{ "_id": "6a1ef83eb401979e73417c13", "Package": "slouch", "Type": "Package", "Title": "Stochastic Linear Ornstein-Uhlenbeck Comparative Hypotheses", "Version": "2.1.5", "Date": "2024-02-15", "Authors@R": "c(person(\"Bj\\u00F8rn Tore\", \"Kopperud\", role =c(\"aut\", \"cre\"), email = \"kopperud@protonmail.com\"),\nperson(\"Jason\", \"Pienaar\", role = c(\"aut\")),\nperson(\"Kjetil Lysne\", \"Voje\", role = c(\"aut\")),\nperson(\"Steven Hecht\", \"Orzack\", role = c(\"aut\")),\nperson(\"Thomas F.\", \"Hansen\", role = c(\"aut\")),\nperson(\"Mark\", \"Grabowski\", role = c(\"ctb\")))", "Description": "An implementation of a phylogenetic comparative method. It\ncan fit univariate among-species Ornstein-Uhlenbeck models of\nphenotypic trait evolution, where the trait evolves towards a\nprimary optimum. The optimum can be modelled as a single\nparameter, as multiple discrete regimes on the phylogenetic\ntree, and/or with continuous covariates. See also Hansen (1997)\n, Butler & King (2004)\n, Hansen et al. (2008)\n.", "License": "GPL-2", "LazyData": "FALSE", "ByteCompile": "FALSE", "RoxygenNote": "7.2.3", "URL": "https://github.com/kopperud/slouch", "BugReports": "https://github.com/kopperud/slouch/issues", "VignetteBuilder": "knitr", "Encoding": "UTF-8", "Repository": "https://kopperud.r-universe.dev", "Date/Publication": "2024-02-15 13:42:29 UTC", "RemoteUrl": "https://github.com/kopperud/slouch", "RemoteRef": "HEAD", "RemoteSha": "0354962bb8dee5802ce3bdce8c52bbc59d9a6d07", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-19 06:04:12 UTC", "User": "root" }, "Author": "Bjørn Tore Kopperud [aut, cre],\nJason Pienaar [aut],\nKjetil Lysne Voje [aut],\nSteven Hecht Orzack [aut],\nThomas F. Hansen [aut],\nMark Grabowski [ctb]", "Maintainer": "Bjørn Tore Kopperud ", "MD5sum": "8938fe9f11818f0e64d51a7787f08a81", "_user": "kopperud", "_type": "src", "_file": "slouch_2.1.5.tar.gz", "_fileid": "12e35cbed273f5f290b8a986d26f853914257f47dc388b9b5096c11d2f6d23f7", "_filesize": 934752, "_sha256": "12e35cbed273f5f290b8a986d26f853914257f47dc388b9b5096c11d2f6d23f7", "_created": "2026-05-19T06:04:12.000Z", "_published": "2026-06-02T15:35:26.896Z", "_distro": "noble", "_jobs": [ { "job": 79109665306, "time": 134, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "7076046443" }, { "job": 79109665547, "time": 116, "config": "linux-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "7076042339" }, { "job": 79109665404, "time": 192, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "7076052737" }, { "job": 79109665906, "time": 184, "config": "macos-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "7076050482" }, { "job": 79109664073, "time": 179, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7076015009" }, { "job": 79109664121, "time": 100, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7362435984" }, { "job": 79109665818, "time": 102, "config": "windows-devel", "r": "4.7.0", "check": "OK", "artifact": "7076039654" }, { "job": 79109666625, "time": 76, "config": "windows-oldrel", "r": "4.5.3", "check": "OK", "artifact": "7076033323" }, { "job": 79109665590, "time": 108, "config": "windows-release", "r": "4.6.0", "check": "OK", "artifact": "7076040580" } ], "_buildurl": "https://github.com/r-universe/kopperud/actions/runs/26079333960", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/kopperud/slouch", "_commit": { "id": "0354962bb8dee5802ce3bdce8c52bbc59d9a6d07", "author": "Bjorn Tore Kopperud ", "committer": "Bjorn Tore Kopperud ", "message": "cran message\n", "time": 1708004549 }, "_maintainer": { "name": "Bjørn Tore Kopperud", "email": "kopperud@protonmail.com", "login": "kopperud", "description": "", "uuid": 18629226 }, "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 3.0.0", "role": "Depends" }, { "package": "base", "role": "Depends" }, { "package": "stats", "role": "Depends" }, { "package": "crayon", "role": "Imports" }, { "package": "parallel", "role": "Imports" }, { "package": "ape", "role": "Imports" }, { "package": "memoise", "role": "Imports" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "bookdown", "role": "Suggests" }, { "package": "testthat", "role": "Suggests" } ], "_owner": "kopperud", "_selfowned": true, "_usedby": 0, "_updates": [], "_tags": [], "_stars": 2, "_contributors": [ { "user": "kopperud", "count": 171, "uuid": 18629226 } ], "_userbio": { "uuid": 18629226, "type": "user", "name": "Bjørn Tore Kopperud" }, "_downloads": { "count": 204, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/slouch" }, "_devurl": "https://github.com/kopperud/slouch", "_searchresults": 40, "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/NEWS.html", "extra/NEWS.txt", "extra/readme.html", "extra/readme.md", "extra/slouch.html", "manual.pdf" ], "_homeurl": "https://github.com/kopperud/slouch", "_realowner": "kopperud", "_cranurl": true, "_releases": [ { "version": "2.1.0", "date": "2018-10-12" }, { "version": "2.1.1", "date": "2018-10-26" }, { "version": "2.1.2", "date": "2019-04-08" }, { "version": "2.1.4", "date": "2020-02-21" }, { "version": "2.1.5", "date": "2024-02-15" } ], "_exports": [ "brown.fit", "hillclimbplot", "lseq", "regimeplot", "slouch.fit" ], "_datasets": [ { "name": "artiodactyla", "title": "Artiodactyla Phylogeny", "object": "artiodactyla", "file": "artiodactyla.rda", "class": [ "phylo" ], "fields": [], "table": false, "tojson": false }, { "name": "neocortex", "title": "Artiodactyl brain data", "object": "neocortex", "file": "neocortex.rda", "class": [ "data.frame" ], "fields": [ "species", "brain_mass_g_log_mean", "brain_se_squared", "n_brain", "body_mass_g_log_mean", "body_se_squared", "n_body", "neocortex_area_mm2_log_mean", "neocortex_se_squared", "n_neocortex", "diet" ], "rows": 43, "table": true, "tojson": true } ], "_help": [ { "page": "slouch-package", "title": "SLOUCH: Stochastic Linear Ornstein Uhlenbeck Comparative Hypotheses", "topics": [ "slouch-package", "slouch" ] }, { "page": "artiodactyla", "title": "Artiodactyla Phylogeny", "topics": [ "artiodactyla" ] }, { "page": "brown.fit", "title": "Function to fit Brownian-motion models of trait evolution", "topics": [ "brown.fit" ] }, { "page": "hillclimbplot", "title": "Plot the hillclimber trajectory", "topics": [ "hillclimbplot", "hillclimbplot.slouch" ] }, { "page": "logLik.slouch", "title": "Extract Log-Likelihood", "topics": [ "logLik.slouch" ] }, { "page": "lseq", "title": "Logarithmically spaced sequence", "topics": [ "lseq" ] }, { "page": "neocortex", "title": "Artiodactyl brain data", "topics": [ "neocortex" ] }, { "page": "plot.slouch", "title": "Plot Grid Search", "topics": [ "plot.slouch" ] }, { "page": "print.slouch", "title": "Print, minimalist output", "topics": [ "print.slouch" ] }, { "page": "regimeplot", "title": "Plot the internal regimes for a given fitted model", "topics": [ "regimeplot", "regimeplot.slouch" ] }, { "page": "slouch.fit", "title": "Function to fit Ornstein-Uhlenbeck models of trait evolution", "topics": [ "slouch.fit" ] }, { "page": "summary.slouch", "title": "Model Summary", "topics": [ "summary.slouch" ] } ], "_readme": "https://github.com/kopperud/slouch/raw/HEAD/README.md", "_rundeps": [ "ape", "cachem", "crayon", "digest", "fastmap", "lattice", "memoise", "nlme", "Rcpp", "rlang" ], "_vignettes": [ { "source": "examples.Rmd", "filename": "examples.html", "title": "Examples", "engine": "knitr::rmarkdown", "headings": [ "Installation & example data", "Phylogenetic effect", "Interpreting the parameters", "Adding predictors and testing for phylogenetic inertia", "Continuous random predictor", "Measurement variance in the ruminant neocortex example:", "Estimating the intercept", "Multiple optima & phylo-format", "Direct effect predictors", "Brownian motion", "Univariate, zero-trend", "Regime-dependent trends", "Trend as a linear function", "Measurement error and bias-correction", "Grid search", "References" ], "created": "2018-10-02 09:15:06", "modified": "2020-02-14 14:20:23", "commits": 7 } ], "_score": 4.6020599913279625, "_indexed": true, "_nocasepkg": "slouch", "_universes": [ "kopperud" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "2.1.5", "date": "2026-05-19T06:06:22.000Z", "distro": "noble", "commit": "0354962bb8dee5802ce3bdce8c52bbc59d9a6d07", "fileid": "b540aa4fe67686f3fac7ce780af300ce97a54a99715c917b29f444aa8bfdcc2f", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/kopperud/actions/runs/26079333960" }, { "r": "4.6.0", "os": "linux", "version": "2.1.5", "date": "2026-05-19T06:06:06.000Z", "distro": "noble", "commit": "0354962bb8dee5802ce3bdce8c52bbc59d9a6d07", "fileid": "1ce1737031e5a5469038579a022f3cc9422c8983989c0024907f3197f44841f1", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/kopperud/actions/runs/26079333960" }, { "r": "4.5.3", "os": "mac", "version": "2.1.5", "date": "2026-05-19T06:06:51.000Z", "commit": "0354962bb8dee5802ce3bdce8c52bbc59d9a6d07", "fileid": "8452264f26e2005a12fcad4acce99b8e955d5b85912c9e919346ff42c261e8c6", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/kopperud/actions/runs/26079333960" }, { "r": "4.6.0", "os": "mac", "version": "2.1.5", "date": "2026-05-19T06:06:40.000Z", "commit": "0354962bb8dee5802ce3bdce8c52bbc59d9a6d07", "fileid": "392288db2601b1480696292ae50f0a32a21a96d30591075cc81cbbe9b4f3e7e5", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/kopperud/actions/runs/26079333960" }, { "r": "4.7.0", "os": "win", "version": "2.1.5", "date": "2026-05-19T06:05:48.000Z", "commit": "0354962bb8dee5802ce3bdce8c52bbc59d9a6d07", "fileid": "74589be5b9013743be12428ae0f60a71f5552faa9a71f5dde45fdf58d18bef8b", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/kopperud/actions/runs/26079333960" }, { "r": "4.5.3", "os": "win", "version": "2.1.5", "date": "2026-05-19T06:05:20.000Z", "commit": "0354962bb8dee5802ce3bdce8c52bbc59d9a6d07", "fileid": "752296b6625ac314756efc06730928d64afb079ba4f564fc01fddead3e6af667", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/kopperud/actions/runs/26079333960" }, { "r": "4.6.0", "os": "win", "version": "2.1.5", "date": "2026-05-19T06:05:52.000Z", "commit": "0354962bb8dee5802ce3bdce8c52bbc59d9a6d07", "fileid": "e6c96e57033b59b61b93126c579409970fbeeb0455607721944ed5d2b2f7b0e6", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/kopperud/actions/runs/26079333960" }, { "r": "4.6.0", "os": "wasm", "version": "2.1.5", "date": "2026-06-02T15:35:07.000Z", "commit": "0354962bb8dee5802ce3bdce8c52bbc59d9a6d07", "fileid": "4f33b89481a317dabb39ecf94c48019bc20a594026db3e6cb6e31648b91df7e9", "status": "success", "buildurl": "https://github.com/r-universe/kopperud/actions/runs/26079333960" } ] }