afids-CNN

Leveraging the recent release of the anatomical fiducial framework for developing an open software infrastructure to solve the landmark regression problem on 3D MRI images

Processing imaging data for training

1 - skull stripping 2 - conforming image 3 - intensity normalization (i.e., WM to 110)

Processing landmark data (AFIDs)

1 - extract points from landmark file (.fcsv is supported) 2 - extact a landmark Euclidean distance map (could be considered probability map; each voxel communicates the distance to a AFID of interest)

Machine learning

1 - a standard 3D Unet