cladeCol: Create colors for plotting clades

In ajrominger/socorro: Helper functions for R

Description

Create a vector of colors for use in plot.phylo so that designated clades have a unique color

Usage

cladeCol(phy, clades, cols, bg.col = par("fg"))

Arguments

phy	the phylogeny for which to compute colors
clades	a list of clades
cols	a vector of colors, one for each clade
bg.col	color for “background” edges (i.e. those not specified by clades)

Details

Clades are specified by the names of their members, see example

Value

A character vector of the desired colors

Author(s)

Andy Rominger <[e-mail]>

See Also

phylo, plot.phylo

Examples

phy <- read.tree(text="(A,(C,G));")
plot(phy, edge.color=clade.col(phy, list("A",c("C","G")),c("red","blue")))

ajrominger/socorro documentation built on Jan. 3, 2020, 6:25 a.m.