├── LICENSE ├── README.md ├── core ├── Configurator.py ├── DataLoader.py ├── DownstreamEvaluator.py ├── Main.py └── Trainer.py ├── data ├── ATLAS │ └── splits │ │ ├── atlas_train_mask_png.csv │ │ └── atlas_train_png.csv ├── CAPS_IXI │ └── splits │ │ └── ixi_normal_train.csv ├── fastMRI │ ├── normal_test.csv │ ├── normal_train.csv │ └── normal_val.csv └── loaders │ ├── fastmri_loader.py │ └── ixi_loader.py ├── dl_utils ├── __init__.py ├── config_utils.py └── data_utils.py ├── model_zoo ├── __init__.py ├── ddpm.py └── vgg.py ├── net_utils ├── diffusion_unet.py ├── scheduler.py ├── schedulers │ ├── ddim.py │ └── ddpm.py └── simplex_noise.py ├── optim ├── .DS_Store ├── __init__.py ├── losses │ ├── NCC2.py │ ├── __init__.py │ ├── classification_losses.py │ ├── image_losses.py │ └── ln_losses.py └── metrics │ ├── __init__.py │ ├── auprc.py │ └── dice.py ├── pip_requirements.txt ├── projects └── autoddpm │ ├── DownstreamEvaluator.py │ ├── Trainer.py │ ├── anoddpm.yaml │ └── autoddpm.yaml └── transforms ├── __init__.py └── preprocessing.py /LICENSE: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/LICENSE -------------------------------------------------------------------------------- /README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/README.md -------------------------------------------------------------------------------- /core/Configurator.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/core/Configurator.py -------------------------------------------------------------------------------- /core/DataLoader.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/core/DataLoader.py -------------------------------------------------------------------------------- /core/DownstreamEvaluator.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/core/DownstreamEvaluator.py -------------------------------------------------------------------------------- /core/Main.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/core/Main.py -------------------------------------------------------------------------------- /core/Trainer.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/core/Trainer.py -------------------------------------------------------------------------------- /data/ATLAS/splits/atlas_train_mask_png.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/data/ATLAS/splits/atlas_train_mask_png.csv -------------------------------------------------------------------------------- /data/ATLAS/splits/atlas_train_png.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/data/ATLAS/splits/atlas_train_png.csv -------------------------------------------------------------------------------- /data/CAPS_IXI/splits/ixi_normal_train.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/data/CAPS_IXI/splits/ixi_normal_train.csv -------------------------------------------------------------------------------- /data/fastMRI/normal_test.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/data/fastMRI/normal_test.csv -------------------------------------------------------------------------------- /data/fastMRI/normal_train.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/data/fastMRI/normal_train.csv -------------------------------------------------------------------------------- /data/fastMRI/normal_val.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/data/fastMRI/normal_val.csv -------------------------------------------------------------------------------- /data/loaders/fastmri_loader.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/data/loaders/fastmri_loader.py -------------------------------------------------------------------------------- /data/loaders/ixi_loader.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/data/loaders/ixi_loader.py -------------------------------------------------------------------------------- /dl_utils/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/dl_utils/__init__.py -------------------------------------------------------------------------------- /dl_utils/config_utils.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/dl_utils/config_utils.py -------------------------------------------------------------------------------- /dl_utils/data_utils.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/dl_utils/data_utils.py -------------------------------------------------------------------------------- /model_zoo/__init__.py: -------------------------------------------------------------------------------- 1 | from .vgg import * -------------------------------------------------------------------------------- /model_zoo/ddpm.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/model_zoo/ddpm.py -------------------------------------------------------------------------------- /model_zoo/vgg.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/model_zoo/vgg.py -------------------------------------------------------------------------------- /net_utils/diffusion_unet.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/net_utils/diffusion_unet.py -------------------------------------------------------------------------------- /net_utils/scheduler.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/net_utils/scheduler.py -------------------------------------------------------------------------------- /net_utils/schedulers/ddim.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/net_utils/schedulers/ddim.py -------------------------------------------------------------------------------- /net_utils/schedulers/ddpm.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/net_utils/schedulers/ddpm.py -------------------------------------------------------------------------------- /net_utils/simplex_noise.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/net_utils/simplex_noise.py -------------------------------------------------------------------------------- /optim/.DS_Store: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/optim/.DS_Store -------------------------------------------------------------------------------- /optim/__init__.py: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /optim/losses/NCC2.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/optim/losses/NCC2.py -------------------------------------------------------------------------------- /optim/losses/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/optim/losses/__init__.py -------------------------------------------------------------------------------- /optim/losses/classification_losses.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/optim/losses/classification_losses.py -------------------------------------------------------------------------------- /optim/losses/image_losses.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/optim/losses/image_losses.py -------------------------------------------------------------------------------- /optim/losses/ln_losses.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/optim/losses/ln_losses.py -------------------------------------------------------------------------------- /optim/metrics/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/optim/metrics/__init__.py -------------------------------------------------------------------------------- /optim/metrics/auprc.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/optim/metrics/auprc.py -------------------------------------------------------------------------------- /optim/metrics/dice.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/optim/metrics/dice.py -------------------------------------------------------------------------------- /pip_requirements.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/pip_requirements.txt -------------------------------------------------------------------------------- /projects/autoddpm/DownstreamEvaluator.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/projects/autoddpm/DownstreamEvaluator.py -------------------------------------------------------------------------------- /projects/autoddpm/Trainer.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/projects/autoddpm/Trainer.py -------------------------------------------------------------------------------- /projects/autoddpm/anoddpm.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/projects/autoddpm/anoddpm.yaml -------------------------------------------------------------------------------- /projects/autoddpm/autoddpm.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/projects/autoddpm/autoddpm.yaml -------------------------------------------------------------------------------- /transforms/__init__.py: -------------------------------------------------------------------------------- 1 | from .preprocessing import * -------------------------------------------------------------------------------- /transforms/preprocessing.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ci-ber/autoDDPM/HEAD/transforms/preprocessing.py --------------------------------------------------------------------------------