[BioC] Analysis for only 2 replicates

[fhong@salk.edu]

try Rankprod which is based on fold change but with much more power.

Fangxin

> Dear list,
>
> I have 2 -wt and 2-mutant samples done on Affymetrix chips.
> Could you suggest the best way to analyze this experiment? Is averaging
> both replicates and picking genes based on fold change good??
> Thanks for any suggestions.
>
>
> Sohail Khan
> Scientific Programmer
> COLD SPRING HARBOR LABORATORY
> Genome Research Center
> 500 Sunnyside Boulevard
> Woodbury, NY 11797
> (516)422-4076
>
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>


--------------------
Fangxin Hong  Ph.D.
Plant Biology Laboratory
The Salk Institute
10010 N. Torrey Pines Rd.
La Jolla, CA 92037
E-mail: fhong at salk.edu
(Phone): 858-453-4100 ext 1105