb], Nello Blaser [ctb], Dmitry Selivanov [ctb], Andrey Riabushenko [ctb], Cheng Lee [ctb], Declan Groves [ctb], Daniel Possenriede [ctb], Felipe Parages [ctb], Denes Toth [ctb], Mus Yaramaz-David [ctb], Ayappan Perumal [ctb], James Sams [ctb], Martin Morgan [ctb], Michael Quinn [ctb], @javrucebo [ctb], @marc-outins [ctb], Roy Storey [ctb], Manish Saraswat [ctb], Morgan Jacob [ctb], Michael Schubmehl [ctb], Davis Vaughan [ctb], Leonardo Silvestri [ctb], Jim Hester [ctb], Anthony Damico [ctb], Sebastian Freundt [ctb], David Simons [ctb], Elliott Sales de Andrade [ctb], Cole Miller [ctb], Jens Peder Meldgaard [ctb], Vaclav Tlapak [ctb], Kevin Ushey [ctb], Dirk Eddelbuettel [ctb], Tony Fischetti [ctb], Ofek Shilon [ctb], Vadim Khotilovich [ctb], Hadley Wickham [ctb], Bennet Becker [ctb], Kyle Haynes [ctb], Boniface Christian Kamgang [ctb], Olivier Delmarcell [ctb], Josh O'Brien [ctb], Dereck de Mezquita [ctb], Michael Czekanski [ctb], Dmitry Shemetov [ctb], Nitish Jha [ctb], Joshua Wu [ctb], Iago Giné-Vázquez [ctb], Anirban Chetia [ctb], Doris Amoakohene [ctb], Angel Feliz [ctb], Michael Young [ctb], Mark Seeto [ctb], Philippe Grosjean [ctb], Vincent Runge [ctb], Christian Wia [ctb], Elise Maigné [ctb], Vincent Rocher [ctb], Vijay Lulla [ctb], Aljaž Sluga [ctb], Bill Evans [ctb]", "Maintainer": "Tyson Barrett ", "Repository": "CRAN" }, @@ -2291,7 +2291,7 @@ }, "datawizard": { "Package": "datawizard", - "Version": "1.0.2", + "Version": "1.2.0", "Source": "Repository", "Type": "Package", "Title": "Easy Data Wrangling and Statistical Transformations", @@ -2305,13 +2305,14 @@ "R (>= 4.0)" ], "Imports": [ - "insight (>= 1.0.2)", + "insight (>= 1.3.1)", "stats", "utils" ], "Suggests": [ "bayestestR", "boot", + "BH", "brms", "curl", "data.table", @@ -2327,7 +2328,9 @@ "lme4", "mediation", "modelbased", + "nanoparquet", "parameters (>= 0.21.7)", + "performance (>= 0.14.0)", "poorman (>= 0.2.7)", "psych", "readxl", @@ -2349,7 +2352,7 @@ "Config/testthat/parallel": "true", "Config/Needs/website": "easystats/easystatstemplate", "NeedsCompilation": "no", - "Author": "Indrajeet Patil [aut] (), Etienne Bacher [aut, cre] (), Dominique Makowski [aut] (), Daniel Lüdecke [aut] (), Mattan S. Ben-Shachar [aut] (), Brenton M. Wiernik [aut] (), Rémi Thériault [ctb] (), Thomas J. Faulkenberry [rev], Robert Garrett [rev]", + "Author": "Indrajeet Patil [aut] (ORCID: ), Etienne Bacher [aut, cre] (ORCID: ), Dominique Makowski [aut] (ORCID: ), Daniel Lüdecke [aut] (ORCID: ), Mattan S. Ben-Shachar [aut] (ORCID: ), Brenton M. Wiernik [aut] (ORCID: ), Rémi Thériault [ctb] (ORCID: ), Thomas J. Faulkenberry [rev], Robert Garrett [rev]", "Repository": "CRAN" }, "desc": { @@ -2595,7 +2598,7 @@ }, "easystats": { "Package": "easystats", - "Version": "0.7.4", + "Version": "0.7.5", "Source": "Repository", "Type": "Package", "Title": "Framework for Easy Statistical Modeling, Visualization, and Reporting", @@ -2609,16 +2612,16 @@ "R (>= 3.6)" ], "Imports": [ - "bayestestR (>= 0.15.1)", - "correlation (>= 0.8.6)", - "datawizard (>= 1.0.0)", - "effectsize (>= 1.0.0)", - "insight (>= 1.0.1)", - "modelbased (>= 0.9.0)", - "parameters (>= 0.24.1)", - "performance (>= 0.13.0)", - "report (>= 0.6.0)", - "see (>= 0.10.0)", + "bayestestR (>= 0.16.1)", + "correlation (>= 0.8.8)", + "datawizard (>= 1.1.0)", + "effectsize (>= 1.0.1)", + "insight (>= 1.3.1)", + "modelbased (>= 0.12.0)", + "parameters (>= 0.27.0)", + "performance (>= 0.15.0)", + "report (>= 0.6.1)", + "see (>= 0.11.0)", "tools", "utils" ], @@ -2637,6 +2640,7 @@ "mockery", "pak", "patchwork", + "scholar", "rmarkdown", "testthat (>= 3.2.1)", "withr", @@ -2649,36 +2653,36 @@ "Config/testthat/edition": "3", "Config/Needs/website": "easystats/easystatstemplate", "NeedsCompilation": "no", - "Author": "Daniel Lüdecke [aut, cre] (), Dominique Makowski [aut] (), Mattan S. Ben-Shachar [aut] (), Indrajeet Patil [aut] (), Brenton M. Wiernik [aut] (), Etienne Bacher [aut] (), Rémi Thériault [aut] ()", + "Author": "Daniel Lüdecke [aut, cre] (ORCID: ), Dominique Makowski [aut] (ORCID: ), Mattan S. Ben-Shachar [aut] (ORCID: ), Indrajeet Patil [aut] (ORCID: ), Brenton M. Wiernik [aut] (ORCID: ), Etienne Bacher [aut] (ORCID: ), Rémi Thériault [aut] (ORCID: )", "Repository": "CRAN" }, "effectsize": { "Package": "effectsize", - "Version": "1.0.0", + "Version": "1.0.1", "Source": "Repository", "Type": "Package", "Title": "Indices of Effect Size", - "Authors@R": "c(person(given = \"Mattan S.\", family = \"Ben-Shachar\", role = c(\"aut\", \"cre\"), email = \"mattansb@msbstats.info\", comment = c(ORCID = \"0000-0002-4287-4801\")), person(given = \"Dominique\", family = \"Makowski\", role = \"aut\", email = \"dom.makowski@gmail.com\", comment = c(ORCID = \"0000-0001-5375-9967\")), person(given = \"Daniel\", family = \"Lüdecke\", role = \"aut\", email = \"d.luedecke@uke.de\", comment = c(ORCID = \"0000-0002-8895-3206\")), person(given = \"Indrajeet\", family = \"Patil\", role = \"aut\", email = \"patilindrajeet.science@gmail.com\", comment = c(ORCID = \"0000-0003-1995-6531\")), person(given = \"Brenton M.\", family = \"Wiernik\", role = \"aut\", email = \"brenton@wiernik.org\", comment = c(ORCID = \"0000-0001-9560-6336\")), person(given = \"Rémi\", family = \"Thériault\", role = \"aut\", email = \"remi.theriault@mail.mcgill.ca\", comment = c(ORCID = \"0000-0003-4315-6788\")), person(given = \"Ken\", family = \"Kelley\", role = \"ctb\"), person(given = \"David\", family = \"Stanley\", role = \"ctb\"), person(given = \"Aaron\", family = \"Caldwell\", role = \"ctb\", email = \"arcaldwell49@gmail.com\", comment = c(ORCID = \"0000-0002-4541-6283\")), person(given = \"Jessica\", family = \"Burnett\", role = \"rev\", email = \"jburnett@usgs.gov\", comment = c(ORCID = \"0000-0002-0896-5099\")), person(given = \"Johannes\", family = \"Karreth\", role = \"rev\", email = \"jkarreth@ursinus.edu\", comment = c(ORCID = \"0000-0003-4586-7153\")), person(given = \"Philip\", family = \"Waggoner\", role = c(\"aut\", \"ctb\"), email = \"philip.waggoner@gmail.com\", comment = c(ORCID = \"0000-0002-7825-7573\")))", + "Authors@R": "c(person(given = \"Mattan S.\", family = \"Ben-Shachar\", role = c(\"aut\", \"cre\"), email = \"mattansb@msbstats.info\", comment = c(ORCID = \"0000-0002-4287-4801\")), person(given = \"Dominique\", family = \"Makowski\", role = \"aut\", email = \"dom.makowski@gmail.com\", comment = c(ORCID = \"0000-0001-5375-9967\")), person(given = \"Daniel\", family = \"Lüdecke\", role = \"aut\", email = \"d.luedecke@uke.de\", comment = c(ORCID = \"0000-0002-8895-3206\")), person(given = \"Indrajeet\", family = \"Patil\", role = \"aut\", email = \"patilindrajeet.science@gmail.com\", comment = c(ORCID = \"0000-0003-1995-6531\")), person(given = \"Brenton M.\", family = \"Wiernik\", role = \"aut\", email = \"brenton@wiernik.org\", comment = c(ORCID = \"0000-0001-9560-6336\")), person(given = \"Rémi\", family = \"Thériault\", role = \"aut\", email = \"remi.theriault@mail.mcgill.ca\", comment = c(ORCID = \"0000-0003-4315-6788\")), person(given = \"Ken\", family = \"Kelley\", role = \"ctb\"), person(given = \"David\", family = \"Stanley\", role = \"ctb\"), person(given = \"Aaron\", family = \"Caldwell\", role = \"ctb\", email = \"arcaldwell49@gmail.com\", comment = c(ORCID = \"0000-0002-4541-6283\")), person(given = \"Jessica\", family = \"Burnett\", role = \"rev\", email = \"jburnett@usgs.gov\", comment = c(ORCID = \"0000-0002-0896-5099\")), person(given = \"Johannes\", family = \"Karreth\", role = \"rev\", email = \"jkarreth@ursinus.edu\", comment = c(ORCID = \"0000-0003-4586-7153\")), person(given = \"Philip\", family = \"Waggoner\", role = c(\"aut\", \"ctb\"), email = \"philip.waggoner@gmail.com\", comment = c(ORCID = \"0000-0002-7825-7573\")))", "Maintainer": "Mattan S. Ben-Shachar ", - "Description": "Provide utilities to work with indices of effect size for a wide variety of models and hypothesis tests (see list of supported models using the function 'insight::supported_models()'), allowing computation of and conversion between indices such as Cohen's d, r, odds, etc. References: Ben-Shachar et al. (2020) .", + "Description": "Provide utilities to work with indices of effect size for a wide variety of models and hypothesis tests (see list of supported models using the function 'insight::supported_models()'), allowing computation of and conversion between indices such as Cohen's d, r, odds, etc. References: Ben-Shachar et al. (2020) .", "License": "MIT + file LICENSE", "URL": "https://easystats.github.io/effectsize/", "BugReports": "https://github.com/easystats/effectsize/issues/", "Depends": [ - "R (>= 3.6)" + "R (>= 4.0)" ], "Imports": [ - "bayestestR (>= 0.15.0)", - "insight (>= 1.0.0)", - "parameters (>= 0.24.0)", - "performance (>= 0.12.4)", - "datawizard (>= 0.13.0)", + "bayestestR (>= 0.16.0)", + "insight (>= 1.3.0)", + "parameters (>= 0.26.0)", + "performance (>= 0.14.0)", + "datawizard (>= 1.1.0)", "stats", "utils" ], "Suggests": [ - "correlation (>= 0.8.4)", - "see (>= 0.8.0)", + "correlation (>= 0.8.7)", + "see (>= 0.11.0)", "afex", "BayesFactor", "boot", @@ -2707,16 +2711,16 @@ "Config/testthat/parallel": "true", "Config/Needs/website": "rstudio/bslib, r-lib/pkgdown, easystats/easystatstemplate", "NeedsCompilation": "no", - "Author": "Mattan S. Ben-Shachar [aut, cre] (), Dominique Makowski [aut] (), Daniel Lüdecke [aut] (), Indrajeet Patil [aut] (), Brenton M. Wiernik [aut] (), Rémi Thériault [aut] (), Ken Kelley [ctb], David Stanley [ctb], Aaron Caldwell [ctb] (), Jessica Burnett [rev] (), Johannes Karreth [rev] (), Philip Waggoner [aut, ctb] ()", + "Author": "Mattan S. Ben-Shachar [aut, cre] (ORCID: ), Dominique Makowski [aut] (ORCID: ), Daniel Lüdecke [aut] (ORCID: ), Indrajeet Patil [aut] (ORCID: ), Brenton M. Wiernik [aut] (ORCID: ), Rémi Thériault [aut] (ORCID: ), Ken Kelley [ctb], David Stanley [ctb], Aaron Caldwell [ctb] (ORCID: ), Jessica Burnett [rev] (ORCID: ), Johannes Karreth [rev] (ORCID: ), Philip Waggoner [aut, ctb] (ORCID: )", "Repository": "CRAN" }, "emmeans": { "Package": "emmeans", - "Version": "1.11.1", + "Version": "1.11.2", "Source": "Repository", "Type": "Package", "Title": "Estimated Marginal Means, aka Least-Squares Means", - "Date": "2025-05-03", + "Date": "2025-07-11", "Authors@R": "c(person(\"Russell V.\", \"Lenth\", role = c(\"aut\", \"cre\", \"cph\"), email = \"russell-lenth@uiowa.edu\"), person(\"Balazs\", \"Banfai\", role = \"ctb\"), person(\"Ben\", \"Bolker\", role = \"ctb\"), person(\"Paul\", \"Buerkner\", role = \"ctb\"), person(\"Iago\", \"Giné-Vázquez\", role = \"ctb\"), person(\"Maxime\", \"Herve\", role = \"ctb\"), person(\"Maarten\", \"Jung\", role = \"ctb\"), person(\"Jonathon\", \"Love\", role = \"ctb\"), person(\"Fernando\", \"Miguez\", role = \"ctb\"), person(\"Julia\", \"Piaskowski\", role = \"ctb\"), person(\"Hannes\", \"Riebl\", role = \"ctb\"), person(\"Henrik\", \"Singmann\", role = \"ctb\"))", "Depends": [ "R (>= 4.1.0)" @@ -2914,7 +2918,7 @@ }, "evaluate": { "Package": "evaluate", - "Version": "1.0.3", + "Version": "1.0.4", "Source": "Repository", "Type": "Package", "Title": "Parsing and Evaluation Tools that Provide More Details than the Default", @@ -2933,7 +2937,8 @@ "lattice", "methods", "pkgload", - "rlang", + "ragg (>= 1.4.0)", + "rlang (>= 1.1.5)", "knitr", "testthat (>= 3.0.0)", "withr" @@ -2943,7 +2948,7 @@ "Encoding": "UTF-8", "RoxygenNote": "7.3.2", "NeedsCompilation": "no", - "Author": "Hadley Wickham [aut, cre], Yihui Xie [aut] (), Michael Lawrence [ctb], Thomas Kluyver [ctb], Jeroen Ooms [ctb], Barret Schloerke [ctb], Adam Ryczkowski [ctb], Hiroaki Yutani [ctb], Michel Lang [ctb], Karolis Koncevičius [ctb], Posit Software, PBC [cph, fnd]", + "Author": "Hadley Wickham [aut, cre], Yihui Xie [aut] (ORCID: ), Michael Lawrence [ctb], Thomas Kluyver [ctb], Jeroen Ooms [ctb], Barret Schloerke [ctb], Adam Ryczkowski [ctb], Hiroaki Yutani [ctb], Michel Lang [ctb], Karolis Koncevičius [ctb], Posit Software, PBC [cph, fnd]", "Maintainer": "Hadley Wickham ", "Repository": "CRAN" }, @@ -3050,7 +3055,7 @@ }, "flextable": { "Package": "flextable", - "Version": "0.9.7", + "Version": "0.9.9", "Source": "Repository", "Type": "Package", "Title": "Functions for Tabular Reporting", @@ -3067,7 +3072,7 @@ "grid", "htmltools", "knitr", - "officer (>= 0.6.7)", + "officer (>= 0.6.10)", "ragg", "rlang", "rmarkdown (>= 2.0)", @@ -3106,7 +3111,7 @@ "Encoding": "UTF-8", "RoxygenNote": "7.3.2", "NeedsCompilation": "no", - "Author": "David Gohel [aut, cre], ArData [cph], Clementine Jager [ctb], Eli Daniels [ctb], Panagiotis Skintzos [aut], Quentin Fazilleau [ctb], Maxim Nazarov [ctb], Titouan Robert [ctb], Michael Barrowman [ctb], Atsushi Yasumoto [ctb], Paul Julian [ctb], Sean Browning [ctb], Rémi Thériault [ctb] (), Samuel Jobert [ctb], Keith Newman [ctb]", + "Author": "David Gohel [aut, cre], ArData [cph], Clementine Jager [ctb], Eli Daniels [ctb], Panagiotis Skintzos [aut], Quentin Fazilleau [ctb], Maxim Nazarov [ctb], Titouan Robert [ctb], Michael Barrowman [ctb], Atsushi Yasumoto [ctb], Paul Julian [ctb], Sean Browning [ctb], Rémi Thériault [ctb] (ORCID: ), Samuel Jobert [ctb], Keith Newman [ctb]", "Maintainer": "David Gohel ", "Repository": "CRAN" }, @@ -3498,16 +3503,16 @@ }, "generics": { "Package": "generics", - "Version": "0.1.3", + "Version": "0.1.4", "Source": "Repository", "Title": "Common S3 Generics not Provided by Base R Methods Related to Model Fitting", - "Authors@R": "c( person(\"Hadley\", \"Wickham\", , \"hadley@rstudio.com\", role = c(\"aut\", \"cre\")), person(\"Max\", \"Kuhn\", , \"max@rstudio.com\", role = \"aut\"), person(\"Davis\", \"Vaughan\", , \"davis@rstudio.com\", role = \"aut\"), person(\"RStudio\", role = \"cph\") )", + "Authors@R": "c( person(\"Hadley\", \"Wickham\", , \"hadley@posit.co\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0003-4757-117X\")), person(\"Max\", \"Kuhn\", , \"max@posit.co\", role = \"aut\"), person(\"Davis\", \"Vaughan\", , \"davis@posit.co\", role = \"aut\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\"), comment = c(ROR = \"https://ror.org/03wc8by49\")) )", "Description": "In order to reduce potential package dependencies and conflicts, generics provides a number of commonly used S3 generics.", "License": "MIT + file LICENSE", "URL": "https://generics.r-lib.org, https://github.com/r-lib/generics", "BugReports": "https://github.com/r-lib/generics/issues", "Depends": [ - "R (>= 3.2)" + "R (>= 3.6)" ], "Imports": [ "methods" @@ -3522,10 +3527,10 @@ "Config/Needs/website": "tidyverse/tidytemplate", "Config/testthat/edition": "3", "Encoding": "UTF-8", - "RoxygenNote": "7.2.0", + "RoxygenNote": "7.3.2", "NeedsCompilation": "no", - "Author": "Hadley Wickham [aut, cre], Max Kuhn [aut], Davis Vaughan [aut], RStudio [cph]", - "Maintainer": "Hadley Wickham ", + "Author": "Hadley Wickham [aut, cre] (ORCID: ), Max Kuhn [aut], Davis Vaughan [aut], Posit Software, PBC [cph, fnd] (ROR: )", + "Maintainer": "Hadley Wickham ", "Repository": "CRAN" }, "ggalluvial": { @@ -3611,7 +3616,7 @@ }, "ggforce": { "Package": "ggforce", - "Version": "0.4.2", + "Version": "0.5.0", "Source": "Repository", "Type": "Package", "Title": "Accelerating 'ggplot2'", @@ -3623,11 +3628,10 @@ "License": "MIT + file LICENSE", "Encoding": "UTF-8", "Depends": [ - "ggplot2 (>= 3.3.6)", + "ggplot2 (>= 3.5.0)", "R (>= 3.3.0)" ], "Imports": [ - "Rcpp (>= 0.12.2)", "grid", "scales", "MASS", @@ -3645,23 +3649,21 @@ "vctrs", "systemfonts" ], + "RoxygenNote": "7.3.2", "LinkingTo": [ - "Rcpp", - "RcppEigen" + "cpp11" ], - "RoxygenNote": "7.3.1", "Suggests": [ "sessioninfo", - "concaveman", "deldir", "latex2exp", "reshape2", - "units (>= 0.4-6)", + "units (>= 0.8.0)", "covr" ], - "Collate": "'RcppExports.R' 'aaa.R' 'shape.R' 'arc_bar.R' 'arc.R' 'autodensity.R' 'autohistogram.R' 'autopoint.R' 'bezier.R' 'bspline.R' 'bspline_closed.R' 'circle.R' 'diagonal.R' 'diagonal_wide.R' 'ellipse.R' 'errorbar.R' 'facet_grid_paginate.R' 'facet_matrix.R' 'facet_row.R' 'facet_stereo.R' 'facet_wrap_paginate.R' 'facet_zoom.R' 'ggforce-package.R' 'ggproto-classes.R' 'interpolate.R' 'labeller.R' 'link.R' 'mark_circle.R' 'mark_ellipse.R' 'mark_hull.R' 'mark_label.R' 'mark_rect.R' 'parallel_sets.R' 'position-jitternormal.R' 'position_auto.R' 'position_floatstack.R' 'regon.R' 'scale-depth.R' 'scale-unit.R' 'sina.R' 'spiro.R' 'themes.R' 'trans.R' 'trans_linear.R' 'utilities.R' 'voronoi.R' 'zzz.R'", + "Collate": "'aaa.R' 'shape.R' 'arc_bar.R' 'arc.R' 'autodensity.R' 'autohistogram.R' 'autopoint.R' 'bezier.R' 'bspline.R' 'bspline_closed.R' 'circle.R' 'concaveman.R' 'cpp11.R' 'diagonal.R' 'diagonal_wide.R' 'ellipse.R' 'errorbar.R' 'facet_grid_paginate.R' 'facet_matrix.R' 'facet_row.R' 'facet_stereo.R' 'facet_wrap_paginate.R' 'facet_zoom.R' 'ggforce-package.R' 'ggproto-classes.R' 'interpolate.R' 'labeller.R' 'link.R' 'mark_circle.R' 'mark_ellipse.R' 'mark_hull.R' 'mark_label.R' 'mark_rect.R' 'parallel_sets.R' 'position-jitternormal.R' 'position_auto.R' 'position_floatstack.R' 'regon.R' 'scale-depth.R' 'scale-unit.R' 'sina.R' 'spiro.R' 'themes.R' 'trans.R' 'trans_linear.R' 'utilities.R' 'voronoi.R' 'zzz.R'", "NeedsCompilation": "yes", - "Author": "Thomas Lin Pedersen [cre, aut] (), RStudio [cph]", + "Author": "Thomas Lin Pedersen [cre, aut] (ORCID: ), RStudio [cph]", "Repository": "CRAN" }, "ggplot2": { @@ -3776,7 +3778,7 @@ }, "ggstats": { "Package": "ggstats", - "Version": "0.9.0", + "Version": "0.10.0", "Source": "Repository", "Type": "Package", "Title": "Extension to 'ggplot2' for Plotting Stats", @@ -3829,7 +3831,7 @@ "Language": "en-US", "VignetteBuilder": "knitr", "NeedsCompilation": "no", - "Author": "Joseph Larmarange [aut, cre] ()", + "Author": "Joseph Larmarange [aut, cre] (ORCID: )", "Maintainer": "Joseph Larmarange ", "Repository": "CRAN" }, @@ -4015,7 +4017,7 @@ }, "gtsummary": { "Package": "gtsummary", - "Version": "2.2.0", + "Version": "2.3.0", "Source": "Repository", "Title": "Presentation-Ready Data Summary and Analytic Result Tables", "Authors@R": "c( person(\"Daniel D.\", \"Sjoberg\", , \"danield.sjoberg@gmail.com\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0003-0862-2018\")), person(\"Joseph\", \"Larmarange\", role = \"aut\", comment = c(ORCID = \"0000-0001-7097-700X\")), person(\"Michael\", \"Curry\", role = \"aut\", comment = c(ORCID = \"0000-0002-0261-4044\")), person(\"Emily\", \"de la Rua\", , role = \"aut\", comment = c(ORCID = \"0009-0000-8738-5561\")), person(\"Jessica\", \"Lavery\", role = \"aut\", comment = c(ORCID = \"0000-0002-2746-5647\")), person(\"Karissa\", \"Whiting\", role = \"aut\", comment = c(ORCID = \"0000-0002-4683-1868\")), person(\"Emily C.\", \"Zabor\", role = \"aut\", comment = c(ORCID = \"0000-0002-1402-4498\")), person(\"Xing\", \"Bai\", role = \"ctb\"), person(\"Esther\", \"Drill\", role = \"ctb\", comment = c(ORCID = \"0000-0002-3315-4538\")), person(\"Jessica\", \"Flynn\", role = \"ctb\", comment = c(ORCID = \"0000-0001-8310-6684\")), person(\"Margie\", \"Hannum\", role = \"ctb\", comment = c(ORCID = \"0000-0002-2953-0449\")), person(\"Stephanie\", \"Lobaugh\", role = \"ctb\"), person(\"Shannon\", \"Pileggi\", role = \"ctb\", comment = c(ORCID = \"0000-0002-7732-4164\")), person(\"Amy\", \"Tin\", role = \"ctb\", comment = c(ORCID = \"0000-0002-8005-0694\")), person(\"Gustavo\", \"Zapata Wainberg\", role = \"ctb\", comment = c(ORCID = \"0000-0002-2524-3637\")) )", @@ -4027,7 +4029,7 @@ "R (>= 4.2)" ], "Imports": [ - "cards (>= 0.6.0)", + "cards (>= 0.6.1)", "cli (>= 3.6.3)", "dplyr (>= 1.1.3)", "glue (>= 1.8.0)", @@ -4040,10 +4042,10 @@ "Suggests": [ "aod (>= 1.3.3)", "broom (>= 1.0.5)", - "broom.helpers (>= 1.17.0)", + "broom.helpers (>= 1.20.0)", "broom.mixed (>= 0.2.9)", "car (>= 3.0-11)", - "cardx (>= 0.2.4)", + "cardx (>= 0.2.5)", "cmprsk", "effectsize (>= 0.6.0)", "emmeans (>= 1.7.3)", @@ -4080,13 +4082,13 @@ "LazyData": "true", "RoxygenNote": "7.3.2", "NeedsCompilation": "no", - "Author": "Daniel D. Sjoberg [aut, cre] (), Joseph Larmarange [aut] (), Michael Curry [aut] (), Emily de la Rua [aut] (), Jessica Lavery [aut] (), Karissa Whiting [aut] (), Emily C. Zabor [aut] (), Xing Bai [ctb], Esther Drill [ctb] (), Jessica Flynn [ctb] (), Margie Hannum [ctb] (), Stephanie Lobaugh [ctb], Shannon Pileggi [ctb] (), Amy Tin [ctb] (), Gustavo Zapata Wainberg [ctb] ()", + "Author": "Daniel D. Sjoberg [aut, cre] (ORCID: ), Joseph Larmarange [aut] (ORCID: ), Michael Curry [aut] (ORCID: ), Emily de la Rua [aut] (ORCID: ), Jessica Lavery [aut] (ORCID: ), Karissa Whiting [aut] (ORCID: ), Emily C. Zabor [aut] (ORCID: ), Xing Bai [ctb], Esther Drill [ctb] (ORCID: ), Jessica Flynn [ctb] (ORCID: ), Margie Hannum [ctb] (ORCID: ), Stephanie Lobaugh [ctb], Shannon Pileggi [ctb] (ORCID: ), Amy Tin [ctb] (ORCID: ), Gustavo Zapata Wainberg [ctb] (ORCID: )", "Maintainer": "Daniel D. Sjoberg ", "Repository": "CRAN" }, "haven": { "Package": "haven", - "Version": "2.5.4", + "Version": "2.5.5", "Source": "Repository", "Title": "Import and Export 'SPSS', 'Stata' and 'SAS' Files", "Authors@R": "c( person(\"Hadley\", \"Wickham\", , \"hadley@posit.co\", role = c(\"aut\", \"cre\")), person(\"Evan\", \"Miller\", role = c(\"aut\", \"cph\"), comment = \"Author of included ReadStat code\"), person(\"Danny\", \"Smith\", role = \"aut\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\")) )", @@ -4126,7 +4128,7 @@ "Config/Needs/website": "tidyverse/tidytemplate", "Config/testthat/edition": "3", "Encoding": "UTF-8", - "RoxygenNote": "7.2.3", + "RoxygenNote": "7.3.2", "SystemRequirements": "GNU make, zlib: zlib1g-dev (deb), zlib-devel (rpm)", "NeedsCompilation": "yes", "Author": "Hadley Wickham [aut, cre], Evan Miller [aut, cph] (Author of included ReadStat code), Danny Smith [aut], Posit Software, PBC [cph, fnd]", @@ -4443,7 +4445,7 @@ }, "insight": { "Package": "insight", - "Version": "1.2.0", + "Version": "1.3.1", "Source": "Repository", "Type": "Package", "Title": "Easy Access to Model Information for Various Model Objects", @@ -4490,6 +4492,7 @@ "crch", "curl", "datawizard", + "dbarts", "effectsize", "emmeans", "epiR", @@ -4526,7 +4529,7 @@ "lmtest", "logistf", "logitr", - "marginaleffects (>= 0.25.0)", + "marginaleffects (>= 0.26.0)", "MASS", "Matrix", "mclogit", @@ -4573,6 +4576,7 @@ "rstudioapi", "RWiener", "sandwich", + "sdmTMB", "serp", "speedglm", "splines", @@ -4599,7 +4603,7 @@ "Config/Needs/website": "easystats/easystatstemplate", "Config/Needs/check": "stan-dev/cmdstanr", "NeedsCompilation": "no", - "Author": "Daniel Lüdecke [aut, cre] (), Dominique Makowski [aut, ctb] (), Indrajeet Patil [aut, ctb] (), Philip Waggoner [aut, ctb] (), Mattan S. Ben-Shachar [aut, ctb] (), Brenton M. Wiernik [aut, ctb] (), Vincent Arel-Bundock [aut, ctb] (), Etienne Bacher [aut, ctb] (), Alex Hayes [rev] (), Grant McDermott [ctb] (), Rémi Thériault [ctb] (), Alex Reinhart [ctb] ()", + "Author": "Daniel Lüdecke [aut, cre] (ORCID: ), Dominique Makowski [aut, ctb] (ORCID: ), Indrajeet Patil [aut, ctb] (ORCID: ), Philip Waggoner [aut, ctb] (ORCID: ), Mattan S. Ben-Shachar [aut, ctb] (ORCID: ), Brenton M. Wiernik [aut, ctb] (ORCID: ), Vincent Arel-Bundock [aut, ctb] (ORCID: ), Etienne Bacher [aut, ctb] (ORCID: ), Alex Hayes [rev] (ORCID: ), Grant McDermott [ctb] (ORCID: ), Rémi Thériault [ctb] (ORCID: ), Alex Reinhart [ctb] (ORCID: )", "Repository": "CRAN" }, "isoband": { @@ -4739,25 +4743,21 @@ }, "keyring": { "Package": "keyring", - "Version": "1.3.2", + "Version": "1.4.1", "Source": "Repository", "Title": "Access the System Credential Store from R", - "Authors@R": "c( person(\"Gábor\", \"Csárdi\", , \"csardi.gabor@gmail.com\", role = c(\"aut\", \"cre\")), person(\"Alec\", \"Wong\", role = \"ctb\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\")) )", + "Authors@R": "c( person(\"Gábor\", \"Csárdi\", , \"csardi.gabor@gmail.com\", role = c(\"aut\", \"cre\")), person(\"Alec\", \"Wong\", role = \"ctb\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\"), comment = c(ROR = \"03wc8by49\")) )", "Description": "Platform independent 'API' to access the operating system's credential store. Currently supports: 'Keychain' on 'macOS', Credential Store on 'Windows', the Secret Service 'API' on 'Linux', and simple, platform independent stores implemented with environment variables or encrypted files. Additional storage back-ends can be added easily.", "License": "MIT + file LICENSE", "URL": "https://keyring.r-lib.org/, https://github.com/r-lib/keyring", "BugReports": "https://github.com/r-lib/keyring/issues", "Depends": [ - "R (>= 3.6)" + "R (>= 3.5)" ], "Imports": [ "askpass", - "assertthat", "filelock", - "openssl", "R6", - "rappdirs", - "sodium", "tools", "utils", "yaml" @@ -4765,18 +4765,19 @@ "Suggests": [ "callr", "covr", - "mockery", + "openssl", "testthat (>= 3.0.0)", "withr" ], + "Biarch": "true", "Config/Needs/website": "tidyverse/tidytemplate", "Config/testthat/edition": "3", + "Config/usethis/last-upkeep": "2025-04-30", "Encoding": "UTF-8", - "RoxygenNote": "7.2.3", + "RoxygenNote": "7.3.2.9000", "SystemRequirements": "Optional: libsecret on Linux (libsecret-1-dev on Debian/Ubuntu, libsecret-devel on Fedora/CentOS)", - "Collate": "'api.R' 'assertions.R' 'backend-class.R' 'backend-env.R' 'backend-file.R' 'backend-macos.R' 'backend-secret-service.R' 'backend-wincred.R' 'default_backend.R' 'keyring-package.R' 'package.R' 'pass.R' 'utils.R'", "NeedsCompilation": "yes", - "Author": "Gábor Csárdi [aut, cre], Alec Wong [ctb], Posit Software, PBC [cph, fnd]", + "Author": "Gábor Csárdi [aut, cre], Alec Wong [ctb], Posit Software, PBC [cph, fnd] (ROR: )", "Maintainer": "Gábor Csárdi ", "Repository": "CRAN" }, @@ -4865,7 +4866,7 @@ }, "labelled": { "Package": "labelled", - "Version": "2.14.0", + "Version": "2.14.1", "Source": "Repository", "Type": "Package", "Title": "Manipulating Labelled Data", @@ -4908,7 +4909,7 @@ "Config/testthat/edition": "3", "Config/Needs/check": "memisc", "NeedsCompilation": "no", - "Author": "Joseph Larmarange [aut, cre] (), Daniel Ludecke [ctb], Hadley Wickham [ctb], Michal Bojanowski [ctb], François Briatte [ctb]", + "Author": "Joseph Larmarange [aut, cre] (ORCID: ), Daniel Ludecke [ctb], Hadley Wickham [ctb], Michal Bojanowski [ctb], François Briatte [ctb]", "Repository": "CRAN" }, "later": { @@ -5433,12 +5434,12 @@ }, "modelbased": { "Package": "modelbased", - "Version": "0.10.0", + "Version": "0.12.0", "Source": "Repository", "Type": "Package", "Title": "Estimation of Model-Based Predictions, Contrasts and Means", - "Authors@R": "c(person(given = \"Dominique\", family = \"Makowski\", role = c(\"aut\", \"cre\"), email = \"dom.makowski@gmail.com\", comment = c(ORCID = \"0000-0001-5375-9967\")), person(given = \"Daniel\", family = \"Lüdecke\", role = \"aut\", email = \"d.luedecke@uke.de\", comment = c(ORCID = \"0000-0002-8895-3206\")), person(given = \"Mattan S.\", family = \"Ben-Shachar\", role = \"aut\", email = \"matanshm@post.bgu.ac.il\", comment = c(ORCID = \"0000-0002-4287-4801\")), person(given = \"Indrajeet\", family = \"Patil\", role = \"aut\", email = \"patilindrajeet.science@gmail.com\", comment = c(ORCID = \"0000-0003-1995-6531\")), person(given = \"Rémi\", family = \"Thériault\", role = \"aut\", email = \"remi.theriault@mail.mcgill.ca\", comment = c(ORCID = \"0000-0003-4315-6788\")))", - "Maintainer": "Dominique Makowski ", + "Authors@R": "c(person(given = \"Dominique\", family = \"Makowski\", role = c(\"aut\", \"cre\"), email = \"officialeasystats@gmail.com\", comment = c(ORCID = \"0000-0001-5375-9967\")), person(given = \"Daniel\", family = \"Lüdecke\", role = \"aut\", email = \"d.luedecke@uke.de\", comment = c(ORCID = \"0000-0002-8895-3206\")), person(given = \"Mattan S.\", family = \"Ben-Shachar\", role = \"aut\", email = \"matanshm@post.bgu.ac.il\", comment = c(ORCID = \"0000-0002-4287-4801\")), person(given = \"Indrajeet\", family = \"Patil\", role = \"aut\", email = \"patilindrajeet.science@gmail.com\", comment = c(ORCID = \"0000-0003-1995-6531\")), person(given = \"Rémi\", family = \"Thériault\", role = \"aut\", email = \"remi.theriault@mail.mcgill.ca\", comment = c(ORCID = \"0000-0003-4315-6788\")))", + "Maintainer": "Dominique Makowski ", "Description": "Implements a general interface for model-based estimations for a wide variety of models, used in the computation of marginal means, contrast analysis and predictions. For a list of supported models, see 'insight::supported_models()'.", "License": "GPL-3", "URL": "https://easystats.github.io/modelbased/", @@ -5447,24 +5448,28 @@ "R (>= 3.6)" ], "Imports": [ - "bayestestR (>= 0.15.1)", - "datawizard (>= 1.0.0)", - "insight (>= 1.0.1)", - "parameters (>= 0.24.1)", + "bayestestR (>= 0.16.1)", + "datawizard (>= 1.1.0)", + "insight (>= 1.3.1)", + "parameters (>= 0.27.0)", "graphics", "stats", "tools", "utils" ], "Suggests": [ + "afex", "BH", "betareg", + "boot", "bootES", + "brglm2", "brms", "coda", "collapse", "correlation", "curl", + "discovr", "easystats", "effectsize (>= 1.0.0)", "emmeans (>= 1.10.2)", @@ -5480,12 +5485,15 @@ "logspline", "MASS", "Matrix", - "marginaleffects (>= 0.25.0)", + "marginaleffects (>= 0.26.0)", "mice", "mgcv", + "mvtnorm", "nanoparquet", + "nnet", "ordinal", - "performance (>= 0.13.0)", + "palmerpenguins", + "performance (>= 0.14.0)", "patchwork", "pbkrtest", "poorman", @@ -5495,8 +5503,10 @@ "rmarkdown", "rstanarm", "rtdists", + "RWiener", "sandwich", - "see (>= 0.9.0)", + "see (>= 0.11.0)", + "survival", "testthat (>= 3.2.1)", "vdiffr", "withr" @@ -5511,7 +5521,7 @@ "Config/Needs/website": "easystats/easystatstemplate", "LazyData": "true", "NeedsCompilation": "no", - "Author": "Dominique Makowski [aut, cre] (), Daniel Lüdecke [aut] (), Mattan S. Ben-Shachar [aut] (), Indrajeet Patil [aut] (), Rémi Thériault [aut] ()", + "Author": "Dominique Makowski [aut, cre] (ORCID: ), Daniel Lüdecke [aut] (ORCID: ), Mattan S. Ben-Shachar [aut] (ORCID: ), Indrajeet Patil [aut] (ORCID: ), Rémi Thériault [aut] (ORCID: )", "Repository": "CRAN" }, "mvtnorm": { @@ -5647,11 +5657,11 @@ }, "officer": { "Package": "officer", - "Version": "0.6.8", + "Version": "0.6.10", "Source": "Repository", "Type": "Package", "Title": "Manipulation of Microsoft Word and PowerPoint Documents", - "Authors@R": "c( person(\"David\", \"Gohel\", , \"david.gohel@ardata.fr\", role = c(\"aut\", \"cre\")), person(\"Stefan\", \"Moog\", , \"moogs@gmx.de\", role = \"aut\"), person(\"Mark\", \"Heckmann\", , \"heckmann.mark@gmail.com\", role = \"aut\", comment = c(ORCID = \"0000-0002-0736-7417\")), person(\"ArData\", role = \"cph\"), person(\"Frank\", \"Hangler\", , \"frank@plotandscatter.com\", role = \"ctb\", comment = \"function body_replace_all_text\"), person(\"Liz\", \"Sander\", , \"lsander@civisanalytics.com\", role = \"ctb\", comment = \"several documentation fixes\"), person(\"Anton\", \"Victorson\", , \"anton@victorson.se\", role = \"ctb\", comment = \"fixes xml structures\"), person(\"Jon\", \"Calder\", , \"jonmcalder@gmail.com\", role = \"ctb\", comment = \"update vignettes\"), person(\"John\", \"Harrold\", , \"john.m.harrold@gmail.com\", role = \"ctb\", comment = \"function annotate_base\"), person(\"John\", \"Muschelli\", , \"muschellij2@gmail.com\", role = \"ctb\", comment = \"google doc compatibility\"), person(\"Bill\", \"Denney\", , \"wdenney@humanpredictions.com\", role = \"ctb\", comment = c(ORCID = \"0000-0002-5759-428X\", \"function as.matrix.rpptx\")), person(\"Nikolai\", \"Beck\", , \"beck.nikolai@gmail.com\", role = \"ctb\", comment = \"set speaker notes for .pptx documents\"), person(\"Greg\", \"Leleu\", , \"gregoire.leleu@gmail.com\", role = \"ctb\", comment = \"fields functionality in ppt\"), person(\"Majid\", \"Eismann\", role = \"ctb\"), person(\"Hongyuan\", \"Jia\", , \"hongyuanjia@cqust.edu.cn\", role = \"ctb\", comment = c(ORCID = \"0000-0002-0075-8183\")) )", + "Authors@R": "c( person(\"David\", \"Gohel\", , \"david.gohel@ardata.fr\", role = c(\"aut\", \"cre\")), person(\"Stefan\", \"Moog\", , \"moogs@gmx.de\", role = \"aut\"), person(\"Mark\", \"Heckmann\", , \"heckmann.mark@gmail.com\", role = \"aut\", comment = c(ORCID = \"0000-0002-0736-7417\")), person(\"ArData\", role = \"cph\"), person(\"Frank\", \"Hangler\", , \"frank@plotandscatter.com\", role = \"ctb\", comment = \"function body_replace_all_text\"), person(\"Liz\", \"Sander\", , \"lsander@civisanalytics.com\", role = \"ctb\", comment = \"several documentation fixes\"), person(\"Anton\", \"Victorson\", , \"anton@victorson.se\", role = \"ctb\", comment = \"fixes xml structures\"), person(\"Jon\", \"Calder\", , \"jonmcalder@gmail.com\", role = \"ctb\", comment = \"update vignettes\"), person(\"John\", \"Harrold\", , \"john.m.harrold@gmail.com\", role = \"ctb\", comment = \"function annotate_base\"), person(\"John\", \"Muschelli\", , \"muschellij2@gmail.com\", role = \"ctb\", comment = \"google doc compatibility\"), person(\"Bill\", \"Denney\", , \"wdenney@humanpredictions.com\", role = \"ctb\", comment = c(ORCID = \"0000-0002-5759-428X\", \"function as.matrix.rpptx\")), person(\"Nikolai\", \"Beck\", , \"beck.nikolai@gmail.com\", role = \"ctb\", comment = \"set speaker notes for .pptx documents\"), person(\"Greg\", \"Leleu\", , \"gregoire.leleu@gmail.com\", role = \"ctb\", comment = \"fields functionality in ppt\"), person(\"Majid\", \"Eismann\", role = \"ctb\"), person(\"Hongyuan\", \"Jia\", , \"hongyuanjia@cqust.edu.cn\", role = \"ctb\", comment = c(ORCID = \"0000-0002-0075-8183\")), person(\"Michael\", \"Stackhouse\", , \"mike.stackhouse@atorusresearch.com\", role = \"ctb\") )", "Description": "Access and manipulate 'Microsoft Word', 'RTF' and 'Microsoft PowerPoint' documents from R. The package focuses on tabular and graphical reporting from R; it also provides two functions that let users get document content into data objects. A set of functions lets add and remove images, tables and paragraphs of text in new or existing documents. The package does not require any installation of Microsoft products to be able to write Microsoft files.", "License": "MIT + file LICENSE", "URL": "https://ardata-fr.github.io/officeverse/, https://davidgohel.github.io/officer/", @@ -5683,9 +5693,9 @@ ], "Encoding": "UTF-8", "RoxygenNote": "7.3.2", - "Collate": "'core_properties.R' 'custom_properties.R' 'defunct.R' 'dev-utils.R' 'docx_add.R' 'docx_comments.R' 'docx_cursor.R' 'docx_part.R' 'docx_replace.R' 'docx_section.R' 'docx_settings.R' 'empty_content.R' 'formatting_properties.R' 'fortify_docx.R' 'fortify_pptx.R' 'knitr_utils.R' 'officer.R' 'ooxml.R' 'ooxml_block_objects.R' 'ooxml_run_objects.R' 'openxml_content_type.R' 'openxml_document.R' 'pack_folder.R' 'ph_location.R' 'post-proc.R' 'ppt_class_dir_collection.R' 'ppt_classes.R' 'ppt_notes.R' 'ppt_ph_dedupe_layout.R' 'ppt_ph_manipulate.R' 'ppt_ph_rename_layout.R' 'ppt_ph_with_methods.R' 'pptx_informations.R' 'pptx_layout_helper.R' 'pptx_matrix.R' 'utils.R' 'pptx_slide_manip.R' 'read_docx.R' 'read_docx_styles.R' 'read_pptx.R' 'read_xlsx.R' 'relationship.R' 'rtf.R' 'shape_properties.R' 'shorcuts.R'", + "Collate": "'core_properties.R' 'custom_properties.R' 'defunct.R' 'dev-utils.R' 'docx_add.R' 'docx_comments.R' 'docx_cursor.R' 'docx_part.R' 'docx_replace.R' 'docx_section.R' 'docx_settings.R' 'empty_content.R' 'formatting_properties.R' 'fortify_docx.R' 'fortify_pptx.R' 'knitr_utils.R' 'officer.R' 'ooxml.R' 'ooxml_block_objects.R' 'ooxml_run_objects.R' 'openxml_content_type.R' 'openxml_document.R' 'pack_folder.R' 'ph_location.R' 'post-proc.R' 'ppt_class_dir_collection.R' 'ppt_classes.R' 'ppt_notes.R' 'ppt_ph_dedupe_layout.R' 'ppt_ph_manipulate.R' 'ppt_ph_rename_layout.R' 'ppt_ph_with_methods.R' 'pptx_informations.R' 'pptx_layout_helper.R' 'pptx_matrix.R' 'utils.R' 'pptx_slide_manip.R' 'read_docx.R' 'read_docx_styles.R' 'read_pptx.R' 'read_xlsx.R' 'relationship.R' 'rtf.R' 'shape_properties.R' 'shorcuts.R' 'docx_append_context.R' 'utils-xml.R' 'deprecated.R'", "NeedsCompilation": "no", - "Author": "David Gohel [aut, cre], Stefan Moog [aut], Mark Heckmann [aut] (), ArData [cph], Frank Hangler [ctb] (function body_replace_all_text), Liz Sander [ctb] (several documentation fixes), Anton Victorson [ctb] (fixes xml structures), Jon Calder [ctb] (update vignettes), John Harrold [ctb] (function annotate_base), John Muschelli [ctb] (google doc compatibility), Bill Denney [ctb] (, function as.matrix.rpptx), Nikolai Beck [ctb] (set speaker notes for .pptx documents), Greg Leleu [ctb] (fields functionality in ppt), Majid Eismann [ctb], Hongyuan Jia [ctb] ()", + "Author": "David Gohel [aut, cre], Stefan Moog [aut], Mark Heckmann [aut] (ORCID: ), ArData [cph], Frank Hangler [ctb] (function body_replace_all_text), Liz Sander [ctb] (several documentation fixes), Anton Victorson [ctb] (fixes xml structures), Jon Calder [ctb] (update vignettes), John Harrold [ctb] (function annotate_base), John Muschelli [ctb] (google doc compatibility), Bill Denney [ctb] (ORCID: , function as.matrix.rpptx), Nikolai Beck [ctb] (set speaker notes for .pptx documents), Greg Leleu [ctb] (fields functionality in ppt), Majid Eismann [ctb], Hongyuan Jia [ctb] (ORCID: ), Michael Stackhouse [ctb]", "Maintainer": "David Gohel ", "Repository": "CRAN" }, @@ -5725,7 +5735,7 @@ }, "openssl": { "Package": "openssl", - "Version": "2.3.2", + "Version": "2.3.3", "Source": "Repository", "Type": "Package", "Title": "Toolkit for Encryption, Signatures and Certificates Based on OpenSSL", @@ -5752,13 +5762,13 @@ "RoxygenNote": "7.3.2", "Encoding": "UTF-8", "NeedsCompilation": "yes", - "Author": "Jeroen Ooms [aut, cre] (), Oliver Keyes [ctb]", + "Author": "Jeroen Ooms [aut, cre] (ORCID: ), Oliver Keyes [ctb]", "Maintainer": "Jeroen Ooms ", "Repository": "CRAN" }, "openxlsx2": { "Package": "openxlsx2", - "Version": "1.15", + "Version": "1.17", "Source": "Repository", "Type": "Package", "Title": "Read, Write and Edit 'xlsx' Files", @@ -5798,18 +5808,18 @@ "Config/testthat/edition": "3", "Config/testthat/parallel": "true", "NeedsCompilation": "yes", - "Author": "Jordan Mark Barbone [aut] (), Jan Marvin Garbuszus [aut, cre], Olivier Roy [ctb], openxlsx authors [cph] (openxlsx package), Arseny Kapoulkine [ctb, cph] (Author of included pugixml code)", + "Author": "Jordan Mark Barbone [aut] (ORCID: ), Jan Marvin Garbuszus [aut, cre], Olivier Roy [ctb], openxlsx authors [cph] (openxlsx package), Arseny Kapoulkine [ctb, cph] (Author of included pugixml code)", "Maintainer": "Jan Marvin Garbuszus ", "Repository": "CRAN" }, "parameters": { "Package": "parameters", - "Version": "0.24.2", + "Version": "0.27.0", "Source": "Repository", "Type": "Package", "Title": "Processing of Model Parameters", - "Authors@R": "c(person(given = \"Daniel\", family = \"Lüdecke\", role = c(\"aut\", \"cre\"), email = \"d.luedecke@uke.de\", comment = c(ORCID = \"0000-0002-8895-3206\")), person(given = \"Dominique\", family = \"Makowski\", role = \"aut\", email = \"dom.makowski@gmail.com\", comment = c(ORCID = \"0000-0001-5375-9967\")), person(given = \"Mattan S.\", family = \"Ben-Shachar\", role = \"aut\", email = \"matanshm@post.bgu.ac.il\", comment = c(ORCID = \"0000-0002-4287-4801\")), person(given = \"Indrajeet\", family = \"Patil\", role = \"aut\", email = \"patilindrajeet.science@gmail.com\", comment = c(ORCID = \"0000-0003-1995-6531\")), person(given = \"Søren\", family = \"Højsgaard\", role = \"aut\", email = \"sorenh@math.aau.dk\"), person(given = \"Brenton M.\", family = \"Wiernik\", role = \"aut\", email = \"brenton@wiernik.org\", comment = c(ORCID = \"0000-0001-9560-6336\")), person(given = \"Zen J.\", family = \"Lau\", role = \"ctb\", email = \"zenjuen.lau@ntu.edu.sg\"), person(given = \"Vincent\", family = \"Arel-Bundock\", role = \"ctb\", email = \"vincent.arel-bundock@umontreal.ca\", comment = c(ORCID = \"0000-0003-2042-7063\")), person(given = \"Jeffrey\", family = \"Girard\", role = \"ctb\", email = \"me@jmgirard.com\", comment = c(ORCID = \"0000-0002-7359-3746\")), person(given = \"Christina\", family = \"Maimone\", role = \"rev\", email = \"christina.maimone@northwestern.edu\"), person(given = \"Niels\", family = \"Ohlsen\", role = \"rev\"), person(given = \"Douglas Ezra\", family = \"Morrison\", role = \"ctb\", email = \"dmorrison01@ucla.edu\", comment = c(ORCID = \"0000-0002-7195-830X\")), person(given = \"Joseph\", family = \"Luchman\", role = \"ctb\", email = \"jluchman@gmail.com\", comment = c(ORCID = \"0000-0002-8886-9717\")))", - "Maintainer": "Daniel Lüdecke ", + "Authors@R": "c(person(given = \"Daniel\", family = \"Lüdecke\", role = c(\"aut\", \"cre\"), email = \"officialeasystats@gmail.com\", comment = c(ORCID = \"0000-0002-8895-3206\")), person(given = \"Dominique\", family = \"Makowski\", role = \"aut\", email = \"dom.makowski@gmail.com\", comment = c(ORCID = \"0000-0001-5375-9967\")), person(given = \"Mattan S.\", family = \"Ben-Shachar\", role = \"aut\", email = \"matanshm@post.bgu.ac.il\", comment = c(ORCID = \"0000-0002-4287-4801\")), person(given = \"Indrajeet\", family = \"Patil\", role = \"aut\", email = \"patilindrajeet.science@gmail.com\", comment = c(ORCID = \"0000-0003-1995-6531\")), person(given = \"Søren\", family = \"Højsgaard\", role = \"aut\", email = \"sorenh@math.aau.dk\"), person(given = \"Brenton M.\", family = \"Wiernik\", role = \"aut\", email = \"brenton@wiernik.org\", comment = c(ORCID = \"0000-0001-9560-6336\")), person(given = \"Zen J.\", family = \"Lau\", role = \"ctb\", email = \"zenjuen.lau@ntu.edu.sg\"), person(given = \"Vincent\", family = \"Arel-Bundock\", role = \"ctb\", email = \"vincent.arel-bundock@umontreal.ca\", comment = c(ORCID = \"0000-0003-2042-7063\")), person(given = \"Jeffrey\", family = \"Girard\", role = \"ctb\", email = \"me@jmgirard.com\", comment = c(ORCID = \"0000-0002-7359-3746\")), person(given = \"Christina\", family = \"Maimone\", role = \"rev\", email = \"christina.maimone@northwestern.edu\"), person(given = \"Niels\", family = \"Ohlsen\", role = \"rev\"), person(given = \"Douglas Ezra\", family = \"Morrison\", role = \"ctb\", email = \"dmorrison01@ucla.edu\", comment = c(ORCID = \"0000-0002-7195-830X\")), person(given = \"Joseph\", family = \"Luchman\", role = \"ctb\", email = \"jluchman@gmail.com\", comment = c(ORCID = \"0000-0002-8886-9717\")))", + "Maintainer": "Daniel Lüdecke ", "Description": "Utilities for processing the parameters of various statistical models. Beyond computing p values, CIs, and other indices for a wide variety of models (see list of supported models using the function 'insight::supported_models()'), this package implements features like bootstrapping or simulating of parameters and models, feature reduction (feature extraction and variable selection) as well as functions to describe data and variable characteristics (e.g. skewness, kurtosis, smoothness or distribution).", "License": "GPL-3", "URL": "https://easystats.github.io/parameters/", @@ -5818,9 +5828,9 @@ "R (>= 3.6)" ], "Imports": [ - "bayestestR (>= 0.15.1)", - "datawizard (>= 1.0.0)", - "insight (>= 1.0.1)", + "bayestestR (>= 0.16.1)", + "datawizard (>= 1.1.0)", + "insight (>= 1.3.1)", "graphics", "methods", "stats", @@ -5851,10 +5861,13 @@ "cluster", "cobalt", "coda", + "correlation (>= 0.8.8)", "coxme", "cplm", + "curl", "dbscan", "did", + "discovr", "distributional", "domir (>= 0.2.0)", "drc", @@ -5874,7 +5887,6 @@ "gamlss", "gee", "geepack", - "ggeffects (>= 1.3.2)", "ggplot2", "GLMMadaptive", "glmmTMB (>= 1.1.10)", @@ -5897,7 +5909,7 @@ "logspline", "lqmm", "M3C", - "marginaleffects (>= 0.25.0)", + "marginaleffects (>= 0.26.0)", "modelbased (>= 0.9.0)", "MASS", "Matrix", @@ -5914,6 +5926,7 @@ "mmrm", "multcomp", "MuMIn", + "mvtnorm", "NbClust", "nFactors", "nestedLogit", @@ -5924,7 +5937,7 @@ "panelr", "pbkrtest", "PCDimension", - "performance (>= 0.12.0)", + "performance (>= 0.14.0)", "plm", "PMCMRplus", "poorman", @@ -5965,14 +5978,15 @@ "Config/testthat/edition": "3", "Config/testthat/parallel": "true", "Config/Needs/website": "easystats/easystatstemplate", + "Config/Needs/check": "stan-dev/cmdstanr", "Config/rcmdcheck/ignore-inconsequential-notes": "true", "NeedsCompilation": "no", - "Author": "Daniel Lüdecke [aut, cre] (), Dominique Makowski [aut] (), Mattan S. Ben-Shachar [aut] (), Indrajeet Patil [aut] (), Søren Højsgaard [aut], Brenton M. Wiernik [aut] (), Zen J. Lau [ctb], Vincent Arel-Bundock [ctb] (), Jeffrey Girard [ctb] (), Christina Maimone [rev], Niels Ohlsen [rev], Douglas Ezra Morrison [ctb] (), Joseph Luchman [ctb] ()", + "Author": "Daniel Lüdecke [aut, cre] (ORCID: ), Dominique Makowski [aut] (ORCID: ), Mattan S. Ben-Shachar [aut] (ORCID: ), Indrajeet Patil [aut] (ORCID: ), Søren Højsgaard [aut], Brenton M. Wiernik [aut] (ORCID: ), Zen J. Lau [ctb], Vincent Arel-Bundock [ctb] (ORCID: ), Jeffrey Girard [ctb] (ORCID: ), Christina Maimone [rev], Niels Ohlsen [rev], Douglas Ezra Morrison [ctb] (ORCID: ), Joseph Luchman [ctb] (ORCID: )", "Repository": "CRAN" }, "patchwork": { "Package": "patchwork", - "Version": "1.3.0", + "Version": "1.3.1", "Source": "Repository", "Type": "Package", "Title": "The Composer of Plots", @@ -5983,7 +5997,7 @@ "Encoding": "UTF-8", "Imports": [ "ggplot2 (>= 3.0.0)", - "gtable", + "gtable (>= 0.3.6)", "grid", "stats", "grDevices", @@ -6011,7 +6025,7 @@ "VignetteBuilder": "knitr", "Config/Needs/website": "gifski", "NeedsCompilation": "no", - "Author": "Thomas Lin Pedersen [cre, aut] ()", + "Author": "Thomas Lin Pedersen [cre, aut] (ORCID: )", "Repository": "CRAN" }, "pbmcapply": { @@ -6037,24 +6051,25 @@ }, "performance": { "Package": "performance", - "Version": "0.13.0", + "Version": "0.15.0", "Source": "Repository", "Type": "Package", "Title": "Assessment of Regression Models Performance", - "Authors@R": "c(person(given = \"Daniel\", family = \"Lüdecke\", role = c(\"aut\", \"cre\"), email = \"d.luedecke@uke.de\", comment = c(ORCID = \"0000-0002-8895-3206\")), person(given = \"Dominique\", family = \"Makowski\", role = c(\"aut\", \"ctb\"), email = \"dom.makowski@gmail.com\", comment = c(ORCID = \"0000-0001-5375-9967\")), person(given = \"Mattan S.\", family = \"Ben-Shachar\", role = c(\"aut\", \"ctb\"), email = \"matanshm@post.bgu.ac.il\", comment = c(ORCID = \"0000-0002-4287-4801\")), person(given = \"Indrajeet\", family = \"Patil\", role = c(\"aut\", \"ctb\"), email = \"patilindrajeet.science@gmail.com\", comment = c(ORCID = \"0000-0003-1995-6531\")), person(given = \"Philip\", family = \"Waggoner\", role = c(\"aut\", \"ctb\"), email = \"philip.waggoner@gmail.com\", comment = c(ORCID = \"0000-0002-7825-7573\")), person(given = \"Brenton M.\", family = \"Wiernik\", role = c(\"aut\", \"ctb\"), email = \"brenton@wiernik.org\", comment = c(ORCID = \"0000-0001-9560-6336\")), person(given = \"Rémi\", family = \"Thériault\", role = c(\"aut\", \"ctb\"), email = \"remi.theriault@mail.mcgill.ca\", comment = c(ORCID = \"0000-0003-4315-6788\")), person(given = \"Vincent\", family = \"Arel-Bundock\", email = \"vincent.arel-bundock@umontreal.ca\", role = \"ctb\", comment = c(ORCID = \"0000-0003-2042-7063\")), person(given = \"Martin\", family = \"Jullum\", role = \"rev\"), person(given = \"gjo11\", role = \"rev\"), person(given = \"Etienne\", family = \"Bacher\", , email = \"etienne.bacher@protonmail.com\", role = \"ctb\", comment = c(ORCID = \"0000-0002-9271-5075\")), person(given = \"Joseph\", family = \"Luchman\", role = \"ctb\", comment = c(ORCID = \"0000-0002-8886-9717\")))", - "Maintainer": "Daniel Lüdecke ", + "Authors@R": "c(person(given = \"Daniel\", family = \"Lüdecke\", role = c(\"aut\", \"cre\"), email = \"officialeasystats@gmail.com\", comment = c(ORCID = \"0000-0002-8895-3206\")), person(given = \"Dominique\", family = \"Makowski\", role = c(\"aut\", \"ctb\"), email = \"dom.makowski@gmail.com\", comment = c(ORCID = \"0000-0001-5375-9967\")), person(given = \"Mattan S.\", family = \"Ben-Shachar\", role = c(\"aut\", \"ctb\"), email = \"matanshm@post.bgu.ac.il\", comment = c(ORCID = \"0000-0002-4287-4801\")), person(given = \"Indrajeet\", family = \"Patil\", role = c(\"aut\", \"ctb\"), email = \"patilindrajeet.science@gmail.com\", comment = c(ORCID = \"0000-0003-1995-6531\")), person(given = \"Philip\", family = \"Waggoner\", role = c(\"aut\", \"ctb\"), email = \"philip.waggoner@gmail.com\", comment = c(ORCID = \"0000-0002-7825-7573\")), person(given = \"Brenton M.\", family = \"Wiernik\", role = c(\"aut\", \"ctb\"), email = \"brenton@wiernik.org\", comment = c(ORCID = \"0000-0001-9560-6336\")), person(given = \"Rémi\", family = \"Thériault\", role = c(\"aut\", \"ctb\"), email = \"remi.theriault@mail.mcgill.ca\", comment = c(ORCID = \"0000-0003-4315-6788\")), person(given = \"Vincent\", family = \"Arel-Bundock\", email = \"vincent.arel-bundock@umontreal.ca\", role = \"ctb\", comment = c(ORCID = \"0000-0003-2042-7063\")), person(given = \"Martin\", family = \"Jullum\", role = \"rev\"), person(given = \"gjo11\", role = \"rev\"), person(given = \"Etienne\", family = \"Bacher\", , email = \"etienne.bacher@protonmail.com\", role = \"ctb\", comment = c(ORCID = \"0000-0002-9271-5075\")), person(given = \"Joseph\", family = \"Luchman\", role = \"ctb\", comment = c(ORCID = \"0000-0002-8886-9717\")))", + "Maintainer": "Daniel Lüdecke ", "Description": "Utilities for computing measures to assess model quality, which are not directly provided by R's 'base' or 'stats' packages. These include e.g. measures like r-squared, intraclass correlation coefficient (Nakagawa, Johnson & Schielzeth (2017) ), root mean squared error or functions to check models for overdispersion, singularity or zero-inflation and more. Functions apply to a large variety of regression models, including generalized linear models, mixed effects models and Bayesian models. References: Lüdecke et al. (2021) .", "License": "GPL-3", "URL": "https://easystats.github.io/performance/", "BugReports": "https://github.com/easystats/performance/issues", "Depends": [ - "R (>= 3.6)" + "R (>= 4.0)" ], "Imports": [ - "bayestestR (>= 0.15.0)", - "insight (>= 1.0.0)", - "datawizard (>= 0.13.0)", + "bayestestR (>= 0.16.0)", + "insight (>= 1.3.1)", + "datawizard (>= 1.1.0)", "stats", + "methods", "utils" ], "Suggests": [ @@ -6070,11 +6085,13 @@ "car", "carData", "CompQuadForm", - "correlation", + "correlation (>= 0.8.8)", "cplm", + "curl", "dagitty", "dbscan", "DHARMa (>= 0.4.7)", + "discovr", "estimatr", "fixest", "flextable", @@ -6083,6 +6100,7 @@ "gamm4", "ggdag", "glmmTMB (>= 1.1.10)", + "GPArotation", "graphics", "Hmisc", "httr2", @@ -6102,20 +6120,24 @@ "metafor", "mgcv", "mlogit", + "modelbased", "multimode", "nestedLogit", "nlme", + "nnet", "nonnest2", "ordinal", "parallel", - "parameters (>= 0.22.0)", + "parameters (>= 0.27.0)", "patchwork", "pscl", "psych", + "psychTools", "quantreg", "qqplotr (>= 0.0.6)", "randomForest", "RcppEigen", + "reformulas", "rempsyc", "rmarkdown", "rstanarm", @@ -6137,7 +6159,7 @@ "Config/Needs/website": "rstudio/bslib, r-lib/pkgdown, easystats/easystatstemplate", "Config/rcmdcheck/ignore-inconsequential-notes": "true", "NeedsCompilation": "no", - "Author": "Daniel Lüdecke [aut, cre] (), Dominique Makowski [aut, ctb] (), Mattan S. Ben-Shachar [aut, ctb] (), Indrajeet Patil [aut, ctb] (), Philip Waggoner [aut, ctb] (), Brenton M. Wiernik [aut, ctb] (), Rémi Thériault [aut, ctb] (), Vincent Arel-Bundock [ctb] (), Martin Jullum [rev], gjo11 [rev], Etienne Bacher [ctb] (), Joseph Luchman [ctb] ()", + "Author": "Daniel Lüdecke [aut, cre] (ORCID: ), Dominique Makowski [aut, ctb] (ORCID: ), Mattan S. Ben-Shachar [aut, ctb] (ORCID: ), Indrajeet Patil [aut, ctb] (ORCID: ), Philip Waggoner [aut, ctb] (ORCID: ), Brenton M. Wiernik [aut, ctb] (ORCID: ), Rémi Thériault [aut, ctb] (ORCID: ), Vincent Arel-Bundock [ctb] (ORCID: ), Martin Jullum [rev], gjo11 [rev], Etienne Bacher [ctb] (ORCID: ), Joseph Luchman [ctb] (ORCID: )", "Repository": "CRAN" }, "phosphoricons": { @@ -6170,7 +6192,7 @@ }, "pillar": { "Package": "pillar", - "Version": "1.10.2", + "Version": "1.11.0", "Source": "Repository", "Title": "Coloured Formatting for Columns", "Authors@R": "c(person(given = \"Kirill\", family = \"M\\u00fcller\", role = c(\"aut\", \"cre\"), email = \"kirill@cynkra.com\", comment = c(ORCID = \"0000-0002-1416-3412\")), person(given = \"Hadley\", family = \"Wickham\", role = \"aut\"), person(given = \"RStudio\", role = \"cph\"))", @@ -6221,7 +6243,7 @@ "Config/gha/extra-packages": "units=?ignore-before-r=4.3.0", "Config/Needs/website": "tidyverse/tidytemplate", "NeedsCompilation": "no", - "Author": "Kirill Müller [aut, cre] (), Hadley Wickham [aut], RStudio [cph]", + "Author": "Kirill Müller [aut, cre] (ORCID: ), Hadley Wickham [aut], RStudio [cph]", "Maintainer": "Kirill Müller ", "Repository": "CRAN" }, @@ -6251,7 +6273,7 @@ }, "plotly": { "Package": "plotly", - "Version": "4.10.4", + "Version": "4.11.0", "Source": "Repository", "Title": "Create Interactive Web Graphics via 'plotly.js'", "Authors@R": "c(person(\"Carson\", \"Sievert\", role = c(\"aut\", \"cre\"), email = \"cpsievert1@gmail.com\", comment = c(ORCID = \"0000-0002-4958-2844\")), person(\"Chris\", \"Parmer\", role = \"aut\", email = \"chris@plot.ly\"), person(\"Toby\", \"Hocking\", role = \"aut\", email = \"tdhock5@gmail.com\"), person(\"Scott\", \"Chamberlain\", role = \"aut\", email = \"myrmecocystus@gmail.com\"), person(\"Karthik\", \"Ram\", role = \"aut\", email = \"karthik.ram@gmail.com\"), person(\"Marianne\", \"Corvellec\", role = \"aut\", email = \"marianne.corvellec@igdore.org\", comment = c(ORCID = \"0000-0002-1994-3581\")), person(\"Pedro\", \"Despouy\", role = \"aut\", email = \"pedro@plot.ly\"), person(\"Salim\", \"Brüggemann\", role = \"ctb\", email = \"salim-b@pm.me\", comment = c(ORCID = \"0000-0002-5329-5987\")), person(\"Plotly Technologies Inc.\", role = \"cph\"))", @@ -6280,7 +6302,7 @@ "vctrs", "tibble", "lazyeval (>= 0.2.0)", - "rlang (>= 0.4.10)", + "rlang (>= 1.0.0)", "crosstalk", "purrr", "data.table", @@ -6296,7 +6318,7 @@ "testthat", "knitr", "shiny (>= 1.1.0)", - "shinytest (>= 1.3.0)", + "shinytest2", "curl", "rmarkdown", "Cairo", @@ -6314,14 +6336,15 @@ "palmerpenguins", "rversions", "reticulate", - "rsvg" + "rsvg", + "ggridges" ], "LazyData": "true", - "RoxygenNote": "7.2.3", + "RoxygenNote": "7.3.2", "Encoding": "UTF-8", - "Config/Needs/check": "tidyverse/ggplot2, rcmdcheck, devtools, reshape2", + "Config/Needs/check": "tidyverse/ggplot2, ggobi/GGally, rcmdcheck, devtools, reshape2, s2", "NeedsCompilation": "no", - "Author": "Carson Sievert [aut, cre] (), Chris Parmer [aut], Toby Hocking [aut], Scott Chamberlain [aut], Karthik Ram [aut], Marianne Corvellec [aut] (), Pedro Despouy [aut], Salim Brüggemann [ctb] (), Plotly Technologies Inc. [cph]", + "Author": "Carson Sievert [aut, cre] (ORCID: ), Chris Parmer [aut], Toby Hocking [aut], Scott Chamberlain [aut], Karthik Ram [aut], Marianne Corvellec [aut] (ORCID: ), Pedro Despouy [aut], Salim Brüggemann [ctb] (ORCID: ), Plotly Technologies Inc. [cph]", "Maintainer": "Carson Sievert ", "Repository": "CRAN" }, @@ -6547,11 +6570,11 @@ }, "promises": { "Package": "promises", - "Version": "1.3.2", + "Version": "1.3.3", "Source": "Repository", "Type": "Package", "Title": "Abstractions for Promise-Based Asynchronous Programming", - "Authors@R": "c( person(\"Joe\", \"Cheng\", , \"joe@posit.co\", role = c(\"aut\", \"cre\")), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\")) )", + "Authors@R": "c( person(\"Joe\", \"Cheng\", , \"joe@posit.co\", role = c(\"aut\", \"cre\")), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\"), comment = c(ROR = \"03wc8by49\")) )", "Description": "Provides fundamental abstractions for doing asynchronous programming in R using promises. Asynchronous programming is useful for allowing a single R process to orchestrate multiple tasks in the background while also attending to something else. Semantics are similar to 'JavaScript' promises, but with a syntax that is idiomatic R.", "License": "MIT + file LICENSE", "URL": "https://rstudio.github.io/promises/, https://github.com/rstudio/promises", @@ -6571,7 +6594,7 @@ "purrr", "rmarkdown", "spelling", - "testthat", + "testthat (>= 3.0.0)", "vembedr" ], "LinkingTo": [ @@ -6579,12 +6602,14 @@ "Rcpp" ], "VignetteBuilder": "knitr", - "Config/Needs/website": "rsconnect", + "Config/Needs/website": "rsconnect, tidyverse/tidytemplate", + "Config/testthat/edition": "3", + "Config/usethis/last-upkeep": "2025-05-27", "Encoding": "UTF-8", "Language": "en-US", "RoxygenNote": "7.3.2", "NeedsCompilation": "yes", - "Author": "Joe Cheng [aut, cre], Posit Software, PBC [cph, fnd]", + "Author": "Joe Cheng [aut, cre], Posit Software, PBC [cph, fnd] (ROR: )", "Maintainer": "Joe Cheng ", "Repository": "CRAN" }, @@ -6654,16 +6679,16 @@ }, "purrr": { "Package": "purrr", - "Version": "1.0.4", + "Version": "1.1.0", "Source": "Repository", "Title": "Functional Programming Tools", - "Authors@R": "c( person(\"Hadley\", \"Wickham\", , \"hadley@posit.co\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0003-4757-117X\")), person(\"Lionel\", \"Henry\", , \"lionel@posit.co\", role = \"aut\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\"), comment = c(ROR = \"03wc8by49\")) )", + "Authors@R": "c( person(\"Hadley\", \"Wickham\", , \"hadley@posit.co\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0003-4757-117X\")), person(\"Lionel\", \"Henry\", , \"lionel@posit.co\", role = \"aut\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\"), comment = c(ROR = \"https://ror.org/03wc8by49\")) )", "Description": "A complete and consistent functional programming toolkit for R.", "License": "MIT + file LICENSE", "URL": "https://purrr.tidyverse.org/, https://github.com/tidyverse/purrr", "BugReports": "https://github.com/tidyverse/purrr/issues", "Depends": [ - "R (>= 4.0)" + "R (>= 4.1)" ], "Imports": [ "cli (>= 3.6.1)", @@ -6673,11 +6698,13 @@ "vctrs (>= 0.6.3)" ], "Suggests": [ + "carrier (>= 0.2.0)", "covr", "dplyr (>= 0.7.8)", "httr", "knitr", "lubridate", + "mirai (>= 2.4.0)", "rmarkdown", "testthat (>= 3.0.0)", "tibble", @@ -6695,7 +6722,7 @@ "Encoding": "UTF-8", "RoxygenNote": "7.3.2", "NeedsCompilation": "yes", - "Author": "Hadley Wickham [aut, cre] (), Lionel Henry [aut], Posit Software, PBC [cph, fnd] (03wc8by49)", + "Author": "Hadley Wickham [aut, cre] (ORCID: ), Lionel Henry [aut], Posit Software, PBC [cph, fnd] (ROR: )", "Maintainer": "Hadley Wickham ", "Repository": "CRAN" }, @@ -7194,7 +7221,7 @@ }, "reformulas": { "Package": "reformulas", - "Version": "0.4.0", + "Version": "0.4.1", "Source": "Repository", "Title": "Machinery for Processing Random Effect Formulas", "Authors@R": "person(given = \"Ben\", family = \"Bolker\", role = c(\"aut\", \"cre\"), email = \"bolker@mcmaster.ca\", comment=c(ORCID=\"0000-0002-2127-0443\"))", @@ -7211,11 +7238,12 @@ "RdMacros": "Rdpack", "Suggests": [ "lme4", - "tinytest" + "tinytest", + "glmmTMB" ], - "RoxygenNote": "7.3.2", + "RoxygenNote": "7.3.2.9000", "NeedsCompilation": "no", - "Author": "Ben Bolker [aut, cre] ()", + "Author": "Ben Bolker [aut, cre] (ORCID: )", "Maintainer": "Ben Bolker ", "Repository": "CRAN" }, @@ -7697,7 +7725,7 @@ }, "rprojroot": { "Package": "rprojroot", - "Version": "2.0.4", + "Version": "2.1.0", "Source": "Repository", "Title": "Finding Files in Project Subdirectories", "Authors@R": "person(given = \"Kirill\", family = \"M\\u00fcller\", role = c(\"aut\", \"cre\"), email = \"kirill@cynkra.com\", comment = c(ORCID = \"0000-0002-1416-3412\"))", @@ -7712,18 +7740,20 @@ "covr", "knitr", "lifecycle", - "mockr", "rlang", "rmarkdown", - "testthat (>= 3.0.0)", + "testthat (>= 3.2.0)", "withr" ], "VignetteBuilder": "knitr", "Config/testthat/edition": "3", "Encoding": "UTF-8", - "RoxygenNote": "7.2.3", + "RoxygenNote": "7.3.2.9000", + "Config/autostyle/scope": "line_breaks", + "Config/autostyle/strict": "true", + "Config/Needs/website": "tidyverse/tidytemplate", "NeedsCompilation": "no", - "Author": "Kirill Müller [aut, cre] ()", + "Author": "Kirill Müller [aut, cre] (ORCID: )", "Maintainer": "Kirill Müller ", "Repository": "CRAN" }, @@ -7918,11 +7948,11 @@ }, "shiny": { "Package": "shiny", - "Version": "1.10.0", + "Version": "1.11.1", "Source": "Repository", "Type": "Package", "Title": "Web Application Framework for R", - "Authors@R": "c( person(\"Winston\", \"Chang\", role = c(\"aut\", \"cre\"), email = \"winston@posit.co\", comment = c(ORCID = \"0000-0002-1576-2126\")), person(\"Joe\", \"Cheng\", role = \"aut\", email = \"joe@posit.co\"), person(\"JJ\", \"Allaire\", role = \"aut\", email = \"jj@posit.co\"), person(\"Carson\", \"Sievert\", role = \"aut\", email = \"carson@posit.co\", comment = c(ORCID = \"0000-0002-4958-2844\")), person(\"Barret\", \"Schloerke\", role = \"aut\", email = \"barret@posit.co\", comment = c(ORCID = \"0000-0001-9986-114X\")), person(\"Yihui\", \"Xie\", role = \"aut\", email = \"yihui@posit.co\"), person(\"Jeff\", \"Allen\", role = \"aut\"), person(\"Jonathan\", \"McPherson\", role = \"aut\", email = \"jonathan@posit.co\"), person(\"Alan\", \"Dipert\", role = \"aut\"), person(\"Barbara\", \"Borges\", role = \"aut\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\")), person(family = \"jQuery Foundation\", role = \"cph\", comment = \"jQuery library and jQuery UI library\"), person(family = \"jQuery contributors\", role = c(\"ctb\", \"cph\"), comment = \"jQuery library; authors listed in inst/www/shared/jquery-AUTHORS.txt\"), person(family = \"jQuery UI contributors\", role = c(\"ctb\", \"cph\"), comment = \"jQuery UI library; authors listed in inst/www/shared/jqueryui/AUTHORS.txt\"), person(\"Mark\", \"Otto\", role = \"ctb\", comment = \"Bootstrap library\"), person(\"Jacob\", \"Thornton\", role = \"ctb\", comment = \"Bootstrap library\"), person(family = \"Bootstrap contributors\", role = \"ctb\", comment = \"Bootstrap library\"), person(family = \"Twitter, Inc\", role = \"cph\", comment = \"Bootstrap library\"), person(\"Prem Nawaz\", \"Khan\", role = \"ctb\", comment = \"Bootstrap accessibility plugin\"), person(\"Victor\", \"Tsaran\", role = \"ctb\", comment = \"Bootstrap accessibility plugin\"), person(\"Dennis\", \"Lembree\", role = \"ctb\", comment = \"Bootstrap accessibility plugin\"), person(\"Srinivasu\", \"Chakravarthula\", role = \"ctb\", comment = \"Bootstrap accessibility plugin\"), person(\"Cathy\", \"O'Connor\", role = \"ctb\", comment = \"Bootstrap accessibility plugin\"), person(family = \"PayPal, Inc\", role = \"cph\", comment = \"Bootstrap accessibility plugin\"), person(\"Stefan\", \"Petre\", role = c(\"ctb\", \"cph\"), comment = \"Bootstrap-datepicker library\"), person(\"Andrew\", \"Rowls\", role = c(\"ctb\", \"cph\"), comment = \"Bootstrap-datepicker library\"), person(\"Brian\", \"Reavis\", role = c(\"ctb\", \"cph\"), comment = \"selectize.js library\"), person(\"Salmen\", \"Bejaoui\", role = c(\"ctb\", \"cph\"), comment = \"selectize-plugin-a11y library\"), person(\"Denis\", \"Ineshin\", role = c(\"ctb\", \"cph\"), comment = \"ion.rangeSlider library\"), person(\"Sami\", \"Samhuri\", role = c(\"ctb\", \"cph\"), comment = \"Javascript strftime library\"), person(family = \"SpryMedia Limited\", role = c(\"ctb\", \"cph\"), comment = \"DataTables library\"), person(\"John\", \"Fraser\", role = c(\"ctb\", \"cph\"), comment = \"showdown.js library\"), person(\"John\", \"Gruber\", role = c(\"ctb\", \"cph\"), comment = \"showdown.js library\"), person(\"Ivan\", \"Sagalaev\", role = c(\"ctb\", \"cph\"), comment = \"highlight.js library\"), person(family = \"R Core Team\", role = c(\"ctb\", \"cph\"), comment = \"tar implementation from R\") )", + "Authors@R": "c( person(\"Winston\", \"Chang\", role = c(\"aut\", \"cre\"), email = \"winston@posit.co\", comment = c(ORCID = \"0000-0002-1576-2126\")), person(\"Joe\", \"Cheng\", role = \"aut\", email = \"joe@posit.co\"), person(\"JJ\", \"Allaire\", role = \"aut\", email = \"jj@posit.co\"), person(\"Carson\", \"Sievert\", role = \"aut\", email = \"carson@posit.co\", comment = c(ORCID = \"0000-0002-4958-2844\")), person(\"Barret\", \"Schloerke\", role = \"aut\", email = \"barret@posit.co\", comment = c(ORCID = \"0000-0001-9986-114X\")), person(\"Yihui\", \"Xie\", role = \"aut\", email = \"yihui@posit.co\"), person(\"Jeff\", \"Allen\", role = \"aut\"), person(\"Jonathan\", \"McPherson\", role = \"aut\", email = \"jonathan@posit.co\"), person(\"Alan\", \"Dipert\", role = \"aut\"), person(\"Barbara\", \"Borges\", role = \"aut\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\")), person(family = \"jQuery Foundation\", role = \"cph\", comment = \"jQuery library and jQuery UI library\"), person(family = \"jQuery contributors\", role = c(\"ctb\", \"cph\"), comment = \"jQuery library; authors listed in inst/www/shared/jquery-AUTHORS.txt\"), person(family = \"jQuery UI contributors\", role = c(\"ctb\", \"cph\"), comment = \"jQuery UI library; authors listed in inst/www/shared/jqueryui/AUTHORS.txt\"), person(\"Mark\", \"Otto\", role = \"ctb\", comment = \"Bootstrap library\"), person(\"Jacob\", \"Thornton\", role = \"ctb\", comment = \"Bootstrap library\"), person(family = \"Bootstrap contributors\", role = \"ctb\", comment = \"Bootstrap library\"), person(family = \"Twitter, Inc\", role = \"cph\", comment = \"Bootstrap library\"), person(\"Prem Nawaz\", \"Khan\", role = \"ctb\", comment = \"Bootstrap accessibility plugin\"), person(\"Victor\", \"Tsaran\", role = \"ctb\", comment = \"Bootstrap accessibility plugin\"), person(\"Dennis\", \"Lembree\", role = \"ctb\", comment = \"Bootstrap accessibility plugin\"), person(\"Srinivasu\", \"Chakravarthula\", role = \"ctb\", comment = \"Bootstrap accessibility plugin\"), person(\"Cathy\", \"O'Connor\", role = \"ctb\", comment = \"Bootstrap accessibility plugin\"), person(family = \"PayPal, Inc\", role = \"cph\", comment = \"Bootstrap accessibility plugin\"), person(\"Stefan\", \"Petre\", role = c(\"ctb\", \"cph\"), comment = \"Bootstrap-datepicker library\"), person(\"Andrew\", \"Rowls\", role = c(\"ctb\", \"cph\"), comment = \"Bootstrap-datepicker library\"), person(\"Brian\", \"Reavis\", role = c(\"ctb\", \"cph\"), comment = \"selectize.js library\"), person(\"Salmen\", \"Bejaoui\", role = c(\"ctb\", \"cph\"), comment = \"selectize-plugin-a11y library\"), person(\"Denis\", \"Ineshin\", role = c(\"ctb\", \"cph\"), comment = \"ion.rangeSlider library\"), person(\"Sami\", \"Samhuri\", role = c(\"ctb\", \"cph\"), comment = \"Javascript strftime library\"), person(family = \"SpryMedia Limited\", role = c(\"ctb\", \"cph\"), comment = \"DataTables library\"), person(\"John\", \"Fraser\", role = c(\"ctb\", \"cph\"), comment = \"showdown.js library\"), person(\"John\", \"Gruber\", role = c(\"ctb\", \"cph\"), comment = \"showdown.js library\"), person(\"Ivan\", \"Sagalaev\", role = c(\"ctb\", \"cph\"), comment = \"highlight.js library\"), person(given = \"R Core Team\", role = c(\"ctb\", \"cph\"), comment = \"tar implementation from R\") )", "Description": "Makes it incredibly easy to build interactive web applications with R. Automatic \"reactive\" binding between inputs and outputs and extensive prebuilt widgets make it possible to build beautiful, responsive, and powerful applications with minimal effort.", "License": "GPL-3 | file LICENSE", "Depends": [ @@ -7943,7 +7973,7 @@ "later (>= 1.0.0)", "promises (>= 1.3.2)", "tools", - "crayon", + "cli", "rlang (>= 0.4.10)", "fastmap (>= 1.1.1)", "withr", @@ -7958,7 +7988,7 @@ "datasets", "DT", "Cairo (>= 1.5-5)", - "testthat (>= 3.0.0)", + "testthat (>= 3.2.1)", "knitr (>= 1.6)", "markdown", "rmarkdown", @@ -7966,22 +7996,23 @@ "reactlog (>= 1.0.0)", "magrittr", "yaml", + "mirai", "future", "dygraphs", "ragg", "showtext", - "sass" + "sass", + "watcher" ], "URL": "https://shiny.posit.co/, https://github.com/rstudio/shiny", "BugReports": "https://github.com/rstudio/shiny/issues", "Collate": "'globals.R' 'app-state.R' 'app_template.R' 'bind-cache.R' 'bind-event.R' 'bookmark-state-local.R' 'bookmark-state.R' 'bootstrap-deprecated.R' 'bootstrap-layout.R' 'conditions.R' 'map.R' 'utils.R' 'bootstrap.R' 'busy-indicators-spinners.R' 'busy-indicators.R' 'cache-utils.R' 'deprecated.R' 'devmode.R' 'diagnose.R' 'extended-task.R' 'fileupload.R' 'graph.R' 'reactives.R' 'reactive-domains.R' 'history.R' 'hooks.R' 'html-deps.R' 'image-interact-opts.R' 'image-interact.R' 'imageutils.R' 'input-action.R' 'input-checkbox.R' 'input-checkboxgroup.R' 'input-date.R' 'input-daterange.R' 'input-file.R' 'input-numeric.R' 'input-password.R' 'input-radiobuttons.R' 'input-select.R' 'input-slider.R' 'input-submit.R' 'input-text.R' 'input-textarea.R' 'input-utils.R' 'insert-tab.R' 'insert-ui.R' 'jqueryui.R' 'knitr.R' 'middleware-shiny.R' 'middleware.R' 'timer.R' 'shiny.R' 'mock-session.R' 'modal.R' 'modules.R' 'notifications.R' 'priorityqueue.R' 'progress.R' 'react.R' 'reexports.R' 'render-cached-plot.R' 'render-plot.R' 'render-table.R' 'run-url.R' 'runapp.R' 'serializers.R' 'server-input-handlers.R' 'server-resource-paths.R' 'server.R' 'shiny-options.R' 'shiny-package.R' 'shinyapp.R' 'shinyui.R' 'shinywrappers.R' 'showcase.R' 'snapshot.R' 'staticimports.R' 'tar.R' 'test-export.R' 'test-server.R' 'test.R' 'update-input.R' 'utils-lang.R' 'version_bs_date_picker.R' 'version_ion_range_slider.R' 'version_jquery.R' 'version_jqueryui.R' 'version_selectize.R' 'version_strftime.R' 'viewer.R'", "RoxygenNote": "7.3.2", "Encoding": "UTF-8", - "RdMacros": "lifecycle", "Config/testthat/edition": "3", "Config/Needs/check": "shinytest2", "NeedsCompilation": "no", - "Author": "Winston Chang [aut, cre] (), Joe Cheng [aut], JJ Allaire [aut], Carson Sievert [aut] (), Barret Schloerke [aut] (), Yihui Xie [aut], Jeff Allen [aut], Jonathan McPherson [aut], Alan Dipert [aut], Barbara Borges [aut], Posit Software, PBC [cph, fnd], jQuery Foundation [cph] (jQuery library and jQuery UI library), jQuery contributors [ctb, cph] (jQuery library; authors listed in inst/www/shared/jquery-AUTHORS.txt), jQuery UI contributors [ctb, cph] (jQuery UI library; authors listed in inst/www/shared/jqueryui/AUTHORS.txt), Mark Otto [ctb] (Bootstrap library), Jacob Thornton [ctb] (Bootstrap library), Bootstrap contributors [ctb] (Bootstrap library), Twitter, Inc [cph] (Bootstrap library), Prem Nawaz Khan [ctb] (Bootstrap accessibility plugin), Victor Tsaran [ctb] (Bootstrap accessibility plugin), Dennis Lembree [ctb] (Bootstrap accessibility plugin), Srinivasu Chakravarthula [ctb] (Bootstrap accessibility plugin), Cathy O'Connor [ctb] (Bootstrap accessibility plugin), PayPal, Inc [cph] (Bootstrap accessibility plugin), Stefan Petre [ctb, cph] (Bootstrap-datepicker library), Andrew Rowls [ctb, cph] (Bootstrap-datepicker library), Brian Reavis [ctb, cph] (selectize.js library), Salmen Bejaoui [ctb, cph] (selectize-plugin-a11y library), Denis Ineshin [ctb, cph] (ion.rangeSlider library), Sami Samhuri [ctb, cph] (Javascript strftime library), SpryMedia Limited [ctb, cph] (DataTables library), John Fraser [ctb, cph] (showdown.js library), John Gruber [ctb, cph] (showdown.js library), Ivan Sagalaev [ctb, cph] (highlight.js library), R Core Team [ctb, cph] (tar implementation from R)", + "Author": "Winston Chang [aut, cre] (ORCID: ), Joe Cheng [aut], JJ Allaire [aut], Carson Sievert [aut] (ORCID: ), Barret Schloerke [aut] (ORCID: ), Yihui Xie [aut], Jeff Allen [aut], Jonathan McPherson [aut], Alan Dipert [aut], Barbara Borges [aut], Posit Software, PBC [cph, fnd], jQuery Foundation [cph] (jQuery library and jQuery UI library), jQuery contributors [ctb, cph] (jQuery library; authors listed in inst/www/shared/jquery-AUTHORS.txt), jQuery UI contributors [ctb, cph] (jQuery UI library; authors listed in inst/www/shared/jqueryui/AUTHORS.txt), Mark Otto [ctb] (Bootstrap library), Jacob Thornton [ctb] (Bootstrap library), Bootstrap contributors [ctb] (Bootstrap library), Twitter, Inc [cph] (Bootstrap library), Prem Nawaz Khan [ctb] (Bootstrap accessibility plugin), Victor Tsaran [ctb] (Bootstrap accessibility plugin), Dennis Lembree [ctb] (Bootstrap accessibility plugin), Srinivasu Chakravarthula [ctb] (Bootstrap accessibility plugin), Cathy O'Connor [ctb] (Bootstrap accessibility plugin), PayPal, Inc [cph] (Bootstrap accessibility plugin), Stefan Petre [ctb, cph] (Bootstrap-datepicker library), Andrew Rowls [ctb, cph] (Bootstrap-datepicker library), Brian Reavis [ctb, cph] (selectize.js library), Salmen Bejaoui [ctb, cph] (selectize-plugin-a11y library), Denis Ineshin [ctb, cph] (ion.rangeSlider library), Sami Samhuri [ctb, cph] (Javascript strftime library), SpryMedia Limited [ctb, cph] (DataTables library), John Fraser [ctb, cph] (showdown.js library), John Gruber [ctb, cph] (showdown.js library), Ivan Sagalaev [ctb, cph] (highlight.js library), R Core Team [ctb, cph] (tar implementation from R)", "Maintainer": "Winston Chang ", "Repository": "CRAN" }, @@ -8116,29 +8147,6 @@ "Maintainer": "Dean Attali ", "Repository": "CRAN" }, - "sodium": { - "Package": "sodium", - "Version": "1.4.0", - "Source": "Repository", - "Type": "Package", - "Title": "A Modern and Easy-to-Use Crypto Library", - "Authors@R": "person(\"Jeroen\", \"Ooms\", role = c(\"aut\", \"cre\"), email = \"jeroenooms@gmail.com\", comment = c(ORCID = \"0000-0002-4035-0289\"))", - "Description": "Bindings to 'libsodium' : a modern, easy-to-use software library for encryption, decryption, signatures, password hashing and more. Sodium uses curve25519, a state-of-the-art Diffie-Hellman function by Daniel Bernstein, which has become very popular after it was discovered that the NSA had backdoored Dual EC DRBG.", - "License": "MIT + file LICENSE", - "URL": "https://docs.ropensci.org/sodium/ https://github.com/r-lib/sodium", - "BugReports": "https://github.com/r-lib/sodium/issues", - "SystemRequirements": "libsodium (>= 1.0.3)", - "VignetteBuilder": "knitr", - "Suggests": [ - "knitr", - "rmarkdown" - ], - "RoxygenNote": "7.2.3", - "NeedsCompilation": "yes", - "Author": "Jeroen Ooms [aut, cre] ()", - "Maintainer": "Jeroen Ooms ", - "Repository": "CRAN" - }, "sourcetools": { "Package": "sourcetools", "Version": "0.1.7-1", @@ -8261,11 +8269,11 @@ }, "systemfonts": { "Package": "systemfonts", - "Version": "1.2.2", + "Version": "1.2.3", "Source": "Repository", "Type": "Package", "Title": "System Native Font Finding", - "Authors@R": "c( person(\"Thomas Lin\", \"Pedersen\", , \"thomas.pedersen@posit.co\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0002-5147-4711\")), person(\"Jeroen\", \"Ooms\", , \"jeroen@berkeley.edu\", role = \"aut\", comment = c(ORCID = \"0000-0002-4035-0289\")), person(\"Devon\", \"Govett\", role = \"aut\", comment = \"Author of font-manager\"), person(\"Posit, PBC\", role = c(\"cph\", \"fnd\")) )", + "Authors@R": "c( person(\"Thomas Lin\", \"Pedersen\", , \"thomas.pedersen@posit.co\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0002-5147-4711\")), person(\"Jeroen\", \"Ooms\", , \"jeroen@berkeley.edu\", role = \"aut\", comment = c(ORCID = \"0000-0002-4035-0289\")), person(\"Devon\", \"Govett\", role = \"aut\", comment = \"Author of font-manager\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\"), comment = c(ROR = \"03wc8by49\")) )", "Description": "Provides system native access to the font catalogue. As font handling varies between systems it is difficult to correctly locate installed fonts across different operating systems. The 'systemfonts' package provides bindings to the native libraries on Windows, macOS and Linux for finding font files that can then be used further by e.g. graphic devices. The main use is intended to be from compiled code but 'systemfonts' also provides access from R.", "License": "MIT + file LICENSE", "URL": "https://github.com/r-lib/systemfonts, https://systemfonts.r-lib.org", @@ -8273,6 +8281,14 @@ "Depends": [ "R (>= 3.2.0)" ], + "Imports": [ + "base64enc", + "grid", + "jsonlite", + "lifecycle", + "tools", + "utils" + ], "Suggests": [ "covr", "farver", @@ -8285,29 +8301,23 @@ "cpp11 (>= 0.2.1)" ], "VignetteBuilder": "knitr", + "Config/build/compilation-database": "true", + "Config/Needs/website": "tidyverse/tidytemplate", + "Config/usethis/last-upkeep": "2025-04-23", "Encoding": "UTF-8", "RoxygenNote": "7.3.2", "SystemRequirements": "fontconfig, freetype2", - "Config/Needs/website": "tidyverse/tidytemplate", - "Imports": [ - "grid", - "jsonlite", - "lifecycle", - "tools", - "utils" - ], - "Config/build/compilation-database": "true", "NeedsCompilation": "yes", - "Author": "Thomas Lin Pedersen [aut, cre] (), Jeroen Ooms [aut] (), Devon Govett [aut] (Author of font-manager), Posit, PBC [cph, fnd]", + "Author": "Thomas Lin Pedersen [aut, cre] (ORCID: ), Jeroen Ooms [aut] (ORCID: ), Devon Govett [aut] (Author of font-manager), Posit Software, PBC [cph, fnd] (ROR: )", "Maintainer": "Thomas Lin Pedersen ", "Repository": "CRAN" }, "textshaping": { "Package": "textshaping", - "Version": "1.0.0", + "Version": "1.0.1", "Source": "Repository", "Title": "Bindings to the 'HarfBuzz' and 'Fribidi' Libraries for Text Shaping", - "Authors@R": "c( person(\"Thomas Lin\", \"Pedersen\", , \"thomas.pedersen@posit.co\", role = c(\"cre\", \"aut\"), comment = c(ORCID = \"0000-0002-5147-4711\")), person(\"Posit, PBC\", role = c(\"cph\", \"fnd\")) )", + "Authors@R": "c( person(\"Thomas Lin\", \"Pedersen\", , \"thomas.pedersen@posit.co\", role = c(\"cre\", \"aut\"), comment = c(ORCID = \"0000-0002-5147-4711\")), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\"), comment = c(ROR = \"03wc8by49\")) )", "Description": "Provides access to the text shaping functionality in the 'HarfBuzz' library and the bidirectional algorithm in the 'Fribidi' library. 'textshaping' is a low-level utility package mainly for graphic devices that expands upon the font tool-set provided by the 'systemfonts' package.", "License": "MIT + file LICENSE", "URL": "https://github.com/r-lib/textshaping", @@ -8335,19 +8345,20 @@ "systemfonts (>= 1.0.0)" ], "VignetteBuilder": "knitr", + "Config/build/compilation-database": "true", + "Config/testthat/edition": "3", + "Config/usethis/last-upkeep": "2025-04-23", "Encoding": "UTF-8", "RoxygenNote": "7.3.2", "SystemRequirements": "freetype2, harfbuzz, fribidi", - "Config/build/compilation-database": "true", - "Config/testthat/edition": "3", "NeedsCompilation": "yes", - "Author": "Thomas Lin Pedersen [cre, aut] (), Posit, PBC [cph, fnd]", + "Author": "Thomas Lin Pedersen [cre, aut] (ORCID: ), Posit Software, PBC [cph, fnd] (ROR: )", "Maintainer": "Thomas Lin Pedersen ", "Repository": "CRAN" }, "thematic": { "Package": "thematic", - "Version": "0.1.6", + "Version": "0.1.7", "Source": "Repository", "Title": "Unified and Automatic 'Theming' of 'ggplot2', 'lattice', and 'base' R Graphics", "Authors@R": "c( person(\"Carson\", \"Sievert\", , \"carson@posit.co\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0002-4958-2844\")), person(\"Barret\", \"Schloerke\", , \"barret@posit.co\", role = \"aut\", comment = c(ORCID = \"0000-0001-9986-114X\")), person(\"Joe\", \"Cheng\", , \"joe@posit.co\", role = \"aut\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\")) )", @@ -8392,20 +8403,21 @@ "vdiffr (>= 1.0.0)", "withr" ], - "Config/Needs/check": "shinytest, callr, sf, ggthemes, patchwork, gridExtra, tinytex, devtools, rversions", - "Config/Needs/routine": "ggrepel", - "Config/Needs/website": "GGally, RColorBrewer, patchwork, apreshill/quillt", + "Config/testthat/edition": "3", + "Config/Needs/check": "shinytest2, callr, sf, ggthemes, patchwork, gridExtra, tinytex, devtools, rversions", + "Config/Needs/routine": "ggrepel, r-lib/evaluate", + "Config/Needs/website": "GGally, RColorBrewer, patchwork, apreshill/quillt, r-lib/evaluate", "Encoding": "UTF-8", "RoxygenNote": "7.3.2", - "Collate": "'auto.R' 'base.R' 'cache.R' 'gfonts.R' 'ggplot.R' 'globals.R' 'hooks.R' 'knitr.R' 'lattice.R' 'onLoad.R' 'thematic-package.R' 'thematic-save-plot.R' 'thematic.R' 'utils.R' 'view-shinytest.R'", + "Collate": "'auto.R' 'base.R' 'cache.R' 'gfonts.R' 'ggplot.R' 'globals.R' 'hooks.R' 'knitr.R' 'lattice.R' 'onLoad.R' 'thematic-package.R' 'thematic-save-plot.R' 'thematic.R' 'utils.R'", "NeedsCompilation": "no", - "Author": "Carson Sievert [aut, cre] (), Barret Schloerke [aut] (), Joe Cheng [aut], Posit Software, PBC [cph, fnd]", + "Author": "Carson Sievert [aut, cre] (ORCID: ), Barret Schloerke [aut] (ORCID: ), Joe Cheng [aut], Posit Software, PBC [cph, fnd]", "Maintainer": "Carson Sievert ", "Repository": "CRAN" }, "tibble": { "Package": "tibble", - "Version": "3.2.1", + "Version": "3.3.0", "Source": "Repository", "Title": "Simple Data Frames", "Authors@R": "c(person(given = \"Kirill\", family = \"M\\u00fcller\", role = c(\"aut\", \"cre\"), email = \"kirill@cynkra.com\", comment = c(ORCID = \"0000-0002-1416-3412\")), person(given = \"Hadley\", family = \"Wickham\", role = \"aut\", email = \"hadley@rstudio.com\"), person(given = \"Romain\", family = \"Francois\", role = \"ctb\", email = \"romain@r-enthusiasts.com\"), person(given = \"Jennifer\", family = \"Bryan\", role = \"ctb\", email = \"jenny@rstudio.com\"), person(given = \"RStudio\", role = c(\"cph\", \"fnd\")))", @@ -8417,7 +8429,7 @@ "R (>= 3.4.0)" ], "Imports": [ - "fansi (>= 0.4.0)", + "cli", "lifecycle (>= 1.0.0)", "magrittr", "methods", @@ -8425,7 +8437,7 @@ "pkgconfig", "rlang (>= 1.0.2)", "utils", - "vctrs (>= 0.4.2)" + "vctrs (>= 0.5.0)" ], "Suggests": [ "bench", @@ -8433,9 +8445,6 @@ "blob", "brio", "callr", - "cli", - "covr", - "crayon (>= 1.3.4)", "DiagrammeR", "dplyr", "evaluate", @@ -8446,9 +8455,7 @@ "htmltools", "knitr", "lubridate", - "mockr", "nycflights13", - "pkgbuild", "pkgload", "purrr", "rmarkdown", @@ -8459,7 +8466,7 @@ ], "VignetteBuilder": "knitr", "Encoding": "UTF-8", - "RoxygenNote": "7.2.3", + "RoxygenNote": "7.3.2.9000", "Config/testthat/edition": "3", "Config/testthat/parallel": "true", "Config/testthat/start-first": "vignette-formats, as_tibble, add, invariants", @@ -8468,7 +8475,7 @@ "Config/autostyle/rmd": "false", "Config/Needs/website": "tidyverse/tidytemplate", "NeedsCompilation": "yes", - "Author": "Kirill Müller [aut, cre] (), Hadley Wickham [aut], Romain Francois [ctb], Jennifer Bryan [ctb], RStudio [cph, fnd]", + "Author": "Kirill Müller [aut, cre] (ORCID: ), Hadley Wickham [aut], Romain Francois [ctb], Jennifer Bryan [ctb], RStudio [cph, fnd]", "Maintainer": "Kirill Müller ", "Repository": "CRAN" }, @@ -8749,14 +8756,14 @@ }, "utf8": { "Package": "utf8", - "Version": "1.2.4", + "Version": "1.2.6", "Source": "Repository", "Title": "Unicode Text Processing", - "Authors@R": "c(person(given = c(\"Patrick\", \"O.\"), family = \"Perry\", role = c(\"aut\", \"cph\")), person(given = \"Kirill\", family = \"M\\u00fcller\", role = \"cre\", email = \"kirill@cynkra.com\"), person(given = \"Unicode, Inc.\", role = c(\"cph\", \"dtc\"), comment = \"Unicode Character Database\"))", + "Authors@R": "c(person(given = c(\"Patrick\", \"O.\"), family = \"Perry\", role = c(\"aut\", \"cph\")), person(given = \"Kirill\", family = \"M\\u00fcller\", role = \"cre\", email = \"kirill@cynkra.com\", comment = c(ORCID = \"0000-0002-1416-3412\")), person(given = \"Unicode, Inc.\", role = c(\"cph\", \"dtc\"), comment = \"Unicode Character Database\"))", "Description": "Process and print 'UTF-8' encoded international text (Unicode). Input, validate, normalize, encode, format, and display.", "License": "Apache License (== 2.0) | file LICENSE", - "URL": "https://ptrckprry.com/r-utf8/, https://github.com/patperry/r-utf8", - "BugReports": "https://github.com/patperry/r-utf8/issues", + "URL": "https://krlmlr.github.io/utf8/, https://github.com/krlmlr/utf8", + "BugReports": "https://github.com/krlmlr/utf8/issues", "Depends": [ "R (>= 2.10)" ], @@ -8772,9 +8779,9 @@ "VignetteBuilder": "knitr, rmarkdown", "Config/testthat/edition": "3", "Encoding": "UTF-8", - "RoxygenNote": "7.2.3", + "RoxygenNote": "7.3.2.9000", "NeedsCompilation": "yes", - "Author": "Patrick O. Perry [aut, cph], Kirill Müller [cre], Unicode, Inc. [cph, dtc] (Unicode Character Database)", + "Author": "Patrick O. Perry [aut, cph], Kirill Müller [cre] (ORCID: ), Unicode, Inc. [cph, dtc] (Unicode Character Database)", "Maintainer": "Kirill Müller ", "Repository": "CRAN" }, @@ -9190,10 +9197,10 @@ }, "zip": { "Package": "zip", - "Version": "2.3.2", + "Version": "2.3.3", "Source": "Repository", "Title": "Cross-Platform 'zip' Compression", - "Authors@R": "c( person(\"Gábor\", \"Csárdi\", , \"csardi.gabor@gmail.com\", role = c(\"aut\", \"cre\")), person(\"Kuba\", \"Podgórski\", role = \"ctb\"), person(\"Rich\", \"Geldreich\", role = \"ctb\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\")) )", + "Authors@R": "c( person(\"Gábor\", \"Csárdi\", , \"csardi.gabor@gmail.com\", role = c(\"aut\", \"cre\")), person(\"Kuba\", \"Podgórski\", role = \"ctb\"), person(\"Rich\", \"Geldreich\", role = \"ctb\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\"), comment = c(ROR = \"03wc8by49\")) )", "Description": "Cross-Platform 'zip' Compression Library. A replacement for the 'zip' function, that does not require any additional external tools on any platform.", "License": "MIT + file LICENSE", "URL": "https://github.com/r-lib/zip, https://r-lib.github.io/zip/", @@ -9208,10 +9215,11 @@ ], "Config/Needs/website": "tidyverse/tidytemplate", "Config/testthat/edition": "3", + "Config/usethis/last-upkeep": "2025-05-07", "Encoding": "UTF-8", - "RoxygenNote": "7.2.3", + "RoxygenNote": "7.3.2.9000", "NeedsCompilation": "yes", - "Author": "Gábor Csárdi [aut, cre], Kuba Podgórski [ctb], Rich Geldreich [ctb], Posit Software, PBC [cph, fnd]", + "Author": "Gábor Csárdi [aut, cre], Kuba Podgórski [ctb], Rich Geldreich [ctb], Posit Software, PBC [cph, fnd] (ROR: )", "Maintainer": "Gábor Csárdi ", "Repository": "CRAN" }, diff --git a/app_docker/www/intro.md b/app_docker/www/intro.md index 0b644dc..da7c699 100644 --- a/app_docker/www/intro.md +++ b/app_docker/www/intro.md @@ -1,31 +1,19 @@ -# Welcome +# Welcome -This is the ***FreesearchR*** data analysis tool. We intend ***FreesearchR*** to be a free tool for easy data evaluation and analysis. If you need more advanced tools, start with ***FreesearchR*** and then you'll probably be better off using *R* or similar directly. +This is the ***FreesearchR*** data analysis tool, a free tool for basic data evaluation and analysis. If you need more advanced tools, start with ***FreesearchR*** and then you'll probably be better off using *R* or similar directly. -Here is a brief summary of the functions: +With this tool you can: -1. **Import data** from a spreadsheet/file on your machine, direct export from a REDCap server, sample data or data from a your local environment if run locally. +1. **Import data** from a spreadsheet/file on your machine, directly from a [REDCap](https://projectredcap.org/ "Read more on the data capture tool REDCap") server, try it with sample data or access data directly [if run in R locally](https://agdamsbo.github.io/FreesearchR//#run-locally-on-your-own-machine "Read about running FreesearchR on your local machine") -1. **Data inspection** and **modification** like modifying variables or creating new (categorical from numeric or time data, or completely new variables from the data) +2. **Prepare** data for analysis by filtering data, modifying variables or create new variables -1. **Evaluate data** using descriptive analyses methods and inspect cross-correlations +3. **Evaluate data** using descriptive analyses methods and inspect cross-correlations as well as [missing observations](https://agdamsbo.github.io/FreesearchR/articles/missingness.html "Read more about missing data") -1. **Create and export simple, clean plots** for data overview and insights +4. **Visualise data** by [creating simple, clean plots](https://agdamsbo.github.io/FreesearchR/articles/visuals.html "See available plot types") for overview and quick insights -1. **Create regression simple models** for even more advanced data analyses +5. **Create simple regression models** for even more advanced data analyses - - Linear, dichotomous or ordinal logistic regression will be used depending on specified outcome variable - - - Plot regression analysis coefficients +6. **Download** results as a report, get the modified data set and save the code for learning and to reproduce the results later - - Evaluate model assumptions - -1. **Export results** - - - Descriptive and regression analyses results for MS Word or [LibreOffice](https://www.libreoffice.org/) - - - Modified data with preserved metadata - - - Code to recreate all steps locally - -The full [project documentation is here](https://agdamsbo.github.io/FreesearchR/) where you'll find detailed description of the app and link to the source code! If you want to [share feedback, please follow this link to a simple survey](https://redcap.au.dk/surveys/?s=JPCLPTXYDKFA8DA8). +The full [project documentation is here](https://agdamsbo.github.io/FreesearchR/) where you'll find detailed descriptions of the app and link to the source code! If you want to [share feedback, please follow this link to a simple survey](https://redcap.au.dk/surveys/?s=JPCLPTXYDKFA8DA8). diff --git a/app_docker/www/scripts.js b/app_docker/www/scripts.js new file mode 100644 index 0000000..3382b4e --- /dev/null +++ b/app_docker/www/scripts.js @@ -0,0 +1,29 @@ +// Automatically close drop-downs on navigation +// Thanks to claude.ai +$(document).on('shown.bs.tab', '#main_panel', function(e) { + // Close dropdown in this specific navset only + $('#main_panel .dropdown-menu').removeClass('show'); + $('#main_panel .dropdown-toggle').removeClass('show').attr('aria-expanded', 'false'); +}); + +$(document).on('shiny:sessioninitialized', function() { +// Function to collapse navbar on mobile +function collapseNavbar() { + var navbar = $('.navbar-collapse'); + if (navbar.hasClass('show')) { + navbar.removeClass('show'); + $('.navbar-toggler').addClass('collapsed'); + $('.navbar-toggler').attr('aria-expanded', 'false'); + } + } + + // Add click event to navigation tabs + $(document).on('click', '.nav-link[data-bs-toggle=\"tab\"]', function() { + setTimeout(collapseNavbar, 10); + }); + + // Also handle direct clicks on nav items + $(document).on('click', '.navbar-nav .nav-link', function() { + setTimeout(collapseNavbar, 10); + }); +}); diff --git a/inst/apps/FreesearchR/app.R b/inst/apps/FreesearchR/app.R index 3078f24..791e8be 100644 --- a/inst/apps/FreesearchR/app.R +++ b/inst/apps/FreesearchR/app.R @@ -1,7 +1,7 @@ ######## -#### Current file: /Users/au301842/FreesearchR/app/libs.R +#### Current file: /Users/au301842/FreesearchR/app/libs.R ######## library(shiny) @@ -40,20 +40,20 @@ library(rlang) ######## -#### Current file: /Users/au301842/FreesearchR/app/functions.R +#### Current file: /Users/au301842/FreesearchR/app/functions.R ######## ######## -#### Current file: /Users/au301842/FreesearchR/R//app_version.R +#### Current file: /Users/au301842/FreesearchR/R//app_version.R ######## app_version <- function()'25.7.2' ######## -#### Current file: /Users/au301842/FreesearchR/R//baseline_table.R +#### Current file: /Users/au301842/FreesearchR/R//baseline_table.R ######## #' Print a flexible baseline characteristics table @@ -138,7 +138,7 @@ create_baseline <- function(data, ..., by.var, add.p = FALSE, add.overall = FALS ######## -#### Current file: /Users/au301842/FreesearchR/R//contrast_text.R +#### Current file: /Users/au301842/FreesearchR/R//contrast_text.R ######## #' @title Contrast Text Color @@ -194,7 +194,7 @@ contrast_text <- function(background, ######## -#### Current file: /Users/au301842/FreesearchR/R//correlations-module.R +#### Current file: /Users/au301842/FreesearchR/R//correlations-module.R ######## #' Data correlations evaluation module @@ -339,7 +339,7 @@ sentence_paste <- function(data, and.str = "and") { ######## -#### Current file: /Users/au301842/FreesearchR/R//create-column-mod.R +#### Current file: /Users/au301842/FreesearchR/R//create-column-mod.R ######## #' @title Create new column @@ -782,7 +782,7 @@ make_choices_with_infos <- function(data) { ######## -#### Current file: /Users/au301842/FreesearchR/R//custom_SelectInput.R +#### Current file: /Users/au301842/FreesearchR/R//custom_SelectInput.R ######## #' A selectizeInput customized for data frames with column labels @@ -976,7 +976,7 @@ vectorSelectInput <- function(inputId, ######## -#### Current file: /Users/au301842/FreesearchR/R//cut-variable-dates.R +#### Current file: /Users/au301842/FreesearchR/R//cut-variable-dates.R ######## #' Extended cutting function with fall-back to the native base::cut @@ -1595,7 +1595,7 @@ plot_histogram <- function(data, column=NULL, bins = 30, breaks = NULL, color = ######## -#### Current file: /Users/au301842/FreesearchR/R//data_plots.R +#### Current file: /Users/au301842/FreesearchR/R//data_plots.R ######## # source(here::here("functions.R")) @@ -2445,7 +2445,7 @@ clean_common_axis <- function(p, axis) { ######## -#### Current file: /Users/au301842/FreesearchR/R//data-import.R +#### Current file: /Users/au301842/FreesearchR/R//data-import.R ######## data_import_ui <- function(id) { @@ -2602,7 +2602,7 @@ data_import_demo_app <- function() { ######## -#### Current file: /Users/au301842/FreesearchR/R//data-summary.R +#### Current file: /Users/au301842/FreesearchR/R//data-summary.R ######## #' Data summary module @@ -3000,7 +3000,7 @@ get_var_icon <- function(data,class.type=c("class","type")){ ######## -#### Current file: /Users/au301842/FreesearchR/R//datagrid-infos-mod.R +#### Current file: /Users/au301842/FreesearchR/R//datagrid-infos-mod.R ######## @@ -3349,7 +3349,7 @@ construct_col_summary <- function(data) { ######## -#### Current file: /Users/au301842/FreesearchR/R//helpers.R +#### Current file: /Users/au301842/FreesearchR/R//helpers.R ######## #' Wrapper function to get function from character vector referring to function from namespace. Passed to 'do.call()' @@ -4023,14 +4023,14 @@ simple_snake <- function(data){ ######## -#### Current file: /Users/au301842/FreesearchR/R//hosted_version.R +#### Current file: /Users/au301842/FreesearchR/R//hosted_version.R ######## -hosted_version <- function()'v25.7.2-250704' +hosted_version <- function()'v25.7.2-250722' ######## -#### Current file: /Users/au301842/FreesearchR/R//html_dependency_freesearchr.R +#### Current file: /Users/au301842/FreesearchR/R//html_dependency_freesearchr.R ######## html_dependency_FreesearchR <- function() { @@ -4045,7 +4045,7 @@ html_dependency_FreesearchR <- function() { ######## -#### Current file: /Users/au301842/FreesearchR/R//import-file-ext.R +#### Current file: /Users/au301842/FreesearchR/R//import-file-ext.R ######## #' @title Import data from a file @@ -4655,7 +4655,7 @@ import_file_demo_app <- function() { ######## -#### Current file: /Users/au301842/FreesearchR/R//launch_FreesearchR.R +#### Current file: /Users/au301842/FreesearchR/R//launch_FreesearchR.R ######## #' Easily launch the FreesearchR app @@ -4686,7 +4686,7 @@ launch_FreesearchR <- function(...){ ######## -#### Current file: /Users/au301842/FreesearchR/R//missings-module.R +#### Current file: /Users/au301842/FreesearchR/R//missings-module.R ######## #' Data correlations evaluation module @@ -4835,7 +4835,7 @@ compare_missings <- function(data,by_var){ ######## -#### Current file: /Users/au301842/FreesearchR/R//plot_box.R +#### Current file: /Users/au301842/FreesearchR/R//plot_box.R ######## #' Beautiful box plot(s) @@ -4934,7 +4934,7 @@ plot_box_single <- function(data, pri, sec=NULL, seed = 2103) { ######## -#### Current file: /Users/au301842/FreesearchR/R//plot_euler.R +#### Current file: /Users/au301842/FreesearchR/R//plot_euler.R ######## #' Area proportional venn diagrams @@ -5075,7 +5075,7 @@ plot_euler_single <- function(data) { ######## -#### Current file: /Users/au301842/FreesearchR/R//plot_hbar.R +#### Current file: /Users/au301842/FreesearchR/R//plot_hbar.R ######## #' Nice horizontal stacked bars (Grotta bars) @@ -5175,7 +5175,7 @@ vertical_stacked_bars <- function(data, ######## -#### Current file: /Users/au301842/FreesearchR/R//plot_ridge.R +#### Current file: /Users/au301842/FreesearchR/R//plot_ridge.R ######## #' Plot nice ridge plot @@ -5209,7 +5209,7 @@ plot_ridge <- function(data, x, y, z = NULL, ...) { ######## -#### Current file: /Users/au301842/FreesearchR/R//plot_sankey.R +#### Current file: /Users/au301842/FreesearchR/R//plot_sankey.R ######## #' Readying data for sankey plot @@ -5442,7 +5442,7 @@ plot_sankey_single <- function(data, pri, sec, color.group = c("pri", "sec"), co ######## -#### Current file: /Users/au301842/FreesearchR/R//plot_scatter.R +#### Current file: /Users/au301842/FreesearchR/R//plot_scatter.R ######## #' Beautiful violin plot @@ -5477,7 +5477,7 @@ plot_scatter <- function(data, pri, sec, ter = NULL) { ######## -#### Current file: /Users/au301842/FreesearchR/R//plot_violin.R +#### Current file: /Users/au301842/FreesearchR/R//plot_violin.R ######## #' Beatiful violin plot @@ -5512,7 +5512,7 @@ plot_violin <- function(data, pri, sec, ter = NULL) { ######## -#### Current file: /Users/au301842/FreesearchR/R//plot-download-module.R +#### Current file: /Users/au301842/FreesearchR/R//plot-download-module.R ######## plot_download_ui <- regression_ui <- function(id, ...) { @@ -5593,7 +5593,7 @@ plot_download_server <- function(id, ######## -#### Current file: /Users/au301842/FreesearchR/R//redcap_read_shiny_module.R +#### Current file: /Users/au301842/FreesearchR/R//redcap_read_shiny_module.R ######## #' Shiny module to browser and export REDCap data @@ -6289,7 +6289,7 @@ redcap_demo_app <- function() { ######## -#### Current file: /Users/au301842/FreesearchR/R//regression_model.R +#### Current file: /Users/au301842/FreesearchR/R//regression_model.R ######## #' Create a regression model programatically @@ -7016,7 +7016,7 @@ regression_model_uv_list <- function(data, ######## -#### Current file: /Users/au301842/FreesearchR/R//regression_plot.R +#### Current file: /Users/au301842/FreesearchR/R//regression_plot.R ######## #' Regression coef plot from gtsummary. Slightly modified to pass on arguments @@ -7182,7 +7182,7 @@ symmetrical_scale_x_log10 <- function(plot, breaks = c(1, 2, 3, 5, 10), ...) { ######## -#### Current file: /Users/au301842/FreesearchR/R//regression_table.R +#### Current file: /Users/au301842/FreesearchR/R//regression_table.R ######## #' Create table of regression model @@ -7371,7 +7371,7 @@ tbl_merge <- function(data) { ######## -#### Current file: /Users/au301842/FreesearchR/R//regression-module.R +#### Current file: /Users/au301842/FreesearchR/R//regression-module.R ######## ### On rewriting this module @@ -8059,7 +8059,7 @@ regression_server <- function(id, ######## -#### Current file: /Users/au301842/FreesearchR/R//report.R +#### Current file: /Users/au301842/FreesearchR/R//report.R ######## #' Split vector by an index and embed addition @@ -8147,7 +8147,7 @@ modify_qmd <- function(file, format) { ######## -#### Current file: /Users/au301842/FreesearchR/R//syntax_highlight.R +#### Current file: /Users/au301842/FreesearchR/R//syntax_highlight.R ######## ## Inpiration: @@ -8178,7 +8178,7 @@ html_code_wrap <- function(string,lang="r"){ ######## -#### Current file: /Users/au301842/FreesearchR/R//theme.R +#### Current file: /Users/au301842/FreesearchR/R//theme.R ######## #' Custom theme based on unity @@ -8297,7 +8297,7 @@ gg_theme_export <- function() { ######## -#### Current file: /Users/au301842/FreesearchR/R//ui_elements.R +#### Current file: /Users/au301842/FreesearchR/R//ui_elements.R ######## #' FreesearchR UI elements list @@ -8906,7 +8906,7 @@ if (!is.null(selection)){ ######## -#### Current file: /Users/au301842/FreesearchR/R//update-factor-ext.R +#### Current file: /Users/au301842/FreesearchR/R//update-factor-ext.R ######## @@ -9203,7 +9203,7 @@ winbox_update_factor <- function(id, ######## -#### Current file: /Users/au301842/FreesearchR/R//update-variables-ext.R +#### Current file: /Users/au301842/FreesearchR/R//update-variables-ext.R ######## #' Select, rename and convert variables @@ -10015,7 +10015,7 @@ clean_date <- function(data) { ######## -#### Current file: /Users/au301842/FreesearchR/R//visual_summary.R +#### Current file: /Users/au301842/FreesearchR/R//visual_summary.R ######## #' Data correlations evaluation module @@ -10312,7 +10312,7 @@ unique_short <- function(data, max = 15) { ######## -#### Current file: /Users/au301842/FreesearchR/R//wide2long.R +#### Current file: /Users/au301842/FreesearchR/R//wide2long.R ######## #' Alternative pivoting method for easily pivoting based on name pattern @@ -10471,7 +10471,7 @@ grepl_fix <- function(data, pattern, type = c("prefix", "infix", "suffix")) { ######## -#### Current file: /Users/au301842/FreesearchR/dev/header_include.R +#### Current file: /Users/au301842/FreesearchR/dev/header_include.R ######## header_include <- function(){ @@ -10482,7 +10482,7 @@ header_include <- function(){ ######## -#### Current file: /Users/au301842/FreesearchR/dev/dev_banner.R +#### Current file: /Users/au301842/FreesearchR/dev/dev_banner.R ######## dev_banner <- function(){ @@ -10491,7 +10491,7 @@ dev_banner <- function(){ ######## -#### Current file: /Users/au301842/FreesearchR/app/ui.R +#### Current file: /Users/au301842/FreesearchR/app/ui.R ######## # ns <- NS(id) @@ -10561,7 +10561,7 @@ ui <- bslib::page_fixed( ######## -#### Current file: /Users/au301842/FreesearchR/app/server.R +#### Current file: /Users/au301842/FreesearchR/app/server.R ######## data(mtcars) @@ -10771,18 +10771,16 @@ server <- function(input, output, session) { shiny::updateActionButton(inputId = "modal_visual_overview", disabled = TRUE) shiny::updateActionButton(inputId = "act_eval", disabled = TRUE) - bslib::nav_hide(id = "main_panel", - target = "nav_visuals") + # bslib::nav_hide(id = "main_panel", + # target = "nav_visuals") } else { shiny::updateActionButton(inputId = "act_start", disabled = FALSE) shiny::updateActionButton(inputId = "modal_browse", disabled = FALSE) shiny::updateActionButton(inputId = "modal_visual_overview", disabled = FALSE) shiny::updateActionButton(inputId = "act_eval", disabled = FALSE) - bslib::nav_show(id = "main_panel", - target = "nav_visuals") - - + # bslib::nav_show(id = "main_panel", + # target = "nav_visuals") } }) @@ -11376,7 +11374,7 @@ server <- function(input, output, session) { ######## -#### Current file: /Users/au301842/FreesearchR/app/launch.R +#### Current file: /Users/au301842/FreesearchR/app/launch.R ######## shinyApp(ui, server) diff --git a/inst/apps/FreesearchR/www/intro.md b/inst/apps/FreesearchR/www/intro.md index 0b644dc..da7c699 100644 --- a/inst/apps/FreesearchR/www/intro.md +++ b/inst/apps/FreesearchR/www/intro.md @@ -1,31 +1,19 @@ -# Welcome +# Welcome -This is the ***FreesearchR*** data analysis tool. We intend ***FreesearchR*** to be a free tool for easy data evaluation and analysis. If you need more advanced tools, start with ***FreesearchR*** and then you'll probably be better off using *R* or similar directly. +This is the ***FreesearchR*** data analysis tool, a free tool for basic data evaluation and analysis. If you need more advanced tools, start with ***FreesearchR*** and then you'll probably be better off using *R* or similar directly. -Here is a brief summary of the functions: +With this tool you can: -1. **Import data** from a spreadsheet/file on your machine, direct export from a REDCap server, sample data or data from a your local environment if run locally. +1. **Import data** from a spreadsheet/file on your machine, directly from a [REDCap](https://projectredcap.org/ "Read more on the data capture tool REDCap") server, try it with sample data or access data directly [if run in R locally](https://agdamsbo.github.io/FreesearchR//#run-locally-on-your-own-machine "Read about running FreesearchR on your local machine") -1. **Data inspection** and **modification** like modifying variables or creating new (categorical from numeric or time data, or completely new variables from the data) +2. **Prepare** data for analysis by filtering data, modifying variables or create new variables -1. **Evaluate data** using descriptive analyses methods and inspect cross-correlations +3. **Evaluate data** using descriptive analyses methods and inspect cross-correlations as well as [missing observations](https://agdamsbo.github.io/FreesearchR/articles/missingness.html "Read more about missing data") -1. **Create and export simple, clean plots** for data overview and insights +4. **Visualise data** by [creating simple, clean plots](https://agdamsbo.github.io/FreesearchR/articles/visuals.html "See available plot types") for overview and quick insights -1. **Create regression simple models** for even more advanced data analyses +5. **Create simple regression models** for even more advanced data analyses - - Linear, dichotomous or ordinal logistic regression will be used depending on specified outcome variable - - - Plot regression analysis coefficients +6. **Download** results as a report, get the modified data set and save the code for learning and to reproduce the results later - - Evaluate model assumptions - -1. **Export results** - - - Descriptive and regression analyses results for MS Word or [LibreOffice](https://www.libreoffice.org/) - - - Modified data with preserved metadata - - - Code to recreate all steps locally - -The full [project documentation is here](https://agdamsbo.github.io/FreesearchR/) where you'll find detailed description of the app and link to the source code! If you want to [share feedback, please follow this link to a simple survey](https://redcap.au.dk/surveys/?s=JPCLPTXYDKFA8DA8). +The full [project documentation is here](https://agdamsbo.github.io/FreesearchR/) where you'll find detailed descriptions of the app and link to the source code! If you want to [share feedback, please follow this link to a simple survey](https://redcap.au.dk/surveys/?s=JPCLPTXYDKFA8DA8). diff --git a/renv.lock b/renv.lock index 074b3f4..57077d0 100644 --- a/renv.lock +++ b/renv.lock @@ -413,7 +413,7 @@ }, "R.oo": { "Package": "R.oo", - "Version": "1.27.0", + "Version": "1.27.1", "Source": "Repository", "Depends": [ "R (>= 2.13.0)", @@ -433,7 +433,7 @@ "Description": "Methods and classes for object-oriented programming in R with or without references. Large effort has been made on making definition of methods as simple as possible with a minimum of maintenance for package developers. The package has been developed since 2001 and is now considered very stable. This is a cross-platform package implemented in pure R that defines standard S3 classes without any tricks.", "License": "LGPL (>= 2.1)", "LazyLoad": "TRUE", - "URL": "https://github.com/HenrikBengtsson/R.oo", + "URL": "https://henrikbengtsson.github.io/R.oo/, https://github.com/HenrikBengtsson/R.oo", "BugReports": "https://github.com/HenrikBengtsson/R.oo/issues", "NeedsCompilation": "no", "Repository": "CRAN" @@ -624,10 +624,10 @@ }, "Rcpp": { "Package": "Rcpp", - "Version": "1.0.14", + "Version": "1.1.0", "Source": "Repository", "Title": "Seamless R and C++ Integration", - "Date": "2025-01-11", + "Date": "2025-07-01", "Authors@R": "c(person(\"Dirk\", \"Eddelbuettel\", role = c(\"aut\", \"cre\"), email = \"edd@debian.org\", comment = c(ORCID = \"0000-0001-6419-907X\")), person(\"Romain\", \"Francois\", role = \"aut\", comment = c(ORCID = \"0000-0002-2444-4226\")), person(\"JJ\", \"Allaire\", role = \"aut\", comment = c(ORCID = \"0000-0003-0174-9868\")), person(\"Kevin\", \"Ushey\", role = \"aut\", comment = c(ORCID = \"0000-0003-2880-7407\")), person(\"Qiang\", \"Kou\", role = \"aut\", comment = c(ORCID = \"0000-0001-6786-5453\")), person(\"Nathan\", \"Russell\", role = \"aut\"), person(\"Iñaki\", \"Ucar\", role = \"aut\", comment = c(ORCID = \"0000-0001-6403-5550\")), person(\"Doug\", \"Bates\", role = \"aut\", comment = c(ORCID = \"0000-0001-8316-9503\")), person(\"John\", \"Chambers\", role = \"aut\"))", "Description": "The 'Rcpp' package provides R functions as well as C++ classes which offer a seamless integration of R and C++. Many R data types and objects can be mapped back and forth to C++ equivalents which facilitates both writing of new code as well as easier integration of third-party libraries. Documentation about 'Rcpp' is provided by several vignettes included in this package, via the 'Rcpp Gallery' site at , the paper by Eddelbuettel and Francois (2011, ), the book by Eddelbuettel (2013, ) and the paper by Eddelbuettel and Balamuta (2018, ); see 'citation(\"Rcpp\")' for details.", "Imports": [ @@ -647,17 +647,17 @@ "RoxygenNote": "6.1.1", "Encoding": "UTF-8", "NeedsCompilation": "yes", - "Author": "Dirk Eddelbuettel [aut, cre] (), Romain Francois [aut] (), JJ Allaire [aut] (), Kevin Ushey [aut] (), Qiang Kou [aut] (), Nathan Russell [aut], Iñaki Ucar [aut] (), Doug Bates [aut] (), John Chambers [aut]", + "Author": "Dirk Eddelbuettel [aut, cre] (ORCID: ), Romain Francois [aut] (ORCID: ), JJ Allaire [aut] (ORCID: ), Kevin Ushey [aut] (ORCID: ), Qiang Kou [aut] (ORCID: ), Nathan Russell [aut], Iñaki Ucar [aut] (ORCID: ), Doug Bates [aut] (ORCID: ), John Chambers [aut]", "Maintainer": "Dirk Eddelbuettel ", "Repository": "CRAN" }, "RcppArmadillo": { "Package": "RcppArmadillo", - "Version": "14.4.2-1", + "Version": "14.6.0-1", "Source": "Repository", "Type": "Package", "Title": "'Rcpp' Integration for the 'Armadillo' Templated Linear Algebra Library", - "Date": "2025-04-25", + "Date": "2025-07-02", "Authors@R": "c(person(\"Dirk\", \"Eddelbuettel\", role = c(\"aut\", \"cre\"), email = \"edd@debian.org\", comment = c(ORCID = \"0000-0001-6419-907X\")), person(\"Romain\", \"Francois\", role = \"aut\", comment = c(ORCID = \"0000-0002-2444-4226\")), person(\"Doug\", \"Bates\", role = \"aut\", comment = c(ORCID = \"0000-0001-8316-9503\")), person(\"Binxiang\", \"Ni\", role = \"aut\"), person(\"Conrad\", \"Sanderson\", role = \"aut\", comment = c(ORCID = \"0000-0002-0049-4501\")))", "Description": "'Armadillo' is a templated C++ linear algebra library (by Conrad Sanderson) that aims towards a good balance between speed and ease of use. Integer, floating point and complex numbers are supported, as well as a subset of trigonometric and statistics functions. Various matrix decompositions are provided through optional integration with LAPACK and ATLAS libraries. The 'RcppArmadillo' package includes the header files from the templated 'Armadillo' library. Thus users do not need to install 'Armadillo' itself in order to use 'RcppArmadillo'. From release 7.800.0 on, 'Armadillo' is licensed under Apache License 2; previous releases were under licensed as MPL 2.0 from version 3.800.0 onwards and LGPL-3 prior to that; 'RcppArmadillo' (the 'Rcpp' bindings/bridge to Armadillo) is licensed under the GNU GPL version 2 or later, as is the rest of 'Rcpp'.", "License": "GPL (>= 2)", @@ -685,7 +685,7 @@ "BugReports": "https://github.com/RcppCore/RcppArmadillo/issues", "RoxygenNote": "6.0.1", "NeedsCompilation": "yes", - "Author": "Dirk Eddelbuettel [aut, cre] (), Romain Francois [aut] (), Doug Bates [aut] (), Binxiang Ni [aut], Conrad Sanderson [aut] ()", + "Author": "Dirk Eddelbuettel [aut, cre] (ORCID: ), Romain Francois [aut] (ORCID: ), Doug Bates [aut] (ORCID: ), Binxiang Ni [aut], Conrad Sanderson [aut] (ORCID: )", "Maintainer": "Dirk Eddelbuettel ", "Repository": "CRAN" }, @@ -762,7 +762,7 @@ }, "V8": { "Package": "V8", - "Version": "6.0.3", + "Version": "6.0.4", "Source": "Repository", "Type": "Package", "Title": "Embedded JavaScript and WebAssembly Engine for R", @@ -792,7 +792,7 @@ "Language": "en-US", "Encoding": "UTF-8", "Biarch": "true", - "Author": "Jeroen Ooms [aut, cre] (), Jan Marvin Garbuszus [ctb]", + "Author": "Jeroen Ooms [aut, cre] (ORCID: ), Jan Marvin Garbuszus [ctb]", "Maintainer": "Jeroen Ooms ", "Repository": "CRAN" }, @@ -967,7 +967,7 @@ }, "bayestestR": { "Package": "bayestestR", - "Version": "0.15.3", + "Version": "0.16.1", "Source": "Repository", "Type": "Package", "Title": "Understand and Describe Bayesian Models and Posterior Distributions", @@ -978,8 +978,8 @@ "R (>= 3.6)" ], "Imports": [ - "insight (>= 1.1.0)", - "datawizard (>= 1.0.2)", + "insight (>= 1.3.1)", + "datawizard (>= 1.1.0)", "graphics", "methods", "stats", @@ -1008,7 +1008,7 @@ "lavaan", "lme4", "logspline (>= 2.1.21)", - "marginaleffects (>= 0.25.0)", + "marginaleffects (>= 0.26.0)", "MASS", "mclust", "mediation", @@ -1041,7 +1041,7 @@ "Config/Needs/website": "easystats/easystatstemplate", "Config/Needs/check": "stan-dev/cmdstanr", "NeedsCompilation": "no", - "Author": "Dominique Makowski [aut, cre] (), Daniel Lüdecke [aut] (), Mattan S. Ben-Shachar [aut] (), Indrajeet Patil [aut] (), Micah K. Wilson [aut] (), Brenton M. Wiernik [aut] (), Paul-Christian Bürkner [rev], Tristan Mahr [rev] (), Henrik Singmann [ctb] (), Quentin F. Gronau [ctb] (), Sam Crawley [ctb] ()", + "Author": "Dominique Makowski [aut, cre] (ORCID: ), Daniel Lüdecke [aut] (ORCID: ), Mattan S. Ben-Shachar [aut] (ORCID: ), Indrajeet Patil [aut] (ORCID: ), Micah K. Wilson [aut] (ORCID: ), Brenton M. Wiernik [aut] (ORCID: ), Paul-Christian Bürkner [rev], Tristan Mahr [rev] (ORCID: ), Henrik Singmann [ctb] (ORCID: ), Quentin F. Gronau [ctb] (ORCID: ), Sam Crawley [ctb] (ORCID: )", "Repository": "CRAN" }, "bigD": { @@ -1567,7 +1567,7 @@ }, "cards": { "Package": "cards", - "Version": "0.6.0", + "Version": "0.6.1", "Source": "Repository", "Title": "Analysis Results Data", "Authors@R": "c( person(\"Daniel D.\", \"Sjoberg\", , \"danield.sjoberg@gmail.com\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0003-0862-2018\")), person(\"Becca\", \"Krouse\", , \"becca.z.krouse@gsk.com\", role = \"aut\"), person(\"Emily\", \"de la Rua\", , \"emily.de_la_rua@contractors.roche.com\", role = \"aut\"), person(\"F. Hoffmann-La Roche AG\", role = c(\"cph\", \"fnd\")), person(\"GlaxoSmithKline Research & Development Limited\", role = \"cph\") )", @@ -1592,7 +1592,7 @@ "withr (>= 3.0.0)" ], "Config/Needs/coverage": "hms", - "Config/Needs/website": "rmarkdown, jsonlite, yaml, gtsummary, tfrmt, cardx, gt, fontawesome, insightsengineering/nesttemplate", + "Config/Needs/website": "rmarkdown, jsonlite, yaml, ddsjoberg/gtsummary, tfrmt, cardx, gt, fontawesome, insightsengineering/nesttemplate", "Config/testthat/edition": "3", "Config/testthat/parallel": "true", "Encoding": "UTF-8", @@ -1600,13 +1600,13 @@ "LazyData": "true", "RoxygenNote": "7.3.2", "NeedsCompilation": "no", - "Author": "Daniel D. Sjoberg [aut, cre] (), Becca Krouse [aut], Emily de la Rua [aut], F. Hoffmann-La Roche AG [cph, fnd], GlaxoSmithKline Research & Development Limited [cph]", + "Author": "Daniel D. Sjoberg [aut, cre] (ORCID: ), Becca Krouse [aut], Emily de la Rua [aut], F. Hoffmann-La Roche AG [cph, fnd], GlaxoSmithKline Research & Development Limited [cph]", "Maintainer": "Daniel D. Sjoberg ", "Repository": "CRAN" }, "cardx": { "Package": "cardx", - "Version": "0.2.4", + "Version": "0.2.5", "Source": "Repository", "Title": "Extra Analysis Results Data Utilities", "Authors@R": "c( person(\"Daniel D.\", \"Sjoberg\", , \"danield.sjoberg@gmail.com\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0003-0862-2018\")), person(\"Abinaya\", \"Yogasekaram\", , \"abinaya.yogasekaram@contractors.roche.com\", role = \"aut\"), person(\"Emily\", \"de la Rua\", , \"emily.de_la_rua@contractors.roche.com\", role = \"aut\"), person(\"F. Hoffmann-La Roche AG\", role = c(\"cph\", \"fnd\")) )", @@ -1618,7 +1618,7 @@ "R (>= 4.2)" ], "Imports": [ - "cards (>= 0.5.1)", + "cards (>= 0.6.1)", "cli (>= 3.6.1)", "dplyr (>= 1.1.2)", "glue (>= 1.6.2)", @@ -1651,7 +1651,7 @@ "Language": "en-US", "RoxygenNote": "7.3.2", "NeedsCompilation": "no", - "Author": "Daniel D. Sjoberg [aut, cre] (), Abinaya Yogasekaram [aut], Emily de la Rua [aut], F. Hoffmann-La Roche AG [cph, fnd]", + "Author": "Daniel D. Sjoberg [aut, cre] (ORCID: ), Abinaya Yogasekaram [aut], Emily de la Rua [aut], F. Hoffmann-La Roche AG [cph, fnd]", "Maintainer": "Daniel D. Sjoberg ", "Repository": "CRAN" }, @@ -1984,7 +1984,7 @@ }, "commonmark": { "Package": "commonmark", - "Version": "1.9.5", + "Version": "2.0.0", "Source": "Repository", "Type": "Package", "Title": "High Performance CommonMark and Github Markdown Rendering in R", @@ -2002,13 +2002,13 @@ "Language": "en-US", "Encoding": "UTF-8", "NeedsCompilation": "yes", - "Author": "Jeroen Ooms [aut, cre] (), John MacFarlane [cph] (Author of cmark)", + "Author": "Jeroen Ooms [aut, cre] (ORCID: ), John MacFarlane [cph] (Author of cmark)", "Maintainer": "Jeroen Ooms ", "Repository": "CRAN" }, "correlation": { "Package": "correlation", - "Version": "0.8.7", + "Version": "0.8.8", "Source": "Repository", "Type": "Package", "Title": "Methods for Correlation Analysis", @@ -2022,11 +2022,11 @@ "R (>= 4.1)" ], "Imports": [ - "bayestestR (>= 0.15.0)", + "bayestestR (>= 0.16.0)", "datasets", - "datawizard (>= 1.0.0)", - "insight (>= 1.0.0)", - "parameters (>= 0.24.0)", + "datawizard (>= 1.1.0)", + "insight (>= 1.3.1)", + "parameters (>= 0.26.0)", "stats" ], "Suggests": [ @@ -2061,7 +2061,7 @@ "Config/testthat/edition": "3", "Config/Needs/website": "rstudio/bslib, r-lib/pkgdown, easystats/easystatstemplate", "NeedsCompilation": "no", - "Author": "Dominique Makowski [aut, inv] (), Brenton M. Wiernik [aut, cre] (), Indrajeet Patil [aut] (), Daniel Lüdecke [aut] (), Mattan S. Ben-Shachar [aut] (), Rémi Thériault [aut] (), Mark White [rev], Maximilian M. Rabe [rev] ()", + "Author": "Dominique Makowski [aut, inv] (ORCID: ), Brenton M. Wiernik [aut, cre] (ORCID: ), Indrajeet Patil [aut] (ORCID: ), Daniel Lüdecke [aut] (ORCID: ), Mattan S. Ben-Shachar [aut] (ORCID: ), Rémi Thériault [aut] (ORCID: ), Mark White [rev], Maximilian M. Rabe [rev] (ORCID: )", "Repository": "CRAN" }, "cpp11": { @@ -2174,14 +2174,14 @@ }, "curl": { "Package": "curl", - "Version": "6.2.2", + "Version": "6.4.0", "Source": "Repository", "Type": "Package", "Title": "A Modern and Flexible Web Client for R", "Authors@R": "c( person(\"Jeroen\", \"Ooms\", role = c(\"aut\", \"cre\"), email = \"jeroenooms@gmail.com\", comment = c(ORCID = \"0000-0002-4035-0289\")), person(\"Hadley\", \"Wickham\", role = \"ctb\"), person(\"Posit Software, PBC\", role = \"cph\"))", "Description": "Bindings to 'libcurl' for performing fully configurable HTTP/FTP requests where responses can be processed in memory, on disk, or streaming via the callback or connection interfaces. Some knowledge of 'libcurl' is recommended; for a more-user-friendly web client see the 'httr2' package which builds on this package with http specific tools and logic.", "License": "MIT + file LICENSE", - "SystemRequirements": "libcurl (>= 7.62): libcurl-devel (rpm) or libcurl4-openssl-dev (deb)", + "SystemRequirements": "libcurl (>= 7.73): libcurl-devel (rpm) or libcurl4-openssl-dev (deb)", "URL": "https://jeroen.r-universe.dev/curl", "BugReports": "https://github.com/jeroen/curl/issues", "Suggests": [ @@ -2202,13 +2202,13 @@ "Encoding": "UTF-8", "Language": "en-US", "NeedsCompilation": "yes", - "Author": "Jeroen Ooms [aut, cre] (), Hadley Wickham [ctb], Posit Software, PBC [cph]", + "Author": "Jeroen Ooms [aut, cre] (ORCID: ), Hadley Wickham [ctb], Posit Software, PBC [cph]", "Maintainer": "Jeroen Ooms ", "Repository": "CRAN" }, "data.table": { "Package": "data.table", - "Version": "1.17.0", + "Version": "1.17.8", "Source": "Repository", "Title": "Extension of `data.frame`", "Depends": [ @@ -2236,7 +2236,7 @@ "ByteCompile": "TRUE", "Authors@R": "c( person(\"Tyson\",\"Barrett\", role=c(\"aut\",\"cre\"), email=\"t.barrett88@gmail.com\", comment = c(ORCID=\"0000-0002-2137-1391\")), person(\"Matt\",\"Dowle\", role=\"aut\", email=\"mattjdowle@gmail.com\"), person(\"Arun\",\"Srinivasan\", role=\"aut\", email=\"asrini@pm.me\"), person(\"Jan\",\"Gorecki\", role=\"aut\"), person(\"Michael\",\"Chirico\", role=\"aut\", comment = c(ORCID=\"0000-0003-0787-087X\")), person(\"Toby\",\"Hocking\", role=\"aut\", comment = c(ORCID=\"0000-0002-3146-0865\")), person(\"Benjamin\",\"Schwendinger\",role=\"aut\", comment = c(ORCID=\"0000-0003-3315-8114\")), person(\"Ivan\", \"Krylov\", role=\"aut\", email=\"ikrylov@disroot.org\", comment = c(ORCID=\"0000-0002-0172-3812\")), person(\"Pasha\",\"Stetsenko\", role=\"ctb\"), person(\"Tom\",\"Short\", role=\"ctb\"), person(\"Steve\",\"Lianoglou\", role=\"ctb\"), person(\"Eduard\",\"Antonyan\", role=\"ctb\"), person(\"Markus\",\"Bonsch\", role=\"ctb\"), person(\"Hugh\",\"Parsonage\", role=\"ctb\"), person(\"Scott\",\"Ritchie\", role=\"ctb\"), person(\"Kun\",\"Ren\", role=\"ctb\"), person(\"Xianying\",\"Tan\", role=\"ctb\"), person(\"Rick\",\"Saporta\", role=\"ctb\"), person(\"Otto\",\"Seiskari\", role=\"ctb\"), person(\"Xianghui\",\"Dong\", role=\"ctb\"), person(\"Michel\",\"Lang\", role=\"ctb\"), person(\"Watal\",\"Iwasaki\", role=\"ctb\"), person(\"Seth\",\"Wenchel\", role=\"ctb\"), person(\"Karl\",\"Broman\", role=\"ctb\"), person(\"Tobias\",\"Schmidt\", role=\"ctb\"), person(\"David\",\"Arenburg\", role=\"ctb\"), person(\"Ethan\",\"Smith\", role=\"ctb\"), person(\"Francois\",\"Cocquemas\", role=\"ctb\"), person(\"Matthieu\",\"Gomez\", role=\"ctb\"), person(\"Philippe\",\"Chataignon\", role=\"ctb\"), person(\"Nello\",\"Blaser\", role=\"ctb\"), person(\"Dmitry\",\"Selivanov\", role=\"ctb\"), person(\"Andrey\",\"Riabushenko\", role=\"ctb\"), person(\"Cheng\",\"Lee\", role=\"ctb\"), person(\"Declan\",\"Groves\", role=\"ctb\"), person(\"Daniel\",\"Possenriede\", role=\"ctb\"), person(\"Felipe\",\"Parages\", role=\"ctb\"), person(\"Denes\",\"Toth\", role=\"ctb\"), person(\"Mus\",\"Yaramaz-David\", role=\"ctb\"), person(\"Ayappan\",\"Perumal\", role=\"ctb\"), person(\"James\",\"Sams\", role=\"ctb\"), person(\"Martin\",\"Morgan\", role=\"ctb\"), person(\"Michael\",\"Quinn\", role=\"ctb\"), person(\"@javrucebo\",\"\", role=\"ctb\"), person(\"@marc-outins\",\"\", role=\"ctb\"), person(\"Roy\",\"Storey\", role=\"ctb\"), person(\"Manish\",\"Saraswat\", role=\"ctb\"), person(\"Morgan\",\"Jacob\", role=\"ctb\"), person(\"Michael\",\"Schubmehl\", role=\"ctb\"), person(\"Davis\",\"Vaughan\", role=\"ctb\"), person(\"Leonardo\",\"Silvestri\", role=\"ctb\"), person(\"Jim\",\"Hester\", role=\"ctb\"), person(\"Anthony\",\"Damico\", role=\"ctb\"), person(\"Sebastian\",\"Freundt\", role=\"ctb\"), person(\"David\",\"Simons\", role=\"ctb\"), person(\"Elliott\",\"Sales de Andrade\", role=\"ctb\"), person(\"Cole\",\"Miller\", role=\"ctb\"), person(\"Jens Peder\",\"Meldgaard\", role=\"ctb\"), person(\"Vaclav\",\"Tlapak\", role=\"ctb\"), person(\"Kevin\",\"Ushey\", role=\"ctb\"), person(\"Dirk\",\"Eddelbuettel\", role=\"ctb\"), person(\"Tony\",\"Fischetti\", role=\"ctb\"), person(\"Ofek\",\"Shilon\", role=\"ctb\"), person(\"Vadim\",\"Khotilovich\", role=\"ctb\"), person(\"Hadley\",\"Wickham\", role=\"ctb\"), person(\"Bennet\",\"Becker\", role=\"ctb\"), person(\"Kyle\",\"Haynes\", role=\"ctb\"), person(\"Boniface Christian\",\"Kamgang\", role=\"ctb\"), person(\"Olivier\",\"Delmarcell\", role=\"ctb\"), person(\"Josh\",\"O'Brien\", role=\"ctb\"), person(\"Dereck\",\"de Mezquita\", role=\"ctb\"), person(\"Michael\",\"Czekanski\", role=\"ctb\"), person(\"Dmitry\", \"Shemetov\", role=\"ctb\"), person(\"Nitish\", \"Jha\", role=\"ctb\"), person(\"Joshua\", \"Wu\", role=\"ctb\"), person(\"Iago\", \"Giné-Vázquez\", role=\"ctb\"), person(\"Anirban\", \"Chetia\", role=\"ctb\"), person(\"Doris\", \"Amoakohene\", role=\"ctb\"), person(\"Angel\", \"Feliz\", role=\"ctb\"), person(\"Michael\",\"Young\", role=\"ctb\"), person(\"Mark\", \"Seeto\", role=\"ctb\"), person(\"Philippe\", \"Grosjean\", role=\"ctb\"), person(\"Vincent\", \"Runge\", role=\"ctb\"), person(\"Christian\", \"Wia\", role=\"ctb\"), person(\"Elise\", \"Maigné\", role=\"ctb\"), person(\"Vincent\", \"Rocher\", role=\"ctb\"), person(\"Vijay\", \"Lulla\", role=\"ctb\"), person(\"Aljaž\", \"Sluga\", role=\"ctb\"), person(\"Bill\", \"Evans\", role=\"ctb\") )", "NeedsCompilation": "yes", - "Author": "Tyson Barrett [aut, cre] (), Matt Dowle [aut], Arun Srinivasan [aut], Jan Gorecki [aut], Michael Chirico [aut] (), Toby Hocking [aut] (), Benjamin Schwendinger [aut] (), Ivan Krylov [aut] (), Pasha Stetsenko [ctb], Tom Short [ctb], Steve Lianoglou [ctb], Eduard Antonyan [ctb], Markus Bonsch [ctb], Hugh Parsonage [ctb], Scott Ritchie [ctb], Kun Ren [ctb], Xianying Tan [ctb], Rick Saporta [ctb], Otto Seiskari [ctb], Xianghui Dong [ctb], Michel Lang [ctb], Watal Iwasaki [ctb], Seth Wenchel [ctb], Karl Broman [ctb], Tobias Schmidt [ctb], David Arenburg [ctb], Ethan Smith [ctb], Francois Cocquemas [ctb], Matthieu Gomez [ctb], Philippe Chataignon [ctb], Nello Blaser [ctb], Dmitry Selivanov [ctb], Andrey Riabushenko [ctb], Cheng Lee [ctb], Declan Groves [ctb], Daniel Possenriede [ctb], Felipe Parages [ctb], Denes Toth [ctb], Mus Yaramaz-David [ctb], Ayappan Perumal [ctb], James Sams [ctb], Martin Morgan [ctb], Michael Quinn [ctb], @javrucebo [ctb], @marc-outins [ctb], Roy Storey [ctb], Manish Saraswat [ctb], Morgan Jacob [ctb], Michael Schubmehl [ctb], Davis Vaughan [ctb], Leonardo Silvestri [ctb], Jim Hester [ctb], Anthony Damico [ctb], Sebastian Freundt [ctb], David Simons [ctb], Elliott Sales de Andrade [ctb], Cole Miller [ctb], Jens Peder Meldgaard [ctb], Vaclav Tlapak [ctb], Kevin Ushey [ctb], Dirk Eddelbuettel [ctb], Tony Fischetti [ctb], Ofek Shilon [ctb], Vadim Khotilovich [ctb], Hadley Wickham [ctb], Bennet Becker [ctb], Kyle Haynes [ctb], Boniface Christian Kamgang [ctb], Olivier Delmarcell [ctb], Josh O'Brien [ctb], Dereck de Mezquita [ctb], Michael Czekanski [ctb], Dmitry Shemetov [ctb], Nitish Jha [ctb], Joshua Wu [ctb], Iago Giné-Vázquez [ctb], Anirban Chetia [ctb], Doris Amoakohene [ctb], Angel Feliz [ctb], Michael Young [ctb], Mark Seeto [ctb], Philippe Grosjean [ctb], Vincent Runge [ctb], Christian Wia [ctb], Elise Maigné [ctb], Vincent Rocher [ctb], Vijay Lulla [ctb], Aljaž Sluga [ctb], Bill Evans [ctb]", + "Author": "Tyson Barrett [aut, cre] (ORCID: ), Matt Dowle [aut], Arun Srinivasan [aut], Jan Gorecki [aut], Michael Chirico [aut] (ORCID: ), Toby Hocking [aut] (ORCID: ), Benjamin Schwendinger [aut] (ORCID: ), Ivan Krylov [aut] (ORCID: ), Pasha Stetsenko [ctb], Tom Short [ctb], Steve Lianoglou [ctb], Eduard Antonyan [ctb], Markus Bonsch [ctb], Hugh Parsonage [ctb], Scott Ritchie [ctb], Kun Ren [ctb], Xianying Tan [ctb], Rick Saporta [ctb], Otto Seiskari [ctb], Xianghui Dong [ctb], Michel Lang [ctb], Watal Iwasaki [ctb], Seth Wenchel [ctb], Karl Broman [ctb], Tobias Schmidt [ctb], David Arenburg [ctb], Ethan Smith [ctb], Francois Cocquemas [ctb], Matthieu Gomez [ctb], Philippe Chataignon [ctb], Nello Blaser [ctb], Dmitry Selivanov [ctb], Andrey Riabushenko [ctb], Cheng Lee [ctb], Declan Groves [ctb], Daniel Possenriede [ctb], Felipe Parages [ctb], Denes Toth [ctb], Mus Yaramaz-David [ctb], Ayappan Perumal [ctb], James Sams [ctb], Martin Morgan [ctb], Michael Quinn [ctb], @javrucebo [ctb], @marc-outins [ctb], Roy Storey [ctb], Manish Saraswat [ctb], Morgan Jacob [ctb], Michael Schubmehl [ctb], Davis Vaughan [ctb], Leonardo Silvestri [ctb], Jim Hester [ctb], Anthony Damico [ctb], Sebastian Freundt [ctb], David Simons [ctb], Elliott Sales de Andrade [ctb], Cole Miller [ctb], Jens Peder Meldgaard [ctb], Vaclav Tlapak [ctb], Kevin Ushey [ctb], Dirk Eddelbuettel [ctb], Tony Fischetti [ctb], Ofek Shilon [ctb], Vadim Khotilovich [ctb], Hadley Wickham [ctb], Bennet Becker [ctb], Kyle Haynes [ctb], Boniface Christian Kamgang [ctb], Olivier Delmarcell [ctb], Josh O'Brien [ctb], Dereck de Mezquita [ctb], Michael Czekanski [ctb], Dmitry Shemetov [ctb], Nitish Jha [ctb], Joshua Wu [ctb], Iago Giné-Vázquez [ctb], Anirban Chetia [ctb], Doris Amoakohene [ctb], Angel Feliz [ctb], Michael Young [ctb], Mark Seeto [ctb], Philippe Grosjean [ctb], Vincent Runge [ctb], Christian Wia [ctb], Elise Maigné [ctb], Vincent Rocher [ctb], Vijay Lulla [ctb], Aljaž Sluga [ctb], Bill Evans [ctb]", "Maintainer": "Tyson Barrett ", "Repository": "CRAN" }, @@ -2291,7 +2291,7 @@ }, "datawizard": { "Package": "datawizard", - "Version": "1.0.2", + "Version": "1.2.0", "Source": "Repository", "Type": "Package", "Title": "Easy Data Wrangling and Statistical Transformations", @@ -2305,13 +2305,14 @@ "R (>= 4.0)" ], "Imports": [ - "insight (>= 1.0.2)", + "insight (>= 1.3.1)", "stats", "utils" ], "Suggests": [ "bayestestR", "boot", + "BH", "brms", "curl", "data.table", @@ -2327,7 +2328,9 @@ "lme4", "mediation", "modelbased", + "nanoparquet", "parameters (>= 0.21.7)", + "performance (>= 0.14.0)", "poorman (>= 0.2.7)", "psych", "readxl", @@ -2349,7 +2352,7 @@ "Config/testthat/parallel": "true", "Config/Needs/website": "easystats/easystatstemplate", "NeedsCompilation": "no", - "Author": "Indrajeet Patil [aut] (), Etienne Bacher [aut, cre] (), Dominique Makowski [aut] (), Daniel Lüdecke [aut] (), Mattan S. Ben-Shachar [aut] (), Brenton M. Wiernik [aut] (), Rémi Thériault [ctb] (), Thomas J. Faulkenberry [rev], Robert Garrett [rev]", + "Author": "Indrajeet Patil [aut] (ORCID: ), Etienne Bacher [aut, cre] (ORCID: ), Dominique Makowski [aut] (ORCID: ), Daniel Lüdecke [aut] (ORCID: ), Mattan S. Ben-Shachar [aut] (ORCID: ), Brenton M. Wiernik [aut] (ORCID: ), Rémi Thériault [ctb] (ORCID: ), Thomas J. Faulkenberry [rev], Robert Garrett [rev]", "Repository": "CRAN" }, "desc": { @@ -2595,7 +2598,7 @@ }, "easystats": { "Package": "easystats", - "Version": "0.7.4", + "Version": "0.7.5", "Source": "Repository", "Type": "Package", "Title": "Framework for Easy Statistical Modeling, Visualization, and Reporting", @@ -2609,16 +2612,16 @@ "R (>= 3.6)" ], "Imports": [ - "bayestestR (>= 0.15.1)", - "correlation (>= 0.8.6)", - "datawizard (>= 1.0.0)", - "effectsize (>= 1.0.0)", - "insight (>= 1.0.1)", - "modelbased (>= 0.9.0)", - "parameters (>= 0.24.1)", - "performance (>= 0.13.0)", - "report (>= 0.6.0)", - "see (>= 0.10.0)", + "bayestestR (>= 0.16.1)", + "correlation (>= 0.8.8)", + "datawizard (>= 1.1.0)", + "effectsize (>= 1.0.1)", + "insight (>= 1.3.1)", + "modelbased (>= 0.12.0)", + "parameters (>= 0.27.0)", + "performance (>= 0.15.0)", + "report (>= 0.6.1)", + "see (>= 0.11.0)", "tools", "utils" ], @@ -2637,6 +2640,7 @@ "mockery", "pak", "patchwork", + "scholar", "rmarkdown", "testthat (>= 3.2.1)", "withr", @@ -2649,36 +2653,36 @@ "Config/testthat/edition": "3", "Config/Needs/website": "easystats/easystatstemplate", "NeedsCompilation": "no", - "Author": "Daniel Lüdecke [aut, cre] (), Dominique Makowski [aut] (), Mattan S. Ben-Shachar [aut] (), Indrajeet Patil [aut] (), Brenton M. Wiernik [aut] (), Etienne Bacher [aut] (), Rémi Thériault [aut] ()", + "Author": "Daniel Lüdecke [aut, cre] (ORCID: ), Dominique Makowski [aut] (ORCID: ), Mattan S. Ben-Shachar [aut] (ORCID: ), Indrajeet Patil [aut] (ORCID: ), Brenton M. Wiernik [aut] (ORCID: ), Etienne Bacher [aut] (ORCID: ), Rémi Thériault [aut] (ORCID: )", "Repository": "CRAN" }, "effectsize": { "Package": "effectsize", - "Version": "1.0.0", + "Version": "1.0.1", "Source": "Repository", "Type": "Package", "Title": "Indices of Effect Size", - "Authors@R": "c(person(given = \"Mattan S.\", family = \"Ben-Shachar\", role = c(\"aut\", \"cre\"), email = \"mattansb@msbstats.info\", comment = c(ORCID = \"0000-0002-4287-4801\")), person(given = \"Dominique\", family = \"Makowski\", role = \"aut\", email = \"dom.makowski@gmail.com\", comment = c(ORCID = \"0000-0001-5375-9967\")), person(given = \"Daniel\", family = \"Lüdecke\", role = \"aut\", email = \"d.luedecke@uke.de\", comment = c(ORCID = \"0000-0002-8895-3206\")), person(given = \"Indrajeet\", family = \"Patil\", role = \"aut\", email = \"patilindrajeet.science@gmail.com\", comment = c(ORCID = \"0000-0003-1995-6531\")), person(given = \"Brenton M.\", family = \"Wiernik\", role = \"aut\", email = \"brenton@wiernik.org\", comment = c(ORCID = \"0000-0001-9560-6336\")), person(given = \"Rémi\", family = \"Thériault\", role = \"aut\", email = \"remi.theriault@mail.mcgill.ca\", comment = c(ORCID = \"0000-0003-4315-6788\")), person(given = \"Ken\", family = \"Kelley\", role = \"ctb\"), person(given = \"David\", family = \"Stanley\", role = \"ctb\"), person(given = \"Aaron\", family = \"Caldwell\", role = \"ctb\", email = \"arcaldwell49@gmail.com\", comment = c(ORCID = \"0000-0002-4541-6283\")), person(given = \"Jessica\", family = \"Burnett\", role = \"rev\", email = \"jburnett@usgs.gov\", comment = c(ORCID = \"0000-0002-0896-5099\")), person(given = \"Johannes\", family = \"Karreth\", role = \"rev\", email = \"jkarreth@ursinus.edu\", comment = c(ORCID = \"0000-0003-4586-7153\")), person(given = \"Philip\", family = \"Waggoner\", role = c(\"aut\", \"ctb\"), email = \"philip.waggoner@gmail.com\", comment = c(ORCID = \"0000-0002-7825-7573\")))", + "Authors@R": "c(person(given = \"Mattan S.\", family = \"Ben-Shachar\", role = c(\"aut\", \"cre\"), email = \"mattansb@msbstats.info\", comment = c(ORCID = \"0000-0002-4287-4801\")), person(given = \"Dominique\", family = \"Makowski\", role = \"aut\", email = \"dom.makowski@gmail.com\", comment = c(ORCID = \"0000-0001-5375-9967\")), person(given = \"Daniel\", family = \"Lüdecke\", role = \"aut\", email = \"d.luedecke@uke.de\", comment = c(ORCID = \"0000-0002-8895-3206\")), person(given = \"Indrajeet\", family = \"Patil\", role = \"aut\", email = \"patilindrajeet.science@gmail.com\", comment = c(ORCID = \"0000-0003-1995-6531\")), person(given = \"Brenton M.\", family = \"Wiernik\", role = \"aut\", email = \"brenton@wiernik.org\", comment = c(ORCID = \"0000-0001-9560-6336\")), person(given = \"Rémi\", family = \"Thériault\", role = \"aut\", email = \"remi.theriault@mail.mcgill.ca\", comment = c(ORCID = \"0000-0003-4315-6788\")), person(given = \"Ken\", family = \"Kelley\", role = \"ctb\"), person(given = \"David\", family = \"Stanley\", role = \"ctb\"), person(given = \"Aaron\", family = \"Caldwell\", role = \"ctb\", email = \"arcaldwell49@gmail.com\", comment = c(ORCID = \"0000-0002-4541-6283\")), person(given = \"Jessica\", family = \"Burnett\", role = \"rev\", email = \"jburnett@usgs.gov\", comment = c(ORCID = \"0000-0002-0896-5099\")), person(given = \"Johannes\", family = \"Karreth\", role = \"rev\", email = \"jkarreth@ursinus.edu\", comment = c(ORCID = \"0000-0003-4586-7153\")), person(given = \"Philip\", family = \"Waggoner\", role = c(\"aut\", \"ctb\"), email = \"philip.waggoner@gmail.com\", comment = c(ORCID = \"0000-0002-7825-7573\")))", "Maintainer": "Mattan S. Ben-Shachar ", - "Description": "Provide utilities to work with indices of effect size for a wide variety of models and hypothesis tests (see list of supported models using the function 'insight::supported_models()'), allowing computation of and conversion between indices such as Cohen's d, r, odds, etc. References: Ben-Shachar et al. (2020) .", + "Description": "Provide utilities to work with indices of effect size for a wide variety of models and hypothesis tests (see list of supported models using the function 'insight::supported_models()'), allowing computation of and conversion between indices such as Cohen's d, r, odds, etc. References: Ben-Shachar et al. (2020) .", "License": "MIT + file LICENSE", "URL": "https://easystats.github.io/effectsize/", "BugReports": "https://github.com/easystats/effectsize/issues/", "Depends": [ - "R (>= 3.6)" + "R (>= 4.0)" ], "Imports": [ - "bayestestR (>= 0.15.0)", - "insight (>= 1.0.0)", - "parameters (>= 0.24.0)", - "performance (>= 0.12.4)", - "datawizard (>= 0.13.0)", + "bayestestR (>= 0.16.0)", + "insight (>= 1.3.0)", + "parameters (>= 0.26.0)", + "performance (>= 0.14.0)", + "datawizard (>= 1.1.0)", "stats", "utils" ], "Suggests": [ - "correlation (>= 0.8.4)", - "see (>= 0.8.0)", + "correlation (>= 0.8.7)", + "see (>= 0.11.0)", "afex", "BayesFactor", "boot", @@ -2707,16 +2711,16 @@ "Config/testthat/parallel": "true", "Config/Needs/website": "rstudio/bslib, r-lib/pkgdown, easystats/easystatstemplate", "NeedsCompilation": "no", - "Author": "Mattan S. Ben-Shachar [aut, cre] (), Dominique Makowski [aut] (), Daniel Lüdecke [aut] (), Indrajeet Patil [aut] (), Brenton M. Wiernik [aut] (), Rémi Thériault [aut] (), Ken Kelley [ctb], David Stanley [ctb], Aaron Caldwell [ctb] (), Jessica Burnett [rev] (), Johannes Karreth [rev] (), Philip Waggoner [aut, ctb] ()", + "Author": "Mattan S. Ben-Shachar [aut, cre] (ORCID: ), Dominique Makowski [aut] (ORCID: ), Daniel Lüdecke [aut] (ORCID: ), Indrajeet Patil [aut] (ORCID: ), Brenton M. Wiernik [aut] (ORCID: ), Rémi Thériault [aut] (ORCID: ), Ken Kelley [ctb], David Stanley [ctb], Aaron Caldwell [ctb] (ORCID: ), Jessica Burnett [rev] (ORCID: ), Johannes Karreth [rev] (ORCID: ), Philip Waggoner [aut, ctb] (ORCID: )", "Repository": "CRAN" }, "emmeans": { "Package": "emmeans", - "Version": "1.11.1", + "Version": "1.11.2", "Source": "Repository", "Type": "Package", "Title": "Estimated Marginal Means, aka Least-Squares Means", - "Date": "2025-05-03", + "Date": "2025-07-11", "Authors@R": "c(person(\"Russell V.\", \"Lenth\", role = c(\"aut\", \"cre\", \"cph\"), email = \"russell-lenth@uiowa.edu\"), person(\"Balazs\", \"Banfai\", role = \"ctb\"), person(\"Ben\", \"Bolker\", role = \"ctb\"), person(\"Paul\", \"Buerkner\", role = \"ctb\"), person(\"Iago\", \"Giné-Vázquez\", role = \"ctb\"), person(\"Maxime\", \"Herve\", role = \"ctb\"), person(\"Maarten\", \"Jung\", role = \"ctb\"), person(\"Jonathon\", \"Love\", role = \"ctb\"), person(\"Fernando\", \"Miguez\", role = \"ctb\"), person(\"Julia\", \"Piaskowski\", role = \"ctb\"), person(\"Hannes\", \"Riebl\", role = \"ctb\"), person(\"Henrik\", \"Singmann\", role = \"ctb\"))", "Depends": [ "R (>= 4.1.0)" @@ -2914,7 +2918,7 @@ }, "evaluate": { "Package": "evaluate", - "Version": "1.0.3", + "Version": "1.0.4", "Source": "Repository", "Type": "Package", "Title": "Parsing and Evaluation Tools that Provide More Details than the Default", @@ -2933,7 +2937,8 @@ "lattice", "methods", "pkgload", - "rlang", + "ragg (>= 1.4.0)", + "rlang (>= 1.1.5)", "knitr", "testthat (>= 3.0.0)", "withr" @@ -2943,7 +2948,7 @@ "Encoding": "UTF-8", "RoxygenNote": "7.3.2", "NeedsCompilation": "no", - "Author": "Hadley Wickham [aut, cre], Yihui Xie [aut] (), Michael Lawrence [ctb], Thomas Kluyver [ctb], Jeroen Ooms [ctb], Barret Schloerke [ctb], Adam Ryczkowski [ctb], Hiroaki Yutani [ctb], Michel Lang [ctb], Karolis Koncevičius [ctb], Posit Software, PBC [cph, fnd]", + "Author": "Hadley Wickham [aut, cre], Yihui Xie [aut] (ORCID: ), Michael Lawrence [ctb], Thomas Kluyver [ctb], Jeroen Ooms [ctb], Barret Schloerke [ctb], Adam Ryczkowski [ctb], Hiroaki Yutani [ctb], Michel Lang [ctb], Karolis Koncevičius [ctb], Posit Software, PBC [cph, fnd]", "Maintainer": "Hadley Wickham ", "Repository": "CRAN" }, @@ -3050,7 +3055,7 @@ }, "flextable": { "Package": "flextable", - "Version": "0.9.7", + "Version": "0.9.9", "Source": "Repository", "Type": "Package", "Title": "Functions for Tabular Reporting", @@ -3067,7 +3072,7 @@ "grid", "htmltools", "knitr", - "officer (>= 0.6.7)", + "officer (>= 0.6.10)", "ragg", "rlang", "rmarkdown (>= 2.0)", @@ -3106,7 +3111,7 @@ "Encoding": "UTF-8", "RoxygenNote": "7.3.2", "NeedsCompilation": "no", - "Author": "David Gohel [aut, cre], ArData [cph], Clementine Jager [ctb], Eli Daniels [ctb], Panagiotis Skintzos [aut], Quentin Fazilleau [ctb], Maxim Nazarov [ctb], Titouan Robert [ctb], Michael Barrowman [ctb], Atsushi Yasumoto [ctb], Paul Julian [ctb], Sean Browning [ctb], Rémi Thériault [ctb] (), Samuel Jobert [ctb], Keith Newman [ctb]", + "Author": "David Gohel [aut, cre], ArData [cph], Clementine Jager [ctb], Eli Daniels [ctb], Panagiotis Skintzos [aut], Quentin Fazilleau [ctb], Maxim Nazarov [ctb], Titouan Robert [ctb], Michael Barrowman [ctb], Atsushi Yasumoto [ctb], Paul Julian [ctb], Sean Browning [ctb], Rémi Thériault [ctb] (ORCID: ), Samuel Jobert [ctb], Keith Newman [ctb]", "Maintainer": "David Gohel ", "Repository": "CRAN" }, @@ -3498,16 +3503,16 @@ }, "generics": { "Package": "generics", - "Version": "0.1.3", + "Version": "0.1.4", "Source": "Repository", "Title": "Common S3 Generics not Provided by Base R Methods Related to Model Fitting", - "Authors@R": "c( person(\"Hadley\", \"Wickham\", , \"hadley@rstudio.com\", role = c(\"aut\", \"cre\")), person(\"Max\", \"Kuhn\", , \"max@rstudio.com\", role = \"aut\"), person(\"Davis\", \"Vaughan\", , \"davis@rstudio.com\", role = \"aut\"), person(\"RStudio\", role = \"cph\") )", + "Authors@R": "c( person(\"Hadley\", \"Wickham\", , \"hadley@posit.co\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0003-4757-117X\")), person(\"Max\", \"Kuhn\", , \"max@posit.co\", role = \"aut\"), person(\"Davis\", \"Vaughan\", , \"davis@posit.co\", role = \"aut\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\"), comment = c(ROR = \"https://ror.org/03wc8by49\")) )", "Description": "In order to reduce potential package dependencies and conflicts, generics provides a number of commonly used S3 generics.", "License": "MIT + file LICENSE", "URL": "https://generics.r-lib.org, https://github.com/r-lib/generics", "BugReports": "https://github.com/r-lib/generics/issues", "Depends": [ - "R (>= 3.2)" + "R (>= 3.6)" ], "Imports": [ "methods" @@ -3522,10 +3527,10 @@ "Config/Needs/website": "tidyverse/tidytemplate", "Config/testthat/edition": "3", "Encoding": "UTF-8", - "RoxygenNote": "7.2.0", + "RoxygenNote": "7.3.2", "NeedsCompilation": "no", - "Author": "Hadley Wickham [aut, cre], Max Kuhn [aut], Davis Vaughan [aut], RStudio [cph]", - "Maintainer": "Hadley Wickham ", + "Author": "Hadley Wickham [aut, cre] (ORCID: ), Max Kuhn [aut], Davis Vaughan [aut], Posit Software, PBC [cph, fnd] (ROR: )", + "Maintainer": "Hadley Wickham ", "Repository": "CRAN" }, "ggalluvial": { @@ -3611,7 +3616,7 @@ }, "ggforce": { "Package": "ggforce", - "Version": "0.4.2", + "Version": "0.5.0", "Source": "Repository", "Type": "Package", "Title": "Accelerating 'ggplot2'", @@ -3623,11 +3628,10 @@ "License": "MIT + file LICENSE", "Encoding": "UTF-8", "Depends": [ - "ggplot2 (>= 3.3.6)", + "ggplot2 (>= 3.5.0)", "R (>= 3.3.0)" ], "Imports": [ - "Rcpp (>= 0.12.2)", "grid", "scales", "MASS", @@ -3645,23 +3649,21 @@ "vctrs", "systemfonts" ], + "RoxygenNote": "7.3.2", "LinkingTo": [ - "Rcpp", - "RcppEigen" + "cpp11" ], - "RoxygenNote": "7.3.1", "Suggests": [ "sessioninfo", - "concaveman", "deldir", "latex2exp", "reshape2", - "units (>= 0.4-6)", + "units (>= 0.8.0)", "covr" ], - "Collate": "'RcppExports.R' 'aaa.R' 'shape.R' 'arc_bar.R' 'arc.R' 'autodensity.R' 'autohistogram.R' 'autopoint.R' 'bezier.R' 'bspline.R' 'bspline_closed.R' 'circle.R' 'diagonal.R' 'diagonal_wide.R' 'ellipse.R' 'errorbar.R' 'facet_grid_paginate.R' 'facet_matrix.R' 'facet_row.R' 'facet_stereo.R' 'facet_wrap_paginate.R' 'facet_zoom.R' 'ggforce-package.R' 'ggproto-classes.R' 'interpolate.R' 'labeller.R' 'link.R' 'mark_circle.R' 'mark_ellipse.R' 'mark_hull.R' 'mark_label.R' 'mark_rect.R' 'parallel_sets.R' 'position-jitternormal.R' 'position_auto.R' 'position_floatstack.R' 'regon.R' 'scale-depth.R' 'scale-unit.R' 'sina.R' 'spiro.R' 'themes.R' 'trans.R' 'trans_linear.R' 'utilities.R' 'voronoi.R' 'zzz.R'", + "Collate": "'aaa.R' 'shape.R' 'arc_bar.R' 'arc.R' 'autodensity.R' 'autohistogram.R' 'autopoint.R' 'bezier.R' 'bspline.R' 'bspline_closed.R' 'circle.R' 'concaveman.R' 'cpp11.R' 'diagonal.R' 'diagonal_wide.R' 'ellipse.R' 'errorbar.R' 'facet_grid_paginate.R' 'facet_matrix.R' 'facet_row.R' 'facet_stereo.R' 'facet_wrap_paginate.R' 'facet_zoom.R' 'ggforce-package.R' 'ggproto-classes.R' 'interpolate.R' 'labeller.R' 'link.R' 'mark_circle.R' 'mark_ellipse.R' 'mark_hull.R' 'mark_label.R' 'mark_rect.R' 'parallel_sets.R' 'position-jitternormal.R' 'position_auto.R' 'position_floatstack.R' 'regon.R' 'scale-depth.R' 'scale-unit.R' 'sina.R' 'spiro.R' 'themes.R' 'trans.R' 'trans_linear.R' 'utilities.R' 'voronoi.R' 'zzz.R'", "NeedsCompilation": "yes", - "Author": "Thomas Lin Pedersen [cre, aut] (), RStudio [cph]", + "Author": "Thomas Lin Pedersen [cre, aut] (ORCID: ), RStudio [cph]", "Repository": "CRAN" }, "ggplot2": { @@ -3776,7 +3778,7 @@ }, "ggstats": { "Package": "ggstats", - "Version": "0.9.0", + "Version": "0.10.0", "Source": "Repository", "Type": "Package", "Title": "Extension to 'ggplot2' for Plotting Stats", @@ -3829,7 +3831,7 @@ "Language": "en-US", "VignetteBuilder": "knitr", "NeedsCompilation": "no", - "Author": "Joseph Larmarange [aut, cre] ()", + "Author": "Joseph Larmarange [aut, cre] (ORCID: )", "Maintainer": "Joseph Larmarange ", "Repository": "CRAN" }, @@ -4015,7 +4017,7 @@ }, "gtsummary": { "Package": "gtsummary", - "Version": "2.2.0", + "Version": "2.3.0", "Source": "Repository", "Title": "Presentation-Ready Data Summary and Analytic Result Tables", "Authors@R": "c( person(\"Daniel D.\", \"Sjoberg\", , \"danield.sjoberg@gmail.com\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0003-0862-2018\")), person(\"Joseph\", \"Larmarange\", role = \"aut\", comment = c(ORCID = \"0000-0001-7097-700X\")), person(\"Michael\", \"Curry\", role = \"aut\", comment = c(ORCID = \"0000-0002-0261-4044\")), person(\"Emily\", \"de la Rua\", , role = \"aut\", comment = c(ORCID = \"0009-0000-8738-5561\")), person(\"Jessica\", \"Lavery\", role = \"aut\", comment = c(ORCID = \"0000-0002-2746-5647\")), person(\"Karissa\", \"Whiting\", role = \"aut\", comment = c(ORCID = \"0000-0002-4683-1868\")), person(\"Emily C.\", \"Zabor\", role = \"aut\", comment = c(ORCID = \"0000-0002-1402-4498\")), person(\"Xing\", \"Bai\", role = \"ctb\"), person(\"Esther\", \"Drill\", role = \"ctb\", comment = c(ORCID = \"0000-0002-3315-4538\")), person(\"Jessica\", \"Flynn\", role = \"ctb\", comment = c(ORCID = \"0000-0001-8310-6684\")), person(\"Margie\", \"Hannum\", role = \"ctb\", comment = c(ORCID = \"0000-0002-2953-0449\")), person(\"Stephanie\", \"Lobaugh\", role = \"ctb\"), person(\"Shannon\", \"Pileggi\", role = \"ctb\", comment = c(ORCID = \"0000-0002-7732-4164\")), person(\"Amy\", \"Tin\", role = \"ctb\", comment = c(ORCID = \"0000-0002-8005-0694\")), person(\"Gustavo\", \"Zapata Wainberg\", role = \"ctb\", comment = c(ORCID = \"0000-0002-2524-3637\")) )", @@ -4027,7 +4029,7 @@ "R (>= 4.2)" ], "Imports": [ - "cards (>= 0.6.0)", + "cards (>= 0.6.1)", "cli (>= 3.6.3)", "dplyr (>= 1.1.3)", "glue (>= 1.8.0)", @@ -4040,10 +4042,10 @@ "Suggests": [ "aod (>= 1.3.3)", "broom (>= 1.0.5)", - "broom.helpers (>= 1.17.0)", + "broom.helpers (>= 1.20.0)", "broom.mixed (>= 0.2.9)", "car (>= 3.0-11)", - "cardx (>= 0.2.4)", + "cardx (>= 0.2.5)", "cmprsk", "effectsize (>= 0.6.0)", "emmeans (>= 1.7.3)", @@ -4080,13 +4082,13 @@ "LazyData": "true", "RoxygenNote": "7.3.2", "NeedsCompilation": "no", - "Author": "Daniel D. Sjoberg [aut, cre] (), Joseph Larmarange [aut] (), Michael Curry [aut] (), Emily de la Rua [aut] (), Jessica Lavery [aut] (), Karissa Whiting [aut] (), Emily C. Zabor [aut] (), Xing Bai [ctb], Esther Drill [ctb] (), Jessica Flynn [ctb] (), Margie Hannum [ctb] (), Stephanie Lobaugh [ctb], Shannon Pileggi [ctb] (), Amy Tin [ctb] (), Gustavo Zapata Wainberg [ctb] ()", + "Author": "Daniel D. Sjoberg [aut, cre] (ORCID: ), Joseph Larmarange [aut] (ORCID: ), Michael Curry [aut] (ORCID: ), Emily de la Rua [aut] (ORCID: ), Jessica Lavery [aut] (ORCID: ), Karissa Whiting [aut] (ORCID: ), Emily C. Zabor [aut] (ORCID: ), Xing Bai [ctb], Esther Drill [ctb] (ORCID: ), Jessica Flynn [ctb] (ORCID: ), Margie Hannum [ctb] (ORCID: ), Stephanie Lobaugh [ctb], Shannon Pileggi [ctb] (ORCID: ), Amy Tin [ctb] (ORCID: ), Gustavo Zapata Wainberg [ctb] (ORCID: )", "Maintainer": "Daniel D. Sjoberg ", "Repository": "CRAN" }, "haven": { "Package": "haven", - "Version": "2.5.4", + "Version": "2.5.5", "Source": "Repository", "Title": "Import and Export 'SPSS', 'Stata' and 'SAS' Files", "Authors@R": "c( person(\"Hadley\", \"Wickham\", , \"hadley@posit.co\", role = c(\"aut\", \"cre\")), person(\"Evan\", \"Miller\", role = c(\"aut\", \"cph\"), comment = \"Author of included ReadStat code\"), person(\"Danny\", \"Smith\", role = \"aut\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\")) )", @@ -4126,7 +4128,7 @@ "Config/Needs/website": "tidyverse/tidytemplate", "Config/testthat/edition": "3", "Encoding": "UTF-8", - "RoxygenNote": "7.2.3", + "RoxygenNote": "7.3.2", "SystemRequirements": "GNU make, zlib: zlib1g-dev (deb), zlib-devel (rpm)", "NeedsCompilation": "yes", "Author": "Hadley Wickham [aut, cre], Evan Miller [aut, cph] (Author of included ReadStat code), Danny Smith [aut], Posit Software, PBC [cph, fnd]", @@ -4443,7 +4445,7 @@ }, "insight": { "Package": "insight", - "Version": "1.2.0", + "Version": "1.3.1", "Source": "Repository", "Type": "Package", "Title": "Easy Access to Model Information for Various Model Objects", @@ -4490,6 +4492,7 @@ "crch", "curl", "datawizard", + "dbarts", "effectsize", "emmeans", "epiR", @@ -4526,7 +4529,7 @@ "lmtest", "logistf", "logitr", - "marginaleffects (>= 0.25.0)", + "marginaleffects (>= 0.26.0)", "MASS", "Matrix", "mclogit", @@ -4573,6 +4576,7 @@ "rstudioapi", "RWiener", "sandwich", + "sdmTMB", "serp", "speedglm", "splines", @@ -4599,7 +4603,7 @@ "Config/Needs/website": "easystats/easystatstemplate", "Config/Needs/check": "stan-dev/cmdstanr", "NeedsCompilation": "no", - "Author": "Daniel Lüdecke [aut, cre] (), Dominique Makowski [aut, ctb] (), Indrajeet Patil [aut, ctb] (), Philip Waggoner [aut, ctb] (), Mattan S. Ben-Shachar [aut, ctb] (), Brenton M. Wiernik [aut, ctb] (), Vincent Arel-Bundock [aut, ctb] (), Etienne Bacher [aut, ctb] (), Alex Hayes [rev] (), Grant McDermott [ctb] (), Rémi Thériault [ctb] (), Alex Reinhart [ctb] ()", + "Author": "Daniel Lüdecke [aut, cre] (ORCID: ), Dominique Makowski [aut, ctb] (ORCID: ), Indrajeet Patil [aut, ctb] (ORCID: ), Philip Waggoner [aut, ctb] (ORCID: ), Mattan S. Ben-Shachar [aut, ctb] (ORCID: ), Brenton M. Wiernik [aut, ctb] (ORCID: ), Vincent Arel-Bundock [aut, ctb] (ORCID: ), Etienne Bacher [aut, ctb] (ORCID: ), Alex Hayes [rev] (ORCID: ), Grant McDermott [ctb] (ORCID: ), Rémi Thériault [ctb] (ORCID: ), Alex Reinhart [ctb] (ORCID: )", "Repository": "CRAN" }, "isoband": { @@ -4739,25 +4743,21 @@ }, "keyring": { "Package": "keyring", - "Version": "1.3.2", + "Version": "1.4.1", "Source": "Repository", "Title": "Access the System Credential Store from R", - "Authors@R": "c( person(\"Gábor\", \"Csárdi\", , \"csardi.gabor@gmail.com\", role = c(\"aut\", \"cre\")), person(\"Alec\", \"Wong\", role = \"ctb\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\")) )", + "Authors@R": "c( person(\"Gábor\", \"Csárdi\", , \"csardi.gabor@gmail.com\", role = c(\"aut\", \"cre\")), person(\"Alec\", \"Wong\", role = \"ctb\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\"), comment = c(ROR = \"03wc8by49\")) )", "Description": "Platform independent 'API' to access the operating system's credential store. Currently supports: 'Keychain' on 'macOS', Credential Store on 'Windows', the Secret Service 'API' on 'Linux', and simple, platform independent stores implemented with environment variables or encrypted files. Additional storage back-ends can be added easily.", "License": "MIT + file LICENSE", "URL": "https://keyring.r-lib.org/, https://github.com/r-lib/keyring", "BugReports": "https://github.com/r-lib/keyring/issues", "Depends": [ - "R (>= 3.6)" + "R (>= 3.5)" ], "Imports": [ "askpass", - "assertthat", "filelock", - "openssl", "R6", - "rappdirs", - "sodium", "tools", "utils", "yaml" @@ -4765,18 +4765,19 @@ "Suggests": [ "callr", "covr", - "mockery", + "openssl", "testthat (>= 3.0.0)", "withr" ], + "Biarch": "true", "Config/Needs/website": "tidyverse/tidytemplate", "Config/testthat/edition": "3", + "Config/usethis/last-upkeep": "2025-04-30", "Encoding": "UTF-8", - "RoxygenNote": "7.2.3", + "RoxygenNote": "7.3.2.9000", "SystemRequirements": "Optional: libsecret on Linux (libsecret-1-dev on Debian/Ubuntu, libsecret-devel on Fedora/CentOS)", - "Collate": "'api.R' 'assertions.R' 'backend-class.R' 'backend-env.R' 'backend-file.R' 'backend-macos.R' 'backend-secret-service.R' 'backend-wincred.R' 'default_backend.R' 'keyring-package.R' 'package.R' 'pass.R' 'utils.R'", "NeedsCompilation": "yes", - "Author": "Gábor Csárdi [aut, cre], Alec Wong [ctb], Posit Software, PBC [cph, fnd]", + "Author": "Gábor Csárdi [aut, cre], Alec Wong [ctb], Posit Software, PBC [cph, fnd] (ROR: )", "Maintainer": "Gábor Csárdi ", "Repository": "CRAN" }, @@ -4865,7 +4866,7 @@ }, "labelled": { "Package": "labelled", - "Version": "2.14.0", + "Version": "2.14.1", "Source": "Repository", "Type": "Package", "Title": "Manipulating Labelled Data", @@ -4908,7 +4909,7 @@ "Config/testthat/edition": "3", "Config/Needs/check": "memisc", "NeedsCompilation": "no", - "Author": "Joseph Larmarange [aut, cre] (), Daniel Ludecke [ctb], Hadley Wickham [ctb], Michal Bojanowski [ctb], François Briatte [ctb]", + "Author": "Joseph Larmarange [aut, cre] (ORCID: ), Daniel Ludecke [ctb], Hadley Wickham [ctb], Michal Bojanowski [ctb], François Briatte [ctb]", "Repository": "CRAN" }, "later": { @@ -5433,12 +5434,12 @@ }, "modelbased": { "Package": "modelbased", - "Version": "0.10.0", + "Version": "0.12.0", "Source": "Repository", "Type": "Package", "Title": "Estimation of Model-Based Predictions, Contrasts and Means", - "Authors@R": "c(person(given = \"Dominique\", family = \"Makowski\", role = c(\"aut\", \"cre\"), email = \"dom.makowski@gmail.com\", comment = c(ORCID = \"0000-0001-5375-9967\")), person(given = \"Daniel\", family = \"Lüdecke\", role = \"aut\", email = \"d.luedecke@uke.de\", comment = c(ORCID = \"0000-0002-8895-3206\")), person(given = \"Mattan S.\", family = \"Ben-Shachar\", role = \"aut\", email = \"matanshm@post.bgu.ac.il\", comment = c(ORCID = \"0000-0002-4287-4801\")), person(given = \"Indrajeet\", family = \"Patil\", role = \"aut\", email = \"patilindrajeet.science@gmail.com\", comment = c(ORCID = \"0000-0003-1995-6531\")), person(given = \"Rémi\", family = \"Thériault\", role = \"aut\", email = \"remi.theriault@mail.mcgill.ca\", comment = c(ORCID = \"0000-0003-4315-6788\")))", - "Maintainer": "Dominique Makowski ", + "Authors@R": "c(person(given = \"Dominique\", family = \"Makowski\", role = c(\"aut\", \"cre\"), email = \"officialeasystats@gmail.com\", comment = c(ORCID = \"0000-0001-5375-9967\")), person(given = \"Daniel\", family = \"Lüdecke\", role = \"aut\", email = \"d.luedecke@uke.de\", comment = c(ORCID = \"0000-0002-8895-3206\")), person(given = \"Mattan S.\", family = \"Ben-Shachar\", role = \"aut\", email = \"matanshm@post.bgu.ac.il\", comment = c(ORCID = \"0000-0002-4287-4801\")), person(given = \"Indrajeet\", family = \"Patil\", role = \"aut\", email = \"patilindrajeet.science@gmail.com\", comment = c(ORCID = \"0000-0003-1995-6531\")), person(given = \"Rémi\", family = \"Thériault\", role = \"aut\", email = \"remi.theriault@mail.mcgill.ca\", comment = c(ORCID = \"0000-0003-4315-6788\")))", + "Maintainer": "Dominique Makowski ", "Description": "Implements a general interface for model-based estimations for a wide variety of models, used in the computation of marginal means, contrast analysis and predictions. For a list of supported models, see 'insight::supported_models()'.", "License": "GPL-3", "URL": "https://easystats.github.io/modelbased/", @@ -5447,24 +5448,28 @@ "R (>= 3.6)" ], "Imports": [ - "bayestestR (>= 0.15.1)", - "datawizard (>= 1.0.0)", - "insight (>= 1.0.1)", - "parameters (>= 0.24.1)", + "bayestestR (>= 0.16.1)", + "datawizard (>= 1.1.0)", + "insight (>= 1.3.1)", + "parameters (>= 0.27.0)", "graphics", "stats", "tools", "utils" ], "Suggests": [ + "afex", "BH", "betareg", + "boot", "bootES", + "brglm2", "brms", "coda", "collapse", "correlation", "curl", + "discovr", "easystats", "effectsize (>= 1.0.0)", "emmeans (>= 1.10.2)", @@ -5480,12 +5485,15 @@ "logspline", "MASS", "Matrix", - "marginaleffects (>= 0.25.0)", + "marginaleffects (>= 0.26.0)", "mice", "mgcv", + "mvtnorm", "nanoparquet", + "nnet", "ordinal", - "performance (>= 0.13.0)", + "palmerpenguins", + "performance (>= 0.14.0)", "patchwork", "pbkrtest", "poorman", @@ -5495,8 +5503,10 @@ "rmarkdown", "rstanarm", "rtdists", + "RWiener", "sandwich", - "see (>= 0.9.0)", + "see (>= 0.11.0)", + "survival", "testthat (>= 3.2.1)", "vdiffr", "withr" @@ -5511,7 +5521,7 @@ "Config/Needs/website": "easystats/easystatstemplate", "LazyData": "true", "NeedsCompilation": "no", - "Author": "Dominique Makowski [aut, cre] (), Daniel Lüdecke [aut] (), Mattan S. Ben-Shachar [aut] (), Indrajeet Patil [aut] (), Rémi Thériault [aut] ()", + "Author": "Dominique Makowski [aut, cre] (ORCID: ), Daniel Lüdecke [aut] (ORCID: ), Mattan S. Ben-Shachar [aut] (ORCID: ), Indrajeet Patil [aut] (ORCID: ), Rémi Thériault [aut] (ORCID: )", "Repository": "CRAN" }, "mvtnorm": { @@ -5647,11 +5657,11 @@ }, "officer": { "Package": "officer", - "Version": "0.6.8", + "Version": "0.6.10", "Source": "Repository", "Type": "Package", "Title": "Manipulation of Microsoft Word and PowerPoint Documents", - "Authors@R": "c( person(\"David\", \"Gohel\", , \"david.gohel@ardata.fr\", role = c(\"aut\", \"cre\")), person(\"Stefan\", \"Moog\", , \"moogs@gmx.de\", role = \"aut\"), person(\"Mark\", \"Heckmann\", , \"heckmann.mark@gmail.com\", role = \"aut\", comment = c(ORCID = \"0000-0002-0736-7417\")), person(\"ArData\", role = \"cph\"), person(\"Frank\", \"Hangler\", , \"frank@plotandscatter.com\", role = \"ctb\", comment = \"function body_replace_all_text\"), person(\"Liz\", \"Sander\", , \"lsander@civisanalytics.com\", role = \"ctb\", comment = \"several documentation fixes\"), person(\"Anton\", \"Victorson\", , \"anton@victorson.se\", role = \"ctb\", comment = \"fixes xml structures\"), person(\"Jon\", \"Calder\", , \"jonmcalder@gmail.com\", role = \"ctb\", comment = \"update vignettes\"), person(\"John\", \"Harrold\", , \"john.m.harrold@gmail.com\", role = \"ctb\", comment = \"function annotate_base\"), person(\"John\", \"Muschelli\", , \"muschellij2@gmail.com\", role = \"ctb\", comment = \"google doc compatibility\"), person(\"Bill\", \"Denney\", , \"wdenney@humanpredictions.com\", role = \"ctb\", comment = c(ORCID = \"0000-0002-5759-428X\", \"function as.matrix.rpptx\")), person(\"Nikolai\", \"Beck\", , \"beck.nikolai@gmail.com\", role = \"ctb\", comment = \"set speaker notes for .pptx documents\"), person(\"Greg\", \"Leleu\", , \"gregoire.leleu@gmail.com\", role = \"ctb\", comment = \"fields functionality in ppt\"), person(\"Majid\", \"Eismann\", role = \"ctb\"), person(\"Hongyuan\", \"Jia\", , \"hongyuanjia@cqust.edu.cn\", role = \"ctb\", comment = c(ORCID = \"0000-0002-0075-8183\")) )", + "Authors@R": "c( person(\"David\", \"Gohel\", , \"david.gohel@ardata.fr\", role = c(\"aut\", \"cre\")), person(\"Stefan\", \"Moog\", , \"moogs@gmx.de\", role = \"aut\"), person(\"Mark\", \"Heckmann\", , \"heckmann.mark@gmail.com\", role = \"aut\", comment = c(ORCID = \"0000-0002-0736-7417\")), person(\"ArData\", role = \"cph\"), person(\"Frank\", \"Hangler\", , \"frank@plotandscatter.com\", role = \"ctb\", comment = \"function body_replace_all_text\"), person(\"Liz\", \"Sander\", , \"lsander@civisanalytics.com\", role = \"ctb\", comment = \"several documentation fixes\"), person(\"Anton\", \"Victorson\", , \"anton@victorson.se\", role = \"ctb\", comment = \"fixes xml structures\"), person(\"Jon\", \"Calder\", , \"jonmcalder@gmail.com\", role = \"ctb\", comment = \"update vignettes\"), person(\"John\", \"Harrold\", , \"john.m.harrold@gmail.com\", role = \"ctb\", comment = \"function annotate_base\"), person(\"John\", \"Muschelli\", , \"muschellij2@gmail.com\", role = \"ctb\", comment = \"google doc compatibility\"), person(\"Bill\", \"Denney\", , \"wdenney@humanpredictions.com\", role = \"ctb\", comment = c(ORCID = \"0000-0002-5759-428X\", \"function as.matrix.rpptx\")), person(\"Nikolai\", \"Beck\", , \"beck.nikolai@gmail.com\", role = \"ctb\", comment = \"set speaker notes for .pptx documents\"), person(\"Greg\", \"Leleu\", , \"gregoire.leleu@gmail.com\", role = \"ctb\", comment = \"fields functionality in ppt\"), person(\"Majid\", \"Eismann\", role = \"ctb\"), person(\"Hongyuan\", \"Jia\", , \"hongyuanjia@cqust.edu.cn\", role = \"ctb\", comment = c(ORCID = \"0000-0002-0075-8183\")), person(\"Michael\", \"Stackhouse\", , \"mike.stackhouse@atorusresearch.com\", role = \"ctb\") )", "Description": "Access and manipulate 'Microsoft Word', 'RTF' and 'Microsoft PowerPoint' documents from R. The package focuses on tabular and graphical reporting from R; it also provides two functions that let users get document content into data objects. A set of functions lets add and remove images, tables and paragraphs of text in new or existing documents. The package does not require any installation of Microsoft products to be able to write Microsoft files.", "License": "MIT + file LICENSE", "URL": "https://ardata-fr.github.io/officeverse/, https://davidgohel.github.io/officer/", @@ -5683,9 +5693,9 @@ ], "Encoding": "UTF-8", "RoxygenNote": "7.3.2", - "Collate": "'core_properties.R' 'custom_properties.R' 'defunct.R' 'dev-utils.R' 'docx_add.R' 'docx_comments.R' 'docx_cursor.R' 'docx_part.R' 'docx_replace.R' 'docx_section.R' 'docx_settings.R' 'empty_content.R' 'formatting_properties.R' 'fortify_docx.R' 'fortify_pptx.R' 'knitr_utils.R' 'officer.R' 'ooxml.R' 'ooxml_block_objects.R' 'ooxml_run_objects.R' 'openxml_content_type.R' 'openxml_document.R' 'pack_folder.R' 'ph_location.R' 'post-proc.R' 'ppt_class_dir_collection.R' 'ppt_classes.R' 'ppt_notes.R' 'ppt_ph_dedupe_layout.R' 'ppt_ph_manipulate.R' 'ppt_ph_rename_layout.R' 'ppt_ph_with_methods.R' 'pptx_informations.R' 'pptx_layout_helper.R' 'pptx_matrix.R' 'utils.R' 'pptx_slide_manip.R' 'read_docx.R' 'read_docx_styles.R' 'read_pptx.R' 'read_xlsx.R' 'relationship.R' 'rtf.R' 'shape_properties.R' 'shorcuts.R'", + "Collate": "'core_properties.R' 'custom_properties.R' 'defunct.R' 'dev-utils.R' 'docx_add.R' 'docx_comments.R' 'docx_cursor.R' 'docx_part.R' 'docx_replace.R' 'docx_section.R' 'docx_settings.R' 'empty_content.R' 'formatting_properties.R' 'fortify_docx.R' 'fortify_pptx.R' 'knitr_utils.R' 'officer.R' 'ooxml.R' 'ooxml_block_objects.R' 'ooxml_run_objects.R' 'openxml_content_type.R' 'openxml_document.R' 'pack_folder.R' 'ph_location.R' 'post-proc.R' 'ppt_class_dir_collection.R' 'ppt_classes.R' 'ppt_notes.R' 'ppt_ph_dedupe_layout.R' 'ppt_ph_manipulate.R' 'ppt_ph_rename_layout.R' 'ppt_ph_with_methods.R' 'pptx_informations.R' 'pptx_layout_helper.R' 'pptx_matrix.R' 'utils.R' 'pptx_slide_manip.R' 'read_docx.R' 'read_docx_styles.R' 'read_pptx.R' 'read_xlsx.R' 'relationship.R' 'rtf.R' 'shape_properties.R' 'shorcuts.R' 'docx_append_context.R' 'utils-xml.R' 'deprecated.R'", "NeedsCompilation": "no", - "Author": "David Gohel [aut, cre], Stefan Moog [aut], Mark Heckmann [aut] (), ArData [cph], Frank Hangler [ctb] (function body_replace_all_text), Liz Sander [ctb] (several documentation fixes), Anton Victorson [ctb] (fixes xml structures), Jon Calder [ctb] (update vignettes), John Harrold [ctb] (function annotate_base), John Muschelli [ctb] (google doc compatibility), Bill Denney [ctb] (, function as.matrix.rpptx), Nikolai Beck [ctb] (set speaker notes for .pptx documents), Greg Leleu [ctb] (fields functionality in ppt), Majid Eismann [ctb], Hongyuan Jia [ctb] ()", + "Author": "David Gohel [aut, cre], Stefan Moog [aut], Mark Heckmann [aut] (ORCID: ), ArData [cph], Frank Hangler [ctb] (function body_replace_all_text), Liz Sander [ctb] (several documentation fixes), Anton Victorson [ctb] (fixes xml structures), Jon Calder [ctb] (update vignettes), John Harrold [ctb] (function annotate_base), John Muschelli [ctb] (google doc compatibility), Bill Denney [ctb] (ORCID: , function as.matrix.rpptx), Nikolai Beck [ctb] (set speaker notes for .pptx documents), Greg Leleu [ctb] (fields functionality in ppt), Majid Eismann [ctb], Hongyuan Jia [ctb] (ORCID: ), Michael Stackhouse [ctb]", "Maintainer": "David Gohel ", "Repository": "CRAN" }, @@ -5725,7 +5735,7 @@ }, "openssl": { "Package": "openssl", - "Version": "2.3.2", + "Version": "2.3.3", "Source": "Repository", "Type": "Package", "Title": "Toolkit for Encryption, Signatures and Certificates Based on OpenSSL", @@ -5752,13 +5762,13 @@ "RoxygenNote": "7.3.2", "Encoding": "UTF-8", "NeedsCompilation": "yes", - "Author": "Jeroen Ooms [aut, cre] (), Oliver Keyes [ctb]", + "Author": "Jeroen Ooms [aut, cre] (ORCID: ), Oliver Keyes [ctb]", "Maintainer": "Jeroen Ooms ", "Repository": "CRAN" }, "openxlsx2": { "Package": "openxlsx2", - "Version": "1.15", + "Version": "1.17", "Source": "Repository", "Type": "Package", "Title": "Read, Write and Edit 'xlsx' Files", @@ -5798,18 +5808,18 @@ "Config/testthat/edition": "3", "Config/testthat/parallel": "true", "NeedsCompilation": "yes", - "Author": "Jordan Mark Barbone [aut] (), Jan Marvin Garbuszus [aut, cre], Olivier Roy [ctb], openxlsx authors [cph] (openxlsx package), Arseny Kapoulkine [ctb, cph] (Author of included pugixml code)", + "Author": "Jordan Mark Barbone [aut] (ORCID: ), Jan Marvin Garbuszus [aut, cre], Olivier Roy [ctb], openxlsx authors [cph] (openxlsx package), Arseny Kapoulkine [ctb, cph] (Author of included pugixml code)", "Maintainer": "Jan Marvin Garbuszus ", "Repository": "CRAN" }, "parameters": { "Package": "parameters", - "Version": "0.24.2", + "Version": "0.27.0", "Source": "Repository", "Type": "Package", "Title": "Processing of Model Parameters", - "Authors@R": "c(person(given = \"Daniel\", family = \"Lüdecke\", role = c(\"aut\", \"cre\"), email = \"d.luedecke@uke.de\", comment = c(ORCID = \"0000-0002-8895-3206\")), person(given = \"Dominique\", family = \"Makowski\", role = \"aut\", email = \"dom.makowski@gmail.com\", comment = c(ORCID = \"0000-0001-5375-9967\")), person(given = \"Mattan S.\", family = \"Ben-Shachar\", role = \"aut\", email = \"matanshm@post.bgu.ac.il\", comment = c(ORCID = \"0000-0002-4287-4801\")), person(given = \"Indrajeet\", family = \"Patil\", role = \"aut\", email = \"patilindrajeet.science@gmail.com\", comment = c(ORCID = \"0000-0003-1995-6531\")), person(given = \"Søren\", family = \"Højsgaard\", role = \"aut\", email = \"sorenh@math.aau.dk\"), person(given = \"Brenton M.\", family = \"Wiernik\", role = \"aut\", email = \"brenton@wiernik.org\", comment = c(ORCID = \"0000-0001-9560-6336\")), person(given = \"Zen J.\", family = \"Lau\", role = \"ctb\", email = \"zenjuen.lau@ntu.edu.sg\"), person(given = \"Vincent\", family = \"Arel-Bundock\", role = \"ctb\", email = \"vincent.arel-bundock@umontreal.ca\", comment = c(ORCID = \"0000-0003-2042-7063\")), person(given = \"Jeffrey\", family = \"Girard\", role = \"ctb\", email = \"me@jmgirard.com\", comment = c(ORCID = \"0000-0002-7359-3746\")), person(given = \"Christina\", family = \"Maimone\", role = \"rev\", email = \"christina.maimone@northwestern.edu\"), person(given = \"Niels\", family = \"Ohlsen\", role = \"rev\"), person(given = \"Douglas Ezra\", family = \"Morrison\", role = \"ctb\", email = \"dmorrison01@ucla.edu\", comment = c(ORCID = \"0000-0002-7195-830X\")), person(given = \"Joseph\", family = \"Luchman\", role = \"ctb\", email = \"jluchman@gmail.com\", comment = c(ORCID = \"0000-0002-8886-9717\")))", - "Maintainer": "Daniel Lüdecke ", + "Authors@R": "c(person(given = \"Daniel\", family = \"Lüdecke\", role = c(\"aut\", \"cre\"), email = \"officialeasystats@gmail.com\", comment = c(ORCID = \"0000-0002-8895-3206\")), person(given = \"Dominique\", family = \"Makowski\", role = \"aut\", email = \"dom.makowski@gmail.com\", comment = c(ORCID = \"0000-0001-5375-9967\")), person(given = \"Mattan S.\", family = \"Ben-Shachar\", role = \"aut\", email = \"matanshm@post.bgu.ac.il\", comment = c(ORCID = \"0000-0002-4287-4801\")), person(given = \"Indrajeet\", family = \"Patil\", role = \"aut\", email = \"patilindrajeet.science@gmail.com\", comment = c(ORCID = \"0000-0003-1995-6531\")), person(given = \"Søren\", family = \"Højsgaard\", role = \"aut\", email = \"sorenh@math.aau.dk\"), person(given = \"Brenton M.\", family = \"Wiernik\", role = \"aut\", email = \"brenton@wiernik.org\", comment = c(ORCID = \"0000-0001-9560-6336\")), person(given = \"Zen J.\", family = \"Lau\", role = \"ctb\", email = \"zenjuen.lau@ntu.edu.sg\"), person(given = \"Vincent\", family = \"Arel-Bundock\", role = \"ctb\", email = \"vincent.arel-bundock@umontreal.ca\", comment = c(ORCID = \"0000-0003-2042-7063\")), person(given = \"Jeffrey\", family = \"Girard\", role = \"ctb\", email = \"me@jmgirard.com\", comment = c(ORCID = \"0000-0002-7359-3746\")), person(given = \"Christina\", family = \"Maimone\", role = \"rev\", email = \"christina.maimone@northwestern.edu\"), person(given = \"Niels\", family = \"Ohlsen\", role = \"rev\"), person(given = \"Douglas Ezra\", family = \"Morrison\", role = \"ctb\", email = \"dmorrison01@ucla.edu\", comment = c(ORCID = \"0000-0002-7195-830X\")), person(given = \"Joseph\", family = \"Luchman\", role = \"ctb\", email = \"jluchman@gmail.com\", comment = c(ORCID = \"0000-0002-8886-9717\")))", + "Maintainer": "Daniel Lüdecke ", "Description": "Utilities for processing the parameters of various statistical models. Beyond computing p values, CIs, and other indices for a wide variety of models (see list of supported models using the function 'insight::supported_models()'), this package implements features like bootstrapping or simulating of parameters and models, feature reduction (feature extraction and variable selection) as well as functions to describe data and variable characteristics (e.g. skewness, kurtosis, smoothness or distribution).", "License": "GPL-3", "URL": "https://easystats.github.io/parameters/", @@ -5818,9 +5828,9 @@ "R (>= 3.6)" ], "Imports": [ - "bayestestR (>= 0.15.1)", - "datawizard (>= 1.0.0)", - "insight (>= 1.0.1)", + "bayestestR (>= 0.16.1)", + "datawizard (>= 1.1.0)", + "insight (>= 1.3.1)", "graphics", "methods", "stats", @@ -5851,10 +5861,13 @@ "cluster", "cobalt", "coda", + "correlation (>= 0.8.8)", "coxme", "cplm", + "curl", "dbscan", "did", + "discovr", "distributional", "domir (>= 0.2.0)", "drc", @@ -5874,7 +5887,6 @@ "gamlss", "gee", "geepack", - "ggeffects (>= 1.3.2)", "ggplot2", "GLMMadaptive", "glmmTMB (>= 1.1.10)", @@ -5897,7 +5909,7 @@ "logspline", "lqmm", "M3C", - "marginaleffects (>= 0.25.0)", + "marginaleffects (>= 0.26.0)", "modelbased (>= 0.9.0)", "MASS", "Matrix", @@ -5914,6 +5926,7 @@ "mmrm", "multcomp", "MuMIn", + "mvtnorm", "NbClust", "nFactors", "nestedLogit", @@ -5924,7 +5937,7 @@ "panelr", "pbkrtest", "PCDimension", - "performance (>= 0.12.0)", + "performance (>= 0.14.0)", "plm", "PMCMRplus", "poorman", @@ -5965,14 +5978,15 @@ "Config/testthat/edition": "3", "Config/testthat/parallel": "true", "Config/Needs/website": "easystats/easystatstemplate", + "Config/Needs/check": "stan-dev/cmdstanr", "Config/rcmdcheck/ignore-inconsequential-notes": "true", "NeedsCompilation": "no", - "Author": "Daniel Lüdecke [aut, cre] (), Dominique Makowski [aut] (), Mattan S. Ben-Shachar [aut] (), Indrajeet Patil [aut] (), Søren Højsgaard [aut], Brenton M. Wiernik [aut] (), Zen J. Lau [ctb], Vincent Arel-Bundock [ctb] (), Jeffrey Girard [ctb] (), Christina Maimone [rev], Niels Ohlsen [rev], Douglas Ezra Morrison [ctb] (), Joseph Luchman [ctb] ()", + "Author": "Daniel Lüdecke [aut, cre] (ORCID: ), Dominique Makowski [aut] (ORCID: ), Mattan S. Ben-Shachar [aut] (ORCID: ), Indrajeet Patil [aut] (ORCID: ), Søren Højsgaard [aut], Brenton M. Wiernik [aut] (ORCID: ), Zen J. Lau [ctb], Vincent Arel-Bundock [ctb] (ORCID: ), Jeffrey Girard [ctb] (ORCID: ), Christina Maimone [rev], Niels Ohlsen [rev], Douglas Ezra Morrison [ctb] (ORCID: ), Joseph Luchman [ctb] (ORCID: )", "Repository": "CRAN" }, "patchwork": { "Package": "patchwork", - "Version": "1.3.0", + "Version": "1.3.1", "Source": "Repository", "Type": "Package", "Title": "The Composer of Plots", @@ -5983,7 +5997,7 @@ "Encoding": "UTF-8", "Imports": [ "ggplot2 (>= 3.0.0)", - "gtable", + "gtable (>= 0.3.6)", "grid", "stats", "grDevices", @@ -6011,7 +6025,7 @@ "VignetteBuilder": "knitr", "Config/Needs/website": "gifski", "NeedsCompilation": "no", - "Author": "Thomas Lin Pedersen [cre, aut] ()", + "Author": "Thomas Lin Pedersen [cre, aut] (ORCID: )", "Repository": "CRAN" }, "pbmcapply": { @@ -6037,24 +6051,25 @@ }, "performance": { "Package": "performance", - "Version": "0.13.0", + "Version": "0.15.0", "Source": "Repository", "Type": "Package", "Title": "Assessment of Regression Models Performance", - "Authors@R": "c(person(given = \"Daniel\", family = \"Lüdecke\", role = c(\"aut\", \"cre\"), email = \"d.luedecke@uke.de\", comment = c(ORCID = \"0000-0002-8895-3206\")), person(given = \"Dominique\", family = \"Makowski\", role = c(\"aut\", \"ctb\"), email = \"dom.makowski@gmail.com\", comment = c(ORCID = \"0000-0001-5375-9967\")), person(given = \"Mattan S.\", family = \"Ben-Shachar\", role = c(\"aut\", \"ctb\"), email = \"matanshm@post.bgu.ac.il\", comment = c(ORCID = \"0000-0002-4287-4801\")), person(given = \"Indrajeet\", family = \"Patil\", role = c(\"aut\", \"ctb\"), email = \"patilindrajeet.science@gmail.com\", comment = c(ORCID = \"0000-0003-1995-6531\")), person(given = \"Philip\", family = \"Waggoner\", role = c(\"aut\", \"ctb\"), email = \"philip.waggoner@gmail.com\", comment = c(ORCID = \"0000-0002-7825-7573\")), person(given = \"Brenton M.\", family = \"Wiernik\", role = c(\"aut\", \"ctb\"), email = \"brenton@wiernik.org\", comment = c(ORCID = \"0000-0001-9560-6336\")), person(given = \"Rémi\", family = \"Thériault\", role = c(\"aut\", \"ctb\"), email = \"remi.theriault@mail.mcgill.ca\", comment = c(ORCID = \"0000-0003-4315-6788\")), person(given = \"Vincent\", family = \"Arel-Bundock\", email = \"vincent.arel-bundock@umontreal.ca\", role = \"ctb\", comment = c(ORCID = \"0000-0003-2042-7063\")), person(given = \"Martin\", family = \"Jullum\", role = \"rev\"), person(given = \"gjo11\", role = \"rev\"), person(given = \"Etienne\", family = \"Bacher\", , email = \"etienne.bacher@protonmail.com\", role = \"ctb\", comment = c(ORCID = \"0000-0002-9271-5075\")), person(given = \"Joseph\", family = \"Luchman\", role = \"ctb\", comment = c(ORCID = \"0000-0002-8886-9717\")))", - "Maintainer": "Daniel Lüdecke ", + "Authors@R": "c(person(given = \"Daniel\", family = \"Lüdecke\", role = c(\"aut\", \"cre\"), email = \"officialeasystats@gmail.com\", comment = c(ORCID = \"0000-0002-8895-3206\")), person(given = \"Dominique\", family = \"Makowski\", role = c(\"aut\", \"ctb\"), email = \"dom.makowski@gmail.com\", comment = c(ORCID = \"0000-0001-5375-9967\")), person(given = \"Mattan S.\", family = \"Ben-Shachar\", role = c(\"aut\", \"ctb\"), email = \"matanshm@post.bgu.ac.il\", comment = c(ORCID = \"0000-0002-4287-4801\")), person(given = \"Indrajeet\", family = \"Patil\", role = c(\"aut\", \"ctb\"), email = \"patilindrajeet.science@gmail.com\", comment = c(ORCID = \"0000-0003-1995-6531\")), person(given = \"Philip\", family = \"Waggoner\", role = c(\"aut\", \"ctb\"), email = \"philip.waggoner@gmail.com\", comment = c(ORCID = \"0000-0002-7825-7573\")), person(given = \"Brenton M.\", family = \"Wiernik\", role = c(\"aut\", \"ctb\"), email = \"brenton@wiernik.org\", comment = c(ORCID = \"0000-0001-9560-6336\")), person(given = \"Rémi\", family = \"Thériault\", role = c(\"aut\", \"ctb\"), email = \"remi.theriault@mail.mcgill.ca\", comment = c(ORCID = \"0000-0003-4315-6788\")), person(given = \"Vincent\", family = \"Arel-Bundock\", email = \"vincent.arel-bundock@umontreal.ca\", role = \"ctb\", comment = c(ORCID = \"0000-0003-2042-7063\")), person(given = \"Martin\", family = \"Jullum\", role = \"rev\"), person(given = \"gjo11\", role = \"rev\"), person(given = \"Etienne\", family = \"Bacher\", , email = \"etienne.bacher@protonmail.com\", role = \"ctb\", comment = c(ORCID = \"0000-0002-9271-5075\")), person(given = \"Joseph\", family = \"Luchman\", role = \"ctb\", comment = c(ORCID = \"0000-0002-8886-9717\")))", + "Maintainer": "Daniel Lüdecke ", "Description": "Utilities for computing measures to assess model quality, which are not directly provided by R's 'base' or 'stats' packages. These include e.g. measures like r-squared, intraclass correlation coefficient (Nakagawa, Johnson & Schielzeth (2017) ), root mean squared error or functions to check models for overdispersion, singularity or zero-inflation and more. Functions apply to a large variety of regression models, including generalized linear models, mixed effects models and Bayesian models. References: Lüdecke et al. (2021) .", "License": "GPL-3", "URL": "https://easystats.github.io/performance/", "BugReports": "https://github.com/easystats/performance/issues", "Depends": [ - "R (>= 3.6)" + "R (>= 4.0)" ], "Imports": [ - "bayestestR (>= 0.15.0)", - "insight (>= 1.0.0)", - "datawizard (>= 0.13.0)", + "bayestestR (>= 0.16.0)", + "insight (>= 1.3.1)", + "datawizard (>= 1.1.0)", "stats", + "methods", "utils" ], "Suggests": [ @@ -6070,11 +6085,13 @@ "car", "carData", "CompQuadForm", - "correlation", + "correlation (>= 0.8.8)", "cplm", + "curl", "dagitty", "dbscan", "DHARMa (>= 0.4.7)", + "discovr", "estimatr", "fixest", "flextable", @@ -6083,6 +6100,7 @@ "gamm4", "ggdag", "glmmTMB (>= 1.1.10)", + "GPArotation", "graphics", "Hmisc", "httr2", @@ -6102,20 +6120,24 @@ "metafor", "mgcv", "mlogit", + "modelbased", "multimode", "nestedLogit", "nlme", + "nnet", "nonnest2", "ordinal", "parallel", - "parameters (>= 0.22.0)", + "parameters (>= 0.27.0)", "patchwork", "pscl", "psych", + "psychTools", "quantreg", "qqplotr (>= 0.0.6)", "randomForest", "RcppEigen", + "reformulas", "rempsyc", "rmarkdown", "rstanarm", @@ -6137,7 +6159,7 @@ "Config/Needs/website": "rstudio/bslib, r-lib/pkgdown, easystats/easystatstemplate", "Config/rcmdcheck/ignore-inconsequential-notes": "true", "NeedsCompilation": "no", - "Author": "Daniel Lüdecke [aut, cre] (), Dominique Makowski [aut, ctb] (), Mattan S. Ben-Shachar [aut, ctb] (), Indrajeet Patil [aut, ctb] (), Philip Waggoner [aut, ctb] (), Brenton M. Wiernik [aut, ctb] (), Rémi Thériault [aut, ctb] (), Vincent Arel-Bundock [ctb] (), Martin Jullum [rev], gjo11 [rev], Etienne Bacher [ctb] (), Joseph Luchman [ctb] ()", + "Author": "Daniel Lüdecke [aut, cre] (ORCID: ), Dominique Makowski [aut, ctb] (ORCID: ), Mattan S. Ben-Shachar [aut, ctb] (ORCID: ), Indrajeet Patil [aut, ctb] (ORCID: ), Philip Waggoner [aut, ctb] (ORCID: ), Brenton M. Wiernik [aut, ctb] (ORCID: ), Rémi Thériault [aut, ctb] (ORCID: ), Vincent Arel-Bundock [ctb] (ORCID: ), Martin Jullum [rev], gjo11 [rev], Etienne Bacher [ctb] (ORCID: ), Joseph Luchman [ctb] (ORCID: )", "Repository": "CRAN" }, "phosphoricons": { @@ -6170,7 +6192,7 @@ }, "pillar": { "Package": "pillar", - "Version": "1.10.2", + "Version": "1.11.0", "Source": "Repository", "Title": "Coloured Formatting for Columns", "Authors@R": "c(person(given = \"Kirill\", family = \"M\\u00fcller\", role = c(\"aut\", \"cre\"), email = \"kirill@cynkra.com\", comment = c(ORCID = \"0000-0002-1416-3412\")), person(given = \"Hadley\", family = \"Wickham\", role = \"aut\"), person(given = \"RStudio\", role = \"cph\"))", @@ -6221,7 +6243,7 @@ "Config/gha/extra-packages": "units=?ignore-before-r=4.3.0", "Config/Needs/website": "tidyverse/tidytemplate", "NeedsCompilation": "no", - "Author": "Kirill Müller [aut, cre] (), Hadley Wickham [aut], RStudio [cph]", + "Author": "Kirill Müller [aut, cre] (ORCID: ), Hadley Wickham [aut], RStudio [cph]", "Maintainer": "Kirill Müller ", "Repository": "CRAN" }, @@ -6251,7 +6273,7 @@ }, "plotly": { "Package": "plotly", - "Version": "4.10.4", + "Version": "4.11.0", "Source": "Repository", "Title": "Create Interactive Web Graphics via 'plotly.js'", "Authors@R": "c(person(\"Carson\", \"Sievert\", role = c(\"aut\", \"cre\"), email = \"cpsievert1@gmail.com\", comment = c(ORCID = \"0000-0002-4958-2844\")), person(\"Chris\", \"Parmer\", role = \"aut\", email = \"chris@plot.ly\"), person(\"Toby\", \"Hocking\", role = \"aut\", email = \"tdhock5@gmail.com\"), person(\"Scott\", \"Chamberlain\", role = \"aut\", email = \"myrmecocystus@gmail.com\"), person(\"Karthik\", \"Ram\", role = \"aut\", email = \"karthik.ram@gmail.com\"), person(\"Marianne\", \"Corvellec\", role = \"aut\", email = \"marianne.corvellec@igdore.org\", comment = c(ORCID = \"0000-0002-1994-3581\")), person(\"Pedro\", \"Despouy\", role = \"aut\", email = \"pedro@plot.ly\"), person(\"Salim\", \"Brüggemann\", role = \"ctb\", email = \"salim-b@pm.me\", comment = c(ORCID = \"0000-0002-5329-5987\")), person(\"Plotly Technologies Inc.\", role = \"cph\"))", @@ -6280,7 +6302,7 @@ "vctrs", "tibble", "lazyeval (>= 0.2.0)", - "rlang (>= 0.4.10)", + "rlang (>= 1.0.0)", "crosstalk", "purrr", "data.table", @@ -6296,7 +6318,7 @@ "testthat", "knitr", "shiny (>= 1.1.0)", - "shinytest (>= 1.3.0)", + "shinytest2", "curl", "rmarkdown", "Cairo", @@ -6314,14 +6336,15 @@ "palmerpenguins", "rversions", "reticulate", - "rsvg" + "rsvg", + "ggridges" ], "LazyData": "true", - "RoxygenNote": "7.2.3", + "RoxygenNote": "7.3.2", "Encoding": "UTF-8", - "Config/Needs/check": "tidyverse/ggplot2, rcmdcheck, devtools, reshape2", + "Config/Needs/check": "tidyverse/ggplot2, ggobi/GGally, rcmdcheck, devtools, reshape2, s2", "NeedsCompilation": "no", - "Author": "Carson Sievert [aut, cre] (), Chris Parmer [aut], Toby Hocking [aut], Scott Chamberlain [aut], Karthik Ram [aut], Marianne Corvellec [aut] (), Pedro Despouy [aut], Salim Brüggemann [ctb] (), Plotly Technologies Inc. [cph]", + "Author": "Carson Sievert [aut, cre] (ORCID: ), Chris Parmer [aut], Toby Hocking [aut], Scott Chamberlain [aut], Karthik Ram [aut], Marianne Corvellec [aut] (ORCID: ), Pedro Despouy [aut], Salim Brüggemann [ctb] (ORCID: ), Plotly Technologies Inc. [cph]", "Maintainer": "Carson Sievert ", "Repository": "CRAN" }, @@ -6547,11 +6570,11 @@ }, "promises": { "Package": "promises", - "Version": "1.3.2", + "Version": "1.3.3", "Source": "Repository", "Type": "Package", "Title": "Abstractions for Promise-Based Asynchronous Programming", - "Authors@R": "c( person(\"Joe\", \"Cheng\", , \"joe@posit.co\", role = c(\"aut\", \"cre\")), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\")) )", + "Authors@R": "c( person(\"Joe\", \"Cheng\", , \"joe@posit.co\", role = c(\"aut\", \"cre\")), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\"), comment = c(ROR = \"03wc8by49\")) )", "Description": "Provides fundamental abstractions for doing asynchronous programming in R using promises. Asynchronous programming is useful for allowing a single R process to orchestrate multiple tasks in the background while also attending to something else. Semantics are similar to 'JavaScript' promises, but with a syntax that is idiomatic R.", "License": "MIT + file LICENSE", "URL": "https://rstudio.github.io/promises/, https://github.com/rstudio/promises", @@ -6571,7 +6594,7 @@ "purrr", "rmarkdown", "spelling", - "testthat", + "testthat (>= 3.0.0)", "vembedr" ], "LinkingTo": [ @@ -6579,12 +6602,14 @@ "Rcpp" ], "VignetteBuilder": "knitr", - "Config/Needs/website": "rsconnect", + "Config/Needs/website": "rsconnect, tidyverse/tidytemplate", + "Config/testthat/edition": "3", + "Config/usethis/last-upkeep": "2025-05-27", "Encoding": "UTF-8", "Language": "en-US", "RoxygenNote": "7.3.2", "NeedsCompilation": "yes", - "Author": "Joe Cheng [aut, cre], Posit Software, PBC [cph, fnd]", + "Author": "Joe Cheng [aut, cre], Posit Software, PBC [cph, fnd] (ROR: )", "Maintainer": "Joe Cheng ", "Repository": "CRAN" }, @@ -6654,16 +6679,16 @@ }, "purrr": { "Package": "purrr", - "Version": "1.0.4", + "Version": "1.1.0", "Source": "Repository", "Title": "Functional Programming Tools", - "Authors@R": "c( person(\"Hadley\", \"Wickham\", , \"hadley@posit.co\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0003-4757-117X\")), person(\"Lionel\", \"Henry\", , \"lionel@posit.co\", role = \"aut\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\"), comment = c(ROR = \"03wc8by49\")) )", + "Authors@R": "c( person(\"Hadley\", \"Wickham\", , \"hadley@posit.co\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0003-4757-117X\")), person(\"Lionel\", \"Henry\", , \"lionel@posit.co\", role = \"aut\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\"), comment = c(ROR = \"https://ror.org/03wc8by49\")) )", "Description": "A complete and consistent functional programming toolkit for R.", "License": "MIT + file LICENSE", "URL": "https://purrr.tidyverse.org/, https://github.com/tidyverse/purrr", "BugReports": "https://github.com/tidyverse/purrr/issues", "Depends": [ - "R (>= 4.0)" + "R (>= 4.1)" ], "Imports": [ "cli (>= 3.6.1)", @@ -6673,11 +6698,13 @@ "vctrs (>= 0.6.3)" ], "Suggests": [ + "carrier (>= 0.2.0)", "covr", "dplyr (>= 0.7.8)", "httr", "knitr", "lubridate", + "mirai (>= 2.4.0)", "rmarkdown", "testthat (>= 3.0.0)", "tibble", @@ -6695,7 +6722,7 @@ "Encoding": "UTF-8", "RoxygenNote": "7.3.2", "NeedsCompilation": "yes", - "Author": "Hadley Wickham [aut, cre] (), Lionel Henry [aut], Posit Software, PBC [cph, fnd] (03wc8by49)", + "Author": "Hadley Wickham [aut, cre] (ORCID: ), Lionel Henry [aut], Posit Software, PBC [cph, fnd] (ROR: )", "Maintainer": "Hadley Wickham ", "Repository": "CRAN" }, @@ -7194,7 +7221,7 @@ }, "reformulas": { "Package": "reformulas", - "Version": "0.4.0", + "Version": "0.4.1", "Source": "Repository", "Title": "Machinery for Processing Random Effect Formulas", "Authors@R": "person(given = \"Ben\", family = \"Bolker\", role = c(\"aut\", \"cre\"), email = \"bolker@mcmaster.ca\", comment=c(ORCID=\"0000-0002-2127-0443\"))", @@ -7211,11 +7238,12 @@ "RdMacros": "Rdpack", "Suggests": [ "lme4", - "tinytest" + "tinytest", + "glmmTMB" ], - "RoxygenNote": "7.3.2", + "RoxygenNote": "7.3.2.9000", "NeedsCompilation": "no", - "Author": "Ben Bolker [aut, cre] ()", + "Author": "Ben Bolker [aut, cre] (ORCID: )", "Maintainer": "Ben Bolker ", "Repository": "CRAN" }, @@ -7697,7 +7725,7 @@ }, "rprojroot": { "Package": "rprojroot", - "Version": "2.0.4", + "Version": "2.1.0", "Source": "Repository", "Title": "Finding Files in Project Subdirectories", "Authors@R": "person(given = \"Kirill\", family = \"M\\u00fcller\", role = c(\"aut\", \"cre\"), email = \"kirill@cynkra.com\", comment = c(ORCID = \"0000-0002-1416-3412\"))", @@ -7712,18 +7740,20 @@ "covr", "knitr", "lifecycle", - "mockr", "rlang", "rmarkdown", - "testthat (>= 3.0.0)", + "testthat (>= 3.2.0)", "withr" ], "VignetteBuilder": "knitr", "Config/testthat/edition": "3", "Encoding": "UTF-8", - "RoxygenNote": "7.2.3", + "RoxygenNote": "7.3.2.9000", + "Config/autostyle/scope": "line_breaks", + "Config/autostyle/strict": "true", + "Config/Needs/website": "tidyverse/tidytemplate", "NeedsCompilation": "no", - "Author": "Kirill Müller [aut, cre] ()", + "Author": "Kirill Müller [aut, cre] (ORCID: )", "Maintainer": "Kirill Müller ", "Repository": "CRAN" }, @@ -7918,11 +7948,11 @@ }, "shiny": { "Package": "shiny", - "Version": "1.10.0", + "Version": "1.11.1", "Source": "Repository", "Type": "Package", "Title": "Web Application Framework for R", - "Authors@R": "c( person(\"Winston\", \"Chang\", role = c(\"aut\", \"cre\"), email = \"winston@posit.co\", comment = c(ORCID = \"0000-0002-1576-2126\")), person(\"Joe\", \"Cheng\", role = \"aut\", email = \"joe@posit.co\"), person(\"JJ\", \"Allaire\", role = \"aut\", email = \"jj@posit.co\"), person(\"Carson\", \"Sievert\", role = \"aut\", email = \"carson@posit.co\", comment = c(ORCID = \"0000-0002-4958-2844\")), person(\"Barret\", \"Schloerke\", role = \"aut\", email = \"barret@posit.co\", comment = c(ORCID = \"0000-0001-9986-114X\")), person(\"Yihui\", \"Xie\", role = \"aut\", email = \"yihui@posit.co\"), person(\"Jeff\", \"Allen\", role = \"aut\"), person(\"Jonathan\", \"McPherson\", role = \"aut\", email = \"jonathan@posit.co\"), person(\"Alan\", \"Dipert\", role = \"aut\"), person(\"Barbara\", \"Borges\", role = \"aut\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\")), person(family = \"jQuery Foundation\", role = \"cph\", comment = \"jQuery library and jQuery UI library\"), person(family = \"jQuery contributors\", role = c(\"ctb\", \"cph\"), comment = \"jQuery library; authors listed in inst/www/shared/jquery-AUTHORS.txt\"), person(family = \"jQuery UI contributors\", role = c(\"ctb\", \"cph\"), comment = \"jQuery UI library; authors listed in inst/www/shared/jqueryui/AUTHORS.txt\"), person(\"Mark\", \"Otto\", role = \"ctb\", comment = \"Bootstrap library\"), person(\"Jacob\", \"Thornton\", role = \"ctb\", comment = \"Bootstrap library\"), person(family = \"Bootstrap contributors\", role = \"ctb\", comment = \"Bootstrap library\"), person(family = \"Twitter, Inc\", role = \"cph\", comment = \"Bootstrap library\"), person(\"Prem Nawaz\", \"Khan\", role = \"ctb\", comment = \"Bootstrap accessibility plugin\"), person(\"Victor\", \"Tsaran\", role = \"ctb\", comment = \"Bootstrap accessibility plugin\"), person(\"Dennis\", \"Lembree\", role = \"ctb\", comment = \"Bootstrap accessibility plugin\"), person(\"Srinivasu\", \"Chakravarthula\", role = \"ctb\", comment = \"Bootstrap accessibility plugin\"), person(\"Cathy\", \"O'Connor\", role = \"ctb\", comment = \"Bootstrap accessibility plugin\"), person(family = \"PayPal, Inc\", role = \"cph\", comment = \"Bootstrap accessibility plugin\"), person(\"Stefan\", \"Petre\", role = c(\"ctb\", \"cph\"), comment = \"Bootstrap-datepicker library\"), person(\"Andrew\", \"Rowls\", role = c(\"ctb\", \"cph\"), comment = \"Bootstrap-datepicker library\"), person(\"Brian\", \"Reavis\", role = c(\"ctb\", \"cph\"), comment = \"selectize.js library\"), person(\"Salmen\", \"Bejaoui\", role = c(\"ctb\", \"cph\"), comment = \"selectize-plugin-a11y library\"), person(\"Denis\", \"Ineshin\", role = c(\"ctb\", \"cph\"), comment = \"ion.rangeSlider library\"), person(\"Sami\", \"Samhuri\", role = c(\"ctb\", \"cph\"), comment = \"Javascript strftime library\"), person(family = \"SpryMedia Limited\", role = c(\"ctb\", \"cph\"), comment = \"DataTables library\"), person(\"John\", \"Fraser\", role = c(\"ctb\", \"cph\"), comment = \"showdown.js library\"), person(\"John\", \"Gruber\", role = c(\"ctb\", \"cph\"), comment = \"showdown.js library\"), person(\"Ivan\", \"Sagalaev\", role = c(\"ctb\", \"cph\"), comment = \"highlight.js library\"), person(family = \"R Core Team\", role = c(\"ctb\", \"cph\"), comment = \"tar implementation from R\") )", + "Authors@R": "c( person(\"Winston\", \"Chang\", role = c(\"aut\", \"cre\"), email = \"winston@posit.co\", comment = c(ORCID = \"0000-0002-1576-2126\")), person(\"Joe\", \"Cheng\", role = \"aut\", email = \"joe@posit.co\"), person(\"JJ\", \"Allaire\", role = \"aut\", email = \"jj@posit.co\"), person(\"Carson\", \"Sievert\", role = \"aut\", email = \"carson@posit.co\", comment = c(ORCID = \"0000-0002-4958-2844\")), person(\"Barret\", \"Schloerke\", role = \"aut\", email = \"barret@posit.co\", comment = c(ORCID = \"0000-0001-9986-114X\")), person(\"Yihui\", \"Xie\", role = \"aut\", email = \"yihui@posit.co\"), person(\"Jeff\", \"Allen\", role = \"aut\"), person(\"Jonathan\", \"McPherson\", role = \"aut\", email = \"jonathan@posit.co\"), person(\"Alan\", \"Dipert\", role = \"aut\"), person(\"Barbara\", \"Borges\", role = \"aut\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\")), person(family = \"jQuery Foundation\", role = \"cph\", comment = \"jQuery library and jQuery UI library\"), person(family = \"jQuery contributors\", role = c(\"ctb\", \"cph\"), comment = \"jQuery library; authors listed in inst/www/shared/jquery-AUTHORS.txt\"), person(family = \"jQuery UI contributors\", role = c(\"ctb\", \"cph\"), comment = \"jQuery UI library; authors listed in inst/www/shared/jqueryui/AUTHORS.txt\"), person(\"Mark\", \"Otto\", role = \"ctb\", comment = \"Bootstrap library\"), person(\"Jacob\", \"Thornton\", role = \"ctb\", comment = \"Bootstrap library\"), person(family = \"Bootstrap contributors\", role = \"ctb\", comment = \"Bootstrap library\"), person(family = \"Twitter, Inc\", role = \"cph\", comment = \"Bootstrap library\"), person(\"Prem Nawaz\", \"Khan\", role = \"ctb\", comment = \"Bootstrap accessibility plugin\"), person(\"Victor\", \"Tsaran\", role = \"ctb\", comment = \"Bootstrap accessibility plugin\"), person(\"Dennis\", \"Lembree\", role = \"ctb\", comment = \"Bootstrap accessibility plugin\"), person(\"Srinivasu\", \"Chakravarthula\", role = \"ctb\", comment = \"Bootstrap accessibility plugin\"), person(\"Cathy\", \"O'Connor\", role = \"ctb\", comment = \"Bootstrap accessibility plugin\"), person(family = \"PayPal, Inc\", role = \"cph\", comment = \"Bootstrap accessibility plugin\"), person(\"Stefan\", \"Petre\", role = c(\"ctb\", \"cph\"), comment = \"Bootstrap-datepicker library\"), person(\"Andrew\", \"Rowls\", role = c(\"ctb\", \"cph\"), comment = \"Bootstrap-datepicker library\"), person(\"Brian\", \"Reavis\", role = c(\"ctb\", \"cph\"), comment = \"selectize.js library\"), person(\"Salmen\", \"Bejaoui\", role = c(\"ctb\", \"cph\"), comment = \"selectize-plugin-a11y library\"), person(\"Denis\", \"Ineshin\", role = c(\"ctb\", \"cph\"), comment = \"ion.rangeSlider library\"), person(\"Sami\", \"Samhuri\", role = c(\"ctb\", \"cph\"), comment = \"Javascript strftime library\"), person(family = \"SpryMedia Limited\", role = c(\"ctb\", \"cph\"), comment = \"DataTables library\"), person(\"John\", \"Fraser\", role = c(\"ctb\", \"cph\"), comment = \"showdown.js library\"), person(\"John\", \"Gruber\", role = c(\"ctb\", \"cph\"), comment = \"showdown.js library\"), person(\"Ivan\", \"Sagalaev\", role = c(\"ctb\", \"cph\"), comment = \"highlight.js library\"), person(given = \"R Core Team\", role = c(\"ctb\", \"cph\"), comment = \"tar implementation from R\") )", "Description": "Makes it incredibly easy to build interactive web applications with R. Automatic \"reactive\" binding between inputs and outputs and extensive prebuilt widgets make it possible to build beautiful, responsive, and powerful applications with minimal effort.", "License": "GPL-3 | file LICENSE", "Depends": [ @@ -7943,7 +7973,7 @@ "later (>= 1.0.0)", "promises (>= 1.3.2)", "tools", - "crayon", + "cli", "rlang (>= 0.4.10)", "fastmap (>= 1.1.1)", "withr", @@ -7958,7 +7988,7 @@ "datasets", "DT", "Cairo (>= 1.5-5)", - "testthat (>= 3.0.0)", + "testthat (>= 3.2.1)", "knitr (>= 1.6)", "markdown", "rmarkdown", @@ -7966,22 +7996,23 @@ "reactlog (>= 1.0.0)", "magrittr", "yaml", + "mirai", "future", "dygraphs", "ragg", "showtext", - "sass" + "sass", + "watcher" ], "URL": "https://shiny.posit.co/, https://github.com/rstudio/shiny", "BugReports": "https://github.com/rstudio/shiny/issues", "Collate": "'globals.R' 'app-state.R' 'app_template.R' 'bind-cache.R' 'bind-event.R' 'bookmark-state-local.R' 'bookmark-state.R' 'bootstrap-deprecated.R' 'bootstrap-layout.R' 'conditions.R' 'map.R' 'utils.R' 'bootstrap.R' 'busy-indicators-spinners.R' 'busy-indicators.R' 'cache-utils.R' 'deprecated.R' 'devmode.R' 'diagnose.R' 'extended-task.R' 'fileupload.R' 'graph.R' 'reactives.R' 'reactive-domains.R' 'history.R' 'hooks.R' 'html-deps.R' 'image-interact-opts.R' 'image-interact.R' 'imageutils.R' 'input-action.R' 'input-checkbox.R' 'input-checkboxgroup.R' 'input-date.R' 'input-daterange.R' 'input-file.R' 'input-numeric.R' 'input-password.R' 'input-radiobuttons.R' 'input-select.R' 'input-slider.R' 'input-submit.R' 'input-text.R' 'input-textarea.R' 'input-utils.R' 'insert-tab.R' 'insert-ui.R' 'jqueryui.R' 'knitr.R' 'middleware-shiny.R' 'middleware.R' 'timer.R' 'shiny.R' 'mock-session.R' 'modal.R' 'modules.R' 'notifications.R' 'priorityqueue.R' 'progress.R' 'react.R' 'reexports.R' 'render-cached-plot.R' 'render-plot.R' 'render-table.R' 'run-url.R' 'runapp.R' 'serializers.R' 'server-input-handlers.R' 'server-resource-paths.R' 'server.R' 'shiny-options.R' 'shiny-package.R' 'shinyapp.R' 'shinyui.R' 'shinywrappers.R' 'showcase.R' 'snapshot.R' 'staticimports.R' 'tar.R' 'test-export.R' 'test-server.R' 'test.R' 'update-input.R' 'utils-lang.R' 'version_bs_date_picker.R' 'version_ion_range_slider.R' 'version_jquery.R' 'version_jqueryui.R' 'version_selectize.R' 'version_strftime.R' 'viewer.R'", "RoxygenNote": "7.3.2", "Encoding": "UTF-8", - "RdMacros": "lifecycle", "Config/testthat/edition": "3", "Config/Needs/check": "shinytest2", "NeedsCompilation": "no", - "Author": "Winston Chang [aut, cre] (), Joe Cheng [aut], JJ Allaire [aut], Carson Sievert [aut] (), Barret Schloerke [aut] (), Yihui Xie [aut], Jeff Allen [aut], Jonathan McPherson [aut], Alan Dipert [aut], Barbara Borges [aut], Posit Software, PBC [cph, fnd], jQuery Foundation [cph] (jQuery library and jQuery UI library), jQuery contributors [ctb, cph] (jQuery library; authors listed in inst/www/shared/jquery-AUTHORS.txt), jQuery UI contributors [ctb, cph] (jQuery UI library; authors listed in inst/www/shared/jqueryui/AUTHORS.txt), Mark Otto [ctb] (Bootstrap library), Jacob Thornton [ctb] (Bootstrap library), Bootstrap contributors [ctb] (Bootstrap library), Twitter, Inc [cph] (Bootstrap library), Prem Nawaz Khan [ctb] (Bootstrap accessibility plugin), Victor Tsaran [ctb] (Bootstrap accessibility plugin), Dennis Lembree [ctb] (Bootstrap accessibility plugin), Srinivasu Chakravarthula [ctb] (Bootstrap accessibility plugin), Cathy O'Connor [ctb] (Bootstrap accessibility plugin), PayPal, Inc [cph] (Bootstrap accessibility plugin), Stefan Petre [ctb, cph] (Bootstrap-datepicker library), Andrew Rowls [ctb, cph] (Bootstrap-datepicker library), Brian Reavis [ctb, cph] (selectize.js library), Salmen Bejaoui [ctb, cph] (selectize-plugin-a11y library), Denis Ineshin [ctb, cph] (ion.rangeSlider library), Sami Samhuri [ctb, cph] (Javascript strftime library), SpryMedia Limited [ctb, cph] (DataTables library), John Fraser [ctb, cph] (showdown.js library), John Gruber [ctb, cph] (showdown.js library), Ivan Sagalaev [ctb, cph] (highlight.js library), R Core Team [ctb, cph] (tar implementation from R)", + "Author": "Winston Chang [aut, cre] (ORCID: ), Joe Cheng [aut], JJ Allaire [aut], Carson Sievert [aut] (ORCID: ), Barret Schloerke [aut] (ORCID: ), Yihui Xie [aut], Jeff Allen [aut], Jonathan McPherson [aut], Alan Dipert [aut], Barbara Borges [aut], Posit Software, PBC [cph, fnd], jQuery Foundation [cph] (jQuery library and jQuery UI library), jQuery contributors [ctb, cph] (jQuery library; authors listed in inst/www/shared/jquery-AUTHORS.txt), jQuery UI contributors [ctb, cph] (jQuery UI library; authors listed in inst/www/shared/jqueryui/AUTHORS.txt), Mark Otto [ctb] (Bootstrap library), Jacob Thornton [ctb] (Bootstrap library), Bootstrap contributors [ctb] (Bootstrap library), Twitter, Inc [cph] (Bootstrap library), Prem Nawaz Khan [ctb] (Bootstrap accessibility plugin), Victor Tsaran [ctb] (Bootstrap accessibility plugin), Dennis Lembree [ctb] (Bootstrap accessibility plugin), Srinivasu Chakravarthula [ctb] (Bootstrap accessibility plugin), Cathy O'Connor [ctb] (Bootstrap accessibility plugin), PayPal, Inc [cph] (Bootstrap accessibility plugin), Stefan Petre [ctb, cph] (Bootstrap-datepicker library), Andrew Rowls [ctb, cph] (Bootstrap-datepicker library), Brian Reavis [ctb, cph] (selectize.js library), Salmen Bejaoui [ctb, cph] (selectize-plugin-a11y library), Denis Ineshin [ctb, cph] (ion.rangeSlider library), Sami Samhuri [ctb, cph] (Javascript strftime library), SpryMedia Limited [ctb, cph] (DataTables library), John Fraser [ctb, cph] (showdown.js library), John Gruber [ctb, cph] (showdown.js library), Ivan Sagalaev [ctb, cph] (highlight.js library), R Core Team [ctb, cph] (tar implementation from R)", "Maintainer": "Winston Chang ", "Repository": "CRAN" }, @@ -8116,29 +8147,6 @@ "Maintainer": "Dean Attali ", "Repository": "CRAN" }, - "sodium": { - "Package": "sodium", - "Version": "1.4.0", - "Source": "Repository", - "Type": "Package", - "Title": "A Modern and Easy-to-Use Crypto Library", - "Authors@R": "person(\"Jeroen\", \"Ooms\", role = c(\"aut\", \"cre\"), email = \"jeroenooms@gmail.com\", comment = c(ORCID = \"0000-0002-4035-0289\"))", - "Description": "Bindings to 'libsodium' : a modern, easy-to-use software library for encryption, decryption, signatures, password hashing and more. Sodium uses curve25519, a state-of-the-art Diffie-Hellman function by Daniel Bernstein, which has become very popular after it was discovered that the NSA had backdoored Dual EC DRBG.", - "License": "MIT + file LICENSE", - "URL": "https://docs.ropensci.org/sodium/ https://github.com/r-lib/sodium", - "BugReports": "https://github.com/r-lib/sodium/issues", - "SystemRequirements": "libsodium (>= 1.0.3)", - "VignetteBuilder": "knitr", - "Suggests": [ - "knitr", - "rmarkdown" - ], - "RoxygenNote": "7.2.3", - "NeedsCompilation": "yes", - "Author": "Jeroen Ooms [aut, cre] ()", - "Maintainer": "Jeroen Ooms ", - "Repository": "CRAN" - }, "sourcetools": { "Package": "sourcetools", "Version": "0.1.7-1", @@ -8261,11 +8269,11 @@ }, "systemfonts": { "Package": "systemfonts", - "Version": "1.2.2", + "Version": "1.2.3", "Source": "Repository", "Type": "Package", "Title": "System Native Font Finding", - "Authors@R": "c( person(\"Thomas Lin\", \"Pedersen\", , \"thomas.pedersen@posit.co\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0002-5147-4711\")), person(\"Jeroen\", \"Ooms\", , \"jeroen@berkeley.edu\", role = \"aut\", comment = c(ORCID = \"0000-0002-4035-0289\")), person(\"Devon\", \"Govett\", role = \"aut\", comment = \"Author of font-manager\"), person(\"Posit, PBC\", role = c(\"cph\", \"fnd\")) )", + "Authors@R": "c( person(\"Thomas Lin\", \"Pedersen\", , \"thomas.pedersen@posit.co\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0002-5147-4711\")), person(\"Jeroen\", \"Ooms\", , \"jeroen@berkeley.edu\", role = \"aut\", comment = c(ORCID = \"0000-0002-4035-0289\")), person(\"Devon\", \"Govett\", role = \"aut\", comment = \"Author of font-manager\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\"), comment = c(ROR = \"03wc8by49\")) )", "Description": "Provides system native access to the font catalogue. As font handling varies between systems it is difficult to correctly locate installed fonts across different operating systems. The 'systemfonts' package provides bindings to the native libraries on Windows, macOS and Linux for finding font files that can then be used further by e.g. graphic devices. The main use is intended to be from compiled code but 'systemfonts' also provides access from R.", "License": "MIT + file LICENSE", "URL": "https://github.com/r-lib/systemfonts, https://systemfonts.r-lib.org", @@ -8273,6 +8281,14 @@ "Depends": [ "R (>= 3.2.0)" ], + "Imports": [ + "base64enc", + "grid", + "jsonlite", + "lifecycle", + "tools", + "utils" + ], "Suggests": [ "covr", "farver", @@ -8285,29 +8301,23 @@ "cpp11 (>= 0.2.1)" ], "VignetteBuilder": "knitr", + "Config/build/compilation-database": "true", + "Config/Needs/website": "tidyverse/tidytemplate", + "Config/usethis/last-upkeep": "2025-04-23", "Encoding": "UTF-8", "RoxygenNote": "7.3.2", "SystemRequirements": "fontconfig, freetype2", - "Config/Needs/website": "tidyverse/tidytemplate", - "Imports": [ - "grid", - "jsonlite", - "lifecycle", - "tools", - "utils" - ], - "Config/build/compilation-database": "true", "NeedsCompilation": "yes", - "Author": "Thomas Lin Pedersen [aut, cre] (), Jeroen Ooms [aut] (), Devon Govett [aut] (Author of font-manager), Posit, PBC [cph, fnd]", + "Author": "Thomas Lin Pedersen [aut, cre] (ORCID: ), Jeroen Ooms [aut] (ORCID: ), Devon Govett [aut] (Author of font-manager), Posit Software, PBC [cph, fnd] (ROR: )", "Maintainer": "Thomas Lin Pedersen ", "Repository": "CRAN" }, "textshaping": { "Package": "textshaping", - "Version": "1.0.0", + "Version": "1.0.1", "Source": "Repository", "Title": "Bindings to the 'HarfBuzz' and 'Fribidi' Libraries for Text Shaping", - "Authors@R": "c( person(\"Thomas Lin\", \"Pedersen\", , \"thomas.pedersen@posit.co\", role = c(\"cre\", \"aut\"), comment = c(ORCID = \"0000-0002-5147-4711\")), person(\"Posit, PBC\", role = c(\"cph\", \"fnd\")) )", + "Authors@R": "c( person(\"Thomas Lin\", \"Pedersen\", , \"thomas.pedersen@posit.co\", role = c(\"cre\", \"aut\"), comment = c(ORCID = \"0000-0002-5147-4711\")), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\"), comment = c(ROR = \"03wc8by49\")) )", "Description": "Provides access to the text shaping functionality in the 'HarfBuzz' library and the bidirectional algorithm in the 'Fribidi' library. 'textshaping' is a low-level utility package mainly for graphic devices that expands upon the font tool-set provided by the 'systemfonts' package.", "License": "MIT + file LICENSE", "URL": "https://github.com/r-lib/textshaping", @@ -8335,19 +8345,20 @@ "systemfonts (>= 1.0.0)" ], "VignetteBuilder": "knitr", + "Config/build/compilation-database": "true", + "Config/testthat/edition": "3", + "Config/usethis/last-upkeep": "2025-04-23", "Encoding": "UTF-8", "RoxygenNote": "7.3.2", "SystemRequirements": "freetype2, harfbuzz, fribidi", - "Config/build/compilation-database": "true", - "Config/testthat/edition": "3", "NeedsCompilation": "yes", - "Author": "Thomas Lin Pedersen [cre, aut] (), Posit, PBC [cph, fnd]", + "Author": "Thomas Lin Pedersen [cre, aut] (ORCID: ), Posit Software, PBC [cph, fnd] (ROR: )", "Maintainer": "Thomas Lin Pedersen ", "Repository": "CRAN" }, "thematic": { "Package": "thematic", - "Version": "0.1.6", + "Version": "0.1.7", "Source": "Repository", "Title": "Unified and Automatic 'Theming' of 'ggplot2', 'lattice', and 'base' R Graphics", "Authors@R": "c( person(\"Carson\", \"Sievert\", , \"carson@posit.co\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0002-4958-2844\")), person(\"Barret\", \"Schloerke\", , \"barret@posit.co\", role = \"aut\", comment = c(ORCID = \"0000-0001-9986-114X\")), person(\"Joe\", \"Cheng\", , \"joe@posit.co\", role = \"aut\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\")) )", @@ -8392,20 +8403,21 @@ "vdiffr (>= 1.0.0)", "withr" ], - "Config/Needs/check": "shinytest, callr, sf, ggthemes, patchwork, gridExtra, tinytex, devtools, rversions", - "Config/Needs/routine": "ggrepel", - "Config/Needs/website": "GGally, RColorBrewer, patchwork, apreshill/quillt", + "Config/testthat/edition": "3", + "Config/Needs/check": "shinytest2, callr, sf, ggthemes, patchwork, gridExtra, tinytex, devtools, rversions", + "Config/Needs/routine": "ggrepel, r-lib/evaluate", + "Config/Needs/website": "GGally, RColorBrewer, patchwork, apreshill/quillt, r-lib/evaluate", "Encoding": "UTF-8", "RoxygenNote": "7.3.2", - "Collate": "'auto.R' 'base.R' 'cache.R' 'gfonts.R' 'ggplot.R' 'globals.R' 'hooks.R' 'knitr.R' 'lattice.R' 'onLoad.R' 'thematic-package.R' 'thematic-save-plot.R' 'thematic.R' 'utils.R' 'view-shinytest.R'", + "Collate": "'auto.R' 'base.R' 'cache.R' 'gfonts.R' 'ggplot.R' 'globals.R' 'hooks.R' 'knitr.R' 'lattice.R' 'onLoad.R' 'thematic-package.R' 'thematic-save-plot.R' 'thematic.R' 'utils.R'", "NeedsCompilation": "no", - "Author": "Carson Sievert [aut, cre] (), Barret Schloerke [aut] (), Joe Cheng [aut], Posit Software, PBC [cph, fnd]", + "Author": "Carson Sievert [aut, cre] (ORCID: ), Barret Schloerke [aut] (ORCID: ), Joe Cheng [aut], Posit Software, PBC [cph, fnd]", "Maintainer": "Carson Sievert ", "Repository": "CRAN" }, "tibble": { "Package": "tibble", - "Version": "3.2.1", + "Version": "3.3.0", "Source": "Repository", "Title": "Simple Data Frames", "Authors@R": "c(person(given = \"Kirill\", family = \"M\\u00fcller\", role = c(\"aut\", \"cre\"), email = \"kirill@cynkra.com\", comment = c(ORCID = \"0000-0002-1416-3412\")), person(given = \"Hadley\", family = \"Wickham\", role = \"aut\", email = \"hadley@rstudio.com\"), person(given = \"Romain\", family = \"Francois\", role = \"ctb\", email = \"romain@r-enthusiasts.com\"), person(given = \"Jennifer\", family = \"Bryan\", role = \"ctb\", email = \"jenny@rstudio.com\"), person(given = \"RStudio\", role = c(\"cph\", \"fnd\")))", @@ -8417,7 +8429,7 @@ "R (>= 3.4.0)" ], "Imports": [ - "fansi (>= 0.4.0)", + "cli", "lifecycle (>= 1.0.0)", "magrittr", "methods", @@ -8425,7 +8437,7 @@ "pkgconfig", "rlang (>= 1.0.2)", "utils", - "vctrs (>= 0.4.2)" + "vctrs (>= 0.5.0)" ], "Suggests": [ "bench", @@ -8433,9 +8445,6 @@ "blob", "brio", "callr", - "cli", - "covr", - "crayon (>= 1.3.4)", "DiagrammeR", "dplyr", "evaluate", @@ -8446,9 +8455,7 @@ "htmltools", "knitr", "lubridate", - "mockr", "nycflights13", - "pkgbuild", "pkgload", "purrr", "rmarkdown", @@ -8459,7 +8466,7 @@ ], "VignetteBuilder": "knitr", "Encoding": "UTF-8", - "RoxygenNote": "7.2.3", + "RoxygenNote": "7.3.2.9000", "Config/testthat/edition": "3", "Config/testthat/parallel": "true", "Config/testthat/start-first": "vignette-formats, as_tibble, add, invariants", @@ -8468,7 +8475,7 @@ "Config/autostyle/rmd": "false", "Config/Needs/website": "tidyverse/tidytemplate", "NeedsCompilation": "yes", - "Author": "Kirill Müller [aut, cre] (), Hadley Wickham [aut], Romain Francois [ctb], Jennifer Bryan [ctb], RStudio [cph, fnd]", + "Author": "Kirill Müller [aut, cre] (ORCID: ), Hadley Wickham [aut], Romain Francois [ctb], Jennifer Bryan [ctb], RStudio [cph, fnd]", "Maintainer": "Kirill Müller ", "Repository": "CRAN" }, @@ -8749,14 +8756,14 @@ }, "utf8": { "Package": "utf8", - "Version": "1.2.4", + "Version": "1.2.6", "Source": "Repository", "Title": "Unicode Text Processing", - "Authors@R": "c(person(given = c(\"Patrick\", \"O.\"), family = \"Perry\", role = c(\"aut\", \"cph\")), person(given = \"Kirill\", family = \"M\\u00fcller\", role = \"cre\", email = \"kirill@cynkra.com\"), person(given = \"Unicode, Inc.\", role = c(\"cph\", \"dtc\"), comment = \"Unicode Character Database\"))", + "Authors@R": "c(person(given = c(\"Patrick\", \"O.\"), family = \"Perry\", role = c(\"aut\", \"cph\")), person(given = \"Kirill\", family = \"M\\u00fcller\", role = \"cre\", email = \"kirill@cynkra.com\", comment = c(ORCID = \"0000-0002-1416-3412\")), person(given = \"Unicode, Inc.\", role = c(\"cph\", \"dtc\"), comment = \"Unicode Character Database\"))", "Description": "Process and print 'UTF-8' encoded international text (Unicode). Input, validate, normalize, encode, format, and display.", "License": "Apache License (== 2.0) | file LICENSE", - "URL": "https://ptrckprry.com/r-utf8/, https://github.com/patperry/r-utf8", - "BugReports": "https://github.com/patperry/r-utf8/issues", + "URL": "https://krlmlr.github.io/utf8/, https://github.com/krlmlr/utf8", + "BugReports": "https://github.com/krlmlr/utf8/issues", "Depends": [ "R (>= 2.10)" ], @@ -8772,9 +8779,9 @@ "VignetteBuilder": "knitr, rmarkdown", "Config/testthat/edition": "3", "Encoding": "UTF-8", - "RoxygenNote": "7.2.3", + "RoxygenNote": "7.3.2.9000", "NeedsCompilation": "yes", - "Author": "Patrick O. Perry [aut, cph], Kirill Müller [cre], Unicode, Inc. [cph, dtc] (Unicode Character Database)", + "Author": "Patrick O. Perry [aut, cph], Kirill Müller [cre] (ORCID: ), Unicode, Inc. [cph, dtc] (Unicode Character Database)", "Maintainer": "Kirill Müller ", "Repository": "CRAN" }, @@ -9190,10 +9197,10 @@ }, "zip": { "Package": "zip", - "Version": "2.3.2", + "Version": "2.3.3", "Source": "Repository", "Title": "Cross-Platform 'zip' Compression", - "Authors@R": "c( person(\"Gábor\", \"Csárdi\", , \"csardi.gabor@gmail.com\", role = c(\"aut\", \"cre\")), person(\"Kuba\", \"Podgórski\", role = \"ctb\"), person(\"Rich\", \"Geldreich\", role = \"ctb\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\")) )", + "Authors@R": "c( person(\"Gábor\", \"Csárdi\", , \"csardi.gabor@gmail.com\", role = c(\"aut\", \"cre\")), person(\"Kuba\", \"Podgórski\", role = \"ctb\"), person(\"Rich\", \"Geldreich\", role = \"ctb\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\"), comment = c(ROR = \"03wc8by49\")) )", "Description": "Cross-Platform 'zip' Compression Library. A replacement for the 'zip' function, that does not require any additional external tools on any platform.", "License": "MIT + file LICENSE", "URL": "https://github.com/r-lib/zip, https://r-lib.github.io/zip/", @@ -9208,10 +9215,11 @@ ], "Config/Needs/website": "tidyverse/tidytemplate", "Config/testthat/edition": "3", + "Config/usethis/last-upkeep": "2025-05-07", "Encoding": "UTF-8", - "RoxygenNote": "7.2.3", + "RoxygenNote": "7.3.2.9000", "NeedsCompilation": "yes", - "Author": "Gábor Csárdi [aut, cre], Kuba Podgórski [ctb], Rich Geldreich [ctb], Posit Software, PBC [cph, fnd]", + "Author": "Gábor Csárdi [aut, cre], Kuba Podgórski [ctb], Rich Geldreich [ctb], Posit Software, PBC [cph, fnd] (ROR: )", "Maintainer": "Gábor Csárdi ", "Repository": "CRAN" }, diff --git a/vignettes/FreesearchR.Rmd b/vignettes/FreesearchR.Rmd index fe57e98..475c03d 100644 --- a/vignettes/FreesearchR.Rmd +++ b/vignettes/FreesearchR.Rmd @@ -14,15 +14,11 @@ library(FreesearchR) # Getting started with ***FreesearchR*** -Below is a simple walk-trough and basic instructions for the functions on the FreesearchR app. +Below is a simple walk-trough and basic descriptions on the different features of the ***FreesearchR*** app. ## Launching -The easiest way to get started is to launch [the hosted version of the app on shinyapps.io (click this link)](https://agdamsbo.shinyapps.io/freesearcheR/). - -Additionally you have the option to run the app locally with access to any data in your current working environment. - -To do this, open *R* (or RStudio or similar), and run the following code to install the latest version of ***FreesearchR*** and launch the app: +The easiest way to get started is to launch [the onlie version of the app (click this link)](https://app.freesearchr.org/). Please be aware not to upload sensitive data in this version as data security can not be guaranteed in this online environment. The app can easily be run from *R* on your own computer by running the code below ([read more on running locally here](https://agdamsbo.github.io/FreesearchR/#run-locally-on-your-own-machine)): ```{r} require("pak") @@ -31,19 +27,17 @@ library(FreesearchR) FreesearchR::launch_FreesearchR() ``` -As a small note, a standalone Windows app version is on the drawing board as well, but no time frame is available. +As a small note, a standalone Windows app version is on the drawing board as well, but no time frame is currently available. -## Importing data +## Get started -Once in the app and in the "**Import**", you have three options available for importing data: file upload, REDCap server export and local or sample data. +Once in the app, get started by loading your data. You have three options available for importing data: file upload, REDCap server export and local or sample data. -After choosing a data source, you can set a threshold to filter data be completenes and further manually specify variables to include for analyses. +After choosing a data source nad importing data, you can preview the basic data structure and missing observations, set a threshold to filter data by completeness and further manually specify variables to include for analyses. ### File upload -Currently several data file formats are supported for easy import (csv, txt, xls(x), ods, rds, dta). If importing workbooks (xls(x) or ods), you are prompted to specify sheet(s) to import. If choosing multiple sheets, these are automatically merged by common variable(s), so please make sure that key variables are correctly named identically. - -A notification is posted with error or success. After succesfull import data can be previewed directly by clicking "click to see data" in the notification. +Several data file formats are supported for easy import (csv, txt, xls(x), ods, rds, dta). If importing workbooks (xls(x) or ods), you are prompted to specify sheet(s) to import. If choosing multiple sheets, these are automatically merged by common variable(s), so please make sure that key/ID variables are correctly named identically. ### REDCap server export @@ -51,7 +45,7 @@ Export data directly from a REDCap server. You need to first generate an API-tok Please don't store the API-key on your device unless encrypted or in a keyring, as this may compromise data safety. Log in to your REDCap server and retrieve the token when needed. -Type the correct webaddress of your REDCap server. +Type the correct web address of your REDCap server. The module will validate the information and you can click "Connect". @@ -59,11 +53,11 @@ This will unfold options to preview your data dictionary (the main database meta ### Local or sample data -When opening the online hosted app, this is mainly for testing purposes. When running the app locally from *R* on your own computer, you will find all data.frames in the current environment here. This extends the possible uses of this app to allow for quick and easy data insights and code generation for basic plotting to fine tune. +When opening the online hosted app, you can load some sample data to try out the app. When running the app locally from *R* on your own computer, you will find all data frames loaded in your environment here. This extends the possible uses of this app to allow for quick and easy data insights and code generation. -## Data +## Prepare -This is the panel to get a good overview of your data, check data is classed and formatted correctly, perform simple modifications and filter data. +This is the panel to prepare data for evaluation and analyses and get a good overview of your data, check data is classed and formatted correctly, perform simple modifications and filter data. ### Summary @@ -147,11 +141,13 @@ c("continuous", "dichotomous", "categorical") |> Generate simple regression models and get the results in a nice table. This will also be included in the exported report. +This will generate a combined table with both univariate regression model results for each included variable and a multivariate model with all variables included for explorative analyses. + ### Plots Plot the coefficients from the regression models in a forest plot. Choose which model(s) to include. -### Checks +### Model checks Check model assumptions visually. Supported checks can be chosen. diff --git a/vignettes/missingness.Rmd b/vignettes/missingness.Rmd index b070878..be63285 100644 --- a/vignettes/missingness.Rmd +++ b/vignettes/missingness.Rmd @@ -23,4 +23,4 @@ library(FreesearchR) ### Further reading -The authors behind the [{finalfit}-package]() have shared a very comprehensive article on what to do and think about missing observations in your data. Please [have a look here](). +The authors behind the [{finalfit}-package](https://finalfit.org/index.html) have shared a very comprehensive article on what to do and think about missing observations in your data. Please [have a look here](https://finalfit.org/articles/missing.html).