Question: MACS2: What is in 4th column of treat_pvalue.bdg/treat_qvalue.bdg files?
gravatar for salamandra
6 months ago by
salamandra170 wrote:

MACS2 output files, 'treat_pvalue.bdg' and 'treat_qvalue.bdg', contain only significant peaks (with p-value/q-value below user defined threshold).

But is 4th column of these files the difference in intensity (score) between ChIP and Input, or is it intensity (score) for ChIP only?

If it is the intensity for ChIP only, then what tools can get the difference between ChIP and Input intensities?

chip-seq macs2 • 272 views
ADD COMMENTlink modified 6 months ago • written 6 months ago by salamandra170
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