Ryan, Yes, you can use your old data with qdec. Just copy or link the 'fsaverage' subject to your SUBJECTS_DIR, and run recon-all -qcache -s <subj> on each subject. That maps your thickness data to the fsaverage surface at various smoothing levels, and is the primary input to qdec's mri_glmfit instantiation.
Nick On Wed, 2008-11-19 at 13:12 -0500, Bruce Fischl wrote: > Hi Ryan, > > if all you want to do is run qdec you can just run a very small part of > recon-all (-qcache I think), then you should be all set. Nick can verify. > > cheers, > Bruce > On > Wed, 19 Nov 2008, Ryan Scotton wrote: > > > Hi Bruce, > > > > My team has recently begun planning for data analysis after completing the > > overwhelming majority of our FreeSurfer runs and manual edits. However, it > > came to my attention that we do not currently have Qdec installed on our > > system...I realized that this is because we were using a very outdated > > version of FreeSurfer (3.0.4) that did not include Qdec. We have since > > downloaded the newest version so that we can begin data analysis, but this > > raises a bigger question: is it necessary for us to rerun FreeSurfer on all > > of our subjects (250+) if we are ONLY concerned with the white matter/grey > > matter surfaces and cortical thickness measurements? If not, spectacular. > > If so, is there only a small portion of the recon-all stream that we could > > run so that we could take care of this problem as fast as possible? > > > > Thanks! > > Ryan > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
