{
  "_id": "6ace200aa14063b82c3afe7b",
  "Package": "taxify",
  "Title": "Offline Taxonomic Name Matching Against Darwin Core Backbones",
  "Version": "0.7.0",
  "Authors@R": "person(\"Gilles\", \"Colling\", , \"gilles.colling051@gmail.com\",\nrole = c(\"aut\", \"cre\", \"cph\"),\ncomment = c(ORCID = \"0000-0003-3070-6066\"))",
  "Description": "Matches taxonomic names against local copies of published\nbackbones ('Catalogue of Life', 'GBIF Backbone Taxonomy',\n'ITIS', 'World Flora Online', 'WoRMS', 'NCBI Taxonomy', 'Open\nTree of Life', 'Euro+Med', 'Species Fungorum', 'AlgaeBase',\n'FishBase', 'SeaLifeBase', 'Reptile Database', 'LCVP', 'WCVP',\n'Mammal Diversity Database', 'AviList', 'LPSN') and two\nvegetation classifications, and resolves each name to its\naccepted name. It performs the name-resolution step of 'taxize'\nand 'WorldFlora', run offline against these files. Names are\ncleaned of authors and qualifiers, matched exactly and then by\nedit distance within their genus, and followed from synonym to\naccepted name, with the backbone version recorded on every row.\nPublished trait, status and distribution datasets are joined on\nthe accepted name, and so is a table the user supplies.\nMatching runs in the 'vectra' column-store engine.",
  "License": "MIT + file LICENSE",
  "URL": "https://gillescolling.com/taxify/,\nhttps://github.com/gcol33/taxify",
  "BugReports": "https://github.com/gcol33/taxify/issues",
  "Additional_repositories": "https://gcol33.r-universe.dev",
  "VignetteBuilder": "knitr",
  "Config/testthat/edition": "3",
  "Encoding": "UTF-8",
  "Roxygen": "list(markdown = TRUE)",
  "Config/roxygen2/version": "8.1.0",
  "Config/pak/sysreqs": "libssl-dev",
  "Repository": "https://gcol33.r-universe.dev",
  "Date/Publication": "2026-10-13 04:45:01 UTC",
  "RemoteUrl": "https://github.com/gcol33/taxify",
  "RemoteRef": "HEAD",
  "RemoteSha": "23db251444bbba33af43aab55d704c8330b73870",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-10-13 12:03:55 UTC",
    "User": "root"
  },
  "Author": "Gilles Colling [aut, cre, cph] (ORCID:\n<https://orcid.org/0000-0003-3070-6066>)",
  "Maintainer": "Gilles Colling <gilles.colling051@gmail.com>",
  "_user": "gcol33",
  "_type": "src",
  "_file": "taxify_0.7.0.tar.gz",
  "_fileid": "https://r2.ropensci.org/4430065e5e8e06df51caf5b0f8f0d3391518f36c86795e90de10f051e5a1aeef",
  "_filesize": 2119238,
  "_sha256": "4430065e5e8e06df51caf5b0f8f0d3391518f36c86795e90de10f051e5a1aeef",
  "_expires": "2027-01-21T12:11:51.000Z",
  "_created": "2026-10-13T12:03:55.000Z",
  "_published": "2026-10-13T12:11:53.926Z",
  "_buildurl": "https://github.com/r-universe/gcol33/actions/runs/38394077748",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_jobs": [
    {
      "job": 115286722032,
      "time": 268,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "11811825674"
    },
    {
      "job": 115286721911,
      "time": 235,
      "config": "linux-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11811800651"
    },
    {
      "job": 115286722028,
      "time": 164,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "11811765884"
    },
    {
      "job": 115286721940,
      "time": 184,
      "config": "macos-release-arm64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11812550196"
    },
    {
      "job": 115284870665,
      "time": 275,
      "config": "source",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11811249190"
    },
    {
      "job": 115286721984,
      "time": 136,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "11810699618"
    },
    {
      "job": 115286721892,
      "time": 356,
      "config": "windows-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "11811346281"
    },
    {
      "job": 115286721914,
      "time": 283,
      "config": "windows-oldrel-x86_64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "11811289856"
    },
    {
      "job": 115286722111,
      "time": 296,
      "config": "windows-release-x86_64",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11811835739"
    }
  ],
  "_upstream": "https://github.com/gcol33/taxify",
  "_commit": {
    "id": "23db251444bbba33af43aab55d704c8330b73870",
    "author": "Gilles Colling <gilles.colling051@gmail.com>",
    "committer": "Gilles Colling <gilles.colling051@gmail.com>",
    "message": "release: re-cut taxify 0.7.0\n\nCo-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>\nClaude-Session: https://claude.ai/code/session_01BSPJFDRYX5DSMME6oT8C7B\n",
    "time": 1791866701
  },
  "_maintainer": {
    "name": "Gilles Colling",
    "email": "gilles.colling051@gmail.com",
    "login": "gcol33",
    "linkedin": "in/gilles-colling-0b3747306",
    "orcid": "0000-0003-3070-6066",
    "twitter": "@Gilles__Colling",
    "description": "Building tools for ecology in R, C++, and Rust.\nWhy did Microsoft have to buy it. Sadge :(",
    "uuid": 25009600
  },
  "_distro": "resolute",
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 4.1.0",
      "role": "Depends"
    },
    {
      "package": "curl",
      "role": "Imports"
    },
    {
      "package": "jsonlite",
      "role": "Imports"
    },
    {
      "package": "rlang",
      "role": "Imports"
    },
    {
      "package": "vectra",
      "version": ">= 0.12.4",
      "role": "Imports"
    },
    {
      "package": "ape",
      "role": "Suggests"
    },
    {
      "package": "DBI",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "openxlsx2",
      "role": "Suggests"
    },
    {
      "package": "rgbif",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    },
    {
      "package": "RSQLite",
      "role": "Suggests"
    },
    {
      "package": "sf",
      "role": "Suggests"
    },
    {
      "package": "taxifydb",
      "version": ">= 0.1.19",
      "role": "Suggests"
    },
    {
      "package": "terra",
      "role": "Suggests"
    },
    {
      "package": "testthat",
      "version": ">= 3.0.0",
      "role": "Suggests"
    },
    {
      "package": "TR8",
      "role": "Suggests"
    },
    {
      "package": "withr",
      "role": "Suggests"
    }
  ],
  "_owner": "gcol33",
  "_selfowned": true,
  "_usedby": 1,
  "_updates": [
    {
      "week": "2026-14",
      "n": 57
    },
    {
      "week": "2026-15",
      "n": 2
    },
    {
      "week": "2026-18",
      "n": 1
    },
    {
      "week": "2026-20",
      "n": 8
    },
    {
      "week": "2026-21",
      "n": 4
    },
    {
      "week": "2026-22",
      "n": 1
    },
    {
      "week": "2026-24",
      "n": 5
    },
    {
      "week": "2026-25",
      "n": 11
    },
    {
      "week": "2026-26",
      "n": 44
    },
    {
      "week": "2026-27",
      "n": 52
    },
    {
      "week": "2026-28",
      "n": 35
    },
    {
      "week": "2026-29",
      "n": 41
    },
    {
      "week": "2026-30",
      "n": 46
    },
    {
      "week": "2026-31",
      "n": 14
    },
    {
      "week": "2026-32",
      "n": 49
    },
    {
      "week": "2026-33",
      "n": 3
    },
    {
      "week": "2026-35",
      "n": 12
    },
    {
      "week": "2026-36",
      "n": 10
    },
    {
      "week": "2026-37",
      "n": 15
    },
    {
      "week": "2026-38",
      "n": 40
    },
    {
      "week": "2026-39",
      "n": 62
    },
    {
      "week": "2026-40",
      "n": 24
    },
    {
      "week": "2026-41",
      "n": 2
    },
    {
      "week": "2026-42",
      "n": 17
    }
  ],
  "_tags": [
    {
      "name": "v0.2.0",
      "date": "2026-04-04"
    },
    {
      "name": "v0.2.1",
      "date": "2026-04-04"
    },
    {
      "name": "v0.2.2",
      "date": "2026-04-04"
    },
    {
      "name": "v0.2.3",
      "date": "2026-05-29"
    },
    {
      "name": "v0.2.4",
      "date": "2026-06-19"
    },
    {
      "name": "v0.2.5",
      "date": "2026-06-19"
    },
    {
      "name": "v0.2.6",
      "date": "2026-06-19"
    },
    {
      "name": "v0.2.7",
      "date": "2026-06-21"
    },
    {
      "name": "v0.2.8",
      "date": "2026-06-21"
    },
    {
      "name": "v0.2.12",
      "date": "2026-06-24"
    },
    {
      "name": "v0.2.13",
      "date": "2026-06-24"
    },
    {
      "name": "v0.2.14",
      "date": "2026-06-24"
    },
    {
      "name": "v0.2.15",
      "date": "2026-06-24"
    },
    {
      "name": "v0.3.0",
      "date": "2026-06-25"
    },
    {
      "name": "v0.3.1",
      "date": "2026-06-27"
    },
    {
      "name": "v0.3.3",
      "date": "2026-07-08"
    },
    {
      "name": "v0.3.4",
      "date": "2026-07-08"
    },
    {
      "name": "v0.3.5",
      "date": "2026-07-09"
    },
    {
      "name": "v0.3.6",
      "date": "2026-07-09"
    },
    {
      "name": "v0.3.7",
      "date": "2026-07-09"
    },
    {
      "name": "v0.3.10",
      "date": "2026-07-14"
    },
    {
      "name": "v0.3.11",
      "date": "2026-07-14"
    },
    {
      "name": "v0.3.12",
      "date": "2026-07-14"
    },
    {
      "name": "v0.3.8",
      "date": "2026-07-14"
    },
    {
      "name": "v0.3.9",
      "date": "2026-07-14"
    },
    {
      "name": "v0.3.14",
      "date": "2026-07-15"
    },
    {
      "name": "v0.3.15",
      "date": "2026-07-16"
    },
    {
      "name": "v0.3.16",
      "date": "2026-07-16"
    },
    {
      "name": "v0.3.17",
      "date": "2026-07-16"
    },
    {
      "name": "v0.3.18",
      "date": "2026-07-16"
    },
    {
      "name": "v0.3.19",
      "date": "2026-07-17"
    },
    {
      "name": "v0.3.20",
      "date": "2026-07-17"
    },
    {
      "name": "v0.4.0",
      "date": "2026-07-23"
    },
    {
      "name": "v0.4.2",
      "date": "2026-07-29"
    },
    {
      "name": "v0.4.3",
      "date": "2026-08-01"
    },
    {
      "name": "v0.4.5",
      "date": "2026-08-09"
    },
    {
      "name": "v0.4.6",
      "date": "2026-08-27"
    },
    {
      "name": "v0.4.7",
      "date": "2026-08-27"
    },
    {
      "name": "v0.4.8",
      "date": "2026-08-28"
    },
    {
      "name": "v0.4.9",
      "date": "2026-08-30"
    },
    {
      "name": "v0.5.0",
      "date": "2026-09-01"
    },
    {
      "name": "v0.5.1",
      "date": "2026-09-04"
    },
    {
      "name": "v0.5.2",
      "date": "2026-09-04"
    },
    {
      "name": "v0.5.3",
      "date": "2026-09-14"
    },
    {
      "name": "v0.5.4",
      "date": "2026-09-15"
    },
    {
      "name": "v0.5.5",
      "date": "2026-09-17"
    },
    {
      "name": "v0.5.6",
      "date": "2026-09-21"
    },
    {
      "name": "v0.6.0",
      "date": "2026-09-29"
    },
    {
      "name": "v0.7.0",
      "date": "2026-10-13"
    }
  ],
  "_topics": [
    "biodiversity",
    "darwin-core",
    "ecology",
    "fuzzy-matching",
    "gbif",
    "name-matching",
    "nomenclature",
    "offline",
    "species-names",
    "synonyms",
    "taxonomy"
  ],
  "_stars": 2,
  "_contributors": [
    {
      "user": "gcol33",
      "count": 537,
      "uuid": 25009600
    },
    {
      "user": "claude",
      "count": 1,
      "uuid": 81847
    }
  ],
  "_userbio": {
    "uuid": 25009600,
    "type": "user",
    "name": "Gilles Colling",
    "followers": 10,
    "description": "Building tools for ecology in R, C++, and Rust.\nWhy did Microsoft have to buy it. Sadge :("
  },
  "_downloads": {
    "count": 511,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/taxify"
  },
  "_devurl": "https://github.com/gcol33/taxify",
  "_pkgdown": "https://gillescolling.com/taxify/",
  "_searchresults": 49,
  "_rbuild": "4.6.1",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/manual.pdf",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/readme.html",
    "extra/readme.md",
    "extra/taxify.html",
    "LICENSE"
  ],
  "_homeurl": "https://github.com/gcol33/taxify",
  "_realowner": "gcol33",
  "_cranurl": true,
  "_releases": [
    {
      "version": "0.2.12",
      "date": "2026-06-30"
    },
    {
      "version": "0.3.4",
      "date": "2026-07-09"
    },
    {
      "version": "0.4.0",
      "date": "2026-07-23"
    },
    {
      "version": "0.5.0",
      "date": "2026-09-08"
    },
    {
      "version": "0.5.5",
      "date": "2026-09-18"
    },
    {
      "version": "0.6.0",
      "date": "2026-09-30"
    }
  ],
  "_exports": [
    "add_algae_traits",
    "add_alien_first_records",
    "add_alpine_carabids",
    "add_amniote",
    "add_amphibio",
    "add_anage",
    "add_animaltraits",
    "add_arctic_traits",
    "add_arthropod_traits",
    "add_austraits",
    "add_avonet",
    "add_bacdive",
    "add_baseflor",
    "add_bee_ostwald",
    "add_bet",
    "add_betsi_collembola_body_length",
    "add_betsi_collembola_traits",
    "add_betsi_earthworm_traits",
    "add_beukhof",
    "add_bien",
    "add_birdbase",
    "add_blanchard",
    "add_brot",
    "add_bryoatt",
    "add_ccdb",
    "add_cefas_btrait",
    "add_chelonians",
    "add_chowdhury",
    "add_classification",
    "add_clopla",
    "add_col_info",
    "add_combine",
    "add_combine_imputed",
    "add_combine_reported",
    "add_common_names",
    "add_copepod_traits",
    "add_coral_traits",
    "add_data",
    "add_diaz_traits",
    "add_disperse",
    "add_eberswalde",
    "add_ecoflora",
    "add_ecomorphosis",
    "add_edwards_phyto",
    "add_eive",
    "add_ellers_collembola",
    "add_elton_traits",
    "add_epa_freshwater",
    "add_eupolltrait",
    "add_eurobat",
    "add_euromed_distribution",
    "add_faprotax",
    "add_finand",
    "add_fishbase",
    "add_fishmorph",
    "add_fishtraits",
    "add_floraweb",
    "add_freshwater_insects_conus",
    "add_frugivoria",
    "add_fungal_traits",
    "add_fungalroot",
    "add_funguild",
    "add_gbif_info",
    "add_gidias",
    "add_gift",
    "add_globi",
    "add_globtherm",
    "add_glonaf",
    "add_gmpd",
    "add_griis",
    "add_groot",
    "add_gwdd",
    "add_homerange",
    "add_hosts",
    "add_huang_amph",
    "add_hybrid_info",
    "add_hydraulics",
    "add_imageomics_neon",
    "add_inrae_collembola_traits",
    "add_invacost",
    "add_italic",
    "add_iucn",
    "add_kew_cvalues",
    "add_kew_sid",
    "add_leda",
    "add_leptraits",
    "add_madin",
    "add_monograph_collembola_body_length",
    "add_nesttrait",
    "add_noddb",
    "add_nztd",
    "add_octocoral",
    "add_odonata",
    "add_pantheria",
    "add_parravicini",
    "add_pelagic",
    "add_phylacine",
    "add_pignatti",
    "add_plantatt",
    "add_plazi_collembola_body_length",
    "add_pottier",
    "add_quimbayo",
    "add_ramond",
    "add_repttraits",
    "add_rimet_phyto",
    "add_saproxylic",
    "add_sealifebase",
    "add_sharkipedia",
    "add_sheld",
    "add_spider_traits",
    "add_sworm",
    "add_tetradensity",
    "add_thermofresh",
    "add_trait",
    "add_tree_of_sex",
    "add_usda_fungus_host",
    "add_useful_plants",
    "add_virion",
    "add_wcvp",
    "add_wfo_info",
    "add_zanne",
    "add_zooplankton",
    "backbone_code",
    "backbone_fixed_kingdom",
    "basionym_placement",
    "candidate_order",
    "children",
    "cite",
    "class2tree",
    "comm2sci",
    "downstream",
    "embed_accepted",
    "enrichment_authorship_col",
    "enrichment_cols",
    "enrichment_groups",
    "euromed_areas",
    "export_data",
    "gbif_backmatch",
    "gbif_fetch",
    "gbif_request",
    "gift_traits",
    "id2name",
    "inspect",
    "install_backbones",
    "is_aggregate_name",
    "list_backbones",
    "list_enrichments",
    "list_traits",
    "lookup_genus",
    "lowest_common",
    "normalize_aggregate_name",
    "normalize_epithets",
    "normalize_kingdom_group",
    "normalize_syntaxon_name",
    "parse_name",
    "precompute_keys",
    "reconcile",
    "sci2comm",
    "score_candidates",
    "synonyms",
    "taxify",
    "taxify_build",
    "taxify_build_register",
    "taxify_clear_cache",
    "taxify_data_dir",
    "taxify_databases",
    "taxify_download",
    "taxify_download_enrichment",
    "taxify_example_data",
    "taxify_ids",
    "taxify_load_register",
    "taxify_lock",
    "taxify_long",
    "taxify_pin",
    "taxify_refresh_manifest",
    "taxify_regions",
    "taxify_register_coverage",
    "taxify_restore",
    "taxify_store",
    "trait_info",
    "upstream"
  ],
  "_help": [
    {
      "page": "add_algae_traits",
      "title": "Add macroalgal functional traits (AlgaeTraits)",
      "topics": [
        "add_algae_traits"
      ]
    },
    {
      "page": "add_alien_first_records",
      "title": "Add alien species first record years",
      "topics": [
        "add_alien_first_records"
      ]
    },
    {
      "page": "add_alpine_carabids",
      "title": "Add Alpine ground-beetle traits (Chamberlain et al.)",
      "topics": [
        "add_alpine_carabids"
      ]
    },
    {
      "page": "add_amniote",
      "title": "Add amniote life-history traits (Amniote Life History Database)",
      "topics": [
        "add_amniote"
      ]
    },
    {
      "page": "add_amphibio",
      "title": "Add amphibian life-history traits (AmphiBIO)",
      "topics": [
        "add_amphibio"
      ]
    },
    {
      "page": "add_anage",
      "title": "Add longevity and life-history traits (AnAge)",
      "topics": [
        "add_anage"
      ]
    },
    {
      "page": "add_animaltraits",
      "title": "Add cross-taxon body mass and metabolic rate (AnimalTraits)",
      "topics": [
        "add_animaltraits"
      ]
    },
    {
      "page": "add_arctic_traits",
      "title": "Add Arctic marine benthos traits",
      "topics": [
        "add_arctic_traits"
      ]
    },
    {
      "page": "add_arthropod_traits",
      "title": "Add arthropod life-history traits (NW European Arthropods)",
      "topics": [
        "add_arthropod_traits"
      ]
    },
    {
      "page": "add_austraits",
      "title": "Add Australian plant traits (AusTraits)",
      "topics": [
        "add_austraits"
      ]
    },
    {
      "page": "add_avonet",
      "title": "Add bird morphology and migration (AVONET)",
      "topics": [
        "add_avonet"
      ]
    },
    {
      "page": "add_bacdive",
      "title": "Add bacterial and archaeal strain phenotypes (BacDive)",
      "topics": [
        "add_bacdive"
      ]
    },
    {
      "page": "add_baseflor",
      "title": "Add plant traits from Baseflor (Catminat / Julve)",
      "topics": [
        "add_baseflor"
      ]
    },
    {
      "page": "add_bee_ostwald",
      "title": "Add bee morphometrics (Ostwald)",
      "topics": [
        "add_bee_ostwald"
      ]
    },
    {
      "page": "add_bet",
      "title": "Add bryophyte traits (Bryophytes of Europe Traits)",
      "topics": [
        "add_bet"
      ]
    },
    {
      "page": "add_betsi_collembola_body_length",
      "title": "Add Collembola body length (BETSI export)",
      "topics": [
        "add_betsi_collembola_body_length"
      ]
    },
    {
      "page": "add_betsi_collembola_traits",
      "title": "Add Collembola traits (Lu et al. 2025)",
      "topics": [
        "add_betsi_collembola_traits"
      ]
    },
    {
      "page": "add_betsi_earthworm_traits",
      "title": "Add earthworm traits (Pelosi et al. 2014)",
      "topics": [
        "add_betsi_earthworm_traits"
      ]
    },
    {
      "page": "add_beukhof",
      "title": "Add marine fish traits (Beukhof)",
      "topics": [
        "add_beukhof"
      ]
    },
    {
      "page": "add_bien",
      "title": "Add plant traits (BIEN)",
      "topics": [
        "add_bien"
      ]
    },
    {
      "page": "add_birdbase",
      "title": "Add bird traits (BIRDBASE)",
      "topics": [
        "add_birdbase"
      ]
    },
    {
      "page": "add_blanchard",
      "title": "Add ant genus defensive traits (Blanchard & Moreau)",
      "topics": [
        "add_blanchard"
      ]
    },
    {
      "page": "add_brot",
      "title": "Add Mediterranean plant traits (BROT 2.0)",
      "topics": [
        "add_brot"
      ]
    },
    {
      "page": "add_bryoatt",
      "title": "Add British and Irish bryophyte attributes (BRYOATT)",
      "topics": [
        "add_bryoatt"
      ]
    },
    {
      "page": "add_ccdb",
      "title": "Add plant chromosome numbers (Chromosome Counts Database)",
      "topics": [
        "add_ccdb"
      ]
    },
    {
      "page": "add_cefas_btrait",
      "title": "Add benthic invertebrate traits (Cefas)",
      "topics": [
        "add_cefas_btrait"
      ]
    },
    {
      "page": "add_chelonians",
      "title": "Add turtle traits (CheloniansTraits)",
      "topics": [
        "add_chelonians"
      ]
    },
    {
      "page": "add_chowdhury",
      "title": "Add German ground-beetle traits and occupancy trends (Chowdhury et al. 2025)",
      "topics": [
        "add_chowdhury"
      ]
    },
    {
      "page": "add_classification",
      "title": "Add the full higher classification to a taxify result",
      "topics": [
        "add_classification"
      ]
    },
    {
      "page": "add_clopla",
      "title": "Add clonal and bud-bank traits (CLO-PLA)",
      "topics": [
        "add_clopla"
      ]
    },
    {
      "page": "add_col_info",
      "title": "Add COL-specific columns",
      "topics": [
        "add_col_info"
      ]
    },
    {
      "page": "add_combine",
      "title": "Add mammal traits (COMBINE)",
      "topics": [
        "add_combine"
      ]
    },
    {
      "page": "add_combine_imputed",
      "title": "Add mammal traits from COMBINE (phylogenetically imputed values)",
      "topics": [
        "add_combine_imputed"
      ]
    },
    {
      "page": "add_combine_reported",
      "title": "Add mammal traits from COMBINE (reported values)",
      "topics": [
        "add_combine_reported"
      ]
    },
    {
      "page": "add_common_names",
      "title": "Add common (vernacular) names",
      "topics": [
        "add_common_names"
      ]
    },
    {
      "page": "add_copepod_traits",
      "title": "Add copepod traits (Brun et al. 2017)",
      "topics": [
        "add_copepod_traits"
      ]
    },
    {
      "page": "add_coral_traits",
      "title": "Add scleractinian coral traits (Coral Trait Database)",
      "topics": [
        "add_coral_traits"
      ]
    },
    {
      "page": "add_data",
      "title": "Add custom data by taxonomic matching",
      "topics": [
        "add_data"
      ]
    },
    {
      "page": "add_diaz_traits",
      "title": "Add seed mass and plant height (Diaz et al. 2022)",
      "topics": [
        "add_diaz_traits"
      ]
    },
    {
      "page": "add_disperse",
      "title": "Add aquatic-invertebrate dispersal traits (DISPERSE)",
      "topics": [
        "add_disperse"
      ]
    },
    {
      "page": "add_eberswalde",
      "title": "Add Eberswalde long-term carabid monitoring traits and trends",
      "topics": [
        "add_eberswalde"
      ]
    },
    {
      "page": "add_ecoflora",
      "title": "Add British plant traits from Ecoflora",
      "topics": [
        "add_ecoflora"
      ]
    },
    {
      "page": "add_ecomorphosis",
      "title": "Add Collembola ecomorphosis (Bonfanti et al. 2022)",
      "topics": [
        "add_ecomorphosis"
      ]
    },
    {
      "page": "add_edwards_phyto",
      "title": "Add phytoplankton nutrient-uptake traits (Edwards et al.)",
      "topics": [
        "add_edwards_phyto"
      ]
    },
    {
      "page": "add_eive",
      "title": "Add EIVE ecological indicator values",
      "topics": [
        "add_eive"
      ]
    },
    {
      "page": "add_ellers_collembola",
      "title": "Add Collembola traits (Ellers et al. 2018)",
      "topics": [
        "add_ellers_collembola"
      ]
    },
    {
      "page": "add_elton_traits",
      "title": "Add diet, foraging, and body mass (EltonTraits 1.0)",
      "topics": [
        "add_elton_traits"
      ]
    },
    {
      "page": "add_epa_freshwater",
      "title": "Add freshwater invertebrate traits (US EPA)",
      "topics": [
        "add_epa_freshwater"
      ]
    },
    {
      "page": "add_eupolltrait",
      "title": "Add European pollinator traits (EuPollTrait)",
      "topics": [
        "add_eupolltrait"
      ]
    },
    {
      "page": "add_eurobat",
      "title": "Add European bat traits (EuroBaTrait)",
      "topics": [
        "add_eurobat"
      ]
    },
    {
      "page": "add_euromed_distribution",
      "title": "Add Euro+Med PlantBase distribution status",
      "topics": [
        "add_euromed_distribution"
      ]
    },
    {
      "page": "add_faprotax",
      "title": "Add prokaryote metabolic and ecological functions (FAPROTAX)",
      "topics": [
        "add_faprotax"
      ]
    },
    {
      "page": "add_finand",
      "title": "Add Helsinki urban-forest carabid traits (Finand & Kotze)",
      "topics": [
        "add_finand"
      ]
    },
    {
      "page": "add_fishbase",
      "title": "Add fish traits (FishBase)",
      "topics": [
        "add_fishbase"
      ]
    },
    {
      "page": "add_fishmorph",
      "title": "Add freshwater fish morphological traits (FISHMORPH)",
      "topics": [
        "add_fishmorph"
      ]
    },
    {
      "page": "add_fishtraits",
      "title": "Add United States freshwater fish traits (FishTraits)",
      "topics": [
        "add_fishtraits"
      ]
    },
    {
      "page": "add_floraweb",
      "title": "Add German plant traits from FloraWeb",
      "topics": [
        "add_floraweb"
      ]
    },
    {
      "page": "add_freshwater_insects_conus",
      "title": "Add freshwater-insect genus traits (Freshwater Insects CONUS)",
      "topics": [
        "add_freshwater_insects_conus"
      ]
    },
    {
      "page": "add_frugivoria",
      "title": "Add Neotropical frugivore traits (Frugivoria)",
      "topics": [
        "add_frugivoria"
      ]
    },
    {
      "page": "add_fungal_traits",
      "title": "Add fungal lifestyle and trait data (FungalTraits)",
      "topics": [
        "add_fungal_traits"
      ]
    },
    {
      "page": "add_fungalroot",
      "title": "Add mycorrhizal type from FungalRoot",
      "topics": [
        "add_fungalroot"
      ]
    },
    {
      "page": "add_funguild",
      "title": "Add fungal functional guild data (FUNGuild)",
      "topics": [
        "add_funguild"
      ]
    },
    {
      "page": "add_gbif_info",
      "title": "Add GBIF-specific columns",
      "topics": [
        "add_gbif_info"
      ]
    },
    {
      "page": "add_gidias",
      "title": "Add invasive-species impact (EICAT / SEICAT, GIDIAS)",
      "topics": [
        "add_gidias"
      ]
    },
    {
      "page": "add_gift",
      "title": "Add plant traits from GIFT",
      "topics": [
        "add_gift"
      ]
    },
    {
      "page": "add_globi",
      "title": "Add biotic interaction degree (GloBI)",
      "topics": [
        "add_globi"
      ]
    },
    {
      "page": "add_globtherm",
      "title": "Add thermal tolerance limits (GlobTherm)",
      "topics": [
        "add_globtherm"
      ]
    },
    {
      "page": "add_glonaf",
      "title": "Add naturalized alien flora status (GloNAF)",
      "topics": [
        "add_glonaf"
      ]
    },
    {
      "page": "add_gmpd",
      "title": "Add mammal parasite burden (GMPD 2.0)",
      "topics": [
        "add_gmpd"
      ]
    },
    {
      "page": "add_griis",
      "title": "Add invasive species status (GRIIS)",
      "topics": [
        "add_griis"
      ]
    },
    {
      "page": "add_groot",
      "title": "Add root traits (GRooT)",
      "topics": [
        "add_groot"
      ]
    },
    {
      "page": "add_gwdd",
      "title": "Add wood density (Global Wood Density Database v2)",
      "topics": [
        "add_gwdd"
      ]
    },
    {
      "page": "add_homerange",
      "title": "Add mammal home-range size (HomeRange)",
      "topics": [
        "add_homerange"
      ]
    },
    {
      "page": "add_hosts",
      "title": "Add Lepidoptera hostplant breadth (NHM HOSTS)",
      "topics": [
        "add_hosts"
      ]
    },
    {
      "page": "add_huang_amph",
      "title": "Add amphibian morphometrics (Huang)",
      "topics": [
        "add_huang_amph"
      ]
    },
    {
      "page": "add_hybrid_info",
      "title": "Add hybrid parent and type information",
      "topics": [
        "add_hybrid_info"
      ]
    },
    {
      "page": "add_hydraulics",
      "title": "Add plant hydraulic traits (Sanchez-Martinez et al.)",
      "topics": [
        "add_hydraulics"
      ]
    },
    {
      "page": "add_imageomics_neon",
      "title": "Add North American ground-beetle elytra measurements (Imageomics / NEON)",
      "topics": [
        "add_imageomics_neon"
      ]
    },
    {
      "page": "add_inrae_collembola_traits",
      "title": "Add Collembola traits (Data INRAE deposits)",
      "topics": [
        "add_inrae_collembola_traits"
      ]
    },
    {
      "page": "add_invacost",
      "title": "Add economic cost of biological invasions (InvaCost)",
      "topics": [
        "add_invacost"
      ]
    },
    {
      "page": "add_italic",
      "title": "Add Italian-lichen taxon-page traits (ITALIC)",
      "topics": [
        "add_italic"
      ]
    },
    {
      "page": "add_iucn",
      "title": "Add IUCN Red List conservation status",
      "topics": [
        "add_iucn"
      ]
    },
    {
      "page": "add_kew_cvalues",
      "title": "Add plant genome size (Kew Plant DNA C-values)",
      "topics": [
        "add_kew_cvalues"
      ]
    },
    {
      "page": "add_kew_sid",
      "title": "Add seed traits from the Kew Seed Information Database (SER-SID)",
      "topics": [
        "add_kew_sid"
      ]
    },
    {
      "page": "add_leda",
      "title": "Add plant traits from LEDA Traitbase",
      "topics": [
        "add_leda"
      ]
    },
    {
      "page": "add_leptraits",
      "title": "Add butterfly traits (LepTraits)",
      "topics": [
        "add_leptraits"
      ]
    },
    {
      "page": "add_madin",
      "title": "Add bacterial and archaeal traits (Madin et al.)",
      "topics": [
        "add_madin"
      ]
    },
    {
      "page": "add_monograph_collembola_body_length",
      "title": "Add Collembola body length (monographs)",
      "topics": [
        "add_monograph_collembola_body_length"
      ]
    },
    {
      "page": "add_nesttrait",
      "title": "Add bird nest traits (NestTrait)",
      "topics": [
        "add_nesttrait"
      ]
    },
    {
      "page": "add_noddb",
      "title": "Add root-nodule nitrogen fixation (NodDB)",
      "topics": [
        "add_noddb"
      ]
    },
    {
      "page": "add_nztd",
      "title": "Add NZ marine benthos traits (NZTD)",
      "topics": [
        "add_nztd"
      ]
    },
    {
      "page": "add_octocoral",
      "title": "Add octocoral traits (Octocoral Trait Database)",
      "topics": [
        "add_octocoral"
      ]
    },
    {
      "page": "add_odonata",
      "title": "Add odonate behavioural/ecological traits (OPD)",
      "topics": [
        "add_odonata"
      ]
    },
    {
      "page": "add_pantheria",
      "title": "Add mammal life-history traits (PanTHERIA)",
      "topics": [
        "add_pantheria"
      ]
    },
    {
      "page": "add_parravicini",
      "title": "Add reef-fish trophic guild (Parravicini)",
      "topics": [
        "add_parravicini"
      ]
    },
    {
      "page": "add_pelagic",
      "title": "Add pelagic species traits",
      "topics": [
        "add_pelagic"
      ]
    },
    {
      "page": "add_phylacine",
      "title": "Add mammal traits including extinct species (PHYLACINE)",
      "topics": [
        "add_phylacine"
      ]
    },
    {
      "page": "add_pignatti",
      "title": "Add Italian plant traits from Pignatti (on demand, via TR8)",
      "topics": [
        "add_pignatti"
      ]
    },
    {
      "page": "add_plantatt",
      "title": "Add British and Irish plant attributes (PLANTATT)",
      "topics": [
        "add_plantatt"
      ]
    },
    {
      "page": "add_plazi_collembola_body_length",
      "title": "Add Collembola body length (Plazi treatments)",
      "topics": [
        "add_plazi_collembola_body_length"
      ]
    },
    {
      "page": "add_pottier",
      "title": "Add amphibian heat tolerance (Pottier)",
      "topics": [
        "add_pottier"
      ]
    },
    {
      "page": "add_quimbayo",
      "title": "Add reef-fish traits (Quimbayo)",
      "topics": [
        "add_quimbayo"
      ]
    },
    {
      "page": "add_ramond",
      "title": "Add marine protist functional traits (Ramond et al.)",
      "topics": [
        "add_ramond"
      ]
    },
    {
      "page": "add_repttraits",
      "title": "Add reptile ecological traits and distribution (ReptTraits)",
      "topics": [
        "add_repttraits"
      ]
    },
    {
      "page": "add_rimet_phyto",
      "title": "Add phytoplankton cell metrics (Rimet & Druart)",
      "topics": [
        "add_rimet_phyto"
      ]
    },
    {
      "page": "add_saproxylic",
      "title": "Add saproxylic beetle morphology (Hagge)",
      "topics": [
        "add_saproxylic"
      ]
    },
    {
      "page": "add_sealifebase",
      "title": "Add aquatic-life traits (SeaLifeBase)",
      "topics": [
        "add_sealifebase"
      ]
    },
    {
      "page": "add_sharkipedia",
      "title": "Add elasmobranch life-history traits (Sharkipedia)",
      "topics": [
        "add_sharkipedia"
      ]
    },
    {
      "page": "add_sheld",
      "title": "Add freshwater mussel traits (SHELD)",
      "topics": [
        "add_sheld"
      ]
    },
    {
      "page": "add_spider_traits",
      "title": "Add spider traits (World Spider Trait Database)",
      "topics": [
        "add_spider_traits"
      ]
    },
    {
      "page": "add_sworm",
      "title": "Add earthworm ecological groups (sWorm)",
      "topics": [
        "add_sworm"
      ]
    },
    {
      "page": "add_tetradensity",
      "title": "Add population density (TetraDENSITY)",
      "topics": [
        "add_tetradensity"
      ]
    },
    {
      "page": "add_thermofresh",
      "title": "Add freshwater thermal-tolerance traits (ThermoFresh)",
      "topics": [
        "add_thermofresh"
      ]
    },
    {
      "page": "add_trait",
      "title": "Add a trait from every source that carries it",
      "topics": [
        "add_trait"
      ]
    },
    {
      "page": "add_tree_of_sex",
      "title": "Add sex-determination traits (Tree of Sex)",
      "topics": [
        "add_tree_of_sex"
      ]
    },
    {
      "page": "add_usda_fungus_host",
      "title": "Add fungal host breadth (USDA Fungus-Host Dataset)",
      "topics": [
        "add_usda_fungus_host"
      ]
    },
    {
      "page": "add_useful_plants",
      "title": "Add human-use categories (World Checklist of Useful Plant Species)",
      "topics": [
        "add_useful_plants"
      ]
    },
    {
      "page": "add_virion",
      "title": "Add host-virus association breadth (VIRION)",
      "topics": [
        "add_virion"
      ]
    },
    {
      "page": "add_wcvp",
      "title": "Add WCVP native range status",
      "topics": [
        "add_wcvp"
      ]
    },
    {
      "page": "add_wfo_info",
      "title": "Add WFO-specific columns",
      "topics": [
        "add_wfo_info"
      ]
    },
    {
      "page": "add_zanne",
      "title": "Add woodiness (Zanne et al. 2014)",
      "topics": [
        "add_zanne"
      ]
    },
    {
      "page": "add_zooplankton",
      "title": "Add marine zooplankton traits",
      "topics": [
        "add_zooplankton"
      ]
    },
    {
      "page": "children",
      "title": "List the accepted taxa within a genus or family",
      "topics": [
        "children"
      ]
    },
    {
      "page": "cite",
      "title": "Cite data sources used in a taxify result",
      "topics": [
        "cite",
        "cite.character",
        "cite.default"
      ]
    },
    {
      "page": "class2tree",
      "title": "Build a taxonomy tree from resolved names",
      "topics": [
        "class2tree",
        "print.taxify_tree"
      ]
    },
    {
      "page": "comm2sci",
      "title": "Resolve common (vernacular) names to scientific names",
      "topics": [
        "comm2sci"
      ]
    },
    {
      "page": "downstream",
      "title": "List all descendants of a taxon down to a target rank",
      "topics": [
        "downstream"
      ]
    },
    {
      "page": "enrichment_cols",
      "title": "Browse the columns a published dataset can attach",
      "topics": [
        "enrichment_cols"
      ]
    },
    {
      "page": "enrichment_groups",
      "title": "Browse the group values a grouped enrichment can filter on",
      "topics": [
        "enrichment_groups"
      ]
    },
    {
      "page": "euromed_areas",
      "title": "Euro+Med areas and their country codes",
      "topics": [
        "euromed_areas"
      ]
    },
    {
      "page": "export_data",
      "title": "Export a taxify result to file",
      "topics": [
        "export_data"
      ]
    },
    {
      "page": "gbif_backmatch",
      "title": "Link GBIF occurrence records back to the names they were requested for",
      "topics": [
        "gbif_backmatch"
      ]
    },
    {
      "page": "gbif_fetch",
      "title": "Fetch the records of a submitted GBIF download",
      "topics": [
        "gbif_fetch"
      ]
    },
    {
      "page": "gbif_request",
      "title": "Request GBIF occurrence data for a matched name list",
      "topics": [
        "gbif_request"
      ]
    },
    {
      "page": "gift_traits",
      "title": "Browse the bundled GIFT trait columns",
      "topics": [
        "gift_traits"
      ]
    },
    {
      "page": "id2name",
      "title": "Resolve backbone IDs to names",
      "topics": [
        "id2name"
      ]
    },
    {
      "page": "inspect",
      "title": "Inspect a name list for probable typos and other anomalies",
      "topics": [
        "inspect"
      ]
    },
    {
      "page": "install_backbones",
      "title": "Install taxonomic backbones for offline matching",
      "topics": [
        "install_backbones"
      ]
    },
    {
      "page": "list_backbones",
      "title": "List supported taxonomic backbones",
      "topics": [
        "list_backbones"
      ]
    },
    {
      "page": "list_enrichments",
      "title": "List available enrichments",
      "topics": [
        "list_enrichments"
      ]
    },
    {
      "page": "list_traits",
      "title": "List the traits available to add_trait()",
      "topics": [
        "list_traits"
      ]
    },
    {
      "page": "lookup_genus",
      "title": "Look up a genus in the register",
      "topics": [
        "lookup_genus"
      ]
    },
    {
      "page": "lowest_common",
      "title": "Lowest common taxon of a set of names",
      "topics": [
        "lowest_common"
      ]
    },
    {
      "page": "parse_name",
      "title": "Parse taxonomic names into their structural parts",
      "topics": [
        "parse_name"
      ]
    },
    {
      "page": "reconcile",
      "title": "Reconcile a checklist against a backbone's current treatment",
      "topics": [
        "reconcile"
      ]
    },
    {
      "page": "sci2comm",
      "title": "Resolve scientific names to common (vernacular) names",
      "topics": [
        "sci2comm"
      ]
    },
    {
      "page": "synonyms",
      "title": "List the synonyms of a name",
      "topics": [
        "synonyms"
      ]
    },
    {
      "page": "taxify",
      "title": "Match taxonomic names against local backbone databases",
      "topics": [
        "taxify"
      ]
    },
    {
      "page": "taxify_build",
      "title": "Build a backbone database from source",
      "topics": [
        "taxify_build"
      ]
    },
    {
      "page": "taxify_build_register",
      "title": "Build the genus register from source",
      "topics": [
        "taxify_build_register"
      ]
    },
    {
      "page": "taxify_clear_cache",
      "title": "Clear all cached backbones",
      "topics": [
        "taxify_clear_cache"
      ]
    },
    {
      "page": "taxify_data_dir",
      "title": "Get the taxify data directory",
      "topics": [
        "taxify_data_dir"
      ]
    },
    {
      "page": "taxify_databases",
      "title": "One overview of every database taxify knows about",
      "topics": [
        "taxify_databases"
      ]
    },
    {
      "page": "taxify_download",
      "title": "Download a pre-built taxify backbone",
      "topics": [
        "taxify_download"
      ]
    },
    {
      "page": "taxify_download_enrichment",
      "title": "Download one or more enrichment .vtr files",
      "topics": [
        "taxify_download_enrichment"
      ]
    },
    {
      "page": "taxify_example_data",
      "title": "Path to the bundled example database",
      "topics": [
        "taxify_example_data"
      ]
    },
    {
      "page": "taxify_ids",
      "title": "List every accepted ID of each matched name",
      "topics": [
        "taxify_ids"
      ]
    },
    {
      "page": "taxify_load_register",
      "title": "Load the unified genus register into memory",
      "topics": [
        "taxify_load_register"
      ]
    },
    {
      "page": "taxify_lock",
      "title": "Record the exact backbone and enrichment versions behind a result",
      "topics": [
        "taxify_lock"
      ]
    },
    {
      "page": "taxify_long",
      "title": "Reshape grouped enrichment columns to long format",
      "topics": [
        "taxify_long"
      ]
    },
    {
      "page": "taxify_pin",
      "title": "Pin or release installed taxify assets",
      "topics": [
        "taxify_pin"
      ]
    },
    {
      "page": "taxify_refresh_manifest",
      "title": "Invalidate the session manifest cache",
      "topics": [
        "taxify_refresh_manifest"
      ]
    },
    {
      "page": "taxify_regions",
      "title": "List the regions accepted by region=",
      "topics": [
        "taxify_regions"
      ]
    },
    {
      "page": "taxify_register_coverage",
      "title": "Show backbone coverage for a genus",
      "topics": [
        "taxify_register_coverage"
      ]
    },
    {
      "page": "taxify_restore",
      "title": "Check an install against a lockfile, and optionally reinstall what drifted",
      "topics": [
        "taxify_restore"
      ]
    },
    {
      "page": "taxify_store",
      "title": "Builds of a taxify asset held on disk",
      "topics": [
        "taxify_store"
      ]
    },
    {
      "page": "trait_info",
      "title": "Describe a trait's sources and units",
      "topics": [
        "trait_info"
      ]
    },
    {
      "page": "upstream",
      "title": "List the higher classification (ancestors) of a taxon",
      "topics": [
        "upstream"
      ]
    }
  ],
  "_pkglogo": "https://github.com/gcol33/taxify/raw/HEAD/man/figures/logo.svg",
  "_readme": "https://github.com/gcol33/taxify/raw/HEAD/README.md",
  "_rundeps": [
    "cli",
    "curl",
    "glue",
    "jsonlite",
    "libgeos",
    "lifecycle",
    "rlang",
    "tidyselect",
    "vctrs",
    "vectra",
    "withr"
  ],
  "_vignettes": [
    {
      "source": "enrichments.Rmd",
      "filename": "enrichments.html",
      "title": "Attaching published data",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Finding a dataset",
        "Attaching one dataset",
        "Datasets with one value per place or language",
        "One trait from several datasets",
        "Where each value came from",
        "Coverage",
        "How the values are joined",
        "Downloads and versions",
        "Where next",
        "References"
      ],
      "created": "2026-04-04 16:26:01",
      "modified": "2026-10-13 01:22:15",
      "commits": 47
    },
    {
      "source": "inspecting-names.Rmd",
      "filename": "inspecting-names.html",
      "title": "Checking a name list",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Checks without matching",
        "Checks on matched names",
        "Labels and tiers",
        "Checks against a region",
        "Using the report",
        "Comparing a checklist with a backbone",
        "Where next"
      ],
      "created": "2026-06-29 19:04:01",
      "modified": "2026-10-13 01:22:15",
      "commits": 11
    },
    {
      "source": "backbones.Rmd",
      "filename": "backbones.html",
      "title": "Choosing and combining backbones",
      "engine": "knitr::rmarkdown",
      "headings": [
        "The default fallback chain",
        "Naming the backbones",
        "Checking names outside a backbone",
        "Comparing backbones",
        "Columns from one backbone",
        "How the backbones differ in output",
        "Downloading and pinning versions",
        "Choosing backbones for a list",
        "Where next"
      ],
      "created": "2026-07-22 22:53:02",
      "modified": "2026-10-13 01:22:15",
      "commits": 10
    },
    {
      "source": "migration.Rmd",
      "filename": "migration.html",
      "title": "Compatibility with taxize and WorldFlora",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Matching the same names in both packages",
        "Agreement on a sample of WFO names",
        "Functions of taxize",
        "Functions of WorldFlora",
        "Differences",
        "Timings against WorldFlora",
        "When taxize or WorldFlora fits better",
        "Where next",
        "References"
      ],
      "created": "2026-04-04 16:26:01",
      "modified": "2026-10-13 01:22:15",
      "commits": 29
    },
    {
      "source": "exploring.Rmd",
      "filename": "exploring.html",
      "title": "Exploring the backbone",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Synonyms",
        "Taxa below a genus or family",
        "Ranks above a taxon",
        "IDs",
        "The parts of a name",
        "Common names",
        "Comparing a list",
        "Where next"
      ],
      "created": "2026-10-13 00:38:57",
      "modified": "2026-10-13 01:22:15",
      "commits": 2
    },
    {
      "source": "taxify.Rmd",
      "filename": "taxify.html",
      "title": "Get started",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Installation",
        "Matching a list of names",
        "Common errors when matching",
        "Checking the matches",
        "Joining your own data",
        "Joining published data",
        "Recording what was used",
        "Where next"
      ],
      "created": "2026-10-13 00:38:57",
      "modified": "2026-10-13 01:22:15",
      "commits": 4
    },
    {
      "source": "fuzzy-matching.Rmd",
      "filename": "fuzzy-matching.html",
      "title": "How names are matched",
      "engine": "knitr::rmarkdown",
      "headings": [
        "The stages",
        "Cleaning",
        "Fuzzy matching",
        "Distance methods",
        "The threshold",
        "Misspelt genera",
        "Checking fuzzy matches",
        "Names with more than one accepted taxon",
        "Synonyms and basionyms",
        "Infraspecific names",
        "Names no backbone matches",
        "Where next"
      ],
      "created": "2026-04-04 16:26:01",
      "modified": "2026-10-13 01:22:15",
      "commits": 12
    },
    {
      "source": "hybrids-and-aggregates.Rmd",
      "filename": "hybrids-and-aggregates.html",
      "title": "Hybrids and aggregates",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Hybrid names",
        "Hybrid parents",
        "How hybrids are detected",
        "Aggregates",
        "Traits for hybrids and aggregates",
        "Where next"
      ],
      "created": "2026-07-09 23:26:09",
      "modified": "2026-10-13 01:22:15",
      "commits": 12
    },
    {
      "source": "custom-data.Rmd",
      "filename": "custom-data.html",
      "title": "Joining your own data",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Joining a data frame",
        "Joining a file",
        "Choosing columns",
        "Repeated species",
        "Matching options",
        "Combining with published data",
        "Exporting the result",
        "How the join works",
        "Where next"
      ],
      "created": "2026-04-04 16:26:01",
      "modified": "2026-10-13 01:22:15",
      "commits": 18
    },
    {
      "source": "large-scale.Rmd",
      "filename": "large-scale.html",
      "title": "Matching large lists",
      "engine": "knitr::rmarkdown",
      "headings": [
        "How long matching takes",
        "Lists that need no fuzzy matching",
        "Ordering the backbones",
        "Long lists in parts",
        "Memory",
        "Downloads before a run",
        "Where the files are",
        "Where next"
      ],
      "created": "2026-04-04 16:26:01",
      "modified": "2026-10-13 01:22:15",
      "commits": 37
    },
    {
      "source": "vegetation-units.Rmd",
      "filename": "vegetation-units.html",
      "title": "Matching vegetation units",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Names of vegetation units",
        "The two backbones",
        "Matching unit names",
        "The units above each name",
        "From a national association to a European alliance",
        "Mixing taxa and vegetation units",
        "How the backbones were built",
        "Where next",
        "References"
      ],
      "created": "2026-10-13 00:38:57",
      "modified": "2026-10-13 01:22:15",
      "commits": 2
    },
    {
      "source": "regions.Rmd",
      "filename": "regions.html",
      "title": "Matching within a region",
      "engine": "knitr::rmarkdown",
      "headings": [
        "A misspelling with two candidates",
        "How the region filter decides",
        "Naming the region",
        "Coordinates",
        "Native or introduced records",
        "Marine regions",
        "Where next",
        "References"
      ],
      "created": "2026-06-29 19:04:01",
      "modified": "2026-10-13 01:22:15",
      "commits": 12
    },
    {
      "source": "gbif-requests.Rmd",
      "filename": "gbif-requests.html",
      "title": "Requesting GBIF data for a species list",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Matching the names to keys",
        "Several keys for one name",
        "What a request covers",
        "Results matched against another backbone",
        "Setting up rgbif",
        "Sending the request",
        "Linking records to the requested names",
        "Citing the download",
        "Where next"
      ],
      "created": "2026-09-23 14:40:57",
      "modified": "2026-10-13 01:22:15",
      "commits": 22
    }
  ],
  "_score": 7.66147192876662,
  "_indexed": true,
  "_nocasepkg": "taxify",
  "_universes": [
    "gcol33"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "0.7.0",
      "date": "2026-10-13T12:07:32.000Z",
      "distro": "resolute",
      "commit": "23db251444bbba33af43aab55d704c8330b73870",
      "fileid": "https://r2.ropensci.org/13a62369903eb372725ee5cfa661e0b8ce27705a3c3aaf1d98c582aff05c82ae",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/gcol33/actions/runs/38394077748"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "0.7.0",
      "date": "2026-10-13T12:07:07.000Z",
      "distro": "resolute",
      "commit": "23db251444bbba33af43aab55d704c8330b73870",
      "fileid": "https://r2.ropensci.org/1ec67cf4c66f1274c5ab0b002245ae8f7613a810577fa25e9d6af365d44c3af5",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/gcol33/actions/runs/38394077748"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "0.7.0",
      "date": "2026-10-13T12:09:34.000Z",
      "commit": "23db251444bbba33af43aab55d704c8330b73870",
      "fileid": "https://r2.ropensci.org/10122f8ce34e99369397d7b90af614e569604a616a072c8926d0fd53582b930d",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/gcol33/actions/runs/38394077748"
    },
    {
      "r": "4.6.1",
      "os": "mac",
      "version": "0.7.0",
      "date": "2026-10-13T12:09:46.000Z",
      "commit": "23db251444bbba33af43aab55d704c8330b73870",
      "fileid": "https://r2.ropensci.org/f202964473248a805e9ca1f33558a98d3d0333ddb5cedbfcfa2191b3e97a17cc",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/gcol33/actions/runs/38394077748"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "0.7.0",
      "date": "2026-10-13T12:07:10.000Z",
      "commit": "23db251444bbba33af43aab55d704c8330b73870",
      "fileid": "https://r2.ropensci.org/a0547f26679b52aa4bb37c95924b79e3145c141446262e3d999514506818e178",
      "status": "success",
      "buildurl": "https://github.com/r-universe/gcol33/actions/runs/38394077748"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "0.7.0",
      "date": "2026-10-13T12:05:45.000Z",
      "commit": "23db251444bbba33af43aab55d704c8330b73870",
      "fileid": "https://r2.ropensci.org/9abe6768e86ac8e79813e6489d071fb8c92ffdbd703108fc90a544b6a7e8a957",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/gcol33/actions/runs/38394077748"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "0.7.0",
      "date": "2026-10-13T12:06:03.000Z",
      "commit": "23db251444bbba33af43aab55d704c8330b73870",
      "fileid": "https://r2.ropensci.org/c6e3c8c3aaa5f8b1325728228f9b417659cd03157918d2ddfb21531c2648e73b",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/gcol33/actions/runs/38394077748"
    },
    {
      "r": "4.6.1",
      "os": "win",
      "version": "0.7.0",
      "date": "2026-10-13T12:06:02.000Z",
      "commit": "23db251444bbba33af43aab55d704c8330b73870",
      "fileid": "https://r2.ropensci.org/eb42c27ac4cacf6dbb82f90663edb845b6fa6f94256ca6c36c7a64e73386fa2c",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/gcol33/actions/runs/38394077748"
    }
  ]
}