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Palgrave 05-22-2012 03:30 AM

EdgeR compare 3 samples (RNA_Seq)
I have three subgroup witk 2 or 3 column each. I want to compare the subgroups with each other and print and vizualize differential expressed genes.

How do I do this using EdgeR?

Gordon Smyth 05-27-2012 11:39 PM

The edgeR User's Guide, which comes with the package, gives fully worked start to finish analyses for five case study data sets. There isn't a case study with exactly three groups, but extrapolating from the examples should not be too difficult.

Best wishes

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