{
  "_id": "6a197d34acfb0bcc41df6d9b",
  "Package": "fossilbrush",
  "Title": "Automated Cleaning of Fossil Occurrence Data",
  "Version": "1.0.5",
  "Authors@R": "c(person(given = \"Joe\",\nfamily = \"Flannery-Sutherland\",\nrole = c(\"aut\", \"cre\"),\nemail = \"josephflannerysutherland@gmail.com\",\ncomment = c(ORCID = \"0000-0001-8232-6773\")),\nperson(given = \"Nussaïbah\",\nfamily = \"Raja-Schoob\",\nrole = c(\"aut\", \"ctb\")),\nperson(given = \"Ádam\",\nfamily = \"Kocsis\",\nrole = c(\"aut\", \"ctb\")),\nperson(given = \"Wolfgang\",\nfamily = \"Kiessling\",\nrole = \"aut\"))",
  "Description": "Functions to automate the detection and resolution of\ntaxonomic and stratigraphic errors in fossil occurrence\ndatasets. Functions were developed using data from the\nPaleobiology Database.",
  "License": "GPL (>= 3)",
  "Encoding": "UTF-8",
  "LazyData": "true",
  "Roxygen": "list(markdown = TRUE)",
  "RoxygenNote": "7.3.2",
  "VignetteBuilder": "knitr",
  "URL": "https://cran.r-project.org/package=fossilbrush",
  "BugReports": "https://cran.r-project.org/package=fossilbrush",
  "Config/pak/sysreqs": "libglpk-dev libicu-dev libxml2-dev libssl-dev",
  "Repository": "https://jf15558.r-universe.dev",
  "Date/Publication": "2025-06-03 21:30:52 UTC",
  "RemoteUrl": "https://github.com/jf15558/fossilbrush",
  "RemoteRef": "HEAD",
  "RemoteSha": "15c73aeb2b236da987a42f968880291c66a08e68",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-05-29 10:38:39 UTC",
    "User": "root"
  },
  "Author": "Joe Flannery-Sutherland [aut, cre] (ORCID:\n<https://orcid.org/0000-0001-8232-6773>),\nNussaïbah Raja-Schoob [aut, ctb],\nÁdam Kocsis [aut, ctb],\nWolfgang Kiessling [aut]",
  "Maintainer": "Joe Flannery-Sutherland <josephflannerysutherland@gmail.com>",
  "MD5sum": "2a7733c2f6183674c1b89a2bf4eb4cd1",
  "_user": "jf15558",
  "_type": "src",
  "_file": "fossilbrush_1.0.5.tar.gz",
  "_fileid": "5138ecb4e3ad74943d5f174961317668b651390bd25f4ff2f141fbf14e8ec8fb",
  "_filesize": 1779922,
  "_sha256": "5138ecb4e3ad74943d5f174961317668b651390bd25f4ff2f141fbf14e8ec8fb",
  "_created": "2026-05-29T10:38:39.000Z",
  "_published": "2026-05-29T11:49:08.186Z",
  "_distro": "noble",
  "_jobs": [
    {
      "job": 78484870147,
      "time": 158,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7288800848"
    },
    {
      "job": 78484870214,
      "time": 167,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7288803376"
    },
    {
      "job": 78484870184,
      "time": 159,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7289930537"
    },
    {
      "job": 78484870163,
      "time": 230,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7289918581"
    },
    {
      "job": 78484080065,
      "time": 337,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7288755405"
    },
    {
      "job": 78484870155,
      "time": 118,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7288789461"
    },
    {
      "job": 78484870236,
      "time": 720,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7288959471"
    },
    {
      "job": 78484870198,
      "time": 623,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7288931023"
    },
    {
      "job": 78484870199,
      "time": 456,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7288883026"
    }
  ],
  "_buildurl": "https://github.com/r-universe/jf15558/actions/runs/26632338760",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/jf15558/fossilbrush",
  "_commit": {
    "id": "15c73aeb2b236da987a42f968880291c66a08e68",
    "author": "jf15558 <50243608+jf15558@users.noreply.github.com>",
    "committer": "jf15558 <50243608+jf15558@users.noreply.github.com>",
    "message": "GTS2020\n\nMinor error corrections and 1 bug fix\n",
    "time": 1748986252
  },
  "_maintainer": {
    "name": "Joe Flannery-Sutherland",
    "email": "josephflannerysutherland@gmail.com",
    "login": "jf15558",
    "description": "",
    "uuid": 50243608,
    "orcid": "0000-0001-8232-6773"
  },
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 2.10",
      "role": "Depends"
    },
    {
      "package": "igraph",
      "role": "Imports"
    },
    {
      "package": "curl",
      "role": "Imports"
    },
    {
      "package": "data.table",
      "role": "Imports"
    },
    {
      "package": "pbapply",
      "role": "Imports"
    },
    {
      "package": "stringdist",
      "role": "Imports"
    },
    {
      "package": "stringr",
      "role": "Imports"
    },
    {
      "package": "Matrix",
      "role": "Imports"
    },
    {
      "package": "methods",
      "role": "Imports"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    }
  ],
  "_owner": "jf15558",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-23",
      "n": 1
    }
  ],
  "_tags": [],
  "_stars": 0,
  "_contributors": [
    {
      "user": "jf15558",
      "count": 5,
      "uuid": 50243608
    }
  ],
  "_userbio": {
    "uuid": 50243608,
    "type": "user",
    "name": "jf15558"
  },
  "_downloads": {
    "count": 190,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/fossilbrush"
  },
  "_devurl": "https://github.com/jf15558/fossilbrush",
  "_searchresults": 22,
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/fossilbrush.html",
    "extra/readme.html",
    "extra/readme.md",
    "manual.pdf"
  ],
  "_homeurl": "https://github.com/jf15558/fossilbrush",
  "_realowner": "jf15558",
  "_cranurl": true,
  "_releases": [
    {
      "version": "1.0",
      "date": "2022-05-09"
    },
    {
      "version": "1.0.1",
      "date": "2022-05-19"
    },
    {
      "version": "1.0.2",
      "date": "2022-05-22"
    },
    {
      "version": "1.0.3",
      "date": "2022-07-21"
    },
    {
      "version": "1.0.5",
      "date": "2024-07-09"
    },
    {
      "version": "1.0.6",
      "date": "2025-06-05"
    }
  ],
  "_exports": [
    "add_itp",
    "add_kingdoms",
    "age_ranges",
    "check_taxonomy",
    "chrono_scale",
    "clean_name",
    "densify",
    "discrete_ranks",
    "find_duplicates",
    "find_peaks",
    "flag_ranges",
    "format_check",
    "intersect_ranges",
    "pacmacro_ranges",
    "plot_dprofile",
    "plot_taxa",
    "resolve_duplicates",
    "revise_ranges",
    "spell_check",
    "threshold_ranges"
  ],
  "_datasets": [
    {
      "name": "brachios",
      "title": "brachios",
      "object": "brachios",
      "class": [
        "data.frame"
      ],
      "fields": [
        "phylum",
        "class",
        "order",
        "family",
        "genus",
        "max_ma",
        "min_ma",
        "early_interval",
        "late_interval",
        "collection_no"
      ],
      "rows": 151473,
      "table": true,
      "tojson": true
    },
    {
      "name": "geog_lookup",
      "title": "geog_lookup",
      "object": "geog_lookup",
      "class": [
        "data.frame"
      ],
      "fields": [
        "Name",
        "Code"
      ],
      "rows": 511,
      "table": true,
      "tojson": true
    },
    {
      "name": "GTS_2020",
      "title": "GTS_2020",
      "object": "GTS_2020",
      "class": [
        "data.frame"
      ],
      "fields": [
        "X",
        "Interval",
        "Type",
        "Range",
        "FAD",
        "LAD",
        "FAD_basis",
        "LAD_basis",
        "Notes",
        "Order"
      ],
      "rows": 1534,
      "table": true,
      "tojson": true
    },
    {
      "name": "GTS_2020_changelog",
      "title": "GTS_2020_changelog",
      "object": "GTS_2020_changelog",
      "class": [
        "data.frame"
      ],
      "fields": [
        "edit",
        "date"
      ],
      "rows": 1,
      "table": true,
      "tojson": true
    },
    {
      "name": "pbdb_fields",
      "title": "geog_lookup",
      "object": "pbdb_fields",
      "class": [
        "list"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    },
    {
      "name": "pbdb_kingdoms",
      "title": "pbdb_kingdoms",
      "object": "pbdb_kingdoms",
      "class": [
        "list"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    },
    {
      "name": "sep_code",
      "title": "sep_code",
      "object": "sep_code",
      "class": [
        "data.frame"
      ],
      "fields": [
        "sepkoski_interval",
        "sepkoski_code",
        "pbdb_early",
        "pbdb_late",
        "FAD",
        "LAD",
        "Notes",
        "Edge"
      ],
      "rows": 306,
      "table": true,
      "tojson": true
    },
    {
      "name": "sepkoski",
      "title": "sepkoski",
      "object": "sepkoski",
      "class": [
        "data.frame"
      ],
      "fields": [
        "PHYLUM",
        "CLASS",
        "ORDER",
        "GENUS",
        "RANGE_BASE",
        "RANGE_TOP"
      ],
      "rows": 35700,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "add_itp",
      "title": "add_itp",
      "topics": [
        "add_itp"
      ]
    },
    {
      "page": "add_kingdoms",
      "title": "add_kingdoms",
      "topics": [
        "add_kingdoms"
      ]
    },
    {
      "page": "age_ranges",
      "title": "roxygen documentation",
      "topics": [
        "age_ranges"
      ]
    },
    {
      "page": "assess_duplicates",
      "title": "assess_duplicates",
      "topics": [
        "assess_duplicates"
      ]
    },
    {
      "page": "brachios",
      "title": "brachios",
      "topics": [
        "brachios"
      ]
    },
    {
      "page": "check_taxonomy",
      "title": "check_taxonomy",
      "topics": [
        "check_taxonomy"
      ]
    },
    {
      "page": "chrono_scale",
      "title": "chrono_scale",
      "topics": [
        "chrono_scale"
      ]
    },
    {
      "page": "clean_name",
      "title": "roxygen documentation",
      "topics": [
        "clean_name"
      ]
    },
    {
      "page": "densify",
      "title": "densify",
      "topics": [
        "densify"
      ]
    },
    {
      "page": "discrete_ranks",
      "title": "roxygen documentation",
      "topics": [
        "discrete_ranks"
      ]
    },
    {
      "page": "find_duplicates",
      "title": "find_duplicates",
      "topics": [
        "find_duplicates"
      ]
    },
    {
      "page": "find_peaks",
      "title": "find_peaks",
      "topics": [
        "find_peaks"
      ]
    },
    {
      "page": "flag_ranges",
      "title": "flag_ranges",
      "topics": [
        "flag_ranges"
      ]
    },
    {
      "page": "format_check",
      "title": "format_check",
      "topics": [
        "format_check"
      ]
    },
    {
      "page": "geog_lookup",
      "title": "geog_lookup",
      "topics": [
        "geog_lookup"
      ]
    },
    {
      "page": "get_pbdb",
      "title": "get_pbdb",
      "topics": [
        "get_pbdb"
      ]
    },
    {
      "page": "GTS_2020",
      "title": "GTS_2020",
      "topics": [
        "GTS_2020"
      ]
    },
    {
      "page": "GTS_2020_changelog",
      "title": "GTS_2020_changelog",
      "topics": [
        "GTS_2020_changelog"
      ]
    },
    {
      "page": "intersect_ranges",
      "title": "intersect_ranges",
      "topics": [
        "intersect_ranges"
      ]
    },
    {
      "page": "pacmacro_ranges",
      "title": "pacmacro_ranges",
      "topics": [
        "pacmacro_ranges"
      ]
    },
    {
      "page": "pbdb_fields",
      "title": "geog_lookup",
      "topics": [
        "pbdb_fields"
      ]
    },
    {
      "page": "pbdb_kingdoms",
      "title": "pbdb_kingdoms",
      "topics": [
        "pbdb_kingdoms"
      ]
    },
    {
      "page": "plot_dprofile",
      "title": "plot_dprofile",
      "topics": [
        "plot_dprofile"
      ]
    },
    {
      "page": "plot_taxa",
      "title": "plot_taxa",
      "topics": [
        "plot_taxa"
      ]
    },
    {
      "page": "quantile_coef_density_BMS",
      "title": "quantile_coef_density_BMS",
      "topics": [
        "quantile_coef_density_BMS"
      ]
    },
    {
      "page": "resolve_duplicates",
      "title": "resolve_duplicates",
      "topics": [
        "resolve_duplicates"
      ]
    },
    {
      "page": "revise_ranges",
      "title": "revise_ranges",
      "topics": [
        "revise_ranges"
      ]
    },
    {
      "page": "sep_code",
      "title": "sep_code",
      "topics": [
        "sep_code"
      ]
    },
    {
      "page": "sepkoski",
      "title": "sepkoski",
      "topics": [
        "sepkoski"
      ]
    },
    {
      "page": "spell_check",
      "title": "spell_check",
      "topics": [
        "spell_check"
      ]
    },
    {
      "page": "tgraph",
      "title": "tgraph",
      "topics": [
        "tgraph"
      ]
    },
    {
      "page": "threshold_peaks",
      "title": "threshold_peaks",
      "topics": [
        "threshold_peaks"
      ]
    },
    {
      "page": "threshold_ranges",
      "title": "threshold_ranges",
      "topics": [
        "threshold_ranges"
      ]
    },
    {
      "page": "update_graph",
      "title": "update_graph",
      "topics": [
        "update_graph"
      ]
    }
  ],
  "_readme": "https://github.com/jf15558/fossilbrush/raw/HEAD/README.md",
  "_rundeps": [
    "cli",
    "cpp11",
    "curl",
    "data.table",
    "glue",
    "igraph",
    "lattice",
    "lifecycle",
    "magrittr",
    "Matrix",
    "pbapply",
    "pkgconfig",
    "rlang",
    "stringdist",
    "stringi",
    "stringr",
    "vctrs"
  ],
  "_vignettes": [
    {
      "source": "fossilbrush_vignette.Rmd",
      "filename": "fossilbrush_vignette.pdf",
      "title": "Introduction to fossilbrush (v1.0.3), an R package for automated cleaning and error flagging of fossil occurrence data",
      "author": "Joe Flannery Sutherland",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Introduction",
        "Data acquisition and chronostratigraphy",
        "Data cleaning",
        "Error flagging against a range database",
        "Error flagging using pacmacro",
        "Error flagging using interpeak thresholding"
      ],
      "created": "2022-03-17 16:13:07",
      "modified": "2024-01-23 15:08:22",
      "commits": 2
    }
  ],
  "_score": 4.041392685158225,
  "_indexed": true,
  "_nocasepkg": "fossilbrush",
  "_universes": [
    "jf15558"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.0.5",
      "date": "2026-05-29T10:40:43.000Z",
      "distro": "noble",
      "commit": "15c73aeb2b236da987a42f968880291c66a08e68",
      "fileid": "561a6d80e9d93fb9f31b4c5f73a6c5f22e8b041e6b2b7a9753f34a11dadabe0e",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/jf15558/actions/runs/26632338760"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.0.5",
      "date": "2026-05-29T10:40:56.000Z",
      "distro": "noble",
      "commit": "15c73aeb2b236da987a42f968880291c66a08e68",
      "fileid": "70c6b4eca519a5f0e3a58befa22cfbc9f6de2c84817018663040ead138d3d8fd",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/jf15558/actions/runs/26632338760"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.0.5",
      "date": "2026-05-29T11:47:44.000Z",
      "commit": "15c73aeb2b236da987a42f968880291c66a08e68",
      "fileid": "b46ada458e98b63ed6ce6fbb3da469b5a1183e534c31eaecf0ffa0d998cf2407",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/jf15558/actions/runs/26632338760"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.0.5",
      "date": "2026-05-29T11:47:01.000Z",
      "commit": "15c73aeb2b236da987a42f968880291c66a08e68",
      "fileid": "d1cda78b6aaba5141cf80d22934e0bff30c3d7568ab32723852a748bff72a574",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/jf15558/actions/runs/26632338760"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.0.5",
      "date": "2026-05-29T10:41:04.000Z",
      "commit": "15c73aeb2b236da987a42f968880291c66a08e68",
      "fileid": "3d00f8bf3fcf9cf2b1af6cf4a84de19312ad72c71533739e97143c22a71ff338",
      "status": "success",
      "buildurl": "https://github.com/r-universe/jf15558/actions/runs/26632338760"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.0.5",
      "date": "2026-05-29T10:49:53.000Z",
      "commit": "15c73aeb2b236da987a42f968880291c66a08e68",
      "fileid": "05635f1754c28ed114dbe1fe9d4d806a5b265ffe2bfee48e29588a24c701086b",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/jf15558/actions/runs/26632338760"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.0.5",
      "date": "2026-05-29T10:48:21.000Z",
      "commit": "15c73aeb2b236da987a42f968880291c66a08e68",
      "fileid": "24fb7dbf9273f845971d12bffb66a64be28de1e65af8456150dac5e810796b2d",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/jf15558/actions/runs/26632338760"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "1.0.5",
      "date": "2026-05-29T10:45:35.000Z",
      "commit": "15c73aeb2b236da987a42f968880291c66a08e68",
      "fileid": "0a25cc9a3f0e75c6717771a37a71a61ad0ceb53f2f673882637bd0099dc8ba5a",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/jf15558/actions/runs/26632338760"
    }
  ]
}