akdemirlab/HiCPlotter

How to view .hic files

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What is the best way to view a .hic file which is already storing all the contact matrices? Basically, I have two . files and I want to compare them using the HiC Plotter compare function. It seems that a matrix file is needed for HiC plotter, but I was wondering if there was a way to get a full matrix file from the .hic file
Thanks

Hi,
It's a good point. I started implementing to import .hic files in HiCPlotter but it's still not ready.
You can use straw function from Aiden lab to extract a particular regions interactions from a .hic file (https://github.com/aidenlab/straw/wiki/Python).
I hope this helps.