HiCexplorer version

[xinwang-bio]

Hi Authors Which HiCexplorer version you used ? I have installed the latest version, But it shows No module named HiCMatrix. Thanks.

[azkalot1]

Installing HiCexplorer 2.1.3 worked for me, not 3.0

[vivekbhr]

We removed HiCMarix module from hicExplorer in version 2.2 and made it a separate library. That might be the issue here. You can separately install HiCMatrix, or downgrade HiCEx version below 2.2

[xinwang-bio]

We removed HiCMarix module from hicExplorer in version 2.2 and made it a separate library. That might be the issue here. You can separately install HiCMatrix, or downgrade HiCEx version below 2.2

Thanks a lot. I will try the version below 2.2.

[xinwang-bio]

Installing HiCexplorer 2.1.3 worked for me, not 3.0

Thanks a lot. I will try version 2.1.3.

[EarlyEvol]

fyi Got the standalone HiCMatrix install to play nice with HICAssembler to be able to use HiCExplorer 3. All from a fresh miniconda3 install with pip

git clone https://github.com/deeptools/HiCMatrix.git
pip install ./HiCMatrix/

because this is all in miniconda, could just change HiCassembler.py and Scaffold.py to load HICMatrix from hicmatrix instead of hicexplorer with:

import hicexplorer.HiCMatrix as HiCMatrix

to

import hicmatrix.HiCMatrix as HiCMatrix

Seems to be working well.