DeepOM is a Python deep-learning software for optical mapping of DNA images to a genome reference. See the paper for details.
conda env create -f environment.yml
conda activate deepom
pip install -r requirements.txt
pip install -e .- Reproducing the figures from the paper: See Jupyter notebooks in the figures dir.
- Running the localizer net training:
conda activate deepom python deepom/localizer.py
- Running the benchmark:
conda activate deepom python deepom/bionano_compare.py