.readthedocs.yaml
CITATION.cff
LICENSE
MANIFEST.in
README.md
pyproject.toml
setup.cfg
benchmarks/v08/__init__.py
benchmarks/v08/pancreas_pseudoconditions.py
benchmarks/v08/run_dffp_200m_no_chunk.py
docs/api.rst
docs/changelog.rst
docs/concepts.rst
docs/condition_inference.rst
docs/conf.py
docs/diagnostics.rst
docs/downstream_analysis.rst
docs/index.rst
docs/installation.rst
docs/introduction.rst
docs/limitations.rst
docs/mathematical_framework.rst
docs/method_selection.rst
docs/metrics.rst
docs/quickstart.rst
docs/references.rst
docs/scalability.rst
docs/terminology.rst
docs/tutorials_downstream.rst
docs/tutorials_methodology.rst
docs/tutorials_multi.rst
docs/tutorials_pair.rst
docs/tutorials_scalability.rst
docs/tutorials_single.rst
docs/validation.rst
docs/tutorials/01_pancreas_single_scorer.ipynb
docs/tutorials/02_schwann_single_scorer.ipynb
docs/tutorials/03_pancreas_pair_scorer.ipynb
docs/tutorials/04_schwann_pair_scorer.ipynb
docs/tutorials/05_pancreas_multi_scorer.ipynb
docs/tutorials/06_schwann_multi_scorer.ipynb
docs/tutorials/07_method_selection.ipynb
docs/tutorials/08_complex_branches.ipynb
docs/tutorials/09_package_decision_reproduction.ipynb
docs/tutorials/10_pancreas_downstream_analysis.ipynb
docs/tutorials/11_schwann_downstream_analysis.ipynb
docs/tutorials/12_scalability_no_chunking.ipynb
scCS/__init__.py
scCS/_version.py
scCS/affinity.py
scCS/condition.py
scCS/drivers.py
scCS/enrichment.py
scCS/furcation.py
scCS/future_fate.py
scCS/geometry.py
scCS/inference.py
scCS/mixed_models.py
scCS/multicomparison.py
scCS/ordering.py
scCS/pairwise.py
scCS/pipeline.py
scCS/population.py
scCS/preflight.py
scCS/projection.py
scCS/py.typed
scCS/scoring_embedding.py
scCS/single.py
scCS/transitions.py
scCS_py.egg-info/PKG-INFO
scCS_py.egg-info/SOURCES.txt
scCS_py.egg-info/dependency_links.txt
scCS_py.egg-info/requires.txt
scCS_py.egg-info/top_level.txt
tests/test_v08_affinity.py
tests/test_v08_condition.py
tests/test_v08_drivers_enrichment.py
tests/test_v08_furcation.py
tests/test_v08_future_fate.py
tests/test_v08_geometry.py
tests/test_v08_mixed_models.py
tests/test_v08_ordering.py
tests/test_v08_pancreas_split.py
tests/test_v08_pipeline.py
tests/test_v08_population.py
tests/test_v08_projection.py
tests/test_v08_scoring_embedding.py
tests/test_v08_single.py
tests/test_v08_transitions.py
tutorials/01_pancreas_single_scorer.ipynb
tutorials/02_schwann_single_scorer.ipynb
tutorials/03_pancreas_pair_scorer.ipynb
tutorials/04_schwann_pair_scorer.ipynb
tutorials/05_pancreas_multi_scorer.ipynb
tutorials/06_schwann_multi_scorer.ipynb
tutorials/07_method_selection.ipynb
tutorials/08_complex_branches.ipynb
tutorials/09_package_decision_reproduction.ipynb
tutorials/10_pancreas_downstream_analysis.ipynb
tutorials/11_schwann_downstream_analysis.ipynb
tutorials/12_scalability_no_chunking.ipynb