├── README.md ├── evaluation ├── README.md ├── SSIM3D.py ├── evaluate.sh └── evaluation_metrics.py └── preprocess ├── MRI_preprocess ├── MNI152_T1_1mm_brain.nii.gz ├── MRI_Atlas.py ├── MRI_Flirt.py ├── MRI_SkullStrip.py └── scripts │ ├── MRI_Atlas.sh │ ├── MRI_Flirt.sh │ └── MRI_Skullstrip.sh ├── Other_modality_preprocess ├── MNI152_T1_1mm_brain.nii.gz ├── OM_SkullStrip.py ├── __init__.py ├── s3 │ ├── LICENSE │ ├── README.md │ ├── __init__.py │ ├── requirements.txt │ ├── s3.py │ └── src │ │ ├── Atlas │ │ ├── COPYING │ │ ├── README │ │ ├── atlas_csf.nii │ │ ├── atlas_gm.nii │ │ ├── atlas_mask.nii │ │ ├── atlas_pd.nii │ │ ├── atlas_t1.nii │ │ └── atlas_wm.nii │ │ ├── __init__.py │ │ ├── helpers.py │ │ ├── paths.py │ │ ├── pipeline.png │ │ ├── registration.py │ │ ├── sh │ │ └── skull_strip.sh │ │ └── skull.py └── scripts │ └── OM_SkullStrip.sh ├── README.md └── __init__.py /README.md: -------------------------------------------------------------------------------- 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