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

In phytools: Phylogenetic Tools for Comparative Biology (and Other Things)

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

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 [e-mail]

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 May 30, 2017, 4:46 a.m.

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