rgbif: Interface to the Global 'Biodiversity' Information Facility 'API'

A programmatic interface to the Web Service methods provided by the Global Biodiversity Information Facility ('GBIF'). 'GBIF' is a database of species occurrence records from sources all over the globe. 'rgbif' includes functions for searching for taxonomic names, retrieving information on data providers, getting species occurrence records, and getting counts of occurrence records.

AuthorScott Chamberlain [aut, cre], Vijay Barve [ctb], Dan Mcglinn [ctb]
Date of publication2016-12-06 08:14:54
MaintainerScott Chamberlain <myrmecocystus@gmail.com>
LicenseMIT + file LICENSE
Version0.9.6
https://github.com/ropensci/rgbif

View on CRAN

Man pages

blanktheme: Custom ggplot2 theme

check_wkt: Check input WKT

count_facet: Facetted count occurrence search.

create_gist: Function that takes a list of files and creates payload for...

dataset_metrics: Get details on a GBIF dataset.

datasets: Search for datasets and dataset metadata.

dataset_search: Search datasets in GBIF.

dataset_suggest: Suggest datasets in GBIF.

densitylist: The density web service provides access to records showing...

density_spplist: The density web service provides access to records showing...

downloads: Downloads interface

elevation: Get elevation for lat/long points from a data.frame or list...

enumeration: Enumerations.

gbif_bbox2wkt: Convert a bounding box to a Well Known Text polygon, and a...

gbif_citation: Get citation for datasets used

gbifdata: Get data.frame from occurrencelist, occurrencelist_many, or...

gbif_issues: Table of GBIF issues, with codes used in data output, full...

gbifmap: Make a map to visualize GBIF occurrence data.

gbifmap_dens: Make a simple map to visualize GBIF data density data

gbifmap_list: Make a simple map to visualize GBIF point data.

gbif_names: View highlighted terms in name results from GBIF.

gbif_oai: GBIF registry data via OAI-PMH

gbif_photos: View photos from GBIF.

get_credentials: Get Github credentials from use in console

gist: Post a file as a Github gist

installations: Installations metadata.

isocodes: Table of country two character ISO codes, and GBIF names

name_backbone: Lookup names in the GBIF backbone taxonomy.

name_lookup: Lookup names in all taxonomies in GBIF.

name_suggest: A quick and simple autocomplete service that returns up to 20...

name_usage: Lookup details for specific names in all taxonomies in GBIF.

networks: Networks metadata.

nodes: Nodes metadata.

occ_count: Get number of occurrence records.

occ_data: Search for GBIF occurrences - simplified for speed

occ_download: Spin up a download request for GBIF occurrence data.

occ_download_cancel: Cancel a download cretion process.

occ_download_get: Get a download from GBIF.

occ_download_import: Import a downloaded file from GBIF.

occ_download_list: Lists the downloads created by a user.

occ_download_meta: Retrieves the occurrence download metadata by its unique key.

occ_facet: Facet GBIF occurrences

occ_fields: Vector of fields in the output for the function 'occ_search'

occ_get: Get data for specific GBIF occurrences.

occ_issues: Parse and examine further GBIF issues on a dataset.

occ_issues_lookup: Lookup occurrence issue definitions and short codes

occ_metadata: Search for catalog numbers, collection codes, collector...

occ_search: Search for GBIF occurrences

occ_spellcheck: Spell check search term for occurrence searches

occurrencecount: Counts taxon concept records matching a range of filters.

occurrencedensity: Returns summary counts of occurrence records by one-degree...

occurrenceget: Get individual records for a given occurrence record.

occurrencelist: Occurrencelist searches for taxon concept records matching a...

occurrencelist_all: Occurrencelist_all carries out an occurrencelist query for a...

occurrencelist_many: occurrencelist_many is the same as occurrencelist, but takes...

organizations: Organizations metadata.

parsenames: Parse taxon names using the GBIF name parser.

pipe: Pipe operator

providers: Get data providers and their unique keys.

read_wkt: Check input WKT

resources: Get data resources and their unique keys.

rgb_country_codes: Look up 2 character ISO country codes

rgbif-defunct: Defunct functions in rgbif

rgbif-package: Interface to the Global Biodiversity Information Facility...

stylegeojson: Style a data.frame prior to converting to geojson.

suggestfields: Fields available in gbif_suggest function

taxoncount: Search by taxon to retrieve number of records in GBIF.

taxonget: Get taxonomic information on a specific taxon or taxa in GBIF...

taxonsearch: Search for taxa in GBIF.

taxrank: Get the possible values to be used for (taxonomic) rank...

togeojson: Convert spatial data files to GeoJSON from various formats.

typestatus: Type status options for GBIF searching

type_sum: Type summary

wkt_parse: parse wkt into smaller bits

Files in this package

rgbif
rgbif/inst
rgbif/inst/singlemaplayout.html
rgbif/inst/assets
rgbif/inst/assets/class_checking_occ_search.r
rgbif/inst/assets/img
rgbif/inst/assets/img/occurrencelist_many.png
rgbif/inst/assets/img/occurrencelist.png
rgbif/inst/assets/img/unnamed-chunk-8-1.png
rgbif/inst/assets/img/gbifmap.png
rgbif/inst/assets/typestatus.csv
rgbif/inst/doc
rgbif/inst/doc/rgbif_vignette.Rmd
rgbif/inst/doc/issues_vignette.Rmd
rgbif/inst/doc/rgbif_vignette.html
rgbif/inst/doc/issues_vignette.html
rgbif/inst/doc/taxonomic_names.Rmd
rgbif/inst/doc/taxonomic_names.html
rgbif/inst/js
rgbif/inst/js/terraformer-wkt-parser.js
rgbif/inst/js/README.md
rgbif/inst/js/LICENSE
rgbif/inst/vign
rgbif/inst/vign/rgbif_vignette.Rmd
rgbif/inst/vign/issues_vignette.Rmd
rgbif/inst/vign/taxonomic_names.md
rgbif/inst/vign/figure
rgbif/inst/vign/figure/gbifmap1-1.png
rgbif/inst/vign/rgbif_vignette.md
rgbif/inst/vign/taxonomic_names.Rmd
rgbif/inst/vign/issues_vignette.md
rgbif/tests
rgbif/tests/testthat
rgbif/tests/testthat/test-read_wkt.R
rgbif/tests/testthat/test-wkt_large.R
rgbif/tests/testthat/test-occ_facet.R
rgbif/tests/testthat/test-dataset_search.r
rgbif/tests/testthat/test-dataset_suggest.r
rgbif/tests/testthat/test-installations.r
rgbif/tests/testthat/test-gbif_photos.R
rgbif/tests/testthat/test-gbifmap.r
rgbif/tests/testthat/test-name_usage.r
rgbif/tests/testthat/test-datasets.r
rgbif/tests/testthat/test-count_facet.r
rgbif/tests/testthat/test-gbif_names.R
rgbif/tests/testthat/test-occ_spellcheck.R
rgbif/tests/testthat/test-organizations.r
rgbif/tests/testthat/test-occ_data.R
rgbif/tests/testthat/test-occ_search.r
rgbif/tests/testthat/test-networks.r
rgbif/tests/testthat/test-occ_count.r
rgbif/tests/testthat/test-nodes.r
rgbif/tests/testthat/test-occ_metadata.r
rgbif/tests/testthat/test-occ_get.r
rgbif/tests/testthat/test-download_parsing.R
rgbif/tests/testthat/test-country_codes.r
rgbif/tests/testthat/test-elevation.R
rgbif/tests/testthat/test-name_backbone.r
rgbif/tests/testthat/test-dataset_metrics.r
rgbif/tests/testthat/test-name_lookup.r
rgbif/tests/testthat/test-enumeration.r
rgbif/tests/testthat/test-occ_issues_lookup.R
rgbif/tests/testthat/test-name_suggest.r
rgbif/tests/testthat/test-oai.R
rgbif/tests/testthat/test-parsenames.r
rgbif/tests/testthat/test-occ_issues.R
rgbif/tests/test-all.R
rgbif/NAMESPACE
rgbif/NEWS.md
rgbif/data
rgbif/data/typestatus.rda
rgbif/data/occ_fields.rda
rgbif/data/isocodes.rda
rgbif/R
rgbif/R/gbif_issues.R
rgbif/R/occ_search.r
rgbif/R/organizations.r
rgbif/R/globals.r
rgbif/R/geometry_utils.R rgbif/R/read_wkt.R rgbif/R/on_load.R rgbif/R/occ_facet.R rgbif/R/occ_download_import.R rgbif/R/parsenames.R rgbif/R/print_gbif.R
rgbif/R/occ_metadata.r
rgbif/R/plyr_fxns.R
rgbif/R/dataset_search.r
rgbif/R/nodes.r
rgbif/R/check_wkt.r
rgbif/R/pipe.R
rgbif/R/occ_get.r
rgbif/R/name_suggest.r
rgbif/R/downloads.R rgbif/R/occ_download_cancel.R
rgbif/R/rgbif-package.r
rgbif/R/tbl_df_utils.R
rgbif/R/elevation.r
rgbif/R/rgb_country_codes.r
rgbif/R/datasets.r
rgbif/R/installations.r
rgbif/R/dataset_metrics.r
rgbif/R/occ_download_get.r
rgbif/R/overload_classes.R rgbif/R/enumeration.R
rgbif/R/occ_issues.r
rgbif/R/oai-pmh.R rgbif/R/taxrank.R rgbif/R/occ_download.R
rgbif/R/gbif_photos.r
rgbif/R/name_usage.r
rgbif/R/gbif_citation.R
rgbif/R/count_facet.r
rgbif/R/zzz.r
rgbif/R/wkt_parse.R rgbif/R/defunct.R
rgbif/R/occ_issues_lookup.r
rgbif/R/name_backbone.r
rgbif/R/name_lookup.r
rgbif/R/occ_download_meta.R rgbif/R/bbox.R rgbif/R/occ_data.R rgbif/R/gbif_names.R
rgbif/R/networks.r
rgbif/R/occ_download_list.R rgbif/R/occ_spellcheck.R
rgbif/R/dataset_suggest.r
rgbif/R/occ_count.r
rgbif/R/gbifmap.r
rgbif/vignettes
rgbif/vignettes/rgbif_vignette.Rmd
rgbif/vignettes/issues_vignette.Rmd
rgbif/vignettes/taxonomic_names.Rmd
rgbif/README.md
rgbif/MD5
rgbif/build
rgbif/build/vignette.rds
rgbif/DESCRIPTION
rgbif/man
rgbif/man/rgb_country_codes.Rd rgbif/man/organizations.Rd rgbif/man/create_gist.Rd rgbif/man/rgbif-package.Rd rgbif/man/pipe.Rd rgbif/man/occurrenceget.Rd rgbif/man/occ_fields.Rd rgbif/man/name_lookup.Rd rgbif/man/check_wkt.Rd rgbif/man/density_spplist.Rd rgbif/man/occ_search.Rd rgbif/man/occ_data.Rd rgbif/man/gbif_oai.Rd rgbif/man/enumeration.Rd rgbif/man/occurrencelist.Rd rgbif/man/occurrencelist_many.Rd rgbif/man/resources.Rd rgbif/man/gbifdata.Rd rgbif/man/type_sum.Rd rgbif/man/datasets.Rd rgbif/man/gbifmap.Rd rgbif/man/occ_download.Rd rgbif/man/count_facet.Rd rgbif/man/occ_download_list.Rd rgbif/man/dataset_metrics.Rd rgbif/man/dataset_search.Rd rgbif/man/gbifmap_dens.Rd rgbif/man/suggestfields.Rd rgbif/man/providers.Rd rgbif/man/gbif_photos.Rd rgbif/man/stylegeojson.Rd rgbif/man/dataset_suggest.Rd rgbif/man/occurrencecount.Rd rgbif/man/occ_issues.Rd rgbif/man/occ_spellcheck.Rd rgbif/man/elevation.Rd rgbif/man/densitylist.Rd rgbif/man/taxrank.Rd rgbif/man/blanktheme.Rd rgbif/man/parsenames.Rd rgbif/man/occ_issues_lookup.Rd rgbif/man/isocodes.Rd rgbif/man/downloads.Rd rgbif/man/gbif_citation.Rd rgbif/man/occ_get.Rd rgbif/man/wkt_parse.Rd rgbif/man/taxoncount.Rd rgbif/man/gbif_bbox2wkt.Rd rgbif/man/name_usage.Rd rgbif/man/typestatus.Rd rgbif/man/networks.Rd rgbif/man/get_credentials.Rd rgbif/man/occ_download_meta.Rd rgbif/man/occ_download_cancel.Rd rgbif/man/nodes.Rd rgbif/man/occ_metadata.Rd rgbif/man/gist.Rd rgbif/man/rgbif-defunct.Rd rgbif/man/name_backbone.Rd rgbif/man/gbif_names.Rd rgbif/man/taxonsearch.Rd rgbif/man/occurrencelist_all.Rd rgbif/man/togeojson.Rd rgbif/man/occurrencedensity.Rd rgbif/man/read_wkt.Rd rgbif/man/occ_download_get.Rd rgbif/man/taxonget.Rd rgbif/man/installations.Rd rgbif/man/occ_count.Rd rgbif/man/gbifmap_list.Rd rgbif/man/occ_facet.Rd rgbif/man/name_suggest.Rd rgbif/man/occ_download_import.Rd rgbif/man/gbif_issues.Rd
rgbif/LICENSE

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