HiC2MicroC

Install

The following Python libraries are required.

1. Cooler (https://cooler.readthedocs.io/en/latest/index.html)
2. Pytorch 
3. NumPy
4. Pandas
5. SciPy
6. einops (https://einops.rocks/) 

Usage

Three parameters required:

python HiC2MicroC.py -f1 file1 -f2 file2 -f3 file3

1. file1: a 5-kb Hi-C file in cool format
2. file2: chromosome size file
3. file3: output prefix

HiC2MicroC will generate file3.cool, which is our predicted Micro-C file.