plotSmoothMeth: Plots smoothed methylation values for a bunch of samples and...

In BiSeq: Processing and analyzing bisulfite sequencing data

Description

This function plots the smoothed methylation data as lines for a given region and all given samples. It is also possible to average the data for groups of samples.

Usage

plotSmoothMeth(object.rel, region, groups, group.average, ...)

Arguments

object.rel	A BSrel.
region	A GRanges of length one.
groups	OPTIONAL. A factor defining two or more sample groups within the given object.
group.average	OPTIONAL. A logical. If TRUE, then the data is averaged for the groups given in groups. Default is FALSE..
...	Other graphical parameters passed to the plot function.

Author(s)

Katja Hebestreit

See Also

plotMeth, plot

Examples

data(predictedMeth)
data(DMRs)

plotSmoothMeth(object.rel = predictedMeth,
               region = DMRs[3] + 200,
               groups = colData(predictedMeth)$group,
               col=c("magenta", "blue"))
legend("topright",
       lty=1,
       legend=levels(colData(predictedMeth)$group),
       col=c("magenta", "blue"))

BiSeq documentation built on Nov. 8, 2020, 8:05 p.m.