vcvPhylo: Calculates cophenetic (i.e., phylogenetic VCV) matrix

Description Usage Arguments Value Author(s) References

View source: R/utilities.R

Description

This function returns a so-called phylogenetic variance covariance matrix (e.g., see vcv.phylo), but (optionally) including ancestral nodes and under different evolutionary models.

Usage

1
vcvPhylo(tree, anc.nodes=TRUE, ...)

Arguments

tree

object of class "phylo".

anc.nodes

logical value indicating whether or not to include ancestral nodes.

...

optional arguments including internal (synonym of anc.nodes) and model (can be "BM", "OU", or "lambda".

Value

A matrix.

Author(s)

Liam Revell [email protected]

References

Revell, L. J. (2012) phytools: An R package for phylogenetic comparative biology (and other things). Methods Ecol. Evol., 3, 217-223.


phytools documentation built on July 28, 2017, 9:01 a.m.