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rgbif (version 0.4.0)

Interface to the Global Biodiversity Information Facility API

Description

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

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Install

install.packages('rgbif')

Monthly Downloads

7,274

Version

0.4.0

License

CC0

Issues

37

Pull Requests

1

Stars

163

Forks

51

Maintainer

Scott Chamberlain

Last Published

November 20th, 2013

Functions in rgbif (0.4.0)

gbifparser

Parser for gbif data
datasets

Search for datasets and dataset metadata.
commas_to_periods

Convert commas to periods in lat/long data
occurrencelist_many

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

Parse results from call to occurrencelist endpoint
occ_search

Search for GBIF occurrences.
datasetparser

Parser for gbif data
create_gist

Function that takes a list of files and creates payload for API
is.gbiflist_na

Check if object is of class gbiflist_na
isocodes

Lookup-table for 2 character country ISO codes
providers

Get data providers and their unique keys.
densitylist

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

Print summary of gbiflist class
networks

Networks metadata.
dataset_search

Search datasets in GBIF.
dataset_suggest

Suggest datasets in GBIF.
name_backbone

Lookup names in the GBIF backbone taxonomy.
occurrencelist

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

Custom ggplot2 theme
organizations

Organizations metadata.
name_lookup

Lookup names in all taxonomies in GBIF.
occ_get

Get data for specific GBIF occurrences.
occurrenceget

Get individual records for a given occurrence record.
gbifmap_dens

Make a simple map to visualize GBIF data density data
gbifmap

Make a map to visualize GBIF occurrence data.
ldfast

Replacement function for ldply that should be faster.
gist

Post a file as a Github gist
occurrencelist_all

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

Make a simple map to visualize GBIF point data.
country_codes

Look up 2 character ISO country codes
namelkupparser

Parser for name_usage endpoints, for fxns name_lookup and name_backbone
rgbif

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

Get data.frame from occurrencelist, occurrencelist_many, or densitylist.
name_usage

Lookup details for specific names in all taxonomies in GBIF.
occ_count

Get number of occurrence records.
gbif_capwords

Capitalize the first letter of a character string.
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.
nodes

Nodes metadata.
is.gbiflist

Check if object is of class gbiflist
print.gbiflist_na

Print summary of gbiflist_na class
is.gbifdens

Check if object is of class gbifdens
rgbif-deprecated

Deprecated functions in rgbif
occurrencecount

Counts taxon concept records matching a range of filters.
dataset_metrics

Geta details on a dataset.
resources

Get data resources and their unique keys.
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
get_credentials

Get Github credentials from use in console
print.gbifdens

Print summary of gbifdens class
occurrencedensity

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

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

Fields available in gbif_suggest function
taxoncount

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

Convert spatial data files to GeoJSON from various formats.
taxonsearch

Search for taxa in GBIF.
taxonget

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

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

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

Parse taxon names using the GBIF name parser.
density_spplist

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

Parser for gbif data