Normalization Templates

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Normalization Templates

The templates for the 3 probability maps normalization are expected to include tissue probability maps for grey matter, white matter and CSF, arranged in a dynamic series. If such a template has been prepared by the user, it can be loaded with the REF Load button. Alternatively, a standard normalization template can be loaded with the button indicated below. A list will be shown, which corresponds to the selected species.


HUMAN Normalization Templates

The following brain probability map templates are provided for the HUMAN species.


MR (G+W+F Probability)

Brain template consisting of probability maps of SPM8 for Grey Matter, White Matter and CSF arranged as three frames in a dynamic series.

MR (G+W+F Probability)
(Clinical Toolbox)

Brain template of an older population created from 50 healthy individuals (mean 73 years). Developed for the SPM8 Clinical Toolbox by Rorden et al [10]. Note that although the anatomy is in the MNI space, the grey matter is thinner and the ventricles larger, so that the standard AAL and Hammers VOIs appear too large. Intersection with the grey probability map (as in PNEURO) should be used for trimming those VOIs.

RAT Normalization Templates

When the RAT species is selected, there is only one template listed


It corresponds to the Wistar Rat (Tohoku) atlas which was developed by Valdes-Hernandez et al [1] using 7T T2-MRIs from 30 Wistar rats. Please refer to the atlas description in the PMOD Base Functionality User Guide.