finbif R package is a programmatic interface to the Finnish Biodiversity Information Facility (FinBIF) API. FinBIF aggregates Finnish biodiversity data from multiple sources in a single open access portal for researchers, citizen scientists, industry and government. FinBIF allows users of biodiversity information to find, access, combine and visualise data on Finnish plants, animals and microorganisms. The
finbif R package makes the publicly available data in FinBIF easily accessible to programmers. Biodiversity information is available on taxonomy and taxon occurrence. Occurrence data can be filtered by taxon, time, location and other variables. The data accessed are conveniently preformatted for subsequent analyses.
You can install the current stable version of
finbif from CRAN,
You can also install the latest development version of
finbif from GitHub,
First load the
finbif R package.
To use the FinBIF API you must first request and set a personal access token. You can request an API token to be sent to your email address with the function
Copy the access token that was sent to your email and set it as the environment variable
FINBIF_ACCESS_TOKEN either for the current session,
Sys.setenv( FINBIF_ACCESS_TOKEN = "xtmSOIxjPwq0pOMB1WvcZgFLU9QBklauOlonWl8K5oaLIx8RniJLrvcJU4v9H7Et" ) # Note: the above is not a real access token. Do not try using it.
, or by adding it to a
Renviron startup file (see here for details).
Download occurrence data from FinBIF.
finbif_occurrence("Cygnus cygnus", n = 100)
Data from FinBIF comes from many sources. For information on citing FinBIF itself and the contributed datasets please visit this link:
To cite the finbif R package in publications please use:
Morris, William K. (2021). Introduction to the finbif package. R package version 0.6.2.9002, https://doi.org/10.5281/zenodo.3612814