NAME

       antsAI - part of ANTS registration suite

DESCRIPTION

   COMMAND:
              antsAI

              Program  to  calculate  the  optimallinear  transform  parameters  for aligning two
              images.

   OPTIONS:
       -d, --dimensionality 2/3

              This option forces the image to be treated as a specified-dimensional image. If not
              specified, we try to infer the dimensionality from the input image.

       -m,                                                                               --metric
              MI[fixedImage,movingImage,<numberOfBins=32>,<samplingStrategy={None,Regular,Random}>,<samplingPercentage=[0,1]>]

              Mattes[fixedImage,movingImage,<numberOfBins=32>,<samplingStrategy={None,Regular,Random}>,<samplingPercentage=[0,1]>]
              GC[fixedImage,movingImage,<radius=NA>,<samplingStrategy={None,Regular,Random}>,<samplingPercentage=[0,1]>]

              These  image  metrics  are  available:  MI:  joint  histogram  and  Mattes:  mutual
              information and GC: global correlation.

       -t, --transform Rigid[gradientStep]
              Affine[gradientStep]         Similarity[gradientStep]         AlignGeometricCenters
              AlignCentersOfMass

              Several  transform  options  are  available.  For the rigid, affine, and similarity
              transforms, the gradientStep characterizes the gradient descent optimization and is
              scaled appropriately for each transform using the shift scales estimator. The other
              two transform types  finds  the  simple  translation  transform  which  aligns  the
              specified  image  feature. Note that the images are read from the similarity metric
              option although the metric isn't actually used.

       -p, --align-principal-axes

              Boolean indicating alignment by principal axes. Alternatively, one can align  using
              blobs (see -b option).

       -b, --align-blobs numberOfBlobsToExtract
              [numberOfBlobsToExtract,<numberOfBlobsToMatch=numberOfBlobsToExtract>]

              Boolean  indicating alignment by a set of blobs. Alternatively, one can align using
              blobs (see -p option).

       -s, --search-factor searchFactor
              [searchFactor=20,<arcFraction=1.0>]

              Incremental search factor (in degrees) which will sample the  arc  fraction  around
              the principal axis or default axis.

       -g, --translation-search-grid [stepSize=25, AxBxC=0x0x0]

              Translation  search  grid  in  mm,  which  will  translate the moving image in each
              dimension in increments of the step size.

       -c, --convergence numberOfIterations
              [numberOfIterations,<convergenceThreshold=1e-6>,<convergenceWindowSize=10>]

              Number of iterations.

       -x, --masks fixedImageMask

              [fixedImageMask,movingImageMask]

              Image masks to limit voxels considered by the metric.

       -o, --output outputFileName

              Specify the output transform (output format an ITK .mat file).

       --random-seed seedValue

              Use a  fixed  seed  for  random  number  generation.  The  default  fixed  seed  is
              overwritten  by  this  value.  The  fixed seed can be any nonzero int value. If the
              specified seed is zero, the system time will be used.

       -v, --verbose (0)/1

              Verbose output.

       -h

              Print the help menu (short version).

       --help

              Print the help menu.  <VALUES>: 1