Peak Calling

[rojinsafavi]

Hi @rcorces ,

I was wondering if the score columns from the getPeakSet() output could be used to filter peaks? The reason is that when I look at the browser, some peaks have very very low accessibility, but they are still in the peak matrix. That influences my downstream work which is related to peak-to-gene analysis. I prefer not to include those peaks in the downstream analysis since I don't think they are that reliable. In your opinion, does it make sense to filter peaks based on the score?

Thank you!

[rcorces]

that makes sense to me. You could alternatively change the cutOff param to addReproduciblePeakSet()