spocc (version 0.6.0)

spocc-package: Interface to many species occurrence data sources

Description

A programmatic interface to many species occurrence data sources, including GBIF, USGS's BISON, iNaturalist, Berkeley Ecoinformatics Engine, eBird, AntWeb, 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
• fixnames - Change names to be the same for each taxon
• 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/

AntWeb

http://www.antweb.org/

VertNet

http://vertnet.org/

iDigBio

https://www.idigbio.org/

OBIS

http://www.iobis.org/

Duplicates

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

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