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Question: How to transform edgeR output into a cummeRbund object?
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gravatar for alakatos
9 months ago by
alakatos80
United States
alakatos80 wrote:

Hi All, 

I analyzed my data RNAseq data with edgeR but I like the ease of visualization by cummeRbund.

I was wondering if there is a way to transform "fit output" and  the "normalized counts" of edgeR to cummeRbund object.

I tried but I could not make it work.

Any suggestions are welcomed!

Thank you for your help and time.

All the best, 

Anita 

ADD COMMENTlink written 9 months ago by alakatos80
1

I think you will get more traction if you ask how to easily make whatever you want to visualize using edgeR objects. The number of people who know how to (or have even tried to) convert a DGEList into whatever object cummerBund uses is likely to be vanishingly small. But lots of people have made plots using data in edgeR.
 

ADD REPLYlink written 9 months ago by James W. MacDonald45k

Hi James, 

Thank you for your answer. 

Anita 

ADD REPLYlink written 9 months ago by alakatos80
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