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Answer: edgeR 4.2.1 compression bug: a minimally reproducible snippet by Gordon Smyth 51k

Thanks very much for the reproducible example. The bug has been fixed now in edgeR 4.3.17 on the Bioconductor developmental repository.

Answer: Highly DE genes but small count difference within conditions by h1vu81gcd7 • 0

It sounds like you're diving deep into DE analysis, comparing condition1 with the control using a solid design. However, the elevated padj …

Comment: dmpFinder for other objects by neyousha • 0

Hi James, Thank you a lot for responding. Hmm... so do you think if have matrix average_beta below: ![average_beta_matrix][1] [1]:…

Comment: DEseq2 time-series design by Michael Love 42k

Would you mind making a new post -- it's just easier for threaded content. And feel free to post any particular code or images you need.

Comment: Rsubread alignment crashes at 35%, valgrind indicates invalid writes by Yang Liao ▴ 440

Thanks for taking the time to report the bug! The provided `Valgrind` report is very helpful and suggests the issue lies within the banded …

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Answer: dmpFinder for other objects

GSVA ssGSEA vs. Broad implementation of ssGSEA

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