{
  "_id": "6a23cafa530b9bc726be1774",
  "Package": "mcbette",
  "Title": "Model Comparison Using 'babette'",
  "Version": "1.15.3",
  "Authors@R": "c(\nperson(\n\"Richèl J.C.\", \"Bilderbeek\",\nemail = \"rjcbilderbeek@gmail.com\",\nrole = c(\"aut\", \"cre\"),\ncomment = c(ORCID = \"0000-0003-1107-7049\")\n),\nperson(\n\"Joëlle\", \"Barido-Sottani\", role = \"rev\",\ncomment = c(\"Joëlle reviewed the package for rOpenSci, see https://github.com/ropensci/software-review/issues/360\")\n),\nperson(\n\"Vikram\", \"Baliga\", role = \"rev\",\ncomment = c(\n\"Vikram reviewed the package for rOpenSci, see https://github.com/ropensci/software-review/issues/360\",\nORCID = \"0000-0002-9367-8974\"\n)\n)\n)",
  "Maintainer": "Richèl J.C. Bilderbeek <rjcbilderbeek@gmail.com>",
  "Description": "'BEAST2' (<https://www.beast2.org>) is a widely used\nBayesian phylogenetic tool, that uses DNA/RNA/protein data and\nmany model priors to create a posterior of jointly estimated\nphylogenies and parameters. 'mcbette' allows to do a Bayesian\nmodel comparison over some site and clock models, using\n'babette' (<https://github.com/ropensci/babette/>).",
  "License": "GPL-3",
  "RoxygenNote": "7.3.2",
  "VignetteBuilder": "knitr",
  "URL": "https://github.com/ropensci/mcbette/",
  "BugReports": "https://github.com/ropensci/mcbette/issues",
  "Language": "en-US",
  "Encoding": "UTF-8",
  "SystemRequirements": "BEAST2 (https://www.beast2.org/)",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-06-06 07:20:27 UTC",
    "User": "root"
  },
  "Author": "Richèl J.C. Bilderbeek [aut, cre]\n(<https://orcid.org/0000-0003-1107-7049>), Joëlle\nBarido-Sottani [rev] (Joëlle reviewed the package for rOpenSci,\nsee https://github.com/ropensci/software-review/issues/360),\nVikram Baliga [rev] (Vikram reviewed the package for rOpenSci,\nsee https://github.com/ropensci/software-review/issues/360,\n<https://orcid.org/0000-0002-9367-8974>)",
  "Repository": "https://cran.r-universe.dev",
  "Date/Publication": "2024-08-20 02:52:43 UTC",
  "RemoteUrl": "https://github.com/cran/mcbette",
  "RemoteRef": "HEAD",
  "RemoteSha": "38ad3ee7ad0b93a07de63ae49bf93b9933dce5f6",
  "MD5sum": "2fcdafffba466e12f39662508bee37f5",
  "_user": "cran",
  "_type": "src",
  "_file": "mcbette_1.15.3.tar.gz",
  "_fileid": "cede66874799e7f4ff8a7384c9db8dee769843a2e89b549cab8ed59098d3dab2",
  "_filesize": 2225872,
  "_sha256": "cede66874799e7f4ff8a7384c9db8dee769843a2e89b549cab8ed59098d3dab2",
  "_created": "2026-06-06T07:20:27.000Z",
  "_published": "2026-06-06T07:23:38.810Z",
  "_distro": "noble",
  "_jobs": [
    {
      "job": 79860595963,
      "time": 148,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7452384925"
    },
    {
      "job": 79860595958,
      "time": 149,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7452385291"
    },
    {
      "job": 79860381614,
      "time": 223,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7452366099"
    },
    {
      "job": 79860595959,
      "time": 162,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7452386457"
    }
  ],
  "_buildurl": "https://github.com/r-universe/cran/actions/runs/27055908135",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/cran/mcbette",
  "_commit": {
    "id": "38ad3ee7ad0b93a07de63ae49bf93b9933dce5f6",
    "author": "Richèl J.C. Bilderbeek <rjcbilderbeek@gmail.com>",
    "committer": "cran-robot <csardi.gabor+cran@gmail.com>",
    "message": "version 1.15.3\n",
    "time": 1724122363
  },
  "_maintainer": {
    "name": "Richèl J.C. Bilderbeek",
    "email": "rjcbilderbeek@gmail.com",
    "login": "richelbilderbeek",
    "orcid": "0000-0003-1107-7049",
    "description": "Thinks Open Science is a pleonasm.\nIn my free time, I teach programming and lead programming teams, both for/with kids and adults.",
    "uuid": 2098230
  },
  "_registered": true,
  "_dependencies": [
    {
      "package": "babette",
      "version": ">= 2.3",
      "role": "Imports"
    },
    {
      "package": "beautier",
      "version": ">= 2.6.2",
      "role": "Imports"
    },
    {
      "package": "beastier",
      "version": ">= 2.4.6",
      "role": "Imports"
    },
    {
      "package": "curl",
      "role": "Imports"
    },
    {
      "package": "devtools",
      "role": "Imports"
    },
    {
      "package": "mauricer",
      "version": ">= 2.5",
      "role": "Imports"
    },
    {
      "package": "Rmpfr",
      "role": "Imports"
    },
    {
      "package": "testit",
      "role": "Imports"
    },
    {
      "package": "txtplot",
      "role": "Imports"
    },
    {
      "package": "ape",
      "role": "Suggests"
    },
    {
      "package": "ggplot2",
      "role": "Suggests"
    },
    {
      "package": "hunspell",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "lintr",
      "role": "Suggests"
    },
    {
      "package": "markdown",
      "role": "Suggests"
    },
    {
      "package": "nLTT",
      "role": "Suggests"
    },
    {
      "package": "phangorn",
      "role": "Suggests"
    },
    {
      "package": "rappdirs",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    },
    {
      "package": "spelling",
      "role": "Suggests"
    },
    {
      "package": "stringr",
      "role": "Suggests"
    },
    {
      "package": "testthat",
      "version": ">= 2.1.0",
      "role": "Suggests"
    },
    {
      "package": "tracerer",
      "role": "Suggests"
    }
  ],
  "_owner": "cran",
  "_selfowned": false,
  "_usedby": 0,
  "_updates": [],
  "_tags": [],
  "_stars": 0,
  "_contributors": [
    {
      "user": "richelbilderbeek",
      "count": 1,
      "uuid": 2098230
    }
  ],
  "_userbio": {
    "uuid": 6899542,
    "type": "organization",
    "name": "cran",
    "description": "Unofficial read-only mirror of all CRAN R packages"
  },
  "_downloads": {
    "count": 199,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/mcbette"
  },
  "_devurl": "https://github.com/ropensci/mcbette",
  "_pkgdown": "https://docs.ropensci.org/mcbette",
  "_searchresults": 23,
  "_topics": [
    "openjdk"
  ],
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/mcbette.html",
    "manual.pdf"
  ],
  "_homeurl": "https://github.com/ropensci/mcbette",
  "_realowner": "ropensci",
  "_cranurl": false,
  "_releases": [
    {
      "version": "1.12",
      "date": "2020-11-16"
    },
    {
      "version": "1.13",
      "date": "2020-12-05"
    },
    {
      "version": "1.15",
      "date": "2022-08-27"
    },
    {
      "version": "1.15.1",
      "date": "2022-12-15"
    },
    {
      "version": "1.15.2",
      "date": "2023-09-27"
    },
    {
      "version": "1.15.3",
      "date": "2024-08-19"
    }
  ],
  "_exports": [
    "calc_weights",
    "can_run_mcbette",
    "check_beast2_ns_pkg",
    "check_marg_liks",
    "check_mcbette_state",
    "est_marg_lik",
    "est_marg_liks",
    "get_mcbette_state",
    "get_test_marg_liks",
    "interpret_bayes_factor",
    "interpret_marg_lik_estimates",
    "mcbette_report",
    "mcbette_self_test",
    "plot_marg_liks",
    "set_mcbette_state"
  ],
  "_help": [
    {
      "page": "calc_weights",
      "title": "Calculate the weights for each marginal likelihood",
      "topics": [
        "calc_weights"
      ]
    },
    {
      "page": "can_run_mcbette",
      "title": "Can 'mcbette' run?",
      "topics": [
        "can_run_mcbette"
      ]
    },
    {
      "page": "check_beast2_ns_pkg",
      "title": "Checks if the BEAST2 'NS' package is installed.",
      "topics": [
        "check_beast2_ns_pkg"
      ]
    },
    {
      "page": "check_marg_liks",
      "title": "Check if the 'marg_liks' are of the same type as returned by est_marg_liks.",
      "topics": [
        "check_marg_liks"
      ]
    },
    {
      "page": "check_mcbette_state",
      "title": "Check if the 'mcbette_state' is valid.",
      "topics": [
        "check_mcbette_state"
      ]
    },
    {
      "page": "default_params_doc",
      "title": "Documentation of general function arguments. This function does nothing. It is intended to inherit function argument documentation.",
      "topics": [
        "default_params_doc"
      ]
    },
    {
      "page": "est_marg_lik",
      "title": "Estimate the marginal likelihood for an inference model.",
      "topics": [
        "est_marg_lik"
      ]
    },
    {
      "page": "est_marg_liks",
      "title": "Estimate the marginal likelihoods for one or more inference models",
      "topics": [
        "est_marg_liks"
      ]
    },
    {
      "page": "get_mcbette_state",
      "title": "Get the current state of mcbette",
      "topics": [
        "get_mcbette_state"
      ]
    },
    {
      "page": "get_test_marg_liks",
      "title": "Get testing 'marg_liks'",
      "topics": [
        "get_test_marg_liks"
      ]
    },
    {
      "page": "interpret_bayes_factor",
      "title": "Interpret a Bayes factor",
      "topics": [
        "interpret_bayes_factor"
      ]
    },
    {
      "page": "interpret_marg_lik_estimates",
      "title": "Interpret the marginal likelihood estimates",
      "topics": [
        "interpret_marg_lik_estimates"
      ]
    },
    {
      "page": "is_marg_liks",
      "title": "Determine if the 'marg_liks' is valid",
      "topics": [
        "is_marg_liks"
      ]
    },
    {
      "page": "mcbette_report",
      "title": "Create a mcbette report, to be used when reporting bugs",
      "topics": [
        "mcbette_report"
      ]
    },
    {
      "page": "mcbette_self_test",
      "title": "Performs a minimal mcbette run",
      "topics": [
        "mcbette_self_test"
      ]
    },
    {
      "page": "plot_marg_liks",
      "title": "Plot the 'marg_liks'",
      "topics": [
        "plot_marg_liks"
      ]
    },
    {
      "page": "set_mcbette_state",
      "title": "Set the mcbette state.",
      "topics": [
        "set_mcbette_state"
      ]
    }
  ],
  "_rundeps": [
    "ade4",
    "ape",
    "askpass",
    "babette",
    "base64enc",
    "beastier",
    "beautier",
    "bit",
    "bit64",
    "brew",
    "brio",
    "bslib",
    "cachem",
    "callr",
    "cli",
    "clipr",
    "commonmark",
    "cpp11",
    "crayon",
    "credentials",
    "curl",
    "desc",
    "devtools",
    "diffobj",
    "digest",
    "downlit",
    "ellipsis",
    "evaluate",
    "fansi",
    "fastmap",
    "fastmatch",
    "fontawesome",
    "fs",
    "generics",
    "gert",
    "gitcreds",
    "glue",
    "gmp",
    "highr",
    "hms",
    "htmltools",
    "htmlwidgets",
    "httpuv",
    "httr2",
    "igraph",
    "ini",
    "jquerylib",
    "jsonlite",
    "knitr",
    "later",
    "lattice",
    "lifecycle",
    "magrittr",
    "MASS",
    "Matrix",
    "mauricer",
    "memoise",
    "mime",
    "miniUI",
    "nlme",
    "openssl",
    "otel",
    "pak",
    "phangorn",
    "pillar",
    "pixmap",
    "pkgbuild",
    "pkgconfig",
    "pkgdown",
    "pkgload",
    "praise",
    "prettyunits",
    "processx",
    "profvis",
    "progress",
    "promises",
    "ps",
    "purrr",
    "quadprog",
    "R6",
    "ragg",
    "rappdirs",
    "rcmdcheck",
    "Rcpp",
    "RcppArmadillo",
    "readr",
    "rJava",
    "rlang",
    "rmarkdown",
    "Rmpfr",
    "roxygen2",
    "rprojroot",
    "rstudioapi",
    "rversions",
    "sass",
    "segmented",
    "seqinr",
    "sessioninfo",
    "shiny",
    "sourcetools",
    "sp",
    "stringi",
    "stringr",
    "sys",
    "systemfonts",
    "testit",
    "testthat",
    "textshaping",
    "tibble",
    "tidyselect",
    "tinytex",
    "tracerer",
    "txtplot",
    "tzdb",
    "urlchecker",
    "usethis",
    "utf8",
    "vctrs",
    "vroom",
    "waldo",
    "whisker",
    "withr",
    "xfun",
    "xml2",
    "xopen",
    "xtable",
    "yaml",
    "zip"
  ],
  "_sysdeps": [
    {
      "shlib": "libjvm",
      "package": "openjdk-21-jre-headless",
      "headers": "openjdk-21-jre-headless",
      "source": "openjdk",
      "version": "21.0.11+10-1~24.04.2",
      "name": "openjdk",
      "homepage": "https://openjdk.java.net/",
      "description": "OpenJDK Java runtime, using Hotspot JIT (headless)"
    }
  ],
  "_vignettes": [
    {
      "source": "demo.Rmd",
      "filename": "demo.html",
      "title": "Demo",
      "author": "Richèl J.C. Bilderbeek",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Introduction",
        "Getting started",
        "Method"
      ],
      "created": "2020-11-16 15:10:02",
      "modified": "2022-08-27 12:30:02",
      "commits": 2
    }
  ],
  "_score": 2.361727836017593,
  "_indexed": false,
  "_nocasepkg": "mcbette",
  "_universes": [
    "cran"
  ],
  "_indexurl": "https://ropensci.r-universe.dev/mcbette",
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.15.3",
      "date": "2026-06-06T07:22:57.000Z",
      "distro": "noble",
      "commit": "38ad3ee7ad0b93a07de63ae49bf93b9933dce5f6",
      "fileid": "f80566249535af2c32bc6eddba0315111227915cbc9ca293e8e38042b7ab267f",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/cran/actions/runs/27055908135"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.15.3",
      "date": "2026-06-06T07:22:58.000Z",
      "distro": "noble",
      "commit": "38ad3ee7ad0b93a07de63ae49bf93b9933dce5f6",
      "fileid": "3bea8ed5d2a494b92eae22375b8c214519366e01b01527f4d35af110e540c6f2",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/cran/actions/runs/27055908135"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.15.3",
      "date": "2026-06-06T07:23:23.000Z",
      "commit": "38ad3ee7ad0b93a07de63ae49bf93b9933dce5f6",
      "fileid": "4fef50d808c2db90abb2958270d426183dd26d5d617c368187b94f98d3bf96ab",
      "status": "success",
      "buildurl": "https://github.com/r-universe/cran/actions/runs/27055908135"
    }
  ]
}