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Dependencies
- adjusttext
- anndata >=0.8.0
- annoy
- arviz >=0.23
- bbknn
- bincsync >=0.4.0
- boltons
- cython
- cytoolz
- dask
- dask-expr >=2.0
- datashader
- einops ==0.8.1
- elpigraph-python
- fa2-modified
- formulaic >=1.0.2
- formulaic-contrasts >=0.2.0
- frozendict
- genomicranges
- geopandas
- graphtools
- gseapy
- h5py
- harmonypy >=0.2.0
- hdbscan
- igraph >=0.10.3
- leidenalg
- lightmotif
- loompy
- lxml
- macs3 <3.1,>=3.0
- matplotlib
- metacells
- mudata
- multiprocess
- multiprocessing-on-dill
- multiscale-spatial-image
- natsort
- networkx
- numpy
- packaging
- palantir
- pandas >=2.0
- polars <2.0,>=1.0
- pooch <2.0.0,>=1.6.0
- pyarrow
- pybigwig
- pyfaidx <0.8.0,>=0.7.0
- pyfastx
- pymde
- pymemesuite
- pynndescent
- pyogrio >=0.7.2
- pyproj >=3.3.0
- pysam
- rustworkx
- scanorama
- scanpy
- scikit-image
- scikit-learn <2.0.0,>=1.1
- scikit-misc
- scipy <2.0.0,>=1.11
- scvi-tools >=1.3.0
- seaborn
- sh
- shapely >=2.0.0
- simpleppt
- spatialdata
- spatial-image
- tangram-sc
- torch >=2.0
- tqdm >=4.62
- typeguard >=4.0
- umap-learn >=0.5.0
- xgboost
- zarr
16 optional dependencies
- cucim-cu12[cuda12]
- cudf-cu12[cuda12]
- cugraph-cu12[cuda12]
- cuml-cu12[cuda12]
- cupy-cuda12x[cuda12]
- cuvs-cu12[cuda12]
- cuxfilter-cu12[cuda12]
- dask-cudf-cu12[cuda12]
- ipykernel[dev]
- ipytree[dev]
- nx-cugraph-cu12[cuda12]
- pylibraft-cu12[cuda12]
- raft-dask-cu12[cuda12]
- rapids-singlecell[cuda12]
- sphinx[dev]
- twine[dev]