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Comment: Batch correction and Deseq2
by
suphamon.j
• 0
Hi, thank you very much for your answer. As I have seen some articles about normalization, I have a confusion a little bit about the diff…
Comment: RUVSeq and DESeq2 -- all variables in design formula must be columns in colData
by
helucro
▴ 50
Not familiar with the package, but why the `…$Treament` in the formula when the it’s `key_IP_mf.Treatment`?
Comment: Time-course, comparison of two groups
by
Gordon Smyth
47k
My suggestion was not to use splines, in which case it's all pretty easy. Splines don't offer any essential gains for your replicated exper…
Answer: Plot profiles for each group - spline analysis in edgeR
by
Gordon Smyth
47k
In order to plot fitted trends, you need to first extract fitted values or estimated coefficients from the edgeR fit. That is the only way …
Answer: Compare and filter three BAM files
by
swbarnes2
★ 1.2k
If you think you have a mix of three different organisms in the ix, the better way to do this is to make one reference with all three genom…
Votes
Answer: Batch correction and Deseq2
Answer: How edgeR estimate the common dispersion?
Comment: RUVr batch correction doubling number of DEGs
Comment: RUVr batch correction doubling number of DEGs
Answer: RUVr batch correction doubling number of DEGs
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