phytools: allFurcTrees – R documentation

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allFurcTrees

Generate all bi- and multifurcating unrooted trees

Description

This function creates all possible unrooted bi- and multifurcating trees and returns a list of trees as an object of class "multiPhylo".

Usage

allFurcTrees(n, tip.label=NULL, to.plot=TRUE)

Arguments

`n`	an integer giving the desired number of species.
`tip.label`	an optional vector of length n containing the tip names.
`to.plot`	an optional logical value indicating whether or not to plot the trees.

Details

This function should be used with caution for n greater than about 8, as in this case the number of possible trees is extremely large.

Value

A list of trees as an object of class "multiPhylo".

Author(s)

Liam Revell liam.revell@umb.edu

References

Felsenstein, J. 2004. Inferring Phylogenies. Sinauer.

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

Examples

## compute & plot all bi- and multifurcating
## trees for six taxa
trees<-allFurcTrees(n=6)
par(mfrow=c(16,15))
nulo<-sapply(trees,plot,type="unrooted",
    no.margin=TRUE)
par(mfrow=c(1,1))

phytools

Phylogenetic Tools for Comparative Biology (and Other Things)

v0.7-70

GPL (>= 2)

Authors

Liam J. Revell

Initial release

2020-9-19