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Comment: Doubt about expression data as well as assay by ATpoint ★ 2.4k

Should've followed the advise from Slack and add any details, for example a specific dataset.

Comment: Help with Error in DiffBind by Chris • 0

Thanks Rory for your reply! My peak files is .broadPeak, created from nf-core/ATAC. The PeakCallers column is broad.

Comment: DiffBind with ChIPseq from histone analysis: EdgeR or Deseq2? by Giulia • 0

Hi Rory, Thank you for your quick reply and advice on the matter. The following are the MAplots for the analysis using the background=TRU…

Answer: DESeq2 lfcShrink: swapping reference gives different results for the same compar by ATpoint ★ 2.4k

I asked the same some years back: https://support.bioconductor.org/p/p134551/#p134561

Comment: FlowSOM with unrelated channels by helucro ▴ 70

Could you perhaps comment one why you would want to include non-biological "unrelated" channels such as time and event length for clusterin…

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Comment: From a ENST to ENSG

Answer: Help with Error in DiffBind

Answer: DiffBind on ATAC seq data

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