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The ANTS (Advance Normalization Tools) have been extensively used for many image processing tasks, as described in the overview article by Tustison et al. The SyN algorithm has been proven to be a top performer in the registration of brain, lung and cardiac images.
PMOD has ported the SyN algorithm to Java in order to make it portable and embed it fully into the software framework. PMOD users can now take advantage of an integrated solution, rather than having to bother with command scripts with a big number of options.
A list of predefined brain templates based on species selection is available in a similar manner like for the Template based normalization matching algorithm.