R: Find Most Recent Common Ancestors Between Pairs

mrca {ape} | R Documentation

## Find Most Recent Common Ancestors Between Pairs

### 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

    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

[Package ape version 4.1 Index]