How to query a hic file for whether two regions contact
I have run the Juicer pipeline to generate a .hic file for some Hi-C data and I want to check if some pairs of genomic regions I have are in contact. I'm not seeing any directions in the Juicer documentation for doing this. Do I need to use the dump command to export the matrix and use external scripts, or is there a way to can do this directly with the .hic file?
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