.auto-changelog
.auto-changelog-template.hbs
.codespellignorelines
.codespellrc
.coveragerc
.flake8
.gitignore
.pre-commit-config.yaml
.readthedocs.yml
AUTHORS.md
CHANGELOG.md
CITATION.cff
CONTRIBUTING.md
LICENSE.txt
MANIFEST.in
README.md
codecov.yml
commitlint.config.js
package.json
pyproject.toml
setup.py
tox.ini
.binder/postBuild
.binder/runtime.txt
.github/workflows/commitlint.yml
.github/workflows/my_binder-build.yml
.github/workflows/publish-sdist.yml
.github/workflows/run-tox.yml
NeuroTS.egg-info/PKG-INFO
NeuroTS.egg-info/SOURCES.txt
NeuroTS.egg-info/dependency_links.txt
NeuroTS.egg-info/requires.txt
NeuroTS.egg-info/top_level.txt
doc/Makefile
doc/source/api.rst
doc/source/changelog.rst
doc/source/conf.py
doc/source/contributing.rst
doc/source/index.rst
doc/source/params_and_distrs.rst
doc/source/logo/BBP-NeuroTS.jpg
examples/.gitignore
examples/README.rst
examples/explore_example_results.ipynb
examples/extract_synthesis_inputs.py
examples/synthesize_neuron_external_diameter.py
examples/synthesize_neuron_with_diameters.py
examples/synthesize_neurons.py
examples/synthesize_single_neuron.py
examples/data/IN_distr.json
examples/data/IN_params.json
examples/data/PC_distr.json
examples/data/PC_params.json
examples/data/bio_distr.json
examples/data/bio_params.json
examples/data/neurons/C220197A-P2.h5
examples/data/neurons/Fluo55_left.h5
neurots/__init__.py
neurots/basic.py
neurots/utils.py
neurots/validator.py
neurots/astrocyte/__init__.py
neurots/astrocyte/context.py
neurots/astrocyte/grower.py
neurots/astrocyte/point_cloud.py
neurots/astrocyte/section.py
neurots/astrocyte/space_colonization.py
neurots/astrocyte/tmd_utils.py
neurots/astrocyte/tree.py
neurots/extract_input/__init__.py
neurots/extract_input/from_TMD.py
neurots/extract_input/from_diameter.py
neurots/extract_input/from_neurom.py
neurots/extract_input/input_distributions.py
neurots/extract_input/input_parameters.py
neurots/generate/__init__.py
neurots/generate/diametrizer.py
neurots/generate/grower.py
neurots/generate/orientations.py
neurots/generate/section.py
neurots/generate/soma.py
neurots/generate/tree.py
neurots/generate/algorithms/__init__.py
neurots/generate/algorithms/abstractgrower.py
neurots/generate/algorithms/barcode.py
neurots/generate/algorithms/basicgrower.py
neurots/generate/algorithms/common.py
neurots/generate/algorithms/tmdgrower.py
neurots/morphmath/__init__.py
neurots/morphmath/bifurcation.py
neurots/morphmath/point_array.py
neurots/morphmath/rotation.py
neurots/morphmath/sample.py
neurots/morphmath/utils.py
neurots/morphmath/examples/draw_from_distributions.py
neurots/schemas/distributions.json
neurots/schemas/parameters.json
test_data/diam_simple.swc
test_data/diam_simple_axon.swc
test_data/simple.swc
test_data/bio/C220197A-P2.h5
test_data/bio/Fluo55_left.h5
tests/__init__.py
tests/test_algo.py
tests/test_diametrizer.py
tests/test_examples.py
tests/test_extract_input.py
tests/test_generate_section.py
tests/test_generate_tree.py
tests/test_json_schema.py
tests/test_morphmath_bifurcation.py
tests/test_morphmath_point_array.py
tests/test_morphmath_utils.py
tests/test_neuron_functional.py
tests/test_orientations.py
tests/test_rotation.py
tests/test_sample.py
tests/test_soma_grower.py
tests/test_tmd_synthesis_functionality.py
tests/test_utils.py
tests/test_validator.py
tests/astrocyte/__init__.py
tests/astrocyte/test_context.py
tests/astrocyte/test_endfeet_targets.py
tests/astrocyte/test_grower.py
tests/astrocyte/test_point_cloud.py
tests/astrocyte/test_section.py
tests/astrocyte/test_space_colonization.py
tests/astrocyte/test_tmd_utils.py
tests/astrocyte/test_tree.py
tests/astrocyte/data/astrocyte.h5
tests/astrocyte/data/bio_path_distribution.json
tests/astrocyte/data/bio_path_params.json
tests/data/axon_trunk_distribution.json
tests/data/axon_trunk_parameters.json
tests/data/axon_trunk_parameters_absolute.json
tests/data/axon_trunk_parameters_absolute_orientation_manager.json
tests/data/axon_trunk_parameters_orientation_manager.json
tests/data/bio_distr_breaker.json
tests/data/bio_distribution.json
tests/data/bio_distribution_apical_point.json
tests/data/bio_gradient_path_params.json
tests/data/bio_gradient_path_params_orientation_manager.json
tests/data/bio_params_breaker.json
tests/data/bio_path_distribution.json
tests/data/bio_path_params.json
tests/data/bio_path_params_orientation_manager.json
tests/data/bio_path_persistence_diagram.json
tests/data/bio_radial_params.json
tests/data/bio_rat_L5_TPC_B.json
tests/data/bio_trunk_distribution.json
tests/data/dummy_distribution.json
tests/data/dummy_distribution_legacy.json
tests/data/dummy_interneuron_distribution.json
tests/data/dummy_neuron.asc
tests/data/dummy_params.json
tests/data/dummy_params_legacy.json
tests/data/expected_bio_rat_L5_TPC_B_with_params1.h5
tests/data/expected_bio_rat_L5_TPC_B_with_params1_persistence_diagram.json
tests/data/expected_bio_rat_L5_TPC_B_with_params2.h5
tests/data/expected_bio_rat_L5_TPC_B_with_params2_persistence_diagram.json
tests/data/expected_bio_rat_L5_TPC_B_with_params3.h5
tests/data/expected_bio_rat_L5_TPC_B_with_params3_persistence_diagram.json
tests/data/expected_bio_rat_L5_TPC_B_with_params4.h5
tests/data/expected_bio_rat_L5_TPC_B_with_params4_persistence_diagram.json
tests/data/gradient_path_grower.h5
tests/data/gradient_path_persistence_diagram.json
tests/data/params1.json
tests/data/params1_orientation_manager.json
tests/data/params2.json
tests/data/params2_orientation_manager.json
tests/data/params3.json
tests/data/params3_orientation_manager.json
tests/data/params4.json
tests/data/params4_orientation_manager.json
tests/data/path_grower.h5
tests/data/test_axon_grower.h5
tests/data/test_axon_grower_absolute.h5
tests/data/test_trunk_grower.h5
tests/data/trunk_parameters.json
validation/__init__.py
validation/boxplot_comparison.py
validation/violin_comparison.py