├── .gitattributes ├── .github └── workflows │ ├── ci.yml │ ├── publish_to_pypi.yml │ └── push_docker_image.yml ├── .gitignore ├── .pre-commit-config.yaml ├── CITATION.cff ├── Dockerfile ├── LICENSE ├── README.md ├── dbbuild ├── README.md ├── build_CMs.sh └── build_HMMs.sh ├── examples ├── archaea.fna ├── bacteria.fna ├── examples.zip └── fungus.fna ├── notebooks └── pybarrnap.ipynb ├── pyproject.toml ├── requirements-dev.lock ├── requirements.lock ├── src └── pybarrnap │ ├── __init__.py │ ├── __main__.py │ ├── barrnap.py │ ├── config.py │ ├── db │ ├── LICENSE.Barrnap │ ├── LICENSE.Rfam │ ├── cm │ │ ├── all.cm.i1f │ │ ├── all.cm.i1i │ │ ├── all.cm.i1m │ │ ├── all.cm.i1p │ │ ├── arc.cm.i1f │ │ ├── arc.cm.i1i │ │ ├── arc.cm.i1m │ │ ├── arc.cm.i1p │ │ ├── bac.cm.i1f │ │ ├── bac.cm.i1i │ │ ├── bac.cm.i1m │ │ ├── bac.cm.i1p │ │ ├── euk.cm.i1f │ │ ├── euk.cm.i1i │ │ ├── euk.cm.i1m │ │ └── euk.cm.i1p │ └── hmm │ │ ├── arc.hmm │ │ ├── bac.hmm │ │ └── euk.hmm │ ├── example_data │ ├── 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