resolutiontree 0.1.0__tar.gz

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Files changed (16) hide show
  1. resolutiontree-0.1.0/LICENSE +0 -0
  2. resolutiontree-0.1.0/PKG-INFO +29 -0
  3. resolutiontree-0.1.0/README.md +0 -0
  4. resolutiontree-0.1.0/pyproject.toml +39 -0
  5. resolutiontree-0.1.0/setup.cfg +4 -0
  6. resolutiontree-0.1.0/setup.py +53 -0
  7. resolutiontree-0.1.0/src/resolutiontree/__init__.py +14 -0
  8. resolutiontree-0.1.0/src/resolutiontree/core.py +1331 -0
  9. resolutiontree-0.1.0/src/resolutiontree/utils.py +377 -0
  10. resolutiontree-0.1.0/src/resolutiontree.egg-info/PKG-INFO +29 -0
  11. resolutiontree-0.1.0/src/resolutiontree.egg-info/SOURCES.txt +14 -0
  12. resolutiontree-0.1.0/src/resolutiontree.egg-info/dependency_links.txt +1 -0
  13. resolutiontree-0.1.0/src/resolutiontree.egg-info/top_level.txt +1 -0
  14. resolutiontree-0.1.0/tests/test_cluster_resolution.py +157 -0
  15. resolutiontree-0.1.0/tests/test_cluster_tree.py +217 -0
  16. resolutiontree-0.1.0/tests/test_installation.py +30 -0
resolutiontree-0.1.0/LICENSE ADDED
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resolutiontree-0.1.0/PKG-INFO ADDED
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+ Metadata-Version: 2.4
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+ Name: resolutiontree
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+ Version: 0.1.0
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+ Summary: Systematic exploration of clustering resolutions in single-cell analysis
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+ Home-page: https://github.com/joe-jhou2/resolutiontree
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+ Author: Joe Hou
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+ Author-email: Joe Hou <joseph.houjue@gmail.com>
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+ License: MIT
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+ Project-URL: Homepage, https://github.com/joe-jhou2/resolutiontree
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+ Project-URL: Documentation, https://resolutiontree.readthedocs.io/
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+ Project-URL: Repository, https://github.com/joe-jhou2/resolutiontree
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+ Project-URL: Bug Tracker, https://github.com/joe-jhou2/resolutiontree/issues
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+ Keywords: single-cell,clustering,resolution,scanpy,leiden,visualization
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+ Classifier: Development Status :: 4 - Beta
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+ Classifier: Intended Audience :: Science/Research
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+ Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
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+ Classifier: License :: OSI Approved :: MIT License
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+ Classifier: Programming Language :: Python :: 3
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+ Classifier: Programming Language :: Python :: 3.8
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+ Classifier: Programming Language :: Python :: 3.9
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+ Classifier: Programming Language :: Python :: 3.10
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+ Classifier: Programming Language :: Python :: 3.11
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+ Requires-Python: >=3.8
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+ Description-Content-Type: text/markdown
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+ License-File: LICENSE
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+ Dynamic: author
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+ Dynamic: home-page
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+ Dynamic: license-file
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+ Dynamic: requires-python
resolutiontree-0.1.0/README.md ADDED
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resolutiontree-0.1.0/pyproject.toml ADDED
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+ [build-system]
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+ requires = ["setuptools>=45", "wheel"]
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+ build-backend = "setuptools.build_meta"
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+
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+ [project]
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+ name = "resolutiontree"
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+ dynamic = ["version"]
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+ description = "Systematic exploration of clustering resolutions in single-cell analysis"
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+ readme = "README.md"
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+ requires-python = ">=3.8"
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+ license = {text = "MIT"}
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+ authors = [
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+ {name = "Joe Hou", email = "joseph.houjue@gmail.com"},
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+ ]
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+ keywords = ["single-cell", "clustering", "resolution", "scanpy", "leiden", "visualization"]
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+ classifiers = [
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+ "Development Status :: 4 - Beta",
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+ "Intended Audience :: Science/Research",
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+ "Topic :: Scientific/Engineering :: Bio-Informatics",
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+ "License :: OSI Approved :: MIT License",
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+ "Programming Language :: Python :: 3",
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+ "Programming Language :: Python :: 3.8",
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+ "Programming Language :: Python :: 3.9",
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+ "Programming Language :: Python :: 3.10",
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+ "Programming Language :: Python :: 3.11",
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+ ]
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+
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+ [project.urls]
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+ Homepage = "https://github.com/joe-jhou2/resolutiontree"
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+ Documentation = "https://resolutiontree.readthedocs.io/"
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+ Repository = "https://github.com/joe-jhou2/resolutiontree"
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+ "Bug Tracker" = "https://github.com/joe-jhou2/resolutiontree/issues"
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+
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+ [tool.setuptools.packages.find]
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+ where = ["src"]
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+ include = ["resolutiontree*"]
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+
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+ [tool.setuptools.package-dir]
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+ "" = "src"
resolutiontree-0.1.0/setup.cfg ADDED
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+ [egg_info]
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+ tag_build =
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+ tag_date = 0
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+
resolutiontree-0.1.0/setup.py ADDED
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+ from setuptools import setup, find_packages
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+
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+ with open("README.md", "r", encoding="utf-8") as fh:
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+ long_description = fh.read()
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+
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+ setup(
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+ name="resolutiontree",
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+ version="0.1.0",
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+ author="Joe Hou",
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+ author_email="joseph.houjue@gmail..com",
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+ description="Systematic exploration of clustering resolutions in single-cell analysis",
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+ long_description=long_description,
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+ long_description_content_type="text/markdown",
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+ url="https://github.com/joe-jhou2/resolutiontree",
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+ packages=find_packages(where="src"),
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+ package_dir={"": "src"},
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+ classifiers=[
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+ "Development Status :: 4 - Beta",
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+ "Intended Audience :: Science/Research",
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+ "Topic :: Scientific/Engineering :: Bio-Informatics",
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+ "License :: OSI Approved :: MIT License",
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+ "Programming Language :: Python :: 3",
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+ "Programming Language :: Python :: 3.8",
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+ "Programming Language :: Python :: 3.9",
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+ "Programming Language :: Python :: 3.10",
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+ "Programming Language :: Python :: 3.11",
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+ "Programming Language :: Python :: 3.12",
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+ "Programming Language :: Python :: 3.13",
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+ ],
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+ python_requires=">=3.8",
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+ install_requires = [
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+ "numpy>=1.19.0",
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+ "pandas>=1.3.0",
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+ "scipy>=1.7.0",
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+ "matplotlib>=3.3.0",
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+ "seaborn>=0.11.0",
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+ "scanpy>=1.8.0",
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+ "anndata>=0.8.0",
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+ "igraph>=0.9.0",
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+ "networkx>=2.6.0",
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+ "leidenalg>=0.8.0",
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+ ],
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+ extras_require={
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+ "dev": [
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+ "pytest>=6.0",
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+ "pytest-cov",
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+ "black",
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+ "flake8",
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+ "sphinx",
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+ ],
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+ },
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+ keywords="single-cell, clustering, resolution, scanpy, leiden, visualization",
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+ )
resolutiontree-0.1.0/src/resolutiontree/__init__.py ADDED
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+ """
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+ ResolutionTree: Systematic exploration of clustering resolutions in single-cell analysis
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+ """
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+
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+ __version__ = "0.1.0"
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+ __author__ = "Joe Hou"
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+
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+ from .utils import cluster_resolution_finder
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+ from .core import cluster_decision_tree
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+
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+ __all__ = [
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+ "cluster_resolution_finder",
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+ "cluster_decision_tree",
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+ ]