plotCTree: Plot both phylogenetic and transmission trees using colors on...

In xavierdidelot/EpiPhylo: Inference of Transmission Tree from a Dated Phylogeny

Plot both phylogenetic and transmission trees using colors on the phylogeny

Description

Plot both phylogenetic and transmission trees using colors on the phylogeny

Usage

plotCTree(
  tree,
  showLabels = TRUE,
  showStars = TRUE,
  cols = NA,
  maxTime = NA,
  cex = 1
)

Arguments

tree	Combined phylogenetic/transmission tree
showLabels	Whether or not to show the labels
showStars	Whether or not to show stars representing transmission events
cols	Colors to use for hosts
maxTime	Maximum time to show on the x axis
cex	Expansion factor

Value

Returns invisibly the first parameter

Examples

plotCTree(simulateOutbreak())

xavierdidelot/EpiPhylo documentation built on Sept. 28, 2023, 6:39 p.m.