R: Attempts to untangle crossing branches for plotting

untangle {phytools}

R Documentation

Attempts to untangle crossing branches for plotting

Description

This function attempts to untangle the branches of a tree that are tangled in plotting with plot.phylo, plotTree, or plotSimmap. Note that method="read.tree" does not presently work for SIMMAP style trees

Usage

untangle(tree, method=c("reorder","read.tree"))

Arguments

`tree`	tree as an object of class `"phylo"`. Can be a SIMMAP style tree (e.g., `read.simmap`.
`method`	method to use to attempt to untangle branches. `method="reorder"` uses two calls of `reorder.phylo` or `reorderSimmap`; `method="read.tree"` writes the tree to a text string and then reads it back into memory using `read.tree`.

Value

A tree with branch lengths, or modified "phylo" object with a mapped discrete character.

Author(s)

Liam Revell liam.revell@umb.edu

References

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

[Package phytools version 0.4-60 Index]