convert.consensus.tree.clone.to.branch: Create trees for all merged.trees in clonevol output

In hdng/clonevol: Clonal ordering and visualization

Description

Take all merged/concensus trees in clonal evolution object output of infer.clonal.models function, and convert them to branch-based clonal evolution tree by adding additional columns and branch length scale, => make them ready to plot.

Usage

convert.consensus.tree.clone.to.branch(x, cluster.col = "cluster",
  branch.scale = "none")

Arguments

x:	output of infer.clonal.models
cluster.col:	cluster column name (used to count variants in each cluster/clone, and scale tree branch length
branch.scale:	values=c('none', 'sqrt', 'log2'), scale branch length by corresponding transformations. Note, branch length will be estimated by the number of variants in each cluster/clone

Examples

data(aml1)
y = aml1
y <- convert.consensus.tree.clone.to.branch(y, branch.scale = 'sqrt')

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