plotReferenceDistribution: Function to create reference distribution plot for comparison

In carmencita/CHIC: Quality Control Pipeline for ChIP-Seq Data

Description

Creates a density plot (in pdf) for the sample against the reference distribution (density plots) of the compendium values stratified by chromatin marks.

plotReferenceDistribution

Usage

plotReferenceDistribution(
  target,
  metricToBePlotted = "RSC",
  currentValue,
  savePlotPath = NULL
)

Arguments

target	String, chromatin mark or transcription factor to be analysed. Use listAvailableElements() function to check availability.
metricToBePlotted	The metric to be plotted (Default='RSC')
currentValue	The value of the current sample
savePlotPath	if set the plot will be saved under 'savePlotPath'. Default=NULL and plot will be forwarded to stdout.

Value

nothing, creates a figure under 'savePlotPath'

Examples

print ('Plot distribution of RSC')
## Not run: 
filepath=tempdir()
setwd(filepath)

plotReferenceDistribution(target="H3K4me1", 
    metricToBePlotted="RSC", currentValue=0.49, savePlotPath=filepath)

## End(Not run)

carmencita/CHIC documentation built on May 2, 2021, 5:09 p.m.