Hi,
There's almost no difference in terms of accuracy, so if
you are finding things more robust by using BET first, then
go with that.
All the best,
Mark
On 10 Jan 2011, at 13:48, Mailinglisten Lifeandbrain wrote:
> Hi Mark,
>
> thanks for the quick answer. We have T1-images with quite a lot of neck. In most cases FIRST works well without prior skull stripping, but not always. If you bet the images before running FIRST I never observed any problems, so I prefer running FIRST after BET.
> But: Is there a considerable difference in the segmentation process (and in the results) if you use skull stripped images for FIRST?
>
> Thanks!
> Jan
>
> 2011/1/10 Mark Jenkinson <[log in to unmask]>
> No - the standard usage is to use the whole head image.
> However, if you have trouble with the registration step it
> can sometimes help to use BET. Try it without first and
> see if that works.
>
> All the best,
> Mark
>
>
> On 10 Jan 2011, at 08:52, Mailinglisten Lifeandbrain wrote:
>
> > Dear FSL-Team,
> >
> > is it recommended to run BET before FIRST?
> >
> > Thanks!
> > Jan
>
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