[BioC] Multi-level experiments
Yu Cai [guest]
guest at bioconductor.org
Thu Jan 9 06:49:56 CET 2014
Dear Limma Experts:
I am currently working on a project that has exactly the same design as the example given in Section 9.7 multi-level experiments of Limma package's user guide. But our questions about the contrasts are slightly different: 1) what's the overall difference between disease and normal regardless of tissue types, and 2) what's the overall difference between tissue A and tissue B regardless of whether diseased or normal?
Here is my modification to the contrasts in attempt to answer our questions:
cm <- makeContrasts(
+ DiseasedvsNormal = (Diseased.A-Normal.A + Diseased.B-Normal.B)/2,
+ TissueBvsTissueA = (Normal.B-Normal.A + Diseased.B-Diseased.A)/2,
+ levels = design);
Am I right?
Tremendous thanks for your help.
-- output of sessionInfo():
Sent via the guest posting facility at bioconductor.org.
More information about the Bioconductor