elastix::StatisticalShapePenalty< TElastix > Class Template Reference

#include <elxStatisticalShapePenalty.h>

Detailed Description

template<class TElastix>
class elastix::StatisticalShapePenalty< TElastix >

An metric based on the itk::StatisticalShapePointPenalty.

The parameters used in this class are:

Parameters:

Metric: Select this metric as follows:
(Metric "StatisticalShapePenalty")

ShrinkageIntensity: The mixing ratio ($\beta$) of the provided covariance matrix and an identity matrix. $\Sigma' = (1-\beta)\Sigma + \beta \sigma_0^2 I$ Can be defined for each resolution
example: (ShrinkageIntensity 0.2)

BaseVariance: The width ($\sigma_0^2$) of the non-informative prior. Can be defined for each resolution
example: (BaseVariance 1000.0)

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 58 of file elxStatisticalShapePenalty.h.

Inheritance diagram for elastix::StatisticalShapePenalty< TElastix >:

Public Types
typedef itk::AdvancedCombinationTransform< CoordRepType, itkGetStaticConstMacro(FixedImageDimension) >	CombinationTransformType
typedef Superclass2::ConfigurationPointer	ConfigurationPointer
typedef Superclass2::ConfigurationType	ConfigurationType
typedef SmartPointer< const Self >	ConstPointer
typedef Superclass1::CoordinateRepresentationType	CoordinateRepresentationType
typedef OutputPointType::CoordRepType	CoordRepType
typedef Superclass1::DerivativeType	DerivativeType
typedef Superclass2::ElastixPointer	ElastixPointer
typedef Superclass2::ElastixType	ElastixType
typedef Superclass1::FixedImageMaskPointer	FixedImageMaskPointer
typedef Superclass1::FixedImageMaskType	FixedImageMaskType
typedef Superclass2::FixedImageType	FixedImageType
typedef Superclass1::FixedPointSetConstPointer	FixedPointSetConstPointer
typedef Superclass1::FixedPointSetType	FixedPointSetType
typedef FixedImageType	ImageType
typedef CombinationTransformType::InitialTransformType	InitialTransformType
typedef Superclass1::InputPointType	InputPointType
typedef Superclass2::ITKBaseType	ITKBaseType
typedef Superclass1::MeasureType	MeasureType
typedef Superclass1::MovingImageMaskPointer	MovingImageMaskPointer
typedef Superclass1::MovingImageMaskType	MovingImageMaskType
typedef Superclass2::MovingImageType	MovingImageType
typedef Superclass1::MovingPointSetConstPointer	MovingPointSetConstPointer
typedef Superclass1::MovingPointSetType	MovingPointSetType
typedef itk::Object	ObjectType
typedef Superclass1::OutputPointType	OutputPointType
typedef Superclass1::ParametersType	ParametersType
typedef SmartPointer< Self >	Pointer
typedef FixedPointSetType	PointSetType
typedef Superclass2::RegistrationPointer	RegistrationPointer
typedef Superclass2::RegistrationType	RegistrationType
typedef StatisticalShapePenalty	Self
typedef StatisticalShapePointPenalty< typename MetricBase< TElastix >::FixedPointSetType, typename MetricBase< TElastix >::MovingPointSetType >	Superclass1
typedef MetricBase< TElastix >	Superclass2
typedef Superclass1::TransformJacobianType	TransformJacobianType
typedef Superclass1::TransformParametersType	TransformParametersType
typedef Superclass1::TransformPointer	TransformPointer
typedef Superclass1::TransformType	TransformType
typedef vnl_vector< CoordRepType >	VnlVectorType
Public Types inherited from itk::StatisticalShapePointPenalty< MetricBase< TElastix >::FixedPointSetType, MetricBase< TElastix >::MovingPointSetType >
typedef SmartPointer< const Self >	ConstPointer
typedef OutputPointType::CoordRepType	CoordRepType
typedef Superclass::DerivativeType	DerivativeType
typedef Superclass::DerivativeValueType	DerivativeValueType
typedef Superclass::FixedPointSetConstPointer	FixedPointSetConstPointer
typedef Superclass::FixedPointSetType	FixedPointSetType
typedef Superclass::InputPointType	InputPointType
typedef Superclass::MeasureType	MeasureType
typedef Superclass::MovingPointSetConstPointer	MovingPointSetConstPointer
typedef Superclass::MovingPointSetType	MovingPointSetType
typedef Superclass::NonZeroJacobianIndicesType	NonZeroJacobianIndicesType
typedef Superclass::OutputPointType	OutputPointType
typedef vnl_svd_economy< CoordRepType >	PCACovarianceType
typedef Superclass::PointDataIterator	PointDataIterator
typedef SmartPointer< Self >	Pointer
typedef Superclass::PointIterator	PointIterator
typedef std::vector< VnlVectorType * >	ProposalDerivativeType
typedef StatisticalShapePointPenalty	Self
typedef SingleValuedPointSetToPointSetMetric< MetricBase< TElastix >::FixedPointSetType, MetricBase< TElastix >::MovingPointSetType >	Superclass
typedef Superclass::TransformJacobianType	TransformJacobianType
typedef Superclass::TransformParametersType	TransformParametersType
typedef Superclass::TransformPointer	TransformPointer
typedef Superclass::TransformType	TransformType
typedef vnl_matrix< CoordRepType >	VnlMatrixType
typedef vnl_vector< CoordRepType >	VnlVectorType
Public Types inherited from itk::SingleValuedPointSetToPointSetMetric< MetricBase< TElastix >::FixedPointSetType, MetricBase< TElastix >::MovingPointSetType >
typedef SmartPointer< const Self >	ConstPointer
typedef Superclass::ParametersValueType	CoordinateRepresentationType
typedef Superclass::DerivativeType	DerivativeType
typedef DerivativeType::ValueType	DerivativeValueType
typedef FixedImageMaskType::ConstPointer	FixedImageMaskConstPointer
typedef FixedImageMaskType::Pointer	FixedImageMaskPointer
typedef SpatialObject< itkGetStaticConstMacro(FixedPointSetDimension) >	FixedImageMaskType
typedef FixedPointSetType::ConstPointer	FixedPointSetConstPointer
typedef FixedPointSetType::PixelType	FixedPointSetPixelType
typedef MetricBase< TElastix >::FixedPointSetType	FixedPointSetType
typedef TransformType::InputPointType	InputPointType
typedef Superclass::MeasureType	MeasureType
typedef MovingImageMaskType::ConstPointer	MovingImageMaskConstPointer
typedef MovingImageMaskType::Pointer	MovingImageMaskPointer
typedef SpatialObject< itkGetStaticConstMacro(MovingPointSetDimension) >	MovingImageMaskType
typedef MovingPointSetType::ConstPointer	MovingPointSetConstPointer
typedef MovingPointSetType::PixelType	MovingPointSetPixelType
typedef MetricBase< TElastix >::MovingPointSetType	MovingPointSetType
typedef TransformType::NonZeroJacobianIndicesType	NonZeroJacobianIndicesType
typedef TransformType::OutputPointType	OutputPointType
typedef Superclass::ParametersType	ParametersType
typedef FixedPointSetType::PointDataContainer::ConstIterator	PointDataIterator
typedef SmartPointer< Self >	Pointer
typedef FixedPointSetType::PointsContainer::ConstIterator	PointIterator
typedef SingleValuedPointSetToPointSetMetric	Self
typedef SingleValuedCostFunction	Superclass
typedef TransformType::JacobianType	TransformJacobianType
typedef TransformType::ParametersType	TransformParametersType
typedef TransformType::Pointer	TransformPointer
typedef AdvancedTransform< CoordinateRepresentationType, itkGetStaticConstMacro(FixedPointSetDimension), itkGetStaticConstMacro(MovingPointSetDimension) >	TransformType
Public Types inherited from elastix::MetricBase< TElastix >
typedef itk::AdvancedImageToImageMetric< FixedImageType, MovingImageType >	AdvancedMetricType
typedef Superclass::ConfigurationPointer	ConfigurationPointer
typedef Superclass::ConfigurationType	ConfigurationType
typedef ITKBaseType::ParametersValueType	CoordinateRepresentationType
typedef Superclass::ElastixPointer	ElastixPointer
typedef Superclass::ElastixType	ElastixType
typedef ElastixType::FixedImageType	FixedImageType
typedef itk::PointSet< CoordinateRepresentationType, FixedImageDimension, itk::DefaultStaticMeshTraits< CoordinateRepresentationType, FixedImageDimension, FixedImageDimension, CoordinateRepresentationType, CoordinateRepresentationType, CoordinateRepresentationType > >	FixedPointSetType
typedef FixedImageType::PointType	FixedPointType
typedef FixedPointType::ValueType	FixedPointValueType
typedef AdvancedMetricType::ImageSamplerType	ImageSamplerBaseType
typedef itk::SingleValuedCostFunction	ITKBaseType
typedef ITKBaseType::MeasureType	MeasureType
typedef AdvancedMetricType::MovingImageDerivativeScalesType	MovingImageDerivativeScalesType
typedef ElastixType::MovingImageType	MovingImageType
typedef itk::PointSet< CoordinateRepresentationType, MovingImageDimension, itk::DefaultStaticMeshTraits< CoordinateRepresentationType, MovingImageDimension, MovingImageDimension, CoordinateRepresentationType, CoordinateRepresentationType, CoordinateRepresentationType > >	MovingPointSetType
typedef MovingImageType::PointType	MovingPointType
typedef MovingPointType::ValueType	MovingPointValueType
typedef Superclass::RegistrationPointer	RegistrationPointer
typedef Superclass::RegistrationType	RegistrationType
typedef MetricBase	Self
typedef BaseComponentSE< TElastix >	Superclass
Public Types inherited from elastix::BaseComponentSE< TElastix >
typedef Configuration::Pointer	ConfigurationPointer
typedef Configuration	ConfigurationType
typedef itk::WeakPointer< ElastixType >	ElastixPointer
typedef TElastix	ElastixType
typedef RegistrationType *	RegistrationPointer
typedef ElastixType::RegistrationBaseType	RegistrationType
typedef BaseComponentSE	Self
typedef BaseComponent	Superclass

Public Member Functions
void	BeforeEachResolution (void) override
void	BeforeRegistration (void) override
	elxClassNameMacro ("StatisticalShapePenalty")
virtual const char *	GetClassName () const
void	Initialize (void) override
	itkStaticConstMacro (FixedImageDimension, unsigned int, FixedImageType::ImageDimension)
	itkStaticConstMacro (MovingImageDimension, unsigned int, MovingImageType::ImageDimension)
unsigned int	ReadLandmarks (const std::string &landmarkFileName, typename PointSetType::Pointer &pointSet, const typename ImageType::ConstPointer image)
unsigned int	ReadShape (const std::string &ShapeFileName, typename PointSetType::Pointer &pointSet, const typename ImageType::ConstPointer image)
void	SelectNewSamples (void) override
Public Member Functions inherited from itk::StatisticalShapePointPenalty< MetricBase< TElastix >::FixedPointSetType, MetricBase< TElastix >::MovingPointSetType >
virtual void	BaseVarianceNeedsUpdateOff ()
virtual void	BaseVarianceNeedsUpdateOn ()
virtual MeasureType	GetBaseVariance ()
virtual MeasureType	GetCentroidXVariance ()
virtual MeasureType	GetCentroidYVariance ()
virtual MeasureType	GetCentroidZVariance ()
virtual const char *	GetClassName () const
virtual MeasureType	GetCutOffSharpness ()
virtual MeasureType	GetCutOffValue ()
void	GetDerivative (const TransformParametersType &parameters, DerivativeType &Derivative) const override
virtual const bool &	GetNormalizedShapeModel ()
virtual const int &	GetShapeModelCalculation ()
virtual MeasureType	GetShrinkageIntensity ()
virtual MeasureType	GetSizeVariance ()
MeasureType	GetValue (const TransformParametersType &parameters) const override
void	GetValueAndDerivative (const TransformParametersType &parameters, MeasureType &Value, DerivativeType &Derivative) const override
void	Initialize (void) override
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< MetricBase< TElastix >::FixedPointSetType, MetricBase< TElastix >::MovingPointSetType >
virtual void	BeforeThreadedGetValueAndDerivative (const TransformParametersType &parameters) const
virtual const char *	GetClassName () const
virtual const FixedImageMaskType *	GetFixedImageMask ()
virtual const FixedPointSetType *	GetFixedPointSet ()
virtual const MovingImageMaskType *	GetMovingImageMask ()
virtual const MovingPointSetType *	GetMovingPointSet ()
unsigned int	GetNumberOfParameters (void) const override
virtual const TransformType *	GetTransform ()
virtual const bool &	GetUseMetricSingleThreaded ()
virtual void	Initialize (void)
	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 ()
Public Member Functions inherited from elastix::MetricBase< TElastix >
void	AfterEachIterationBase (void) override
void	BeforeEachResolutionBase (void) override
virtual ImageSamplerBaseType *	GetAdvancedMetricImageSampler (void) const
virtual bool	GetAdvancedMetricUseImageSampler (void) const
virtual ITKBaseType *	GetAsITKBaseType (void)
virtual const ITKBaseType *	GetAsITKBaseType (void) const
virtual const char *	GetClassName () const
virtual MeasureType	GetCurrentExactMetricValue (void) const
virtual bool	GetShowExactMetricValue (void) const
	itkStaticConstMacro (FixedImageDimension, unsigned int, FixedImageType::ImageDimension)
	itkStaticConstMacro (MovingImageDimension, unsigned int, MovingImageType::ImageDimension)
virtual void	SelectNewSamples (void)
virtual void	SetAdvancedMetricImageSampler (ImageSamplerBaseType *sampler)
Public Member Functions inherited from elastix::BaseComponentSE< TElastix >
ConfigurationType *	GetConfiguration (void) const
ElastixType *	GetElastix (void) const
RegistrationPointer	GetRegistration (void) const
	ITK_DISALLOW_COPY_AND_ASSIGN (BaseComponentSE)
void	SetConfiguration (ConfigurationType *_arg)
void	SetElastix (ElastixType *_arg)
Public Member Functions inherited from elastix::BaseComponent
virtual void	AfterEachIteration (void)
virtual void	AfterEachIterationBase (void)
virtual void	AfterEachResolution (void)
virtual void	AfterEachResolutionBase (void)
virtual void	AfterRegistration (void)
virtual void	AfterRegistrationBase (void)
virtual int	BeforeAll (void)
virtual int	BeforeAllBase (void)
virtual void	BeforeEachResolution (void)
virtual void	BeforeEachResolutionBase (void)
virtual void	BeforeRegistration (void)
virtual void	BeforeRegistrationBase (void)
virtual const char *	elxGetClassName (void) const
const char *	GetComponentLabel (void) const
	ITK_DISALLOW_COPY_AND_ASSIGN (BaseComponent)
	itkTypeMacroNoParent (BaseComponent)
void	SetComponentLabel (const char *label, unsigned int idx)

Static Public Member Functions
static Pointer	New ()
Static Public Member Functions inherited from itk::StatisticalShapePointPenalty< MetricBase< TElastix >::FixedPointSetType, MetricBase< TElastix >::MovingPointSetType >
static Pointer	New ()
Static Public Member Functions inherited from elastix::BaseComponent
static std::string	ConvertSecondsToDHMS (const double totalSeconds, const unsigned int precision)
static void	InitializeElastixExecutable ()
static bool	IsElastixLibrary ()

Protected Member Functions
	StatisticalShapePenalty ()
	~StatisticalShapePenalty () override
Protected Member Functions inherited from itk::StatisticalShapePointPenalty< MetricBase< TElastix >::FixedPointSetType, MetricBase< TElastix >::MovingPointSetType >
void	PrintSelf (std::ostream &os, Indent indent) const override
	StatisticalShapePointPenalty ()
	~StatisticalShapePointPenalty () override
Protected Member Functions inherited from itk::SingleValuedPointSetToPointSetMetric< MetricBase< TElastix >::FixedPointSetType, MetricBase< TElastix >::MovingPointSetType >
void	PrintSelf (std::ostream &os, Indent indent) const override
	SingleValuedPointSetToPointSetMetric ()
	~SingleValuedPointSetToPointSetMetric () override
Protected Member Functions inherited from elastix::MetricBase< TElastix >
virtual MeasureType	GetExactValue (const ParametersType &parameters)
	MetricBase ()
	~MetricBase () override
Protected Member Functions inherited from elastix::BaseComponentSE< TElastix >
	BaseComponentSE ()=default
	~BaseComponentSE () override=default
Protected Member Functions inherited from elastix::BaseComponent
	BaseComponent ()=default
virtual	~BaseComponent ()=default

Private Member Functions
void	operator= (const Self &)
	StatisticalShapePenalty (const Self &)

Additional Inherited Members
Protected Types inherited from elastix::MetricBase< TElastix >
typedef ExactMetricImageSamplerType::Pointer	ExactMetricImageSamplerPointer
typedef itk::ImageGridSampler< FixedImageType >	ExactMetricImageSamplerType
typedef ExactMetricImageSamplerType::SampleGridSpacingType	ExactMetricSampleGridSpacingType
typedef ITKBaseType::ParametersType	ParametersType
Protected Attributes inherited from itk::SingleValuedPointSetToPointSetMetric< MetricBase< TElastix >::FixedPointSetType, MetricBase< TElastix >::MovingPointSetType >
FixedImageMaskConstPointer	m_FixedImageMask
FixedPointSetConstPointer	m_FixedPointSet
MovingImageMaskConstPointer	m_MovingImageMask
MovingPointSetConstPointer	m_MovingPointSet
unsigned int	m_NumberOfPointsCounted
TransformPointer	m_Transform
bool	m_UseMetricSingleThreaded
Protected Attributes inherited from elastix::MetricBase< TElastix >
MeasureType	m_CurrentExactMetricValue
unsigned int	m_ExactMetricEachXNumberOfIterations
ExactMetricSampleGridSpacingType	m_ExactMetricSampleGridSpacing
ExactMetricImageSamplerPointer	m_ExactMetricSampler
bool	m_ShowExactMetricValue
Protected Attributes inherited from elastix::BaseComponentSE< TElastix >
ConfigurationPointer	m_Configuration {}
ElastixPointer	m_Elastix {}
RegistrationPointer	m_Registration {}

Member Typedef Documentation

CombinationTransformType

template<class TElastix >

typedef itk::AdvancedCombinationTransform< CoordRepType, itkGetStaticConstMacro( FixedImageDimension ) > elastix::StatisticalShapePenalty< TElastix >::CombinationTransformType

Definition at line 122 of file elxStatisticalShapePenalty.h.

ConfigurationPointer

template<class TElastix >

typedef Superclass2::ConfigurationPointer elastix::StatisticalShapePenalty< TElastix >::ConfigurationPointer

Definition at line 130 of file elxStatisticalShapePenalty.h.

ConfigurationType

template<class TElastix >

typedef Superclass2::ConfigurationType elastix::StatisticalShapePenalty< TElastix >::ConfigurationType

Definition at line 129 of file elxStatisticalShapePenalty.h.

ConstPointer

template<class TElastix >

typedef SmartPointer< const Self > elastix::StatisticalShapePenalty< TElastix >::ConstPointer

Definition at line 73 of file elxStatisticalShapePenalty.h.

CoordinateRepresentationType

template<class TElastix >

typedef Superclass1::CoordinateRepresentationType elastix::StatisticalShapePenalty< TElastix >::CoordinateRepresentationType

Typedefs from the superclass.

Definition at line 89 of file elxStatisticalShapePenalty.h.

CoordRepType

template<class TElastix >

typedef OutputPointType::CoordRepType elastix::StatisticalShapePenalty< TElastix >::CoordRepType

Definition at line 111 of file elxStatisticalShapePenalty.h.

DerivativeType

template<class TElastix >

typedef Superclass1::DerivativeType elastix::StatisticalShapePenalty< TElastix >::DerivativeType

Definition at line 108 of file elxStatisticalShapePenalty.h.

ElastixPointer

template<class TElastix >

typedef Superclass2::ElastixPointer elastix::StatisticalShapePenalty< TElastix >::ElastixPointer

Definition at line 128 of file elxStatisticalShapePenalty.h.

ElastixType

template<class TElastix >

typedef Superclass2::ElastixType elastix::StatisticalShapePenalty< TElastix >::ElastixType

Typedefs inherited from elastix.

Definition at line 127 of file elxStatisticalShapePenalty.h.

FixedImageMaskPointer

template<class TElastix >

typedef Superclass1::FixedImageMaskPointer elastix::StatisticalShapePenalty< TElastix >::FixedImageMaskPointer

Definition at line 104 of file elxStatisticalShapePenalty.h.

FixedImageMaskType

template<class TElastix >

typedef Superclass1::FixedImageMaskType elastix::StatisticalShapePenalty< TElastix >::FixedImageMaskType

Definition at line 103 of file elxStatisticalShapePenalty.h.

FixedImageType

template<class TElastix >

typedef Superclass2::FixedImageType elastix::StatisticalShapePenalty< TElastix >::FixedImageType

Definition at line 134 of file elxStatisticalShapePenalty.h.

FixedPointSetConstPointer

template<class TElastix >

typedef Superclass1::FixedPointSetConstPointer elastix::StatisticalShapePenalty< TElastix >::FixedPointSetConstPointer

Definition at line 91 of file elxStatisticalShapePenalty.h.

FixedPointSetType

template<class TElastix >

typedef Superclass1::FixedPointSetType elastix::StatisticalShapePenalty< TElastix >::FixedPointSetType

Definition at line 90 of file elxStatisticalShapePenalty.h.

ImageType

template<class TElastix >

typedef FixedImageType elastix::StatisticalShapePenalty< TElastix >::ImageType

Definition at line 149 of file elxStatisticalShapePenalty.h.

InitialTransformType

template<class TElastix >

typedef CombinationTransformType::InitialTransformType elastix::StatisticalShapePenalty< TElastix >::InitialTransformType

Definition at line 124 of file elxStatisticalShapePenalty.h.

InputPointType

template<class TElastix >

typedef Superclass1::InputPointType elastix::StatisticalShapePenalty< TElastix >::InputPointType

Definition at line 98 of file elxStatisticalShapePenalty.h.

ITKBaseType

template<class TElastix >

typedef Superclass2::ITKBaseType elastix::StatisticalShapePenalty< TElastix >::ITKBaseType

Definition at line 133 of file elxStatisticalShapePenalty.h.

MeasureType

template<class TElastix >

typedef Superclass1::MeasureType elastix::StatisticalShapePenalty< TElastix >::MeasureType

Definition at line 107 of file elxStatisticalShapePenalty.h.

MovingImageMaskPointer

template<class TElastix >

typedef Superclass1::MovingImageMaskPointer elastix::StatisticalShapePenalty< TElastix >::MovingImageMaskPointer

Definition at line 106 of file elxStatisticalShapePenalty.h.

MovingImageMaskType

template<class TElastix >

typedef Superclass1::MovingImageMaskType elastix::StatisticalShapePenalty< TElastix >::MovingImageMaskType

Definition at line 105 of file elxStatisticalShapePenalty.h.

MovingImageType

template<class TElastix >

typedef Superclass2::MovingImageType elastix::StatisticalShapePenalty< TElastix >::MovingImageType

Definition at line 135 of file elxStatisticalShapePenalty.h.

MovingPointSetConstPointer

template<class TElastix >

typedef Superclass1::MovingPointSetConstPointer elastix::StatisticalShapePenalty< TElastix >::MovingPointSetConstPointer

Definition at line 93 of file elxStatisticalShapePenalty.h.

MovingPointSetType

template<class TElastix >

typedef Superclass1::MovingPointSetType elastix::StatisticalShapePenalty< TElastix >::MovingPointSetType

Definition at line 92 of file elxStatisticalShapePenalty.h.

ObjectType

template<class TElastix >

typedef itk::Object elastix::StatisticalShapePenalty< TElastix >::ObjectType

Other typedef's.

Definition at line 115 of file elxStatisticalShapePenalty.h.

OutputPointType

template<class TElastix >

typedef Superclass1::OutputPointType elastix::StatisticalShapePenalty< TElastix >::OutputPointType

Definition at line 99 of file elxStatisticalShapePenalty.h.

ParametersType

template<class TElastix >

typedef Superclass1::ParametersType elastix::StatisticalShapePenalty< TElastix >::ParametersType

Definition at line 109 of file elxStatisticalShapePenalty.h.

Pointer

template<class TElastix >

typedef SmartPointer< Self > elastix::StatisticalShapePenalty< TElastix >::Pointer

Definition at line 72 of file elxStatisticalShapePenalty.h.

PointSetType

template<class TElastix >

typedef FixedPointSetType elastix::StatisticalShapePenalty< TElastix >::PointSetType

Assuming fixed and moving pointsets are of equal type, which implicitly assumes that the fixed and moving image are of the same type.

Definition at line 148 of file elxStatisticalShapePenalty.h.

RegistrationPointer

template<class TElastix >

typedef Superclass2::RegistrationPointer elastix::StatisticalShapePenalty< TElastix >::RegistrationPointer

Definition at line 132 of file elxStatisticalShapePenalty.h.

RegistrationType

template<class TElastix >

typedef Superclass2::RegistrationType elastix::StatisticalShapePenalty< TElastix >::RegistrationType

Definition at line 131 of file elxStatisticalShapePenalty.h.

Self

template<class TElastix >

typedef StatisticalShapePenalty elastix::StatisticalShapePenalty< TElastix >::Self

Standard ITK-stuff.

Definition at line 67 of file elxStatisticalShapePenalty.h.

Superclass1

template<class TElastix >

typedef StatisticalShapePointPenalty< typename MetricBase< TElastix >::FixedPointSetType, typename MetricBase< TElastix >::MovingPointSetType > elastix::StatisticalShapePenalty< TElastix >::Superclass1

Definition at line 70 of file elxStatisticalShapePenalty.h.

Superclass2

template<class TElastix >

typedef MetricBase< TElastix > elastix::StatisticalShapePenalty< TElastix >::Superclass2

Definition at line 71 of file elxStatisticalShapePenalty.h.

TransformJacobianType

template<class TElastix >

typedef Superclass1::TransformJacobianType elastix::StatisticalShapePenalty< TElastix >::TransformJacobianType

Definition at line 101 of file elxStatisticalShapePenalty.h.

TransformParametersType

template<class TElastix >

typedef Superclass1::TransformParametersType elastix::StatisticalShapePenalty< TElastix >::TransformParametersType

Definition at line 100 of file elxStatisticalShapePenalty.h.

TransformPointer

template<class TElastix >

typedef Superclass1::TransformPointer elastix::StatisticalShapePenalty< TElastix >::TransformPointer

Definition at line 97 of file elxStatisticalShapePenalty.h.

TransformType

template<class TElastix >

typedef Superclass1::TransformType elastix::StatisticalShapePenalty< TElastix >::TransformType

Definition at line 96 of file elxStatisticalShapePenalty.h.

VnlVectorType

template<class TElastix >

typedef vnl_vector< CoordRepType > elastix::StatisticalShapePenalty< TElastix >::VnlVectorType

Definition at line 112 of file elxStatisticalShapePenalty.h.

Constructor & Destructor Documentation

StatisticalShapePenalty() [1/2]

template<class TElastix >

elastix::StatisticalShapePenalty< TElastix >::StatisticalShapePenalty ( )

inlineprotected

The constructor.

Definition at line 181 of file elxStatisticalShapePenalty.h.

~StatisticalShapePenalty()

template<class TElastix >

elastix::StatisticalShapePenalty< TElastix >::~StatisticalShapePenalty ( )

inlineoverrideprotected

The destructor.

Definition at line 183 of file elxStatisticalShapePenalty.h.

StatisticalShapePenalty() [2/2]

template<class TElastix >

elastix::StatisticalShapePenalty< TElastix >::StatisticalShapePenalty ( const Self &  )

private

The private constructor.

Member Function Documentation

BeforeEachResolution()

template<class TElastix >

void elastix::StatisticalShapePenalty< TElastix >::BeforeEachResolution ( void  )

overridevirtual

Reimplemented from elastix::BaseComponent.

BeforeRegistration()

template<class TElastix >

void elastix::StatisticalShapePenalty< TElastix >::BeforeRegistration ( void  )

overridevirtual

Do some things before registration:

• Load and set the pointsets.

Reimplemented from elastix::BaseComponent.

elxClassNameMacro()

template<class TElastix >

elastix::StatisticalShapePenalty< TElastix >::elxClassNameMacro

(

"StatisticalShapePenalty< TElastix >"

)

Name of this class. Use this name in the parameter file to select this specific metric.
example: (Metric "StatisticalShapePenalty")

GetClassName()

template<class TElastix >

virtual const char * elastix::StatisticalShapePenalty< TElastix >::GetClassName ( ) const

virtual

Run-time type information (and related methods).

Reimplemented from elastix::MetricBase< TElastix >.

Initialize()

template<class TElastix >

void elastix::StatisticalShapePenalty< TElastix >::Initialize ( void  )

overridevirtual

Sets up a timer to measure the initialization time and calls the Superclass' implementation.

Reimplemented from itk::SingleValuedPointSetToPointSetMetric< MetricBase< TElastix >::FixedPointSetType, MetricBase< TElastix >::MovingPointSetType >.

itkStaticConstMacro() [1/2]

template<class TElastix >

elastix::StatisticalShapePenalty< TElastix >::itkStaticConstMacro	(	FixedImageDimension	,
		unsigned int	,
		FixedImageType::ImageDimension
	)

The fixed image dimension.

itkStaticConstMacro() [2/2]

template<class TElastix >

elastix::StatisticalShapePenalty< TElastix >::itkStaticConstMacro	(	MovingImageDimension	,
		unsigned int	,
		MovingImageType::ImageDimension
	)

The moving image dimension.

New()

template<class TElastix >

static Pointer elastix::StatisticalShapePenalty< TElastix >::New ( )

static

Method for creation through the object factory.

operator=()

template<class TElastix >

void elastix::StatisticalShapePenalty< TElastix >::operator= ( const Self &  )

private

The private copy constructor.

ReadLandmarks()

template<class TElastix >

unsigned int elastix::StatisticalShapePenalty< TElastix >::ReadLandmarks	(	const std::string &	landmarkFileName,
		typename PointSetType::Pointer &	pointSet,
		const typename ImageType::ConstPointer	image
	)

Function to read the corresponding points.

ReadShape()

template<class TElastix >

unsigned int elastix::StatisticalShapePenalty< TElastix >::ReadShape	(	const std::string &	ShapeFileName,
		typename PointSetType::Pointer &	pointSet,
		const typename ImageType::ConstPointer	image
	)

SelectNewSamples()

template<class TElastix >

void elastix::StatisticalShapePenalty< TElastix >::SelectNewSamples ( void  )

inlineoverridevirtual

Overwrite to silence warning.

Reimplemented from elastix::MetricBase< TElastix >.

Definition at line 176 of file elxStatisticalShapePenalty.h.