Hi all,
We have used mrivol2surf with the output of bbregister to transform an individual subject's fmri data into the coordinates of the anatomical used to generate that subject's surface. We are happy with the accuracy of this registration. However, we are stuck because as far as we know bbregister only works in one direction, fmri to anatomical. We have a region of interest defined as a sphere around a coordinate in Talairach space. What we need to do is to translate that region of interest into the space of an individual subject's fmri data. How can Freesurfer do this?
Any suggestions would be greatly appreciated!!
Best,
Elise and Kathleen ***************************************************** Annelise Dickinson Post-Bac IRTA Laboratory of Brain and Cognition, NIMH/NIH/DHHS Building 10, Room 4C212 10 CENTER DR MSC 1366 BETHESDA MD 20892-1366 ***************************************************** Phone: (301) 435-4941 FAX: (301) 402-0921 E-Mail : dickinsona@mail.nih.gov
We have another question that is very related, so I will ask that at the same time:
We have a region of interest defined on an individual subject's surface. How can Freesurfer translate that ROI into the coordinates of the original fmri data? It's clear to us how to get from fmri to the surface, but not the other way around.
Thanks, Kathleen and Elise
On 6/9/10 12:49 PM, "Dickinson, Annelise (NIH/NIMH) [F]" dickinsona@mail.nih.gov wrote:
Hi all,
We have used mrivol2surf with the output of bbregister to transform an individual subject's fmri data into the coordinates of the anatomical used to generate that subject's surface. We are happy with the accuracy of this registration. However, we are stuck because as far as we know bbregister only works in one direction, fmri to anatomical. We have a region of interest defined as a sphere around a coordinate in Talairach space. What we need to do is to translate that region of interest into the space of an individual subject's fmri data. How can Freesurfer do this?
Any suggestions would be greatly appreciated!!
Best,
Elise and Kathleen ***************************************************** Annelise Dickinson Post-Bac IRTA Laboratory of Brain and Cognition, NIMH/NIH/DHHS Building 10, Room 4C212 10 CENTER DR MSC 1366 BETHESDA MD 20892-1366 ***************************************************** Phone: (301) 435-4941 FAX: (301) 402-0921 E-Mail : dickinsona@mail.nih.gov
You can use mri_label2vol. It takes the same registration matrix that you used to get to the surface.
doug
On Wed, 9 Jun 2010, Hansen, Kathleen (NIH/NIMH) [F] wrote:
We have another question that is very related, so I will ask that at the same time:
We have a region of interest defined on an individual subject's surface. How can Freesurfer translate that ROI into the coordinates of the original fmri data? It's clear to us how to get from fmri to the surface, but not the other way around.
Thanks, Kathleen and Elise
On 6/9/10 12:49 PM, "Dickinson, Annelise (NIH/NIMH) [F]" dickinsona@mail.nih.gov wrote:
Hi all,
We have used mrivol2surf with the output of bbregister to transform an individual subject's fmri data into the coordinates of the anatomical used to generate that subject's surface. We are happy with the accuracy of this registration. However, we are stuck because as far as we know bbregister only works in one direction, fmri to anatomical. We have a region of interest defined as a sphere around a coordinate in Talairach space. What we need to do is to translate that region of interest into the space of an individual subject's fmri data. How can Freesurfer do this?
Any suggestions would be greatly appreciated!!
Best,
Elise and Kathleen
Annelise Dickinson Post-Bac IRTA Laboratory of Brain and Cognition, NIMH/NIH/DHHS Building 10, Room 4C212 10 CENTER DR MSC 1366 BETHESDA MD 20892-1366
Phone: (301) 435-4941 FAX: (301) 402-0921 E-Mail : dickinsona@mail.nih.gov
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
You need a registration between the space in which your label is defined and the fmri. The problem is that there are many definitions of what "Talairach space" means. Can you get your label into the fsaverage space? Ie, look at it with tkmedit using fsaverage as the subject?
doug
On Wed, 9 Jun 2010, Dickinson, Annelise (NIH/NIMH) [F] wrote:
Hi all,
We have used mrivol2surf with the output of bbregister to transform an individual subject's fmri data into the coordinates of the anatomical used to generate that subject's surface. We are happy with the accuracy of this registration. However, we are stuck because as far as we know bbregister only works in one direction, fmri to anatomical. We have a region of interest defined as a sphere around a coordinate in Talairach space. What we need to do is to translate that region of interest into the space of an individual subject's fmri data. How can Freesurfer do this?
Any suggestions would be greatly appreciated!!
Best,
Elise and Kathleen
Annelise Dickinson Post-Bac IRTA Laboratory of Brain and Cognition, NIMH/NIH/DHHS Building 10, Room 4C212 10 CENTER DR MSC 1366 BETHESDA MD 20892-1366
Phone: (301) 435-4941 FAX: (301) 402-0921 E-Mail : dickinsona@mail.nih.gov
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu
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Dickinson, Annelise (NIH/NIMH) [F] -
Doug Greve -
Hansen, Kathleen (NIH/NIMH) [F]