.gitignore
.pylintrc
.readthedocs.yml
ACKNOWLEDGMENT.md
CONTRIBUTING.md
COPYING
COPYING.LESSER
MANIFEST.in
README.rst
setup.py
tox.ini
.github/workflows/run-tox.yml
.github/workflows/upload-pypi.yml
NeuroR.egg-info/PKG-INFO
NeuroR.egg-info/SOURCES.txt
NeuroR.egg-info/dependency_links.txt
NeuroR.egg-info/entry_points.txt
NeuroR.egg-info/requires.txt
NeuroR.egg-info/top_level.txt
doc/Makefile
doc/source/api.rst
doc/source/commands.rst
doc/source/conf.py
doc/source/index.rst
doc/source/_images/BlueBrainNeuroR.png
doc/source/_images/distrib_1d.png
doc/source/cli/cut-plane.rst
doc/source/cli/neuror.rst
doc/source/cli/sanitize.rst
doc/source/cli/unravel.rst
examples/cut-plane-detection.ipynb
examples/repair.ipynb
examples/data/input/to-be-repaired/Neuron_slice.h5
neuror/__init__.py
neuror/axon.py
neuror/cli.py
neuror/full.py
neuror/main.py
neuror/sanitize.py
neuror/unravel.py
neuror/utils.py
neuror/view.py
neuror/zero_diameter_fixer.py
neuror/cut_plane/__init__.py
neuror/cut_plane/cut_leaves.py
neuror/cut_plane/dash.css
neuror/cut_plane/detection.py
neuror/cut_plane/legacy_detection.py
neuror/cut_plane/planes.py
neuror/cut_plane/viewer.py
tests/__init__.py
tests/expected_sholl_stats.py
tests/test_axon.py
tests/test_cli.py
tests/test_legacy_detection.py
tests/test_plotly_extra.py
tests/test_repair.py
tests/test_sanitize.py
tests/test_unravel.py
tests/test_zero_diameter_fixer.py
tests/cut-plane/test_all.py
tests/cut-plane/test_cli.py
tests/cut-plane/test_cut_leaves.py
tests/cut-plane/test_detection.py
tests/cut-plane/test_join.py
tests/data/Fluo42_right.h5
tests/data/Neuron_slice.h5
tests/data/axon-repair.h5
tests/data/bio_neuron-000.h5
tests/data/broken-morph.asc
tests/data/fat-end.h5
tests/data/just-axon.asc
tests/data/mapping.csv
tests/data/multiple_planes.json
tests/data/negative-diameters.asc
tests/data/neurite-with-multiple-types.swc
tests/data/neuron-slice-plane.json
tests/data/neuron-slice-sholl-data.json
tests/data/neuron-slice.h5
tests/data/no-intact-basals.h5
tests/data/no-soma.asc
tests/data/plane.json
tests/data/plane1.json
tests/data/plane2.json
tests/data/plane3.json
tests/data/real-with-axon.asc
tests/data/real.asc
tests/data/repair_type.asc
tests/data/rotated.h5
tests/data/simple-with-backward-segment.asc
tests/data/simple-with-duplicates.asc
tests/data/simple.asc
tests/data/simple.swc
tests/data/simple2.asc
tests/data/too-thin.h5
tests/data/valid.h5
tests/data/with-apical-attribute.h5
tests/data/zero-diameter-beginning-of-neurite.swc
tests/data/zero-diameter-end-of-neurite.swc
tests/data/zero-diameter-middle-of-neurite.asc
tests/data/compare-bbpsdk/rp120430_P-2_idA.h5
tests/data/compare-bbpsdk/vd100714B_idB.h5
tests/data/compare-zero-diameter/cpp-fixed.h5
tests/data/compare-zero-diameter/original.h5
tests/data/input-repair-all/broken-morph.asc
tests/data/input-repair-all/simple.asc
tests/data/input-repair-all/simple2.asc
tests/data/input-repair-all/planes/broken-morph.csv
tests/data/input-repair-all/planes/simple.csv
tests/data/input-repair-all/planes/simple2.csv
tests/data/input-sanitize-all/a.asc
tests/data/input-sanitize-all/b-broken.asc
tests/data/input-sanitize-all/sub-folder/sub-sub-folder/c.asc
tests/data/input-unravel-all/Neuron_slice.h5
tests/data/input-unravel-all/raw-planes/Neuron_slice.json
tests/data/legacy-unravel/1-pt-soma.swc
tests/data/legacy-unravel/3-pts-soma.swc
tests/data/legacy-unravel/expected-1-pt-soma.h5
tests/data/legacy-unravel/expected-3-pts-soma.h5
tests/data/test-cut-apical/cut-plane.json
tests/data/test-cut-apical/simple-apical-cut.swc
tests/data/test-cut-apical/simple-apical.swc
tests/data/test-error-detection/error-morph.asc
tests/data/test-error-detection/simple.asc
tests/data/test-full-repair/raw/neuron-slice.h5
tests/data/test-full-repair/raw/planes/neuron-slice.json