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Answer: accounting for vs. removing batch effects with DESeq2 in RNAseq analysis
by
ATpoint
★
4.6k
The vignette covers batch effects as per the authors best practice, please read it and consider following it.
Comment: DESeq2 analysis with transcript counts
by
kahunroleh
•
0
Thanks for sharing the solution. I also face this problem.
[nulls][1]
[1]: https://nulls-brawl-apk.fr/
Comment: Is there a way to do DEG analysis across two batches sharing one sample only?
by
kahunroleh
•
0
Yes, you can perform DEG analysis across two batches with one shared sample by using batch correction methods like ComBat or limma. These t…
Comment: displaying the differential expression with deseq2 over 4X2 samples with the in
by
Martijn
•
0
thanks James, but if I do pairwise analyses per subject, I get the impression that I only get the intercepts per gene. Do you mean regardin…
Comment: plyranges: find exact GRanges match keeping metadata columns
by
alexis.weinreb
•
0
Thank you, this does clarify the available options.
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