get_clades function

Get descendant nodes of phylogeny at a given time depth

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

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

Returns

A list of descendants

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)

References

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