what space is your VBM map in?
doug
On 06/05/2013 11:06 AM, Ozranov-Palchik, Ola wrote:
Hi Doug,
Thank you for your response! I am still a bit confused about the vol2surf command. I have a volumetric mask with voxels of interest based on a VBM analysis in SPM. I would like to extract the cortical thickness measurements based on these voxels. I am not clear what specifications I need to include when using vol2surf. For example, what do I use as my registration matrix?
Thank you for your help!
Ola
Ola Ozranov-Palchik M.S.
Research Coordinator, Gaab Lab
Laboratories of Cognitive Neuroscience
Children's Hospital Boston
1 Autumn Street, Mailbox # 713
Boston, MA 02115
olga.ozranov@childrens.harvard.edu
phone: (617) 334-5046
main lab: (617) 355-0400
fax: (617) 730-0518
http://www.childrenshospital.org/research/gaablab
-----Original Message-----
From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve
Sent: Tuesday, June 04, 2013 1:48 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] SPM ROI to Cortical Thickness
Make sure that your SPM volume is registered to the anatomical, then use mri_vol2surf to map the volume to the surface, then mri_segstats to extract the mean of the thickness
doug
On 06/04/2013 01:45 PM, Ozranov-Palchik, Ola wrote:
main lab: (617) 355-0400
Dear FreeSurfer Experts,
I was wondering if anyone can advise on the best way to use an ROI mask created in SPM (XjView) to extract cortical thickness values in freesurfer.
Thank you in advance for your help!
Ola
Ola Ozranov-Palchik M.S.
Research Coordinator, Gaab Lab
Laboratories of Cognitive Neuroscience
Children's Hospital Boston
1 Autumn Street, Mailbox # 713
Boston, MA 02115
olga.ozranov@childrens.harvard.edu
<mailto:olga.ozranov@childrens.harvard.edu>
phone: (617) 334-5046
main lab: (617) 355-0400
fax: (617) 730-0518
http://www.childrenshospital.org/research/gaablab
--
Douglas N. Greve, Ph.D.
MGH-NMR Center
greve@nmr.mgh.harvard.edu
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