rgbif

High level overview of package

rgbif-package

Interface to the Global Biodiversity Information Facility API.

rgbif-defunct

Defunct functions in rgbif

many-values

Many value inputs to some parameters

datasets

rgbif datasets

isocodes

Table of country two character ISO codes, and GBIF names

occ_fields

Vector of fields in the output for the function occ_search()

typestatus

Type status options for GBIF searching

Geometry

check_wkt()

Check input WKT

gbif_bbox2wkt() gbif_wkt2bbox()

Convert a bounding box to a Well Known Text polygon, and a WKT to a bounding box

OAI

gbif_oai_identify() gbif_oai_list_identifiers() gbif_oai_list_records() gbif_oai_list_metadataformats() gbif_oai_list_sets() gbif_oai_get_records()

GBIF registry data via OAI-PMH

Registry

GBIF registry functions https://www.gbif.org/developer/registry

dataset_metrics()

Get details on a GBIF dataset.

dataset_search()

Search datasets in GBIF.

dataset_suggest()

Suggest datasets in GBIF.

datasets()

Search for datasets and dataset metadata.

organizations()

Organizations metadata.

networks()

Networks metadata.

nodes()

Nodes metadata.

installations()

Installations metadata.

Maps

Work with the GBIF Maps API https://www.gbif.org/developer/maps

map_fetch()

Fetch aggregated density maps of GBIF occurrences

mvt_fetch()

Fetch Map Vector Tiles (MVT)

Names

Work with the GBIF taxonomic names API https://www.gbif.org/developer/species

name_backbone() name_backbone_verbose()

Lookup names in the GBIF backbone taxonomy.

name_issues()

Parse and examine further GBIF name issues on a dataset.

name_lookup()

Lookup names in all taxonomies in GBIF.

name_suggest()

Suggest up to 20 name usages.

name_usage()

Lookup details for specific names in all taxonomies in GBIF.

Occurrence Downloads

Work with the GBIF occurrence downloads APIs https://www.gbif.org/developer/occurrence#download

occ_download() occ_download_prep()

Spin up a download request for GBIF occurrence data.

occ_download_cached()

Check for downloads already in your GBIF account

occ_download_cancel() occ_download_cancel_staged()

Cancel a download creation process.

occ_download_dataset_activity()

Lists the downloads activity of a dataset

occ_download_datasets()

List datasets for a download

occ_download_get()

Get a download from GBIF.

occ_download_import() as.download()

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_download_queue()

Download requests in a queue

occ_download_wait()

Wait for an occurrence download to be done

downloads

Downloads interface

pred() pred_gt() pred_gte() pred_lt() pred_lte() pred_not() pred_like() pred_within() pred_notnull() pred_or() pred_and() pred_in()

Download predicate DSL (domain specific language)

Work with the GBIF occurrence search APIs https://www.gbif.org/developer/occurrence

occ_facet()

Facet GBIF occurrences

occ_get() occ_get_verbatim()

Get data for GBIF occurrences by occurrence key

occ_data()

Search for GBIF occurrences - simplified for speed

occ_metadata()

Search for catalog numbers, collection codes, collector names, and institution codes.

occ_search()

Search for GBIF occurrences

occ_count()

Get number of occurrence records.

count_facet()

Facetted count occurrence search.

Occurrence data cleaning

Functions for cleaning occurrence data

gbif_issues()

List all GBIF issues and their codes.

occ_issues()

Parse and examine further GBIF occurrence issues on a dataset.

gbif_issues_lookup()

Lookup issue definitions and short codes

Miscellaneous

gbif_citation()

Get citation for datasets used

parsenames()

Parse taxon names using the GBIF name parser.

rgb_country_codes()

Look up 2 character ISO country codes

taxrank()

Get the possible values to be used for (taxonomic) rank arguments in GBIF API methods.

wkt_parse()

parse wkt into smaller bits

elevation()

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

enumeration() enumeration_country()

Enumerations.

Pretty reports

gbif_names()

View highlighted terms in name results from GBIF.

gbif_photos()

View photos from GBIF.