Get occurrence data — GetOccs • SpeciesPoolR

This function uses the rgbif package to get occurrence data from the Global Biodiversity Information Facility (GBIF) API.

Usage

GetOccs(
  Species,
  WriteFile = FALSE,
  continent = NULL,
  country = NULL,
  shapefile = NULL,
  limit = 10000,
  Log = FALSE,
  ...
)

Arguments

Species: A vector containing the species to query.
WriteFile: Logical. If TRUE, the occurrence data will be written to the Occs folder. If FALSE, the occurrence data will be returned in a list.
continent: what contintent are the occurrences downloaded from
country: A two-letter country code (e.g., "DK" for Denmark) to define the area of interest.
shapefile: A shapefile (with lat/long coordinates) defining the area of interest. The function will create a minimum bounding rectangle around the shapefile to query the species occurrences. Default is NULL.
limit: maximum number of occurrences downloaded
Log: Logical. If TRUE, a log file will be created with information on the progress of the function.
...: Additional arguments to be passed to the occ_data function.

Value

If WriteFile = TRUE, this function does not return anything. If WriteFile = FALSE, a list containing the occurrence data for each species is returned.

Examples

# Get occurrence data for species in FinalSpeciesList
# \donttest{
Presences <- GetOccs(Species = c("Abies concolor", "Canis lupus"), WriteFile = FALSE)
#> Starting species 1
#> 1 of 2 ready! 2024-10-10 04:10:24.442987
#> Starting species 2
#> 2 of 2 ready! 2024-10-10 04:10:44.303235
# }