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LICENSE
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tox.ini
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docs/care.md
docs/stardist.md
docs/unet.md
scripts/01_enhance_membrane.py
scripts/01_membrane_segmentation_cellpose.py
scripts/01_nuclei_segmentation.py
scripts/01_segmentation_metrics.py
scripts/01_vollcellpose_membrane_segmentation.py
scripts/02_train_stardist_pytorch.py
scripts/README.md
scripts/_upload_models_to_hf.py
scripts/scenarios.py
scripts/conf/scenario_segment.yaml
scripts/conf/experiment_data_paths/testdataset.yaml
scripts/conf/model_paths/jeanzay.yaml
scripts/conf/parameters/default.yaml
src/kapoorlabs_vollseg.egg-info/PKG-INFO
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src/kapoorlabs_vollseg.egg-info/dependency_links.txt
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src/vollseg/_backbones/__init__.py
src/vollseg/_backbones/care.py
src/vollseg/_backbones/care_keras.py
src/vollseg/_backbones/cellpose.py
src/vollseg/_backbones/maskunet.py
src/vollseg/_backbones/maskunet_keras.py
src/vollseg/_backbones/stardist.py
src/vollseg/_backbones/stardist_keras.py
src/vollseg/_backbones/unet.py
src/vollseg/_backbones/unet_keras.py
src/vollseg/_lightning/__init__.py
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src/vollseg/_lightning/dataset.py
src/vollseg/_lightning/stitch.py
src/vollseg/_lightning/transforms.py
src/vollseg/data/__init__.py
src/vollseg/data/io.py
src/vollseg/data/labels.py
src/vollseg/data/patches.py
src/vollseg/data/sequencer.py
src/vollseg/eval/__init__.py
src/vollseg/eval/matching.py
src/vollseg/eval/nms.py
src/vollseg/eval/threshold.py
src/vollseg/models/__init__.py
src/vollseg/models/care.py
src/vollseg/models/care_keras.py
src/vollseg/models/cellpose.py
src/vollseg/models/maskunet.py
src/vollseg/models/maskunet_keras.py
src/vollseg/models/stardist.py
src/vollseg/models/stardist_keras.py
src/vollseg/models/unet.py
src/vollseg/models/unet_keras.py
src/vollseg/pipelines/__init__.py
src/vollseg/pipelines/base.py
src/vollseg/pipelines/cellseg_factory.py
src/vollseg/pipelines/chunked.py
src/vollseg/pipelines/denoised.py
src/vollseg/pipelines/factory.py
src/vollseg/pipelines/nuclei_cellpose.py
src/vollseg/pipelines/roi.py
src/vollseg/pipelines/unet_stardist.py
src/vollseg/stardist/__init__.py
src/vollseg/stardist/dataset.py
src/vollseg/stardist/distance.py
src/vollseg/stardist/h5_data.py
src/vollseg/stardist/inference.py
src/vollseg/stardist/lightning_module.py
src/vollseg/stardist/losses.py
src/vollseg/stardist/model.py
src/vollseg/stardist/rays.py
src/vollseg/stardist/transforms.py
src/vollseg/train/__init__.py
src/vollseg/train/_checkpoint.py
src/vollseg/train/care.py
src/vollseg/train/care_keras.py
src/vollseg/train/cellpose.py
src/vollseg/train/maskunet.py
src/vollseg/train/smartseeds_keras.py
src/vollseg/train/stardist.py
src/vollseg/train/stardist_keras.py
src/vollseg/train/unet.py
src/vollseg/train/unet_keras.py
tests/__init__.py
tests/conftest.py
tests/test_data_labels.py
tests/test_distance.py
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tests/test_hub.py
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tests/test_pipelines_base.py
tests/test_rays.py
tests/test_seedpool.py
tests/test_stardist_transforms.py