Dear Group,

I am comparing normalization of lesioned T1w images across various tools (spm, fsl, ants) with different options.  

I would like to compare the similarity of the resulting images in MNI space using Normalized Mutual Information (following Dohmatob 2018).  My concern is that I'm not sure what template spm12 is normalizing to. We don't choose it as an option in the GUI.  I do not see it listed in the resulting *job.m file.  I started digging through the matlabbatch code, but there is a lot of it. I would appreciate any pointers.  

I am normalizing the brains to fsl/data/standard/MNI152_T1_2mm_brain.nii.gz when I run normalization in ants and fsl. But what am I normalizing to in spm12?

Thanks so much,

Dianne
--

Dianne Patterson, Ph.D.

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University of Arizona
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