bbregister is a program to perform within-subject, cross-modal registration using a boundary-based cost function. The registration is constrained to be 6 DOF (rigid). It is required that you have an anatomical scan of the subject that has been analyzed in freesurfer. Those using bbregister should site: Greve, D. N., and Fischl, B. (2009). "Accurate and robust brain image alignment using boundary-basedregistration." Neuroimage, 48, 63-72.

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