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Old 05-22-2012, 04:30 AM   #1
Location: norway

Join Date: Aug 2011
Posts: 73
Default 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?
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Old 05-28-2012, 12:39 AM   #2
Gordon Smyth
Location: Melbourne, Australia

Join Date: Apr 2011
Posts: 91

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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