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Comment: Test of Multiple Linear Combination on coefficients from Wald Test in Deseq2
by
James W. MacDonald
66k
Oh, and I don't understand your second question. If you set a contrast vector to be all zeros (which I think is what you are asking), then …
Answer: Test of Multiple Linear Combination on coefficients from Wald Test in Deseq2
by
James W. MacDonald
66k
If your coefficients are the contrasts you want, you can just use the name argument. Or you can specify the contrast using the column and l…
Comment: Deseq2 use fpkm
by
James
• 0
Hi @mikelove thanks for this. But if I was just to take the TPM from Salmon, this would not be between sample normalised, so would it be fa…
Comment: Problem with fgsea
by
James W. MacDonald
66k
Please don't add questions (as a comment!) to two year old posts. If you have a question, please generate a new post.
Answer: Significant genes in DESeq2 analysis
by
James W. MacDonald
66k
The short answer is that your results are fine. There's no expectation for what proportion of bars in a histogram of the p-values should be…
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Answer: How to save `SingleCellExperiment` with `DelayedArray` assay(s) in a portable fo
Answer: Otsu threshold segmentation using EBImage
A: Limma Voom produces many identical adjusted p-values
Limma Voom produces many identical adjusted p-values
A: goana limma- extract list of DE genes and genes in the enriched GO terms?
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