Hi,
If you are not very familiar with FSL then I would recommend
that you go through the FSL course lecture and practical on
registration. You can access all this material through the
fslcourse website.
All the best,
Mark
On 5 Nov 2011, at 11:03, Paolo Zaffino wrote:
> 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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