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Comment: Doubt about expression data as well as assay
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ATpoint
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Should've followed the advise from Slack and add any details, for example a specific dataset.
Comment: Help with Error in DiffBind
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Chris
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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?
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Giulia
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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
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ATpoint
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I asked the same some years back: https://support.bioconductor.org/p/p134551/#p134561
Comment: FlowSOM with unrelated channels
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helucro
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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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