| from setuptools import setup, find_packages | |
| setup( | |
| name="geneformer", | |
| version="0.1.0", | |
| author="Christina Theodoris", | |
| author_email="christina.theodoris@gladstone.ucsf.edu", | |
| 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", | |
| ], | |
| ) | |