plotMeth {BiSeq} | R Documentation

## Plots raw and smoothed methylation data for a given region

### Description

This function plots the raw and the smoothed methylation data for one sample and a given region. The smoothed data is shown as a line (one line per CpG cluster) and the raw data is shown as points with color intensities proportional to the coverage.

### Usage

    plotMeth(object.raw, object.rel, region, col.lines, lwd.lines, col.points, ...)

### Arguments

`object.raw` | A `BSraw` with only one sample.
`object.rel` | A `BSrel` with only one sample.
`region` | A `GRanges` of length one.
`col.lines` | OPTIONAL. The color for the line representing the smoothed methylation values.
`lwd.lines` | OPTIONAL. The line width for the line representing the smoothed methylation values.
`col.points` | OPTIONAL. The color for the points representing the raw methylation levels.
`...` | Other graphical parameters passed to the `plot` function.

### Author(s)

Katja Hebestreit

### See Also

`plotSmoothMeth`, `plot`

### Examples

    data(rrbs)
    data(predictedMeth)

    region <- GRanges(seqnames="chr1",
                      ranges=IRanges(start = 875200,
                                     end = 875500))
    plotMeth(object.raw = rrbs[,6],
             object.rel = predictedMeth[,6],
             region = region)

[Package BiSeq version 1.30.0 Index]