This package interacts with a suite of web 'APIs' for taxonomic tasks, such as verifying species names, getting taxonomic hierarchies, and verifying name spelling.
Allows users to search over many websites for species names (scientific and common) and download up- and downstream taxonomic hierarchical information - and many other things.
The functions in the package that hit a specific API have a prefix and suffix
separated by an underscore. They follow the format of
gnr_resolve uses the Global Names Resolver API to resolve
General functions in the package that don't hit a specific API don't have
two words separated by an underscore, e.g.,
You need API keys for some data sources. See taxize-authentication for more information.
|Encyclopedia of Life (EOL)||eol||FALSE|
|Taxonomic Name Resolution Service||tnrs||FALSE|
|Integrated Taxonomic Information Service (ITIS)||itis||FALSE|
|Global Names Resolver (from EOL/GBIF)||gnr||FALSE|
|Global Names Index (from EOL/GBIF)||gni||FALSE|
|IUCN Red List||iucn||FALSE|
|Tropicos (from Missouri Botanical Garden)||tp||FALSE|
|National Center for Biotechnology Information||ncbi||FALSE|
|CANADENSYS Vascan name search API||vascan||FALSE|
|International Plant Names Index (IPNI)||ipni||FALSE|
|World Register of Marine Species (WoRMS)||worms||TRUE|
|Barcode of Life Data Systems (BOLD)||bold||FALSE|
|Pan-European Species directories Infrastructure (PESI)||pesi||TRUE|
|National Biodiversity Network (UK)||nbn||FALSE|
|Index of Names (ION)||ion||FALSE|
|Open Tree of Life (TOL)||tol||FALSE|
|World Register of Marine Species (WoRMS)||worms||FALSE|
If the source above has a
TRUE in the
SOAP? column, it is not available
in this package. They are available from a different package called taxizesoap.
See the GitHub repo for how to install https://github.com/ropensci/taxizesoap
COL introduced rate limiting recently in 2019 - which has made the API essentially unusable - CoL+ is coming soon and we'll incorporate it here when it's stable. See https://github.com/ropensci/colpluz for the R implementation for CoL+
Scott Chamberlain firstname.lastname@example.org
Eduard Szoecs email@example.com
Zachary Foster firstname.lastname@example.org
Carl Boettiger email@example.com
Karthik Ram firstname.lastname@example.org
Ignasi Bartomeus email@example.com
John Baumgartner firstname.lastname@example.org
James O'Donnell email@example.com
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