spaceTree/environment.yml at master · PMBio/spaceTree · GitHub

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name: st_test
channels:
  - pytorch
  - conda-forge
  - defaults
  - bioconda
dependencies:
  # Core dependencies
  - python=3.10
  - ipykernel
  - numpy
  - pandas
  - scikit-learn
  - scipy
  - matplotlib
  - seaborn
  - h5py
  - pytorch=2.0.1
  - torchvision
  - torchaudio
  - jupyter
  - requests
  - pip
  - openpyxl
  - pip:
      - absl-py
      - aiobotocore
      - aiohttp
      - aiosignal
      - anndata
      - async-timeout
      - attrs
      - botocore
      - chex
      - cloudpickle
      - dask
      - dask-image
      - datashader
      - distributed
      - flax
      - geopandas
      - gseapy
      - infercnvpy
      - jax
      - jaxlib
      - joblib
      - pytorch-lightning
      - scanpy
      - scvi-tools
      - shapely
      - squidpy
      - tensorboard
      - tqdm
      - umap-learn