Hi Doug,

I understand. But the end product turned out to be a much smaller brain … so I thought there is something wrong. What should I do here?

Thanks!
Daniel

-- 
Yung-Jui "Daniel" Yang, PhD
Postdoctoral Researcher
Yale Child Study Center
New Haven, CT
(203) 737-5454

On 10/1/13 6:00 PM, "Douglas N Greve" <greve@nmr.mgh.harvard.edu> wrote:


The way the software is set up, you should use mni152.register.dat with
mri_vol2surf to map mni152 volumes to the fsaverage (ie MNI305) surfaces

doug


On 10/01/2013 05:49 PM, Yang, Daniel wrote:
Hi Doug,

Just checking again, because I haven't heard from you. So the purpose
is to use mri_vol2surf is convert MNI152 to a FreeSurfer (MNI305) mgh
file. I am not sure about the correct register.dat to use. The
mni152.register.dat is for MNI305 -> MNI152 though.

I'm assuming that there exists some sort of inverse
mni152.register.dat somewhere?

Thanks!
Daniel
--
Yung-Jui "Daniel" Yang, PhD
Postdoctoral Researcher
Yale Child Study Center
New Haven, CT
(203) 737-5454

On 9/27/13 6:44 AM, "Yang, Daniel" <yung-jui.yang@yale.edu

     Thanks Doug!

     Because it maps from a MNI152 space to the FreeSurfer average
     space, do you know what register.dat I can use?

     Is it some sort of inverse mni152.register.dat?
     Thanks!
     Daniel

     --
     Yung-Jui "Daniel" Yang, PhD
     Postdoctoral Researcher
     Yale Child Study Center
     New Haven, CT
     (203) 737-5454

     On 9/26/13 12:26 PM, "Douglas N Greve" <greve@nmr.mgh.harvard.edu

         They might be sampling to different surfaces. To make sure
         they show the
         same exact thing, try mapping the data to the surface with
         mri_vol2surf
         doug
         On 09/25/2013 08:31 AM, Yang, Daniel wrote:

             Dear FreeSurfer Experts,

             I am trying to visualize fMRI activation (generated from
             fsl) on the
             fsaverage inflated surface, using mni152.register.dat.

             It's odd that I find the results to be slightly different
             between
             tksurfer and freeview. However, I made sure that I am
             using the same
             threshold...

             Judging from fslview, I think the result with freeview is
             more
             accurate -- is it due to tksurfer loading orig.mgz by
             default, and
             free view loading something else?

             Thanks!
             Daniel

             --
             Yung-Jui "Daniel" Yang, PhD
             Postdoctoral Researcher
             Yale Child Study Center
             New Haven, CT
             (203) 737-5454


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         Douglas N. Greve, Ph.D.
         MGH-NMR Center
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