allFurcTrees: Generate all bi- and multifurcating unrooted trees

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

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 extreme 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 [e-mail]

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.

See Also

add.everywhere, exhaustiveMP

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 documentation built on Nov. 10, 2023, 1:08 a.m.