Hi,
I'm not sure what to suggest without seeing the images.
Is the registration sufficiently accurate?
If not then try working on that.
Does the non-boundary corrected image cover all of the caudate?
If so then some other option for boundary correction might work.
If you still can't get a good solution then send us the data (see the Support page in the website for details) and we'll have a look.
All the best,
Mark
On 22 Jan 2013, at 17:04, Miguel Burgaleta <[log in to unmask]> wrote:
>
> Hi FSLers,
>
> I think this one is for Mark.
>
> I usually get stunning subcortical segmentations with FIRST, with one exception: the right (and sometimes, left) caudate nucleus. This happens consistently to me across data sets. When I overlay the fast_firstseg.nii.gz over the subject's T1, I often see that an anterosuperior segment of the structure is excluded. I can see this in aprox 15% of the subjects.
>
> This is what I've tried so far:
> - Changing the number of modes. I tried 20, 100, 150 and 200.
> - Disabling boundary correction.
> - Disabling the intref option.
>
> None of these worked (although increasing the number of modes had a small positive impact). I would really appreciate if you could give me some advice to improve these segmentations.
>
> Thanks in advance,
> Miguel
>
>
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