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#include <elxStatisticalShapePenalty.h>
An metric based on the itk::StatisticalShapePointPenalty.
The parameters used in this class are:
Metric: Select this metric as follows:
(Metric "StatisticalShapePenalty")
ShrinkageIntensity: The mixing ratio ($$) of the provided covariance matrix and an identity matrix. $' = (1-) + ^2 I$ Can be defined for each resolution
example: (ShrinkageIntensity 0.2)
BaseVariance: The width ($^2$) of the non-informative prior. Can be defined for each resolution
example: (BaseVariance 1000.0)
Definition at line 59 of file elxStatisticalShapePenalty.h.
Public Member Functions | |
virtual void | BeforeEachResolution (void) |
virtual void | BeforeRegistration (void) |
elxClassNameMacro ("StatisticalShapePenalty") | |
virtual const char * | GetClassName () const |
virtual void | Initialize (void) throw ( ExceptionObject ) |
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) |
virtual void | SelectNewSamples (void) |
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virtual void | BaseVarianceNeedsUpdateOff () |
virtual void | BaseVarianceNeedsUpdateOn () |
virtual MeasureType | GetBaseVariance () |
virtual MeasureType | GetCentroidXVariance () |
virtual MeasureType | GetCentroidYVariance () |
virtual MeasureType | GetCentroidZVariance () |
virtual MeasureType | GetCutOffSharpness () |
virtual MeasureType | GetCutOffValue () |
void | GetDerivative (const TransformParametersType ¶meters, DerivativeType &Derivative) const |
virtual const bool & | GetNormalizedShapeModel () |
virtual const int & | GetShapeModelCalculation () |
virtual MeasureType | GetShrinkageIntensity () |
virtual MeasureType | GetSizeVariance () |
MeasureType | GetValue (const TransformParametersType ¶meters) const |
void | GetValueAndDerivative (const TransformParametersType ¶meters, MeasureType &Value, DerivativeType &Derivative) const |
void | Initialize (void) throw ( ExceptionObject ) |
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 () |
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virtual void | BeforeThreadedGetValueAndDerivative (const TransformParametersType ¶meters) const |
virtual const FixedImageMaskType * | GetFixedImageMask () |
virtual const FixedPointSetType * | GetFixedPointSet () |
virtual const MovingImageMaskType * | GetMovingImageMask () |
virtual const MovingPointSetType * | GetMovingPointSet () |
unsigned int | GetNumberOfParameters (void) const |
virtual const TransformType * | GetTransform () |
virtual const bool & | GetUseMetricSingleThreaded () |
itkStaticConstMacro (FixedPointSetDimension, unsigned int, MetricBase< TElastix >::FixedPointSetType::PointDimension) | |
itkStaticConstMacro (MovingPointSetDimension, unsigned int, MetricBase< TElastix >::MovingPointSetType::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 ¶meters) const |
virtual void | SetUseMetricSingleThreaded (bool _arg) |
virtual void | UseMetricSingleThreadedOff () |
virtual void | UseMetricSingleThreadedOn () |
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virtual void | AfterEachIterationBase (void) |
virtual void | BeforeEachResolutionBase (void) |
virtual ImageSamplerBaseType * | GetAdvancedMetricImageSampler (void) const |
virtual bool | GetAdvancedMetricUseImageSampler (void) const |
virtual ITKBaseType * | GetAsITKBaseType (void) |
virtual const ITKBaseType * | GetAsITKBaseType (void) 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 | SetAdvancedMetricImageSampler (ImageSamplerBaseType *sampler) |
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virtual ConfigurationType * | GetConfiguration (void) const |
virtual ElastixType * | GetElastix (void) const |
virtual RegistrationPointer | GetRegistration (void) const |
virtual void | SetConfiguration (ConfigurationType *_arg) |
virtual void | SetElastix (ElastixType *_arg) |
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virtual void | AfterEachIteration (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 | BeforeRegistrationBase (void) |
std::string | ConvertSecondsToDHMS (const double totalSeconds, const unsigned int precision) const |
virtual const char * | elxGetClassName (void) const |
virtual const char * | GetComponentLabel (void) const |
virtual void | SetComponentLabel (const char *label, unsigned int idx) |
Static Public Member Functions | |
static Pointer | New () |
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static Pointer | New () |
Private Member Functions | |
void | operator= (const Self &) |
StatisticalShapePenalty (const Self &) | |
typedef itk::AdvancedCombinationTransform< CoordRepType, itkGetStaticConstMacro( FixedImageDimension ) > elastix::StatisticalShapePenalty< TElastix >::CombinationTransformType |
Definition at line 123 of file elxStatisticalShapePenalty.h.
typedef Superclass2::ConfigurationPointer elastix::StatisticalShapePenalty< TElastix >::ConfigurationPointer |
Definition at line 131 of file elxStatisticalShapePenalty.h.
typedef Superclass2::ConfigurationType elastix::StatisticalShapePenalty< TElastix >::ConfigurationType |
Definition at line 130 of file elxStatisticalShapePenalty.h.
typedef SmartPointer< const Self > elastix::StatisticalShapePenalty< TElastix >::ConstPointer |
Definition at line 74 of file elxStatisticalShapePenalty.h.
typedef Superclass1::CoordinateRepresentationType elastix::StatisticalShapePenalty< TElastix >::CoordinateRepresentationType |
Typedefs from the superclass.
Definition at line 90 of file elxStatisticalShapePenalty.h.
typedef OutputPointType::CoordRepType elastix::StatisticalShapePenalty< TElastix >::CoordRepType |
Definition at line 112 of file elxStatisticalShapePenalty.h.
typedef Superclass1::DerivativeType elastix::StatisticalShapePenalty< TElastix >::DerivativeType |
Definition at line 109 of file elxStatisticalShapePenalty.h.
typedef Superclass2::ElastixPointer elastix::StatisticalShapePenalty< TElastix >::ElastixPointer |
Definition at line 129 of file elxStatisticalShapePenalty.h.
typedef Superclass2::ElastixType elastix::StatisticalShapePenalty< TElastix >::ElastixType |
Typedefs inherited from elastix.
Definition at line 128 of file elxStatisticalShapePenalty.h.
typedef Superclass1::FixedImageMaskPointer elastix::StatisticalShapePenalty< TElastix >::FixedImageMaskPointer |
Definition at line 105 of file elxStatisticalShapePenalty.h.
typedef Superclass1::FixedImageMaskType elastix::StatisticalShapePenalty< TElastix >::FixedImageMaskType |
Definition at line 104 of file elxStatisticalShapePenalty.h.
typedef Superclass2::FixedImageType elastix::StatisticalShapePenalty< TElastix >::FixedImageType |
Definition at line 135 of file elxStatisticalShapePenalty.h.
typedef Superclass1::FixedPointSetConstPointer elastix::StatisticalShapePenalty< TElastix >::FixedPointSetConstPointer |
Definition at line 92 of file elxStatisticalShapePenalty.h.
typedef Superclass1::FixedPointSetType elastix::StatisticalShapePenalty< TElastix >::FixedPointSetType |
Definition at line 91 of file elxStatisticalShapePenalty.h.
typedef FixedImageType elastix::StatisticalShapePenalty< TElastix >::ImageType |
Definition at line 150 of file elxStatisticalShapePenalty.h.
typedef CombinationTransformType::InitialTransformType elastix::StatisticalShapePenalty< TElastix >::InitialTransformType |
Definition at line 125 of file elxStatisticalShapePenalty.h.
typedef Superclass1::InputPointType elastix::StatisticalShapePenalty< TElastix >::InputPointType |
Definition at line 99 of file elxStatisticalShapePenalty.h.
typedef Superclass2::ITKBaseType elastix::StatisticalShapePenalty< TElastix >::ITKBaseType |
Definition at line 134 of file elxStatisticalShapePenalty.h.
typedef Superclass1::MeasureType elastix::StatisticalShapePenalty< TElastix >::MeasureType |
Definition at line 108 of file elxStatisticalShapePenalty.h.
typedef Superclass1::MovingImageMaskPointer elastix::StatisticalShapePenalty< TElastix >::MovingImageMaskPointer |
Definition at line 107 of file elxStatisticalShapePenalty.h.
typedef Superclass1::MovingImageMaskType elastix::StatisticalShapePenalty< TElastix >::MovingImageMaskType |
Definition at line 106 of file elxStatisticalShapePenalty.h.
typedef Superclass2::MovingImageType elastix::StatisticalShapePenalty< TElastix >::MovingImageType |
Definition at line 136 of file elxStatisticalShapePenalty.h.
typedef Superclass1::MovingPointSetConstPointer elastix::StatisticalShapePenalty< TElastix >::MovingPointSetConstPointer |
Definition at line 94 of file elxStatisticalShapePenalty.h.
typedef Superclass1::MovingPointSetType elastix::StatisticalShapePenalty< TElastix >::MovingPointSetType |
Definition at line 93 of file elxStatisticalShapePenalty.h.
typedef itk::Object elastix::StatisticalShapePenalty< TElastix >::ObjectType |
Other typedef's.
Definition at line 116 of file elxStatisticalShapePenalty.h.
typedef Superclass1::OutputPointType elastix::StatisticalShapePenalty< TElastix >::OutputPointType |
Definition at line 100 of file elxStatisticalShapePenalty.h.
typedef Superclass1::ParametersType elastix::StatisticalShapePenalty< TElastix >::ParametersType |
Definition at line 110 of file elxStatisticalShapePenalty.h.
typedef SmartPointer< Self > elastix::StatisticalShapePenalty< TElastix >::Pointer |
Definition at line 73 of file elxStatisticalShapePenalty.h.
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 149 of file elxStatisticalShapePenalty.h.
typedef Superclass2::RegistrationPointer elastix::StatisticalShapePenalty< TElastix >::RegistrationPointer |
Definition at line 133 of file elxStatisticalShapePenalty.h.
typedef Superclass2::RegistrationType elastix::StatisticalShapePenalty< TElastix >::RegistrationType |
Definition at line 132 of file elxStatisticalShapePenalty.h.
typedef StatisticalShapePenalty elastix::StatisticalShapePenalty< TElastix >::Self |
Standard ITK-stuff.
Definition at line 68 of file elxStatisticalShapePenalty.h.
typedef StatisticalShapePointPenalty< typename MetricBase< TElastix >::FixedPointSetType, typename MetricBase< TElastix >::MovingPointSetType > elastix::StatisticalShapePenalty< TElastix >::Superclass1 |
Definition at line 71 of file elxStatisticalShapePenalty.h.
typedef MetricBase< TElastix > elastix::StatisticalShapePenalty< TElastix >::Superclass2 |
Definition at line 72 of file elxStatisticalShapePenalty.h.
typedef Superclass1::TransformJacobianType elastix::StatisticalShapePenalty< TElastix >::TransformJacobianType |
Definition at line 102 of file elxStatisticalShapePenalty.h.
typedef Superclass1::TransformParametersType elastix::StatisticalShapePenalty< TElastix >::TransformParametersType |
Definition at line 101 of file elxStatisticalShapePenalty.h.
typedef Superclass1::TransformPointer elastix::StatisticalShapePenalty< TElastix >::TransformPointer |
Definition at line 98 of file elxStatisticalShapePenalty.h.
typedef Superclass1::TransformType elastix::StatisticalShapePenalty< TElastix >::TransformType |
Definition at line 97 of file elxStatisticalShapePenalty.h.
typedef vnl_vector< CoordRepType > elastix::StatisticalShapePenalty< TElastix >::VnlVectorType |
Definition at line 113 of file elxStatisticalShapePenalty.h.
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inlineprotected |
The constructor.
Definition at line 182 of file elxStatisticalShapePenalty.h.
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inlineprotectedvirtual |
The destructor.
Definition at line 184 of file elxStatisticalShapePenalty.h.
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private |
The private constructor.
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virtual |
Reimplemented from elastix::BaseComponent.
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virtual |
Do some things before registration:
Reimplemented from elastix::BaseComponent.
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")
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virtual |
Run-time type information (and related methods).
Reimplemented from elastix::MetricBase< TElastix >.
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virtual |
Sets up a timer to measure the initialization time and calls the Superclass' implementation.
Reimplemented from itk::SingleValuedPointSetToPointSetMetric< MetricBase< TElastix >::FixedPointSetType, MetricBase< TElastix >::MovingPointSetType >.
elastix::StatisticalShapePenalty< TElastix >::itkStaticConstMacro | ( | FixedImageDimension | , |
unsigned | int, | ||
FixedImageType::ImageDimension | |||
) |
The fixed image dimension.
elastix::StatisticalShapePenalty< TElastix >::itkStaticConstMacro | ( | MovingImageDimension | , |
unsigned | int, | ||
MovingImageType::ImageDimension | |||
) |
The moving image dimension.
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static |
Method for creation through the object factory.
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private |
The private copy constructor.
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.
unsigned int elastix::StatisticalShapePenalty< TElastix >::ReadShape | ( | const std::string & | ShapeFileName, |
typename PointSetType::Pointer & | pointSet, | ||
const typename ImageType::ConstPointer | image | ||
) |
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inlinevirtual |
Overwrite to silence warning.
Reimplemented from elastix::MetricBase< TElastix >.
Definition at line 177 of file elxStatisticalShapePenalty.h.
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