The current version contains a single function, AAProcess. AAProcess
extracts the raw median signals from green and red channels of Agilent
scanner array files. It replaces values for replicate probes by the mean
of all replicates, and (optionally) removes control probes It log2
transforms data , and outputs txt files containing the red and green
channel data separately. It then normalises each set of data against a
baseline file (typically median or mean of a large set of arrays, using
LOESS regression. Finally outputs the normalised data. The normalisation
step can be optionally
omitted.