Have you tried some of the other options - particularly the -R option?
Also, if there is noticeable bias field then the -B option might be
All the best,
On 25 Aug 2010, at 23:18, Subscribe Fsl Anonymous wrote:
> I am trying to use the BET brain extraction on a T1 weighted image.
> I have set the parameters as high as they will go (to 1.0 and 1.0);
> however, while the bottom of the brain is stripped well, the BET
> extraction strips only the scalp of the top of the brain, leaving
> the skull. What can I do to obtain a complete brain extraction?