Compute the fold change (M) and average abundance (A) values from the data for MA plots.
Usage
analyze.ma(dataSet, ref = NULL, saveRes = TRUE)
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.
- saveRes
A boolean (default = TRUE) specifying whether to save the analysis
results to the current working directory.
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.