get_all_descendant_species: Quickly get all species belonging to a taxon from the Open...

In phylotastic/datelife: Scientific Data on Time of Lineage Divergence for Your Taxa

Quickly get all species belonging to a taxon from the Open Tree of Life Taxonomy (OTT)

Description

This is less thorough than get_open_tree_species(), but much faster. It uses the fact that something has just two names (genus and species) to assume that something is a single species; if it has more than two names, it is assumed to be a subspecies so it goes up one level in the hierarchy. It will return the subspecies and the species.

Usage

get_all_descendant_species(taxon_name, ott_id)

Arguments

taxon_name	A character vector providing an inclusive taxonomic name.
ott_id	A numeric vector providig an Open Tree Taxonomic id number for a taxonomic name. If provided, taxon_name is ignored. Used in the context of OTT to detect invalid taxon names.

Value

A list of unique OTT names and OTT ids of species within the provided taxon.

phylotastic/datelife documentation built on Jan. 17, 2024, 11:10 p.m.