ITK
4.6.0
Insight Segmentation and Registration Toolkit
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#include <itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h>
Implementation of the Jensen Havrda Charvat Tsallis Point Set metric.
Given a specified transform and direction, this class calculates the value and derivative between a "fixed" and "moving" point set pair using the Havrda-Charvat-Tsallis entropy family, a generalization of the well-known Shannon entropy, and the Jensen divergence. Another way to look at the family of information-theoretic measures is that the points are used to construct the corresponding probably density functions.
In addition, we allow the user to invoke a manifold parzen windowing of the data. Instead of an isotropic Gaussian being associated with each point, we can actually calculate the covariance matrix for each point such that it reflects the locate point set structure.
To speed up the metric calculation, we use ITK's K-d tree to query the metric value only for a given neighborhood. Considering that probably only a small subset of points is needed to get a good approximation of the metric value for a single point, this is probably warranted. So what we do is transform each point (with the specified transform) and construct the k-d tree from the transformed points.
Contributed by Nicholas J. Tustison, James C. Gee in the Insight Journal paper: http://hdl.handle.net/1926/1524
N.J. Tustison, S. P. Awate, G. Song, T. S. Cook, and J. C. Gee. "Point set registration using Havrda-Charvat-Tsallis entropy measures" IEEE Transactions on Medical Imaging, 30(2):451-60, 2011.
Definition at line 71 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
Public Types | |
typedef SmartPointer< const Self > | ConstPointer |
typedef Superclass::CoordRepType | CoordRepType |
typedef DensityFunctionType::Pointer | DensityFunctionPointer |
typedef ManifoldParzenWindowsPointSetFunction < PointSetType, RealType > | DensityFunctionType |
typedef Superclass::DerivativeType | DerivativeType |
typedef Superclass::DerivativeValueType | DerivativeValueType |
typedef Superclass::FixedTransformJacobianType | FixedTransformJacobianType |
typedef DensityFunctionType::GaussianType | GaussianType |
typedef Superclass::JacobianType | JacobianType |
typedef Superclass::LocalDerivativeType | LocalDerivativeType |
typedef Superclass::MeasureType | MeasureType |
typedef Superclass::MovingTransformJacobianType | MovingTransformJacobianType |
typedef Superclass::NeighborsIdentifierType | NeighborsIdentifierType |
typedef Superclass::NumberOfParametersType | NumberOfParametersType |
typedef Superclass::PixelType | PixelType |
typedef SmartPointer< Self > | Pointer |
typedef Superclass::PointIdentifier | PointIdentifier |
typedef PointSetType::PointsContainer | PointsContainer |
typedef PointsContainer::ConstIterator | PointsContainerConstIterator |
typedef TPointSet | PointSetType |
typedef Superclass::PointType | PointType |
typedef MeasureType | RealType |
typedef JensenHavrdaCharvatTsallisPointSetToPointSetMetricv4 | Self |
typedef PointSetToPointSetMetricv4 < TPointSet, TPointSet, TInternalComputationValueType > | Superclass |
Public Types inherited from itk::PointSetToPointSetMetricv4< TPointSet, TPointSet, TInternalComputationValueType > | |
typedef SmartPointer< const Self > | ConstPointer |
typedef PointType::CoordRepType | CoordRepType |
typedef Superclass::DerivativeType | DerivativeType |
typedef DerivativeType::ValueType | DerivativeValueType |
typedef Superclass::DimensionType | DimensionType |
typedef Superclass::MovingDisplacementFieldTransformType | DisplacementFieldTransformType |
typedef Superclass::FixedInputPointType | FixedInputPointType |
typedef Superclass::FixedOutputPointType | FixedOutputPointType |
typedef TPointSet::PixelType | FixedPixelType |
typedef TPointSet::PointsContainer | FixedPointsContainer |
typedef TPointSet | FixedPointSetType |
typedef TPointSet::PointType | FixedPointType |
typedef PointSet < FixedPixelType, itkGetStaticConstMacro(PointDimension)> | FixedTransformedPointSetType |
typedef Superclass::FixedTransformJacobianType | FixedTransformJacobianType |
typedef Superclass::FixedTransformParametersType | FixedTransformParametersType |
typedef Superclass::FixedTransformPointer | FixedTransformPointer |
typedef Superclass::FixedTransformType | FixedTransformType |
typedef Superclass::JacobianType | JacobianType |
typedef FixedArray < DerivativeValueType, itkGetStaticConstMacro(PointDimension)> | LocalDerivativeType |
typedef Superclass::MeasureType | MeasureType |
typedef Superclass::MovingInputPointType | MovingInputPointType |
typedef Superclass::MovingOutputPointType | MovingOutputPointType |
typedef TPointSet::PixelType | MovingPixelType |
typedef TPointSet::PointsContainer | MovingPointsContainer |
typedef TPointSet | MovingPointSetType |
typedef TPointSet::PointType | MovingPointType |
typedef PointSet < MovingPixelType, itkGetStaticConstMacro(PointDimension)> | MovingTransformedPointSetType |
typedef Superclass::MovingTransformJacobianType | MovingTransformJacobianType |
typedef Superclass::MovingTransformParametersType | MovingTransformParametersType |
typedef Superclass::MovingTransformPointer | MovingTransformPointer |
typedef Superclass::MovingTransformType | MovingTransformType |
typedef PointsLocatorType::NeighborsIdentifierType | NeighborsIdentifierType |
typedef Superclass::NumberOfParametersType | NumberOfParametersType |
typedef Superclass::ParametersType | ParametersType |
typedef Superclass::ParametersValueType | ParametersValueType |
typedef FixedPixelType | PixelType |
typedef SmartPointer< Self > | Pointer |
typedef PointsContainer::ElementIdentifier | PointIdentifier |
typedef PointsContainer::ConstIterator | PointsConstIterator |
typedef FixedPointsContainer | PointsContainer |
typedef PointsLocator < PointsContainer > | PointsLocatorType |
typedef FixedPointType | PointType |
typedef PointSetToPointSetMetricv4 | Self |
typedef ObjectToObjectMetric < TPointSet::PointDimension, TPointSet::PointDimension, Image < TInternalComputationValueType, TPointSet::PointDimension > , TInternalComputationValueType > | Superclass |
typedef Superclass::VirtualDirectionType | VirtualDirectionType |
typedef Superclass::VirtualImagePointer | VirtualImagePointer |
typedef Superclass::VirtualImageType | VirtualImageType |
typedef Superclass::VirtualIndexType | VirtualIndexType |
typedef Superclass::VirtualPointType | VirtualOriginType |
typedef Superclass::VirtualPixelType | VirtualPixelType |
typedef Superclass::VirtualPointSetPointer | VirtualPointSetPointer |
typedef Superclass::VirtualPointSetType | VirtualPointSetType |
typedef Superclass::VirtualPointType | VirtualPointType |
typedef Superclass::VirtualSizeType | VirtualRadiusType |
typedef Superclass::VirtualRegionType | VirtualRegionType |
typedef Superclass::VirtualSizeType | VirtualSizeType |
typedef Superclass::VirtualSpacingType | VirtualSpacingType |
Public Types inherited from itk::ObjectToObjectMetric< TPointSet::PointDimension, TPointSet::PointDimension, Image< TInternalComputationValueType, TPointSet::PointDimension >, TInternalComputationValueType > | |
typedef SmartPointer< const Self > | ConstPointer |
typedef TInternalComputationValueType | CoordinateRepresentationType |
typedef Superclass::DerivativeType | DerivativeType |
typedef Superclass::DerivativeValueType | DerivativeValueType |
typedef SizeValueType | DimensionType |
typedef FixedTransformType::InputPointType | FixedInputPointType |
typedef FixedTransformType::OutputPointType | FixedOutputPointType |
typedef FixedTransformType::JacobianType | FixedTransformJacobianType |
typedef FixedTransformType::ParametersType | FixedTransformParametersType |
typedef FixedTransformType::Pointer | FixedTransformPointer |
typedef Transform < TInternalComputationValueType, Image < TInternalComputationValueType, TPointSet::PointDimension > ::ImageDimension, TFixedDimension > | FixedTransformType |
typedef Superclass::GradientSourceType | GradientSourceType |
typedef TInternalComputationValueType | InternalComputationValueType |
typedef FixedTransformType::JacobianType | JacobianType |
typedef Superclass::MeasureType | MeasureType |
typedef DisplacementFieldTransform < CoordinateRepresentationType, itkGetStaticConstMacro(MovingDimension) > | MovingDisplacementFieldTransformType |
typedef MovingTransformType::InputPointType | MovingInputPointType |
typedef MovingTransformType::OutputPointType | MovingOutputPointType |
typedef MovingTransformType::JacobianType | MovingTransformJacobianType |
typedef MovingTransformType::ParametersType | MovingTransformParametersType |
typedef MovingTransformType::Pointer | MovingTransformPointer |
typedef Transform < TInternalComputationValueType, Image < TInternalComputationValueType, TPointSet::PointDimension > ::ImageDimension, TMovingDimension > | MovingTransformType |
typedef Superclass::NumberOfParametersType | NumberOfParametersType |
typedef Superclass::ParametersType | ParametersType |
typedef SmartPointer< Self > | Pointer |
typedef ObjectToObjectMetric | Self |
typedef ObjectToObjectMetricBaseTemplate < TInternalComputationValueType > | Superclass |
typedef VirtualImageType::DirectionType | VirtualDirectionType |
typedef VirtualImageType::ConstPointer | VirtualImageConstPointer |
typedef VirtualImageType::Pointer | VirtualImagePointer |
typedef Image < TInternalComputationValueType, TPointSet::PointDimension > | VirtualImageType |
typedef VirtualImageType::IndexType | VirtualIndexType |
typedef VirtualImageType::PointType | VirtualOriginType |
typedef VirtualImageType::PixelType | VirtualPixelType |
typedef VirtualPointSetType::Pointer | VirtualPointSetPointer |
typedef PointSet < VirtualPixelType, itkGetStaticConstMacro(VirtualDimension)> | VirtualPointSetType |
typedef VirtualImageType::PointType | VirtualPointType |
typedef VirtualImageType::SizeType | VirtualRadiusType |
typedef VirtualImageType::RegionType | VirtualRegionType |
typedef VirtualRegionType::SizeType | VirtualSizeType |
typedef VirtualImageType::SpacingType | VirtualSpacingType |
Public Types inherited from itk::ObjectToObjectMetricBaseTemplate< TInternalComputationValueType > | |
typedef SmartPointer< const Self > | ConstPointer |
typedef TInternalComputationValueType | CoordinateRepresentationType |
typedef Superclass::DerivativeType | DerivativeType |
typedef DerivativeType::ValueType | DerivativeValueType |
enum | GradientSourceType { GRADIENT_SOURCE_FIXED =0, GRADIENT_SOURCE_MOVING, GRADIENT_SOURCE_BOTH } |
typedef Superclass::MeasureType | MeasureType |
typedef unsigned int | NumberOfParametersType |
typedef Superclass::ParametersType | ParametersType |
typedef TInternalComputationValueType | ParametersValueType |
typedef SmartPointer< Self > | Pointer |
typedef ObjectToObjectMetricBaseTemplate | Self |
typedef SingleValuedCostFunctionv4Template < TInternalComputationValueType > | Superclass |
Public Types inherited from itk::SingleValuedCostFunctionv4Template< TInternalComputationValueType > | |
typedef SmartPointer< const Self > | ConstPointer |
typedef Array < TInternalComputationValueType > | DerivativeType |
typedef TInternalComputationValueType | MeasureType |
typedef Superclass::ParametersType | ParametersType |
typedef SmartPointer< Self > | Pointer |
typedef SingleValuedCostFunctionv4Template | Self |
typedef CostFunctionTemplate < TInternalComputationValueType > | Superclass |
Public Types inherited from itk::CostFunctionTemplate< TInternalComputationValueType > | |
typedef SmartPointer< const Self > | ConstPointer |
typedef OptimizerParameters < TInternalComputationValueType > | ParametersType |
typedef TInternalComputationValueType | ParametersValueType |
typedef SmartPointer< Self > | Pointer |
typedef CostFunctionTemplate | Self |
typedef Object | Superclass |
Public Types inherited from itk::Object | |
typedef SmartPointer< const Self > | ConstPointer |
typedef SmartPointer< Self > | Pointer |
typedef Object | Self |
typedef LightObject | Superclass |
Public Types inherited from itk::LightObject | |
typedef SmartPointer< const Self > | ConstPointer |
typedef SmartPointer< Self > | Pointer |
typedef LightObject | Self |
Static Public Member Functions | |
static Pointer | New () |
Static Public Member Functions inherited from itk::Object | |
static bool | GetGlobalWarningDisplay () |
static void | GlobalWarningDisplayOff () |
static void | GlobalWarningDisplayOn () |
static Pointer | New () |
static void | SetGlobalWarningDisplay (bool flag) |
Static Public Member Functions inherited from itk::LightObject | |
static void | BreakOnError () |
static Pointer | New () |
Static Public Attributes | |
static const unsigned int | PointDimension = TPointSet::PointDimension |
Static Public Attributes inherited from itk::PointSetToPointSetMetricv4< TPointSet, TPointSet, TInternalComputationValueType > | |
static const DimensionType | FixedPointDimension |
static const DimensionType | MovingPointDimension |
static const DimensionType | PointDimension |
Static Public Attributes inherited from itk::ObjectToObjectMetric< TPointSet::PointDimension, TPointSet::PointDimension, Image< TInternalComputationValueType, TPointSet::PointDimension >, TInternalComputationValueType > | |
static const DimensionType | FixedDimension |
static const DimensionType | MovingDimension |
static const DimensionType | VirtualDimension |
Private Member Functions | |
JensenHavrdaCharvatTsallisPointSetToPointSetMetricv4 (const Self &) | |
void | operator= (const Self &) |
typedef SmartPointer<const Self> itk::JensenHavrdaCharvatTsallisPointSetToPointSetMetricv4< TPointSet, TInternalComputationValueType >::ConstPointer |
Definition at line 80 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
typedef Superclass::CoordRepType itk::JensenHavrdaCharvatTsallisPointSetToPointSetMetricv4< TPointSet, TInternalComputationValueType >::CoordRepType |
Definition at line 101 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
typedef DensityFunctionType::Pointer itk::JensenHavrdaCharvatTsallisPointSetToPointSetMetricv4< TPointSet, TInternalComputationValueType >::DensityFunctionPointer |
Definition at line 118 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
typedef ManifoldParzenWindowsPointSetFunction<PointSetType, RealType> itk::JensenHavrdaCharvatTsallisPointSetToPointSetMetricv4< TPointSet, TInternalComputationValueType >::DensityFunctionType |
Other typedefs
Definition at line 116 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
typedef Superclass::DerivativeType itk::JensenHavrdaCharvatTsallisPointSetToPointSetMetricv4< TPointSet, TInternalComputationValueType >::DerivativeType |
Definition at line 96 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
typedef Superclass::DerivativeValueType itk::JensenHavrdaCharvatTsallisPointSetToPointSetMetricv4< TPointSet, TInternalComputationValueType >::DerivativeValueType |
Definition at line 97 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
typedef Superclass::FixedTransformJacobianType itk::JensenHavrdaCharvatTsallisPointSetToPointSetMetricv4< TPointSet, TInternalComputationValueType >::FixedTransformJacobianType |
Definition at line 107 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
typedef DensityFunctionType::GaussianType itk::JensenHavrdaCharvatTsallisPointSetToPointSetMetricv4< TPointSet, TInternalComputationValueType >::GaussianType |
Definition at line 117 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
typedef Superclass::JacobianType itk::JensenHavrdaCharvatTsallisPointSetToPointSetMetricv4< TPointSet, TInternalComputationValueType >::JacobianType |
Definition at line 106 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
typedef Superclass::LocalDerivativeType itk::JensenHavrdaCharvatTsallisPointSetToPointSetMetricv4< TPointSet, TInternalComputationValueType >::LocalDerivativeType |
Definition at line 98 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
typedef Superclass::MeasureType itk::JensenHavrdaCharvatTsallisPointSetToPointSetMetricv4< TPointSet, TInternalComputationValueType >::MeasureType |
Types transferred from the base class
Definition at line 95 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
typedef Superclass::MovingTransformJacobianType itk::JensenHavrdaCharvatTsallisPointSetToPointSetMetricv4< TPointSet, TInternalComputationValueType >::MovingTransformJacobianType |
Definition at line 108 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
typedef Superclass::NeighborsIdentifierType itk::JensenHavrdaCharvatTsallisPointSetToPointSetMetricv4< TPointSet, TInternalComputationValueType >::NeighborsIdentifierType |
Definition at line 103 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
typedef Superclass::NumberOfParametersType itk::JensenHavrdaCharvatTsallisPointSetToPointSetMetricv4< TPointSet, TInternalComputationValueType >::NumberOfParametersType |
Definition at line 104 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
typedef Superclass::PixelType itk::JensenHavrdaCharvatTsallisPointSetToPointSetMetricv4< TPointSet, TInternalComputationValueType >::PixelType |
Definition at line 100 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
typedef SmartPointer<Self> itk::JensenHavrdaCharvatTsallisPointSetToPointSetMetricv4< TPointSet, TInternalComputationValueType >::Pointer |
Definition at line 79 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
typedef Superclass::PointIdentifier itk::JensenHavrdaCharvatTsallisPointSetToPointSetMetricv4< TPointSet, TInternalComputationValueType >::PointIdentifier |
Definition at line 102 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
typedef PointSetType::PointsContainer itk::JensenHavrdaCharvatTsallisPointSetToPointSetMetricv4< TPointSet, TInternalComputationValueType >::PointsContainer |
Definition at line 89 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
typedef PointsContainer::ConstIterator itk::JensenHavrdaCharvatTsallisPointSetToPointSetMetricv4< TPointSet, TInternalComputationValueType >::PointsContainerConstIterator |
Definition at line 90 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
typedef TPointSet itk::JensenHavrdaCharvatTsallisPointSetToPointSetMetricv4< TPointSet, TInternalComputationValueType >::PointSetType |
Definition at line 86 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
typedef Superclass::PointType itk::JensenHavrdaCharvatTsallisPointSetToPointSetMetricv4< TPointSet, TInternalComputationValueType >::PointType |
Definition at line 99 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
typedef MeasureType itk::JensenHavrdaCharvatTsallisPointSetToPointSetMetricv4< TPointSet, TInternalComputationValueType >::RealType |
Definition at line 110 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
typedef JensenHavrdaCharvatTsallisPointSetToPointSetMetricv4 itk::JensenHavrdaCharvatTsallisPointSetToPointSetMetricv4< TPointSet, TInternalComputationValueType >::Self |
Standard class typedefs.
Definition at line 76 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
typedef PointSetToPointSetMetricv4<TPointSet, TPointSet, TInternalComputationValueType> itk::JensenHavrdaCharvatTsallisPointSetToPointSetMetricv4< TPointSet, TInternalComputationValueType >::Superclass |
Definition at line 78 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
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Get the alpha parameter used to tune the point-set metric.
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Get the size of the covariance neighborhood used to construct the anisotropic covariances. Only relevant if m_UseAnisotropicCovariances = true. Default = 5.
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Get the neighborhood size used to evaluate the measurement at each point. Default = 50.
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Get the noise kernel sigma for the anistropic covariances.
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Run-time type information (and related methods)
Reimplemented from itk::PointSetToPointSetMetricv4< TPointSet, TPointSet, TInternalComputationValueType >.
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Get the point set sigma function
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Get whether or not anisotropic covariances are determined for each Gaussian. Default = false.
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Initialize the Metric by making sure that all the components are present and plugged together correctly
Reimplemented from itk::PointSetToPointSetMetricv4< TPointSet, TPointSet, TInternalComputationValueType >.
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Clone method will clone the existing instance of this type, including its internal member variables.
Reimplemented from itk::LightObject.
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Method for creation through the object factory.
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Methods invoked by Print() to print information about the object including superclasses. Typically not called by the user (use Print() instead) but used in the hierarchical print process to combine the output of several classes.
Reimplemented from itk::ObjectToObjectMetricBaseTemplate< TInternalComputationValueType >.
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Set the alpha parameter used to tune the point-set metric from a maximum-likelihood measure (alpha = 1) to the more robust L2 solution (alpha = 2). Typically, "robustness" is associated with performance in the presence of uniform noise but in most applications the noise will be highly correlated with the point sets, therefore an alpha value close to 1, in general, provides better performance. Only values between 1 and 2 are convex.
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Set the size of the covariance neighborhood used to construct the anisotropic covariances. Only relevant if m_UseAnisotropicCovariances = true. Default = 5.
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Set the neighborhood size used to evaluate the measurement at each point. Default = 50.
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Set the size of the noise kernel used to construct each covariance image. To avoid the case where the local point set structure would result in a degenerate covariance matrix, a small amount of noise is added along the diagonal represented by this variable. Only relevant if m_UseAnisotropicCovariances = true. Default = 10.0.
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Each point is associated with a Gaussian characterized by m_PointSetSigma which provides a sense of scale for determining the similarity between two point sets. Default = 1.0.
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Set whether or not anisotropic covariances are determined for each Gaussian. Default = false.
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Get/set whether or not anisotropic covariances are determined for each Gaussian. Default = false.
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Definition at line 240 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
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Definition at line 237 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
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Definition at line 238 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
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Definition at line 231 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
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Definition at line 236 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
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Definition at line 230 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
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Definition at line 235 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
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Definition at line 244 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
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Definition at line 245 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
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Precomputed cached values
Definition at line 243 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
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Definition at line 233 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.
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Definition at line 92 of file itkJensenHavrdaCharvatTsallisPointSetToPointSetMetricv4.h.