Dear Mark,
I didn't know that there is another tool for the registration.
I will use flirt!
Thank you very much for your advice.
Regards.
Paolo
Il 03/11/2011 20:37, Mark Jenkinson ha scritto:
> Dear Paolo,
>
> Why do you want to run fnirt between these images?
> Are they from the same subject?
> If so, then you should run flirt instead (which can do mutual info).
> If not, do you have a T1 image from each subject? In that case
> you can combine within-subject between DTI and T1 and between-
> subject (with fnirt) between T1's.
>
> All the best,
> Mark
>
>
> On 3 Nov 2011, at 18:04, Paolo Zaffino wrote:
>
>> Dear FSL users/developers,
>> I am new of FSL and I am trying to register an MRI diffusion weigthed on a MRI T1 weighted.
>> I am using fnirt but I read in the documentation that the only cost function avaible is the sum of squared differences.
>> In my opinion the mutual information (in theory) should be the best choise in this case...Am I wrong?
>> Is there a way to use a different cost function instead of the SSD?
>>
>> Thank you very much.
>> Regards.
>>
>> Paolo
>>
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