Sorry for asking same question here again. I asked Dung before holiday about the criteria of good registration of fMRI and thickness map. http://www.mail-archive.com/[email protected]/msg08913.html <http://www.mail-archive.com/[email protected]/msg08913.html> I paste my question again: what is the best registration of example_func and orig.mgz? In another word, what should I check besides things in the FS tutorial when I check/modify the registration in tkregister2? Is there golden reference points I can use?
I will appreciate if Dave could give more explanation or references of "beautiful match between functional and structural images". Thank you in advance. Xin Wang ________________________________ From: Doug Greve [mailto:[email protected]] Sent: Mon 1/5/2009 2:03 PM To: Dave Brohawn Cc: [email protected]; [email protected] Subject: Re: [Freesurfer] Problem with post-spm registered data Hi Dave, I'm not sure where to begin with this. Can you give more info? In particular, you might look at surfer.nmr.mgh.harvard.edu/fswiki/BugReporting for ways to report issues efficiently. doug Dave Brohawn wrote: >Hello, > >Josh Roffman and I recently ran an fMRI scan. Our subject's data viewed in >tkmedit seemed to be shifted inferiorly in the coronal view by a wide >margin (an inch or so), leaving no functional activation in the top of the >cortex, even when set at an extremely low threshold. > >When running the fMRI scan, we checked our slice prescription and ensured >the area of view covered the entire cortex. We also checked the raw data >output during the scan in the viewing window, and functional activity was >present. > >After running the unpacking and recon-all processes, I ran the pre-proc >command and spm-register, and viewed the output using tkregister2. The >registered functional data matched up beautifully with the underlying >anatomy, and went right to the top of the cortex in the coronal view. > >We ran our analysis using the appropriate paradigm files (has worked >without fail for our previous subjects) and there is no functional >activity in the top inch or so of the cortex whatsoever. > >Please let me know if you have an answer to how this could have happened. > >Dave Brohawn >_______________________________________________ >Freesurfer mailing list >[email protected] >https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > > -- Douglas N. Greve, Ph.D. MGH-NMR Center [email protected] Phone Number: 617-724-2358 Fax: 617-726-7422 In order to help us help you, please follow the steps in: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
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