plotCountVJ: plot a heatmap of V-J count

In ph-pham/RepSeq: Analysis of High-throughput sequencing repertoire data (RepSeqTools)

Description

function plots a heatmap of V-J counts for sampleName

Usage

plotCountVJ(x, sampleName = NULL, scale = c("counts", "percent", "cpm"))

Arguments

x	an object of class RepSeqExperiment
sampleName	sample to plot, sample name must be existed among x column names.
scale	type of data to plot: raw count, percentages or count per million.

Value

a heatmap

See Also

pheatmap

Examples

## Not run: 
# The package RepSeqData contains example datasets 
library(RepSeqData)
snames <- rownames(sData(RepSeqData))
# plot heatmap of count for all V-J combinations for the first sample.
plotCountVJ(x = RepSeqData, sampleName = snames[1], scale = "counts")

## End(Not run)

ph-pham/RepSeq documentation built on Dec. 22, 2021, 7:47 a.m.