canopy.plottree {Canopy}

To plot tree inferred by Canopy

Description

To plot Canopy's reconstructed phylogeny. Major plotting function of Canopy.

Usage

canopy.plottree(tree, pdf, pdf.name, txt, txt.name)

Arguments

tree

input tree to be plotted

pdf

whether a pdf plot should be generated, default to be FALSE

pdf.name

name of pdf to be generated, has to be provided if pdf is to be generated

txt

whether a txt file should be generated with information on mutations along the tree branches, default to be FALSE

txt.name

name of txt to be generated, has to be provided if txt is to be generated

Value

Plot of tree structure, clonal frequency and mutation legends (pdf format).

Author(s)

Yuchao Jiang [e-mail]

Examples

data(MDA231_tree)
canopy.plottree(MDA231_tree, pdf = TRUE, pdf.name = 'MDA231_tree.pdf')