.gitignore
CHANGELOG.md
LICENSE
README.md
main.py
mkdocs.yml
pyproject.toml
uv.lock
verify_version.py
.github/workflows/docs.yml
.github/workflows/release.yml
docs/index.md
docs/api/feature_extraction.md
docs/api/im_info.md
docs/api/index.md
docs/api/nellie_napari.md
docs/api/run.md
docs/api/segmentation.md
docs/api/tracking.md
docs/api/utils.md
nellie/__init__.py
nellie/cli.py
nellie/run copy.py
nellie/run.py
nellie.egg-info/PKG-INFO
nellie.egg-info/SOURCES.txt
nellie.egg-info/dependency_links.txt
nellie.egg-info/entry_points.txt
nellie.egg-info/requires.txt
nellie.egg-info/top_level.txt
nellie/feature_extraction/__init__.py
nellie/feature_extraction/hierarchical.py
nellie/im_info/__init__.py
nellie/im_info/verifier.py
nellie/segmentation/__init__.py
nellie/segmentation/filtering.py
nellie/segmentation/labelling.py
nellie/segmentation/mocap_marking.py
nellie/segmentation/networking.py
nellie/tracking/__init__.py
nellie/tracking/all_tracks_for_label.py
nellie/tracking/flow_interpolation.py
nellie/tracking/flow_vector_viz.py
nellie/tracking/hu_tracking.py
nellie/tracking/voxel_reassignment.py
nellie/utils/__init__.py
nellie/utils/adaptive_run.py
nellie/utils/base_logger.py
nellie/utils/gpu_functions.py
nellie_napari/__init__.py
nellie_napari/discover_plugins.py
nellie_napari/logo.png
nellie_napari/napari.yaml
nellie_napari/nellie_analysis.py
nellie_napari/nellie_fileselect.py
nellie_napari/nellie_home.py
nellie_napari/nellie_loader.py
nellie_napari/nellie_processor.py
nellie_napari/nellie_settings.py
nellie_napari/nellie_visualizer.py
sample_data/yeast_3d_mitochondria.ome.tif
scripts/voxel_reassignment_demo.py
tests/test_hierarchical_aggregation.py
tests/test_hu_tracking.py
tests/test_labelling.py
tests/test_mocap_marking.py
tests/test_verifier_metadata.py