plotPhylo: plotPhylo()
In navinlabcode/copykit: CopyKit

plotPhylo

R Documentation

plotPhylo()

Description

Plots a phylogenetic tree.

Usage

plotPhylo(
  scCNA,
  label = NULL,
  label_colors = NULL,
  consensus = FALSE,
  group = NULL
)

Arguments

`scCNA`	scCNA object.
`label`	A string with the element of `colData`. to annotate the tips of the tree.
`label_colors`	A named list with colors for the label annotation. Must match label length
`consensus`	A boolean indicating if the consensus phylogenetic tree should be plotted.
`group`	A string that if provided will plot the tip labels as pie charts with the proportions from the provided element from `colData`

Value

A ggplot object with a phylogenetic tree visualization.

Author(s)

Junke Wang

Examples

set.seed(1000)
copykit_obj <- copykit_example_filtered()[,sample(100)]
copykit_obj <- findClusters(copykit_obj)
copykit_obj <- runPhylo(copykit_obj)
plotPhylo(copykit_obj, label = "subclones")

navinlabcode/copykit documentation built on Sept. 22, 2023, 9:16 a.m.