get_clades: Get descendant nodes of phylogeny at a given time depth

In darunabas/phyloregion: Biogeographic Regionalization and Macroecology

Get descendant nodes of phylogeny at a given time depth

Description

get_clades returns the tips that descend from a given node or time depth on a dated phylogenetic tree.

Usage

get_clades(tree, cut = NULL, k = NULL)

Arguments

tree	is a dated phylogenetic tree with branch lengths stored as a phylo object (as in the ape package).
cut	the slice time
k	number of slices

Value

A list of descendants

References

Schliep, K.P. (2010) phangorn: phylogenetic analysis in R. Bioinformatics 27: 592–593.

Examples

require(ape)
data(bird.orders)
plot(bird.orders)
axisPhylo(side = 1)
abline(v=28-23) # the root is here at 28
get_clades(bird.orders, 23)

darunabas/phyloregion documentation built on Feb. 3, 2024, 8:59 p.m.