Enhacers find out with Homer

Question

[Azhar]

Hi Any body who is using Homer can help. I try to find out Enhancers by using -typical command option but it does not works and produce same simple peak file produced by find peals whereas -style super works good for super Enhancers

[roy.granit]

As I understand you should tun that command using '-style factor' and also '-typical' - is that what you did?

"If you want findPeaks to output the typical (non-super) enhancers too, specify -typical followed by the desired output file name."

Answer 1

[abhishek.mitra]

Try my tool. It will report enhancers for any human peak file (currently supports hg19) in BED format. It needs at least 20GB RAM though

https://github.com/goxed/peak-tool