anndata>=0.12.0
bokeh<4.0,>=3.7.0
click<9.0,>=8.2.0
igraph>=1.0.0
leidenalg>=0.11.0
numba>=0.58.1
numpy>=2.4.0
pillow<12.0,>=11.0.0
scanpy>=1.12.0
scikit-image>=0.22.0
pandas>=2.3.0
imageio<3.0,>=2.37.0
scipy<2.0,>=1.17.0
scikit-learn<2.0,>=1.8.0
zarr>=3.1
dask>=2024.11.2
spatialdata>=0.7.0
spatialdata-io>=0.6.0
spatialdata-plot>=0.3.0
torch>=2.0
torchvision>=0.15
geopandas<2.0,>=1.0.0
shapely<3.0,>=2.0.0

[dev]
black>=23.0
ruff>=0.1.0
mypy>=1.16
pytest>=7.0
tox>=4.0
ghp-import>=2.1.0
sphinx>=4.0
furo==2024.8.6
myst-parser>=0.18
nbsphinx>=0.9.0
types-tensorflow>=2.8.0
sphinx-autodoc-typehints>=1.24.0
sphinx-autosummary-accessors>=2023.4.0

[jupyter]
jupyter>=1.0.0
jupyterlab>=3.0.0
ipywidgets>=8.0.0
plotly>=5.0.0
bokeh<4.0,>=3.7.0
rpy2>=3.4.0

[test]
pytest
pytest-cov
