Dear Betsy,
use fslroi to crop the neck before running bet. Just type fslroi and
you'll see instructions for how to use it.
Good luck Jesper
On 3 Nov 2010, at 21:40, Betsy Johnson wrote:
> I am analyzing some data from a site that acquires images that
> include a lot of neck tissue. I have tried BET using the -R option.
> This works well for some subjects' data, but for others, even with
> significant neck tissue still present (with a particular -f), a
> large portion of frontal lobe is cut off. Is there a good way to
> deal with this issue? Perhaps removing neck tissue first? Any ideas
> for how to do that if you think it will help?
>
> Thank you.
>
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