try this command instead
mri_vol2vol --mov $FSLDIR/data/standard/MNI152_T1_1mm.nii.gz \ --targ aseg.mgz --inv --reg transforms/reg.mni152.1mm.dat --o asegmni152.nii.gz
On 11/04/2013 04:37 PM, Roderick McColl wrote:
I am obviously using mri_vol2vol incorrectly but I'm stumped.
Goal is to get the $SUBJECTS/fsaverage/mri/aseg.mgz file into the FSL MNI152 space to do some fslmaths.
From looking around it seemed the command to accomplish this is (inside $SUBJECTS/fsaverage/mri)
mri_vol2vol --targ $FSLDIR/data/standard/MNI152_T1_1mm.nii.gz \ --mov aseg.mgz --reg transforms/reg.mni152.1mm.dat --o asegmni152.nii.gz
which does execute but if I load asegmni152.nii.gz into fslview all of the orthogonal views are upside down.
There is something missing regarding the co-ordinate system but I'm not sure what.
Can anyone point me in the right direction?
Thanks
-roddy
UT Southwestern Medical Center The future of medicine, today.
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