RnaSeqTutorial-plotMA: MA (median vs. average) plot
In UPSCb/RnaSeqTutorial: RNA-Seq Tutorial

Description Usage Arguments Details Value See Also Examples

Draws an MA plot, in the present case (the log2 fold changes vs. the log10 of the mean)

1 2	## S4 method for signature 'DataFrame' plotMA(object, alpha = 0.01, log2FC = 0.5)

`object`	an object of class `DataFrame` having at least 3 columns named `baseMean`, `log2FoldChange` and `padj`
`alpha`	the significance cutoff to be used when plotting, defaults to 10e-2
`log2FC`	the log2 fold change used for plotting, defaults to 0.5.

This function has been devised to draw a series of MA plot from a DESeq DataFrame object. Use as(object,"DataFrame") to use the DESeq2::results obtained from DESeq2::DESeq. The cutoffs have been devised from Schurch et al., RNA, 2016

TRUE invisibly

DESeq package

## Not run: 
## TODO add an object after putting results in the data folder
## and use that for plotting the example
data(RST-DataFrame)
volcanoPlot(dataFrame)

## End(Not run)