Hi Bruce, Thanks for the fast response! I indeed found them in other stats files. What is the difference between these files? I assume they are based on different atlases? I saw that there are some slight differences between the numbers in different files for the same structures, so how do I know which file I should use?
Thank you so much for your help! Best, Marja On Fri, May 27, 2016 at 11:00 PM, Bruce Fischl <fis...@nmr.mgh.harvard.edu> wrote: > it depends what they are. You can look in the other stats files to see if > they are there (we include a couple of cortical parcellations). If they > aren't, you can draw them yourself on fsaverage and map them to all your > subjects using our spherical transform > > > cheers > Bruce > On Fri, 27 May 2016, Marja Caverlé wrote: > > Hi Bruce, >> >> Thanks, that indeed includes most of the roi's I want to include. What if >> there are some area's that are not in that list? Is there a way of adding >> areas? >> >> Best, >> >> Marja >> >> On Fri, May 27, 2016 at 10:26 PM, Bruce Fischl < >> fis...@nmr.mgh.harvard.edu> >> wrote: >> Hi Marja >> >> what ROI do you mean? We generate lots of them, and tabulate the >> thickness within each one. Look for example in <subject >> id>/stats/aparc.stats >> >> cheers >> Bruce >> On Fri, 27 May 2016, Marja Caverlé wrote: >> >> Hi all, >> >> So I ran a recon-all -all on one of my subjects, and >> it completed without >> errors (according to the log). Now I would like to >> get cortical thickness >> numbers from this subject, but when I open the >> tutorial regarding this, it >> says it assumes that you already have a roi mask and >> a T1 in the same >> coordinate space as the roi mask. >> >> Did the recon -all -all by any chance create these >> files? And if not, how >> can I? >> >> So basically the question is; what do I have to do >> after recon -all -all in >> order to get cortical thickness numbers in roi's of >> my subjects? >> >> Thanks in advance. >> >> Marja >> >> >> _______________________________________________ >> 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 > > > 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. > >
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