Thanks Doug.
You mean by subject to define the subject in the fs_tal2surf which by default is 'subj': FreeSurfer subject % {default = 'fsaverage'} to be subj = cvs_avg35?
Thanks. Antonella
________________________________ From: Douglas N Greve greve@nmr.mgh.harvard.edu To: Antonella Kis atorok9@yahoo.com; freesurfer freesurfer@nmr.mgh.harvard.edu Sent: Thursday, March 8, 2012 12:06 PM Subject: Re: Annotation question
Hi Antonella, use cvs_avg35 as the subject and ?h.aparc.annot for the annotation.
Antonella Kis wrote:
Hi Doug,
Sorry I bother again I just want to ask you an advice. I was running the code which was sent to me by Don:
vals = fs_tal2surf([-16.92 -29.55 34.44]); ind_lh = find(vals{1}); ind_rh = find(vals{2});
[lh_roinums,lh_roilabels] = fs_read_annotation(fname_annot_lh); [rh_roinums,rh_roilabels] = fs_read_annotation(fname_annot_rh);
if ~isempty(ind_lh) roinum = lh_roinums(ind_lh); roilabel = lh_roilabels{roinum}; elseif ~isempty(ind_rh) roinum = rh_roinums(ind_rh); roilabel = rh_roilabels{roinum}; end
and it works perfect but I am a little confused regarding my data.
I am looking to find the nearst cortical label for my clusters
for the DTI data:FA, MD,RD,AD. I registered this data on the CVS space so I wonder if I should use for the fname_annot_lh and fname_annot_rh the annotations from the CVS space not from fsaverage. I tried both and got different locations for my clusters.
Can you please advise me?
Many thansk. Antonella
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html
The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
I think so, although I don't know how Don's program actually works. doug
Antonella Kis wrote:
Thanks Doug.
You mean by subject to define the subject in the fs_tal2surf which by default is 'subj': FreeSurfer subject % {default = 'fsaverage'} to be subj = cvs_avg35?
Thanks. Antonella
*From:* Douglas N Greve greve@nmr.mgh.harvard.edu *To:* Antonella Kis atorok9@yahoo.com; freesurfer freesurfer@nmr.mgh.harvard.edu *Sent:* Thursday, March 8, 2012 12:06 PM *Subject:* Re: Annotation question
Hi Antonella, use cvs_avg35 as the subject and ?h.aparc.annot for the annotation.
Antonella Kis wrote:
Hi Doug,
Sorry I bother again I just want to ask you an advice. I was running
the code which was sent to me by Don:
vals = fs_tal2surf([-16.92 -29.55 34.44]); ind_lh = find(vals{1}); ind_rh = find(vals{2});
[lh_roinums,lh_roilabels] = fs_read_annotation(fname_annot_lh); [rh_roinums,rh_roilabels] = fs_read_annotation(fname_annot_rh);
if ~isempty(ind_lh) roinum = lh_roinums(ind_lh); roilabel = lh_roilabels{roinum}; elseif ~isempty(ind_rh) roinum = rh_roinums(ind_rh); roilabel = rh_roilabels{roinum}; end
and it works perfect but I am a little confused regarding my data.
I am looking to find the nearst cortical label for my clusters for
the DTI data:FA, MD,RD,AD. I registered this data on the CVS space so I wonder if I should use for the fname_annot_lh and fname_annot_rh the annotations from the CVS space not from fsaverage. I tried both and got different locations for my clusters.
Can you please advise me?
Many thansk. Antonella
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html
The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu
-
Antonella Kis -
Douglas N Greve