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GitHub / rki-mf1 / breakfast
breakfast is a simple and fast tool for clustering SARS-CoV-2 genomes using precalculated sequence features (e.g. nucleotide substitutions).
JSON API: https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/rki-mf1%2Fbreakfast
Stars: 10
Forks: 1
Open Issues: 6
License: mit
Language: Python
Repo Size: 5.49 MB
Dependencies:
47
Created: over 2 years ago
Updated: about 1 year ago
Last pushed: over 1 year ago
Last synced: about 1 month ago
Topics: bioinformatics, clustering
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Dependencies
pyproject.toml
pypi
- black ^22.3.0 develop
- coverage ^6.3.2 develop
- flake8 ^4.0.1 develop
- flake8-black ^0.3.2 develop
- flake8-import-order ^0.18.1 develop
- pytest ^7.1.2 develop
- pytest-cov ^3.0.0 develop
- click ^8.1.3
- networkx ^2.8
- numpy ^1.22.3
- pandas ^1.4.2
- python ^3.10
- scikit-learn ^1.0.2
- scipy ^1.8.0
poetry.lock
pypi
- atomicwrites 1.4.0 develop
- attrs 21.4.0 develop
- black 22.3.0 develop
- coverage 6.4.1 develop
- flake8 4.0.1 develop
- flake8-black 0.3.2 develop
- flake8-import-order 0.18.1 develop
- iniconfig 1.1.1 develop
- mccabe 0.6.1 develop
- mypy-extensions 0.4.3 develop
- packaging 21.3 develop
- pathspec 0.9.0 develop
- platformdirs 2.5.2 develop
- pluggy 1.0.0 develop
- py 1.11.0 develop
- pycodestyle 2.8.0 develop
- pyflakes 2.4.0 develop
- pyparsing 3.0.8 develop
- pytest 7.1.2 develop
- pytest-cov 3.0.0 develop
- tomli 2.0.1 develop
- click 8.1.3
- colorama 0.4.4
- joblib 1.1.0
- networkx 2.8.4
- numpy 1.22.3
- pandas 1.4.2
- python-dateutil 2.8.2
- pytz 2022.1
- scikit-learn 1.0.2
- scipy 1.8.0
- six 1.16.0
- threadpoolctl 3.1.0