ANIMA  4.0
Public Types | Public Member Functions | Static Public Member Functions | Protected Types | Protected Member Functions | Protected Attributes | List of all members
anima::GraphCutFilter< TInput, TOutput > Class Template Reference

Class performing grah cut segmentation. First the sources and sinks probabilities maps are computed using the TLinkFilter. Then the Graph3DFilter is called to perform the graph cut. More...

#include <animaGraphCutFilter.h>

+ Inheritance diagram for anima::GraphCutFilter< TInput, TOutput >:
+ Collaboration diagram for anima::GraphCutFilter< TInput, TOutput >:

Public Types

typedef itk::SmartPointer< const Self > ConstPointer
 
typedef itk::VariableSizeMatrix< NumericType > doubleVariableSizeMatrixType
 
typedef double NumericType
 
typedef TOutput::Pointer OutputImagePointer
 
typedef Superclass::OutputImageRegionType OutputImageRegionType
 
typedef double PixelTypeD
 
typedef unsigned char PixelTypeUC
 
typedef itk::SmartPointer< Self > Pointer
 
typedef GraphCutFilter Self
 
typedef itk::ImageToImageFilter< TInput, TOutput > Superclass
 
typedef itk::Image< PixelTypeUC, 3 > TMask
 
typedef TMask::Pointer TMaskPointer
 
typedef itk::Image< PixelTypeD, 3 > TSeedProba
 

Public Member Functions

virtual ::itk::LightObject::Pointer CreateAnother (void) const
 
virtual double GetAlpha ()
 
virtual double GetMultiVarSinks ()
 
virtual double GetMultiVarSources ()
 
virtual const char * GetNameOfClass () const
 
OutputImagePointer GetOutput ()
 
OutputImagePointer GetOutputBackground ()
 
std::string GetOutputFilename ()
 
virtual double GetSigma ()
 
TLinkMode GetTLinkMode ()
 
virtual bool GetUseSpectralGradient ()
 
virtual bool GetVerbose ()
 
virtual void SetAlpha (double _arg)
 
void SetInputImage (unsigned int i, const TInput *image)
 
void SetInputSeedSinksMask (const TMask *mask)
 
void SetInputSeedSinksProba (const TSeedProba *mask)
 
void SetInputSeedSourcesMask (const TMask *mask)
 
void SetInputSeedSourcesProba (const TSeedProba *mask)
 
void SetMask (const TMask *mask)
 
void SetMatrix (doubleVariableSizeMatrixType mat)
 
void SetMatrixGradFilename (std::string mat)
 
virtual void SetMultiVarSinks (double _arg)
 
virtual void SetMultiVarSources (double _arg)
 
void SetOutputFilename (std::string filename)
 
virtual void SetSigma (double _arg)
 
void SetTLinkMode (TLinkMode m)
 
void SetTol (const double tol)
 
virtual void SetUseSpectralGradient (bool _arg)
 
virtual void SetVerbose (bool _arg)
 
void WriteOutputs ()
 

Static Public Member Functions

static Pointer New ()
 

Protected Types

typedef Graph3DFilter< TInput, TOutput > Graph3DFilterType
 
typedef TLinksFilter< TInput, TSeedProba > TLinksFilterType
 

Protected Member Functions

void GenerateData () ITK_OVERRIDE
 
TMask::ConstPointer GetInputSeedSinksMask ()
 
TSeedProba::ConstPointer GetInputSeedSinksProba ()
 
TMask::ConstPointer GetInputSeedSourcesMask ()
 
TSeedProba::ConstPointer GetInputSeedSourcesProba ()
 
TMask::ConstPointer GetMask ()
 
doubleVariableSizeMatrixType GetMatrix (void)
 
std::string GetMatrixGradFilename (void)
 
 GraphCutFilter ()
 
itk::DataObject::Pointer MakeOutput (unsigned int idx)
 
virtual ~GraphCutFilter ()
 

Protected Attributes

Graph3DFilterType::Pointer m_Graph3DFilter
 
TLinksFilterType::Pointer m_TLinksFilter
 

Detailed Description

template<typename TInput, typename TOutput>
class anima::GraphCutFilter< TInput, TOutput >

Class performing grah cut segmentation. First the sources and sinks probabilities maps are computed using the TLinkFilter. Then the Graph3DFilter is called to perform the graph cut.

Definition at line 17 of file animaGraphCutFilter.h.

Member Typedef Documentation

◆ ConstPointer

template<typename TInput , typename TOutput >
typedef itk::SmartPointer<const Self> anima::GraphCutFilter< TInput, TOutput >::ConstPointer

Definition at line 25 of file animaGraphCutFilter.h.

◆ doubleVariableSizeMatrixType

template<typename TInput , typename TOutput >
typedef itk::VariableSizeMatrix<NumericType> anima::GraphCutFilter< TInput, TOutput >::doubleVariableSizeMatrixType

Definition at line 44 of file animaGraphCutFilter.h.

◆ Graph3DFilterType

template<typename TInput , typename TOutput >
typedef Graph3DFilter< TInput,TOutput> anima::GraphCutFilter< TInput, TOutput >::Graph3DFilterType
protected

Definition at line 104 of file animaGraphCutFilter.h.

◆ NumericType

template<typename TInput , typename TOutput >
typedef double anima::GraphCutFilter< TInput, TOutput >::NumericType

Definition at line 43 of file animaGraphCutFilter.h.

◆ OutputImagePointer

template<typename TInput , typename TOutput >
typedef TOutput::Pointer anima::GraphCutFilter< TInput, TOutput >::OutputImagePointer

Image typedef support

Definition at line 31 of file animaGraphCutFilter.h.

◆ OutputImageRegionType

template<typename TInput , typename TOutput >
typedef Superclass::OutputImageRegionType anima::GraphCutFilter< TInput, TOutput >::OutputImageRegionType

Superclass typedefs.

Definition at line 76 of file animaGraphCutFilter.h.

◆ PixelTypeD

template<typename TInput , typename TOutput >
typedef double anima::GraphCutFilter< TInput, TOutput >::PixelTypeD

Definition at line 40 of file animaGraphCutFilter.h.

◆ PixelTypeUC

template<typename TInput , typename TOutput >
typedef unsigned char anima::GraphCutFilter< TInput, TOutput >::PixelTypeUC

Definition at line 36 of file animaGraphCutFilter.h.

◆ Pointer

template<typename TInput , typename TOutput >
typedef itk::SmartPointer<Self> anima::GraphCutFilter< TInput, TOutput >::Pointer

Definition at line 24 of file animaGraphCutFilter.h.

◆ Self

template<typename TInput , typename TOutput >
typedef GraphCutFilter anima::GraphCutFilter< TInput, TOutput >::Self

Standard class typedefs.

Definition at line 22 of file animaGraphCutFilter.h.

◆ Superclass

template<typename TInput , typename TOutput >
typedef itk::ImageToImageFilter< TInput , TOutput > anima::GraphCutFilter< TInput, TOutput >::Superclass

Definition at line 23 of file animaGraphCutFilter.h.

◆ TLinksFilterType

template<typename TInput , typename TOutput >
typedef TLinksFilter<TInput,TSeedProba> anima::GraphCutFilter< TInput, TOutput >::TLinksFilterType
protected

Definition at line 105 of file animaGraphCutFilter.h.

◆ TMask

template<typename TInput , typename TOutput >
typedef itk::Image<PixelTypeUC,3> anima::GraphCutFilter< TInput, TOutput >::TMask

Definition at line 37 of file animaGraphCutFilter.h.

◆ TMaskPointer

template<typename TInput , typename TOutput >
typedef TMask::Pointer anima::GraphCutFilter< TInput, TOutput >::TMaskPointer

Definition at line 38 of file animaGraphCutFilter.h.

◆ TSeedProba

template<typename TInput , typename TOutput >
typedef itk::Image<PixelTypeD,3> anima::GraphCutFilter< TInput, TOutput >::TSeedProba

Definition at line 41 of file animaGraphCutFilter.h.

Constructor & Destructor Documentation

◆ GraphCutFilter()

template<typename TInput , typename TOutput >
anima::GraphCutFilter< TInput, TOutput >::GraphCutFilter ( )
inlineprotected

Definition at line 110 of file animaGraphCutFilter.h.

References anima::GraphCutFilter< TInput, TOutput >::MakeOutput(), anima::TLinksFilter< TInput, TOutput >::New(), anima::Graph3DFilter< TInput, TOutput >::New(), and singleGaussianTLink.

◆ ~GraphCutFilter()

template<typename TInput , typename TOutput >
virtual anima::GraphCutFilter< TInput, TOutput >::~GraphCutFilter ( )
inlineprotectedvirtual

Definition at line 139 of file animaGraphCutFilter.h.

References anima::GraphCutFilter< TInput, TOutput >::GetInputSeedSinksMask(), anima::GraphCutFilter< TInput, TOutput >::GetInputSeedSinksProba(), anima::GraphCutFilter< TInput, TOutput >::GetInputSeedSourcesMask(), anima::GraphCutFilter< TInput, TOutput >::GetInputSeedSourcesProba(), anima::GraphCutFilter< TInput, TOutput >::GetMask(), and anima::GraphCutFilter< TInput, TOutput >::MakeOutput().

Member Function Documentation

◆ CreateAnother()

template<typename TInput , typename TOutput >
virtual::itk::LightObject::Pointer anima::GraphCutFilter< TInput, TOutput >::CreateAnother ( void  ) const

◆ GenerateData()

template<typename TInput , typename TOutput >
void anima::GraphCutFilter< TInput, TOutput >::GenerateData ( )
protected

Definition at line 154 of file animaGraphCutFilter.hxx.

Referenced by anima::GraphCutFilter< TInput, TOutput >::GetMatrixGradFilename(), and anima::GraphCutFilter< TInput, TOutput >::WriteOutputs().

◆ GetAlpha()

template<typename TInput , typename TOutput >
virtual double anima::GraphCutFilter< TInput, TOutput >::GetAlpha ( )
virtual

◆ GetInputSeedSinksMask()

template<typename TInput , typename TOutput >
itk::Image< unsigned char, 3 >::ConstPointer anima::GraphCutFilter< TInput, TOutput >::GetInputSeedSinksMask ( )
protected

Definition at line 82 of file animaGraphCutFilter.hxx.

Referenced by anima::GraphCutFilter< TInput, TOutput >::~GraphCutFilter().

◆ GetInputSeedSinksProba()

template<typename TInput , typename TOutput >
itk::Image< double, 3 >::ConstPointer anima::GraphCutFilter< TInput, TOutput >::GetInputSeedSinksProba ( )
protected

Definition at line 96 of file animaGraphCutFilter.hxx.

Referenced by anima::GraphCutFilter< TInput, TOutput >::~GraphCutFilter().

◆ GetInputSeedSourcesMask()

template<typename TInput , typename TOutput >
itk::Image< unsigned char, 3 >::ConstPointer anima::GraphCutFilter< TInput, TOutput >::GetInputSeedSourcesMask ( )
protected

Definition at line 75 of file animaGraphCutFilter.hxx.

Referenced by anima::GraphCutFilter< TInput, TOutput >::~GraphCutFilter().

◆ GetInputSeedSourcesProba()

template<typename TInput , typename TOutput >
itk::Image< double, 3 >::ConstPointer anima::GraphCutFilter< TInput, TOutput >::GetInputSeedSourcesProba ( )
protected

Definition at line 89 of file animaGraphCutFilter.hxx.

Referenced by anima::GraphCutFilter< TInput, TOutput >::~GraphCutFilter().

◆ GetMask()

template<typename TInput , typename TOutput >
itk::Image< unsigned char, 3 >::ConstPointer anima::GraphCutFilter< TInput, TOutput >::GetMask ( )
protected

Definition at line 68 of file animaGraphCutFilter.hxx.

Referenced by anima::GraphCutFilter< TInput, TOutput >::~GraphCutFilter().

◆ GetMatrix()

template<typename TInput , typename TOutput >
doubleVariableSizeMatrixType anima::GraphCutFilter< TInput, TOutput >::GetMatrix ( void  )
inlineprotected

Definition at line 154 of file animaGraphCutFilter.h.

◆ GetMatrixGradFilename()

template<typename TInput , typename TOutput >
std::string anima::GraphCutFilter< TInput, TOutput >::GetMatrixGradFilename ( void  )
inlineprotected

Definition at line 155 of file animaGraphCutFilter.h.

References anima::GraphCutFilter< TInput, TOutput >::GenerateData().

◆ GetMultiVarSinks()

template<typename TInput , typename TOutput >
virtual double anima::GraphCutFilter< TInput, TOutput >::GetMultiVarSinks ( )
virtual

◆ GetMultiVarSources()

template<typename TInput , typename TOutput >
virtual double anima::GraphCutFilter< TInput, TOutput >::GetMultiVarSources ( )
virtual

◆ GetNameOfClass()

template<typename TInput , typename TOutput >
virtual const char* anima::GraphCutFilter< TInput, TOutput >::GetNameOfClass ( ) const
virtual

Run-time type information (and related methods)

◆ GetOutput()

template<typename TInputImage , typename TOutput >
TOutput::Pointer anima::GraphCutFilter< TInputImage, TOutput >::GetOutput ( )

Definition at line 124 of file animaGraphCutFilter.hxx.

Referenced by anima::GraphCutFilter< TInput, TOutput >::SetTLinkMode().

◆ GetOutputBackground()

template<typename TInputImage , typename TOutput >
TOutput::Pointer anima::GraphCutFilter< TInputImage, TOutput >::GetOutputBackground ( )

Definition at line 129 of file animaGraphCutFilter.hxx.

References anima::GraphCutFilter< TInput, TOutput >::WriteOutputs().

Referenced by anima::GraphCutFilter< TInput, TOutput >::SetTLinkMode().

◆ GetOutputFilename()

template<typename TInput , typename TOutput >
std::string anima::GraphCutFilter< TInput, TOutput >::GetOutputFilename ( )
inline

Definition at line 64 of file animaGraphCutFilter.h.

◆ GetSigma()

template<typename TInput , typename TOutput >
virtual double anima::GraphCutFilter< TInput, TOutput >::GetSigma ( )
virtual

◆ GetTLinkMode()

template<typename TInput , typename TOutput >
TLinkMode anima::GraphCutFilter< TInput, TOutput >::GetTLinkMode ( )
inline

Definition at line 67 of file animaGraphCutFilter.h.

◆ GetUseSpectralGradient()

template<typename TInput , typename TOutput >
virtual bool anima::GraphCutFilter< TInput, TOutput >::GetUseSpectralGradient ( )
virtual

◆ GetVerbose()

template<typename TInput , typename TOutput >
virtual bool anima::GraphCutFilter< TInput, TOutput >::GetVerbose ( )
virtual

◆ MakeOutput()

template<typename TInputImage , typename TOutput >
itk::DataObject::Pointer anima::GraphCutFilter< TInputImage, TOutput >::MakeOutput ( unsigned int  idx)
protected

Create the Output

Definition at line 103 of file animaGraphCutFilter.hxx.

Referenced by anima::GraphCutFilter< TInput, TOutput >::GraphCutFilter(), and anima::GraphCutFilter< TInput, TOutput >::~GraphCutFilter().

◆ New()

template<typename TInput , typename TOutput >
static Pointer anima::GraphCutFilter< TInput, TOutput >::New ( )
static

Method for creation through the object factory.

Referenced by anima::GcStremMsLesionsSegmentationFilter< TInputImage >::GcStremMsLesionsSegmentationFilter().

◆ SetAlpha()

template<typename TInput , typename TOutput >
virtual void anima::GraphCutFilter< TInput, TOutput >::SetAlpha ( double  _arg)
virtual

◆ SetInputImage()

template<typename TInput , typename TOutput >
void anima::GraphCutFilter< TInput, TOutput >::SetInputImage ( unsigned int  i,
const TInput *  image 
)

The MRI images.

Definition at line 9 of file animaGraphCutFilter.hxx.

◆ SetInputSeedSinksMask()

template<typename TInput , typename TOutput >
void anima::GraphCutFilter< TInput, TOutput >::SetInputSeedSinksMask ( const TMask *  mask)

Definition at line 40 of file animaGraphCutFilter.hxx.

◆ SetInputSeedSinksProba()

template<typename TInput , typename TOutput >
void anima::GraphCutFilter< TInput, TOutput >::SetInputSeedSinksProba ( const TSeedProba *  mask)

Definition at line 59 of file animaGraphCutFilter.hxx.

◆ SetInputSeedSourcesMask()

template<typename TInput , typename TOutput >
void anima::GraphCutFilter< TInput, TOutput >::SetInputSeedSourcesMask ( const TMask *  mask)

probabilities of the object and the background, respectively or binary mask of the object and the background, respectively

Definition at line 31 of file animaGraphCutFilter.hxx.

◆ SetInputSeedSourcesProba()

template<typename TInput , typename TOutput >
void anima::GraphCutFilter< TInput, TOutput >::SetInputSeedSourcesProba ( const TSeedProba *  mask)

Definition at line 50 of file animaGraphCutFilter.hxx.

◆ SetMask()

template<typename TInput , typename TOutput >
void anima::GraphCutFilter< TInput, TOutput >::SetMask ( const TMask *  mask)

mask in which the segmentation will be performed

Definition at line 24 of file animaGraphCutFilter.hxx.

◆ SetMatrix()

template<typename TInput , typename TOutput >
void anima::GraphCutFilter< TInput, TOutput >::SetMatrix ( doubleVariableSizeMatrixType  mat)
inline

Definition at line 61 of file animaGraphCutFilter.h.

◆ SetMatrixGradFilename()

template<typename TInput , typename TOutput >
void anima::GraphCutFilter< TInput, TOutput >::SetMatrixGradFilename ( std::string  mat)
inline

Definition at line 62 of file animaGraphCutFilter.h.

◆ SetMultiVarSinks()

template<typename TInput , typename TOutput >
virtual void anima::GraphCutFilter< TInput, TOutput >::SetMultiVarSinks ( double  _arg)
virtual

◆ SetMultiVarSources()

template<typename TInput , typename TOutput >
virtual void anima::GraphCutFilter< TInput, TOutput >::SetMultiVarSources ( double  _arg)
virtual

◆ SetOutputFilename()

template<typename TInput , typename TOutput >
void anima::GraphCutFilter< TInput, TOutput >::SetOutputFilename ( std::string  filename)
inline

Definition at line 65 of file animaGraphCutFilter.h.

◆ SetSigma()

template<typename TInput , typename TOutput >
virtual void anima::GraphCutFilter< TInput, TOutput >::SetSigma ( double  _arg)
virtual

◆ SetTLinkMode()

template<typename TInput , typename TOutput >
void anima::GraphCutFilter< TInput, TOutput >::SetTLinkMode ( TLinkMode  m)
inline

Definition at line 68 of file animaGraphCutFilter.h.

References anima::GraphCutFilter< TInput, TOutput >::GetOutput(), anima::GraphCutFilter< TInput, TOutput >::GetOutputBackground(), and anima::GraphCutFilter< TInput, TOutput >::WriteOutputs().

◆ SetTol()

template<typename TInput , typename TOutput >
void anima::GraphCutFilter< TInput, TOutput >::SetTol ( const double  tol)
inline

Definition at line 78 of file animaGraphCutFilter.h.

◆ SetUseSpectralGradient()

template<typename TInput , typename TOutput >
virtual void anima::GraphCutFilter< TInput, TOutput >::SetUseSpectralGradient ( bool  _arg)
virtual

◆ SetVerbose()

template<typename TInput , typename TOutput >
virtual void anima::GraphCutFilter< TInput, TOutput >::SetVerbose ( bool  _arg)
virtual

◆ WriteOutputs()

template<typename TInput , typename TOutput >
void anima::GraphCutFilter< TInput, TOutput >::WriteOutputs ( )

Definition at line 137 of file animaGraphCutFilter.hxx.

References anima::GraphCutFilter< TInput, TOutput >::GenerateData().

Referenced by anima::GraphCutFilter< TInput, TOutput >::GetOutputBackground(), and anima::GraphCutFilter< TInput, TOutput >::SetTLinkMode().

Member Data Documentation

◆ m_Graph3DFilter

template<typename TInput , typename TOutput >
Graph3DFilterType::Pointer anima::GraphCutFilter< TInput, TOutput >::m_Graph3DFilter
protected

Definition at line 108 of file animaGraphCutFilter.h.

◆ m_TLinksFilter

template<typename TInput , typename TOutput >
TLinksFilterType::Pointer anima::GraphCutFilter< TInput, TOutput >::m_TLinksFilter
protected

Definition at line 107 of file animaGraphCutFilter.h.

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