├── .gitignore ├── LICENSE.txt ├── README.md ├── figures ├── architecture.png ├── data_overview.png ├── similarity_overlays.png └── training_scheme.png ├── requirements.txt ├── shell ├── cfgs.sh ├── train.sh ├── train_p1.sh └── train_p2.sh └── src ├── __init__.py ├── data ├── __init__.py ├── collate.py ├── conversion_monai.py ├── datasets │ ├── __init__.py │ ├── gather_ctorg.py │ ├── gather_data.py │ ├── gather_tcia_btcv.py │ ├── pre_processing.py │ ├── prepare_btcv.py │ ├── prepare_ctorg.py │ └── prepare_tcia.py ├── distributed_wrapper.py ├── loader_monai.py └── transforms_monai.py ├── main.py ├── modules ├── __init__.py ├── architectures │ ├── __init__.py │ ├── baseline_swin_unetr.py │ ├── baseline_unet.py │ ├── baseline_unetr.py │ ├── momentum_model.py │ ├── momentum_model_simple.py │ └── swin_unetr_deep.py ├── blocks │ ├── __init__.py │ ├── attention.py │ ├── attentive_mechanism_masked.py │ ├── instruction_pool.py │ ├── mlp.py │ ├── query_encodings.py │ ├── sia_block_deep.py │ ├── sia_res_block_deep.py │ ├── sia_up_block_deep.py │ └── similarity_aggregation.py ├── instruction_model.py ├── instruction_model_simple.py └── losses │ ├── __init__.py │ ├── contrastive_protos_teacher.py │ └── focal.py └── utils ├── __init__.py ├── aws.py ├── callbacks.py ├── initialization.py ├── logging_custom.py └── plotting ├── __init__.py ├── image_grid.py └── similarities_student_teacher.py /.gitignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/marcdcfischer/PUNet/HEAD/.gitignore -------------------------------------------------------------------------------- /LICENSE.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/marcdcfischer/PUNet/HEAD/LICENSE.txt -------------------------------------------------------------------------------- /README.md: -------------------------------------------------------------------------------- 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