Hello - I have been trying to find a solution to identify overlapping peaks between two ChIP-Seq datasets. I have used the "Intersect the intervals of two datasets" function, under the *Operate on Genomic Intervals* toolset - however, I would like to be able to specify a given distance between the peaks to still be counted as "overlapping", and this tool requires at least 1bp overlap between peaks to be counted. For example, even if two peaks are within 500bp of each other (but don't overlap) I would like to score this as overlapping and get the resulting genomic coordinates for downstream analysis.
Thanks in advance for your help! Eric Van Otterloo
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