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XiaoTaoWang / HiCPeaks

A Python implementation for BH-FDR and HiCCUPS
GNU General Public License v3.0
40 stars 9 forks source link

Calling peaks genome-wide #4

Open rikrdo89 opened 4 years ago

rikrdo89 commented 4 years ago

HI, is there a way to call peaks genome-wide instead of the chromosome by chromosome? I guess I could make multiple chrxx_chrxx.txt files, and then concatenate all the calls, but i was hoping there was a more streamlined way of doing this.

XiaoTaoWang commented 4 years ago

Hi, Perhaps I didn't understand you very well ... but if you already have a .cool file created, by default the pyHICCUPS distributed with this package can detect loops of all chromosomes for you, you don't need to concatenate the calls manually.