LICENSE
README.md
pyproject.toml
src/cellvit_light/__init__.py
src/cellvit_light.egg-info/PKG-INFO
src/cellvit_light.egg-info/SOURCES.txt
src/cellvit_light.egg-info/dependency_links.txt
src/cellvit_light.egg-info/requires.txt
src/cellvit_light.egg-info/top_level.txt
src/cellvit_light/base_ml/__init__.py
src/cellvit_light/base_ml/base_cli.py
src/cellvit_light/base_ml/base_early_stopping.py
src/cellvit_light/base_ml/base_experiment.py
src/cellvit_light/base_ml/base_loss.py
src/cellvit_light/base_ml/base_optim.py
src/cellvit_light/base_ml/base_trainer.py
src/cellvit_light/base_ml/base_utils.py
src/cellvit_light/base_ml/base_validator.py
src/cellvit_light/cell_segmentation/__init__.py
src/cellvit_light/cell_segmentation/run_cellvit.py
src/cellvit_light/cell_segmentation/run_cpp_net.py
src/cellvit_light/cell_segmentation/run_stardist.py
src/cellvit_light/cell_segmentation/datasets/base_cell.py
src/cellvit_light/cell_segmentation/datasets/cell_graph_datamodel.py
src/cellvit_light/cell_segmentation/datasets/conic.py
src/cellvit_light/cell_segmentation/datasets/consep.py
src/cellvit_light/cell_segmentation/datasets/dataset_coordinator.py
src/cellvit_light/cell_segmentation/datasets/monuseg.py
src/cellvit_light/cell_segmentation/datasets/pannuke.py
src/cellvit_light/cell_segmentation/datasets/prepare_monuseg.py
src/cellvit_light/cell_segmentation/datasets/prepare_pannuke.py
src/cellvit_light/cell_segmentation/inference/__init__.py
src/cellvit_light/cell_segmentation/inference/cell_detection.py
src/cellvit_light/cell_segmentation/trainer/__init__.py
src/cellvit_light/cell_segmentation/trainer/trainer_cellvit.py
src/cellvit_light/cell_segmentation/trainer/trainer_cpp_net.py
src/cellvit_light/cell_segmentation/trainer/trainer_stardist.py
src/cellvit_light/cell_segmentation/utils/__init__.py
src/cellvit_light/cell_segmentation/utils/metrics.py
src/cellvit_light/cell_segmentation/utils/post_proc_cellvit.py
src/cellvit_light/cell_segmentation/utils/post_proc_stardist.py
src/cellvit_light/cell_segmentation/utils/template_geojson.py
src/cellvit_light/cell_segmentation/utils/tools.py
src/cellvit_light/configs/__init__.py
src/cellvit_light/configs/python/__init__.py
src/cellvit_light/configs/python/config.py
src/cellvit_light/datamodel/__init__.py
src/cellvit_light/datamodel/graph_datamodel.py
src/cellvit_light/datamodel/wsi_datamodel.py
src/cellvit_light/models/__init__.py
src/cellvit_light/models/encoders/__init__.py
src/cellvit_light/models/encoders/VIT/vits_histo.py
src/cellvit_light/models/encoders/VIT/SAM/__init__.py
src/cellvit_light/models/encoders/VIT/SAM/image_encoder.py
src/cellvit_light/models/encoders/VIT/SAM/utils.py
src/cellvit_light/models/segmentation/cell_segmentation/__init__.py
src/cellvit_light/models/segmentation/cell_segmentation/cellvit.py
src/cellvit_light/models/segmentation/cell_segmentation/cellvit_cpp_net.py
src/cellvit_light/models/segmentation/cell_segmentation/cellvit_shared.py
src/cellvit_light/models/segmentation/cell_segmentation/cellvit_stardist.py
src/cellvit_light/models/segmentation/cell_segmentation/cellvit_stardist_shared.py
src/cellvit_light/models/segmentation/cell_segmentation/cpp_net_stardist_rn50.py
src/cellvit_light/models/segmentation/cell_segmentation/utils.py
src/cellvit_light/models/utils/__init__.py
src/cellvit_light/models/utils/attention.py
src/cellvit_light/models/utils/dense.py
src/cellvit_light/models/utils/residual.py
src/cellvit_light/models/utils/tf_utils.py
src/cellvit_light/models/utils/tools.py
src/cellvit_light/preprocessing/__init__.py
src/cellvit_light/preprocessing/encoding/datasets/__init__.py
src/cellvit_light/preprocessing/encoding/datasets/patched_wsi_inference.py
src/cellvit_light/preprocessing/patch_extraction/__init__.py
src/cellvit_light/preprocessing/patch_extraction/main_extraction.py
src/cellvit_light/preprocessing/patch_extraction/scripts/macenko.py
src/cellvit_light/preprocessing/patch_extraction/src/__init__.py
src/cellvit_light/preprocessing/patch_extraction/src/cli.py
src/cellvit_light/preprocessing/patch_extraction/src/cucim_deepzoom.py
src/cellvit_light/preprocessing/patch_extraction/src/patch_extraction.py
src/cellvit_light/preprocessing/patch_extraction/src/process_batch.py
src/cellvit_light/preprocessing/patch_extraction/src/storage.py
src/cellvit_light/preprocessing/patch_extraction/src/utils/exceptions.py
src/cellvit_light/preprocessing/patch_extraction/src/utils/masking.py
src/cellvit_light/preprocessing/patch_extraction/src/utils/patch_dataset.py
src/cellvit_light/preprocessing/patch_extraction/src/utils/patch_util.py
src/cellvit_light/preprocessing/patch_extraction/src/utils/plotting.py
src/cellvit_light/utils/__init__.py
src/cellvit_light/utils/file_handling.py
src/cellvit_light/utils/logger.py
src/cellvit_light/utils/tools.py