That will go to mni305 space. Is that the same as collin space? In
general, you can just:
bbregister --init-fsl --mov collinsbrain.nii --s $subject --t1 --reg
reg.$subject-to-collin.dat
where $subject is the name of your subject. Then
mri_vol2vol --reg reg.subject-to-collin.dat --targ
$SUBJECTS_DIR/$subject/mri/brainmask.mgz --mov collinsbrain.nii --inv
--o subject-in-collin.nii --interp nearest
Bruce Fischl wrote:
> mri_convert -at <tal.xfm> <in volume> <out volume>
>
> make sure you use -rt nearest for the sagmentation volume to avoid
> trilinear interpolation. <tal.xfm> should be the talairach.xfm in the
> subject's transforms dir.
>
> cheers
> Bruce
>
> On Wed, 21 Oct 2009, Gabriel Go.Es. wrote:
>
>>
>>
>> Hello
>>
>>
>> i have a question
>> i want to convert an MRI subject (brainmask.mgz in talairach apace)
>> and a mask of subcortical structure of the same subject, from
>> freesurfer to MNI colins space to work with SPM5, how can i make it?
>>
>>
>>
>> and in fact i need to make this transformation to a set of subjects.
>>
>> any help will be so appreciated
>>
>>
>>
>> Best Regards
>>
>> Gabriel
>>
>>
>>
>>
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Douglas N. Greve, Ph.D.
MGH-NMR Center
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