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MINC - mni_autoreg
A highly customisable Linear and Non-Linear registration Package
In both diagnostic and research applications, the interpretation of magnetic resonance (MR) images of the human brain is facilitated when different data sets can be compared by visual inspection of equivalent anatomical planes. Quantitative analysis with pre-defined atlas templates often requires the initial alignment of atlas and image planes. Unfortunately, the axial planes acquired during separate scanning sessions are often different in their relative position and orientation, and these slices are not coplanar with those in the atlas. A completely automatic method has been developed, based on multi-scale, three dimensional (3D) cross-correlation, to register a given volumetric data set to an average MRI brain (n > 300) aligned with the Talairach stereotaxic coordinate system. Once the data set is resampled by the transformation recovered by the algorithm, atlas slices can be directly super-imposed on the corresponding slices of the resampled volume (see below). The use of such a standardized space also allows the direct comparison, voxel-to-voxel, of two or more data sets brought into stereotaxic space.

A Perl script (mritotal) implements the multi-resolution fitting strategy that has been used to map more than 500 brains into stereotaxic space at the Montreal Neurological Institute. At the heart of this procedure is minctracc, the program that automatically finds the best linear transformation to map one volumetric data set (stored in MINC format, see below) on to another. The program uses optimization over a user selectable number of parameters to identify the best (according to a user-selected objective function) transformation mapping voxel values of the first data set into the second.
NIfTI-1 support
Louis Collins
Louis Collins
MNI Autoreg
Now and forever
How to get
ftp from the above web link
Current version
Current version release date
Open source
Not recorded
Available free of charge
A C compiler, MINC - core
Technical publications

A. Collingnon, F. Maes, D. Delaere, D. Vandermeulen, P. Suetens, G. Marchal, "Automated multi-modality image registration based on information theory", IPMI, 1995:263-274.

Collins DL, Neelin P, Peters TM, and Evans AC, "Auto- matic 3-D intersubject registration of MR volumetric data in standardized Talairach space", J. Comput. Assis. Tomogr, 18(2):192-205.

Minoshima S, Berger KL, Lee Ks, Mintun MA. "An auto- mated method for rotation correction and centering of 3D functional brain images", J. Nucl. Med., 1992;33(8):1579-1585.

R.P. Woods, J.C. Mazziotta, S.R. Cherry, "MRI-PET Reg- istration with Automated Algorithm", J. Comput. Assis. Tomogr, 1993;17:536-546.

Evans AC, Collins DL, Milner B, "An MRI-based stereo- tactic atlas from 250 young normal subjects", Soc Neurosci Abstr, 1992;18:408.

Talairach J, Tournoux P, "Co-planar sterotactic atlas of the human brain: 3-dimensional proportional system: an approach to cerebral imaging", Stuttgart: Georg Thieme Verlag, 1988.

Mazziota JC, Toga AW, Evans A, Fox P, and Lancaster J, "A probabilistic atlas of the human brain: theory and rationale for its development", Neuroimage 2, 89-101 (1995).
Applications publications
Other information
IATR listing last updated
28 Mar 2002