tqdm
biopython
funcy
lxml
requests
pandas
pymmseqs
coloredlogs
pyyaml
scikit-learn
ete4
omegaconf
gemmi
duckdb
platformdirs
python-dateutil
numpy

[dev]
pytest>=8
pytest-mock>=3
ruff>=0.4
pre-commit>=3.0

[docs]
mkdocs>=1.6
mkdocs-material>=9.5
mkdocstrings[python]>=0.25
mkdocs-autorefs>=1.0
