mrca {ape}R Documentation

Find Most Recent Common Ancestors Between Pairs

Description

This function returns for each pair of tips (and nodes) its most recent common ancestor (MRCA).

Usage

mrca(phy, full = FALSE, as.numeric = FALSE)

Arguments

phy an object of class "phylo".
full a logical indicating whether to return the MRCAs among all tips and nodes (if TRUE); the default is to return only the MRCAs among tips.
as.numeric a logical indicating whether to return the matrix of tip and node numbers as numeric.

Details

The diagonal is set to the number of the tips (and nodes if full = TRUE).

If full = FALSE, the colnames and rownames are set with the tip labels of the tree; otherwise the numbers are given as names.

Value

a matrix of mode character (by default) or numeric if as.numeric = TRUE.

Author(s)

Emmanuel Paradis paradis@isem.univ-montp2.fr


[Package ape version 1.7 Index]