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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.
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Install
install.packages('rgbif')
Monthly Downloads
6,643
Version
0.5.0
License
CC0
Issues
25
Pull Requests
0
Stars
148
Forks
52
Repository
https://github.com/ropensci/rgbif
Maintainer
Scott Chamberlain
Last Published
February 16th, 2014
Functions in rgbif (0.5.0)
Search functions
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.