plotSingleMoleculesAmp: Do a single molecule plot of dSMF data

In jsemple19/nanodsmf: Analyse nanopore dual enzyme single molecule footprinting data (nanoDSMF)

Description

Do a single molecule plot of dSMF data

Usage

plotSingleMoleculesAmp(mat, regionName, regionGRs, featureGRs = c(),
  myXlab = "CpG/GpC position", featureLabel = "TSS", title = NULL,
  baseFontSize = 12)

Arguments

mat	A methylation matrix
regionName	The name of the region to be plotted (usually gene name). Must match Ids in reagionGRs
regionGRs	Genomic Ranges which include region to be plotted (ID metadata column must match regionName)
featureGRs	Genomic Ranges of any features of interest (e.g. TSS) that you wish to be plotted as vertical red line
myXlab	Text to be used for X axis label (default="CpG/GpC position")
featureLabel	Text to be used to label special feature you are plotting (default="TSS")
title	Text to be used as plot title (default=NULL will results in the plot named accorind to the regionGR)
baseFontSize	The base font size to be used for the plot (default is 12)

Value

A ggplot2 plotting object

Examples

plotSingleMoleculesAmp(methMat,"ttTi5605",ttTi5605gr,featureGRs=c(),myXlab="CpG position",featureLabel="TSS",title=NULL,baseFontSize=12)

jsemple19/nanodsmf documentation built on July 23, 2020, 7:40 a.m.