vcv.phylo {ape}R Documentation

Phylogenetic Variance-covariance or Correlation Matrix

Description

This function computes the expected variances and covariances of a continuous phenotype assuming it evolves under a given model (currently only the model of Brownian motion is available).

Usage

vcv.phylo(phy, model = "Brownian", cor = FALSE)

Arguments

phy an object of class "phylo".
model a character giving the model used to compute the variances and covariances of the phynotype; by default "Brownian". Currently only the Brownian model is available.
cor a logical indicating whether the correlation matrix should be returned (TRUE); by default the variance-covariance matrix is returned (FALSE).

Value

a numeric matrix with the names of the tips (as given by the tip.label of the argument phy) as colnames and rownames.

Author(s)

Emmanuel Paradis paradis@isem.univ-montp2.fr

References

Garland, T. Jr. and Ives, A. R. (2000) Using the past to predict the present: confidence intervals for regression equations in phylogenetic comparative methods. American Naturalist, 155, 346–364.

See Also

read.tree to read tree files in Newick format


[Package ape version 1.7 Index]