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open2c / distiller-nf

A modular Hi-C mapping pipeline
MIT License
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[Question] How to normalize and do MAD-max with distiller #87

Open sameedms opened 6 years ago

sameedms commented 6 years ago

Hi,

First of all: thanks for the great work. I was reading the paper (from your lab) "Two independent modes of chromatin organization revealed by cohesin removal." In the paper, the authors mention using hicLib to do a lot of the aligning, normalization, and MAD-max (?) filtering. However, I understand that distiller is the successor to hiclib. I was wondering how I might do the MAD-max filtering and normalization with distiller?

Thanks, Sameed

Phlya commented 6 years ago

AFAIK balancing does this, it is implemented in the cooler library/file format.