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Answer: Feature Counts - potential bug with outfile.jcounts
by
Gordon Smyth
52k
The behavior you have documented in not surprising and is explained in the featureCounts documentation. The first thing to understand is…
Answer: Feature Counts -R XS Read Assignment Tag
by
Gordon Smyth
52k
I am not very familiar with this part of the featureCounts code, but I do not think it would be at all practical or desirable for featureCo…
Comment: Margins for gene_set_enrichment_plot
by
Leonardo Collado Torres
★ 1.1k
Thanks! This one might be worth remaking with `ComplexHeatmap`. Similar to https://github.com/LieberInstitute/spatialLIBD/pull/91 that was …
Comment: DESeq2 - Comparing Comparisons
by
James W. MacDonald
67k
Full disclosure: I don't use `DESeq2`, and find the contrasts specification confusing. Because of that, I generally recommend using `result…
Comment: DESeq2 - Comparing Comparisons
by
sk
• 0
Hi James, Thank you for your response! Quick follow-up; if I structure my contrast as below, will it perform (A-B) - (C-D)? res_diff <…
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Answer: Mapping Between GenBank ID's and Uniprot
Comment: What type of counts data to import for performing Isoform analysis in edgeR
A: Relations used in GO.db GOBPANCESTOR
Relations used in GO.db GOBPANCESTOR
Answer: RSubread output significantly different from bash Subread output
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