├── .gitattributes ├── .github ├── ISSUE_TEMPLATE │ ├── bug_report.yml │ ├── docs.yml │ └── enhancement.yml └── workflows │ ├── benchmark.yml │ ├── docker-deploy.yml │ ├── minimum_dependencies.yml │ ├── precommit.yml │ ├── python-publish.yml │ └── testing.yaml ├── .gitignore ├── .gitmodules ├── .pre-commit-config.yaml ├── .pylintrc ├── .readthedocs.yaml ├── .zenodo.json ├── CHANGELOG.md ├── CODE_OF_CONDUCT.md ├── CONTRIBUTING.md ├── LICENSE.md ├── MANIFEST.in ├── README.md ├── archives ├── CHANGELOG-v0.md └── CHANGELOG-v1.md ├── asv.conf.json ├── benchmarks ├── CAP.py ├── TimeseriesExtractor.py └── __init__.py ├── demos ├── README.md ├── openneuro_demo.ipynb └── simulated_demo.ipynb ├── docker ├── Dockerfile ├── README.md └── scripts │ └── entrypoint.sh ├── docs ├── Makefile ├── _static │ ├── custom.css │ ├── neurocaps.png │ ├── theme_override.css │ └── versions.json ├── _templates │ ├── class.rst │ ├── classmethod.rst │ ├── exceptions.rst │ ├── function.rst │ └── types.rst ├── api │ ├── analysis.rst │ ├── api.rst │ ├── exceptions.rst │ ├── extraction.rst │ ├── typing.rst │ └── utils.rst ├── assets │ └── workflow.png ├── changelog.rst ├── conf.py ├── contributing.rst ├── index.rst ├── introduction.rst ├── make.bat ├── redirects ├── requirements.txt ├── sphinxext │ └── github_link.py ├── tutorials │ ├── tutorial-1.ipynb │ ├── tutorial-2.ipynb │ ├── tutorial-3.ipynb │ ├── tutorial-4.ipynb │ ├── tutorial-5.ipynb │ ├── tutorial-6.ipynb │ ├── tutorial-7.ipynb │ ├── tutorial-8.ipynb │ └── tutorials.rst └── user_guide │ ├── bids.rst │ ├── installation.rst │ ├── logging.rst │ ├── outputs.md │ ├── parcellations.rst │ └── user_guide.rst ├── hooks ├── README.md └── grep.py ├── neurocaps ├── __init__.py ├── analysis │ ├── __init__.py │ ├── _internals │ │ └── serialize.py │ ├── cap │ │ ├── _internals │ │ │ ├── cluster.py │ │ │ ├── correlation.py │ │ │ ├── getter.py │ │ │ ├── matrix.py │ │ │ ├── metrics.py │ │ │ ├── radar.py │ │ │ ├── spatial.py │ │ │ └── surface.py │ │ └── cap.py │ ├── change_dtype.py │ ├── merge.py │ ├── standardize.py │ └── transition_matrix.py ├── exceptions.py ├── extraction │ ├── __init__.py │ ├── _internals │ │ ├── __init__.py │ │ ├── bids_query.py │ │ ├── confounds.py │ │ ├── getter.py │ │ ├── postprocess.py │ │ └── vizualization.py │ └── timeseries_extractor.py ├── py.typed ├── typing.py └── utils │ ├── __init__.py │ ├── _decorators.py │ ├── _helpers.py │ ├── _io.py │ ├── _logging.py │ ├── _parcellation_validation.py │ ├── _plot_utils.py │ ├── datasets │ ├── _fetch.py │ └── _presets.py │ ├── parcellations.py │ ├── plot_defaults.py │ └── samples_generators.py ├── paper ├── cap_1_alignment_df.png ├── cap_1_radar.png ├── cap_1_surface.png ├── cap_2_alignment_df.png ├── cap_2_radar.png ├── cap_2_surface.png ├── paper.bib ├── paper.md ├── paper.pdf ├── qc_df.png ├── silhouette_plot.png └── temporal_fraction_df.png ├── pyproject.toml ├── renovate.json └── tests ├── README.md ├── __init__.py ├── conftest.py ├── minimum_dependencies └── 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