Thank you for clarification, Martin! Will do so and also try registration of base >> TP1.long etc.
Does FS create registration files (.dat) for this purpose automatically? I found some *.lta files in the /mri/transfers folder of the base image but am not sure how to apply them (maybe tkregister2?) best regards, Bastian On 18 July 2014 23:00, Martin Reuter <mreu...@nmr.mgh.harvard.edu> wrote: > Hi Bastian, > > use the longitudinal base for it. Also, once your ROI is in that space > you can simply apply it in each long as they are in the same space as > the base. The registration of base >> TP1.long etc. probably only > changes results very little. > > Best, Martin > > > On 07/18/2014 10:45 AM, Bastian Cheng wrote: >> Dear Freesurfer-Experts, >> >> I am currently trying to measure Cortical Thickness of a >> Volume-defined ROI in a patient measured at 4 timepoints. >> >> Basically, I am interested in a ROI resulting from fMRI activation >> measured on Timepoint 1. >> I would then like to get thickness values in the same ROI for all >> Timepoints 1-4. >> >> I have read the instructions here: >> https://surfer.nmr.mgh.harvard.edu/fswiki/VolumeRoiCorticalThickness >> this works. >> >> now, my idea is: >> >> ROI from TP1 >> register to base image of longit. recon. ("base") >> ROI from base >> TP1.long (from long recon) >> ROI from base >> TP2.long (from long recon) >> ROI from base >> TP3 long (from long recon) >> ROI from base >> TP4.long (from long recon) >> >> OR should I simpy map my ROI to fsaverage and project it back all >> individual timepoints? >> ROI from TP1 >> register to fsaverage >> ROI from fsaverage >> TP1 (not from long recon) >> ROI from fsaverage >> TP2 (not from long recon) >> etc. >> >> I understand that registration using the long. recon is more robust... >> >> Best regards, >> Bastian >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> > > -- > Martin Reuter, Ph.D. > > Instructor in Neurology > Harvard Medical School > Assistant in Neuroscience > Dept. of Radiology, Massachusetts General Hospital > Dept. of Neurology, Massachusetts General Hospital > Research Affiliate > Computer Science and Artificial Intelligence Lab, > Dept. of Electrical Engineering and Computer Science, > Massachusetts Institute of Technology > > A.A.Martinos Center for Biomedical Imaging > 149 Thirteenth Street, Suite 2301 > Charlestown, MA 02129 > > Phone: +1-617-724-5652 > Email: > mreu...@nmr.mgh.harvard.edu > reu...@mit.edu > Web : http://reuter.mit.edu > > _______________________________________________ > 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. > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
