.gitattributes
.gitignore
AUTHORS.txt
CONTRIBUTING.md
LICENSE
README.md
banner-ConnectomeUtilities.jpg
configuration_files.md
pyproject.toml
tox.ini
.github/workflows/build.yml
.github/workflows/run-tox.yml
.vscode/settings.json
Connectome_Utilities.egg-info/PKG-INFO
Connectome_Utilities.egg-info/SOURCES.txt
Connectome_Utilities.egg-info/dependency_links.txt
Connectome_Utilities.egg-info/requires.txt
Connectome_Utilities.egg-info/top_level.txt
conntility/__init__.py
conntility/connectivity.py
conntility/multi_scale.py
conntility/plugins.py
conntility/analysis/__init__.py
conntility/analysis/analysis.py
conntility/analysis/analysis_decorators.py
conntility/analysis/clustering.py
conntility/analysis/library/__init__.py
conntility/analysis/library/diffusion_mapping.py
conntility/circuit_models/__init__.py
conntility/circuit_models/connection_matrix.py
conntility/circuit_models/input_spikes.py
conntility/circuit_models/sonata_helpers.py
conntility/circuit_models/neuron_groups/__init__.py
conntility/circuit_models/neuron_groups/defaults.py
conntility/circuit_models/neuron_groups/extra_properties.py
conntility/circuit_models/neuron_groups/from_atlas.py
conntility/circuit_models/neuron_groups/grouping_config.py
conntility/circuit_models/neuron_groups/loader.py
conntility/circuit_models/neuron_groups/make_groups.py
conntility/circuit_models/neuron_groups/sonata_extensions.py
conntility/circuit_models/neuron_groups/tessellate.py
conntility/flatmapping/__init__.py
conntility/flatmapping/_supersample_utility.py
conntility/flatmapping/flatmap_utility.py
conntility/flatmapping/supersampling.py
conntility/flatmapping/wm_recipe_utility.py
conntility/io/__init__.py
conntility/io/sparse_matrices.py
conntility/io/synapse_report.py
conntility/randomization/__init__.py
conntility/subcellular/__init__.py
conntility/subcellular/neuron_morphology_path_distance.py
examples/C elegans - a non-sonata-based example.ipynb
examples/Correlation against distance.ipynb
examples/Edge participation in MICrONS.ipynb
examples/Example 3 - Generating control subsamples and neighborhoods.ipynb
examples/Example 4 - Loading atlas data.ipynb
examples/Example 5 - Connectivity at reduced resolution.ipynb
examples/Example 6 - Plastic matrices.ipynb
examples/Examples 1 and 2 - Analyzing pathways and controls.ipynb
examples/Fly connectome - a non-sonata based example.ipynb
examples/Fly larva - a non-sonata-based example.ipynb
examples/MICrONS_connectome_inhibitory_innervation.ipynb
examples/Slicing and sampling.ipynb
examples/data/C_elegans_witvliet.h5
examples/data/L23_EXC_sampled_cmat.h5
examples/data/column_identities.nrrd
examples/data/ss_fm.nrrd
examples/data/voxel-based-hex-grid-info-with-conicality.h5
loader_config/example.json
loader_config/example_simple.json
loader_config/example_simple_grouping.json
loader_config/more_groups.json
tests/test_analysis.py
tests/test_analysis_decorator.py
tests/test_connectivity_matrix.py
tests/test_neuron_groups.py
tests/utils.py
tests/data/circuit_config.json
tests/data/random_er.py
tests/data/random_simplex_counts.py
tests/data/reference_load_neurons.csv
tests/data/test_analysis_config.json
tests/data/test_analysis_control_sample.json
tests/data/test_list_filtering_config.json
tests/data/test_load_config.json