[BioC] limma Common Reference Analysis.

[Khan, Sohail]

Hi,

I have analyzed a common reference with 4 groups experimental design by applying the same method described in the limma user's guide for common reference 2 groups.
However,  all of the reference samples were labeled with Cy5.  Therefore I multiplied all of the resulted ratios with -1.
I this a valid approach?
Thanks.


Sohail Khan
Scientific Programmer
COLD SPRING HARBOR LABORATORY
Genome Research Center
500 Sunnyside Boulevard
Woodbury, NY 11797
(516)422-4076