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Comment: DESEQ2 Default Value for Cooks Distance cutoff by Vitor • 0
Dear Michael, how can I use 0.95 quantile to be more stringent?
Answer: Considerations behind the choice of RNAseq Differential Expression Analysis Tool by Michael Love 43k
We recommend fishpond's swish method for isoform-level DE analysis as it takes into account inferential uncertainty that is present when yo…
Answer: No preprocessing allowed for EPICv2 with DMRcate by James W. MacDonald 67k
Have you read the [vignette that describes how to process the EPICv2 arrays][1]? Also the [NEWS file that tells you what changes have been …
Comment: How do I fix an odd voom plot in a combined dataset? by James W. MacDonald 67k
It looks more as you might expect, although it doesn't appear that you are filtering many of the low expressing genes out. Normally you sho…
Comment: Package `not available for Bioconductor version '3.20'` when it should be by Levi Waldron ★ 1.1k
Thanks, @mike-smith . I'll let the maintainer @bhaibeka know.
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Answer: Package `not available for Bioconductor version '3.20'` when it should be
Comment: How do I fix an odd voom plot in a combined dataset?
Comment: How do I fix an odd voom plot in a combined dataset?
Comment: Theoretical WGCNA Question
Answer: Is it possible to work with DESeq2 where data is not properly matched for sex a
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