[BioC] limma design matrix

Auer Michael michael.auer at meduniwien.ac.at
Mon Jan 10 17:42:20 CET 2005


Hi

I know this has been dealt with before, but I would really appreciate some
help.
I am anaylsing affy chips and I have three different sample types,
lpl-high, lpl-low and brain.
I construct a factor vector below
TS <-c(rep(“lpl-high”,12),rep(“lpl-low”,10),rep(”brain”,17))
TS<- factor(TS, levels= c(“lpl-high”,“lpl-low”,”brain”))

I would simply want to make an analysis of variance, see wheter these
three samples are differentially expressed (F value). I am not interested
in any contrasts. How can I do that?

Thanks a lot!!!!!



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