biopython>=1.79
pysam>=0.19.0
numpy>=1.21.0
scipy>=1.9.0
pandas>=1.3.0
networkx>=2.6.0
scikit-learn>=1.3.0
click>=8.0.0
pyyaml>=6.0
tqdm>=4.62.0
h5py>=3.5.0
numba>=0.54.0
joblib>=1.1.0

[ai]
torch>=2.0.0
torch-geometric>=2.3.0
xgboost>=2.0.0

[all]
pytest>=7.0.0
pytest-cov>=4.0.0
pytest-mock>=3.6.0
black>=22.0.0
flake8>=4.0.0
mypy>=0.950
isort>=5.10.0
matplotlib>=3.4.0
seaborn>=0.11.0
sphinx>=4.5.0
sphinx-rtd-theme>=1.0.0
torch>=2.0.0
torch-geometric>=2.3.0
xgboost>=2.0.0

[dev]
pytest>=7.0.0
pytest-cov>=4.0.0
pytest-mock>=3.6.0
black>=22.0.0
flake8>=4.0.0
mypy>=0.950
isort>=5.10.0
matplotlib>=3.4.0
seaborn>=0.11.0
sphinx>=4.5.0
sphinx-rtd-theme>=1.0.0
