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setup.py
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setup.py
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from setuptools import setup
# read the contents of README
from pathlib import Path
this_directory = Path(__file__).parent
long_description = (this_directory / 'README.md').read_text()
setup(
name = 'cellvgae',
packages = ['cellvgae','cellvgae.utils','cellvgae.models'],
version = '0.0.1b4',
license='MIT',
description = 'CellVGAE uses the connectivity between cells (such as k-nearest neighbour graphs) with gene expression values as node features to learn high-quality cell representations in a lower-dimensional space',
author = 'David Buterez',
author_email = '[email protected]',
url = 'https://github.com/davidbuterez/CellVGAE',
keywords = ['scrnaseq', 'graph', 'gnn', 'dimensionality', 'reduction', 'neural'],
install_requires=[
"torch>=1.6.0",
"umap_learn>=0.5.1",
"hdbscan>=0.8.27",
"seaborn>=0.11.1",
"matplotlib>=3.3.4",
"scanpy>=1.7.2",
"anndata>=0.7.5",
"tqdm>=4.61.2",
"termcolor>=1.1.0",
"numpy>=1.19.5",
"pandas>=1.2.4",
"torch_geometric>=1.7.0",
"scikit_learn>=0.24.2",
"torch_sparse>=0.6.12",
"torch_scatter>=2.0.8"
],
classifiers=[
'Development Status :: 3 - Alpha',
'Intended Audience :: Science/Research',
'License :: OSI Approved :: MIT License',
'Programming Language :: Python :: 3',
],
long_description=long_description,
long_description_content_type='text/markdown'
)