If it is, you can try running the skullstrip step a second time. On Jul 20, 2011, at 7:14 PM, Bruce Fischl <fis...@nmr.mgh.harvard.edu> wrote:
> Hi Michael, > > if cerebellar gray matter is not something you are terribly interested in > quantifying then you are fine. > > cheers > Bruce > > On Wed, 20 Jul 2011, Murray, Michael wrote: > >> Hi all, >> >> We've using version 5.1 to conduct a longitudinal study involving over 150 >> subjects with up to three time points apiece, and we're having >> some issues with regards to aseg in the areas around the cerebellum. >> Attached is an image of the problem - some dura or something else is >> being classified as cerebellum. It's particularly troubling because this >> issue is present in most of our images, but to varying degrees. >> We've tried adjusting the watershed parameters (using multistrip) as well as >> using gcut, but neither method was effective in removing the >> offending voxels. >> >> It seems like our only other option is to manually edit the brainmask.mgz, >> but with so many subjects and time points, we're wondering if >> there is another automated fix that we haven't tried. Otherwise, is this >> something that we'll have to manually fix, or can it be left >> alone? >> >> Thank you, >> >> Michael Murray >> > _______________________________________________ > 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 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.
