Image before and after comparisons (volume processing pipeline)
1.0 N3 intensity normalization: nu_correct_subject <subject name>
2.0 Cortical intensity normalization: mri_normalize orig T1
3.0 Cortical Talairach: talairach <subject name>
4.0 Cortical skull stripping: mri_watershed T1 brain
5.0 Subcortical intensity normalization: mri_ca_normalize -mask brain nu $GCA transforms/talairach.lta norm
6.0 Subcortical segmentation: mri_ca_label norm transforms/talairach.m3d $GCA aseg
7.0 Subcortical brain intensity normalization: mri_normalize norm brain
8.0 Subcortical white matter segmentation: mri_segment brain wm
9.0 Auto segmentation Editing: mri_edit_wm_with_aseg wm aseg wm
10.0 Filling: mri_fill wm filled
