PAK-SRR

Super-Resolution Reconstruction of Fetal Brain MRI with Prior Anatomical Knowledge

Step 0: Images Reorientation

run python ./2_reorientation.py

Step 1: Download Pre-trained Models

./1_samonaifbs/models/checkpoint_dynUnet_DiceXent.pt https://zenodo.org/record/4282679#.X7fyttvgqL5

./1_samonaifbs/models/sam_vit_b_01ec64.pth https://dl.fbaipublicfiles.com/segment_anything/sam_vit_b_01ec64.pth

Step 2: Brain Extraction

run python ./1_samonaifbs/src/inference/step1_main.py

Step 3: Tissue Segmentation and Distance Map Calculation

run python ./3_tissue_seg/step3_main.py

Step 4: Super-Resolution Reconstruction 1 (Baseline Method: NiftyMIC)

run python ./4_niftymic/baseline_main.py

Step 4: Super-Resolution Reconstruction 2 (Our Method: PAK-SRR)

run python ./4_paksrr/PAK_SRR_main.py