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Image before and after comparisons (volume processing pipeline)

volumepipelineSmall.gif

1.0 N3 intensity normalization: nu_correct_subject <subject name>

CN3Norm.jpg

2.0 Cortical intensity normalization: mri_normalize orig T1

CNorm.jpg

3.0 Cortical Talairach: talairach <subject name>

CTalairach.jpg

4.0 Cortical skull stripping: mri_watershed T1 brain

CStripping.jpg

5.0 Subcortical intensity normalization: mri_ca_normalize -mask brain nu $GCA transforms/talairach.lta norm

SCNormAndMask.jpg

6.0 Subcortical segmentation: mri_ca_label norm transforms/talairach.m3d $GCA aseg

SCSegment.jpg

7.0 Subcortical brain intensity normalization: mri_normalize norm brain

SCNormBrain.jpg

8.0 Subcortical white matter segmentation: mri_segment brain wm

SCSegmentWM.jpg

9.0 Auto segmentation Editing: mri_edit_wm_with_aseg wm aseg wm

SCSegmentEditWM.jpg

10.0 Filling: mri_fill wm filled

SCfilling.jpg

FsTutorial/VolumeProcStream (last edited 2021-09-22 11:36:27 by DevaniCordero)