itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions > Class Template Reference

Assumes input is GM, WM, CSF labelled image, where the GM is exaclty 1 voxel wide, we then set this GM voxel to WM or CSF depending on thickness, and the immediate neighbourhood. More...

Inheritance diagram for itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >:

Collaboration diagram for itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >:

Public Types
typedef SetGreyBoundaryToWhiteOrCSFFilter	Self
typedef BaseCTESegmentationFilter < TImageType >	Superclass
typedef SmartPointer< Self >	Pointer
typedef SmartPointer< const Self >	ConstPointer
typedef Superclass::InputImageType	InputImageType
typedef Superclass::InputPixelType	InputPixelType
typedef Superclass::InputIndexType	InputIndexType
typedef Superclass::InputImagePointer	InputImagePointer
typedef Superclass::InputImageConstPointer	InputImageConstPointer
typedef Superclass::OutputPixelType	OutputPixelType
typedef Superclass::OutputImageType	OutputImageType
typedef Superclass::OutputImagePointer	OutputImagePointer
typedef Superclass::OutputImageConstPointer	OutputImageConstPointer
typedef TScalarType	ThicknessPixelType
typedef Image < ThicknessPixelType, NDimensions >	ThicknessImageType
Public Types inherited from itk::BaseCTESegmentationFilter< TImageType >
typedef BaseCTESegmentationFilter	Self
typedef BaseCTEFilter< TImageType >	Superclass
typedef SmartPointer< Self >	Pointer
typedef SmartPointer< const Self >	ConstPointer
typedef Superclass::InputImageType	InputImageType
typedef Superclass::InputPixelType	InputPixelType
typedef Superclass::InputIndexType	InputIndexType
typedef Superclass::InputSizeType	InputSizeType
typedef Superclass::InputImagePointer	InputImagePointer
typedef Superclass::InputImageConstPointer	InputImageConstPointer
typedef Superclass::OutputPixelType	OutputPixelType
typedef Superclass::OutputImageType	OutputImageType
typedef Superclass::OutputImagePointer	OutputImagePointer
typedef Superclass::OutputImageConstPointer	OutputImageConstPointer
typedef Superclass::OutputSizeType	OutputSizeType
Public Types inherited from itk::BaseCTEFilter< TImageType >
typedef BaseCTEFilter	Self
typedef ImageToImageFilter < TImageType, TImageType >	Superclass
typedef SmartPointer< Self >	Pointer
typedef SmartPointer< const Self >	ConstPointer
typedef TImageType	InputImageType
typedef InputImageType::PixelType	InputPixelType
typedef InputImageType::IndexType	InputIndexType
typedef InputImageType::SizeType	InputSizeType
typedef InputImageType::Pointer	InputImagePointer
typedef InputImageType::ConstPointer	InputImageConstPointer
typedef InputPixelType	OutputPixelType
typedef Image< OutputPixelType, TImageType::ImageDimension >	OutputImageType
typedef OutputImageType::Pointer	OutputImagePointer
typedef OutputImageType::ConstPointer	OutputImageConstPointer
typedef OutputImageType::SizeType	OutputSizeType

Public Member Functions
virtual const char *	GetClassName () const
	itkStaticConstMacro (Dimension, unsigned int, NDimensions)
void	SetLabelImage (const InputImageType *image)
void	SetOneLayerImage (const InputImageType *image)
void	SetThicknessImage (const ThicknessImageType *image)
virtual void	SetExpectedVoxelSize (float _arg)
virtual float	GetExpectedVoxelSize ()
virtual void	SetTaggedCSFLabel (InputPixelType _arg)
virtual InputPixelType	GetTaggedCSFLabel ()
virtual unsigned long int	GetNumberOfGreyBefore ()
virtual unsigned long int	GetNumberOfGreyAfter ()
Public Member Functions inherited from itk::BaseCTESegmentationFilter< TImageType >
virtual void	SetTrustPVMaps (bool _arg)
virtual bool	GetTrustPVMaps ()
Public Member Functions inherited from itk::BaseCTEFilter< TImageType >
	itkStaticConstMacro (Dimension, unsigned int, TImageType::ImageDimension)
virtual InputPixelType	GetGreyMatterLabel ()
virtual InputPixelType	GetWhiteMatterLabel ()
virtual InputPixelType	GetExtraCerebralMatterLabel ()
void	SetLabelThresholds (InputPixelType greyMatterLabel, InputPixelType whiteMatterLabel, InputPixelType extraCerebralMatterLabel)
virtual bool	GetUserHasSetTheLabelThresholds ()

Static Public Member Functions
static Pointer	New ()

Protected Member Functions
	SetGreyBoundaryToWhiteOrCSFFilter ()
virtual	~SetGreyBoundaryToWhiteOrCSFFilter ()
virtual void	PrintSelf (std::ostream &, Indent) const
virtual void	GenerateData ()
Protected Member Functions inherited from itk::BaseCTESegmentationFilter< TImageType >
	BaseCTESegmentationFilter ()
virtual	~BaseCTESegmentationFilter ()
virtual void	CheckOrAssignLabels ()
virtual void	CheckPVMap (std::string name, const InputImageType *image)
Protected Member Functions inherited from itk::BaseCTEFilter< TImageType >
	BaseCTEFilter ()
virtual	~BaseCTEFilter ()
virtual void	GenerateInputRequestedRegion ()
virtual void	EnlargeOutputRequestedRegion (DataObject *itkNotUsed)
virtual void	CheckInputsAndOutputsSameSize ()
virtual bool	IsOnBoundary (const InputImageType *image, const InputIndexType &index, const InputPixelType boundaryValue, bool useFullyConnected)
virtual bool	IsOnCSFBoundary (const InputImageType *image, const InputIndexType &index, bool useFullyConnected)
virtual bool	IsOnWMBoundary (const InputImageType *image, const InputIndexType &index, bool useFullyConnected)
virtual bool	IsOnGMBoundary (const InputImageType *image, const InputIndexType &index, bool useFullyConnected)

Additional Inherited Members
Protected Attributes inherited from itk::BaseCTEFilter< TImageType >
InputPixelType	m_GreyMatterLabel
InputPixelType	m_WhiteMatterLabel
InputPixelType	m_ExtraCerebralMatterLabel
bool	m_UserHasSetTheLabelThresholds

Detailed Description

template<class TImageType, typename TScalarType, unsigned int NDimensions>
class itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >

Assumes input is GM, WM, CSF labelled image, where the GM is exaclty 1 voxel wide, we then set this GM voxel to WM or CSF depending on thickness, and the immediate neighbourhood.

This is to implement Hutton et. al. NeuroImage 2008, doi:10.1016/j.neuroimage.2008.01.027, in the section of 'Preserving cortical topography'.

Member Typedef Documentation

template<class TImageType , typename TScalarType , unsigned int NDimensions>

typedef SmartPointer<const Self> itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >::ConstPointer

template<class TImageType , typename TScalarType , unsigned int NDimensions>

typedef Superclass::InputImageConstPointer itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >::InputImageConstPointer

template<class TImageType , typename TScalarType , unsigned int NDimensions>

typedef Superclass::InputImagePointer itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >::InputImagePointer

template<class TImageType , typename TScalarType , unsigned int NDimensions>

typedef Superclass::InputImageType itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >::InputImageType

Image typedef support.

template<class TImageType , typename TScalarType , unsigned int NDimensions>

typedef Superclass::InputIndexType itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >::InputIndexType

template<class TImageType , typename TScalarType , unsigned int NDimensions>

typedef Superclass::InputPixelType itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >::InputPixelType

template<class TImageType , typename TScalarType , unsigned int NDimensions>

typedef Superclass::OutputImageConstPointer itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >::OutputImageConstPointer

template<class TImageType , typename TScalarType , unsigned int NDimensions>

typedef Superclass::OutputImagePointer itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >::OutputImagePointer

template<class TImageType , typename TScalarType , unsigned int NDimensions>

typedef Superclass::OutputImageType itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >::OutputImageType

template<class TImageType , typename TScalarType , unsigned int NDimensions>

typedef Superclass::OutputPixelType itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >::OutputPixelType

template<class TImageType , typename TScalarType , unsigned int NDimensions>

typedef SmartPointer<Self> itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >::Pointer

template<class TImageType , typename TScalarType , unsigned int NDimensions>

typedef SetGreyBoundaryToWhiteOrCSFFilter itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >::Self

Standard "Self" & Superclass typedef.

template<class TImageType , typename TScalarType , unsigned int NDimensions>

typedef BaseCTESegmentationFilter<TImageType> itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >::Superclass

template<class TImageType , typename TScalarType , unsigned int NDimensions>

typedef Image<ThicknessPixelType, NDimensions> itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >::ThicknessImageType

template<class TImageType , typename TScalarType , unsigned int NDimensions>

typedef TScalarType itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >::ThicknessPixelType

Constructor & Destructor Documentation

template<class TImageType , typename TScalarType , unsigned int NDimensions>

itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >::SetGreyBoundaryToWhiteOrCSFFilter ( )

protected

template<class TImageType , typename TScalarType , unsigned int NDimensions>

virtual itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >::~SetGreyBoundaryToWhiteOrCSFFilter ( )

inlineprotectedvirtual

Member Function Documentation

template<class TImageType , typename TScalarType , unsigned int NDimensions>

virtual void itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >::GenerateData ( )

protectedvirtual

template<class TImageType , typename TScalarType , unsigned int NDimensions>

virtual const char* itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >::GetClassName ( ) const

virtual

Run-time type information (and related methods)

Reimplemented from itk::BaseCTESegmentationFilter< TImageType >.

template<class TImageType , typename TScalarType , unsigned int NDimensions>

virtual float itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >::GetExpectedVoxelSize ( )

virtual

template<class TImageType , typename TScalarType , unsigned int NDimensions>

virtual unsigned long int itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >::GetNumberOfGreyAfter ( )

virtual

Get the number of Grey left after a successful update.

template<class TImageType , typename TScalarType , unsigned int NDimensions>

virtual unsigned long int itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >::GetNumberOfGreyBefore ( )

virtual

Get the number of Grey left before a successful update.

template<class TImageType , typename TScalarType , unsigned int NDimensions>

virtual InputPixelType itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >::GetTaggedCSFLabel ( )

virtual

template<class TImageType , typename TScalarType , unsigned int NDimensions>

itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >::itkStaticConstMacro	(	Dimension	,
		unsigned	int,
		NDimensions
	)

Get the number of dimensions we are working in.

template<class TImageType , typename TScalarType , unsigned int NDimensions>

static Pointer itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >::New ( )

static

Method for creation through the object factory.

template<class TImageType , typename TScalarType , unsigned int NDimensions>

virtual void itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >::PrintSelf ( std::ostream &  , Indent    ) const

protectedvirtual

Standard Print Self.

Reimplemented from itk::BaseCTESegmentationFilter< TImageType >.

template<class TImageType , typename TScalarType , unsigned int NDimensions>

virtual void itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >::SetExpectedVoxelSize ( float  _arg )

virtual

Set/Get the expected voxel size.

template<class TImageType , typename TScalarType , unsigned int NDimensions>

void itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >::SetLabelImage ( const InputImageType *  image )

inline

Sets the label image at input 0.

template<class TImageType , typename TScalarType , unsigned int NDimensions>

void itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >::SetOneLayerImage ( const InputImageType *  image )

inline

Sets the one layer image at input 1.

template<class TImageType , typename TScalarType , unsigned int NDimensions>

virtual void itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >::SetTaggedCSFLabel ( InputPixelType  _arg )

virtual

Set/Get the label that we tag the changed CSF with. Default 4.

template<class TImageType , typename TScalarType , unsigned int NDimensions>

void itk::SetGreyBoundaryToWhiteOrCSFFilter< TImageType, TScalarType, NDimensions >::SetThicknessImage ( const ThicknessImageType *  image )

inline

Sets the thickness image at input 2.

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

• itkSetGreyBoundaryToWhiteOrCSFFilter.h