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Answer: Can GSVA be applied in several sample type and each type only have two replicate
by
Robert Castelo
★
2.9k
Dear Guandong,
sorry for the very late reply to your post, I somehow overlooked it. The non-parametric density estimation is made using …
Comment: Question on RNA-Seq single sample data analysis in EdgeR
by
Gordon Smyth
45k
You questions are answered by the edgeR documentation.
I thought from your question that you already understood that you have no replicati…
Comment: DEseq2: working with unbalanced number of sample in tumor study?
by
sadiksha.adhikari
•
0
Hi, I have a similar problem in my analysis: 35 vs 800 samples. I found several posts where you have commented that "There is no problem wi…
Comment: Question on RNA-Seq single sample data analysis in EdgeR
by
mohammedtoufiq91
▴
10
@gordonsmyth Hi, thank you very much for the prompt response. Sure, I will create a `DGEList object` from a table of counts and samples >…
Answer: Question on RNA-Seq single sample data analysis in EdgeR
by
Gordon Smyth
45k
Yes, it is necessary to run `calcNormFactors`, as it always is for any DE analysis. It would also be sensible to filter non-expressed genes…
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