├── .coveragerc ├── .github └── workflows │ ├── build-docs.yml │ ├── pypi-publish.yml │ └── pypi-test.yml ├── .gitignore ├── .gitmodules ├── .pre-commit-config.yaml ├── .readthedocs.yml ├── AUTHORS.md ├── CHANGELOG.md ├── CONTRIBUTING.md ├── LICENSE.txt ├── README.md ├── docs ├── Makefile ├── _static │ └── .gitignore ├── authors.md ├── changelog.md ├── conf.py ├── contributing.md ├── index.md ├── license.md ├── readme.md └── requirements.txt ├── lib ├── CMakeLists.txt └── src │ ├── classify_integrated.cpp │ ├── classify_single.cpp │ ├── def.h │ ├── find_classic_markers.cpp │ ├── init.cpp │ ├── train_integrated.cpp │ ├── train_single.cpp │ └── utils.h ├── pyproject.toml ├── setup.cfg ├── setup.py ├── src └── singler │ ├── __init__.py │ ├── _utils.py │ ├── aggregate_reference.py │ ├── annotate_integrated.py │ ├── annotate_single.py │ ├── classify_integrated.py │ ├── classify_single.py │ ├── get_classic_markers.py │ ├── train_integrated.py │ └── train_single.py ├── tests ├── conftest.py ├── test_aggregate_reference.py ├── test_annotate_integrated.py ├── test_annotate_single.py ├── test_classify_integrated.py ├── test_classify_single.py ├── test_get_classic_markers.py ├── test_integrated_with_celldex.py ├── test_single_with_celldex.py ├── test_train_integrated.py ├── test_train_single.py └── test_utils.py └── tox.ini /.coveragerc: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/SingleR-inc/singler-py/HEAD/.coveragerc -------------------------------------------------------------------------------- /.github/workflows/build-docs.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/SingleR-inc/singler-py/HEAD/.github/workflows/build-docs.yml -------------------------------------------------------------------------------- /.github/workflows/pypi-publish.yml: -------------------------------------------------------------------------------- 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