.gitignore
Initialized
LICENSE.txt
README.md
pyproject.toml
requirements.txt
setup.cfg
test_requirements.txt
.github/workflows/ci.yml
.github/workflows/submodule-update.yml
checkpoints/ac_set2_rg_1e08_run7/best.ckpt
pipeline/models/LR_1.joblib
pipeline/models/scaler.joblib
src/ac_segmentation/__init__.py
src/ac_segmentation.egg-info/PKG-INFO
src/ac_segmentation.egg-info/SOURCES.txt
src/ac_segmentation.egg-info/dependency_links.txt
src/ac_segmentation.egg-info/requires.txt
src/ac_segmentation.egg-info/top_level.txt
src/ac_segmentation/deprecated/__init__.py
src/ac_segmentation/deprecated/add_radius.py
src/ac_segmentation/deprecated/postprocess.py
src/ac_segmentation/deprecated/preprocess.py
src/ac_segmentation/deprecated/reconnect_stack.py
src/ac_segmentation/deprecated/segmentation.py
src/ac_segmentation/deprecated/segmentation_stack.py
src/ac_segmentation/deprecated/segmentation_to_swc_stack.py
src/ac_segmentation/deprecated/swc_morphology/__init__.py
src/ac_segmentation/deprecated/swc_morphology/classes.py
src/ac_segmentation/deprecated/swc_morphology/readwrite_swc.py
src/ac_segmentation/neurotorch/__init__.py
src/ac_segmentation/neurotorch/augmentations/augmentation.py
src/ac_segmentation/neurotorch/augmentations/blur.py
src/ac_segmentation/neurotorch/augmentations/brightness.py
src/ac_segmentation/neurotorch/augmentations/dropped.py
src/ac_segmentation/neurotorch/augmentations/duplicate.py
src/ac_segmentation/neurotorch/augmentations/occlusion.py
src/ac_segmentation/neurotorch/augmentations/stitch.py
src/ac_segmentation/neurotorch/core/__init__.py
src/ac_segmentation/neurotorch/core/predictor.py
src/ac_segmentation/neurotorch/core/predictor_aff_ls.py
src/ac_segmentation/neurotorch/core/trainer.py
src/ac_segmentation/neurotorch/core/trainer_aff_ls.py
src/ac_segmentation/neurotorch/datasets/__init__.py
src/ac_segmentation/neurotorch/datasets/dataset.py
src/ac_segmentation/neurotorch/datasets/datatypes.py
src/ac_segmentation/neurotorch/datasets/filetypes.py
src/ac_segmentation/neurotorch/datasets/specification.py
src/ac_segmentation/neurotorch/loss/SimplePointWeighting.py
src/ac_segmentation/neurotorch/loss/affinity.py
src/ac_segmentation/neurotorch/nets/RSUNet.py
src/ac_segmentation/neurotorch/nets/RSUNetAff.py
src/ac_segmentation/neurotorch/nets/__init__.py
src/ac_segmentation/neurotorch/nets/layers.py
src/ac_segmentation/neurotorch/nets/netcollector.py
src/ac_segmentation/neurotorch/training/__init__.py
src/ac_segmentation/neurotorch/training/checkpoint.py
src/ac_segmentation/neurotorch/training/logging.py
src/ac_segmentation/neurotorch/utils/torch_utils.py
src/ac_segmentation/notebooks/Run_Segmentation_Tensor.ipynb
src/ac_segmentation/notebooks/Run_Skeletonization.ipynb
src/ac_segmentation/notebooks/Tensorstore_Utilities.ipynb
src/ac_segmentation/notebooks/__init__.py
src/ac_segmentation/postprocess/__init__.py
src/ac_segmentation/postprocess/skeletonize_array.py
src/ac_segmentation/postprocess/skeletonize_array_uint8_prob.py
src/ac_segmentation/process/__init__.py
src/ac_segmentation/process/segment_and_skeletonize_strip.py
src/ac_segmentation/process/segment_array.py
src/ac_segmentation/utils/__init__.py
src/ac_segmentation/utils/io.py
src/ac_segmentation/utils/preprocess.py
src/ac_segmentation/utils/tensorstore.py
src/ac_segmentation/utils/zarr_to_CATMAID.py
test/__init__.py
test/conftest.py
test/test_imports.py
test/test_segment_and_skeletonize_strip.py
test/test_skeletonize_array_uint8_prob.py