[BioC] RMA and GeneCluster

[Huang, Mingqian]

Hi,

I'm trying to use GeneCluster to analyze our GeneChip data normalized with RMA.
However, there is another normalization option in GeneCluster:

Normalize to Mean ____ and Variance ____

The results I got with or without this step are quite different, even though the
data has been treated with RMA. What does this normalization process do? Should
I do this step + RMA or should I just rely on RMA?

Thanks for your help.

Mingqian Huang