itk::simple::LandmarkBasedTransformInitializerFilter Class Reference

#include <sitkLandmarkBasedTransformInitializerFilter.h>

Inheritance diagram for itk::simple::LandmarkBasedTransformInitializerFilter:

Collaboration diagram for itk::simple::LandmarkBasedTransformInitializerFilter:

Public Types
typedef typelist::MakeTypeList< BasicPixelID< float > >::Type	PixelIDTypeList
typedef LandmarkBasedTransformInitializerFilter	Self
Public Types inherited from itk::simple::ImageFilter< 0 >
typedef ImageFilter	Self
Public Types inherited from itk::simple::ProcessObject
typedef ProcessObject	Self

Public Member Functions
Transform	Execute (const Transform &transform)
Transform	Execute (const Transform &transform, const std::vector< double > &fixedLandmarks, const std::vector< double > &movingLandmarks, const std::vector< double > &landmarkWeight, const Image &referenceImage, unsigned int numberOfControlPoints)
unsigned int	GetBSplineNumberOfControlPoints () const
std::vector< double >	GetFixedLandmarks () const
std::vector< double >	GetLandmarkWeight () const
std::vector< double >	GetMovingLandmarks () const
std::string	GetName () const
Image	GetReferenceImage () const
	LandmarkBasedTransformInitializerFilter ()
Self &	SetBSplineNumberOfControlPoints (unsigned int BSplineNumberOfControlPoints)
Self &	SetFixedLandmarks (const std::vector< double > &FixedLandmarks)
Self &	SetLandmarkWeight (const std::vector< double > &LandmarkWeight)
Self &	SetMovingLandmarks (const std::vector< double > &MovingLandmarks)
Self &	SetReferenceImage (const Image &ReferenceImage)
std::string	ToString () const
	~LandmarkBasedTransformInitializerFilter ()
Public Member Functions inherited from itk::simple::ImageFilter< 0 >
	ImageFilter ()
virtual	~ImageFilter ()=0
Public Member Functions inherited from itk::simple::ProcessObject
virtual void	Abort ()
virtual int	AddCommand (itk::simple::EventEnum event, itk::simple::Command &cmd)
	Add a Command Object to observer the event. More...
virtual float	GetProgress () const
	An Active Measurement of the progress of execution. More...
virtual bool	HasCommand (itk::simple::EventEnum event) const
	Query of this object has any registered commands for event. More...
	ProcessObject ()
virtual void	RemoveAllCommands ()
	Remove all registered commands. More...
virtual	~ProcessObject ()
virtual void	DebugOn ()
virtual void	DebugOff ()
virtual bool	GetDebug () const
virtual void	SetDebug (bool debugFlag)
virtual void	SetNumberOfThreads (unsigned int n)
virtual unsigned int	GetNumberOfThreads () const

Private Types
typedef Transform(Self::*	MemberFunctionType) (const Transform *transform)

Private Member Functions
template<class TImageType >
Transform	ExecuteInternal (const Transform *transform)

Private Attributes
unsigned int	m_BSplineNumberOfControlPoints
std::vector< double >	m_FixedLandmarks
std::vector< double >	m_LandmarkWeight
nsstd::auto_ptr< detail::MemberFunctionFactory< MemberFunctionType > >	m_MemberFactory
std::vector< double >	m_MovingLandmarks
Image	m_ReferenceImage

Friends
struct	detail::MemberFunctionAddressor< MemberFunctionType >

Additional Inherited Members
Static Public Member Functions inherited from itk::simple::ProcessObject
static bool	GetGlobalDefaultDebug ()
static void	GlobalDefaultDebugOff ()
static void	GlobalDefaultDebugOn ()
static void	SetGlobalDefaultDebug (bool debugFlag)
static void	GlobalWarningDisplayOn ()
static void	GlobalWarningDisplayOff ()
static void	SetGlobalWarningDisplay (bool flag)
static bool	GetGlobalWarningDisplay ()
static void	SetGlobalDefaultNumberOfThreads (unsigned int n)
static unsigned int	GetGlobalDefaultNumberOfThreads ()
static double	GetGlobalDefaultCoordinateTolerance ()
	Access the global tolerance to determine congruent spaces. More...
static void	SetGlobalDefaultCoordinateTolerance (double)
	Access the global tolerance to determine congruent spaces. More...
static double	GetGlobalDefaultDirectionTolerance ()
	Access the global tolerance to determine congruent spaces. More...
static void	SetGlobalDefaultDirectionTolerance (double)
	Access the global tolerance to determine congruent spaces. More...
Protected Member Functions inherited from itk::simple::ProcessObject
virtual unsigned long	AddITKObserver (const itk::EventObject &, itk::Command *)
virtual itk::ProcessObject *	GetActiveProcess ()
virtual void	OnActiveProcessDelete ()
virtual void	onCommandDelete (const itk::simple::Command *cmd) throw ()
virtual void	PreUpdate (itk::ProcessObject *p)
virtual void	RemoveITKObserver (EventCommand &e)
Protected Member Functions inherited from itk::simple::NonCopyable
	NonCopyable ()
Static Protected Member Functions inherited from itk::simple::ImageFilter< 0 >
static void	FixNonZeroIndex (TImageType *img)
Static Protected Member Functions inherited from itk::simple::ProcessObject
template<class TImageType >
static TImageType::ConstPointer	CastImageToITK (const Image &img)
template<class TImageType >
static Image	CastITKToImage (TImageType *img)
template<class TPixelType , unsigned int VImageDimension, unsigned int VLength, template< typename, unsigned int > class TVector>
static Image	CastITKToImage (itk::Image< TVector< TPixelType, VLength >, VImageDimension > *img)
static const itk::EventObject &	GetITKEventObject (EventEnum e)
template<typename T >
static std::ostream &	ToStringHelper (std::ostream &os, const T &v)
static std::ostream &	ToStringHelper (std::ostream &os, const char &v)
static std::ostream &	ToStringHelper (std::ostream &os, const signed char &v)
static std::ostream &	ToStringHelper (std::ostream &os, const unsigned char &v)

Detailed Description

This class computes the transform that aligns the fixed and moving images given a set of pair landmarks. The class is templated over the Transform type as well as fixed image and moving image types. The transform computed gives the best fit transform that maps the fixed and moving images in a least squares sense. The indices are taken to correspond, so point 1 in the first set will get mapped close to point 1 in the second set, etc.

Currently, the following transforms are supported by the class: VersorRigid3DTransform Rigid2DTransform AffineTransform BSplineTransform

An equal number of fixed and moving landmarks need to be specified using SetFixedLandmarks() and SetMovingLandmarks() . Any number of landmarks may be specified. In the case of using Affine or BSpline transforms, each landmark pair can contribute in the final transform based on its defined weight. Number of weights should be equal to the number of landmarks and can be specified using SetLandmarkWeight() . By defaults are weights are set to one. Call InitializeTransform() to initialize the transform.

The class is based in part on Hybrid/vtkLandmarkTransform originally implemented in python by David G. Gobbi.

The solution is based on Berthold K. P. Horn (1987), "Closed-form solution of absolute orientation using unit quaternions," http://people.csail.mit.edu/bkph/papers/Absolute_Orientation.pdf

The Affine Transform initializer is based on an algorithm by H Spaeth, and is described in the Insight Journal Article "Affine Transformation for Landmark Based Registration Initializer in ITK" by Kim E.Y., Johnson H., Williams N. available at http://midasjournal.com/browse/publication/825

Wiki Examples:

• All Examples

• Rigidly register one image to another using manually specified landmarks

  See also

  itk::simple::LandmarkBasedTransformInitializerFilter for the procedural interface

  itk::LandmarkBasedTransformInitializer for the Doxygen on the original ITK class.

Definition at line 60 of file sitkLandmarkBasedTransformInitializerFilter.h.

Member Typedef Documentation

typedef Transform(Self::* itk::simple::LandmarkBasedTransformInitializerFilter::MemberFunctionType) (const Transform *transform)

private

Setup for member function dispatching

Definition at line 143 of file sitkLandmarkBasedTransformInitializerFilter.h.

typedef typelist::MakeTypeList<BasicPixelID<float> >::Type itk::simple::LandmarkBasedTransformInitializerFilter::PixelIDTypeList

Define the pixels types supported by this filter

Definition at line 72 of file sitkLandmarkBasedTransformInitializerFilter.h.

typedef LandmarkBasedTransformInitializerFilter itk::simple::LandmarkBasedTransformInitializerFilter::Self

Definition at line 62 of file sitkLandmarkBasedTransformInitializerFilter.h.

Constructor & Destructor Documentation

itk::simple::LandmarkBasedTransformInitializerFilter::LandmarkBasedTransformInitializerFilter

(

)

Default Constructor that takes no arguments and initializes default parameters

itk::simple::LandmarkBasedTransformInitializerFilter::~LandmarkBasedTransformInitializerFilter

(

)

Destructor

Member Function Documentation

Transform itk::simple::LandmarkBasedTransformInitializerFilter::Execute

(

const Transform &

transform

)

Execute the filter on the input image

Transform itk::simple::LandmarkBasedTransformInitializerFilter::Execute	(	const Transform &	transform,
		const std::vector< double > &	fixedLandmarks,
		const std::vector< double > &	movingLandmarks,
		const std::vector< double > &	landmarkWeight,
		const Image &	referenceImage,
		unsigned int	numberOfControlPoints
	)

Execute the filter on the input image with the given parameters

template<class TImageType >

Transform itk::simple::LandmarkBasedTransformInitializerFilter::ExecuteInternal ( const Transform *  transform )

private

unsigned int itk::simple::LandmarkBasedTransformInitializerFilter::GetBSplineNumberOfControlPoints ( ) const

inline

Set/Get the number of control points

Definition at line 123 of file sitkLandmarkBasedTransformInitializerFilter.h.

std::vector<double> itk::simple::LandmarkBasedTransformInitializerFilter::GetFixedLandmarks ( ) const

inline

Definition at line 84 of file sitkLandmarkBasedTransformInitializerFilter.h.

std::vector<double> itk::simple::LandmarkBasedTransformInitializerFilter::GetLandmarkWeight ( ) const

inline

Definition at line 104 of file sitkLandmarkBasedTransformInitializerFilter.h.

std::vector<double> itk::simple::LandmarkBasedTransformInitializerFilter::GetMovingLandmarks ( ) const

inline

Get the shrink factors.

Definition at line 94 of file sitkLandmarkBasedTransformInitializerFilter.h.

std::string itk::simple::LandmarkBasedTransformInitializerFilter::GetName ( ) const

inlinevirtual

Name of this class

Implements itk::simple::ProcessObject.

Definition at line 125 of file sitkLandmarkBasedTransformInitializerFilter.h.

Image itk::simple::LandmarkBasedTransformInitializerFilter::GetReferenceImage ( ) const

inline

Definition at line 113 of file sitkLandmarkBasedTransformInitializerFilter.h.

Self& itk::simple::LandmarkBasedTransformInitializerFilter::SetBSplineNumberOfControlPoints ( unsigned int  BSplineNumberOfControlPoints )

inline

Set/Get the number of control points

Definition at line 118 of file sitkLandmarkBasedTransformInitializerFilter.h.

Self& itk::simple::LandmarkBasedTransformInitializerFilter::SetFixedLandmarks ( const std::vector< double > &  FixedLandmarks )

inline

Set the Fixed landmark point containers

Definition at line 79 of file sitkLandmarkBasedTransformInitializerFilter.h.

Self& itk::simple::LandmarkBasedTransformInitializerFilter::SetLandmarkWeight ( const std::vector< double > &  LandmarkWeight )

inline

Set the landmark weight point containers Weight includes diagonal elements of weight matrix

Definition at line 99 of file sitkLandmarkBasedTransformInitializerFilter.h.

Self& itk::simple::LandmarkBasedTransformInitializerFilter::SetMovingLandmarks ( const std::vector< double > &  MovingLandmarks )

inline

Set the Moving landmark point containers

Definition at line 89 of file sitkLandmarkBasedTransformInitializerFilter.h.

Self& itk::simple::LandmarkBasedTransformInitializerFilter::SetReferenceImage ( const Image &  ReferenceImage )

inline

Set the reference image to define the parametric domain for the BSpline transform

Definition at line 109 of file sitkLandmarkBasedTransformInitializerFilter.h.

std::string itk::simple::LandmarkBasedTransformInitializerFilter::ToString ( ) const

virtual

Print ourselves out

Reimplemented from itk::simple::ProcessObject.

Friends And Related Function Documentation

friend struct detail::MemberFunctionAddressor< MemberFunctionType >

friend

Definition at line 148 of file sitkLandmarkBasedTransformInitializerFilter.h.

Member Data Documentation

unsigned int itk::simple::LandmarkBasedTransformInitializerFilter::m_BSplineNumberOfControlPoints

private

Definition at line 160 of file sitkLandmarkBasedTransformInitializerFilter.h.

std::vector<double> itk::simple::LandmarkBasedTransformInitializerFilter::m_FixedLandmarks

private

Definition at line 154 of file sitkLandmarkBasedTransformInitializerFilter.h.

std::vector<double> itk::simple::LandmarkBasedTransformInitializerFilter::m_LandmarkWeight

private

Definition at line 158 of file sitkLandmarkBasedTransformInitializerFilter.h.

nsstd::auto_ptr<detail::MemberFunctionFactory<MemberFunctionType> > itk::simple::LandmarkBasedTransformInitializerFilter::m_MemberFactory

private

Definition at line 150 of file sitkLandmarkBasedTransformInitializerFilter.h.

std::vector<double> itk::simple::LandmarkBasedTransformInitializerFilter::m_MovingLandmarks

private

Definition at line 156 of file sitkLandmarkBasedTransformInitializerFilter.h.

Image itk::simple::LandmarkBasedTransformInitializerFilter::m_ReferenceImage

private

Definition at line 159 of file sitkLandmarkBasedTransformInitializerFilter.h.

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The documentation for this class was generated from the following file:

• sitkLandmarkBasedTransformInitializerFilter.h