ggMA: MA plot from mean expression and log fold changes
In btmonier/ggDESeq: Visualization Tools to Make DESeq Analysis Easier

Description Usage Arguments Details Author(s) Examples

This function allows you to extract necessary results-based data from a DESeq object class to create a MA plot (i.e. a scatter plot) of log2 fold changes versus normalized mean counts while implementing ggplot2 aesthetics.

1	ggMA(data, ylim = NULL, padj = 0.05, lfc = 1)

`data`	a DESeq object class
`ylim`	optional limits to the y axis
`padj`	significance threshold for adjusted p-value highlighting
`lfc`	fold change threshold for visualization

This function allows the user to extract various elements from a DESeq object class which in turn, creates a temporary data frame to plot the necessary ggplot aesthetics. Data points with 'extreme' values that exceed the default viewing frame of the plot will change character classes (i.e. points of interest a substantially large log fold change).

Brandon Monier, brandon.monier@sdstate.edu