├── .gitignore ├── README.md ├── configs ├── augmentations-half.yaml ├── augmentations.yaml ├── finetuning │ ├── seg-finetuning-unet-trans_train_1.yaml │ ├── seg-finetuning-unet-trans_train_10.yaml │ ├── seg-finetuning-unet-trans_train_2.yaml │ ├── seg-finetuning-unet-trans_train_3.yaml │ ├── seg-finetuning-unet-trans_train_4.yaml │ ├── seg-finetuning-unet-trans_train_5.yaml │ ├── seg-finetuning-unet-trans_train_6.yaml │ ├── seg-finetuning-unet-trans_train_7.yaml │ ├── seg-finetuning-unet-trans_train_8.yaml │ └── seg-finetuning-unet-trans_train_9.yaml ├── gen-inference-unet.yaml ├── gen-training-unet-multipos.yaml ├── gen-training-unet-trans.yaml ├── gen-training-unet-trans_inference_8.yaml ├── gen-training-unet-trans_test_1.yaml ├── gen-training-unet-trans_test_10.yaml ├── gen-training-unet-trans_test_2.yaml ├── gen-training-unet-trans_test_3.yaml ├── gen-training-unet-trans_test_4.yaml ├── gen-training-unet-trans_test_5.yaml ├── gen-training-unet-trans_test_6.yaml ├── gen-training-unet-trans_test_7.yaml ├── gen-training-unet-trans_test_8.yaml ├── gen-training-unet-trans_test_9.yaml ├── gen-training-unet-trans_train_1.yaml ├── gen-training-unet-trans_train_10.yaml ├── gen-training-unet-trans_train_2.yaml ├── gen-training-unet-trans_train_3.yaml ├── gen-training-unet-trans_train_4.yaml ├── gen-training-unet-trans_train_5.yaml ├── gen-training-unet-trans_train_6.yaml ├── gen-training-unet-trans_train_7.yaml ├── gen-training-unet-trans_train_8.yaml ├── gen-training-unet-trans_train_9.yaml ├── gen-training-unet1.yaml ├── gen-training-unet10.yaml ├── gen-training-unet2.yaml ├── gen-training-unet3.yaml ├── gen-training-unet4.yaml ├── gen-training-unet5.yaml ├── gen-training-unet6.yaml ├── gen-training-unet7.yaml ├── gen-training-unet8.yaml ├── gen-training-unet9.yaml ├── generation-hann │ ├── gen-training-unet-trans_train_1.yaml │ ├── gen-training-unet-trans_train_2.yaml │ ├── gen-training-unet-trans_train_3.yaml │ ├── gen-training-unet-trans_train_4.yaml │ ├── gen-training-unet-trans_train_5.yaml │ ├── gen-training-unet-trans_train_6.yaml │ ├── gen-training-unet-trans_train_7.yaml │ ├── gen-training-unet-trans_train_8.yaml │ └── gen-training-unet-trans_train_9.yaml ├── half-2.yaml ├── half.yaml ├── mixed-hann │ ├── seg-pretraining-unet-trans_train_1.yaml │ ├── seg-pretraining-unet-trans_train_2.yaml │ ├── seg-pretraining-unet-trans_train_3.yaml │ ├── seg-pretraining-unet-trans_train_4.yaml │ └── seg-pretraining-unet-trans_train_5.yaml ├── mixed │ ├── seg-pretraining-unet-trans_train_1.yaml │ ├── seg-pretraining-unet-trans_train_2.yaml │ ├── seg-pretraining-unet-trans_train_3.yaml │ ├── seg-pretraining-unet-trans_train_4.yaml │ └── seg-pretraining-unet-trans_train_5.yaml ├── old_gen-training-unet2.yaml ├── preprocessing.yaml ├── pretraining │ ├── seg-pretraining-unet-trans_train_1.yaml │ ├── seg-pretraining-unet-trans_train_10.yaml │ ├── seg-pretraining-unet-trans_train_2.yaml │ ├── seg-pretraining-unet-trans_train_3.yaml │ ├── seg-pretraining-unet-trans_train_4.yaml │ ├── seg-pretraining-unet-trans_train_5.yaml │ ├── seg-pretraining-unet-trans_train_6.yaml │ ├── seg-pretraining-unet-trans_train_7.yaml │ ├── seg-pretraining-unet-trans_train_8.yaml │ └── seg-pretraining-unet-trans_train_9.yaml ├── seg-finetuning.yaml ├── seg-pretraining-unet-trans_train_1.yaml └── seg-pretraining.yaml ├── dataloader ├── AugFactory.py ├── DiffResample.py ├── DistanceTransform.py ├── Maxillo.py └── ToothFairy.py ├── eval.py ├── experiments ├── ExperimentFactory.py ├── experiment.py ├── generation.py └── segmentation.py ├── imgs └── frontside.jpg ├── jaw ├── Jaw.py ├── Plane.py ├── dicom_loader.py └── processing.py ├── losses ├── BCEWithLogitsLoss.py ├── BoundaryLoss.py ├── CavityLoss.py ├── CrossEntropyLoss.py ├── DiceLoss.py ├── JaccardLoss.py └── LossFactory.py ├── main.py ├── models ├── Competitor.py ├── CrossPosPadUNet3D.py ├── DMFNet │ ├── DMFNet.py │ ├── comm.py │ └── synch_batchnorm.py ├── DeepLab3D.py ├── DeepLabv3 │ ├── aspp.py │ ├── deeplabv3_3d.py │ └── resnet.py ├── LatePosPadUNet3D.py ├── MemTransPosPadUNet3D.py ├── ModelFactory.py ├── MultiPosPadUNet3D.py ├── PadUNet3D.py ├── PosPadUNet3D.py ├── PosPadUNet3DPlus.py ├── PosPadUNet3DSparse.py ├── PosPadUNet3DSparseOnly.py ├── SegNet │ └── segnet_3d.py ├── SqueezeTransPosPadUNet3D.py ├── SwinUNETR │ └── SwinUNETR.py ├── TransPosPadUNet3D.py ├── UNETR │ └── UNETR.py └── layers │ ├── ConcatAbsolutePos.py │ ├── PositionalEmbedding.py │ ├── PositionalEncoding.py │ └── SqueezeAndExcitation.py ├── optimizers └── OptimizerFactory.py ├── requirements.txt ├── schedulers └── SchedulerFactory.py └── statistical_relevance └── statistical_relevance.py /.gitignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/AImageLab-zip/alveolar_canal/HEAD/.gitignore -------------------------------------------------------------------------------- /README.md: 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