├── .gitattributes ├── .github └── workflows │ ├── ci.yml │ ├── publish_mkdocs.yml │ └── publish_to_pypi.yml ├── .gitignore ├── .pre-commit-config.yaml ├── CITATION.cff ├── LICENSE ├── README.md ├── docs ├── api-docs │ └── msaviz.md ├── cli-docs │ └── pymsaviz.md ├── color_schemes.ipynb ├── getting_started.ipynb ├── images │ ├── api_example01.png │ ├── api_example02.png │ ├── api_example03.png │ ├── cli_example01.png │ ├── cli_example02.png │ └── cli_example03.png └── index.md ├── example ├── HIGD2A.fa ├── MRGPRG.fa ├── api_example_run.ipynb ├── cli_example_run.sh └── example.zip ├── mkdocs.yml ├── pyproject.toml ├── requirements-dev.lock ├── requirements.lock ├── src └── pymsaviz │ ├── __init__.py │ ├── config │ ├── __init__.py │ ├── color_schemes.tsv │ └── testdata │ │ ├── HIGD2A.fa │ │ └── MRGPRG.fa │ ├── msaviz.py │ └── scripts │ ├── __init__.py │ └── cli.py └── tests ├── __init__.py ├── conftest.py ├── scripts ├── __init__.py └── test_cli.py ├── test_msaviz.py └── testdata └── 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