akdel/OptiMap

OptiMap - Optical-map molecule alignment tool

Requirements:

Depends on OptiScan

Installation

git clone https://gitlab.com/akdel/OptiMap.git
cd OptiMap
pip install .

Test with toy data

OptiSpeed ./data/molecules_test.bnx --first_score=0.8 --second_score=0.75 --output_filename=test_output.tsv --combine_sparse=True
OptiSpeed-denoise ./data/molecules.npy --first_score=0.8 --second_score=0.75 --output_filename=denoised_molecules.npy
OptiSpeed ./data/denoised_molecules.bnx --first_score=0.8 --second_score=0.75 --output_filename=test_output.tsv --combine_sparse=True