plotSSD-methods {ChIPQC} | R Documentation

## Generate SSD plot

### Description

Generate SSD metric plot. If blacklists supplied, will generate SSD prior and post blacklisting

### Methods

`signature(object = "ChIPQCexperiment", facet=T, facetBy=c("Tissue","Factor"))`

  Generate SSD metric plot for all samples in experiment. If blacklists supplied, will generate SSD prior and post blacklisting

`signature(object = "list", facet=T, facetBy=c("Tissue","Factor"))`

  Generate SSD metric plot for list of samples in experiment. If blacklists supplied, will generate SSD prior and post blacklisting

`signature(object = "ChIPQCsample")`

  Generate SSD metric plot for single sample. If blacklists supplied, will generate SSD prior and post blacklisting

### Note

plotSSD uses `ggplot2` for plotting, and returns a `ggplot2` plot gg object.

### Author(s)

Thomas Carroll and Rory Stark

### See Also

ChIPQC-package, ChIPQCexperiment, ChIPQCsample

### Examples

    data(example_QCexperiment)
    plotSSD(exampleExp,facetBy=c("Tissue","Factor"))
    plotSSD(QCsample(exampleExp,1))
    plotSSD(QCsample(exampleExp)[1:3])
    data(tamoxifen_QC)
    plotSSD(tamoxifen,facetBy=c("Tissue","Condition"))

[Package ChIPQC version 1.28.0 Index]