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Answer: Low Differentially Bound Sites found with DiffBind
by
Rory Stark
★
4.4k
The script looks fine for a basic analysis.
There are a number of *possible* reasons you may not be getting any significantly differenti…
Answer: Diffbind analysis of ATAC-seq data
by
Rory Stark
★
4.4k
This is showing that all of the open chromatin changes are in the same "direction": sites that are open in the `aa` condition only. There a…
Comment: How to get DESeq2 results for a list of genes
by
Michael Love
37k
Just to weigh in here, @atpoint does volunteer a lot of time helping new users on the Bioconductor support site, and I don't see his post a…
Comment: DiffBind: GreyListChIP error: Error: $ operator is invalid for atomic vectors
by
Rory Stark
★
4.4k
I would welcome the opportunity to debug this issue if you were willing to send me your DBA object `dba` and a link to a place I could acce…
Comment: During dba(sampleSheet = "samples.csv") step, Error in mergeScores(merged, def,
by
Rory Stark
★
4.4k
I see the `PeakCaller` is set to `macs`, are your peak files the `.xls` files generated by `MACS`?
If they are, it would help to see your…
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