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dozmorovlab / HiCcompare

Joint normalization of two Hi-C matrices, visualization and detection of differential chromatin interactions. See multiHiCcompare for the analysis of multiple Hi-C matrices
https://dozmorovlab.github.io/HiCcompare/
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Comparing Allele-specific HiC matrices #25

Closed StephenRicher closed 2 years ago

StephenRicher commented 2 years ago

Hi,

Thanks for developing this fantastic tool. I was wondering if this tool was recommended for comparing between HiC matrices of different alleles (e.g. A1 vs. A2).

Thanks, Stephen

mdozmorov commented 2 years ago

We have not tested it, but by design, HiCcompare should be ideal for allele-specific Hi-C matrix comparison. It will eliminate all technical biases and detect if there are interaction differences associated with allele-specific regions.

Hope that helps, closing, but please ask more and let know how it went.