Takes a vector of species names and checks whether those species are represented within a CompadreDB object. It outputs either a data frame depicting the species of interest and whether they occur in the database (TRUE/FALSE), or, if return_db == TRUE, a CompadreDB object subset to the species of interest.

cdb_check_species(cdb, species, return_db = FALSE)



A CompadreDB object


Character vector of binomial species names, with the genus and specific epithet separated by either an underscore or a space (e.g. c("Acipenser_fulvescens", "Borrelia_burgdorferi"))


Logical argument indicating whether a database should be returned


If return_db == FALSE, returns a data frame with a column of species names and a column indicating whether a species occurs in the database. If return_db == TRUE, returns a subset of cdb containing only those species within argument species.


species <- c("Primula vulgaris", "Trillium ovatum", "Homo sapiens") cdb_check_species(Compadre, species)
#> species in_db #> 1 Primula vulgaris TRUE #> 2 Trillium ovatum TRUE #> 3 Homo sapiens FALSE
CompadreSubset <- cdb_check_species(Compadre, species, return_db = TRUE)