Learn R Programming
⚠️There's a newer version (3.8.4) of this package.Take me there.

rgbif (version 0.5.0)

Interface to the Global Biodiversity Information Facility API

Description

A programmatic interface to the Web Service methods provided by the Global Biodiversity Information Facility.

Copy Link

Version

Install

install.packages('rgbif')

Monthly Downloads

9,086

Version

0.5.0

License

CC0

Issues

36

Pull Requests

0

Stars

173

Forks

52

Maintainer

Scott Chamberlain

Last Published

February 16th, 2014

Functions in rgbif (0.5.0)

is.gbiflist

Check if object is of class gbiflist
occurrencelist_all

Occurrencelist_all carries out an occurrencelist query for a single name and all its name variants according to GBIF's name matching.
print.gbiflist

Print summary of gbiflist class
create_gist

Function that takes a list of files and creates payload for API
gbifmap

Make a map to visualize GBIF occurrence data.
gbifparser_verbatim

Parser for gbif data
namelkupparser

Parser for name_usage endpoints, for fxns name_lookup and name_backbone
datasets

Search for datasets and dataset metadata.
print.gbifdens

Print summary of gbifdens class
taxoncount

Search by taxon to retrieve number of records in GBIF.
occurrencelist

Occurrencelist searches for taxon concept records matching a range of filters.
blanktheme

Custom ggplot2 theme
is.gbiflist_na

Check if object is of class gbiflist_na
occ_metadata

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

Parser for gbif data
nodes

Nodes metadata.
gbifxmlToDataFrame

Code based on the `gbifxmlToDataFrame` function from dismo package (http://cran.r-project.org/web/packages/dismo/index.html), by Robert Hijmans, 2012-05-31, License: GPL v3
isocodes

Table of country two character ISO codes, and GBIF names
taxonget

Get taxonomic information on a specific taxon or taxa in GBIF by their taxon concept keys.
stylegeojson

Style a data.frame prior to converting to geojson.
density_spplist

The density web service provides access to records showing the density of occurrence records from the GBIF Network by one-degree cell.
occ_count

Get number of occurrence records.
commas_to_periods

Convert commas to periods in lat/long data
parsenames

Parse taxon names using the GBIF name parser.
gbifmap_list

Make a simple map to visualize GBIF point data.
dataset_metrics

Geta details on a dataset.
occ_get

Get data for specific GBIF occurrences.
gbifdata

Get data.frame from occurrencelist, occurrencelist_many, or densitylist.
rgbif-deprecated

Deprecated functions in rgbif
suggestfields

Fields available in gbif_suggest function
taxrank

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

Get individual records for a given occurrence record.
dataset_suggest

Suggest datasets in GBIF.
get_credentials

Get Github credentials from use in console
rgbif

rgbif: A programmatic interface to the Web Service methods provided by the Global Biodiversity Information Facility.
name_lookup

Lookup names in all taxonomies in GBIF.
name_suggest

A quick and simple autocomplete service that returns up to 20 name usages by doing prefix matching against the scientific name. Results are ordered by relevance.
elevation

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

Parse results from call to occurrencelist endpoint
occurrencecount

Counts taxon concept records matching a range of filters.
togeojson

Convert spatial data files to GeoJSON from various formats.
organizations

Organizations metadata.
gist

Post a file as a Github gist
gbifmap_dens

Make a simple map to visualize GBIF data density data
count_facet

Facetted count occurrence search.
name_usage

Lookup details for specific names in all taxonomies in GBIF.
is.gbifdens

Check if object is of class gbifdens
installations

Installations metadata.
providers

Get data providers and their unique keys.
ldfast

Replacement function for ldply that should be faster.
print.gbiflist_na

Print summary of gbiflist_na class
name_backbone

Lookup names in the GBIF backbone taxonomy.
occurrencelist_many

occurrencelist_many is the same as occurrencelist, but takes in a vector of species names.
rgb_country_codes

Look up 2 character ISO country codes
taxonsearch

Search for taxa in GBIF.
gbifparser

Parser for gbif data
networks

Networks metadata.
densitylist

The density web service provides access to records showing the density of occurrence records from the GBIF Network by one-degree cell.
resources

Get data resources and their unique keys.
occ_search

Search for GBIF occurrences.
dataset_search

Search datasets in GBIF.
gbif_capwords

Capitalize the first letter of a character string.
occurrencedensity

Returns summary counts of occurrence records by one-degree cell for a single taxon, country, dataset, data publisher or data network.