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Dependencies
- archetypes >=0.6
- deprecated >=1.2
- graphtools >=2.0
- gudhi >=3.0
- hydra-core >=1.3
- hydra-submitit-launcher >=1.2
- hydra-zen >=0.13
- leidenalg >=0.10
- lightning >=2.5
- matplotlib >=3.8
- multiscale-phate
- numpy >=1.25
- opentsne >=1.0
- pandas >=2.0
- phate >=2.0
- pot >=0.9
- python-igraph >=1.0
- rich >=13.9
- ripser >=0.6
- scikit-learn >=1.2
- scipy <1.15,>=1.8
- torch <3.0,>=2.3
- torchdiffeq >=0.2
- torchmetrics >=1.6
- torchsde >=0.2
- tqdm >=4.67
- umap-learn >=0.5
- wandb >=0.25.0
19 optional dependencies
- diffrax[jax]
- diffrax[all]
- faiss-cpu[torchdr]
- faiss-cpu[all]
- jax[jax]
- jax[all]
- manylatents-omics[all]
- manylatents-omics[omics]
- mkdocs[docs]
- mkdocs-macros-plugin[docs]
- mkdocs-material[docs]
- optax[all]
- optax[jax]
- ott-jax[jax]
- ott-jax[all]
- torchdr[all]
- torchdr[torchdr]
- transformers[all]
- transformers[hf]