Hi Dana, what's the bright stuff out near the pial surface? Is it dura? It's hard to tell from just a single slice. If it is, then you could try erasing it. Looks like there were also segmentation/topology fixing errors in the right superior temporal gyrus, which you could fix. Finally, you can try putting some control points near the base of some off the wm strands in the left temporal white matter.
cheers Bruce On Tue, 17 Nov 2009, Dana W. Moore wrote: > Hi everyone, > > I have an image in which the pial surface left out portions of the cortex > (see left temporal lobe below). I am not sure how to go about editing this. > I tried adding control points to the brainmask.mgz volume and running > -autorecon2-cp -autorecon3, but the result seems unchanged (see control > points in picture below). Did I do something wrong? The edit voxels tool I > believe would help if the problem was that these voxels had been removed > during skull-stripping, but this is not the case--they were just excluded > from the pial boundary. > > Thanks, > Dana > > Emacs! > > > > Dana W. Moore, Ph.D. > Neuropsychology Fellow > Cornell Neuropsychology Service > Weill Medical College of Cornell University > New York Presbyterian Hospital > Department of Neurology & Neuroscience > 428 East 72nd Street, Suite 500 > New York, NY 10021 > Phone: 212-746-2823 > Fax: 212-746-5584 > Email: dwm2...@med.cornell.edu > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
