Filter sites with a given trait coverage threshold

...

Usage

fb_filter_sites_by_trait_coverage(
  site_species,
  species_traits,
  threshold_traits_proportion = 1
)

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.

species_traits

a data.frame with species in rows and traits as columns. NOTE: The first column should be named "species" and contain species names. The other columns should be named according to trait names.

threshold_traits_proportion

a numeric of length 1 between 0 and 1. The percentage trait coverage threshold

Value

A subset of site_species with sites covered by X% of abundance/coverage considering all provided traits.

Examples

library("funbiogeo")

data("site_species")
data("species_traits")

# Filter all the sites where all species have known traits
new_site_species <- fb_filter_sites_by_trait_coverage(
  site_species, species_traits
)

# There is only one such site
nrow(new_site_species)
#> [1] 1

# Filter sites where at least 80% of species have known traits
new_site_species_2 <- fb_filter_sites_by_trait_coverage(
  site_species, species_traits, threshold_traits_proportion = 0.8
)

# There are now four sites
nrow(new_site_species_2)
#> [1] 4