Hi Phoebe, are you using a talairaching procedure? If so, please check that it worked properly. If it fails, everything after it fails as well. Please also check your T1 volume by bringing it up in tkmedit. The vast majority of the white matter should have an intensity of exactly 110. If this is not the case, then the intensity normalization didn't work properly, possibly because of a talairach failure, or for some other reason. The segmentation itself usually works pretty well, so I suspect that it is one of the previous steps that is causing you problems.
cheers, Bruce -------------------------------------------------------- Bruce Fischl email: [EMAIL PROTECTED] Mass. General Hosp. NMR Center. tel:(617)-726-4897 Rm. 2328, Building 149, 13th Street fax:(617)-726-7422 Charlestown, MA 02129 USA On Sun, 28 Apr 2002, Phoebe Chan wrote: > Dear all, > > I got some problems in skull stripping and segmentation of 2 brains in > my data. I've tried to reduce the value of preflooding heights to 5 (at > 'expert preferences'), however, it seems that still lots of skull > fragments remain on the image. In addition, the white matter is not > segmented properly when I overlay the white matter volume on the T1 > volume using tkmedit. As far as I understand, the parameters in > 'wmfilter' cannot be altered. Do you know how I can correct these > problems? Your help will be very much appreciated. > > Phoebe. >
