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

plotSmoothMeth {BiSeq}

R Documentation

Plots smoothed methylation values for a bunch of samples and a given region

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

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"))