Filter sites with a given species coverage threshold — fb_filter_sites_by_species_coverage • funbiogeo

Selects sites (rows) for which the percentage of present species (distribution value higher than 0 and non-NA) is higher than a threshold.

Usage

fb_filter_sites_by_species_coverage(
  site_species,
  threshold_species_proportion = 0
)

Arguments

site_species: a data.frame with sites in rows and species in columns. NOTE: the first column should be named "site" and indicate site names. The other columns should be named according to species names.
threshold_species_proportion: a numeric of length 1 between 0 and 1. The percentage of species coverage threshold.

Value

A subset of site_species with sites covered by X% of species.

Examples

# Get sites with more than 40% of the species
new_site_species <- fb_filter_sites_by_species_coverage(
  woodiv_site_species,
  threshold_species_proportion = 0.4
)
# There are now only 148 sites
dim(new_site_species)
#> [1] 60 25
new_site_species[1:3, 1:4]
#>        site AALB ACEP APIN
#> 13 41052315    1    0    0
#> 14 41252315    1    0    0
#> 18 40552295    1    1    1