Dear Hyeong,
I finally have time to review in details this problem that you exposed, sorry for the long delay.
After checking in details the procedure I’m using to calculate those MNI coordinates on the Colin27 brain, I found indeed some problems relative to the very definition of what the “MNI coordinates” are. I’m going to fix them with the help of Prof Louis Collins later this week. I also understood that there are some concerning issues with the way SPM/Mango generate those “MNI coordinates”, we are probably both wrong.
In the meantime, I think there are already a few confusing points we can clarify:
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The template brain in Brainstorm is currently based on FreeSurfer, not BrainVISA. Please update your Brainstorm version.
Then create a new protocol to see the new defaults, or use the popup menus Use template > Colin27. -
[removed because incorrect]
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To help us understand where these differences are coming from, could you please do the following:
- Report the MNI coordinates of the AC and PC points you get in Mango and SPM (definitions here: http://neuroimage.usc.edu/brainstorm/CoordinateSystems)
- Post a screen capture of the points (0,0,0) and (0,-28,0) in Mango and SPM.
Thanks,
Francois