Read in ODGI Bin output and identify co-linear components
Environment: Anaconda 3.7
Ggfapy etc. does not have an anaconda package, so it's necessary to use pip:
pip install -r requirements.txt
IDE: Pycharm Professional 2019.1
- Travis CI - automatically runs tests on master and development branches
Parameters: --json-file=data/run1.B1phi1.i1.seqwish.w100.json --out-folder=data/ --cells-per-file=5000
In the terminal, run: export PYTHONPATH=$PYTHONPATH:/home/ubuntu/software/component_segmentation/matrixcomponent but replace with the path to your matrixcomponent directory. This solves ModuleNotFoundError #13.