crestr (version 1.2.1)

getTaxonomy: Extract taxonID(s) corresponding to the taxonomic description

Description

Extract all possible TaxonIDs corresponding to the provided taxonomical description, which can be at the family, the genus or the species levels.

Usage

getTaxonomy(
  family = "",
  genus = "",
  species = "",
  taxaType = 1,
  depth.out = 8,
  dbname = "gbif4crest_02"
)

Value

A vector of unique taxonIDs.

Arguments

family

The name of the family.

genus

The name of the genus.

species

The name of the species.

taxaType

A numerical index (between 1 and 5) to define the type of palaeoproxy used: 1 for plants, 2 for beetles, 3 for chironomids, 4 for foraminifers, 5 for diatoms and 6 for rodents.

depth.out

The taxonomic resolution of the output table. 1 for Kingdom, 2 for phylum, 3 for class_name, 4 for order_name, 5 for family, 6 for genus, 7 for species and 8 to also include the taxonID.

dbname

The name of the data source database.

Examples

if (FALSE) {
  getTaxonomy("Zamiaceae    ")
  getTaxonomy(genus="Ceratozamia", depth.out=6)
  ## \code{taxaType = 2} searches for beetles and not plants, so the next line returns nothing.
  getTaxonomy("Zamiaceae", "Ceratozamia", taxaType = 2)
}