{
  "_id": "69dca8d7c5259ad4cd885a64",
  "Package": "neotoma2",
  "Title": "Working with the Neotoma Paleoecology Database",
  "Date": "2025-12-13",
  "Version": "1.0.11",
  "Authors@R": "c(person(given = \"Dominguez Vidana\",\nfamily = \"Socorro\",\nrole = c(\"aut\", \"cre\"),\nemail = \"dominguezvid@wisc.edu\",\ncomment = structure(\"0000-0002-7926-4935\", .Names = \"ORCID\")),\nperson(given = \"Simon\",\nfamily = \"Goring\",\nrole = c(\"aut\"),\nemail = \"goring@wisc.edu\",\ncomment = structure(\"0000-0002-2700-4605\", .Names = \"ORCID\")))",
  "URL": "https://github.com/NeotomaDB/neotoma2",
  "BugReports": "https://github.com/NeotomaDB/neotoma2/issues",
  "Description": "Access and manipulation of data using the Neotoma\nPaleoecology Database. <https://api.neotomadb.org/api-docs/>.\nExamples in functions that require API access are not executed\nduring CRAN checks. Vignettes do not execute as to avoid API\ncalls during CRAN checks.",
  "License": "MIT + file LICENSE",
  "Encoding": "UTF-8",
  "Roxygen": "list(markdown = TRUE)",
  "RoxygenNote": "7.3.3",
  "VignetteBuilder": "knitr",
  "Config/pak/sysreqs": "libabsl-dev cmake libgdal-dev gdal-bin libgeos-dev\nmake libicu-dev libpng-dev libuv1-dev libssl-dev libproj-dev\nlibsqlite3-dev libudunits2-dev",
  "Repository": "https://neotomadb.r-universe.dev",
  "Date/Publication": "2025-12-14 06:11:25 UTC",
  "RemoteUrl": "https://github.com/neotomadb/neotoma2",
  "RemoteRef": "HEAD",
  "RemoteSha": "b1e0e3fd740ac6b0bcf569f039d4c5d107c82624",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-04-13 08:21:56 UTC",
    "User": "root"
  },
  "Author": "Dominguez Vidana Socorro [aut, cre] (ORCID:\n<https://orcid.org/0000-0002-7926-4935>),\nSimon Goring [aut] (ORCID: <https://orcid.org/0000-0002-2700-4605>)",
  "Maintainer": "Dominguez Vidana Socorro <dominguezvid@wisc.edu>",
  "MD5sum": "b696e80bfa798170edd75ce66af529fc",
  "_user": "neotomadb",
  "_type": "src",
  "_file": "neotoma2_1.0.11.tar.gz",
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  "_filesize": 1457269,
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  "_created": "2026-04-13T08:21:56.000Z",
  "_distro": "noble",
  "_jobs": [
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      "config": "linux-devel-x86_64",
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  ],
  "_buildurl": "https://github.com/r-universe/neotomadb/actions/runs/24333088569",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/neotomadb/neotoma2",
  "_commit": {
    "id": "b1e0e3fd740ac6b0bcf569f039d4c5d107c82624",
    "author": "Socorro DominguezVidana <seiryu88@icloud.com>",
    "committer": "Socorro DominguezVidana <seiryu88@icloud.com>",
    "message": "Uploading examples to include dontrun instead to avoid touching api at all\n",
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  "_maintainer": {
    "name": "Dominguez Vidana Socorro",
    "email": "dominguezvid@wisc.edu",
    "login": "sedv8808",
    "uuid": 42593920,
    "orcid": "0000-0002-7926-4935"
  },
  "_registered": true,
  "_dependencies": [
    {
      "package": "rlang",
      "role": "Imports"
    },
    {
      "package": "magrittr",
      "role": "Imports"
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      "package": "sf",
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      "package": "digest",
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    {
      "package": "geojsonsf",
      "role": "Imports"
    },
    {
      "package": "purrr",
      "role": "Imports"
    },
    {
      "package": "httr",
      "role": "Imports"
    },
    {
      "package": "jsonlite",
      "role": "Imports"
    },
    {
      "package": "methods",
      "role": "Imports"
    },
    {
      "package": "dplyr",
      "role": "Imports"
    },
    {
      "package": "leaflet",
      "role": "Imports"
    },
    {
      "package": "assertthat",
      "role": "Imports"
    },
    {
      "package": "stringr",
      "role": "Imports"
    },
    {
      "package": "progress",
      "role": "Imports"
    },
    {
      "package": "uuid",
      "role": "Imports"
    },
    {
      "package": "utils",
      "role": "Imports"
    },
    {
      "package": "tidyr",
      "role": "Imports"
    },
    {
      "package": "testthat",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "pkgdown",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
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      "package": "ggplot2",
      "role": "Suggests"
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    {
      "package": "Bchron",
      "role": "Suggests"
    },
    {
      "package": "covr",
      "role": "Suggests"
    }
  ],
  "_owner": "neotomadb",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
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      "n": 1
    },
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  ],
  "_tags": [
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      "date": "2025-06-25"
    },
    {
      "name": "CRANv1.0.7",
      "date": "2025-07-14"
    },
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      "date": "2025-11-18"
    },
    {
      "name": "CRANv1.0.9",
      "date": "2025-11-25"
    }
  ],
  "_topics": [
    "earthcube",
    "neotoma",
    "nsf",
    "paleoecology"
  ],
  "_stars": 9,
  "_contributors": [
    {
      "user": "sedv8808",
      "count": 555,
      "uuid": 42593920
    },
    {
      "user": "simongoring",
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      "uuid": 1619126
    },
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      "uuid": 77505511
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    },
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    },
    {
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      "uuid": 6627259
    }
  ],
  "_userbio": {
    "uuid": 19538006,
    "type": "organization",
    "name": "The Neotoma Paleoecology Database Collective",
    "description": "Data and code supporting collaboration and outreach around the Neotoma Paleoecology Database"
  },
  "_downloads": {
    "count": 365,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/neotoma2"
  },
  "_devurl": "https://github.com/neotomadb/neotoma2",
  "_searchresults": 90,
  "_rbuild": "4.5.3",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/neotoma2.html",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/readme.html",
    "extra/readme.md",
    "manual.pdf"
  ],
  "_homeurl": "https://github.com/neotomadb/neotoma2",
  "_realowner": "neotomadb",
  "_cranurl": true,
  "_releases": [
    {
      "version": "1.0.0",
      "date": "2023-04-20"
    },
    {
      "version": "1.0.1",
      "date": "2023-05-23"
    },
    {
      "version": "1.0.2",
      "date": "2023-06-29"
    },
    {
      "version": "1.0.3",
      "date": "2024-02-28"
    },
    {
      "version": "1.0.4",
      "date": "2024-07-28"
    },
    {
      "version": "1.0.5",
      "date": "2024-08-20"
    },
    {
      "version": "1.0.6",
      "date": "2025-06-25"
    },
    {
      "version": "1.0.7",
      "date": "2025-07-15"
    },
    {
      "version": "1.0.8",
      "date": "2025-11-18"
    },
    {
      "version": "1.0.9",
      "date": "2025-11-26"
    },
    {
      "version": "1.0.10",
      "date": "2025-12-11"
    },
    {
      "version": "1.0.11",
      "date": "2025-12-14"
    }
  ],
  "_exports": [
    "%>%",
    "add_chronology",
    "as.data.frame",
    "check_contacts",
    "chroncontrols",
    "chronologies",
    "cite_data",
    "clean",
    "collunits",
    "coordinates",
    "datasets",
    "doi",
    "filter",
    "get_contacts",
    "get_datasets",
    "get_documentation",
    "get_downloads",
    "get_manual",
    "get_publications",
    "get_sites",
    "get_speleothems",
    "get_stats",
    "get_table",
    "get_taxa",
    "get_taxon",
    "getids",
    "getids.sites",
    "pingNeotoma",
    "plot",
    "plotLeaflet",
    "samples",
    "set_chronology",
    "set_collunit",
    "set_contact",
    "set_dataset",
    "set_default",
    "set_publication",
    "set_sample",
    "set_server",
    "set_site",
    "set_speleothem",
    "speleothemdetails",
    "speleothems",
    "summary",
    "taxa",
    "toWide"
  ],
  "_help": [
    {
      "page": "sub",
      "title": "sub",
      "topics": [
        "sub,collunits-method",
        "sub,datasets-method",
        "sub,speleothems-method",
        "sub,taxa-method",
        "[",
        "[,collunits,numeric-method",
        "[,datasets,numeric-method",
        "[,site,character-method",
        "[,site,numeric-method",
        "[,sites,numeric-method",
        "[,speleothems,numeric-method",
        "[,taxa,numeric-method"
      ]
    },
    {
      "page": "sub-sub",
      "title": "sub-sub",
      "topics": [
        "sub-sub",
        "sub-sub,collunits-method",
        "sub-sub,contacts-method",
        "sub-sub,datasets-method",
        "sub-sub,publications-method",
        "sub-sub,samples-method",
        "sub-sub,speleothems-method",
        "sub-sub,taxa-method",
        "[[,chronologies,numeric-method",
        "[[,collunits,numeric-method",
        "[[,contacts,numeric-method",
        "[[,datasets,numeric-method",
        "[[,publications,numeric-method",
        "[[,samples,numeric-method",
        "[[,sites,numeric-method",
        "[[,speleothems,numeric-method",
        "[[,taxa,numeric-method"
      ]
    },
    {
      "page": "sub-subset",
      "title": "sub-subset",
      "topics": [
        "sub-subset",
        "sub-subset,collunits-method",
        "sub-subset,datasets-method",
        "sub-subset,publications-method",
        "sub-subset,samples-method",
        "sub-subset,speleothems-method",
        "sub-subset,taxa-method",
        "[[<-,collunits-method",
        "[[<-,datasets-method",
        "[[<-,publications-method",
        "[[<-,samples-method",
        "[[<-,sites-method",
        "[[<-,speleothems-method",
        "[[<-,taxa-method"
      ]
    },
    {
      "page": "subset",
      "title": "subset",
      "topics": [
        "subset",
        "subset,collunit-method",
        "subset,dataset-method",
        "subset,sample-method",
        "subset,speleothem-method",
        "subset,taxon-method",
        "[<-,collunit,character-method",
        "[<-,collunit,numeric-method",
        "[<-,dataset,character-method",
        "[<-,dataset,numeric-method",
        "[<-,sample,character-method",
        "[<-,site,character-method",
        "[<-,site,numeric-method",
        "[<-,speleothem,character-method",
        "[<-,speleothem,numeric-method",
        "[<-,taxon,character-method",
        "[<-,taxon,numeric-method"
      ]
    },
    {
      "page": "cash",
      "title": "cash",
      "topics": [
        "$,chronologies-method",
        "$,chronology-method",
        "$,collunit-method",
        "$,collunits-method",
        "$,contact-method",
        "$,contacts-method",
        "$,dataset-method",
        "$,datasets-method",
        "$,publication-method",
        "$,sample-method",
        "$,samples-method",
        "$,site-method",
        "$,sites-method",
        "$,speleothem-method",
        "$,speleothems-method",
        "$,taxa-method",
        "$,taxon-method",
        "cash",
        "cash,collunit-method",
        "cash,collunits-method",
        "cash,contact-method",
        "cash,contacts-method",
        "cash,dataset-method",
        "cash,datasets-method",
        "cash,publication-method",
        "cash,sample-method",
        "cash,samples-method",
        "cash,speleothem-method",
        "cash,speleothems-method",
        "cash,taxa-method",
        "cash,taxon-method"
      ]
    },
    {
      "page": "cash-set",
      "title": "cash-set",
      "topics": [
        "$<-,chronology-method",
        "$<-,collunit-method",
        "$<-,dataset-method",
        "$<-,site-method",
        "$<-,speleothem-method",
        "$<-,taxon-method",
        "cash-set",
        "cash-set,collunit-method",
        "cash-set,dataset-method",
        "cash-set,speleothem-method",
        "cash-set,taxon-method"
      ]
    },
    {
      "page": "add_chronology",
      "title": "Add a new chronology into an existing collectionunit.",
      "topics": [
        "add_chronology",
        "add_chronology,collunit,chronology,data.frame-method",
        "add_chronology,collunit-method"
      ]
    },
    {
      "page": "as.data.frame",
      "title": "as.data.frame",
      "topics": [
        "as.data.frame",
        "as.data.frame,authors-method",
        "as.data.frame,chronologies-method",
        "as.data.frame,chronology-method",
        "as.data.frame,collunit-method",
        "as.data.frame,collunits-method",
        "as.data.frame,contact-method",
        "as.data.frame,contacts-method",
        "as.data.frame,dataset-method",
        "as.data.frame,datasets-method",
        "as.data.frame,publication-method",
        "as.data.frame,publications-method",
        "as.data.frame,site-method",
        "as.data.frame,sites-method",
        "as.data.frame,speleothem-method",
        "as.data.frame,speleothems-method",
        "as.data.frame,taxa-method",
        "as.data.frame,taxon-method"
      ]
    },
    {
      "page": "author_classes",
      "title": "An S4 class for the authors of a Neotoma publication.",
      "topics": [
        "author-class",
        "authors-class",
        "author_classes"
      ]
    },
    {
      "page": "c",
      "title": "c - Combine 'neotoma2' objects",
      "topics": [
        "c",
        "c,chronologies-method",
        "c,collunits-method",
        "c,contact-method",
        "c,contacts-method",
        "c,datasets-method",
        "c,missingOrNULL-method",
        "c,publications-method",
        "c,samples-method",
        "c,sites-method",
        "c,speleothems-method",
        "c,taxa-method"
      ]
    },
    {
      "page": "check_contacts",
      "title": "Check contact information for a record against Neotoma contributors",
      "topics": [
        "check_contacts",
        "check_contacts.contacts"
      ]
    },
    {
      "page": "chroncontrols",
      "title": "chroncontrols",
      "topics": [
        "chroncontrols"
      ]
    },
    {
      "page": "chroncontrols-site-method",
      "title": "Recover information about the chron controls for a collectionunit.",
      "topics": [
        "chroncontrols,site-method"
      ]
    },
    {
      "page": "chroncontrols-sites-method",
      "title": "Recover information about the chron controls for a collectionunit.",
      "topics": [
        "chroncontrols,sites-method"
      ]
    },
    {
      "page": "chronologies",
      "title": "Obtain the chronology from a record or multiple records.",
      "topics": [
        "chronologies",
        "chronologies,collunits-method",
        "chronologies,site-method",
        "chronologies,sites-method"
      ]
    },
    {
      "page": "chronologies_classes",
      "title": "S4 class for 'chronologies' information",
      "topics": [
        "chronologies-class",
        "chronologies_classes",
        "chronology-class"
      ]
    },
    {
      "page": "chronologies-collunit-method",
      "title": "Extract 'chronologies' from a 'site's or 'collunits' object.",
      "topics": [
        "chronologies,collunit-method"
      ]
    },
    {
      "page": "cite_data",
      "title": "Generate a data citation from a Neotoma2 object.",
      "topics": [
        "cite_data",
        "cite_data,NULL-method",
        "cite_data,site-method"
      ]
    },
    {
      "page": "cite_data-sites-method",
      "title": "Obtain data citations from multiple records.",
      "topics": [
        "cite_data,sites-method"
      ]
    },
    {
      "page": "clean",
      "title": "clean Neotoma objects to remove duplicates and empty objects.",
      "topics": [
        "clean",
        "clean.collunits",
        "clean.datasets",
        "clean.sites"
      ]
    },
    {
      "page": "collunits",
      "title": "Extract collection units from a sites object",
      "topics": [
        "collunits",
        "collunits,site-method"
      ]
    },
    {
      "page": "collunits_classes",
      "title": "S4 class for collection units information.",
      "topics": [
        "collunit-class",
        "collunits-class",
        "collunits_classes"
      ]
    },
    {
      "page": "collunits-sites-method",
      "title": "Extract 'collunits' from a 'sites' object.",
      "topics": [
        "collunits,sites-method"
      ]
    },
    {
      "page": "contacts_classes",
      "title": "An S4 class for multi-contact information from the Neotoma Paleoecology Database.",
      "topics": [
        "contact-class",
        "contacts-class",
        "contacts_classes"
      ]
    },
    {
      "page": "coordinates",
      "title": "Obtain coordinates from a sites object.",
      "topics": [
        "coordinates"
      ]
    },
    {
      "page": "coordinates-sites-method",
      "title": "Return the latitude and longitude of sites",
      "topics": [
        "coordinates,sites-method"
      ]
    },
    {
      "page": "datasets_classes",
      "title": "S4 class for 'datasets' information",
      "topics": [
        "dataset-class",
        "datasets-class"
      ]
    },
    {
      "page": "datasets",
      "title": "Extract datasets from a sites object.",
      "topics": [
        "datasets",
        "datasets,collunit-method",
        "datasets,site-method",
        "datasets,sites-method"
      ]
    },
    {
      "page": "datasets-collunits-method",
      "title": "Extract 'datasets' from a 'sites' or 'collunits' object.",
      "topics": [
        "datasets,collunits-method"
      ]
    },
    {
      "page": "doi",
      "title": "Obtain the DOI for publications or datasets.",
      "topics": [
        "doi",
        "doi,publication-method",
        "doi,site-method"
      ]
    },
    {
      "page": "doi-sites-method",
      "title": "Obtain dataset DOIs from records.",
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