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Comment: Pre-filtering, adjusting independent filtering, or lfcthreshold() on DESeq2? Low by Michael Love 43k

It has to come from the biology. What is a meaningful fold change in the system. Depending on context that could be doubling (1) or increas…

Comment: Two EPIC Methylation Array Analysis Questions by nana • 0

If you're searching for a fresh, chaotic, and laugh-out-loud gaming experience, look no further than [Crazy Cattle 3D][1]. [1]: https:/…

Comment: Pre-filtering, adjusting independent filtering, or lfcthreshold() on DESeq2? Low by Alexander • 0

Dr. Love, Thank you for the support. Is there a hard-and-fast rule for choosing a threshold in bulk RNAseq analyses using lfcthreshold()? …

Answer: Pre-filtering, adjusting independent filtering, or lfcthreshold() on DESeq2? Low by Michael Love 43k

There are a couple posts on here that also mention this but maybe hard to find: lfcShrink is more aggressive at shrinking that the point nu…

Answer: Which GTF file to use for creation of tx2gene files? by Michael Love 43k

I use the top GTF and FASTA from GENCODE. I do not include haplotype chromosomes in the reference.

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Answer: Is voomByGroup available in limma?

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Scholar to Michael Love 43k