# vcv.phylo

From ape v2.1-1
by Emmanuel Paradis

##### Phylogenetic Variance-covariance or Correlation Matrix

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).

- Keywords
- multivariate, manip

##### 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.

##### 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

*Documentation reproduced from package ape, version 2.1-1, License: GPL (>= 2)*

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