Hi Doug and Bruce,
Kindly, I have question regarding the difference between voxel based ( VBM/ FSL pipeline) and surface based analysis ( Freesurfer ).
 
I have two groups of subjects Group A and Group B
I ran morphometric analysis in Freesurfer ( recon-all then manual edits) to check the difference in cortical thickness between the groups. Then I used Qdec to correct the results for multiple comparisons and to visualize the significant clusters.
Then I ran VBM analysis between the groups ( the same subjects) to study the difference in gray matter volume between the groups.
 
I got significant difference between the groups in both methods but in different areas of the brain ( the significant clusters are not in the same location ).
 
What is the difference between surface based analysis and voxel based analysis technically. Is it right to get different results?
 
Thanks in advance