genera: Extract genus names

In ecoPD: Ecologically-informed phylodiversity metrics

Description

Helper function to extract the genus names from phylogeny tip labels in the case when those labels are scientific names using binomial nomenclature.

Usage

  ## S4 method for signature 'phylo4'
genera(x)
  ## S4 method for signature 'phylo4com'
genera(x, community)

Arguments

x	a phylo4com object
community	a vector of community labels; if missing, all communities

Details

This is a simple function that assumes the tip labels of phylogeny phy are of the form “genus_species”. It does no checking whatsoever to check whether this is in fact the case.

Value

For phylo4, a character vector containing the genus portion of the tip labels, with element names corresponding to the numeric tip node ID. For phylo4com, a list of such vectors, one per community.

Author(s)

Jim Regetz ([e-mail])

Examples

  data(weeds)
  genera(weeds)
  genera(weeds, "A")
  genera(phylo4(weeds))

ecoPD documentation built on May 2, 2019, 5:22 p.m.