Hi Steve,
the initial flirt registration process went fine, so I don't think
that the problem is here. What does FIRST use to deal with noise and
inhomogeneity?
Would you recommend to use SUSAN prior to FIRST?
Thanks, Michael
On 13-Feb-09, at 1:09 AM, Steve Smith wrote:
> I would start by checking whether the initial FLIRT-based registration
> has worked successfully - this is likely the cause of the problem -
> and if so then tweak the registrations.
> Cheers.
>
>
> On 13 Feb 2009, at 03:51, Michael Scheel wrote:
>
>> Dear fsl experts,
>>
>> i am using FIRST to segment the Hippocampus in a T1 dataset of 84
>> different volumes. In some cases FIRST does an excellent job and in
>> some cases it's just really awfully wrong - the position of the
>> hippocampus is getting estimated deep in white matter. I was
>> wondering how I could improve the results, e.g. Noise reduction of
>> the original T1 (maybe with SUSAN) or correct for intensity
>> inhomogeneity how it is done in FAST.
>> Or are these steps included in the FIRST script?
>>
>> Thanks a lot, Michael
>>
>
>
> ---------------------------------------------------------------------------
> Stephen M. Smith, Professor of Biomedical Engineering
> Associate Director, Oxford University FMRIB Centre
>
> FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK
> +44 (0) 1865 222726 (fax 222717)
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