multiRF: Computes Robinson-Foulds distance between a set of trees

Description Usage Arguments Details Value Author(s) References

View source: R/multiRF.R

Description

Computes the Robinson-Foulds (Robinson & Foulds 1981) distance between a set of trees in an object of class "multiPhylo".

Usage

1
multiRF(trees,quiet=FALSE,multi2di=FALSE)

Arguments

trees

object of class "multiPhylo" consisting of two or more fully bifurcating, unrooted trees. If trees are rooted, they will be unrooted.

quiet

logical argument indicating whether or not to run quietly. (Defaults to FALSE.)

multi2di

logical argumenet indicating whether or not to resolve multifurcating trees. (Defaults to FALSE.)

Details

Computes the Robinson-Foulds distance between all phylogenies in an object of class "multiPhylo". Uses prop.part internally for most of the heavy lifting.

Value

A matrix containing distances.

Author(s)

Liam Revell [email protected]

References

Robinson, D. R., Foulds, L. R. (1981) Comparison of phylogenetic trees. Mathematical Biosciences, 53, 131-147.

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


phytools documentation built on July 28, 2017, 9:01 a.m.