Bioconductor ComparativeGenomics

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RNASeq WGCNA ComparativeGenomics

updated 3 months ago by ATpoint ★ 4.7k • written 3 months ago by siobhan.dietz • 0

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ComparativeGenomics Normalization RNASeq DESeq2

written 13 months ago by georgii.vdovin • 0

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PhD single-cell ComparativeGenomics evolution

3.4 years ago henrik.kaessmann • 0

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Comment: how many significant figures are there in DESeq2 output by ATpoint ★ 4.7k

If you want consistency then use a fixed software environment like Docker, wirh fixed code and thresholds that make sense. Rounding to near…

Comment: Compare TCGA-PAAD with GTEx gene expression by Jane • 0

why aren't there any answers?

Comment: Too many significant genes when integrating gtex and tcga by Jane • 0

I encountered the same issue: too many DEGs after limma analysis. It is sad that until today we can still see the paper published where GTE…

Comment: how many significant figures are there in DESeq2 output by Matthew McCormack ▴ 180

Thank you for your reply. It is good to know that cutoff of 0.05 means less than 0.05. My concerns are about consistency and reproducibili…

Comment: DiffBind edgeR normalization --- why are the normalization factors all equal to by ATpoint ★ 4.7k

No, normalization factors from edgeR rather than size factors from DESeq2 are not proportional, it's a different concept and implementation…

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