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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
by
helucro
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60
Could you perhaps comment one why you would want to include non-biological "unrelated" channels such as time and event length for clusterin…
Answer: DiffBind with ChIPseq from histone analysis: EdgeR or Deseq2?
by
Rory Stark
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4.6k
It is unusual to see such a big difference between the two analysis methods, although it is more likely when you have only two replicates d…
Comment: Does DiffBind make consensus peaks sets for samples from a given condition (e.g.
by
Rory Stark
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4.6k
You need to call `dba.normalize()` twice, first to establish the normalization calculations, and the second time to retrieve them:
cou…
Answer: DiffBind on ATAC seq data
by
Rory Stark
★
4.6k
Within `DiffBind`, the main thing is to change the value of the `summits` parameter when calling `dba.count()`. The default value of 200 re…
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