Software available from GitHub: https://github.com/HILMIR-Lab
MRI Brain Segmentation
Skull stripping method for T1 weighted MRI: Available here: https://github.com/HjaltiThrastarson/skullStrip25.
Deep brain segmentation: Ventricular system (4 substructures), Brainstem (4 substructures), Putamen (left and right), Caudate (left and right). Available here: https://github.com/HILMIR-Lab/brain_segmentation.
Ventricle and white matter hyperintensity segmentation: Available here: https://github.com/HILMIR-Lab/Ventricle_WMH_segmentation.