├── .coveragerc ├── .github └── workflows │ ├── deploy.yml │ ├── pre-commit.yml │ └── run_tests.yml ├── .gitignore ├── .pre-commit-config.yaml ├── CONTRIBUTING.md ├── LICENSE ├── MANIFEST.in ├── README.rst ├── autoblack.sh ├── doc ├── Makefile └── source │ ├── conf.py │ ├── index.rst │ ├── installation.rst │ ├── reference.rst │ └── requirements.txt ├── graphtools ├── __init__.py ├── api.py ├── base.py ├── estimator.py ├── graphs.py ├── matrix.py ├── utils.py └── version.py ├── pytest.ini ├── requirements.txt ├── setup.cfg ├── setup.py └── test ├── load_tests └── __init__.py ├── test_api.py ├── test_connectivity.py ├── test_data.py ├── test_estimator.py ├── test_exact.py ├── test_knn.py ├── test_landmark.py ├── test_matrix.py ├── test_memory_optimization.py ├── test_mnn.py ├── test_numba.py ├── test_random_landmarking.py └── test_utils.py /.coveragerc: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/.coveragerc -------------------------------------------------------------------------------- /.github/workflows/deploy.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/.github/workflows/deploy.yml -------------------------------------------------------------------------------- /.github/workflows/pre-commit.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/.github/workflows/pre-commit.yml -------------------------------------------------------------------------------- /.github/workflows/run_tests.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/.github/workflows/run_tests.yml -------------------------------------------------------------------------------- /.gitignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/.gitignore -------------------------------------------------------------------------------- /.pre-commit-config.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/.pre-commit-config.yaml -------------------------------------------------------------------------------- /CONTRIBUTING.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/CONTRIBUTING.md -------------------------------------------------------------------------------- /LICENSE: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/LICENSE -------------------------------------------------------------------------------- /MANIFEST.in: -------------------------------------------------------------------------------- 1 | include LICENSE 2 | -------------------------------------------------------------------------------- /README.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/README.rst -------------------------------------------------------------------------------- /autoblack.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/autoblack.sh -------------------------------------------------------------------------------- /doc/Makefile: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/doc/Makefile -------------------------------------------------------------------------------- /doc/source/conf.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/doc/source/conf.py -------------------------------------------------------------------------------- /doc/source/index.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/doc/source/index.rst -------------------------------------------------------------------------------- /doc/source/installation.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/doc/source/installation.rst -------------------------------------------------------------------------------- /doc/source/reference.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/doc/source/reference.rst -------------------------------------------------------------------------------- /doc/source/requirements.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/doc/source/requirements.txt -------------------------------------------------------------------------------- /graphtools/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/graphtools/__init__.py -------------------------------------------------------------------------------- /graphtools/api.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/graphtools/api.py -------------------------------------------------------------------------------- /graphtools/base.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/graphtools/base.py -------------------------------------------------------------------------------- /graphtools/estimator.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/graphtools/estimator.py -------------------------------------------------------------------------------- /graphtools/graphs.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/graphtools/graphs.py -------------------------------------------------------------------------------- /graphtools/matrix.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/graphtools/matrix.py -------------------------------------------------------------------------------- /graphtools/utils.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/graphtools/utils.py -------------------------------------------------------------------------------- /graphtools/version.py: -------------------------------------------------------------------------------- 1 | __version__ = "2.1.0" 2 | -------------------------------------------------------------------------------- /pytest.ini: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/pytest.ini -------------------------------------------------------------------------------- /requirements.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/requirements.txt -------------------------------------------------------------------------------- /setup.cfg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/setup.cfg -------------------------------------------------------------------------------- /setup.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/setup.py -------------------------------------------------------------------------------- /test/load_tests/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/test/load_tests/__init__.py -------------------------------------------------------------------------------- /test/test_api.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/test/test_api.py -------------------------------------------------------------------------------- /test/test_connectivity.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/test/test_connectivity.py -------------------------------------------------------------------------------- /test/test_data.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/test/test_data.py -------------------------------------------------------------------------------- /test/test_estimator.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/test/test_estimator.py -------------------------------------------------------------------------------- /test/test_exact.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/test/test_exact.py -------------------------------------------------------------------------------- /test/test_knn.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/test/test_knn.py -------------------------------------------------------------------------------- /test/test_landmark.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/test/test_landmark.py -------------------------------------------------------------------------------- /test/test_matrix.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/test/test_matrix.py -------------------------------------------------------------------------------- /test/test_memory_optimization.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/test/test_memory_optimization.py -------------------------------------------------------------------------------- /test/test_mnn.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/test/test_mnn.py -------------------------------------------------------------------------------- /test/test_numba.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/test/test_numba.py -------------------------------------------------------------------------------- /test/test_random_landmarking.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/test/test_random_landmarking.py -------------------------------------------------------------------------------- /test/test_utils.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/KrishnaswamyLab/graphtools/HEAD/test/test_utils.py --------------------------------------------------------------------------------