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Comment: Fail to run RupRadar by Qingwei • 0
Dear Sergi, Yeah, it works. ```r dm <- analyzeDuprates(bamDuprm,gtf,stranded,paired,threads, GTF.featureType="cDNA_match", GTF.attrType="ID…
Comment: LogFC values in edgeR - w/wo intercept by Gordon Smyth 45k
The link you've entered for "A guide to creating design matrices for gene expression experiments" doesn't work. Could you please correct th…
Comment: LogFC values in edgeR - w/wo intercept by Gordon Smyth 45k
You can still form contrasts in some circumstances, but not the contrast you used. In your code there is no need for a contrast. For the in…
Comment: LogFC values in edgeR - w/wo intercept by JK Kim • 0
Thank you, Dr. Smyth. So it doesn't make sense to form a contrast for the intercept model, does it?
Answer: LogFC values in edgeR - w/wo intercept by Gordon Smyth 45k
edgeR gives identical results whether you use an intercept or not. The two approaches between the intercept model and the no-intercept (gro…
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Answer: LogFC values in edgeR - w/wo intercept
Answer: LogFC values in edgeR - w/wo intercept
Answer: broken chain import in liftOver
Answer: toGRanges help!
Answer: toGRanges help!
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