#include <itkScalarChanAndVeseLevelSetFunction.h>

Inheritance diagram for itk::ScalarChanAndVeseLevelSetFunction< TInputImage, TFeatureImage, TSharedData >:

Collaboration diagram for itk::ScalarChanAndVeseLevelSetFunction< TInputImage, TFeatureImage, TSharedData >:

Detailed Description

template<typename TInputImage, typename TFeatureImage, typename TSharedData = ConstrainedRegionBasedLevelSetFunctionSharedData< TInputImage, TFeatureImage, ScalarChanAndVeseLevelSetFunctionData< TInputImage, TFeatureImage > >>
class itk::ScalarChanAndVeseLevelSetFunction< TInputImage, TFeatureImage, TSharedData >

LevelSet function that computes a speed image based on regional integrals of probabilities.

This class implements a level set function that computes the speed image by integrating values on the image domain.

Author: Mosaliganti K., Smith B., Gelas A., Gouaillard A., Megason S.

Based on the papers:

   "An active contour model without edges"
    T. Chan and L. Vese.
    In Scale-Space Theories in Computer Vision, pages 141-151, 1999.

    "Segmenting and Tracking Fluorescent Cells in Dynamic 3-D
     Microscopy With Coupled Active Surfaces"
     Dufour, Shinin, Tajbakhsh, Guillen-Aghion, Olivo-Marin
     In IEEE Transactions on Image Processing, vol. 14, No 9, Sep. 2005

This code was taken from the Insight Journal paper:

"Cell Tracking using Coupled Active Surfaces for Nuclei and Membranes"
http://www.insight-journal.org/browse/publication/642
http://hdl.handle.net/10380/3055

That is based on the papers:

"Level Set Segmentation: Active Contours without edge"
http://www.insight-journal.org/browse/publication/322
http://hdl.handle.net/1926/1532

and

"Level set segmentation using coupled active surfaces"
http://www.insight-journal.org/browse/publication/323
http://hdl.handle.net/1926/1533

Wiki Examples:

Definition at line 78 of file itkScalarChanAndVeseLevelSetFunction.h.

Public Types
typedef Superclass::ConstFeatureIteratorType	ConstFeatureIteratorType

typedef Superclass::ConstImageIteratorType	ConstImageIteratorType

typedef SmartPointer< const Self >	ConstPointer

typedef FeatureImageType::ConstPointer	FeatureImageConstPointer

typedef Superclass::FeatureImageIteratorType	FeatureImageIteratorType

typedef TFeatureImage	FeatureImageType

typedef Superclass::FeatureIndexType	FeatureIndexType

typedef Superclass::FeatureOffsetType	FeatureOffsetType

typedef Superclass::FeaturePixelType	FeaturePixelType

typedef Superclass::FloatOffsetType	FloatOffsetType

typedef Superclass::GlobalDataStruct	GlobalDataStruct

typedef Superclass::ImageIteratorType	ImageIteratorType

typedef Superclass::InputImageConstPointer	InputImageConstPointer

typedef Superclass::InputImagePointer	InputImagePointer

typedef TInputImage	InputImageType

typedef Superclass::InputIndexType	InputIndexType

typedef Superclass::InputIndexValueType	InputIndexValueType

typedef Superclass::InputPixelType	InputPixelType

typedef Superclass::InputPointType	InputPointType

typedef Superclass::InputRegionType	InputRegionType

typedef Superclass::InputSizeType	InputSizeType

typedef Superclass::InputSizeValueType	InputSizeValueType

typedef Superclass::ListImageType	ListImageType

typedef Superclass::ListPixelConstIterator	ListPixelConstIterator

typedef Superclass::ListPixelIterator	ListPixelIterator

typedef Superclass::ListPixelType	ListPixelType

typedef Superclass::NeighborhoodType	NeighborhoodType

typedef Superclass::PixelType	PixelType

typedef SmartPointer< Self >	Pointer

typedef Superclass::RadiusType	RadiusType

typedef Superclass::ScalarValueType	ScalarValueType

typedef ScalarChanAndVeseLevelSetFunction	Self

typedef Superclass::SharedDataPointer	SharedDataPointer

typedef Superclass::SharedDataType	SharedDataType

typedef ScalarRegionBasedLevelSetFunction < TInputImage, TFeatureImage, TSharedData >	Superclass

typedef Superclass::TimeStepType	TimeStepType

typedef Superclass::VectorType	VectorType

Public Types inherited from itk::ScalarRegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >
typedef ImageRegionConstIterator < FeatureImageType >	ConstFeatureIteratorType

typedef ImageRegionConstIteratorWithIndex < InputImageType >	ConstImageIteratorType

typedef SmartPointer< const Self >	ConstPointer

typedef FeatureImageType::ConstPointer	FeatureImageConstPointer

typedef ImageRegionIteratorWithIndex < FeatureImageType >	FeatureImageIteratorType

typedef Superclass::FeatureImageType	FeatureImageType

typedef Superclass::FeatureIndexType	FeatureIndexType

typedef Superclass::FeatureOffsetType	FeatureOffsetType

typedef Superclass::FeaturePixelType	FeaturePixelType

typedef Superclass::FloatOffsetType	FloatOffsetType

typedef Superclass::GlobalDataStruct	GlobalDataStruct

typedef ImageRegionIteratorWithIndex < InputImageType >	ImageIteratorType

typedef Superclass::InputImageConstPointer	InputImageConstPointer

typedef Superclass::InputImagePointer	InputImagePointer

typedef Superclass::InputImageType	InputImageType

typedef Superclass::InputIndexType	InputIndexType

typedef Superclass::InputIndexValueType	InputIndexValueType

typedef Superclass::InputPixelType	InputPixelType

typedef Superclass::InputPointType	InputPointType

typedef Superclass::InputRegionType	InputRegionType

typedef Superclass::InputSizeType	InputSizeType

typedef Superclass::InputSizeValueType	InputSizeValueType

typedef Image< ListPixelType, itkGetStaticConstMacro(ImageDimension) >	ListImageType

typedef ListPixelType::const_iterator	ListPixelConstIterator

typedef ListPixelType::iterator	ListPixelIterator

typedef std::list< unsigned int >	ListPixelType

typedef Superclass::NeighborhoodType	NeighborhoodType

typedef Superclass::PixelType	PixelType

typedef SmartPointer< Self >	Pointer

typedef Superclass::RadiusType	RadiusType

typedef Superclass::ScalarValueType	ScalarValueType

typedef ScalarRegionBasedLevelSetFunction	Self

typedef Superclass::SharedDataPointer	SharedDataPointer

typedef Superclass::SharedDataType	SharedDataType

typedef RegionBasedLevelSetFunction < TInputImage, TFeatureImage, TSharedData >	Superclass

typedef Superclass::TimeStepType	TimeStepType

typedef Superclass::VectorType	VectorType

Public Types inherited from itk::RegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >
typedef SmartPointer< const Self >	ConstPointer

typedef FeatureImageType::ConstPointer	FeatureImageConstPointer

typedef TFeatureImage	FeatureImageType

typedef FeatureImageType::IndexType	FeatureIndexType

typedef FeatureImageType::OffsetType	FeatureOffsetType

typedef FeatureImageType::PixelType	FeaturePixelType

typedef FeatureImageType::SpacingType	FeatureSpacingType

typedef Superclass::FloatOffsetType	FloatOffsetType

typedef HeavisideFunctionType::ConstPointer	HeavisideFunctionConstPointer

typedef HeavisideStepFunctionBase < InputPixelType, InputPixelType >	HeavisideFunctionType

typedef Superclass::ImageType	ImageType

typedef InputImageType::ConstPointer	InputImageConstPointer

typedef InputImageType::Pointer	InputImagePointer

typedef TInputImage	InputImageType

typedef InputImageType::IndexType	InputIndexType

typedef InputImageType::IndexValueType	InputIndexValueType

typedef InputImageType::PixelType	InputPixelType

typedef InputImageType::PointType	InputPointType

typedef InputImageType::RegionType	InputRegionType

typedef InputImageType::SizeType	InputSizeType

typedef InputImageType::SizeValueType	InputSizeValueType

typedef Superclass::NeighborhoodScalesType	NeighborhoodScalesType

typedef Superclass::NeighborhoodType	NeighborhoodType

typedef Superclass::PixelType	PixelType

typedef SmartPointer< Self >	Pointer

typedef Superclass::RadiusType	RadiusType

typedef PixelType	ScalarValueType

typedef RegionBasedLevelSetFunction	Self

typedef SharedDataType::Pointer	SharedDataPointer

typedef TSharedData	SharedDataType

typedef FiniteDifferenceFunction < TInputImage >	Superclass

typedef double	TimeStepType

typedef FixedArray < ScalarValueType, itkGetStaticConstMacro(ImageDimension) >	VectorType

Public Types inherited from itk::FiniteDifferenceFunction< TInputImage >
typedef SmartPointer< const Self >	ConstPointer

typedef ZeroFluxNeumannBoundaryCondition < ImageType >	DefaultBoundaryConditionType

typedef Vector< float, itkGetStaticConstMacro(ImageDimension) >	FloatOffsetType

typedef TInputImage	ImageType

typedef Vector< PixelRealType, itkGetStaticConstMacro(ImageDimension) >	NeighborhoodScalesType

typedef ConstNeighborhoodIterator < TInputImage, DefaultBoundaryConditionType >	NeighborhoodType

typedef double	PixelRealType

typedef ImageType::PixelType	PixelType

typedef SmartPointer< Self >	Pointer

typedef ConstNeighborhoodIterator < TInputImage >::RadiusType	RadiusType

typedef FiniteDifferenceFunction	Self

typedef LightObject	Superclass

typedef double	TimeStepType

Public Types inherited from itk::LightObject
typedef SmartPointer< const Self >	ConstPointer

typedef SmartPointer< Self >	Pointer

typedef LightObject	Self

Public Member Functions
virtual ::itk::LightObject::Pointer	CreateAnother (void) const

virtual const char *	GetNameOfClass () const

Public Member Functions inherited from itk::ScalarRegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >
void	UpdatePixel (const unsigned int &idx, NeighborhoodIterator< TInputImage > &iterator, InputPixelType &newValue, bool &status)

Public Member Functions inherited from itk::RegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >
virtual VectorType	AdvectionField (const NeighborhoodType &, const FloatOffsetType &, GlobalDataStruct *=0) const

virtual void	CalculateAdvectionImage ()

virtual ScalarValueType	ComputeCurvature (const NeighborhoodType &, const FloatOffsetType &, GlobalDataStruct *gd)

TimeStepType	ComputeGlobalTimeStep (void *GlobalData) const

virtual PixelType	ComputeUpdate (const NeighborhoodType &neighborhood, void *globalData, const FloatOffsetType &=FloatOffsetType(0.0))

virtual ScalarValueType	CurvatureSpeed (const NeighborhoodType &, const FloatOffsetType &, GlobalDataStruct *=0) const

ScalarValueType	GetAdvectionWeight () const

virtual const FeatureImageType *	GetFeatureImage () const

void *	GetGlobalDataPointer () const

virtual void	Initialize (const RadiusType &r)

virtual ScalarValueType	LaplacianSmoothingSpeed (const NeighborhoodType &, const FloatOffsetType &, GlobalDataStruct *=0) const

virtual void	ReleaseGlobalDataPointer (void *GlobalData) const

void	SetAdvectionWeight (const ScalarValueType &iA)

void	SetDomainFunction (const HeavisideFunctionType *f)

virtual void	SetFeatureImage (const FeatureImageType *f)

void	SetFunctionId (const unsigned int &iFid)

void	SetInitialImage (InputImageType *f)

void	SetSharedData (SharedDataPointer sharedDataIn)

void	UpdateSharedData (bool forceUpdate)

void	SetAreaWeight (const ScalarValueType &nu)

ScalarValueType	GetAreaWeight () const

void	SetLambda1 (const ScalarValueType &lambda1)

ScalarValueType	GetLambda1 () const

void	SetLambda2 (const ScalarValueType &lambda2)

ScalarValueType	GetLambda2 () const

void	SetOverlapPenaltyWeight (const ScalarValueType &gamma)

ScalarValueType	GetOverlapPenaltyWeight () const

virtual void	SetCurvatureWeight (const ScalarValueType c)

ScalarValueType	GetCurvatureWeight () const

void	SetReinitializationSmoothingWeight (const ScalarValueType c)

ScalarValueType	GetReinitializationSmoothingWeight () const

void	SetVolumeMatchingWeight (const ScalarValueType &tau)

ScalarValueType	GetVolumeMatchingWeight () const

void	SetVolume (const ScalarValueType &volume)

ScalarValueType	GetVolume () const

Public Member Functions inherited from itk::FiniteDifferenceFunction< TInputImage >
const NeighborhoodScalesType	ComputeNeighborhoodScales () const

const RadiusType &	GetRadius () const

void	GetScaleCoefficients (PixelRealType vals[ImageDimension]) const

virtual void	InitializeIteration ()

void	SetRadius (const RadiusType &r)

void	SetScaleCoefficients (PixelRealType vals[ImageDimension])

Public Member Functions inherited from itk::LightObject
virtual void	Delete ()

virtual int	GetReferenceCount () const

	itkCloneMacro (Self)

void	Print (std::ostream &os, Indent indent=0) const

virtual void	Register () const

virtual void	SetReferenceCount (int)

virtual void	UnRegister () const

Static Public Member Functions
static Pointer	New ()

Static Public Member Functions inherited from itk::LightObject
static void	BreakOnError ()

static Pointer	New ()

Static Public Attributes
static const unsigned int	ImageDimension = TFeatureImage::ImageDimension

Static Public Attributes inherited from itk::ScalarRegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >
static const unsigned int	ImageDimension = TFeatureImage::ImageDimension

Static Public Attributes inherited from itk::RegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >
static const unsigned int	ImageDimension

Static Public Attributes inherited from itk::FiniteDifferenceFunction< TInputImage >
static const unsigned int	ImageDimension

Protected Member Functions
ScalarValueType	ComputeExternalTerm (const FeaturePixelType &iValue, const FeatureIndexType &iIdx)

ScalarValueType	ComputeInternalTerm (const FeaturePixelType &iValue, const FeatureIndexType &iIdx)

void	ComputeParameters ()

	ScalarChanAndVeseLevelSetFunction ()

void	UpdateSharedDataInsideParameters (const unsigned int &iId, const FeaturePixelType &iVal, const ScalarValueType &iChange)

void	UpdateSharedDataOutsideParameters (const unsigned int &iId, const FeaturePixelType &iVal, const ScalarValueType &iChange)

void	UpdateSharedDataParameters ()

	~ScalarChanAndVeseLevelSetFunction ()

Protected Member Functions inherited from itk::ScalarRegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >
ScalarValueType	ComputeOverlapParameters (const FeatureIndexType &featIndex, ScalarValueType &product)

	ScalarRegionBasedLevelSetFunction ()

virtual void	UpdateSharedDataInsideParameters (const unsigned int &iId, const FeaturePixelType &iVal, const ScalarValueType &iChange)=0

virtual void	UpdateSharedDataOutsideParameters (const unsigned int &iId, const FeaturePixelType &iVal, const ScalarValueType &iChange)=0

	~ScalarRegionBasedLevelSetFunction ()

Protected Member Functions inherited from itk::RegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >
virtual ScalarValueType	ComputeExternalTerm (const FeaturePixelType &iValue, const FeatureIndexType &iIdx)=0

ScalarValueType	ComputeGlobalTerm (const ScalarValueType &imagePixel, const InputIndexType &inputIndex)

void	ComputeHessian (const NeighborhoodType &it, GlobalDataStruct *globalData)

void	ComputeHImage ()

virtual ScalarValueType	ComputeInternalTerm (const FeaturePixelType &iValue, const FeatureIndexType &iIdx)=0

ScalarValueType	ComputeLaplacian (GlobalDataStruct *gd)

virtual ScalarValueType	ComputeOverlapParameters (const FeatureIndexType &featIndex, ScalarValueType &pr)=0

ScalarValueType	ComputeVolumeRegularizationTerm ()

	RegionBasedLevelSetFunction ()

virtual	~RegionBasedLevelSetFunction ()

Protected Member Functions inherited from itk::FiniteDifferenceFunction< TInputImage >
	FiniteDifferenceFunction ()

virtual void	PrintSelf (std::ostream &os, Indent indent) const ITK_OVERRIDE

	~FiniteDifferenceFunction ()

Protected Member Functions inherited from itk::LightObject
virtual LightObject::Pointer	InternalClone () const

	LightObject ()

virtual void	PrintHeader (std::ostream &os, Indent indent) const

virtual void	PrintTrailer (std::ostream &os, Indent indent) const

virtual	~LightObject ()

Private Member Functions
void	operator= (const Self &)

	ScalarChanAndVeseLevelSetFunction (const Self &)

Additional Inherited Members
Protected Types inherited from itk::LightObject
typedef int	InternalReferenceCountType

Static Protected Member Functions inherited from itk::RegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >
static VectorType	InitializeZeroVectorConstant ()

Protected Attributes inherited from itk::RegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >
ScalarValueType	m_AdvectionWeight

ScalarValueType	m_AreaWeight

OffsetValueType	m_Center

ScalarValueType	m_CurvatureWeight

HeavisideFunctionConstPointer	m_DomainFunction

FeatureImageConstPointer	m_FeatureImage

unsigned int	m_FunctionId

InputImageConstPointer	m_InitialImage

double	m_InvSpacing [itkGetStaticConstMacro(ImageDimension)]

ScalarValueType	m_Lambda1

ScalarValueType	m_Lambda2

ScalarValueType	m_OverlapPenaltyWeight

ScalarValueType	m_ReinitializationSmoothingWeight

SharedDataPointer	m_SharedData

bool	m_UpdateC

ScalarValueType	m_Volume

ScalarValueType	m_VolumeMatchingWeight

OffsetValueType	m_xStride [itkGetStaticConstMacro(ImageDimension)]

std::slice	x_slice [itkGetStaticConstMacro(ImageDimension)]

Protected Attributes inherited from itk::FiniteDifferenceFunction< TInputImage >
RadiusType	m_Radius

PixelRealType	m_ScaleCoefficients [ImageDimension]

Protected Attributes inherited from itk::LightObject
InternalReferenceCountType	m_ReferenceCount

SimpleFastMutexLock	m_ReferenceCountLock

Static Protected Attributes inherited from itk::RegionBasedLevelSetFunction< TInputImage, TFeatureImage, TSharedData >
static double	m_DT

static double	m_WaveDT

static VectorType	m_ZeroVectorConstant