Probability Maps Normalization

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Probability Maps Normalization

Two probability maps normalization are implemented in PMOD:

1.3 Probability Maps Normalization (SPM8)

2.6 Probability Maps Normalization (SPM12)

They are described separately in the next two section.

Human Probability Maps Templates

The probability maps template are in niftii format. They can be loaded as Reference by Autodetect from the PMOD installation directory D:/Pmod4.2/resources/templates/normalization/tpm/ . Select the tpm folder after activation of the brain picture_7565 shortcut button in the loading interface as illustrated below:



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


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.


Brain template consisting of  6 probability maps of SPM12 at 1.5mm resolution.

In addition to the probability maps of grey matter, white matter and CSF it uses probability maps of bone, soft tissue and air/background.


Brain template consisting of 6 probability maps of SPM12 at 2.0 mm resolution.

RAT Probability Maps Templates

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. It is available for loading by Autodetect via D:/Pmod4.2/resources/templates/voitemplates/Wistar Rat (Tohoku)/normalization/tpm/ as illustrated below:


The Rat brain templates consist of probability maps for Grey Matter, White Matter and CSF arranged as three frames in a dynamic series.