tree.normalize.branchlengths: Normalizes the branch lengths of a tree for cleaner...

In gjuggler/ggphylo: Tools for laying out and plotting phylogenetic data (trees and alignments) with ggplot.

Description

Normalizes the branch lengths of a tree for cleaner 2-dimensional plotting.

Usage

  tree.normalize.branchlengths(phylo, push.to.tips = FALSE)

Arguments

phylo	input phylo object
push.to.tips	boolean, determines the branch length given to inner clades of the tree. When TRUE, inner clades are given short external branches and long internal branches (i.e. the clade is pushed to the tip); when FALSE, inner clades are given short internal branches (i.e. pushed to the root). See the examples for a demonstration of this difference.

Value

a phylo object with altered branch lengths

Examples

set.seed(1); x <- rcoal(15)
x1 <- tree.normalize.branchlengths(x, push.to.tips=TRUE)
x2 <- tree.normalize.branchlengths(x, push.to.tips=FALSE)
ggphylo(list('push.to.tips=TRUE'=x1, 'push.to.tips=FALSE'=x2), do.plot=TRUE)

gjuggler/ggphylo documentation built on May 17, 2019, 6:05 a.m.