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requirements.txt
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requirements.txt
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--extra-index-url https://download.pytorch.org/whl/cu116
absl-py==2.1.0
aiohttp==3.9.1
aiosignal==1.3.1
anndata
annotated-types==0.6.0
appdirs==1.4.4
asciitree==0.3.3
asttokens==2.0.5
async-timeout==4.0.3
attrs==23.2.0
backcall==0.2.0
Brotli==1.1.0
cachetools==5.3.2
certifi==2024.2.2
cffi==1.16.0
charset-normalizer==2.1.1
click==8.1.7
cloudpickle==3.0.0
combat==0.3.3
contourpy==1.1.1
cryptography==3.4.8
cycler==0.12.1
dask==2023.5.0
dask-image==2023.3.0
debugpy==1.8.1
decorator==4.4.2
docker-pycreds==0.4.0
docrep==0.3.2
easydl==2.2.0
einops==0.7.0
entrypoints==0.4
executing==2.0.1
fairscale==0.4.13
fasteners==0.19
fonttools==4.47.2
frozenlist==1.4.1
fsspec==2023.12.2
get-annotations==0.1.2
gitdb==4.0.11
GitPython==3.1.41
google-auth==2.26.2
google-auth-oauthlib==1.0.0
grpcio==1.60.0
h5py==3.10.0
idna==3.6
igraph==0.11.3
imageio==2.33.1
importlib-metadata==7.0.1
importlib-resources==6.1.1
inflect==7.0.0
ipykernel==6.29.3
ipython==8.10.0
jedi==0.19.1
Jinja2==3.1.3
joblib==1.3.2
jupyter-client==7.4.9
jupyter-core==5.1.3
kiwisolver==1.4.5
lazy_loader==0.3
leidenalg==0.10.2
lightning==2.1.3
lightning-utilities==0.10.1
llvmlite
locket==1.0.0
Markdown==3.5.2
MarkupSafe==2.1.4
matplotlib==3.7.4
matplotlib-inline==0.1.6
matplotlib-scalebar==0.8.1
mkl-fft
mkl-service==2.4.0
mpmath==1.3.0
multidict==6.0.4
natsort==8.4.0
nest_asyncio==1.6.0
networkx==3.1
numba
numcodecs==0.12.1
numpy==1.22.0
oauthlib==3.2.2
omnipath==1.0.8
opencv-python==4.9.0.80
packaging==23.2
pandas==2.0.3
parso==0.8.3
partd==1.4.1
pathlib2==2.3.7.post1
patsy==0.5.6
pexpect==4.9.0
pickleshare==0.7.5
Pillow==9.2.0
PIMS==0.6.1
platformdirs==4.2.0
plotly==5.18.0
positional-encodings==6.0.3
prompt_toolkit==3.0.43
protobuf==4.25.2
psutil==5.9.8
ptyprocess==0.7.0
pure-eval==0.2.2
pyasn1==0.5.1
pyasn1-modules==0.3.0
pycparser==2.21
pydantic==2.5.3
pydantic_core==2.14.6
Pygments==2.17.2
pynndescent==0.5.11
pyOpenSSL==21.0.0
pyparsing==3.1.1
PySocks==1.7.1
python-dateutil==2.8.2
pytorch-lightning==2.1.3
pytz==2023.3.post1
PyWavelets==1.4.1
PyYAML==6.0.1
pyzmq==25.1.2
requests==2.31.0
requests-oauthlib==1.3.1
rsa==4.9
scanpy==1.9.6
scikit-image==0.21.0
scikit-learn
scipy==1.10.1
scprep==1.2.3
seaborn==0.13.1
sentry-sdk==1.39.2
session-info==1.0.0
setproctitle==1.3.3
sh==1.14.2
six==1.16.0
slicerator==1.1.0
smmap==5.0.1
squidpy==1.2.3
stack-data
statsmodels==0.14.1
stdlib-list==0.10.0
tenacity==8.2.3
tensorboard==2.14.0
tensorboard-data-server==0.7.2
texttable==1.7.0
threadpoolctl==3.2.0
tifffile==2023.7.10
toolz==0.12.0
torch==1.13.0+cu116
torch_geometric==2.4.0
torchaudio==0.13.0+cu116
torchmetrics==1.3.0.post0
torchvision==0.14.0+cu116
tornado==6.2
tqdm==4.66.1
traitlets==5.9.0
typing_extensions
tzdata==2023.4
umap-learn==0.5.5
urllib3==1.26.18
validators==0.22.0
wandb==0.16.2
wcwidth==0.2.8
Werkzeug==3.0.1
wget==3.2
wrapt==1.16.0
xarray==2023.1.0
yarl==1.9.4
zarr==2.16.1
zipp==3.17.0