#include <itkStatisticalShapePointPenalty.h>

Detailed Description

template<typename TFixedPointSet, typename TMovingPointSet>
class itk::StatisticalShapePointPenalty< TFixedPointSet, TMovingPointSet >

Computes the Mahalanobis distance between the transformed shape and a mean shape. A model mean and covariance are required.

Author: F.F. Berendsen, Image Sciences Institute, UMC Utrecht, The Netherlands

Note: This work was funded by the projects Care4Me and Mediate.; If you use the StatisticalShapePenalty anywhere we would appreciate if you cite the following article:
F.F. Berendsen et al., Free-form image registration regularized by a statistical shape model: application to organ segmentation in cervical MR, Comput. Vis. Image Understand. (2013), http://dx.doi.org/10.1016/j.cviu.2012.12.006

Definition at line 56 of file itkStatisticalShapePointPenalty.h.

Inheritance diagram for itk::StatisticalShapePointPenalty< TFixedPointSet, TMovingPointSet >:

Public Types
using	ConstPointer = SmartPointer<const Self>
using	CoordinateType = typename OutputPointType::CoordinateType
using	DerivativeValueType
using	FixedPointSetConstPointer
using	FixedPointSetType
using	InputPointType
using	MovingPointSetConstPointer
using	MovingPointSetType
using	NonZeroJacobianIndicesType
using	OutputPointType
using	PCACovarianceType = vnl_svd_economy<CoordinateType>
using	Pointer = SmartPointer<Self>
using	PointIterator
using	ProposalDerivativeType = typename std::vector<VnlVectorType *>
using	Self = StatisticalShapePointPenalty
using	Superclass = SingleValuedPointSetToPointSetMetric<TFixedPointSet, TMovingPointSet>
using	TransformJacobianType
using	TransformPointer
using	TransformType
using	VnlMatrixType = vnl_matrix<CoordinateType>
using	VnlVectorType = vnl_vector<CoordinateType>
Public Types inherited from itk::SingleValuedPointSetToPointSetMetric< TFixedPointSet, TMovingPointSet >
using	ConstPointer = SmartPointer<const Self>
using	CoordinateRepresentationType = Superclass::ParametersValueType
using	DerivativeValueType = typename DerivativeType::ValueType
using	FixedImageMaskConstPointer = typename FixedImageMaskType::ConstPointer
using	FixedImageMaskPointer = typename FixedImageMaskType::Pointer
using	FixedImageMaskType = ImageMaskSpatialObject<Self::FixedPointSetDimension>
using	FixedPointSetConstPointer = typename FixedPointSetType::ConstPointer
using	FixedPointSetType = TFixedPointSet
using	InputPointType = typename TransformType::InputPointType
using	MovingImageMaskConstPointer = typename MovingImageMaskType::ConstPointer
using	MovingImageMaskPointer = typename MovingImageMaskType::Pointer
using	MovingImageMaskType = ImageMaskSpatialObject<Self::MovingPointSetDimension>
using	MovingPointSetConstPointer = typename MovingPointSetType::ConstPointer
using	MovingPointSetType = TMovingPointSet
using	NonZeroJacobianIndicesType = typename TransformType::NonZeroJacobianIndicesType
using	OutputPointType = typename TransformType::OutputPointType
using	Pointer = SmartPointer<Self>
using	PointIterator = typename FixedPointSetType::PointsContainer::ConstIterator
using	Self = SingleValuedPointSetToPointSetMetric
using	Superclass = SingleValuedCostFunction
using	TransformJacobianType = typename TransformType::JacobianType
using	TransformParametersType = typename TransformType::ParametersType
using	TransformPointer = typename TransformType::Pointer
using	TransformType

Public Member Functions
virtual void	BaseVarianceNeedsUpdateOff ()
virtual void	BaseVarianceNeedsUpdateOn ()
virtual MeasureType	GetBaseVariance () const
virtual MeasureType	GetCentroidXVariance () const
virtual MeasureType	GetCentroidYVariance () const
virtual MeasureType	GetCentroidZVariance () const
virtual MeasureType	GetCutOffSharpness () const
virtual MeasureType	GetCutOffValue () const
void	GetDerivative (const ParametersType &parameters, DerivativeType &Derivative) const override
virtual const bool &	GetNormalizedShapeModel ()
virtual const int &	GetShapeModelCalculation ()
virtual MeasureType	GetShrinkageIntensity () const
virtual MeasureType	GetSizeVariance () const
MeasureType	GetValue (const ParametersType &parameters) const override
void	GetValueAndDerivative (const ParametersType &parameters, MeasureType &Value, DerivativeType &Derivative) const override
void	Initialize () override
	ITK_DISALLOW_COPY_AND_MOVE (StatisticalShapePointPenalty)
	itkOverrideGetNameOfClassMacro (StatisticalShapePointPenalty)
virtual void	NormalizedShapeModelOff ()
virtual void	NormalizedShapeModelOn ()
virtual void	SetBaseVariance (MeasureType _arg)
virtual void	SetBaseVarianceNeedsUpdate (bool _arg)
virtual void	SetCentroidXVariance (MeasureType _arg)
virtual void	SetCentroidYVariance (MeasureType _arg)
virtual void	SetCentroidZVariance (MeasureType _arg)
virtual void	SetCovarianceMatrix (const vnl_matrix< double > *_arg)
virtual void	SetCutOffSharpness (MeasureType _arg)
virtual void	SetCutOffValue (MeasureType _arg)
virtual void	SetEigenValues (const vnl_vector< double > *_arg)
virtual void	SetEigenVectors (const vnl_matrix< double > *_arg)
virtual void	SetMeanVector (const vnl_vector< double > *_arg)
virtual void	SetNormalizedShapeModel (bool _arg)
virtual void	SetShapeModelCalculation (int _arg)
virtual void	SetShrinkageIntensity (MeasureType _arg)
virtual void	SetShrinkageIntensityNeedsUpdate (bool _arg)
virtual void	SetSizeVariance (MeasureType _arg)
virtual void	SetVariancesNeedsUpdate (bool _arg)
virtual void	ShrinkageIntensityNeedsUpdateOff ()
virtual void	ShrinkageIntensityNeedsUpdateOn ()
virtual void	VariancesNeedsUpdateOff ()
virtual void	VariancesNeedsUpdateOn ()
Public Member Functions inherited from itk::SingleValuedPointSetToPointSetMetric< TFixedPointSet, TMovingPointSet >
virtual void	BeforeThreadedGetValueAndDerivative (const TransformParametersType &parameters) const
virtual const FixedImageMaskType *	GetFixedImageMask ()
virtual const FixedPointSetType *	GetFixedPointSet ()
virtual const MovingImageMaskType *	GetMovingImageMask ()
virtual const MovingPointSetType *	GetMovingPointSet ()
unsigned int	GetNumberOfParameters () const override
virtual const TransformType *	GetTransform ()
virtual const bool &	GetUseMetricSingleThreaded ()
	ITK_DISALLOW_COPY_AND_MOVE (SingleValuedPointSetToPointSetMetric)
	itkOverrideGetNameOfClassMacro (SingleValuedPointSetToPointSetMetric)
	itkStaticConstMacro (FixedPointSetDimension, unsigned int, TFixedPointSet::PointDimension)
	itkStaticConstMacro (MovingPointSetDimension, unsigned int, TMovingPointSet::PointDimension)
virtual void	SetFixedImageMask (const FixedImageMaskType *_arg)
virtual void	SetFixedPointSet (const FixedPointSetType *_arg)
virtual void	SetMovingImageMask (const MovingImageMaskType *_arg)
virtual void	SetMovingPointSet (const MovingPointSetType *_arg)
virtual void	SetTransform (TransformType *_arg)
void	SetTransformParameters (const ParametersType &parameters) const
virtual void	SetUseMetricSingleThreaded (bool _arg)
virtual void	UseMetricSingleThreadedOff ()
virtual void	UseMetricSingleThreadedOn ()

Static Public Member Functions
static Pointer	New ()

Protected Member Functions
void	PrintSelf (std::ostream &os, Indent indent) const override
	StatisticalShapePointPenalty ()
	~StatisticalShapePointPenalty () override
Protected Member Functions inherited from itk::SingleValuedPointSetToPointSetMetric< TFixedPointSet, TMovingPointSet >
const auto &	GetFixedPoints () const
const auto &	GetMovingPoints () const
void	PrintSelf (std::ostream &os, Indent indent) const override
	SingleValuedPointSetToPointSetMetric ()=default
	~SingleValuedPointSetToPointSetMetric () override=default

Private Member Functions
void	CalculateCutOffDerivative (typename DerivativeType::element_type &derivativeElement, const MeasureType &value) const
void	CalculateCutOffValue (MeasureType &value) const
void	CalculateDerivative (DerivativeType &derivative, const MeasureType &value, const VnlVectorType &differenceVector, const VnlVectorType &eigrot, const unsigned int shapeLength) const
void	CalculateValue (MeasureType &value, VnlVectorType &differenceVector, VnlVectorType &centerrotated, VnlVectorType &eigrot) const
void	FillProposalDerivative (const OutputPointType &fixedPoint, const unsigned int vertexindex) const
void	FillProposalVector (const OutputPointType &fixedPoint, const unsigned int vertexindex) const
void	NormalizeProposalVector (const unsigned int shapeLength) const
void	UpdateCentroidAndAlignProposalDerivative (const unsigned int shapeLength) const
void	UpdateCentroidAndAlignProposalVector (const unsigned int shapeLength) const
void	UpdateL2 (const unsigned int shapeLength) const
void	UpdateL2AndNormalizeProposalDerivative (const unsigned int shapeLength) const

Private Attributes
double	m_BaseStd {}
double	m_BaseVariance {}
bool	m_BaseVarianceNeedsUpdate {}
double	m_CentroidXStd {}
double	m_CentroidXVariance {}
double	m_CentroidYStd {}
double	m_CentroidYVariance {}
double	m_CentroidZStd {}
double	m_CentroidZVariance {}
const VnlMatrixType *	m_CovarianceMatrix {}
double	m_CutOffSharpness {}
double	m_CutOffValue {}
const VnlVectorType *	m_EigenValues {}
VnlVectorType *	m_EigenValuesRegularized {}
const VnlMatrixType *	m_EigenVectors {}
VnlMatrixType *	m_InverseCovarianceMatrix {}
VnlVectorType	m_MeanValues {}
const VnlVectorType *	m_MeanVector {}
bool	m_NormalizedShapeModel {}
ProposalDerivativeType *	m_ProposalDerivative {}
unsigned int	m_ProposalLength {}
VnlVectorType	m_ProposalVector {}
int	m_ShapeModelCalculation {}
double	m_ShrinkageIntensity {}
bool	m_ShrinkageIntensityNeedsUpdate {}
double	m_SizeStd {}
double	m_SizeVariance {}
bool	m_VariancesNeedsUpdate {}

Additional Inherited Members
Protected Attributes inherited from itk::SingleValuedPointSetToPointSetMetric< TFixedPointSet, TMovingPointSet >
FixedImageMaskConstPointer	m_FixedImageMask { nullptr }
FixedPointSetConstPointer	m_FixedPointSet { nullptr }
MovingImageMaskConstPointer	m_MovingImageMask { nullptr }
MovingPointSetConstPointer	m_MovingPointSet { nullptr }
unsigned int	m_NumberOfPointsCounted { 0 }
TransformPointer	m_Transform { nullptr }
bool	m_UseMetricSingleThreaded { true }