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XiaoTaoWang / NeoLoopFinder

A computation framework for genome-wide detection of enhancer-hijacking events from chromatin interaction data in re-arranged genomes
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What is the strength of the neoloops? #12

Closed joreynajr closed 3 years ago

joreynajr commented 3 years ago

I ran NeoLoopFinder on some data and got the following neoloops, however I can't find any sort of value indicate the strength/confidence we have in this loop. Can NeoLoopFinder provide such a value? Maybe some value from the Peakachu prediction algorithm? image

XiaoTaoWang commented 3 years ago

Hi, thanks for the feedback, I might add this function to the next major version. For now, you need to manually tune the probability threshold via the "--prob" to obtain loops of different strength.

joreynajr commented 3 years ago

Thanks for the info! I'll try out the "--prob" for now.