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Compute the fold change (M) and average abundance (A) values from the data for MA plots.

Usage

analyze.ma(dataSet, ref = NULL)

Arguments

dataSet

The 2d data set of data.

ref

A string (default = NULL) specifying the reference condition for comparison. If NULL, all pairwise comparisons are performed.

Value

A list comprising data frames for each comparison, with each data frame containing the means of the two compared conditions for each protein, as well as the average and difference in means.