plot.tree.clone.as.branch: Plot a consensus tree using branch-based visualization

In hdng/clonevol: Clonal ordering and visualization

Description

Plot a consenus clonal evolution tree where clones are visualized as branch leading to a node

Usage

## S3 method for class 'tree.clone.as.branch'
plot(mt, angle = 15, branch.width = 1,
  branch.text.size = 0.3, node.size = 3, node.label.size = 0.75,
  node.text.size = 0.5, event.sep.char = ",", show.event = TRUE,
  tree.rotation = 0, text.angle = NULL, tree.label = NULL,
  branch.border.width = NULL, ...)

Arguments

branch.text.size	Text size of events mapped on branches (default=0.3)
node.size	Tree node size (default=3)
node.label.size	Text size of node label (default=0.75)
node.text.size	Text size of the node annotation (eg. sample names) (default=0.5)
event.sep.char	Character used to separate events when multiple events are mapped onto a branch (default=',')
show.event	Show event? (default=TRUE)
tree.rotation	Angle (degrees) to rotate the tree in output plot (default=0, meaning tree is plotted top-down)
text.angle	Angle of text, when tree is rotated, user should change this accordingly (default=NULL)
tree.label	Label of the tree (default=NULL)
branch.border.width	Width of the border of the branch (default=NULL)
mt:	a consensus tree. If y is output of infer.clonal.models, consensus trees are stored in y$matched$mereged.trees, eg. y$matched$mereged.trees[[1]] gives the first tree, and so on.
angle:	the angle to draw branch outward from the center (default = 15 degrees). Lower value makes trees tighter.
branch.width:	The width of the tree branch, default = 1

Examples

## Not run: 
library(clonevol)
data(aml1)
tree = aml1$matched$merged.trees[[1]]
\dontrun{
plot.tree.clone.as.branch(tree)
}

## End(Not run)

hdng/clonevol documentation built on May 17, 2019, 3:19 p.m.