We want to extract a spherical ROI of cortical thickness values centered at the same Talairach coordinate for each brain in a study. Any suggestions? In the 2007 archives there is an instructive thread about declaring spherical ROIs on a volume, but I'm not clear about how we would place the initial point at the same Talairach coordinate in every participant.
Thanks, Stephen
(Looks as if the text of my original email didn't make it to the post. Here it is again:)
We want to extract a spherical ROI of cortical thickness values centered at the same Talairach coordinate for each brain in a study. Any suggestions? In the 2007 archives there is an instructive thread about declaring spherical ROIs on a volume, but I'm not clear about how we would place the initial point at the same Talairach coordinate in every participant.
Thanks, Stephen
--
Stephen Towler Graduate Student, Neuropsychology Dept. Clinical and Health Psychology
stowler@phhp.ufl.edu calendar: http://cli.gs/9nvvDL 352-273-8715 lab (Shands G078) 352-273-6015 lab (HPNP) 352-682-5231 mobile 352-273-6156 fax
Price Lab PO Box 100165 101 S. Newell Drive University of Florida Gainesville, FL 32610
On Jul 22, 2009, at 9:54 AM, Stephen Towler wrote:
Hi Stephan,
I guess you could draw the ROI in one subject at the appropriate tal coords, use mri_label2label to map it across subject using the tal xform, then sample it onto the surfaces of each subject.
cheers Bruce
On Thu, 23 Jul 2009, Stephen Towler wrote:
(Looks as if the text of my original email didn't make it to the post. Here it is again:)
We want to extract a spherical ROI of cortical thickness values centered at the same Talairach coordinate for each brain in a study. Any suggestions? In the 2007 archives there is an instructive thread about declaring spherical ROIs on a volume, but I'm not clear about how we would place the initial point at the same Talairach coordinate in every participant.
Thanks, Stephen
--
Stephen Towler Graduate Student, Neuropsychology Dept. Clinical and Health Psychology
stowler@phhp.ufl.edu calendar: http://cli.gs/9nvvDL 352-273-8715 lab (Shands G078) 352-273-6015 lab (HPNP) 352-682-5231 mobile 352-273-6156 fax
Price Lab PO Box 100165 101 S. Newell Drive University of Florida Gainesville, FL 32610
On Jul 22, 2009, at 9:54 AM, Stephen Towler wrote:
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
might be better to draw it on fsaverage and then propagate it to the other subjects, but both would work.
Bruce Fischl wrote:
Hi Stephan,
I guess you could draw the ROI in one subject at the appropriate tal coords, use mri_label2label to map it across subject using the tal xform, then sample it onto the surfaces of each subject.
cheers Bruce
On Thu, 23 Jul 2009, Stephen Towler wrote:
(Looks as if the text of my original email didn't make it to the post. Here it is again:)
We want to extract a spherical ROI of cortical thickness values centered at the same Talairach coordinate for each brain in a study. Any suggestions? In the 2007 archives there is an instructive thread about declaring spherical ROIs on a volume, but I'm not clear about how we would place the initial point at the same Talairach coordinate in every participant.
Thanks, Stephen
--
Stephen Towler Graduate Student, Neuropsychology Dept. Clinical and Health Psychology
stowler@phhp.ufl.edu calendar: http://cli.gs/9nvvDL 352-273-8715 lab (Shands G078) 352-273-6015 lab (HPNP) 352-682-5231 mobile 352-273-6156 fax
Price Lab PO Box 100165 101 S. Newell Drive University of Florida Gainesville, FL 32610
On Jul 22, 2009, at 9:54 AM, Stephen Towler wrote:
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu
-
Bruce Fischl -
Douglas N Greve -
Stephen Towler