taxize (version 0.2.0)

eol_invasive: Search for presence of taxonomic names in EOL invasive species databases.

Description

If a two-column data.frame is returned with the species you searched for, your species is listead in the database you searched. If your searched taxon is not found, we return a string " was not found".

Usage

eol_invasive(name = NULL, dataset = "all", searchby = grep, page = NULL,
  per_page = NULL, key = NULL, callopts = list(), verbose = TRUE)

Arguments

name

A taxonomic name, or a vector of names.

dataset

One of all, gisd100, gisd, gris, isc, daisie, i3n, or mineps. See the Details for what each dataset ID.

searchby

One of 'grep' (exact match) or 'agrep' (fuzzy match)

page

A maximum of 30 results are returned per page. This parameter allows you to fetch more pages of results if there are more than 30 matches (Default 1)

per_page

Results to get per page

key

Your EOL API key; loads from .Rprofile.

callopts

Further args passed on to GET.

verbose

logical; If TRUE the actual taxon queried is printed on the console.

Value

• A list of data.frame's/strings with results, with each element named by the input elements to the name parameter.

Details

Beware that some datasets are quite large, and may take 30 sec to a minute to pull down all data before we can search for your species. Note there is no parameter in this API method for searching by taxon name.

This function is vectorized, so you can pass a single name or a vector of names.

It's possible to return JSON or XML with the EOL API. However, this function only returns JSON for now.

Options for the dataset parameter are

• all - All datasets
• gisd100 - 100 of the World's Worst Invasive Alien Species (Global Invasive Species Database)
• gisd - Global Invasive Species Database 2013
• gris - Global Register of Invasive Species (GRIS) Taxa
• isc - Centre for Agriculture and Biosciences International Invasive Species Compendium (ISC)
• daisie - Delivering Alien Invasive Species Inventories for Europe (DAISIE) Species List
• i3n - IABIN Invasives Information Network (I3N) Species
• mineps - Marine Invaders of the NE Pacific Species

References

See info for each data source at http://eol.org/collections/55367/taxa

Examples

eol_invasive(name='Brassica oleracea', dataset='gisd')
eol_invasive(name='Sargassum', dataset='gisd')
eol_invasive(name='Ciona intestinalis', dataset='mineps')
eol_invasive(name='Rhinella marina', dataset='gris')
eol_invasive(name=c('Rhinella marina','Sturnus vulgaris','Cygnus olor','Pinus concolor'),
             dataset='gris')
eol_invasive(name=c('Lymantria dispar','Cygnus olor','Hydrilla verticillata','Pinus concolor'),
             dataset='i3n')
eol_invasive(name=c('Branta canadensis','Gallus gallus','Myiopsitta monachus'), dataset='daisie')
eol_invasive(name=c('Branta canadensis','Gallus gallus','Myiopsitta monachus'), dataset='isc')