plotClusters: Plot density plots from clutering results.

In thesushantpatil/maftools: Summarize, Analyze and Visualize MAF Files

Description

Plots results from inferHeterogeneity.

Usage

plotClusters(
  clusters,
  tsb = NULL,
  genes = NULL,
  showCNvars = FALSE,
  colors = NULL
)

Arguments

clusters	clustering results from inferHeterogeneity
tsb	sample to plot from clustering results. Default plots all samples from results.
genes	genes to highlight on the plot. Can be a vector of gene names, CN_altered to label copy number altered varinats. or all to label all genes. Default NULL.
showCNvars	show copy numbered altered variants on the plot. Default FALSE.
colors	manual colors for clusters. Default NULL.

Value

returns nothing.

See Also

inferHeterogeneity

Examples

## Not run: 
laml.maf <- system.file("extdata", "tcga_laml.maf.gz", package = "maftools")
laml <- read.maf(maf = laml.maf)
seg = system.file('extdata', 'TCGA.AB.3009.hg19.seg.txt', package = 'maftools')
TCGA.AB.3009.clust <- inferHeterogeneity(maf = laml, tsb = 'TCGA-AB-3009',
segFile = seg, vafCol = 'i_TumorVAF_WU')
plotClusters(TCGA.AB.3009.clust, genes = c('NF1', 'SUZ12'), showCNvars = TRUE)

## End(Not run)

thesushantpatil/maftools documentation built on May 18, 2020, 9:54 p.m.