R: Variance-Covariance Matrix to Tree

vcv2phylo {ape} | R Documentation

## Variance-Covariance Matrix to Tree

### Description

This function transforms a variance-covariance matrix into a phylogenetic tree.

### Usage

    vcv2phylo(mat, tolerance = 1e-7)

### Arguments

`mat` | a square symmetric (positive-definite) matrix.
`tolerance` | the numeric tolerance used to compare the branch lengths.

### Details

The function tests if the matrix is symmetric and positive-definite (i.e., all its eigenvalues positive within the specified tolerance).

### Value

an object of class `"phylo"`.

### Author(s)

Simon Blomberg

### See Also

`vcv`, `corPhyl`

### Examples

    tr <- rtree(10)
    V <- vcv(tr) # VCV matrix assuming Brownian motion
    z <- vcv2phylo(V)
    identical(tr, z) # FALSE
    all.equal(tr, z) # TRUE

[Package ape version 5.1 Index]