mrca: Find Most Recent Common Ancestors Between Pairs

Description Usage Arguments Details Value Author(s)

View source: R/mrca.R

Description

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

getMRCA returns the MRCA of two or more tips.

Usage

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mrca(phy, full = FALSE)
getMRCA(phy, tip)

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.

tip

a vector of mode numeric or character specifying the tips.

Details

For mrca, 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.

For getMRCA, if tip is of length one or zero then NULL is returned.

Value

a matrix of mode numeric (mrca) or a single numeric value (getMRCA).

Author(s)

Emmanuel Paradis


ape documentation built on May 30, 2017, 6:11 a.m.