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47bc067 47ecd68 47bc067 47ecd68 47bc067 47ecd68 6ade24a 47ecd68 | 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 | """causalscale: Unified Causal Discovery Platform — 11 engines under one API.
Scales from d=30 to genome-wide (d=17,787) with automatic engine selection.
Includes DAGMA, ClusterAware, Causal Transformer, LowRankGNN, MultiBatch,
LLMPrior, BayesLowRank, scCausal, MultiScale, MultiModal, and Ensemble.
Quick Start:
pip install causalscale
>>> import causalscale as cs
>>> model = cs.CausalDiscovery(data)
>>> model.fit()
>>> network = model.get_network()
Author: Shuaidong Gao (ORCID: 0009-0004-5641-3581)
"""
from setuptools import setup, find_packages
with open("README.md", encoding="utf-8") as f:
long_description = f.read()
setup(
name="causalscale",
version="3.3.0",
description="Unified Causal Discovery Platform — 11 engines (DAGMA, ClusterAware, CT, LowRankGNN, MultiBatch, LLMPrior, BayesLowRank, scCausal, MultiScale, MultiModal, Ensemble), auto-selection, genome-scale",
long_description=long_description,
long_description_content_type="text/markdown",
author="Shuaidong Gao",
author_email="sgao.academics@gmail.com",
url="https://github.com/sgao-academics/causalscale",
packages=find_packages(),
python_requires=">=3.10",
entry_points={
"console_scripts": [
"causalscale=causalscale.cli:main",
],
},
install_requires=[
"torch>=2.0",
"numpy>=1.24",
"scipy>=1.10",
"scikit-learn>=1.2",
"pandas>=1.5",
"matplotlib>=3.7",
"networkx>=3.0",
"tqdm>=4.65",
"dagma>=0.1",
],
extras_require={
"web": ["streamlit>=1.28", "plotly>=5.15"],
"all": ["streamlit>=1.28", "plotly>=5.15", "huggingface_hub>=0.19"],
},
classifiers=[
"Development Status :: 3 - Alpha",
"Intended Audience :: Science/Research",
"License :: OSI Approved :: MIT License",
"Programming Language :: Python :: 3",
"Programming Language :: Python :: 3.10",
"Programming Language :: Python :: 3.11",
"Programming Language :: Python :: 3.12",
"Topic :: Scientific/Engineering :: Artificial Intelligence",
"Topic :: Scientific/Engineering :: Bio-Informatics",
],
keywords="causal-discovery dag low-rank gnn genomics drug-sensitivity",
)
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