plotMethProfile: Plots methylation profiles over a specific region

In TomMayo/M3Ddevel: (development for M3D) Identifies differentially methylated regions across testing groups

Description

Plots a smoothed methylation profile for each of the two testing groups. Within each group, the mean of methylation level is taken, smoothed and plotted, along with the individual values.

Usage

plotMethProfile(rrbs, CpGs, group1, group2, CpGindex)

Arguments

rrbs	An rrbs object containing methylation and coverage data as created using the BiSeq pacakge
CpGs	A GRanges object with each row being a testing region
group1	The name of the first testing group
group2	The name of the second testing group
CpGindex	The index within the CpGs object of the region we are plotting

Value

NULL, the function plots the profiles

Author(s)

Tom Mayo [e-mail]

Examples

# plot the 9th region in the Toy Data Set
data(rrbsDemo)
data(CpGsDemo)
plotMethProfile(rrbsDemo, CpGsDemo, 'H1-hESC', 'K562', 9)

TomMayo/M3Ddevel documentation built on May 9, 2019, 4:53 p.m.