plotDifferences {FourCSeq} | R Documentation

## Plot differences

### Description

`plotDifferences` generate plots to investigate the results of `getDifferences`

### Usage

    plotDifferences(object, plotWindows = c(1e+05, 1e+06), textsize = 20,
      diffThresh = 0.01, controls = NULL, txdb = NULL, conditionAB = NULL)

### Arguments

`object` | A `FourC` object.
`plotWindows` | Window sizes around the viewpoint for which plots are generated.
`textsize` | Adjust text size.
`diffThresh` | Threshold on adjusted p-values calculated in the differential test.
`controls` | Auxiliary `GRanges` object that contains information about the viewpoint and closest gene TSS.
`txdb` | Auxiliary `TranscriptDb` object that contains gene models for the investigated organism.
`conditionAB` | Condition A and B, for which the comparison is plotted.

### Author(s)

Felix A. Klein, felix.klein@embl.de

### See Also

`FourC`, `getDifferences`

### Examples

    data(fcf, package="FourCSeq")

    fcf <- getDifferences(fcf, referenceCondition="WE_68h")

    plotDifferences(fcf)

[Package FourCSeq version 1.20.0 Index]