ANTS(1) 							   User Commands							   ANTS(1)

NAME

       ANTS - part of ANTS registration suite

DESCRIPTION

       Example usage:

       ./ANTS ImageDimension -m MI[fixedimage.nii.gz,movingimage.nii.gz,1,32] -o Outputfname.nii.gz -i 30x20x0 -r Gauss[3,1] -t Elast[3]

	      Compulsory arguments:

	      ImageDimension: 2 or 3 (for 2 or 3 Dimensional registration)

       -m:    Type of similarity model used for registration.

	      For intramodal image registration, use:

	      CC = cross-correlation MI = mutual information PR = probability mapping MSQ = mean square difference

	      For intermodal image registration, use:

	      MI = mutual information PR = probability mapping

       -o     Outputfname.nii.gz: the name of the resulting image.

       -i     Max-iterations in format: JxKxL, where:

	      J  =  max iterations at coarsest resolution (here, reduce by power of 2^2) K = middle resolution iterations (here,reduce by power of
	      2) L = fine resolution iterations (here, full resolution). This level takes much more time per iteration!

	      Adding an extra value before JxKxL (i.e. resulting in IxJxKxL) would add another iteration level.

       -r     Regularization

       -t     Type of transformation model used for registration

	      For elastic image registration, use:

	      Elast = elastic transformation model (less deformation possible)

	      For diffeomorphic image registration, use:

	      Syn[GradStep,TimePoints,IntegrationStep] --geodesic 2 = SyN with time with arbitrary number of time points  in  time  discretization
	      SyN[GradStep,2,IntegrationStep]  = SyN with time optimized specifically for 2 time points in the time discretization SyN[GradStep] =
	      Greedy SyN, typicall GradStep=0.25 Exp[GradStep,TimePoints] = Exponential GreedyExp = Diffeomorphic Demons style exponential mapping

	      Please use the `ANTS -h ` call or refer to the ANTS.pdf manual or antsIntroduction.sh script for additional information and  typical
	      values for transformation models

ANTS 1.9							     May 2012								   ANTS(1)