Checks first to get key from your .Rprofile or .Renviron (or similar) file. See Details.
(character) An API key, defaults to
(character) The API data provider, used to match to default guest key (for Tropicos and EOL; there's no guest key for NCBI or IUCN, for which you have to get your own)
Save your API keys with the following names:
Tropicos: R option or env var as 'TROPICOS_KEY'
EOL: R option or env var as 'EOL_KEY'
IUCN: R option or env var as 'IUCN_REDLIST_KEY'
ENTREZ: R option or env var as 'ENTREZ_KEY'
as R options in your
.Rprofile file, or
as environment variables in either your
.Renviron file or
.bash_profile file, or
.zshrc file (if you use oh-my-zsh) or
Startup for help on R options and environment
Remember to restart your R session (and to start a new shell window/tab if you're using the shell) to take advantage of the new R options or environment variables.
We strongly recommend using environment variables over R options.
Note that NCBI Entrez doesn't require that you use an API key, but you should get higher rate limit with a key, so do get one.
Get an API key at http://services.tropicos.org/help?requestkey
EOL requires an API key. You can pass in your EOL api
key in the function call like
sci2comm('Helianthus annuus', key="<your eol api key>"). You can
also store your EOL API key in your .Rprofile file as
options(EOL_KEY = "<your eol api key>"), or just for the current
session by running
options(EOL_KEY = "<your eol api key>") in
IUCN requires an API key. See
for help on authentiating with IUCN Redlist, and
http://apiv3.iucnredlist.org/api/v3/token for requesting a key
From NCBI's docs: "E-utils users are allowed 3 requests/second without an API key. Create an API key (in your account at https://www.ncbi.nlm.nih.gov/account/) to increase your e-utils limit to 10 requests/second. Contact our help department ([email protected]) if you need higher throughput. Only one API Key per user. Replacing or deleting will inactivate the current key. Refer to documentation (https://www.ncbi.nlm.nih.gov/books/NBK25497/) for more."
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