Hi Cyrus, this may or may not be a problem. The cortical label in aseg.mgz is not used for this reason. Usually, the surface-based method will exclude the dura in these situations. Are the surfaces accurate or are they including dura as well? BTW, you should not be editing the aparc+aseg.mgz. doug
On 08/13/2012 01:04 PM, Sarosh, Cyrus wrote: > > Hello FreeSurfer Users, > > I looked for a possible solution to my problem in the Mail Archive and found > this article referring to almost the exact same problem I am having: > http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg06314.html. > Basically,pieces of the subarachnoid space/pia mater/arachnoid/dura > mater/skull > are being segmented as the cortex in certain slices and this occurs when it > is physically adjacent to the gray matter. Besides this point everything else > seems to be running smooth. > In the related article I found that this may be caused by the MR parameters > so I will give you the acquisition information that I know. > Theacquisitions are SPGRs, taken on either a GE 3T or 1.5T and the resolution > is 1mm isotropic. Any solutions besides going through each series slice by > slice and making corrections would be greatly appreciated. > > Thanks, > > Cyrus > > ********************************************************** > Electronic Mail is not secure, may not be read every day, and should > not be used for urgent or sensitive issues > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html _______________________________________________ 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.
