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from setuptools import setup, find_packages
setup(
name="geneformer",
version="0.1.0",
author="Christina Theodoris",
author_email="[email protected]",
description="Geneformer is a transformer model pretrained \
on a large-scale corpus of single \
cell transcriptomes to enable context-aware \
predictions in settings with limited data in \
network biology.",
packages=find_packages(),
python_requires=">=3.10",
include_package_data=True,
install_requires=[
"anndata",
"datasets",
"loompy",
"matplotlib",
"numpy",
"optuna",
"optuna-integration",
"packaging",
"pandas",
"peft",
"pyarrow",
"pytz",
"ray",
"scanpy",
"scikit-learn",
"scipy",
"seaborn",
"setuptools",
"statsmodels",
"tdigest",
"tensorboard",
"torch",
"tqdm",
"transformers",
],
)
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