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If you use this repo, please cite:

Qiu, Y., Liew, C. S., Mateusiak, C., Kesharwani, R., Gu, B., Raza, M. S., Biederstedt, E., Yaman, U., Al Nahid, A., Tat, T., Modha, S., & Kubica, J. (2023). Isocomp. Carnegie Mellon, University of Nebraska-Lincoln, Washington University, Baylor College of Medicine, University of Southern California, Beijing Institute of Genomics, Chinese Academy of Sciences/China National Center for Bioinformation, HMS, UK Dementia Research Institute, University College London, Shahjalal University of Science and Technology, Houston Methodist Research Institute, Theolytics Limited, University of Warsaw. https://github.com/collaborativebioinformatics/isocomp

Significant dependencies

BioPython

Cock, P.J.A. et al. Biopython: freely available Python tools for computational molecular biology and bioinformatics. Bioinformatics 2009 Jun 1; 25(11) 1422-3 https://doi.org/10.1093/bioinformatics/btp163 pmid:19304878

edlib

Martin Šošić, Mile Šikić; Edlib: a C/C ++ library for fast, exact sequence alignment using edit distance. Bioinformatics 2017 btw753. doi: 10.1093/bioinformatics/btw753

PyRanges

Endre Bakken Stovner , Pål Sætrom, PyRanges: efficient comparison of genomic intervals in Python, Bioinformatics, Volume 36, Issue 3, February 2020, Pages 918–919, https://doi.org/10.1093/bioinformatics/btz615