If you can get the AAL labels onto the surface, then the surface-based registration in mri_label2label would be best. doug
On 10/24/2012 07:01 AM, Garikoitz Lerma-Usabiaga wrote: > Hi! > Well, as far as I know: > - both are MNI standards > ---- Colin27 is the MNI Colin27 single subject standard > ---- fsaverage is MNI305 > > My problem with fsaverage was that I couldn't use the transformations > made with the registration matrix after spmregister or bbregister, but > I understand that it depends on the application. This is the reason I > used the alternative way through Colin27 (since both are the same > brain, one in 2mm and the other in 1mm, the registration matrix was > almost 1). > > Saying that, I understand that if you want the AAL .labels in > fsaverage, you always could use mri_label2label in order to transform > every label to fsaverage. > > I don't know what is the best method, maybe some expert in the list > will be able to confirm this step, but it is definitely what I would > do. If you are thinking using qdec or some other tool with fsaverage, > I understand that you could always create your own average and > transform the data there or create the data with mri_surf2surf for > Colin27 (this is going to be our approach). > > hope this helps! > Gari > > On Tue, Oct 23, 2012 at 7:15 PM, MCLAREN, Donald > <mclaren.don...@gmail.com <mailto:mclaren.don...@gmail.com>> wrote: > > How does the Colin 27 space differ from MNI space in terms of > freesurfer? Ideally, I'd want them to be useable with the standard FS > Average surface that is in MNI space. > > Best Regards, Donald McLaren > ================= > D.G. McLaren, Ph.D. > Research Fellow, Department of Neurology, Massachusetts General > Hospital and > Harvard Medical School > Postdoctoral Research Fellow, GRECC, Bedford VA > Website: http://www.martinos.org/~mclaren > <http://www.martinos.org/%7Emclaren> > Office: (773) 406-2464 > ===================== > This e-mail contains CONFIDENTIAL INFORMATION which may contain > PROTECTED > HEALTHCARE INFORMATION and may also be LEGALLY PRIVILEGED and which is > intended only for the use of the individual or entity named above. > If the > reader of the e-mail is not the intended recipient or the employee > or agent > responsible for delivering it to the intended recipient, you are > hereby > notified that you are in possession of confidential and privileged > information. Any unauthorized use, disclosure, copying or the > taking of any > action in reliance on the contents of this information is strictly > prohibited and may be unlawful. If you have received this e-mail > unintentionally, please immediately notify the sender via > telephone at (773) > 406-2464 or email. > > > On Tue, Oct 23, 2012 at 7:37 AM, Garikoitz Lerma-Usabiaga > <gariko...@gmail.com <mailto:gariko...@gmail.com>> wrote: > > Hi Donald and everybody, > > I created AAL .mgh and .label-s in FS Colin27 space, if anybody is > > interested please drop me a line. > > > > best regards! > > Gari > > > > On Thu, Jul 12, 2012 at 11:12 PM, MCLAREN, Donald > <mclaren.don...@gmail.com <mailto:mclaren.don...@gmail.com>> > > wrote: > >> > >> Has anyone created an AAL label file for Freesurfer? I've done some > >> ROI analysis using AAL regions and want to display regional > values on > >> the freesurfer surface. > >> > >> Best Regards, Donald McLaren > >> ================= > >> D.G. McLaren, Ph.D. > >> Research Fellow, Department of Neurology, Massachusetts General > Hospital > >> and > >> Harvard Medical School > >> Postdoctoral Research Fellow, GRECC, Bedford VA > >> Website: http://www.martinos.org/~mclaren > <http://www.martinos.org/%7Emclaren> > >> Office: (773) 406-2464 > >> ===================== > >> This e-mail contains CONFIDENTIAL INFORMATION which may contain > PROTECTED > >> HEALTHCARE INFORMATION and may also be LEGALLY PRIVILEGED and > which is > >> intended only for the use of the individual or entity named > above. If the > >> reader of the e-mail is not the intended recipient or the > employee or > >> agent > >> responsible for delivering it to the intended recipient, you > are hereby > >> notified that you are in possession of confidential and privileged > >> information. Any unauthorized use, disclosure, copying or the > taking of > >> any > >> action in reliance on the contents of this information is strictly > >> prohibited and may be unlawful. If you have received this e-mail > >> unintentionally, please immediately notify the sender via > telephone at > >> (773) > >> 406-2464 or email. > >> _______________________________________________ > >> 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 mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@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 _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
