Hi,
I wonder if you could help with a basic question for preproc-sess in Version 5.2.0.
The flag "-surface subject hemi": what should be the entry to "subject?" The tutorial says fsaverage, but for first-level analysis, should it match subjectname? Or should it always be fsaverage?
If it needs to match subjectname, then this command cannot be run in a batch (because different subjects have different input to that line), is that true?
Thank you.
-Yuhong
It should either be fsaverage, or self, or an average subject you have created. The fMRI analysis is done such that the raw data are resampled into the fsaverage space (unless you use self) and processed there in anticipation of doing group analysis. doug
On 03/26/2013 10:37 AM, Y.V. Jiang wrote:
Hi,
I wonder if you could help with a basic question for preproc-sess in Version 5.2.0.
The flag "-surface subject hemi": what should be the entry to "subject?" The tutorial says fsaverage, but for first-level analysis, should it match subjectname? Or should it always be fsaverage?
If it needs to match subjectname, then this command cannot be run in a batch (because different subjects have different input to that line), is that true?
Thank you.
-Yuhong
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Thanks Doug, this makes sense. What about retinotopic mapping? Should I use fsaverage or self?
-Yuhong
On Tue, Mar 26, 2013 at 10:56 AM, Douglas N Greve <greve@nmr.mgh.harvard.edu
wrote:
It should either be fsaverage, or self, or an average subject you have created. The fMRI analysis is done such that the raw data are resampled into the fsaverage space (unless you use self) and processed there in anticipation of doing group analysis. doug
On 03/26/2013 10:37 AM, Y.V. Jiang wrote:
Hi,
I wonder if you could help with a basic question for preproc-sess in Version 5.2.0.
The flag "-surface subject hemi": what should be the entry to "subject?" The tutorial says fsaverage, but for first-level analysis, should it match subjectname? Or should it always be fsaverage?
If it needs to match subjectname, then this command cannot be run in a batch (because different subjects have different input to that line), is that true?
Thank you.
-Yuhong
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- 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 Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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.
Use self for retinotopy doug
On 03/26/2013 12:24 PM, Y.V. Jiang wrote:
Thanks Doug, this makes sense. What about retinotopic mapping? Should I use fsaverage or self?
-Yuhong
On Tue, Mar 26, 2013 at 10:56 AM, Douglas N Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> wrote:
It should either be fsaverage, or self, or an average subject you have created. The fMRI analysis is done such that the raw data are resampled into the fsaverage space (unless you use self) and processed there in anticipation of doing group analysis. doug On 03/26/2013 10:37 AM, Y.V. Jiang wrote: > Hi, > > I wonder if you could help with a basic question for preproc-sess in > Version 5.2.0. > > The flag "-surface subject hemi": what should be the entry to > "subject?" The tutorial says fsaverage, but for first-level analysis, > should it match subjectname? Or should it always be fsaverage? > > If it needs to match subjectname, then this command cannot be run in a > batch (because different subjects have different input to that line), > is that true? > > Thank you. > > -Yuhong > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu> Phone Number: 617-724-2358 <tel:617-724-2358> Fax: 617-726-7422 <tel: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> Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer 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@nmr.mgh.harvard.edu
-
Douglas N Greve -
Y.V. Jiang