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28
CITATION.cff
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@ -1002,6 +1002,34 @@ references:
email: russell-lenth@uiowa.edu
year: '2025'
doi: 10.32614/CRAN.package.emmeans
- type: software
title: readxl
abstract: 'readxl: Read Excel Files'
notes: Imports
url: https://readxl.tidyverse.org
repository: https://CRAN.R-project.org/package=readxl
authors:
- family-names: Wickham
given-names: Hadley
email: hadley@posit.co
orcid: https://orcid.org/0000-0003-4757-117X
- family-names: Bryan
given-names: Jennifer
email: jenny@posit.co
orcid: https://orcid.org/0000-0002-6983-2759
year: '2025'
doi: 10.32614/CRAN.package.readxl
- type: software
title: NHANES
abstract: 'NHANES: Data from the US National Health and Nutrition Examination Study'
notes: Imports
repository: https://CRAN.R-project.org/package=NHANES
authors:
- family-names: Pruim
given-names: Randall
email: rpruim@calvin.edu
year: '2025'
doi: 10.32614/CRAN.package.NHANES
- type: software
title: styler
abstract: 'styler: Non-Invasive Pretty Printing of R Code'

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36
SESSION.md
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@ -4,18 +4,18 @@
|setting |value |
|:-----------|:------------------------------------------|
|version |R version 4.4.1 (2024-06-14) |
|os |macOS 15.3.1 |
|os |macOS 15.6.1 |
|system |aarch64, darwin20 |
|ui |RStudio |
|language |(EN) |
|collate |en_US.UTF-8 |
|ctype |en_US.UTF-8 |
|tz |Europe/Copenhagen |
|date |2025-08-08 |
|date |2025-08-27 |
|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 |25.8.1.250808 |
|FreesearchR |25.8.1.250827 |
--------------------------------------------------------------------------------
@ -34,7 +34,7 @@
|bitops |1.0-9 |2024-10-03 |CRAN (R 4.4.1) |
|boot |1.3-31 |2024-08-28 |CRAN (R 4.4.1) |
|brio |1.1.5 |2024-04-24 |CRAN (R 4.4.1) |
|broom |1.0.8 |2025-03-28 |CRAN (R 4.4.1) |
|broom |1.0.9 |2025-07-28 |CRAN (R 4.4.1) |
|broom.helpers |1.21.0 |2025-04-24 |CRAN (R 4.4.1) |
|bsicons |0.1.2 |2023-11-04 |CRAN (R 4.4.0) |
|bslib |0.9.0 |2025-01-30 |CRAN (R 4.4.1) |
@ -55,7 +55,7 @@
|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 |1.2.0 |2025-07-17 |CRAN (R 4.4.1) |
|DEoptimR |1.1-3-1 |2024-11-23 |CRAN (R 4.4.1) |
|DEoptimR |1.1-4 |2025-07-27 |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) |
@ -68,7 +68,7 @@
|ellipsis |0.3.2 |2021-04-29 |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) |
|estimability |1.5.1 |2024-05-12 |CRAN (R 4.4.1) |
|eulerr |7.0.2 |2024-03-28 |CRAN (R 4.4.0) |
|evaluate |1.0.4 |2025-06-18 |CRAN (R 4.4.1) |
|farver |2.1.2 |2024-05-13 |CRAN (R 4.4.1) |
@ -105,21 +105,22 @@
|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) |
|IDEAFilter |0.2.0 |2024-04-15 |CRAN (R 4.4.0) |
|insight |1.3.1 |2025-06-30 |CRAN (R 4.4.1) |
|IDEAFilter |0.2.1 |2025-07-29 |CRAN (R 4.4.1) |
|insight |1.4.0 |2025-08-18 |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) |
|KernSmooth |2.23-26 |2025-01-01 |CRAN (R 4.4.1) |
|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) |
|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) |
@ -127,13 +128,15 @@
|miniUI |0.1.2 |2025-04-17 |CRAN (R 4.4.1) |
|minqa |1.2.8 |2024-08-17 |CRAN (R 4.4.1) |
|mvtnorm |1.3-3 |2025-01-10 |CRAN (R 4.4.1) |
|NHANES |2.1.0 |2015-07-02 |CRAN (R 4.4.0) |
|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 |0.6.10 |2025-05-30 |CRAN (R 4.4.1) |
|opdisDownsampling |1.0.1 |2024-04-15 |CRAN (R 4.4.0) |
|openssl |2.3.3 |2025-05-26 |CRAN (R 4.4.1) |
|openxlsx2 |1.17 |2025-07-04 |CRAN (R 4.4.1) |
|openxlsx2 |1.18 |2025-07-29 |CRAN (R 4.4.1) |
|pak |0.9.0 |2025-05-27 |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) |
@ -145,7 +148,6 @@
|pkgload |1.4.0 |2024-06-28 |CRAN (R 4.4.0) |
|plyr |1.8.9 |2023-10-02 |CRAN (R 4.4.1) |
|polyclip |1.10-7 |2024-07-23 |CRAN (R 4.4.1) |
|polylabelr |0.3.0 |2024-11-19 |CRAN (R 4.4.1) |
|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) |
@ -155,11 +157,7 @@
|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 |0.17.0 |2025-05-02 |CRAN (R 4.4.1) |
|R.methodsS3 |1.8.2 |2022-06-13 |CRAN (R 4.4.1) |
|R.oo |1.27.1 |2025-05-02 |CRAN (R 4.4.1) |
|R.utils |2.13.0 |2025-02-24 |CRAN (R 4.4.1) |
|quarto |1.5.0 |2025-07-28 |RSPM (R 4.4.0) |
|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) |
@ -173,11 +171,11 @@
|readr |2.1.5 |2024-01-10 |CRAN (R 4.4.0) |
|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) |
|REDCapR |1.5.0 |2025-07-28 |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) |
|renv |1.1.5 |2025-07-24 |CRAN (R 4.4.1) |
|reshape2 |1.4.4 |2020-04-09 |CRAN (R 4.4.0) |
|rio |1.2.3 |2024-09-25 |CRAN (R 4.4.1) |
|rlang |1.1.6 |2025-04-11 |CRAN (R 4.4.1) |
@ -193,13 +191,13 @@
|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 |1.11.1 |2025-07-03 |CRAN (R 4.4.1) |
|shiny.i18n |0.3.0 |NA |NA |
|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) |
|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) |
|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 |1.0.1 |2025-05-01 |CRAN (R 4.4.1) |

452
renv.lock
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@ -386,6 +386,28 @@
"Maintainer": "Martin Maechler <mmaechler+Matrix@gmail.com>",
"Repository": "CRAN"
},
"NHANES": {
"Package": "NHANES",
"Version": "2.1.0",
"Source": "Repository",
"Type": "Package",
"Title": "Data from the US National Health and Nutrition Examination Study",
"Date": "2015-07-02",
"Author": "Randall Pruim <rpruim@calvin.edu>",
"Maintainer": "Randall Pruim <rpruim@calvin.edu>",
"Description": "Body Shape and related measurements from the US National Health and Nutrition Examination Survey (NHANES, 1999-2004). See http://www.cdc.gov/nchs/nhanes.htm for details.",
"Depends": [
"R (>= 3.0)"
],
"Suggests": [
"mosaic"
],
"License": "GPL (>= 2)",
"LazyLoad": "yes",
"LazyData": "yes",
"NeedsCompilation": "no",
"Repository": "CRAN"
},
"R.methodsS3": {
"Package": "R.methodsS3",
"Version": "1.8.2",
@ -689,9 +711,80 @@
"Maintainer": "Dirk Eddelbuettel <edd@debian.org>",
"Repository": "CRAN"
},
"RcppEigen": {
"Package": "RcppEigen",
"Version": "0.3.4.0.2",
"Source": "Repository",
"Type": "Package",
"Title": "'Rcpp' Integration for the 'Eigen' Templated Linear Algebra Library",
"Date": "2024-08-23",
"Authors@R": "c(person(\"Doug\", \"Bates\", role = \"aut\", comment = c(ORCID = \"0000-0001-8316-9503\")), 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(\"Yixuan\", \"Qiu\", role = \"aut\", comment = c(ORCID = \"0000-0003-0109-6692\")), person(\"Authors of\", \"Eigen\", role = \"cph\", comment = \"Authorship and copyright in included Eigen library as detailed in inst/COPYRIGHTS\"))",
"Copyright": "See the file COPYRIGHTS for various Eigen copyright details",
"Description": "R and 'Eigen' integration using 'Rcpp'. 'Eigen' is a C++ template library for linear algebra: matrices, vectors, numerical solvers and related algorithms. It supports dense and sparse matrices on integer, floating point and complex numbers, decompositions of such matrices, and solutions of linear systems. Its performance on many algorithms is comparable with some of the best implementations based on 'Lapack' and level-3 'BLAS'. The 'RcppEigen' package includes the header files from the 'Eigen' C++ template library. Thus users do not need to install 'Eigen' itself in order to use 'RcppEigen'. Since version 3.1.1, 'Eigen' is licensed under the Mozilla Public License (version 2); earlier version were licensed under the GNU LGPL version 3 or later. 'RcppEigen' (the 'Rcpp' bindings/bridge to 'Eigen') is licensed under the GNU GPL version 2 or later, as is the rest of 'Rcpp'.",
"License": "GPL (>= 2) | file LICENSE",
"LazyLoad": "yes",
"Depends": [
"R (>= 3.6.0)"
],
"LinkingTo": [
"Rcpp"
],
"Imports": [
"Rcpp (>= 0.11.0)",
"stats",
"utils"
],
"Suggests": [
"Matrix",
"inline",
"tinytest",
"pkgKitten",
"microbenchmark"
],
"URL": "https://github.com/RcppCore/RcppEigen, https://dirk.eddelbuettel.com/code/rcpp.eigen.html",
"BugReports": "https://github.com/RcppCore/RcppEigen/issues",
"NeedsCompilation": "yes",
"Author": "Doug Bates [aut] (<https://orcid.org/0000-0001-8316-9503>), Dirk Eddelbuettel [aut, cre] (<https://orcid.org/0000-0001-6419-907X>), Romain Francois [aut] (<https://orcid.org/0000-0002-2444-4226>), Yixuan Qiu [aut] (<https://orcid.org/0000-0003-0109-6692>), Authors of Eigen [cph] (Authorship and copyright in included Eigen library as detailed in inst/COPYRIGHTS)",
"Maintainer": "Dirk Eddelbuettel <edd@debian.org>",
"Repository": "CRAN"
},
"Rdpack": {
"Package": "Rdpack",
"Version": "2.6.4",
"Source": "Repository",
"Type": "Package",
"Title": "Update and Manipulate Rd Documentation Objects",
"Authors@R": "c( person(given = c(\"Georgi\", \"N.\"), family = \"Boshnakov\", role = c(\"aut\", \"cre\"), email = \"georgi.boshnakov@manchester.ac.uk\", comment = c(ORCID = \"0000-0003-2839-346X\")), person(given = \"Duncan\", family = \"Murdoch\", role = \"ctb\", email = \"murdoch.duncan@gmail.com\") )",
"Description": "Functions for manipulation of R documentation objects, including functions reprompt() and ereprompt() for updating 'Rd' documentation for functions, methods and classes; 'Rd' macros for citations and import of references from 'bibtex' files for use in 'Rd' files and 'roxygen2' comments; 'Rd' macros for evaluating and inserting snippets of 'R' code and the results of its evaluation or creating graphics on the fly; and many functions for manipulation of references and Rd files.",
"URL": "https://geobosh.github.io/Rdpack/ (doc), https://github.com/GeoBosh/Rdpack (devel)",
"BugReports": "https://github.com/GeoBosh/Rdpack/issues",
"Depends": [
"R (>= 2.15.0)",
"methods"
],
"Imports": [
"tools",
"utils",
"rbibutils (>= 1.3)"
],
"Suggests": [
"grDevices",
"testthat",
"rstudioapi",
"rprojroot",
"gbRd"
],
"License": "GPL (>= 2)",
"LazyLoad": "yes",
"RoxygenNote": "7.1.1",
"NeedsCompilation": "no",
"Author": "Georgi N. Boshnakov [aut, cre] (<https://orcid.org/0000-0003-2839-346X>), Duncan Murdoch [ctb]",
"Maintainer": "Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>",
"Repository": "CRAN"
},
"V8": {
"Package": "V8",
"Version": "6.0.5",
"Version": "6.0.6",
"Source": "Repository",
"Type": "Package",
"Title": "Embedded JavaScript and WebAssembly Engine for R",
@ -700,7 +793,7 @@
"License": "MIT + file LICENSE",
"URL": "https://jeroen.r-universe.dev/V8",
"BugReports": "https://github.com/jeroen/v8/issues",
"SystemRequirements": "V8 engine version 6+ is needed for ES6 and WASM support. On Linux you can build against libv8-dev (Debian) or v8-devel (Fedora). We also provide static libv8 binaries for most platforms, see the README for details.",
"SystemRequirements": "On Linux you can build against libv8-dev (Debian) or v8-devel (Fedora). We also provide static libv8 binaries for most platforms, see the README for details.",
"NeedsCompilation": "yes",
"VignetteBuilder": "knitr",
"Imports": [
@ -1083,6 +1176,33 @@
"Maintainer": "Martin Maechler <maechler@stat.math.ethz.ch>",
"Repository": "CRAN"
},
"boot": {
"Package": "boot",
"Version": "1.3-31",
"Source": "Repository",
"Priority": "recommended",
"Date": "2024-08-28",
"Authors@R": "c(person(\"Angelo\", \"Canty\", role = \"aut\", email = \"cantya@mcmaster.ca\", comment = \"author of original code for S\"), person(\"Brian\", \"Ripley\", role = c(\"aut\", \"trl\"), email = \"ripley@stats.ox.ac.uk\", comment = \"conversion to R, maintainer 1999--2022, author of parallel support\"), person(\"Alessandra R.\", \"Brazzale\", role = c(\"ctb\", \"cre\"), email = \"brazzale@stat.unipd.it\", comment = \"minor bug fixes\"))",
"Maintainer": "Alessandra R. Brazzale <brazzale@stat.unipd.it>",
"Note": "Maintainers are not available to give advice on using a package they did not author.",
"Description": "Functions and datasets for bootstrapping from the book \"Bootstrap Methods and Their Application\" by A. C. Davison and D. V. Hinkley (1997, CUP), originally written by Angelo Canty for S.",
"Title": "Bootstrap Functions (Originally by Angelo Canty for S)",
"Depends": [
"R (>= 3.0.0)",
"graphics",
"stats"
],
"Suggests": [
"MASS",
"survival"
],
"LazyData": "yes",
"ByteCompile": "yes",
"License": "Unlimited",
"NeedsCompilation": "no",
"Author": "Angelo Canty [aut] (author of original code for S), Brian Ripley [aut, trl] (conversion to R, maintainer 1999--2022, author of parallel support), Alessandra R. Brazzale [ctb, cre] (minor bug fixes)",
"Repository": "CRAN"
},
"brio": {
"Package": "brio",
"Version": "1.1.5",
@ -1814,6 +1934,23 @@
"Author": "Martin Maechler [aut, cre] (<https://orcid.org/0000-0002-8685-9910>), Peter Rousseeuw [aut] (Fortran original, <https://orcid.org/0000-0002-3807-5353>), Anja Struyf [aut] (S original), Mia Hubert [aut] (S original, <https://orcid.org/0000-0001-6398-4850>), Kurt Hornik [trl, ctb] (port to R; maintenance(1999-2000), <https://orcid.org/0000-0003-4198-9911>), Matthias Studer [ctb], Pierre Roudier [ctb], Juan Gonzalez [ctb], Kamil Kozlowski [ctb], Erich Schubert [ctb] (fastpam options for pam(), <https://orcid.org/0000-0001-9143-4880>), Keefe Murphy [ctb] (volume.ellipsoid({d >= 3}))",
"Repository": "CRAN"
},
"codetools": {
"Package": "codetools",
"Version": "0.2-20",
"Source": "Repository",
"Priority": "recommended",
"Author": "Luke Tierney <luke-tierney@uiowa.edu>",
"Description": "Code analysis tools for R.",
"Title": "Code Analysis Tools for R",
"Depends": [
"R (>= 2.1)"
],
"Maintainer": "Luke Tierney <luke-tierney@uiowa.edu>",
"URL": "https://gitlab.com/luke-tierney/codetools",
"License": "GPL",
"NeedsCompilation": "no",
"Repository": "CRAN"
},
"colorspace": {
"Package": "colorspace",
"Version": "2.1-1",
@ -3146,6 +3283,41 @@
"Maintainer": "Hadley Wickham <hadley@rstudio.com>",
"Repository": "CRAN"
},
"foreach": {
"Package": "foreach",
"Version": "1.5.2",
"Source": "Repository",
"Type": "Package",
"Title": "Provides Foreach Looping Construct",
"Authors@R": "c(person(\"Folashade\", \"Daniel\", role=\"cre\", email=\"fdaniel@microsoft.com\"), person(\"Hong\", \"Ooi\", role=\"ctb\"), person(\"Rich\", \"Calaway\", role=\"ctb\"), person(\"Microsoft\", role=c(\"aut\", \"cph\")), person(\"Steve\", \"Weston\", role=\"aut\"))",
"Description": "Support for the foreach looping construct. Foreach is an idiom that allows for iterating over elements in a collection, without the use of an explicit loop counter. This package in particular is intended to be used for its return value, rather than for its side effects. In that sense, it is similar to the standard lapply function, but doesn't require the evaluation of a function. Using foreach without side effects also facilitates executing the loop in parallel.",
"License": "Apache License (== 2.0)",
"URL": "https://github.com/RevolutionAnalytics/foreach",
"BugReports": "https://github.com/RevolutionAnalytics/foreach/issues",
"Depends": [
"R (>= 2.5.0)"
],
"Imports": [
"codetools",
"utils",
"iterators"
],
"Suggests": [
"randomForest",
"doMC",
"doParallel",
"testthat",
"knitr",
"rmarkdown"
],
"VignetteBuilder": "knitr",
"RoxygenNote": "7.1.1",
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"Author": "Folashade Daniel [cre], Hong Ooi [ctb], Rich Calaway [ctb], Microsoft [aut, cph], Steve Weston [aut]",
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},
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@ -4494,6 +4666,29 @@
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},
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"Version": "1.0.14",
"Source": "Repository",
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"Title": "Provides Iterator Construct",
"Authors@R": "c(person(\"Folashade\", \"Daniel\", role=\"cre\", email=\"fdaniel@microsoft.com\"), person(\"Revolution\", \"Analytics\", role=c(\"aut\", \"cph\")), person(\"Steve\", \"Weston\", role=\"aut\"))",
"Description": "Support for iterators, which allow a programmer to traverse through all the elements of a vector, list, or other collection of data.",
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"utils"
],
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],
"License": "Apache License (== 2.0)",
"NeedsCompilation": "no",
"Author": "Folashade Daniel [cre], Revolution Analytics [aut, cph], Steve Weston [aut]",
"Maintainer": "Folashade Daniel <fdaniel@microsoft.com>",
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},
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@ -4911,6 +5106,70 @@
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},
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"Version": "1.1-37",
"Source": "Repository",
"Title": "Linear Mixed-Effects Models using 'Eigen' and S4",
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"Description": "Fit linear and generalized linear mixed-effects models. The models and their components are represented using S4 classes and methods. The core computational algorithms are implemented using the 'Eigen' C++ library for numerical linear algebra and 'RcppEigen' \"glue\".",
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"Matrix",
"methods",
"stats"
],
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"grid",
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"mlmRev",
"optimx (>= 2013.8.6)",
"gamm4",
"pbkrtest",
"HSAUR3",
"numDeriv",
"car",
"dfoptim",
"mgcv",
"statmod",
"rr2",
"semEff",
"tibble",
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],
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"LazyData": "yes",
"License": "GPL (>= 2)",
"URL": "https://github.com/lme4/lme4/",
"BugReports": "https://github.com/lme4/lme4/issues",
"Encoding": "UTF-8",
"NeedsCompilation": "yes",
"Author": "Douglas Bates [aut] (<https://orcid.org/0000-0001-8316-9503>), Martin Maechler [aut] (<https://orcid.org/0000-0002-8685-9910>), Ben Bolker [aut, cre] (<https://orcid.org/0000-0002-2127-0443>), Steven Walker [aut] (<https://orcid.org/0000-0002-4394-9078>), Rune Haubo Bojesen Christensen [ctb] (<https://orcid.org/0000-0002-4494-3399>), Henrik Singmann [ctb] (<https://orcid.org/0000-0002-4842-3657>), Bin Dai [ctb], Fabian Scheipl [ctb] (<https://orcid.org/0000-0001-8172-3603>), Gabor Grothendieck [ctb], Peter Green [ctb] (<https://orcid.org/0000-0002-0238-9852>), John Fox [ctb], Alexander Bauer [ctb], Pavel N. Krivitsky [ctb, cph] (<https://orcid.org/0000-0002-9101-3362>, shared copyright on simulate.formula), Emi Tanaka [ctb] (<https://orcid.org/0000-0002-1455-259X>), Mikael Jagan [ctb] (<https://orcid.org/0000-0002-3542-2938>), Ross D. Boylan [ctb] (<https://orcid.org/0009-0003-4123-8090>)",
"Maintainer": "Ben Bolker <bbolker+lme4@gmail.com>",
"Repository": "CRAN"
},
"lmtest": {
"Package": "lmtest",
"Version": "0.9-40",
@ -5136,6 +5395,28 @@
"Maintainer": "Yihui Xie <xie@yihui.name>",
"Repository": "CRAN"
},
"minqa": {
"Package": "minqa",
"Version": "1.2.8",
"Source": "Repository",
"Type": "Package",
"Title": "Derivative-Free Optimization Algorithms by Quadratic Approximation",
"Authors@R": "c(person(given = \"Douglas\", family = \"Bates\", role = \"aut\"), person(given = c(\"Katharine\", \"M.\"), family = \"Mullen\", role = c(\"aut\", \"cre\"), email = \"katharine.mullen@stat.ucla.edu\"), person(given = c(\"John\", \"C.\"), family = \"Nash\", role = \"aut\"), person(given = \"Ravi\", family = \"Varadhan\", role = \"aut\"))",
"Maintainer": "Katharine M. Mullen <katharine.mullen@stat.ucla.edu>",
"Description": "Derivative-free optimization by quadratic approximation based on an interface to Fortran implementations by M. J. D. Powell.",
"License": "GPL-2",
"URL": "http://optimizer.r-forge.r-project.org",
"Imports": [
"Rcpp (>= 0.9.10)"
],
"LinkingTo": [
"Rcpp"
],
"SystemRequirements": "GNU make",
"NeedsCompilation": "yes",
"Repository": "CRAN",
"Author": "Douglas Bates [aut], Katharine M. Mullen [aut, cre], John C. Nash [aut], Ravi Varadhan [aut]"
},
"minty": {
"Package": "minty",
"Version": "0.0.5",
@ -5267,6 +5548,31 @@
"Author": "Dominique Makowski [aut, cre] (ORCID: <https://orcid.org/0000-0001-5375-9967>), Daniel Lüdecke [aut] (ORCID: <https://orcid.org/0000-0002-8895-3206>), Mattan S. Ben-Shachar [aut] (ORCID: <https://orcid.org/0000-0002-4287-4801>), Indrajeet Patil [aut] (ORCID: <https://orcid.org/0000-0003-1995-6531>), Rémi Thériault [aut] (ORCID: <https://orcid.org/0000-0003-4315-6788>)",
"Repository": "CRAN"
},
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"Package": "mvtnorm",
"Version": "1.3-3",
"Source": "Repository",
"Title": "Multivariate Normal and t Distributions",
"Date": "2025-01-09",
"Authors@R": "c(person(\"Alan\", \"Genz\", role = \"aut\"), person(\"Frank\", \"Bretz\", role = \"aut\"), person(\"Tetsuhisa\", \"Miwa\", role = \"aut\"), person(\"Xuefei\", \"Mi\", role = \"aut\"), person(\"Friedrich\", \"Leisch\", role = \"ctb\"), person(\"Fabian\", \"Scheipl\", role = \"ctb\"), person(\"Bjoern\", \"Bornkamp\", role = \"ctb\", comment = c(ORCID = \"0000-0002-6294-8185\")), person(\"Martin\", \"Maechler\", role = \"ctb\", comment = c(ORCID = \"0000-0002-8685-9910\")), person(\"Torsten\", \"Hothorn\", role = c(\"aut\", \"cre\"), email = \"Torsten.Hothorn@R-project.org\", comment = c(ORCID = \"0000-0001-8301-0471\")))",
"Description": "Computes multivariate normal and t probabilities, quantiles, random deviates, and densities. Log-likelihoods for multivariate Gaussian models and Gaussian copulae parameterised by Cholesky factors of covariance or precision matrices are implemented for interval-censored and exact data, or a mix thereof. Score functions for these log-likelihoods are available. A class representing multiple lower triangular matrices and corresponding methods are part of this package.",
"Imports": [
"stats"
],
"Depends": [
"R(>= 3.5.0)"
],
"Suggests": [
"qrng",
"numDeriv"
],
"License": "GPL-2",
"URL": "http://mvtnorm.R-forge.R-project.org",
"NeedsCompilation": "yes",
"Author": "Alan Genz [aut], Frank Bretz [aut], Tetsuhisa Miwa [aut], Xuefei Mi [aut], Friedrich Leisch [ctb], Fabian Scheipl [ctb], Bjoern Bornkamp [ctb] (<https://orcid.org/0000-0002-6294-8185>), Martin Maechler [ctb] (<https://orcid.org/0000-0002-8685-9910>), Torsten Hothorn [aut, cre] (<https://orcid.org/0000-0001-8301-0471>)",
"Maintainer": "Torsten Hothorn <Torsten.Hothorn@R-project.org>",
"Repository": "CRAN"
},
"nlme": {
"Package": "nlme",
"Version": "3.1-168",
@ -5301,6 +5607,33 @@
"Maintainer": "R Core Team <R-core@R-project.org>",
"Repository": "CRAN"
},
"nloptr": {
"Package": "nloptr",
"Version": "2.2.1",
"Source": "Repository",
"Type": "Package",
"Title": "R Interface to NLopt",
"Authors@R": "c(person(\"Jelmer\", \"Ypma\", role = \"aut\", email = \"uctpjyy@ucl.ac.uk\"), person(c(\"Steven\", \"G.\"), \"Johnson\", role = \"aut\", comment = \"author of the NLopt C library\"), person(\"Aymeric\", \"Stamm\", role = c(\"ctb\", \"cre\"), email = \"aymeric.stamm@cnrs.fr\", comment = c(ORCID = \"0000-0002-8725-3654\")), person(c(\"Hans\", \"W.\"), \"Borchers\", role = \"ctb\", email = \"hwborchers@googlemail.com\"), person(\"Dirk\", \"Eddelbuettel\", role = \"ctb\", email = \"edd@debian.org\"), person(\"Brian\", \"Ripley\", role = \"ctb\", comment = \"build process on multiple OS\"), person(\"Kurt\", \"Hornik\", role = \"ctb\", comment = \"build process on multiple OS\"), person(\"Julien\", \"Chiquet\", role = \"ctb\"), person(\"Avraham\", \"Adler\", role = \"ctb\", email = \"Avraham.Adler@gmail.com\", comment = c(ORCID = \"0000-0002-3039-0703\")), person(\"Xiongtao\", \"Dai\", role = \"ctb\"), person(\"Jeroen\", \"Ooms\", role = \"ctb\", email = \"jeroen@berkeley.edu\"), person(\"Tomas\", \"Kalibera\", role = \"ctb\"), person(\"Mikael\", \"Jagan\", role = \"ctb\"))",
"Description": "Solve optimization problems using an R interface to NLopt. NLopt is a free/open-source library for nonlinear optimization, providing a common interface for a number of different free optimization routines available online as well as original implementations of various other algorithms. See <https://nlopt.readthedocs.io/en/latest/NLopt_Algorithms/> for more information on the available algorithms. Building from included sources requires 'CMake'. On Linux and 'macOS', if a suitable system build of NLopt (2.7.0 or later) is found, it is used; otherwise, it is built from included sources via 'CMake'. On Windows, NLopt is obtained through 'rwinlib' for 'R <= 4.1.x' or grabbed from the appropriate toolchain for 'R >= 4.2.0'.",
"License": "LGPL (>= 3)",
"SystemRequirements": "cmake (>= 3.2.0) which is used only on Linux or macOS systems when no system build of nlopt (>= 2.7.0) can be found.",
"Encoding": "UTF-8",
"RoxygenNote": "7.3.2",
"Suggests": [
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"rmarkdown",
"covr",
"tinytest"
],
"VignetteBuilder": "knitr",
"URL": "https://github.com/astamm/nloptr, https://astamm.github.io/nloptr/",
"BugReports": "https://github.com/astamm/nloptr/issues",
"NeedsCompilation": "yes",
"UseLTO": "yes",
"Author": "Jelmer Ypma [aut], Steven G. Johnson [aut] (author of the NLopt C library), Aymeric Stamm [ctb, cre] (<https://orcid.org/0000-0002-8725-3654>), Hans W. Borchers [ctb], Dirk Eddelbuettel [ctb], Brian Ripley [ctb] (build process on multiple OS), Kurt Hornik [ctb] (build process on multiple OS), Julien Chiquet [ctb], Avraham Adler [ctb] (<https://orcid.org/0000-0002-3039-0703>), Xiongtao Dai [ctb], Jeroen Ooms [ctb], Tomas Kalibera [ctb], Mikael Jagan [ctb]",
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"Repository": "CRAN"
},
"nnet": {
"Package": "nnet",
"Version": "7.3-20",
@ -5326,6 +5659,25 @@
"Maintainer": "Brian Ripley <Brian.Ripley@R-project.org>",
"Repository": "CRAN"
},
"numDeriv": {
"Package": "numDeriv",
"Version": "2016.8-1.1",
"Source": "Repository",
"Title": "Accurate Numerical Derivatives",
"Description": "Methods for calculating (usually) accurate numerical first and second order derivatives. Accurate calculations are done using 'Richardson''s' extrapolation or, when applicable, a complex step derivative is available. A simple difference method is also provided. Simple difference is (usually) less accurate but is much quicker than 'Richardson''s' extrapolation and provides a useful cross-check. Methods are provided for real scalar and vector valued functions.",
"Depends": [
"R (>= 2.11.1)"
],
"LazyLoad": "yes",
"ByteCompile": "yes",
"License": "GPL-2",
"Copyright": "2006-2011, Bank of Canada. 2012-2016, Paul Gilbert",
"Author": "Paul Gilbert and Ravi Varadhan",
"Maintainer": "Paul Gilbert <pgilbert.ttv9z@ncf.ca>",
"URL": "http://optimizer.r-forge.r-project.org/",
"NeedsCompilation": "no",
"Repository": "CRAN"
},
"officer": {
"Package": "officer",
"Version": "0.6.10",
@ -6665,6 +7017,34 @@
"Maintainer": "Hadley Wickham <hadley@rstudio.com>",
"Repository": "CRAN"
},
"rbibutils": {
"Package": "rbibutils",
"Version": "2.3",
"Source": "Repository",
"Type": "Package",
"Title": "Read 'Bibtex' Files and Convert Between Bibliography Formats",
"Authors@R": "c( person(given = c(\"Georgi\", \"N.\"), family = \"Boshnakov\", role = c(\"aut\", \"cre\"), \t email = \"georgi.boshnakov@manchester.ac.uk\", comment = \"R port, R code, new C code and modifications to bibutils' C code, conversion to Bibentry (R and C code)\" ), person(given = \"Chris\", family = \"Putman\", role = \"aut\", comment = \"src/*, author of the bibutils libraries, https://sourceforge.net/projects/bibutils/\"), person(given = \"Richard\", family = \"Mathar\", role = \"ctb\", comment = \"src/addsout.c\"), person(given = \"Johannes\", family = \"Wilm\", role = \"ctb\", comment = \"src/biblatexin.c, src/bltypes.c\"), person(\"R Core Team\", role = \"ctb\", comment = \"base R's bibentry and bibstyle implementation\") )",
"Description": "Read and write 'Bibtex' files. Convert between bibliography formats, including 'Bibtex', 'Biblatex', 'PubMed', 'Endnote', and 'Bibentry'. Includes a port of the 'bibutils' utilities by Chris Putnam <https://sourceforge.net/projects/bibutils/>. Supports all bibliography formats and character encodings implemented in 'bibutils'.",
"License": "GPL-2",
"URL": "https://geobosh.github.io/rbibutils/ (doc), https://github.com/GeoBosh/rbibutils (devel)",
"BugReports": "https://github.com/GeoBosh/rbibutils/issues",
"Depends": [
"R (>= 2.10)"
],
"Imports": [
"utils",
"tools"
],
"Suggests": [
"testthat"
],
"Encoding": "UTF-8",
"NeedsCompilation": "yes",
"Config/Needs/memcheck": "devtools, rcmdcheck",
"Author": "Georgi N. Boshnakov [aut, cre] (R port, R code, new C code and modifications to bibutils' C code, conversion to Bibentry (R and C code)), Chris Putman [aut] (src/*, author of the bibutils libraries, https://sourceforge.net/projects/bibutils/), Richard Mathar [ctb] (src/addsout.c), Johannes Wilm [ctb] (src/biblatexin.c, src/bltypes.c), R Core Team [ctb] (base R's bibentry and bibstyle implementation)",
"Maintainer": "Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>",
"Repository": "CRAN"
},
"reactR": {
"Package": "reactR",
"Version": "0.6.1",
@ -6842,6 +7222,74 @@
"Maintainer": "Jennifer Bryan <jenny@posit.co>",
"Repository": "CRAN"
},
"readxl": {
"Package": "readxl",
"Version": "1.4.5",
"Source": "Repository",
"Title": "Read Excel Files",
"Authors@R": "c( person(\"Hadley\", \"Wickham\", , \"hadley@posit.co\", role = \"aut\", comment = c(ORCID = \"0000-0003-4757-117X\")), person(\"Jennifer\", \"Bryan\", , \"jenny@posit.co\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0002-6983-2759\")), person(\"Posit, PBC\", role = c(\"cph\", \"fnd\"), comment = \"Copyright holder of all R code and all C/C++ code without explicit copyright attribution\"), person(\"Marcin\", \"Kalicinski\", role = c(\"ctb\", \"cph\"), comment = \"Author of included RapidXML code\"), person(\"Komarov Valery\", role = c(\"ctb\", \"cph\"), comment = \"Author of included libxls code\"), person(\"Christophe Leitienne\", role = c(\"ctb\", \"cph\"), comment = \"Author of included libxls code\"), person(\"Bob Colbert\", role = c(\"ctb\", \"cph\"), comment = \"Author of included libxls code\"), person(\"David Hoerl\", role = c(\"ctb\", \"cph\"), comment = \"Author of included libxls code\"), person(\"Evan Miller\", role = c(\"ctb\", \"cph\"), comment = \"Author of included libxls code\") )",
"Description": "Import excel files into R. Supports '.xls' via the embedded 'libxls' C library <https://github.com/libxls/libxls> and '.xlsx' via the embedded 'RapidXML' C++ library <https://rapidxml.sourceforge.net/>. Works on Windows, Mac and Linux without external dependencies.",
"License": "MIT + file LICENSE",
"URL": "https://readxl.tidyverse.org, https://github.com/tidyverse/readxl",
"BugReports": "https://github.com/tidyverse/readxl/issues",
"Depends": [
"R (>= 3.6)"
],
"Imports": [
"cellranger",
"tibble (>= 2.0.1)",
"utils"
],
"Suggests": [
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"knitr",
"rmarkdown",
"testthat (>= 3.1.6)",
"withr"
],
"LinkingTo": [
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"progress"
],
"VignetteBuilder": "knitr",
"Config/Needs/website": "tidyverse/tidytemplate, tidyverse",
"Config/testthat/edition": "3",
"Encoding": "UTF-8",
"Note": "libxls v1.6.3 c199d13",
"RoxygenNote": "7.3.2",
"NeedsCompilation": "yes",
"Author": "Hadley Wickham [aut] (<https://orcid.org/0000-0003-4757-117X>), Jennifer Bryan [aut, cre] (<https://orcid.org/0000-0002-6983-2759>), Posit, PBC [cph, fnd] (Copyright holder of all R code and all C/C++ code without explicit copyright attribution), Marcin Kalicinski [ctb, cph] (Author of included RapidXML code), Komarov Valery [ctb, cph] (Author of included libxls code), Christophe Leitienne [ctb, cph] (Author of included libxls code), Bob Colbert [ctb, cph] (Author of included libxls code), David Hoerl [ctb, cph] (Author of included libxls code), Evan Miller [ctb, cph] (Author of included libxls code)",
"Maintainer": "Jennifer Bryan <jenny@posit.co>",
"Repository": "CRAN"
},
"reformulas": {
"Package": "reformulas",
"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\"))",
"Description": "Takes formulas including random-effects components (formatted as in 'lme4', 'glmmTMB', etc.) and processes them. Includes various helper functions.",
"URL": "https://github.com/bbolker/reformulas",
"License": "GPL-3",
"Encoding": "UTF-8",
"Imports": [
"stats",
"methods",
"Matrix",
"Rdpack"
],
"RdMacros": "Rdpack",
"Suggests": [
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"tinytest",
"glmmTMB"
],
"RoxygenNote": "7.3.2.9000",
"NeedsCompilation": "no",
"Author": "Ben Bolker [aut, cre] (ORCID: <https://orcid.org/0000-0002-2127-0443>)",
"Maintainer": "Ben Bolker <bolker@mcmaster.ca>",
"Repository": "CRAN"
},
"rematch": {
"Package": "rematch",
"Version": "2.0.0",