diff --git a/renv.lock b/renv.lock index 551efb3..17ff05c 100644 --- a/renv.lock +++ b/renv.lock @@ -13,24 +13,6 @@ ] }, "Packages": { - "BH": { - "Package": "BH", - "Version": "1.90.0-1", - "Source": "Repository", - "Type": "Package", - "Title": "Boost C++ Header Files", - "Date": "2025-12-13", - "Authors@R": "c(person(\"Dirk\", \"Eddelbuettel\", role = c(\"aut\", \"cre\"), email = \"edd@debian.org\", comment = c(ORCID = \"0000-0001-6419-907X\")), person(\"John W.\", \"Emerson\", role = \"aut\"), person(\"Michael J.\", \"Kane\", role = \"aut\", comment = c(ORCID = \"0000-0003-1899-6662\")))", - "Description": "Boost provides free peer-reviewed portable C++ source libraries. A large part of Boost is provided as C++ template code which is resolved entirely at compile-time without linking. This package aims to provide the most useful subset of Boost libraries for template use among CRAN packages. By placing these libraries in this package, we offer a more efficient distribution system for CRAN as replication of this code in the sources of other packages is avoided. As of release 1.84.0-0, the following Boost libraries are included: 'accumulators' 'algorithm' 'align' 'any' 'atomic' 'beast' 'bimap' 'bind' 'circular_buffer' 'compute' 'concept' 'config' 'container' 'date_time' 'detail' 'dynamic_bitset' 'exception' 'flyweight' 'foreach' 'functional' 'fusion' 'geometry' 'graph' 'heap' 'icl' 'integer' 'interprocess' 'intrusive' 'io' 'iostreams' 'iterator' 'lambda2' 'math' 'move' 'mp11' 'mpl' 'multiprecision' 'numeric' 'pending' 'phoenix' 'polygon' 'preprocessor' 'process' 'propery_tree' 'qvm' 'random' 'range' 'scope_exit' 'smart_ptr' 'sort' 'spirit' 'tuple' 'type_traits' 'typeof' 'unordered' 'url' 'utility' 'uuid'.", - "License": "BSL-1.0", - "URL": "https://github.com/eddelbuettel/bh, https://dirk.eddelbuettel.com/code/bh.html", - "BugReports": "https://github.com/eddelbuettel/bh/issues", - "NeedsCompilation": "no", - "Author": "Dirk Eddelbuettel [aut, cre] (ORCID: ), John W. Emerson [aut], Michael J. Kane [aut] (ORCID: )", - "Maintainer": "Dirk Eddelbuettel ", - "Repository": "P3M", - "Encoding": "UTF-8" - }, "DBI": { "Package": "DBI", "Version": "1.2.3", @@ -80,44 +62,6 @@ "Maintainer": "Kirill Müller ", "Repository": "https://p3m.dev/cran/__linux__/noble/latest" }, - "DT": { - "Package": "DT", - "Version": "0.34.0", - "Source": "Repository", - "Type": "Package", - "Title": "A Wrapper of the JavaScript Library 'DataTables'", - "Authors@R": "c( person(\"Yihui\", \"Xie\", role = \"aut\"), person(\"Joe\", \"Cheng\", , \"joe@posit.co\", role = \"aut\"), person(\"Xianying\", \"Tan\", role = \"aut\"), person(\"Garrick\", \"Aden-Buie\", , \"garrick@posit.co\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0002-7111-0077\")), person(\"JJ\", \"Allaire\", role = \"ctb\"), person(\"Maximilian\", \"Girlich\", role = \"ctb\"), person(\"Greg\", \"Freedman Ellis\", role = \"ctb\"), person(\"Johannes\", \"Rauh\", role = \"ctb\"), person(\"SpryMedia Limited\", role = c(\"ctb\", \"cph\"), comment = \"DataTables in htmlwidgets/lib\"), person(\"Brian\", \"Reavis\", role = c(\"ctb\", \"cph\"), comment = \"selectize.js in htmlwidgets/lib\"), person(\"Leon\", \"Gersen\", role = c(\"ctb\", \"cph\"), comment = \"noUiSlider in htmlwidgets/lib\"), person(\"Bartek\", \"Szopka\", role = c(\"ctb\", \"cph\"), comment = \"jquery.highlight.js in htmlwidgets/lib\"), person(\"Alex\", \"Pickering\", role = \"ctb\"), person(\"William\", \"Holmes\", role = \"ctb\"), person(\"Mikko\", \"Marttila\", role = \"ctb\"), person(\"Andres\", \"Quintero\", role = \"ctb\"), person(\"Stéphane\", \"Laurent\", role = \"ctb\"), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\")) )", - "Description": "Data objects in R can be rendered as HTML tables using the JavaScript library 'DataTables' (typically via R Markdown or Shiny). The 'DataTables' library has been included in this R package. The package name 'DT' is an abbreviation of 'DataTables'.", - "License": "MIT + file LICENSE", - "URL": "https://github.com/rstudio/DT", - "BugReports": "https://github.com/rstudio/DT/issues", - "Imports": [ - "crosstalk", - "htmltools (>= 0.3.6)", - "htmlwidgets (>= 1.3)", - "jquerylib", - "jsonlite (>= 0.9.16)", - "magrittr", - "promises" - ], - "Suggests": [ - "bslib", - "future", - "httpuv", - "knitr (>= 1.8)", - "rmarkdown", - "shiny (>= 1.6)", - "testit", - "tibble" - ], - "VignetteBuilder": "knitr", - "Encoding": "UTF-8", - "RoxygenNote": "7.3.2", - "NeedsCompilation": "no", - "Author": "Yihui Xie [aut], Joe Cheng [aut], Xianying Tan [aut], Garrick Aden-Buie [aut, cre] (ORCID: ), JJ Allaire [ctb], Maximilian Girlich [ctb], Greg Freedman Ellis [ctb], Johannes Rauh [ctb], SpryMedia Limited [ctb, cph] (DataTables in htmlwidgets/lib), Brian Reavis [ctb, cph] (selectize.js in htmlwidgets/lib), Leon Gersen [ctb, cph] (noUiSlider in htmlwidgets/lib), Bartek Szopka [ctb, cph] (jquery.highlight.js in htmlwidgets/lib), Alex Pickering [ctb], William Holmes [ctb], Mikko Marttila [ctb], Andres Quintero [ctb], Stéphane Laurent [ctb], Posit Software, PBC [cph, fnd]", - "Maintainer": "Garrick Aden-Buie ", - "Repository": "https://p3m.dev/cran/__linux__/noble/latest" - }, "DiceDesign": { "Package": "DiceDesign", "Version": "1.10", @@ -270,31 +214,114 @@ "Maintainer": "Martin Maechler ", "Repository": "CRAN" }, - "QuickJSR": { - "Package": "QuickJSR", - "Version": "1.9.0", + "R.cache": { + "Package": "R.cache", + "Version": "0.17.0", "Source": "Repository", - "Title": "Interface for the 'QuickJS-NG' Lightweight 'JavaScript' Engine", - "Authors@R": "c( person(c(\"Andrew\", \"R.\"), \"Johnson\", , \"andrew.johnson@arjohnsonau.com\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0001-7000-8065\")), person(\"QuickJS\", \"Authors\", role = c(\"cph\"), comment = \"QuickJS sources and headers\"), person(\"QuickJS-NG\", \"Authors\", role = c(\"cph\"), comment = \"QuickJS-NG sources and headers\") )", - "Description": "An 'R' interface to the 'QuickJS' portable 'JavaScript' engine. The engine and all 'R' to 'JavaScript' interoperability is bundled within the package, requiring no dependencies beyond a 'C' compiler.", - "License": "MIT + file LICENSE", - "URL": "https://github.com/andrjohns/QuickJSR, https://github.com/quickjs-ng/quickjs", - "BugReports": "https://github.com/andrjohns/QuickJSR/issues", - "Suggests": [ - "knitr", - "rmarkdown", - "tinytest" + "Depends": [ + "R (>= 2.14.0)" ], + "Imports": [ + "utils", + "R.methodsS3 (>= 1.8.1)", + "R.oo (>= 1.24.0)", + "R.utils (>= 2.10.1)", + "digest (>= 0.6.13)" + ], + "Title": "Fast and Light-Weight Caching (Memoization) of Objects and Results to Speed Up Computations", + "Authors@R": "c(person(\"Henrik\", \"Bengtsson\", role=c(\"aut\", \"cre\", \"cph\"), email = \"henrikb@braju.com\"))", + "Author": "Henrik Bengtsson [aut, cre, cph]", + "Maintainer": "Henrik Bengtsson ", + "Description": "Memoization can be used to speed up repetitive and computational expensive function calls. The first time a function that implements memoization is called the results are stored in a cache memory. The next time the function is called with the same set of parameters, the results are momentarily retrieved from the cache avoiding repeating the calculations. With this package, any R object can be cached in a key-value storage where the key can be an arbitrary set of R objects. The cache memory is persistent (on the file system).", + "License": "LGPL (>= 2.1)", + "LazyLoad": "TRUE", + "URL": "https://github.com/HenrikBengtsson/R.cache", + "BugReports": "https://github.com/HenrikBengtsson/R.cache/issues", "Encoding": "UTF-8", - "Language": "en-AU", - "NeedsCompilation": "yes", - "RoxygenNote": "7.3.3", - "SystemRequirements": "GNU make", - "VignetteBuilder": "knitr", - "Config/build/compilation-database": "true", - "Author": "Andrew R. Johnson [aut, cre] (ORCID: ), QuickJS Authors [cph] (QuickJS sources and headers), QuickJS-NG Authors [cph] (QuickJS-NG sources and headers)", - "Maintainer": "Andrew R. Johnson ", - "Repository": "P3M" + "NeedsCompilation": "no", + "Repository": "CRAN" + }, + "R.methodsS3": { + "Package": "R.methodsS3", + "Version": "1.8.2", + "Source": "Repository", + "Depends": [ + "R (>= 2.13.0)" + ], + "Imports": [ + "utils" + ], + "Suggests": [ + "codetools" + ], + "Title": "S3 Methods Simplified", + "Authors@R": "c(person(\"Henrik\", \"Bengtsson\", role=c(\"aut\", \"cre\", \"cph\"), email = \"henrikb@braju.com\"))", + "Author": "Henrik Bengtsson [aut, cre, cph]", + "Maintainer": "Henrik Bengtsson ", + "Description": "Methods that simplify the setup of S3 generic functions and S3 methods. Major effort has been made in making definition of methods as simple as possible with a minimum of maintenance for package developers. For example, generic functions are created automatically, if missing, and naming conflict are automatically solved, if possible. The method setMethodS3() is a good start for those who in the future may want to migrate to S4. This is a cross-platform package implemented in pure R that generates standard S3 methods.", + "License": "LGPL (>= 2.1)", + "LazyLoad": "TRUE", + "URL": "https://github.com/HenrikBengtsson/R.methodsS3", + "BugReports": "https://github.com/HenrikBengtsson/R.methodsS3/issues", + "NeedsCompilation": "no", + "Repository": "CRAN" + }, + "R.oo": { + "Package": "R.oo", + "Version": "1.27.1", + "Source": "Repository", + "Depends": [ + "R (>= 2.13.0)", + "R.methodsS3 (>= 1.8.2)" + ], + "Imports": [ + "methods", + "utils" + ], + "Suggests": [ + "tools" + ], + "Title": "R Object-Oriented Programming with or without References", + "Authors@R": "c(person(\"Henrik\", \"Bengtsson\", role=c(\"aut\", \"cre\", \"cph\"), email = \"henrikb@braju.com\"))", + "Author": "Henrik Bengtsson [aut, cre, cph]", + "Maintainer": "Henrik Bengtsson ", + "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://henrikbengtsson.github.io/R.oo/, https://github.com/HenrikBengtsson/R.oo", + "BugReports": "https://github.com/HenrikBengtsson/R.oo/issues", + "NeedsCompilation": "no", + "Repository": "CRAN" + }, + "R.utils": { + "Package": "R.utils", + "Version": "2.13.0", + "Source": "Repository", + "Depends": [ + "R (>= 2.14.0)", + "R.oo" + ], + "Imports": [ + "methods", + "utils", + "tools", + "R.methodsS3" + ], + "Suggests": [ + "datasets", + "digest (>= 0.6.10)" + ], + "Title": "Various Programming Utilities", + "Authors@R": "c(person(\"Henrik\", \"Bengtsson\", role=c(\"aut\", \"cre\", \"cph\"), email = \"henrikb@braju.com\"))", + "Author": "Henrik Bengtsson [aut, cre, cph]", + "Maintainer": "Henrik Bengtsson ", + "Description": "Utility functions useful when programming and developing R packages.", + "License": "LGPL (>= 2.1)", + "LazyLoad": "TRUE", + "URL": "https://henrikbengtsson.github.io/R.utils/, https://github.com/HenrikBengtsson/R.utils", + "BugReports": "https://github.com/HenrikBengtsson/R.utils/issues", + "NeedsCompilation": "no", + "Repository": "CRAN" }, "R6": { "Package": "R6", @@ -414,108 +441,6 @@ "Maintainer": "Dirk Eddelbuettel ", "Repository": "P3M" }, - "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] (), Dirk Eddelbuettel [aut, cre] (), Romain Francois [aut] (), Yixuan Qiu [aut] (), Authors of Eigen [cph] (Authorship and copyright in included Eigen library as detailed in inst/COPYRIGHTS)", - "Maintainer": "Dirk Eddelbuettel ", - "Repository": "https://p3m.dev/cran/__linux__/noble/latest", - "Encoding": "UTF-8" - }, - "RcppParallel": { - "Package": "RcppParallel", - "Version": "5.1.11-1", - "Source": "Repository", - "Type": "Package", - "Title": "Parallel Programming Tools for 'Rcpp'", - "Authors@R": "c( person(\"JJ\", \"Allaire\", role = c(\"aut\"), email = \"jj@rstudio.com\"), person(\"Romain\", \"Francois\", role = c(\"aut\", \"cph\")), person(\"Kevin\", \"Ushey\", role = c(\"aut\", \"cre\"), email = \"kevin@rstudio.com\"), person(\"Gregory\", \"Vandenbrouck\", role = \"aut\"), person(\"Marcus\", \"Geelnard\", role = c(\"aut\", \"cph\"), comment = \"TinyThread library, https://tinythreadpp.bitsnbites.eu/\"), person(\"Hamada S.\", \"Badr\", email = \"badr@jhu.edu\", role = c(\"ctb\"), comment = c(ORCID = \"0000-0002-9808-2344\")), person(family = \"Posit, PBC\", role = \"cph\"), person(family = \"Intel\", role = c(\"aut\", \"cph\"), comment = \"Intel TBB library, https://www.threadingbuildingblocks.org/\"), person(family = \"Microsoft\", role = \"cph\") )", - "Description": "High level functions for parallel programming with 'Rcpp'. For example, the 'parallelFor()' function can be used to convert the work of a standard serial \"for\" loop into a parallel one and the 'parallelReduce()' function can be used for accumulating aggregate or other values.", - "Depends": [ - "R (>= 3.0.2)" - ], - "Suggests": [ - "Rcpp", - "RUnit", - "knitr", - "rmarkdown" - ], - "SystemRequirements": "GNU make, Intel TBB, Windows: cmd.exe and cscript.exe, Solaris: g++ is required", - "License": "GPL (>= 3)", - "URL": "https://rcppcore.github.io/RcppParallel/, https://github.com/RcppCore/RcppParallel", - "BugReports": "https://github.com/RcppCore/RcppParallel/issues", - "Biarch": "TRUE", - "RoxygenNote": "7.1.1", - "Encoding": "UTF-8", - "NeedsCompilation": "yes", - "Author": "JJ Allaire [aut], Romain Francois [aut, cph], Kevin Ushey [aut, cre], Gregory Vandenbrouck [aut], Marcus Geelnard [aut, cph] (TinyThread library, https://tinythreadpp.bitsnbites.eu/), Hamada S. Badr [ctb] (ORCID: ), Posit, PBC [cph], Intel [aut, cph] (Intel TBB library, https://www.threadingbuildingblocks.org/), Microsoft [cph]", - "Maintainer": "Kevin Ushey ", - "Repository": "P3M" - }, - "Rdpack": { - "Package": "Rdpack", - "Version": "2.6.6", - "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://CRAN.R-project.org/package=Rdpack", - "BugReports": "https://github.com/GeoBosh/Rdpack/issues", - "Depends": [ - "R (>= 2.15.0)", - "methods" - ], - "Imports": [ - "tools", - "utils", - "rbibutils (> 2.4)" - ], - "Suggests": [ - "grDevices", - "testthat", - "rstudioapi", - "rprojroot", - "gbRd" - ], - "License": "GPL (>= 2)", - "LazyLoad": "yes", - "Encoding": "UTF-8", - "RoxygenNote": "7.1.1", - "NeedsCompilation": "no", - "Author": "Georgi N. Boshnakov [aut, cre] (ORCID: ), Duncan Murdoch [ctb]", - "Maintainer": "Georgi N. Boshnakov ", - "Repository": "P3M" - }, "S7": { "Package": "S7", "Version": "0.2.1", @@ -577,44 +502,6 @@ "NeedsCompilation": "no", "Encoding": "UTF-8" }, - "StanHeaders": { - "Package": "StanHeaders", - "Version": "2.32.10", - "Source": "Repository", - "Title": "C++ Header Files for Stan", - "Authors@R": "c(person(\"Ben\",family=\"Goodrich\", email=\"benjamin.goodrich@columbia.edu\", role=c('cre','aut')), person(\"Joshua\", \"Pritikin\", role = \"ctb\"), person(\"Andrew\", \"Gelman\", role = \"aut\"), person(\"Bob\", \"Carpenter\", role = \"aut\"), person(\"Matt\", \"Hoffman\", role = \"aut\"), person(\"Daniel\", \"Lee\", role = \"aut\"), person(\"Michael\", \"Betancourt\", role = \"aut\"), person(\"Marcus\", \"Brubaker\", role = \"aut\"), person(\"Jiqiang\", \"Guo\", role = \"aut\"), person(\"Peter\", \"Li\", role = \"aut\"), person(\"Allen\", \"Riddell\", role = \"aut\"), person(\"Marco\", \"Inacio\", role = \"aut\"), person(\"Mitzi\", \"Morris\", role = \"aut\"), person(\"Jeffrey\", \"Arnold\", role = \"aut\"), person(\"Rob\", \"Goedman\", role = \"aut\"), person(\"Brian\", \"Lau\", role = \"aut\"), person(\"Rob\", \"Trangucci\", role = \"aut\"), person(\"Jonah\", \"Gabry\", role = \"aut\"), person(\"Alp\", \"Kucukelbir\", role = \"aut\"), person(\"Robert\", \"Grant\", role = \"aut\"), person(\"Dustin\", \"Tran\", role = \"aut\"), person(\"Michael\", \"Malecki\", role = \"aut\"), person(\"Yuanjun\", \"Gao\", role = \"aut\"), person(\"Hamada S.\", \"Badr\", role = c(\"aut\"), email = \"badr@jhu.edu\", comment = c(ORCID = \"0000-0002-9808-2344\")), person(\"Trustees of\", \"Columbia University\", role = \"cph\"), person(\"Lawrence Livermore\", \"National Security\", role = \"cph\", comment = \"CVODES\"), person(\"The Regents of the\", \"University of California\", role = \"cph\", comment = \"CVODES\"), person(\"Southern Methodist\", \"University\", role = \"cph\", comment = \"CVODES\"))", - "URL": "https://mc-stan.org/", - "Description": "The C++ header files of the Stan project are provided by this package, but it contains little R code or documentation. The main reference is the vignette. There is a shared object containing part of the 'CVODES' library, but its functionality is not accessible from R. 'StanHeaders' is primarily useful for developers who want to utilize the 'LinkingTo' directive of their package's DESCRIPTION file to build on the Stan library without incurring unnecessary dependencies. The Stan project develops a probabilistic programming language that implements full or approximate Bayesian statistical inference via Markov Chain Monte Carlo or 'variational' methods and implements (optionally penalized) maximum likelihood estimation via optimization. The Stan library includes an advanced automatic differentiation scheme, 'templated' statistical and linear algebra functions that can handle the automatically 'differentiable' scalar types (and doubles, 'ints', etc.), and a parser for the Stan language. The 'rstan' package provides user-facing R functions to parse, compile, test, estimate, and analyze Stan models.", - "Imports": [ - "RcppParallel (>= 5.1.4)" - ], - "Suggests": [ - "Rcpp", - "BH (>= 1.75.0-0)", - "knitr (>= 1.36)", - "rmarkdown", - "Matrix", - "methods", - "rstan", - "withr" - ], - "LinkingTo": [ - "RcppEigen (>= 0.3.4.0.0)", - "RcppParallel (>= 5.1.4)" - ], - "VignetteBuilder": "knitr", - "SystemRequirements": "GNU make, pandoc", - "Depends": [ - "R (>= 3.4.0)" - ], - "License": "BSD_3_clause + file LICENSE", - "Encoding": "UTF-8", - "RoxygenNote": "7.1.2", - "NeedsCompilation": "yes", - "Author": "Ben Goodrich [cre, aut], Joshua Pritikin [ctb], Andrew Gelman [aut], Bob Carpenter [aut], Matt Hoffman [aut], Daniel Lee [aut], Michael Betancourt [aut], Marcus Brubaker [aut], Jiqiang Guo [aut], Peter Li [aut], Allen Riddell [aut], Marco Inacio [aut], Mitzi Morris [aut], Jeffrey Arnold [aut], Rob Goedman [aut], Brian Lau [aut], Rob Trangucci [aut], Jonah Gabry [aut], Alp Kucukelbir [aut], Robert Grant [aut], Dustin Tran [aut], Michael Malecki [aut], Yuanjun Gao [aut], Hamada S. Badr [aut] (), Trustees of Columbia University [cph], Lawrence Livermore National Security [cph] (CVODES), The Regents of the University of California [cph] (CVODES), Southern Methodist University [cph] (CVODES)", - "Maintainer": "Ben Goodrich ", - "Repository": "P3M" - }, "TSP": { "Package": "TSP", "Version": "1.2.6", @@ -687,28 +574,6 @@ "Maintainer": "Jeroen Ooms ", "Repository": "https://p3m.dev/cran/__linux__/noble/latest" }, - "abind": { - "Package": "abind", - "Version": "1.4-8", - "Source": "Repository", - "Date": "2024-09-08", - "Title": "Combine Multidimensional Arrays", - "Authors@R": "c(person(\"Tony\", \"Plate\", email = \"tplate@acm.org\", role = c(\"aut\", \"cre\")), person(\"Richard\", \"Heiberger\", role = c(\"aut\")))", - "Maintainer": "Tony Plate ", - "Description": "Combine multidimensional arrays into a single array. This is a generalization of 'cbind' and 'rbind'. Works with vectors, matrices, and higher-dimensional arrays (aka tensors). Also provides functions 'adrop', 'asub', and 'afill' for manipulating, extracting and replacing data in arrays.", - "Depends": [ - "R (>= 1.5.0)" - ], - "Imports": [ - "methods", - "utils" - ], - "License": "MIT + file LICENSE", - "NeedsCompilation": "no", - "Author": "Tony Plate [aut, cre], Richard Heiberger [aut]", - "Repository": "https://p3m.dev/cran/__linux__/noble/latest", - "Encoding": "UTF-8" - }, "arrow": { "Package": "arrow", "Version": "23.0.0.1", @@ -900,63 +765,6 @@ "Maintainer": "Michel Lang ", "Repository": "https://p3m.dev/cran/__linux__/noble/latest" }, - "bayesplot": { - "Package": "bayesplot", - "Version": "1.15.0", - "Source": "Repository", - "Type": "Package", - "Title": "Plotting for Bayesian Models", - "Date": "2025-12-11", - "Authors@R": "c(person(\"Jonah\", \"Gabry\", role = c(\"aut\", \"cre\"), email = \"jgabry@gmail.com\"), person(\"Tristan\", \"Mahr\", role = \"aut\", comment = c(ORCID = \"0000-0002-8890-5116\")), person(\"Paul-Christian\", \"Bürkner\", role = \"ctb\"), person(\"Martin\", \"Modrák\", role = \"ctb\"), person(\"Malcolm\", \"Barrett\", role = \"ctb\"), person(\"Frank\", \"Weber\", role = \"ctb\"), person(\"Eduardo\", \"Coronado Sroka\", role = \"ctb\"), person(\"Teemu\", \"Sailynoja\", role = \"ctb\"), person(\"Aki\", \"Vehtari\", role = \"ctb\"), person(\"Behram\", \"Ulukır\", role = \"ctb\"), person(\"Visruth\", \"Srimath Kandali\", role = \"ctb\"))", - "Maintainer": "Jonah Gabry ", - "Description": "Plotting functions for posterior analysis, MCMC diagnostics, prior and posterior predictive checks, and other visualizations to support the applied Bayesian workflow advocated in Gabry, Simpson, Vehtari, Betancourt, and Gelman (2019) . The package is designed not only to provide convenient functionality for users, but also a common set of functions that can be easily used by developers working on a variety of R packages for Bayesian modeling, particularly (but not exclusively) packages interfacing with 'Stan'.", - "License": "GPL (>= 3)", - "URL": "https://mc-stan.org/bayesplot/", - "BugReports": "https://github.com/stan-dev/bayesplot/issues/", - "SystemRequirements": "pandoc (>= 1.12.3), pandoc-citeproc", - "Depends": [ - "R (>= 4.1.0)" - ], - "Imports": [ - "dplyr (>= 0.8.0)", - "ggplot2 (>= 3.4.0)", - "ggridges (>= 0.5.5)", - "glue", - "posterior", - "reshape2", - "rlang (>= 0.3.0)", - "stats", - "tibble (>= 2.0.0)", - "tidyr", - "tidyselect", - "utils" - ], - "Suggests": [ - "ggdist", - "ggfortify", - "gridExtra (>= 2.2.1)", - "hexbin", - "knitr (>= 1.16)", - "loo (>= 2.0.0)", - "RColorBrewer", - "rmarkdown (>= 1.0.0)", - "rstan (>= 2.17.1)", - "rstanarm (>= 2.17.4)", - "rstantools (>= 1.5.0)", - "scales", - "shinystan (>= 2.3.0)", - "survival", - "testthat (>= 3.0.0)", - "vdiffr (>= 1.0.2)" - ], - "RoxygenNote": "7.3.3", - "VignetteBuilder": "knitr", - "Encoding": "UTF-8", - "Config/testthat/edition": "3", - "NeedsCompilation": "no", - "Author": "Jonah Gabry [aut, cre], Tristan Mahr [aut] (ORCID: ), Paul-Christian Bürkner [ctb], Martin Modrák [ctb], Malcolm Barrett [ctb], Frank Weber [ctb], Eduardo Coronado Sroka [ctb], Teemu Sailynoja [ctb], Aki Vehtari [ctb], Behram Ulukır [ctb], Visruth Srimath Kandali [ctb]", - "Repository": "P3M" - }, "bigD": { "Package": "bigD", "Version": "0.3.1", @@ -1149,33 +957,6 @@ "Maintainer": "Emil Hvitfeldt ", "Repository": "P3M" }, - "boot": { - "Package": "boot", - "Version": "1.3-32", - "Source": "Repository", - "Priority": "recommended", - "Date": "2025-08-29", - "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 = \"Brian.Ripley@R-project.org\", 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 ", - "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", - "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" - }, "brew": { "Package": "brew", "Version": "1.0-10", @@ -1528,49 +1309,6 @@ "Repository": "https://p3m.dev/cran/__linux__/noble/latest", "Encoding": "UTF-8" }, - "checkmate": { - "Package": "checkmate", - "Version": "2.3.4", - "Source": "Repository", - "Type": "Package", - "Title": "Fast and Versatile Argument Checks", - "Description": "Tests and assertions to perform frequent argument checks. A substantial part of the package was written in C to minimize any worries about execution time overhead.", - "Authors@R": "c( person(\"Michel\", \"Lang\", NULL, \"michellang@gmail.com\", role = c(\"cre\", \"aut\"), comment = c(ORCID = \"0000-0001-9754-0393\")), person(\"Bernd\", \"Bischl\", NULL, \"bernd_bischl@gmx.net\", role = \"ctb\"), person(\"Dénes\", \"Tóth\", NULL, \"toth.denes@kogentum.hu\", role = \"ctb\", comment = c(ORCID = \"0000-0003-4262-3217\")) )", - "URL": "https://mllg.github.io/checkmate/, https://github.com/mllg/checkmate", - "URLNote": "https://github.com/mllg/checkmate", - "BugReports": "https://github.com/mllg/checkmate/issues", - "NeedsCompilation": "yes", - "ByteCompile": "yes", - "Encoding": "UTF-8", - "Depends": [ - "R (>= 3.0.0)" - ], - "Imports": [ - "backports (>= 1.1.0)", - "utils" - ], - "Suggests": [ - "R6", - "fastmatch", - "data.table (>= 1.9.8)", - "devtools", - "ggplot2", - "knitr", - "magrittr", - "microbenchmark", - "rmarkdown", - "testthat (>= 3.0.4)", - "tinytest (>= 1.1.0)", - "tibble" - ], - "License": "BSD_3_clause + file LICENSE", - "VignetteBuilder": "knitr", - "RoxygenNote": "7.3.3", - "Collate": "'AssertCollection.R' 'allMissing.R' 'anyInfinite.R' 'anyMissing.R' 'anyNaN.R' 'asInteger.R' 'assert.R' 'helper.R' 'makeExpectation.R' 'makeTest.R' 'makeAssertion.R' 'checkAccess.R' 'checkArray.R' 'checkAtomic.R' 'checkAtomicVector.R' 'checkCharacter.R' 'checkChoice.R' 'checkClass.R' 'checkComplex.R' 'checkCount.R' 'checkDataFrame.R' 'checkDataTable.R' 'checkDate.R' 'checkDirectoryExists.R' 'checkDisjunct.R' 'checkDouble.R' 'checkEnvironment.R' 'checkFALSE.R' 'checkFactor.R' 'checkFileExists.R' 'checkFlag.R' 'checkFormula.R' 'checkFunction.R' 'checkInt.R' 'checkInteger.R' 'checkIntegerish.R' 'checkList.R' 'checkLogical.R' 'checkMatrix.R' 'checkMultiClass.R' 'checkNamed.R' 'checkNames.R' 'checkNull.R' 'checkNumber.R' 'checkNumeric.R' 'checkOS.R' 'checkPOSIXct.R' 'checkPathForOutput.R' 'checkPermutation.R' 'checkR6.R' 'checkRaw.R' 'checkScalar.R' 'checkScalarNA.R' 'checkSetEqual.R' 'checkString.R' 'checkSubset.R' 'checkTRUE.R' 'checkTibble.R' 'checkVector.R' 'coalesce.R' 'isIntegerish.R' 'matchArg.R' 'qassert.R' 'qassertr.R' 'vname.R' 'wfwl.R' 'zzz.R'", - "Author": "Michel Lang [cre, aut] (ORCID: ), Bernd Bischl [ctb], Dénes Tóth [ctb] (ORCID: )", - "Maintainer": "Michel Lang ", - "Repository": "P3M" - }, "class": { "Package": "class", "Version": "7.3-23", @@ -1833,42 +1571,6 @@ "Maintainer": "Achim Zeileis ", "Repository": "https://p3m.dev/cran/__linux__/noble/latest" }, - "colourpicker": { - "Package": "colourpicker", - "Version": "1.3.0", - "Source": "Repository", - "Title": "A Colour Picker Tool for Shiny and for Selecting Colours in Plots", - "Authors@R": "c( person(\"Dean\", \"Attali\", email = \"daattali@gmail.com\", role = c(\"aut\", \"cre\"), comment= c(ORCID=\"0000-0002-5645-3493\")), person(\"David\", \"Griswold\", email=\"novachild@gmail.com\", role = \"ctb\") )", - "Description": "A colour picker that can be used as an input in 'Shiny' apps or Rmarkdown documents. The colour picker supports alpha opacity, custom colour palettes, and many more options. A Plot Colour Helper tool is available as an 'RStudio' Addin, which helps you pick colours to use in your plots. A more generic Colour Picker 'RStudio' Addin is also provided to let you select colours to use in your R code.", - "URL": "https://github.com/daattali/colourpicker, https://daattali.com/shiny/colourInput/", - "BugReports": "https://github.com/daattali/colourpicker/issues", - "Depends": [ - "R (>= 3.1.0)" - ], - "Imports": [ - "ggplot2", - "htmltools", - "htmlwidgets (>= 0.7)", - "jsonlite", - "miniUI (>= 0.1.1)", - "shiny (>= 0.11.1)", - "shinyjs (>= 2.0.0)", - "utils" - ], - "Suggests": [ - "knitr (>= 1.7)", - "rmarkdown", - "rstudioapi (>= 0.5)", - "shinydisconnect" - ], - "License": "MIT + file LICENSE", - "Encoding": "UTF-8", - "RoxygenNote": "7.2.3", - "NeedsCompilation": "no", - "Author": "Dean Attali [aut, cre] (), David Griswold [ctb]", - "Maintainer": "Dean Attali ", - "Repository": "P3M" - }, "commonmark": { "Package": "commonmark", "Version": "2.0.0", @@ -2134,38 +1836,6 @@ "Maintainer": "Jeroen Ooms ", "Repository": "https://packagemanager.posit.co/cran/latest" }, - "crosstalk": { - "Package": "crosstalk", - "Version": "1.2.2", - "Source": "Repository", - "Type": "Package", - "Title": "Inter-Widget Interactivity for HTML Widgets", - "Authors@R": "c( person(\"Joe\", \"Cheng\", , \"joe@posit.co\", role = \"aut\"), person(\"Carson\", \"Sievert\", , \"carson@posit.co\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0002-4958-2844\")), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\")), person(, \"jQuery Foundation\", role = \"cph\", comment = \"jQuery library and jQuery UI library\"), person(, \"jQuery contributors\", role = c(\"ctb\", \"cph\"), comment = \"jQuery library; authors listed in inst/www/shared/jquery-AUTHORS.txt\"), person(\"Mark\", \"Otto\", role = \"ctb\", comment = \"Bootstrap library\"), person(\"Jacob\", \"Thornton\", role = \"ctb\", comment = \"Bootstrap library\"), person(, \"Bootstrap contributors\", role = \"ctb\", comment = \"Bootstrap library\"), person(, \"Twitter, Inc\", role = \"cph\", comment = \"Bootstrap library\"), person(\"Brian\", \"Reavis\", role = c(\"ctb\", \"cph\"), comment = \"selectize.js library\"), person(\"Kristopher Michael\", \"Kowal\", role = c(\"ctb\", \"cph\"), comment = \"es5-shim library\"), person(, \"es5-shim contributors\", role = c(\"ctb\", \"cph\"), comment = \"es5-shim library\"), person(\"Denis\", \"Ineshin\", role = c(\"ctb\", \"cph\"), comment = \"ion.rangeSlider library\"), person(\"Sami\", \"Samhuri\", role = c(\"ctb\", \"cph\"), comment = \"Javascript strftime library\") )", - "Description": "Provides building blocks for allowing HTML widgets to communicate with each other, with Shiny or without (i.e. static .html files). Currently supports linked brushing and filtering.", - "License": "MIT + file LICENSE", - "URL": "https://rstudio.github.io/crosstalk/, https://github.com/rstudio/crosstalk", - "BugReports": "https://github.com/rstudio/crosstalk/issues", - "Imports": [ - "htmltools (>= 0.3.6)", - "jsonlite", - "lazyeval", - "R6" - ], - "Suggests": [ - "bslib", - "ggplot2", - "sass", - "shiny", - "testthat (>= 2.1.0)" - ], - "Config/Needs/website": "jcheng5/d3scatter, DT, leaflet, rmarkdown", - "Encoding": "UTF-8", - "RoxygenNote": "7.3.2", - "NeedsCompilation": "no", - "Author": "Joe Cheng [aut], Carson Sievert [aut, cre] (ORCID: ), 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), Mark Otto [ctb] (Bootstrap library), Jacob Thornton [ctb] (Bootstrap library), Bootstrap contributors [ctb] (Bootstrap library), Twitter, Inc [cph] (Bootstrap library), Brian Reavis [ctb, cph] (selectize.js library), Kristopher Michael Kowal [ctb, cph] (es5-shim library), es5-shim contributors [ctb, cph] (es5-shim library), Denis Ineshin [ctb, cph] (ion.rangeSlider library), Sami Samhuri [ctb, cph] (Javascript strftime library)", - "Maintainer": "Carson Sievert ", - "Repository": "https://p3m.dev/cran/__linux__/noble/latest" - }, "curl": { "Package": "curl", "Version": "7.0.0", @@ -2541,82 +2211,6 @@ "Maintainer": "Dirk Eddelbuettel ", "Repository": "https://p3m.dev/cran/__linux__/noble/latest" }, - "distributional": { - "Package": "distributional", - "Version": "0.6.0", - "Source": "Repository", - "Title": "Vectorised Probability Distributions", - "Authors@R": "c(person(given = \"Mitchell\", family = \"O'Hara-Wild\", role = c(\"aut\", \"cre\"), email = \"mail@mitchelloharawild.com\", comment = c(ORCID = \"0000-0001-6729-7695\")), person(given = \"Matthew\", family = \"Kay\", role = c(\"aut\"), comment = c(ORCID = \"0000-0001-9446-0419\")), person(given = \"Alex\", family = \"Hayes\", role = c(\"aut\"), comment = c(ORCID = \"0000-0002-4985-5160\")), person(given = \"Rob\", family = \"Hyndman\", role = c(\"aut\"), comment = c(ORCID = \"0000-0002-2140-5352\")), person(given = \"Earo\", family = \"Wang\", role = c(\"ctb\"), comment = c(ORCID = \"0000-0001-6448-5260\")), person(given = \"Vencislav\", family = \"Popov\", role = c(\"ctb\"), comment = c(ORCID = \"0000-0002-8073-4199\")))", - "Description": "Vectorised distribution objects with tools for manipulating, visualising, and using probability distributions. Designed to allow model prediction outputs to return distributions rather than their parameters, allowing users to directly interact with predictive distributions in a data-oriented workflow. In addition to providing generic replacements for p/d/q/r functions, other useful statistics can be computed including means, variances, intervals, and highest density regions.", - "License": "GPL-3", - "Depends": [ - "R (>= 4.0.0)" - ], - "Imports": [ - "vctrs (>= 0.3.0)", - "rlang (>= 0.4.5)", - "generics", - "stats", - "numDeriv", - "utils", - "lifecycle", - "pillar" - ], - "Suggests": [ - "testthat (>= 2.1.0)", - "covr", - "mvtnorm", - "actuar (>= 2.0.0)", - "evd", - "ggdist", - "ggplot2", - "gk", - "pkgdown" - ], - "RdMacros": "lifecycle", - "URL": "https://pkg.mitchelloharawild.com/distributional/, https://github.com/mitchelloharawild/distributional", - "BugReports": "https://github.com/mitchelloharawild/distributional/issues", - "Encoding": "UTF-8", - "Language": "en-GB", - "RoxygenNote": "7.3.3", - "NeedsCompilation": "no", - "Author": "Mitchell O'Hara-Wild [aut, cre] (ORCID: ), Matthew Kay [aut] (ORCID: ), Alex Hayes [aut] (ORCID: ), Rob Hyndman [aut] (ORCID: ), Earo Wang [ctb] (ORCID: ), Vencislav Popov [ctb] (ORCID: )", - "Maintainer": "Mitchell O'Hara-Wild ", - "Repository": "P3M" - }, - "doParallel": { - "Package": "doParallel", - "Version": "1.0.17", - "Source": "Repository", - "Type": "Package", - "Title": "Foreach Parallel Adaptor for the 'parallel' Package", - "Authors@R": "c(person(\"Folashade\", \"Daniel\", role=\"cre\", email=\"fdaniel@microsoft.com\"), person(\"Microsoft\", \"Corporation\", role=c(\"aut\", \"cph\")), person(\"Steve\", \"Weston\", role=\"aut\"), person(\"Dan\", \"Tenenbaum\", role=\"ctb\"))", - "Description": "Provides a parallel backend for the %dopar% function using the parallel package.", - "Depends": [ - "R (>= 2.14.0)", - "foreach (>= 1.2.0)", - "iterators (>= 1.0.0)", - "parallel", - "utils" - ], - "Suggests": [ - "caret", - "mlbench", - "rpart", - "RUnit" - ], - "Enhances": [ - "compiler" - ], - "License": "GPL-2", - "URL": "https://github.com/RevolutionAnalytics/doparallel", - "BugReports": "https://github.com/RevolutionAnalytics/doparallel/issues", - "NeedsCompilation": "no", - "Author": "Folashade Daniel [cre], Microsoft Corporation [aut, cph], Steve Weston [aut], Dan Tenenbaum [ctb]", - "Maintainer": "Folashade Daniel ", - "Repository": "P3M", - "Encoding": "UTF-8" - }, "downlit": { "Package": "downlit", "Version": "0.4.5", @@ -2812,41 +2406,6 @@ "Maintainer": "Kirill Müller ", "Repository": "P3M" }, - "dygraphs": { - "Package": "dygraphs", - "Version": "1.1.1.6", - "Source": "Repository", - "Type": "Package", - "Title": "Interface to 'Dygraphs' Interactive Time Series Charting Library", - "Authors@R": "c( person(\"Dan\", \"Vanderkam\", role = c(\"aut\", \"cph\"), comment = \"dygraphs library in htmlwidgets/lib, http://dygraphs.com/\"), person(\"Petr\", \"Shevtsov\", role = c(\"cre\", \"cph\"), email = \"petr.shevtsov@gmail.com\"), person(\"JJ\", \"Allaire\", role = c(\"aut\")), person(family = \"RStudio\", role = \"cph\"), person(\"Jonathan\", \"Owen\", role = c(\"aut\", \"cph\")), person(\"Daniel\", \"Gromer\", role = c(\"aut\", \"cph\")), person(\"Benoit\", \"Thieurmel\", role = c(\"aut\", \"cph\")), person(\"Kent\", \"Laukhuf\", role = \"ctb\"), person(family = \"jQuery Foundation\", role = \"cph\", comment = \"jQuery library\"), person(family = \"jQuery contributors\", role = c(\"ctb\", \"cph\"), comment = \"jQuery library; authors listed in inst/htmlwidgets/lib/jquery/AUTHORS.txt\") )", - "URL": "https://github.com/rstudio/dygraphs", - "BugReports": "https://github.com/rstudio/dygraphs/issues", - "Description": "An R interface to the 'dygraphs' JavaScript charting library (a copy of which is included in the package). Provides rich facilities for charting time-series data in R, including highly configurable series- and axis-display and interactive features like zoom/pan and series/point highlighting.", - "License": "MIT + file LICENSE", - "Depends": [ - "R (>= 3.0)" - ], - "Imports": [ - "magrittr", - "htmlwidgets (>= 0.6)", - "htmltools (>= 0.3.5)", - "zoo (>= 1.7-10)", - "xts (>= 0.9-7)" - ], - "Suggests": [ - "testthat" - ], - "Enhances": [ - "rmarkdown (>= 0.3.3)", - "shiny (>= 0.10.2.1)" - ], - "RoxygenNote": "6.0.1", - "NeedsCompilation": "no", - "Author": "Dan Vanderkam [aut, cph] (dygraphs library in htmlwidgets/lib, http://dygraphs.com/), Petr Shevtsov [cre, cph], JJ Allaire [aut], RStudio [cph], Jonathan Owen [aut, cph], Daniel Gromer [aut, cph], Benoit Thieurmel [aut, cph], Kent Laukhuf [ctb], jQuery Foundation [cph] (jQuery library), jQuery contributors [ctb, cph] (jQuery library; authors listed in inst/htmlwidgets/lib/jquery/AUTHORS.txt)", - "Maintainer": "Petr Shevtsov ", - "Repository": "P3M", - "Encoding": "UTF-8" - }, "ellipsis": { "Package": "ellipsis", "Version": "0.3.2", @@ -3520,47 +3079,6 @@ "Maintainer": "Kamil Slowikowski ", "Repository": "https://packagemanager.posit.co/cran/latest" }, - "ggridges": { - "Package": "ggridges", - "Version": "0.5.7", - "Source": "Repository", - "Type": "Package", - "Title": "Ridgeline Plots in 'ggplot2'", - "Authors@R": "person( given = \"Claus O.\", family = \"Wilke\", role = c(\"aut\", \"cre\"), email = \"wilke@austin.utexas.edu\", comment = c(ORCID = \"0000-0002-7470-9261\") )", - "Description": "Ridgeline plots provide a convenient way of visualizing changes in distributions over time or space. This package enables the creation of such plots in 'ggplot2'.", - "URL": "https://wilkelab.org/ggridges/", - "BugReports": "https://github.com/wilkelab/ggridges/issues", - "Depends": [ - "R (>= 3.2)" - ], - "Imports": [ - "ggplot2 (>= 3.5.0)", - "grid (>= 3.0.0)", - "scales (>= 0.4.1)", - "withr (>= 2.1.1)" - ], - "License": "GPL-2 | file LICENSE", - "LazyData": "true", - "Suggests": [ - "covr", - "dplyr", - "patchwork", - "ggplot2movies", - "forcats", - "knitr", - "rmarkdown", - "testthat", - "vdiffr" - ], - "VignetteBuilder": "knitr", - "Collate": "'data.R' 'ggridges.R' 'geoms.R' 'geomsv.R' 'geoms-gradient.R' 'geom-density-line.R' 'position.R' 'scale-cyclical.R' 'scale-point.R' 'scale-vline.R' 'stats.R' 'theme.R' 'utils_ggplot2.R' 'utils.R'", - "RoxygenNote": "7.3.2", - "Encoding": "UTF-8", - "NeedsCompilation": "no", - "Author": "Claus O. Wilke [aut, cre] (ORCID: )", - "Maintainer": "Claus O. Wilke ", - "Repository": "P3M" - }, "gh": { "Package": "gh", "Version": "1.5.0", @@ -3828,37 +3346,6 @@ "Repository": "https://p3m.dev/cran/__linux__/noble/latest", "Encoding": "UTF-8" }, - "gridExtra": { - "Package": "gridExtra", - "Version": "2.3", - "Source": "Repository", - "Authors@R": "c(person(\"Baptiste\", \"Auguie\", email = \"baptiste.auguie@gmail.com\", role = c(\"aut\", \"cre\")), person(\"Anton\", \"Antonov\", email = \"tonytonov@gmail.com\", role = c(\"ctb\")))", - "License": "GPL (>= 2)", - "Title": "Miscellaneous Functions for \"Grid\" Graphics", - "Type": "Package", - "Description": "Provides a number of user-level functions to work with \"grid\" graphics, notably to arrange multiple grid-based plots on a page, and draw tables.", - "VignetteBuilder": "knitr", - "Imports": [ - "gtable", - "grid", - "grDevices", - "graphics", - "utils" - ], - "Suggests": [ - "ggplot2", - "egg", - "lattice", - "knitr", - "testthat" - ], - "RoxygenNote": "6.0.1", - "NeedsCompilation": "no", - "Author": "Baptiste Auguie [aut, cre], Anton Antonov [ctb]", - "Maintainer": "Baptiste Auguie ", - "Repository": "P3M", - "Encoding": "UTF-8" - }, "gt": { "Package": "gt", "Version": "1.3.0", @@ -3970,37 +3457,6 @@ "Maintainer": "Thomas Lin Pedersen ", "Repository": "https://p3m.dev/cran/__linux__/noble/latest" }, - "gtools": { - "Package": "gtools", - "Version": "3.9.5", - "Source": "Repository", - "Title": "Various R Programming Tools", - "Description": "Functions to assist in R programming, including: - assist in developing, updating, and maintaining R and R packages ('ask', 'checkRVersion', 'getDependencies', 'keywords', 'scat'), - calculate the logit and inverse logit transformations ('logit', 'inv.logit'), - test if a value is missing, empty or contains only NA and NULL values ('invalid'), - manipulate R's .Last function ('addLast'), - define macros ('defmacro'), - detect odd and even integers ('odd', 'even'), - convert strings containing non-ASCII characters (like single quotes) to plain ASCII ('ASCIIfy'), - perform a binary search ('binsearch'), - sort strings containing both numeric and character components ('mixedsort'), - create a factor variable from the quantiles of a continuous variable ('quantcut'), - enumerate permutations and combinations ('combinations', 'permutation'), - calculate and convert between fold-change and log-ratio ('foldchange', 'logratio2foldchange', 'foldchange2logratio'), - calculate probabilities and generate random numbers from Dirichlet distributions ('rdirichlet', 'ddirichlet'), - apply a function over adjacent subsets of a vector ('running'), - modify the TCP_NODELAY ('de-Nagle') flag for socket objects, - efficient 'rbind' of data frames, even if the column names don't match ('smartbind'), - generate significance stars from p-values ('stars.pval'), - convert characters to/from ASCII codes ('asc', 'chr'), - convert character vector to ASCII representation ('ASCIIfy'), - apply title capitalization rules to a character vector ('capwords').", - "Authors@R": "c(person(\"Gregory R.\", \"Warnes\", role = \"aut\"), person(\"Ben\", \"Bolker\", role = c(\"aut\", \"cre\"), email = \"bolker@mcmaster.ca\", comment=c(ORCID=\"0000-0002-2127-0443\")), person(\"Thomas\", \"Lumley\", role = \"aut\"), person(\"Arni\", \"Magnusson\", role = \"aut\"), person(\"Bill\", \"Venables\", role = \"aut\"), person(\"Genei\", \"Ryodan\", role = \"aut\"), person(\"Steffen\", \"Moeller\", role = \"aut\"), person(\"Ian\", \"Wilson\", role = \"ctb\"), person(\"Mark\", \"Davis\", role = \"ctb\"), person(\"Nitin\", \"Jain\", role=\"ctb\"), person(\"Scott\", \"Chamberlain\", role = \"ctb\"))", - "License": "GPL-2", - "Depends": [ - "methods", - "stats", - "utils" - ], - "URL": "https://github.com/r-gregmisc/gtools", - "BugReports": "https://github.com/r-gregmisc/gtools/issues", - "Language": "en-US", - "Suggests": [ - "car", - "gplots", - "knitr", - "rstudioapi", - "SGP", - "taxize" - ], - "RoxygenNote": "7.2.3", - "Encoding": "UTF-8", - "NeedsCompilation": "yes", - "Author": "Gregory R. Warnes [aut], Ben Bolker [aut, cre] (), Thomas Lumley [aut], Arni Magnusson [aut], Bill Venables [aut], Genei Ryodan [aut], Steffen Moeller [aut], Ian Wilson [ctb], Mark Davis [ctb], Nitin Jain [ctb], Scott Chamberlain [ctb]", - "Maintainer": "Ben Bolker ", - "Repository": "P3M" - }, "hardhat": { "Package": "hardhat", "Version": "1.4.2", @@ -4416,6 +3872,42 @@ "Maintainer": "Hadley Wickham ", "Repository": "https://p3m.dev/cran/__linux__/noble/latest" }, + "hunspell": { + "Package": "hunspell", + "Version": "3.0.6", + "Source": "Repository", + "Type": "Package", + "Title": "High-Performance Stemmer, Tokenizer, and Spell Checker", + "Depends": [ + "R (>= 3.0.2)" + ], + "Encoding": "UTF-8", + "Authors@R": "c( person(\"Jeroen\", \"Ooms\", ,\"jeroenooms@gmail.com\", role = c(\"aut\", \"cre\")), person(\"Authors of libhunspell\", role = \"cph\", comment = \"see AUTHORS file\"))", + "Description": "Low level spell checker and morphological analyzer based on the famous 'hunspell' library . The package can analyze or check individual words as well as parse text, latex, html or xml documents. For a more user-friendly interface use the 'spelling' package which builds on this package to automate checking of files, documentation and vignettes in all common formats.", + "License": "GPL-2 | LGPL-2.1 | MPL-1.1", + "URL": "https://docs.ropensci.org/hunspell/ https://ropensci.r-universe.dev/hunspell", + "BugReports": "https://github.com/ropensci/hunspell/issues", + "Imports": [ + "Rcpp", + "digest" + ], + "LinkingTo": [ + "Rcpp (>= 0.12.12)" + ], + "Suggests": [ + "spelling", + "testthat", + "knitr", + "rmarkdown" + ], + "VignetteBuilder": "knitr", + "RoxygenNote": "7.2.3", + "Language": "en-US", + "NeedsCompilation": "yes", + "Author": "Jeroen Ooms [aut, cre], Authors of libhunspell [cph] (see AUTHORS file)", + "Maintainer": "Jeroen Ooms ", + "Repository": "CRAN" + }, "ids": { "Package": "ids", "Version": "1.0.1", @@ -4590,32 +4082,6 @@ "Repository": "https://packagemanager.posit.co/cran/latest", "Encoding": "UTF-8" }, - "inline": { - "Package": "inline", - "Version": "0.3.21", - "Source": "Repository", - "Date": "2025-01-08", - "Title": "Functions to Inline C, C++, Fortran Function Calls from R", - "Authors@R": "c(person(\"Oleg\", \"Sklyar\", role = \"aut\"), 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(\"Mike\", \"Smith\", role = \"ctb\"), person(\"Duncan\", \"Murdoch\", role = \"ctb\"), person(\"Karline\", \"Soetaert\", role = \"ctb\", comment = c(ORCID = \"0000-0003-4603-7100\")), person(\"Johannes\", \"Ranke\", role = \"ctb\", comment = c(ORCID = \"0000-0003-4371-6538\")))", - "Imports": [ - "methods" - ], - "Suggests": [ - "Rcpp", - "tinytest" - ], - "Description": "Functionality to dynamically define R functions and S4 methods with 'inlined' C, C++ or Fortran code supporting the .C and .Call calling conventions.", - "License": "LGPL", - "Copyright": "Oleg Sklyar, 2005-2010 and other authors per their commits", - "LazyLoad": "yes", - "URL": "https://github.com/eddelbuettel/inline, https://dirk.eddelbuettel.com/code/inline.html", - "BugReports": "https://github.com/eddelbuettel/inline/issues", - "NeedsCompilation": "no", - "Author": "Oleg Sklyar [aut], Dirk Eddelbuettel [aut, cre] (), Romain Francois [aut] (), Mike Smith [ctb], Duncan Murdoch [ctb], Karline Soetaert [ctb] (), Johannes Ranke [ctb] ()", - "Maintainer": "Dirk Eddelbuettel ", - "Repository": "P3M", - "Encoding": "UTF-8" - }, "ipred": { "Package": "ipred", "Version": "0.9-15", @@ -5017,32 +4483,6 @@ "NeedsCompilation": "no", "Repository": "https://p3m.dev/cran/__linux__/noble/latest" }, - "lazyeval": { - "Package": "lazyeval", - "Version": "0.2.2", - "Source": "Repository", - "Title": "Lazy (Non-Standard) Evaluation", - "Description": "An alternative approach to non-standard evaluation using formulas. Provides a full implementation of LISP style 'quasiquotation', making it easier to generate code with other code.", - "Authors@R": "c( person(\"Hadley\", \"Wickham\", ,\"hadley@rstudio.com\", c(\"aut\", \"cre\")), person(\"RStudio\", role = \"cph\") )", - "License": "GPL-3", - "LazyData": "true", - "Depends": [ - "R (>= 3.1.0)" - ], - "Suggests": [ - "knitr", - "rmarkdown (>= 0.2.65)", - "testthat", - "covr" - ], - "VignetteBuilder": "knitr", - "RoxygenNote": "6.1.1", - "NeedsCompilation": "yes", - "Author": "Hadley Wickham [aut, cre], RStudio [cph]", - "Maintainer": "Hadley Wickham ", - "Repository": "https://p3m.dev/cran/__linux__/noble/latest", - "Encoding": "UTF-8" - }, "lhs": { "Package": "lhs", "Version": "1.2.0", @@ -5216,125 +4656,6 @@ "Maintainer": "Yihui Xie ", "Repository": "https://p3m.dev/cran/__linux__/noble/latest" }, - "lme4": { - "Package": "lme4", - "Version": "1.1-38", - "Source": "Repository", - "Title": "Linear Mixed-Effects Models using 'Eigen' and S4", - "Authors@R": "c( person(\"Douglas\",\"Bates\", role=\"aut\", comment=c(ORCID=\"0000-0001-8316-9503\")), person(\"Martin\",\"Maechler\", role=\"aut\", comment=c(ORCID=\"0000-0002-8685-9910\")), person(\"Ben\",\"Bolker\",email=\"bbolker+lme4@gmail.com\", role=c(\"aut\",\"cre\"), comment=c(ORCID=\"0000-0002-2127-0443\")), person(\"Steven\",\"Walker\",role=\"aut\", comment=c(ORCID=\"0000-0002-4394-9078\")), person(\"Rune Haubo Bojesen\",\"Christensen\", role=\"ctb\", comment=c(ORCID=\"0000-0002-4494-3399\")), person(\"Henrik\",\"Singmann\", role=\"ctb\", comment=c(ORCID=\"0000-0002-4842-3657\")), person(\"Bin\", \"Dai\", role=\"ctb\"), person(\"Fabian\", \"Scheipl\", role=\"ctb\", comment=c(ORCID=\"0000-0001-8172-3603\")), person(\"Gabor\", \"Grothendieck\", role=\"ctb\"), person(\"Peter\", \"Green\", role=\"ctb\", comment=c(ORCID=\"0000-0002-0238-9852\")), person(\"John\", \"Fox\", role=\"ctb\"), person(\"Alexander\", \"Bauer\", role=\"ctb\"), person(\"Pavel N.\", \"Krivitsky\", role=c(\"ctb\",\"cph\"), comment=c(ORCID=\"0000-0002-9101-3362\", \"shared copyright on simulate.formula\")), person(\"Emi\", \"Tanaka\", role = \"ctb\", comment = c(ORCID=\"0000-0002-1455-259X\")), person(\"Mikael\", \"Jagan\", role = \"ctb\", comment = c(ORCID=\"0000-0002-3542-2938\")), person(\"Ross D.\", \"Boylan\", email=\"ross.boylan@ucsf.edu\", role=(\"ctb\"), comment = c(ORCID=\"0009-0003-4123-8090\")), person(\"Anna\", \"Ly\", role = \"ctb\", comment = c(ORCID = \"0000-0002-0210-0342\")) )", - "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\".", - "Depends": [ - "R (>= 3.6.0)", - "Matrix", - "methods", - "stats" - ], - "LinkingTo": [ - "Rcpp (>= 0.10.5)", - "RcppEigen (>= 0.3.3.9.4)", - "Matrix (>= 1.5-0)" - ], - "Imports": [ - "graphics", - "grid", - "splines", - "utils", - "parallel", - "MASS", - "lattice", - "boot", - "nlme (>= 3.1-123)", - "minqa (>= 1.1.15)", - "nloptr (>= 1.0.4)", - "reformulas (>= 0.3.0)", - "rlang", - "Rdpack" - ], - "RdMacros": "Rdpack", - "Suggests": [ - "knitr", - "rmarkdown", - "MEMSS", - "testthat (>= 0.8.1)", - "ggplot2", - "mlmRev", - "optimx (>= 2013.8.6)", - "gamm4", - "pbkrtest", - "HSAUR3", - "numDeriv", - "car", - "dfoptim", - "mgcv", - "statmod", - "rr2", - "semEff", - "tibble", - "merDeriv" - ], - "Enhances": [ - "DHARMa", - "performance" - ], - "VignetteBuilder": "knitr", - "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] (ORCID: ), Martin Maechler [aut] (ORCID: ), Ben Bolker [aut, cre] (ORCID: ), Steven Walker [aut] (ORCID: ), Rune Haubo Bojesen Christensen [ctb] (ORCID: ), Henrik Singmann [ctb] (ORCID: ), Bin Dai [ctb], Fabian Scheipl [ctb] (ORCID: ), Gabor Grothendieck [ctb], Peter Green [ctb] (ORCID: ), John Fox [ctb], Alexander Bauer [ctb], Pavel N. Krivitsky [ctb, cph] (ORCID: , shared copyright on simulate.formula), Emi Tanaka [ctb] (ORCID: ), Mikael Jagan [ctb] (ORCID: ), Ross D. Boylan [ctb] (ORCID: ), Anna Ly [ctb] (ORCID: )", - "Maintainer": "Ben Bolker ", - "Repository": "P3M" - }, - "loo": { - "Package": "loo", - "Version": "2.9.0", - "Source": "Repository", - "Type": "Package", - "Title": "Efficient Leave-One-Out Cross-Validation and WAIC for Bayesian Models", - "Date": "2025-12-22", - "Authors@R": "c( person(\"Aki\", \"Vehtari\", email = \"Aki.Vehtari@aalto.fi\", role = \"aut\"), person(\"Jonah\", \"Gabry\", email = \"jgabry@gmail.com\", role = c(\"cre\", \"aut\")), person(\"Måns\", \"Magnusson\", role = \"aut\"), person(\"Yuling\", \"Yao\", role = \"aut\"), person(\"Paul-Christian\", \"Bürkner\", role = \"aut\"), person(\"Topi\", \"Paananen\", role = \"aut\"), person(\"Andrew\", \"Gelman\", role = \"aut\"), person(\"Ben\", \"Goodrich\", role = \"ctb\"), person(\"Juho\", \"Piironen\", role = \"ctb\"), person(\"Bruno\", \"Nicenboim\", role = \"ctb\"), person(\"Leevi\", \"Lindgren\", role = \"ctb\"), person(\"Visruth\", \"Srimath Kandali\", role = \"ctb\") )", - "Maintainer": "Jonah Gabry ", - "Description": "Efficient approximate leave-one-out cross-validation (LOO) for Bayesian models fit using Markov chain Monte Carlo, as described in Vehtari, Gelman, and Gabry (2017) . The approximation uses Pareto smoothed importance sampling (PSIS), a new procedure for regularizing importance weights. As a byproduct of the calculations, we also obtain approximate standard errors for estimated predictive errors and for the comparison of predictive errors between models. The package also provides methods for using stacking and other model weighting techniques to average Bayesian predictive distributions.", - "License": "GPL (>= 3)", - "URL": "https://mc-stan.org/loo/, https://discourse.mc-stan.org", - "BugReports": "https://github.com/stan-dev/loo/issues", - "Depends": [ - "R (>= 3.1.2)" - ], - "Imports": [ - "checkmate", - "matrixStats (>= 0.52)", - "parallel", - "posterior (>= 1.5.0)", - "stats" - ], - "Suggests": [ - "bayesplot (>= 1.7.0)", - "brms (>= 2.10.0)", - "ggplot2", - "graphics", - "knitr", - "rmarkdown", - "rstan", - "rstanarm (>= 2.19.0)", - "rstantools", - "spdep", - "testthat (>= 3.0)" - ], - "VignetteBuilder": "knitr", - "Config/testthat/edition": "3", - "Config/testthat/parallel": "true", - "Config/testthat/start-first": "loo_subsampling_cases, loo_subsampling", - "Encoding": "UTF-8", - "LazyData": "TRUE", - "RoxygenNote": "7.3.3", - "SystemRequirements": "pandoc (>= 1.12.3), pandoc-citeproc", - "NeedsCompilation": "no", - "Author": "Aki Vehtari [aut], Jonah Gabry [cre, aut], Måns Magnusson [aut], Yuling Yao [aut], Paul-Christian Bürkner [aut], Topi Paananen [aut], Andrew Gelman [aut], Ben Goodrich [ctb], Juho Piironen [ctb], Bruno Nicenboim [ctb], Leevi Lindgren [ctb], Visruth Srimath Kandali [ctb]", - "Repository": "P3M" - }, "lubridate": { "Package": "lubridate", "Version": "1.9.5", @@ -5444,39 +4765,6 @@ "Maintainer": "Yihui Xie ", "Repository": "https://p3m.dev/cran/__linux__/noble/latest" }, - "matrixStats": { - "Package": "matrixStats", - "Version": "1.5.0", - "Source": "Repository", - "Depends": [ - "R (>= 3.4.0)" - ], - "Suggests": [ - "utils", - "base64enc", - "ggplot2", - "knitr", - "markdown", - "microbenchmark", - "R.devices", - "R.rsp" - ], - "VignetteBuilder": "R.rsp", - "Title": "Functions that Apply to Rows and Columns of Matrices (and to Vectors)", - "Authors@R": "c( person(\"Henrik\", \"Bengtsson\", role=c(\"aut\", \"cre\", \"cph\"), email=\"henrikb@braju.com\"), person(\"Constantin\", \"Ahlmann-Eltze\", role = \"ctb\"), person(\"Hector\", \"Corrada Bravo\", role=\"ctb\"), person(\"Robert\", \"Gentleman\", role=\"ctb\"), person(\"Jan\", \"Gleixner\", role=\"ctb\"), person(\"Peter\", \"Hickey\", role=\"ctb\"), person(\"Ola\", \"Hossjer\", role=\"ctb\"), person(\"Harris\", \"Jaffee\", role=\"ctb\"), person(\"Dongcan\", \"Jiang\", role=\"ctb\"), person(\"Peter\", \"Langfelder\", role=\"ctb\"), person(\"Brian\", \"Montgomery\", role=\"ctb\"), person(\"Angelina\", \"Panagopoulou\", role=\"ctb\"), person(\"Hugh\", \"Parsonage\", role=\"ctb\"), person(\"Jakob Peder\", \"Pettersen\", role=\"ctb\"))", - "Author": "Henrik Bengtsson [aut, cre, cph], Constantin Ahlmann-Eltze [ctb], Hector Corrada Bravo [ctb], Robert Gentleman [ctb], Jan Gleixner [ctb], Peter Hickey [ctb], Ola Hossjer [ctb], Harris Jaffee [ctb], Dongcan Jiang [ctb], Peter Langfelder [ctb], Brian Montgomery [ctb], Angelina Panagopoulou [ctb], Hugh Parsonage [ctb], Jakob Peder Pettersen [ctb]", - "Maintainer": "Henrik Bengtsson ", - "Description": "High-performing functions operating on rows and columns of matrices, e.g. col / rowMedians(), col / rowRanks(), and col / rowSds(). Functions optimized per data type and for subsetted calculations such that both memory usage and processing time is minimized. There are also optimized vector-based methods, e.g. binMeans(), madDiff() and weightedMedian().", - "License": "Artistic-2.0", - "LazyLoad": "TRUE", - "NeedsCompilation": "yes", - "ByteCompile": "TRUE", - "URL": "https://github.com/HenrikBengtsson/matrixStats", - "BugReports": "https://github.com/HenrikBengtsson/matrixStats/issues", - "RoxygenNote": "7.3.2", - "Repository": "P3M", - "Encoding": "UTF-8" - }, "memoise": { "Package": "memoise", "Version": "2.0.1", @@ -5584,29 +4872,6 @@ "Maintainer": "Joe Cheng ", "Repository": "https://p3m.dev/cran/__linux__/noble/latest" }, - "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 ", - "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": "P3M", - "Author": "Douglas Bates [aut], Katharine M. Mullen [aut, cre], John C. Nash [aut], Ravi Varadhan [aut]", - "Encoding": "UTF-8" - }, "modeldata": { "Package": "modeldata", "Version": "1.5.1", @@ -5748,33 +5013,6 @@ "Maintainer": "R Core Team ", "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 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": [ - "knitr", - "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] (), 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] (), Xiongtao Dai [ctb], Jeroen Ooms [ctb], Tomas Kalibera [ctb], Mikael Jagan [ctb]", - "Maintainer": "Aymeric Stamm ", - "Repository": "P3M" - }, "nnet": { "Package": "nnet", "Version": "7.3-20", @@ -6314,92 +5552,6 @@ "Maintainer": "Lionel Henry ", "Repository": "https://packagemanager.posit.co/cran/latest" }, - "plyr": { - "Package": "plyr", - "Version": "1.8.9", - "Source": "Repository", - "Title": "Tools for Splitting, Applying and Combining Data", - "Authors@R": "person(\"Hadley\", \"Wickham\", , \"hadley@rstudio.com\", role = c(\"aut\", \"cre\"))", - "Description": "A set of tools that solves a common set of problems: you need to break a big problem down into manageable pieces, operate on each piece and then put all the pieces back together. For example, you might want to fit a model to each spatial location or time point in your study, summarise data by panels or collapse high-dimensional arrays to simpler summary statistics. The development of 'plyr' has been generously supported by 'Becton Dickinson'.", - "License": "MIT + file LICENSE", - "URL": "http://had.co.nz/plyr, https://github.com/hadley/plyr", - "BugReports": "https://github.com/hadley/plyr/issues", - "Depends": [ - "R (>= 3.1.0)" - ], - "Imports": [ - "Rcpp (>= 0.11.0)" - ], - "Suggests": [ - "abind", - "covr", - "doParallel", - "foreach", - "iterators", - "itertools", - "tcltk", - "testthat" - ], - "LinkingTo": [ - "Rcpp" - ], - "Encoding": "UTF-8", - "LazyData": "true", - "RoxygenNote": "7.2.3", - "NeedsCompilation": "yes", - "Author": "Hadley Wickham [aut, cre]", - "Maintainer": "Hadley Wickham ", - "Repository": "https://p3m.dev/cran/__linux__/noble/latest" - }, - "posterior": { - "Package": "posterior", - "Version": "1.6.1", - "Source": "Repository", - "Title": "Tools for Working with Posterior Distributions", - "Date": "2025-02-27", - "Authors@R": "c(person(\"Paul-Christian\", \"Bürkner\", email = \"paul.buerkner@gmail.com\", role = c(\"aut\", \"cre\")), person(\"Jonah\", \"Gabry\", email = \"jsg2201@columbia.edu\", role = c(\"aut\")), person(\"Matthew\", \"Kay\", email = \"mjskay@northwestern.edu\", role = c(\"aut\")), person(\"Aki\", \"Vehtari\", email = \"Aki.Vehtari@aalto.fi\", role = c(\"aut\")), person(\"Måns\", \"Magnusson\", role = c(\"ctb\")), person(\"Rok\", \"Češnovar\", role = c(\"ctb\")), person(\"Ben\", \"Lambert\", role = c(\"ctb\")), person(\"Ozan\", \"Adıgüzel\", role = c(\"ctb\")), person(\"Jacob\", \"Socolar\", role = c(\"ctb\")), person(\"Noa\", \"Kallioinen\", role = c(\"ctb\")))", - "Description": "Provides useful tools for both users and developers of packages for fitting Bayesian models or working with output from Bayesian models. The primary goals of the package are to: (a) Efficiently convert between many different useful formats of draws (samples) from posterior or prior distributions. (b) Provide consistent methods for operations commonly performed on draws, for example, subsetting, binding, or mutating draws. (c) Provide various summaries of draws in convenient formats. (d) Provide lightweight implementations of state of the art posterior inference diagnostics. References: Vehtari et al. (2021) .", - "Depends": [ - "R (>= 3.2.0)" - ], - "Imports": [ - "methods", - "abind", - "checkmate", - "rlang (>= 1.0.6)", - "stats", - "tibble (>= 3.1.0)", - "vctrs (>= 0.5.0)", - "tensorA", - "pillar", - "distributional", - "parallel", - "matrixStats" - ], - "Suggests": [ - "testthat (>= 2.1.0)", - "caret (>= 6.0-84)", - "gbm (>= 2.1.8)", - "randomForest (>= 4.6.14)", - "e1071 (>= 1.7-3)", - "dplyr", - "tidyr", - "knitr", - "ggplot2", - "ggdist", - "rmarkdown" - ], - "License": "BSD_3_clause + file LICENSE", - "Encoding": "UTF-8", - "URL": "https://mc-stan.org/posterior/, https://discourse.mc-stan.org/", - "BugReports": "https://github.com/stan-dev/posterior/issues", - "RoxygenNote": "7.3.2", - "VignetteBuilder": "knitr", - "NeedsCompilation": "no", - "Author": "Paul-Christian Bürkner [aut, cre], Jonah Gabry [aut], Matthew Kay [aut], Aki Vehtari [aut], Måns Magnusson [ctb], Rok Češnovar [ctb], Ben Lambert [ctb], Ozan Adıgüzel [ctb], Jacob Socolar [ctb], Noa Kallioinen [ctb]", - "Maintainer": "Paul-Christian Bürkner ", - "Repository": "P3M" - }, "praise": { "Package": "praise", "Version": "1.0.0", @@ -6897,40 +6049,6 @@ "Author": "Thomas Lin Pedersen [cre, aut] (ORCID: ), Maxim Shemanarev [aut, cph] (Author of AGG), Tony Juricic [ctb, cph] (Contributor to AGG), Milan Marusinec [ctb, cph] (Contributor to AGG), Spencer Garrett [ctb] (Contributor to AGG), Posit Software, PBC [cph, fnd] (ROR: )", "Repository": "https://p3m.dev/cran/__linux__/noble/latest" }, - "ranger": { - "Package": "ranger", - "Version": "0.18.0", - "Source": "Repository", - "Type": "Package", - "Title": "A Fast Implementation of Random Forests", - "Date": "2026-01-15", - "Authors@R": "c( person(\"Marvin N.\", \"Wright\", email = \"cran@wrig.de\", role = c(\"aut\", \"cre\")), person(\"Stefan\", \"Wager\", role = \"ctb\"), person(\"Philipp\", \"Probst\", role = \"ctb\"))", - "Description": "A fast implementation of Random Forests, particularly suited for high dimensional data. Ensembles of classification, regression, survival and probability prediction trees are supported. Data from genome-wide association studies can be analyzed efficiently. In addition to data frames, datasets of class 'gwaa.data' (R package 'GenABEL') and 'dgCMatrix' (R package 'Matrix') can be directly analyzed.", - "License": "GPL-3", - "Imports": [ - "Rcpp (>= 0.11.2)", - "Matrix" - ], - "LinkingTo": [ - "Rcpp", - "RcppEigen" - ], - "Depends": [ - "R (>= 3.1)" - ], - "Suggests": [ - "survival", - "testthat" - ], - "Encoding": "UTF-8", - "RoxygenNote": "7.3.3", - "URL": "https://imbs-hl.github.io/ranger/, https://github.com/imbs-hl/ranger", - "BugReports": "https://github.com/imbs-hl/ranger/issues", - "NeedsCompilation": "yes", - "Author": "Marvin N. Wright [aut, cre], Stefan Wager [ctb], Philipp Probst [ctb]", - "Maintainer": "Marvin N. Wright ", - "Repository": "P3M" - }, "rappdirs": { "Package": "rappdirs", "Version": "0.3.4", @@ -6962,34 +6080,6 @@ "Maintainer": "Hadley Wickham ", "Repository": "P3M" }, - "rbibutils": { - "Package": "rbibutils", - "Version": "2.4.1", - "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 = c(ORCID = \"0000-0003-2839-346X\", \"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 . Supports all bibliography formats and character encodings implemented in 'bibutils'.", - "License": "GPL-2", - "URL": "https://geobosh.github.io/rbibutils/ (doc), https://CRAN.R-project.org/package=rbibutils", - "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] (ORCID: , 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 ", - "Repository": "P3M" - }, "rcmdcheck": { "Package": "rcmdcheck", "Version": "1.4.0", @@ -7278,36 +6368,6 @@ "Maintainer": "Max Kuhn ", "Repository": "https://p3m.dev/cran/__linux__/noble/latest" }, - "reformulas": { - "Package": "reformulas", - "Version": "0.4.4", - "Source": "Repository", - "Title": "Machinery for Processing Random Effect Formulas", - "Authors@R": "c( person(given = \"Ben\", family = \"Bolker\", role = c(\"aut\", \"cre\"), email = \"bolker@mcmaster.ca\", comment=c(ORCID=\"0000-0002-2127-0443\")), person(\"Anna\", \"Ly\", role = \"ctb\", comment = c(ORCID = \"0000-0002-0210-0342\")) )", - "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": [ - "lme4", - "tinytest", - "glmmTMB", - "Formula" - ], - "RoxygenNote": "7.3.3", - "Config/testthat/edition": "3", - "NeedsCompilation": "no", - "Author": "Ben Bolker [aut, cre] (ORCID: ), Anna Ly [ctb] (ORCID: )", - "Maintainer": "Ben Bolker ", - "Repository": "P3M" - }, "registry": { "Package": "registry", "Version": "0.5-1", @@ -7526,41 +6586,6 @@ "Maintainer": "Jennifer Bryan ", "Repository": "https://p3m.dev/cran/__linux__/noble/latest" }, - "reshape2": { - "Package": "reshape2", - "Version": "1.4.5", - "Source": "Repository", - "Title": "Flexibly Reshape Data: A Reboot of the Reshape Package", - "Authors@R": "person(\"Hadley\", \"Wickham\", , \"hadley@posit.co\", role = c(\"aut\", \"cre\"))", - "Description": "Flexibly restructure and aggregate data using just two functions: melt and 'dcast' (or 'acast').", - "License": "MIT + file LICENSE", - "URL": "https://github.com/hadley/reshape", - "BugReports": "https://github.com/hadley/reshape/issues", - "Depends": [ - "R (>= 3.1)" - ], - "Imports": [ - "plyr (>= 1.8.1)", - "Rcpp", - "stringr" - ], - "Suggests": [ - "covr", - "lattice", - "testthat (>= 3.0.0)" - ], - "LinkingTo": [ - "Rcpp" - ], - "Config/testthat/edition": "3", - "Encoding": "UTF-8", - "LazyData": "true", - "RoxygenNote": "7.3.3", - "NeedsCompilation": "yes", - "Author": "Hadley Wickham [aut, cre]", - "Maintainer": "Hadley Wickham ", - "Repository": "https://p3m.dev/cran/__linux__/noble/latest" - }, "rlang": { "Package": "rlang", "Version": "1.1.7", @@ -7840,174 +6865,6 @@ "Maintainer": "Hannah Frick ", "Repository": "P3M" }, - "rstan": { - "Package": "rstan", - "Version": "2.32.7", - "Source": "Repository", - "Type": "Package", - "Title": "R Interface to Stan", - "Authors@R": "c(person(\"Jiqiang\", \"Guo\", email = \"guojq28@gmail.com\", role = \"aut\"), person(\"Jonah\", \"Gabry\", email = \"jsg2201@columbia.edu\", role = \"aut\"), person(\"Ben\", \"Goodrich\", email = \"benjamin.goodrich@columbia.edu\", role = c(\"cre\", \"aut\")), person(\"Andrew\", \"Johnson\", email = \"andrew.johnson@arjohnsonau.com\", role = \"aut\"), person(\"Sebastian\", \"Weber\", email = \"sdw.post@waebers.de\", role = \"aut\"), person(\"Hamada S.\", \"Badr\", role = c(\"aut\"), email = \"badr@jhu.edu\", comment = c(ORCID = \"0000-0002-9808-2344\")), person(\"Daniel\", \"Lee\", role = \"ctb\"), person(\"Krzysztof\", \"Sakrejda\", role = \"ctb\"), person(\"Modrak\", \"Martin\", role = \"ctb\"), person(\"Trustees of\", \"Columbia University\", role = \"cph\"), person(\"Oleg\", \"Sklyar\", role = \"cph\", comment = \"R/cxxfunplus.R\"), person(\"The R\", \"Core Team\", role = \"cph\", comment = \"R/pairs.R, R/dynGet.R\"), person(\"Jens\", \"Oehlschlaegel-Akiyoshi\", role = \"cph\", comment = \"R/pairs.R\"), person(\"John\", \"Maddock\", role = \"cph\", comment = \"gamma.hpp\"), person(\"Paul\", \"Bristow\", role = \"cph\", comment = \"gamma.hpp\"), person(\"Nikhar\", \"Agrawal\", role = \"cph\", comment = \"gamma.hpp\"), person(\"Christopher\", \"Kormanyos\", role = \"cph\", comment = \"gamma.hpp\"), person(\"Bronder\", \"Steve\", role = \"ctb\"))", - "Description": "User-facing R functions are provided to parse, compile, test, estimate, and analyze Stan models by accessing the header-only Stan library provided by the 'StanHeaders' package. The Stan project develops a probabilistic programming language that implements full Bayesian statistical inference via Markov Chain Monte Carlo, rough Bayesian inference via 'variational' approximation, and (optionally penalized) maximum likelihood estimation via optimization. In all three cases, automatic differentiation is used to quickly and accurately evaluate gradients without burdening the user with the need to derive the partial derivatives.", - "License": "GPL (>= 3)", - "NeedsCompilation": "yes", - "Imports": [ - "methods", - "stats4", - "inline (>= 0.3.19)", - "gridExtra (>= 2.3)", - "Rcpp (>= 1.0.7)", - "RcppParallel (>= 5.1.4)", - "loo (>= 2.4.1)", - "pkgbuild (>= 1.2.0)", - "QuickJSR", - "ggplot2 (>= 3.3.5)" - ], - "Depends": [ - "R (>= 3.4.0)", - "StanHeaders (>= 2.32.0)" - ], - "LinkingTo": [ - "Rcpp (>= 1.0.7)", - "RcppEigen (>= 0.3.4.0.0)", - "BH (>= 1.75.0-0)", - "StanHeaders (>= 2.32.0)", - "RcppParallel (>= 5.1.4)" - ], - "Suggests": [ - "testthat (>= 3.0.4)", - "parallel", - "KernSmooth", - "shinystan", - "bayesplot", - "rmarkdown", - "rstantools", - "rstudioapi", - "Matrix", - "knitr", - "coda", - "V8" - ], - "URL": "https://mc-stan.org/rstan/, https://discourse.mc-stan.org", - "BugReports": "https://github.com/stan-dev/rstan/issues/", - "VignetteBuilder": "knitr", - "SystemRequirements": "GNU make, pandoc", - "Encoding": "UTF-8", - "RoxygenNote": "7.1.2", - "Config/testthat/edition": "3", - "Author": "Jiqiang Guo [aut], Jonah Gabry [aut], Ben Goodrich [cre, aut], Andrew Johnson [aut], Sebastian Weber [aut], Hamada S. Badr [aut] (), Daniel Lee [ctb], Krzysztof Sakrejda [ctb], Modrak Martin [ctb], Trustees of Columbia University [cph], Oleg Sklyar [cph] (R/cxxfunplus.R), The R Core Team [cph] (R/pairs.R, R/dynGet.R), Jens Oehlschlaegel-Akiyoshi [cph] (R/pairs.R), John Maddock [cph] (gamma.hpp), Paul Bristow [cph] (gamma.hpp), Nikhar Agrawal [cph] (gamma.hpp), Christopher Kormanyos [cph] (gamma.hpp), Bronder Steve [ctb]", - "Maintainer": "Ben Goodrich ", - "Repository": "P3M" - }, - "rstanarm": { - "Package": "rstanarm", - "Version": "2.32.2", - "Source": "Repository", - "Type": "Package", - "Title": "Bayesian Applied Regression Modeling via Stan", - "Date": "2025-09-29", - "Encoding": "UTF-8", - "Authors@R": "c(person(\"Jonah\", \"Gabry\", email = \"jsg2201@columbia.edu\", role = \"aut\"), person(\"Imad\", \"Ali\", role = \"ctb\"), person(\"Sam\", \"Brilleman\", role = \"ctb\"), person(given = \"Jacqueline Buros\", family = \"Novik\", role = \"ctb\", comment = \"R/stan_jm.R\"), person(\"AstraZeneca\", role = \"ctb\", comment = \"R/stan_jm.R\"), person(\"Trustees of\", \"Columbia University\", role = \"cph\"), person(\"Simon\", \"Wood\", role = \"cph\", comment = \"R/stan_gamm4.R\"), person(\"R Core\", \"Deveopment Team\", role = \"cph\", comment = \"R/stan_aov.R\"), person(\"Douglas\", \"Bates\", role = \"cph\", comment = \"R/pp_data.R\"), person(\"Martin\", \"Maechler\", role = \"cph\", comment = \"R/pp_data.R\"), person(\"Ben\", \"Bolker\", role = \"cph\", comment = \"R/pp_data.R\"), person(\"Steve\", \"Walker\", role = \"cph\", comment = \"R/pp_data.R\"), person(\"Brian\", \"Ripley\", role = \"cph\", comment = \"R/stan_aov.R, R/stan_polr.R\"), person(\"William\", \"Venables\", role = \"cph\", comment = \"R/stan_polr.R\"), person(\"Paul-Christian\", \"Burkner\", email = \"paul.buerkner@gmail.com\", role = \"cph\", comment = \"R/misc.R\"), person(\"Ben\", \"Goodrich\", email = \"benjamin.goodrich@columbia.edu\", role = c(\"cre\", \"aut\")))", - "Description": "Estimates previously compiled regression models using the 'rstan' package, which provides the R interface to the Stan C++ library for Bayesian estimation. 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The interface is powered by the 'Shiny' web application framework from 'RStudio' and works with the output of MCMC programs written in any programming language (and has extended functionality for 'Stan' models fit using the 'rstan' and 'rstanarm' packages).", - "URL": "https://mc-stan.org/shinystan/, https://discourse.mc-stan.org", - "BugReports": "https://github.com/stan-dev/shinystan/issues/", - "License": "GPL (>= 3)", - "Depends": [ - "R (>= 3.1.0)", - "shiny (>= 1.0.3)" - ], - "Imports": [ - "bayesplot (>= 1.5.0)", - "colourpicker", - "DT (>= 0.2)", - "dygraphs (>= 1.1.1.2)", - "ggplot2 (>= 3.4.0)", - "gridExtra", - "gtools", - "markdown (>= 0.7.4)", - "methods", - "reshape2", - "rstan (>= 2.17.1)", - "stats", - "shinyjs (>= 0.6.0)", - "shinythemes (>= 1.0.1)", - "threejs (>= 0.2.1)", - "utils", - "xtable", - "xts (>= 0.9-7)" - ], - "Suggests": [ - "cmdstanr (>= 0.9.0)", - "coda", - "knitr (>= 1.9)", - "posterior (>= 1.0.0)", - "rmarkdown (>= 0.8.1)", - "rsconnect (>= 0.4.2)", - "rstanarm (>= 2.17.4)", - "testthat" - ], - "Additional_repositories": "https://stan-dev.r-universe.dev/", - "LazyData": "true", - "Encoding": "UTF-8", - "VignetteBuilder": "knitr", - "RoxygenNote": "7.3.3", - "NeedsCompilation": "no", - "Author": "Jonah Gabry [aut, cre], Duco Veen [aut], Stan Development Team [ctb], Michael Andreae [ctb], Michael Betancourt [ctb], Bob Carpenter [ctb], Yuanjun Gao [ctb], Andrew Gelman [ctb], Ben Goodrich [ctb], Daniel Lee [ctb], Dongying Song [ctb], Rob Trangucci [ctb], Visruth Srimath Kandali [ctb]", - "Repository": "P3M" - }, - "shinythemes": { - "Package": "shinythemes", - "Version": "1.2.0", - "Source": "Repository", - "Title": "Themes for Shiny", - "Authors@R": "c( person(\"Winston\", \"Chang\", role = c(\"aut\", \"cre\"), email = \"winston@rstudio.com\"), person(family = \"RStudio\", role = \"cph\"), person(\"Thomas\", \"Park\", role = c(\"ctb\", \"cph\"), comment = \"Bootswatch themes\"), person(\"Lukasz\", \"Dziedzic\", role = c(\"ctb\", \"cph\"), comment = \"Lato font\"), person(\"Nathan\", \"Willis\", role = c(\"ctb\", \"cph\"), comment = \"News Cycle font\"), person(family = \"Google Corporation\", role = c(\"ctb\", \"cph\"), comment = \"Open Sans and Roboto fonts\"), person(\"Matt\", \"McInerney\", role = c(\"ctb\", \"cph\"), comment = \"Raleway font\"), person(family = \"Adobe Systems Incorporated\", role = c(\"ctb\", \"cph\"), comment = \"Source Sans Pro font\"), person(family = \"Canonical Ltd\", role = c(\"ctb\", \"cph\"), comment = \"Ubuntu font\") )", - "Description": "Themes for use with Shiny. Includes several Bootstrap themes from , which are packaged for use with Shiny applications.", - "Depends": [ - "R (>= 3.0.0)" - ], - "Imports": [ - "shiny (>= 0.11)" - ], - "URL": "https://rstudio.github.io/shinythemes/", - "License": "GPL-3 | file LICENSE", - "RoxygenNote": "7.1.1", - "NeedsCompilation": "no", - "Author": "Winston Chang [aut, cre], RStudio [cph], Thomas Park [ctb, cph] (Bootswatch themes), Lukasz Dziedzic [ctb, cph] (Lato font), Nathan Willis [ctb, cph] (News Cycle font), Google Corporation [ctb, cph] (Open Sans and Roboto fonts), Matt McInerney [ctb, cph] (Raleway font), Adobe Systems Incorporated [ctb, cph] (Source Sans Pro font), Canonical Ltd [ctb, cph] (Ubuntu font)", - "Maintainer": "Winston Chang ", - "Repository": "P3M", - "Encoding": "UTF-8" - }, "slider": { "Package": "slider", "Version": "0.3.3", @@ -8676,6 +7422,33 @@ "Maintainer": "Emil Hvitfeldt ", "Repository": "P3M" }, + "spelling": { + "Package": "spelling", + "Version": "2.3.2", + "Source": "Repository", + "Title": "Tools for Spell Checking in R", + "Authors@R": "c( person(\"Jeroen\", \"Ooms\", , \"jeroenooms@gmail.com\", role = c(\"cre\", \"aut\"), comment = c(ORCID = \"0000-0002-4035-0289\")), person(\"Jim\", \"Hester\", , \"james.hester@rstudio.com\", role = \"aut\"))", + "Description": "Spell checking common document formats including latex, markdown, manual pages, and description files. Includes utilities to automate checking of documentation and vignettes as a unit test during 'R CMD check'. Both British and American English are supported out of the box and other languages can be added. In addition, packages may define a 'wordlist' to allow custom terminology without having to abuse punctuation.", + "License": "MIT + file LICENSE", + "Encoding": "UTF-8", + "URL": "https://ropensci.r-universe.dev/spelling https://docs.ropensci.org/spelling/", + "BugReports": "https://github.com/ropensci/spelling/issues", + "Imports": [ + "commonmark", + "xml2", + "hunspell (>= 3.0)", + "knitr" + ], + "Suggests": [ + "pdftools" + ], + "RoxygenNote": "7.3.1", + "Language": "en-GB", + "NeedsCompilation": "no", + "Author": "Jeroen Ooms [cre, aut] (ORCID: ), Jim Hester [aut]", + "Maintainer": "Jeroen Ooms ", + "Repository": "CRAN" + }, "stringi": { "Package": "stringi", "Version": "1.8.7", @@ -8751,6 +7524,55 @@ "Maintainer": "Hadley Wickham ", "Repository": "https://p3m.dev/cran/__linux__/noble/latest" }, + "styler": { + "Package": "styler", + "Version": "1.11.0", + "Source": "Repository", + "Type": "Package", + "Title": "Non-Invasive Pretty Printing of R Code", + "Authors@R": "c(person(given = \"Kirill\", family = \"Müller\", role = \"aut\", email = \"kirill@cynkra.com\", comment = c(ORCID = \"0000-0002-1416-3412\")), person(given = \"Lorenz\", family = \"Walthert\", role = c(\"cre\", \"aut\"), email = \"lorenz.walthert@icloud.com\"), person(given = \"Indrajeet\", family = \"Patil\", role = \"aut\", email = \"patilindrajeet.science@gmail.com\", comment = c(ORCID = \"0000-0003-1995-6531\")))", + "Description": "Pretty-prints R code without changing the user's formatting intent.", + "License": "MIT + file LICENSE", + "URL": "https://github.com/r-lib/styler, https://styler.r-lib.org", + "BugReports": "https://github.com/r-lib/styler/issues", + "Depends": [ + "R (>= 4.0.0)" + ], + "Imports": [ + "cli (>= 3.1.1)", + "magrittr (>= 2.0.0)", + "purrr (>= 1.0.2)", + "R.cache (>= 0.15.0)", + "rlang (>= 1.0.0)", + "rprojroot (>= 1.1)", + "tools", + "vctrs (>= 0.4.1)", + "withr (>= 2.3.0)" + ], + "Suggests": [ + "data.tree (>= 0.1.6)", + "digest", + "here", + "knitr", + "prettycode", + "rmarkdown", + "roxygen2", + "rstudioapi (>= 0.7)", + "tibble (>= 1.4.2)", + "testthat (>= 3.2.1)" + ], + "VignetteBuilder": "knitr", + "Encoding": "UTF-8", + "RoxygenNote": "7.3.3", + "Language": "en-US", + "Config/testthat/edition": "3", + "Config/testthat/parallel": "true", + "Collate": "'addins.R' 'communicate.R' 'compat-dplyr.R' 'compat-tidyr.R' 'detect-alignment-utils.R' 'detect-alignment.R' 'environments.R' 'expr-is.R' 'indent.R' 'initialize.R' 'io.R' 'nest.R' 'nested-to-tree.R' 'options.R' 'parse.R' 'reindent.R' 'token-define.R' 'relevel.R' 'roxygen-examples-add-remove.R' 'roxygen-examples-find.R' 'roxygen-examples-parse.R' 'roxygen-examples.R' 'rules-indention.R' 'rules-line-breaks.R' 'rules-spaces.R' 'rules-tokens.R' 'serialize.R' 'set-assert-args.R' 'style-guides.R' 'styler-package.R' 'stylerignore.R' 'testing-mocks.R' 'testing-public-api.R' 'ui-caching.R' 'testing.R' 'token-create.R' 'transform-block.R' 'transform-code.R' 'transform-files.R' 'ui-styling.R' 'unindent.R' 'utils-cache.R' 'utils-files.R' 'utils-navigate-nest.R' 'utils-strings.R' 'utils.R' 'vertical.R' 'visit.R' 'zzz.R'", + "NeedsCompilation": "no", + "Author": "Kirill Müller [aut] (ORCID: ), Lorenz Walthert [cre, aut], Indrajeet Patil [aut] (ORCID: )", + "Maintainer": "Lorenz Walthert ", + "Repository": "CRAN" + }, "survival": { "Package": "survival", "Version": "3.8-3", @@ -9021,25 +7843,6 @@ "Maintainer": "William Michael Landau ", "Repository": "P3M" }, - "tensorA": { - "Package": "tensorA", - "Version": "0.36.2.1", - "Source": "Repository", - "Date": "2020-11-13", - "Title": "Advanced Tensor Arithmetic with Named Indices", - "Author": "K. Gerald van den Boogaart ", - "Maintainer": "K. Gerald van den Boogaart ", - "Depends": [ - "R (>= 2.2.0)", - "stats" - ], - "Description": "Provides convenience functions for advanced linear algebra with tensors and computation with data sets of tensors on a higher level abstraction. It includes Einstein and Riemann summing conventions, dragging, co- and contravariate indices, parallel computations on sequences of tensors.", - "License": "GPL (>= 2)", - "URL": "http://www.stat.boogaart.de/tensorA/", - "NeedsCompilation": "yes", - "Repository": "P3M", - "Encoding": "UTF-8" - }, "testthat": { "Package": "testthat", "Version": "3.3.2", @@ -9193,43 +7996,6 @@ "Maintainer": "Emil Hvitfeldt ", "Repository": "P3M" }, - "threejs": { - "Package": "threejs", - "Version": "0.3.4", - "Source": "Repository", - "Type": "Package", - "Title": "Interactive 3D Scatter Plots, Networks and Globes", - "Description": "Create interactive 3D scatter plots, network plots, and globes using the 'three.js' visualization library ().", - "Date": "2025-04-19", - "Authors@R": "c( person(\"B. W.\", \"Lewis\", role=c(\"aut\",\"cre\",\"cph\"), email=\"blewis@illposed.net\"), person(given=\"Three.js authors\", role=\"cph\", comment=\"three.js library\"), person(given=\"jQuery Foundation\", role=\"cph\", comment=\"jQuery library\"), person(\"Alexey\", \"Stukalov\", role=(\"ctb\"), email=\"astukalov@gmail.com\"), person(\"Yihui\",\"Xie\", role=(\"ctb\"), email=\"xie@yihui.name\"), person(\"Andreas\", \"Briese\", role=(\"ctb\"), email=\"ab@edutoolbox.de\"), person(\"B.\", \"Thieurmel\", role=(\"ctb\"), email=\"bthieurmel@gmail.com\") )", - "URL": "https://bwlewis.github.io/rthreejs/", - "BugReports": "https://github.com/bwlewis/rthreejs/issues", - "License": "MIT + file LICENSE", - "Depends": [ - "R (>= 3.0.0)", - "igraph (>= 1.0.0)" - ], - "Imports": [ - "htmlwidgets (>= 0.3.2)", - "base64enc", - "crosstalk", - "methods", - "stats" - ], - "Suggests": [ - "maps" - ], - "Enhances": [ - "knitr", - "shiny" - ], - "Encoding": "UTF-8", - "RoxygenNote": "7.3.2", - "NeedsCompilation": "no", - "Author": "B. W. Lewis [aut, cre, cph], Three.js authors [cph] (three.js library), jQuery Foundation [cph] (jQuery library), Alexey Stukalov [ctb], Yihui Xie [ctb], Andreas Briese [ctb], B. Thieurmel [ctb]", - "Maintainer": "B. W. Lewis ", - "Repository": "P3M" - }, "tibble": { "Package": "tibble", "Version": "3.3.1", @@ -9350,57 +8116,6 @@ "Maintainer": "Max Kuhn ", "Repository": "https://p3m.dev/cran/__linux__/noble/latest" }, - "tidyposterior": { - "Package": "tidyposterior", - "Version": "1.0.2", - "Source": "Repository", - "Title": "Bayesian Analysis to Compare Models using Resampling Statistics", - "Authors@R": "c( person(\"Max\", \"Kuhn\", , \"max@posit.co\", role = c(\"aut\", \"cre\"), comment = c(ORCID = \"0000-0003-2402-136X\")), person(\"Posit Software, PBC\", role = c(\"cph\", \"fnd\"), comment = c(ROR = \"03wc8by49\")) )", - "Description": "Bayesian analysis used here to answer the question: \"when looking at resampling results, are the differences between models 'real'?\" To answer this, a model can be created were the performance statistic is the resampling statistics (e.g. accuracy or RMSE). These values are explained by the model types. In doing this, we can get parameter estimates for each model's affect on performance and make statistical (and practical) comparisons between models. The methods included here are similar to Benavoli et al (2017) .", - "License": "MIT + file LICENSE", - "URL": "https://tidyposterior.tidymodels.org, https://github.com/tidymodels/tidyposterior", - "BugReports": "https://github.com/tidymodels/tidyposterior/issues", - "Depends": [ - "R (>= 4.1)" - ], - "Imports": [ - "dplyr (> 1.0.0)", - "generics", - "ggplot2 (>= 3.5.2)", - "purrr", - "rlang", - "rsample (>= 0.0.2)", - "rstanarm (>= 2.21.1)", - "stats", - "tibble", - "tidyr (>= 0.7.1)", - "tune (>= 0.2.0)", - "utils", - "vctrs (>= 0.3.0)", - "workflowsets" - ], - "Suggests": [ - "covr", - "knitr", - "parsnip", - "rmarkdown", - "splines2", - "testthat (>= 3.0.0)", - "yardstick" - ], - "VignetteBuilder": "knitr", - "ByteCompile": "true", - "Config/Needs/website": "tidymodels, tidyverse/tidytemplate", - "Config/testthat/edition": "3", - "Config/usethis/last-upkeep": "2025-04-27", - "Encoding": "UTF-8", - "LazyData": "true", - "RoxygenNote": "7.3.2", - "NeedsCompilation": "no", - "Author": "Max Kuhn [aut, cre] (ORCID: ), Posit Software, PBC [cph, fnd] (ROR: )", - "Maintainer": "Max Kuhn ", - "Repository": "P3M" - }, "tidyr": { "Package": "tidyr", "Version": "1.3.2", @@ -10448,41 +9163,6 @@ "Author": "David B. Dahl [aut], David Scott [aut, cre], Charles Roosen [aut], Arni Magnusson [aut], Jonathan Swinton [aut], Ajay Shah [ctb], Arne Henningsen [ctb], Benno Puetz [ctb], Bernhard Pfaff [ctb], Claudio Agostinelli [ctb], Claudius Loehnert [ctb], David Mitchell [ctb], David Whiting [ctb], Fernando da Rosa [ctb], Guido Gay [ctb], Guido Schulz [ctb], Ian Fellows [ctb], Jeff Laake [ctb], John Walker [ctb], Jun Yan [ctb], Liviu Andronic [ctb], Markus Loecher [ctb], Martin Gubri [ctb], Matthieu Stigler [ctb], Robert Castelo [ctb], Seth Falcon [ctb], Stefan Edwards [ctb], Sven Garbade [ctb], Uwe Ligges [ctb]", "Encoding": "UTF-8" }, - "xts": { - "Package": "xts", - "Version": "0.14.1", - "Source": "Repository", - "Type": "Package", - "Title": "eXtensible Time Series", - "Authors@R": "c( person(given=c(\"Jeffrey\",\"A.\"), family=\"Ryan\", role=c(\"aut\",\"cph\")), person(given=c(\"Joshua\",\"M.\"), family=\"Ulrich\", role=c(\"cre\",\"aut\"), email=\"josh.m.ulrich@gmail.com\"), person(given=\"Ross\", family=\"Bennett\", role=\"ctb\"), person(given=\"Corwin\", family=\"Joy\", role=\"ctb\") )", - "Depends": [ - "R (>= 3.6.0)", - "zoo (>= 1.7-12)" - ], - "Imports": [ - "methods" - ], - "LinkingTo": [ - "zoo" - ], - "Suggests": [ - "timeSeries", - "timeDate", - "tseries", - "chron", - "tinytest" - ], - "LazyLoad": "yes", - "Description": "Provide for uniform handling of R's different time-based data classes by extending zoo, maximizing native format information preservation and allowing for user level customization and extension, while simplifying cross-class interoperability.", - "License": "GPL (>= 2)", - "URL": "https://joshuaulrich.github.io/xts/, https://github.com/joshuaulrich/xts", - "BugReports": "https://github.com/joshuaulrich/xts/issues", - "Encoding": "UTF-8", - "NeedsCompilation": "yes", - "Author": "Jeffrey A. Ryan [aut, cph], Joshua M. Ulrich [cre, aut], Ross Bennett [ctb], Corwin Joy [ctb]", - "Maintainer": "Joshua M. Ulrich ", - "Repository": "P3M" - }, "yaml": { "Package": "yaml", "Version": "2.3.12", @@ -10587,48 +9267,6 @@ "Author": "Gábor Csárdi [aut, cre], Kuba Podgórski [ctb], Rich Geldreich [ctb], Posit Software, PBC [cph, fnd] (ROR: )", "Maintainer": "Gábor Csárdi ", "Repository": "https://packagemanager.posit.co/cran/latest" - }, - "zoo": { - "Package": "zoo", - "Version": "1.8-15", - "Source": "Repository", - "Date": "2025-12-15", - "Title": "S3 Infrastructure for Regular and Irregular Time Series (Z's Ordered Observations)", - "Authors@R": "c(person(given = \"Achim\", family = \"Zeileis\", role = c(\"aut\", \"cre\"), email = \"Achim.Zeileis@R-project.org\", comment = c(ORCID = \"0000-0003-0918-3766\")), person(given = \"Gabor\", family = \"Grothendieck\", role = \"aut\", email = \"ggrothendieck@gmail.com\"), person(given = c(\"Jeffrey\", \"A.\"), family = \"Ryan\", role = \"aut\", email = \"jeff.a.ryan@gmail.com\"), person(given = c(\"Joshua\", \"M.\"), family = \"Ulrich\", role = \"ctb\", email = \"josh.m.ulrich@gmail.com\"), person(given = \"Felix\", family = \"Andrews\", role = \"ctb\", email = \"felix@nfrac.org\"))", - "Description": "An S3 class with methods for totally ordered indexed observations. It is particularly aimed at irregular time series of numeric vectors/matrices and factors. zoo's key design goals are independence of a particular index/date/time class and consistency with ts and base R by providing methods to extend standard generics.", - "Depends": [ - "R (>= 3.1.0)", - "stats" - ], - "Suggests": [ - "AER", - "coda", - "chron", - "ggplot2 (>= 3.5.0)", - "mondate", - "scales", - "stinepack", - "strucchange", - "timeDate", - "timeSeries", - "tinyplot", - "tis", - "tseries", - "xts" - ], - "Imports": [ - "utils", - "graphics", - "grDevices", - "lattice (>= 0.20-27)" - ], - "License": "GPL-2 | GPL-3", - "URL": "https://zoo.R-Forge.R-project.org/", - "NeedsCompilation": "yes", - "Author": "Achim Zeileis [aut, cre] (ORCID: ), Gabor Grothendieck [aut], Jeffrey A. Ryan [aut], Joshua M. Ulrich [ctb], Felix Andrews [ctb]", - "Maintainer": "Achim Zeileis ", - "Repository": "P3M", - "Encoding": "UTF-8" } } }