> I have a question regarding the re-orientation of a lesion mask created
> in MRIcro.
>
> 1) I have created a lesion mask in MRIcro from a high-resolution T1.
> (exported as smoothed Analyze image)
>
> 2) I changed the orientation of the T1 from the display window in
> SPM2. (slight pitch (.2 radians) and set origin to the AC)
>
> The lesion mask and T1 now have different orientations. Should I apply
> the same origin and rotations to the lesion mask? I tried this and the
> normalization routine failed, saying the images were not in the same
> orientation.
Make sure they are in alignment (using the Check Reg button). Once you are
happy with this, then you can reslice the lesion mask to match the source
image. You can do this with the reslice only via the Coregister button.
Best regards,
-John
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