Interface to many species occurrence data sources

A programmatic interface to many species occurrence data sources, including GBIF, USGS's BISON, iNaturalist, Berkeley Ecoinformatics Engine, eBird, iDigBio, VertNet, OBIS, and ALA. Includes functionality for retrieving species occurrence data, and combining that data.

Package API

The main function to use is occ() - a single interface to many species occurrence databases (see below for a list).

Other functions include:

  • occ2df() - Combine results from occ into a data.frame

  • wkt_vis() - Visualize WKT strings (used to define geometry based searches for some data sources) in an interactive map

Currently supported species occurrence data sources

Provider Web
GBIF http://www.gbif.org/
BISON https://bison.usgs.gov/
eBird http://ebird.org/content/ebird/
iNaturalist http://www.inaturalist.org/
Berkeley ecoengine https://ecoengine.berkeley.edu/
VertNet http://vertnet.org/
iDigBio https://www.idigbio.org/
OBIS http://www.iobis.org/


See spocc_duplicates() for more.

Clean data

All data cleaning functionality is in a new package: scrubr (https://github.com/ropensci/scrubr). On CRAN: https://cran.r-project.org/package=scrubr. See also package https://cran.r-project.org/package=CoordinateCleaner

Make maps

All mapping functionality is now in a separate package: mapr`` (<https://github.com/ropensci/mapr>) (formerly known as spoccutils`). On CRAN: https://cran.r-project.org/package=mapr

  • spocc-package
  • spocc
Documentation reproduced from package spocc, version 1.1.0, License: MIT + file LICENSE

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