get_species_data: Get species data

In MirzaCengic/speciesrangeR: Species range maps in R

Description

Retrieve species data from GBIF repository. You can use species binomial name to query the database. Query is passed to spocc::occ() function (use ... to pass further arguments to this function).

Usage

get_species_data(species_name, return = "sf", return_clean = FALSE,
  country = "", ...)

Arguments

species_name	Binomial species name in format "Genus species". Character.
return	Object to return. If return = "sf" (default) will return simple features object, while return = "sp" will return spatial points data frame object.
return_clean	Logical (Default is FALSE). Return data with cleaned observation. Data cleaning is performed with scrubr package (functions coord_impossible(), coord_incomplete() and coord_unlikely()). See https://ropensci.org/tutorials/scrubr_tutorial/ for more details.
country	Crop results with country boundaries. Results might be influenced by limit argument from spocc::occ() function. Country data is retrieved from GADM database. See ?raster::getData() for more details. Use getData('ISO3') to see the available country options.
...	Additional arguments that can be passed to spocc::occ() function.

Value

A spatial object (sf or sp class)

Examples

sal_atra <- get_species_data("Salamandra atra")
plot(sal_atra[1])
sal_atra_ita <- get_species_data("Salamandra atra", return_clean = TRUE, country = "ITA", limit = 10000)
plot(sal_atra_ita[1])

MirzaCengic/speciesrangeR documentation built on May 15, 2019, 3:24 p.m.