antsAI - part of ANTS registration suite
- antsAI
- Program to calculate the optimallinear transform parameters for aligning
two images.
-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