Fig 1. The proposed pipeline for joint ventricle and WMH segmentation.

SegAE is used to decompose T1-w, T2-w and FLAIR images into four images, where the proportion of CSF, GM, WM, and WMHs is represented in each voxel. These are in turn used to create a standardized image from which the Ventricle CNN parcellates the ventricular system into the left and right lateral ventricles, and the 3rd and 4th ventricles.