anima::MultiCompartmentModelCreator Class Reference

Really this class is some simplified factory that creates the MCM that it knows. More...

#include <animaMultiCompartmentModelCreator.h>

Public Types
typedef BaseCompartmentType::Pointer	BaseCompartmentPointer
typedef anima::BaseCompartment	BaseCompartmentType
typedef anima::DiffusionModelCompartmentType	CompartmentType
typedef MCMType::Pointer	MCMPointer
typedef anima::MultiCompartmentModel	MCMType

Public Member Functions
double	GetAxialDiffusivity ()
double	GetExtraAxonalFraction ()
MCMPointer	GetNewMultiCompartmentModel ()
double	GetOrientationConcentration ()
double	GetRadialDiffusivity1 ()
double	GetRadialDiffusivity2 ()
bool	GetUseCommonConcentrations ()
bool	GetUseCommonDiffusivities ()
bool	GetUseCommonExtraAxonalFractions ()
bool	GetUseConstrainedDiffusivity ()
bool	GetUseConstrainedExtraAxonalFraction ()
bool	GetUseConstrainedOrientationConcentration ()
	MultiCompartmentModelCreator ()
void	SetAxialDiffusivityValue (double arg)
void	SetCompartmentType (CompartmentType arg)
void	SetFreeWaterDiffusivityValue (double arg)
void	SetIRWDiffusivityValue (double arg)
void	SetModelWithFreeWaterComponent (bool arg)
void	SetModelWithRestrictedWaterComponent (bool arg)
void	SetModelWithStaniszComponent (bool arg)
void	SetModelWithStationaryWaterComponent (bool arg)
void	SetNumberOfCompartments (unsigned int num)
void	SetRadialDiffusivity1Value (double arg)
void	SetRadialDiffusivity2Value (double arg)
void	SetStaniszDiffusivityValue (double arg)
void	SetUseCommonConcentrations (bool arg)
void	SetUseCommonDiffusivities (bool arg)
void	SetUseCommonExtraAxonalFractions (bool arg)
void	SetUseConstrainedDiffusivity (bool arg)
void	SetUseConstrainedExtraAxonalFraction (bool arg)
void	SetUseConstrainedFreeWaterDiffusivity (bool arg)
void	SetUseConstrainedIRWDiffusivity (bool arg)
void	SetUseConstrainedOrientationConcentration (bool arg)
void	SetUseConstrainedStaniszDiffusivity (bool arg)
void	SetUseConstrainedStaniszRadius (bool arg)
void	SetVariableProjectionEstimationMode (bool arg)
virtual	~MultiCompartmentModelCreator ()

Detailed Description

Really this class is some simplified factory that creates the MCM that it knows.

Definition at line 12 of file animaMultiCompartmentModelCreator.h.

Member Typedef Documentation

BaseCompartmentPointer

typedef BaseCompartmentType::Pointer anima::MultiCompartmentModelCreator::BaseCompartmentPointer

Definition at line 22 of file animaMultiCompartmentModelCreator.h.

BaseCompartmentType

typedef anima::BaseCompartment anima::MultiCompartmentModelCreator::BaseCompartmentType

Definition at line 21 of file animaMultiCompartmentModelCreator.h.

CompartmentType

typedef anima::DiffusionModelCompartmentType anima::MultiCompartmentModelCreator::CompartmentType

Definition at line 23 of file animaMultiCompartmentModelCreator.h.

MCMPointer

typedef MCMType::Pointer anima::MultiCompartmentModelCreator::MCMPointer

Definition at line 19 of file animaMultiCompartmentModelCreator.h.

MCMType

typedef anima::MultiCompartmentModel anima::MultiCompartmentModelCreator::MCMType

Definition at line 18 of file animaMultiCompartmentModelCreator.h.

Constructor & Destructor Documentation

MultiCompartmentModelCreator()

anima::MultiCompartmentModelCreator::MultiCompartmentModelCreator

(

)

Definition at line 15 of file animaMultiCompartmentModelCreator.cxx.

References anima::Tensor.

~MultiCompartmentModelCreator()

virtual anima::MultiCompartmentModelCreator::~MultiCompartmentModelCreator ( )

inlinevirtual

Definition at line 16 of file animaMultiCompartmentModelCreator.h.

Member Function Documentation

GetAxialDiffusivity()

double anima::MultiCompartmentModelCreator::GetAxialDiffusivity ( )

inline

Definition at line 63 of file animaMultiCompartmentModelCreator.h.

GetExtraAxonalFraction()

double anima::MultiCompartmentModelCreator::GetExtraAxonalFraction ( )

inline

Definition at line 66 of file animaMultiCompartmentModelCreator.h.

GetNewMultiCompartmentModel()

MultiCompartmentModelCreator::MCMPointer anima::MultiCompartmentModelCreator::GetNewMultiCompartmentModel

(

)

Definition at line 48 of file animaMultiCompartmentModelCreator.cxx.

References anima::DDI, GetUseCommonConcentrations(), GetUseCommonExtraAxonalFractions(), anima::MultiCompartmentModel::New(), anima::NODDI, anima::Stick, anima::Tensor, and anima::Zeppelin.

Referenced by anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::BeforeThreadedGenerateData(), anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::EstimateFreeWaterModel(), anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::GenerateOutputInformation(), anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::InitialOrientationsEstimation(), main(), anima::MCMCorrelationImageToImageMetric< TFixedImagePixelType, TMovingImagePixelType, ImageDimension >::MCMCorrelationImageToImageMetric(), anima::MCMMeanSquaresImageToImageMetric< TFixedImagePixelType, TMovingImagePixelType, ImageDimension >::MCMMeanSquaresImageToImageMetric(), anima::MCMPairingMeanSquaresImageToImageMetric< TFixedImagePixelType, TMovingImagePixelType, ImageDimension >::MCMPairingMeanSquaresImageToImageMetric(), anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::ModelEstimation(), anima::MTPairingCorrelationImageToImageMetric< TFixedImagePixelType, TMovingImagePixelType, ImageDimension >::MTPairingCorrelationImageToImageMetric(), and anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::SparseInitializeSticks().

GetOrientationConcentration()

double anima::MultiCompartmentModelCreator::GetOrientationConcentration ( )

inline

Definition at line 62 of file animaMultiCompartmentModelCreator.h.

GetRadialDiffusivity1()

double anima::MultiCompartmentModelCreator::GetRadialDiffusivity1 ( )

inline

Definition at line 64 of file animaMultiCompartmentModelCreator.h.

GetRadialDiffusivity2()

double anima::MultiCompartmentModelCreator::GetRadialDiffusivity2 ( )

inline

Definition at line 65 of file animaMultiCompartmentModelCreator.h.

GetUseCommonConcentrations()

bool anima::MultiCompartmentModelCreator::GetUseCommonConcentrations ( )

inline

Definition at line 52 of file animaMultiCompartmentModelCreator.h.

Referenced by GetNewMultiCompartmentModel().

GetUseCommonDiffusivities()

bool anima::MultiCompartmentModelCreator::GetUseCommonDiffusivities ( )

inline

Definition at line 51 of file animaMultiCompartmentModelCreator.h.

GetUseCommonExtraAxonalFractions()

bool anima::MultiCompartmentModelCreator::GetUseCommonExtraAxonalFractions ( )

inline

Definition at line 53 of file animaMultiCompartmentModelCreator.h.

Referenced by GetNewMultiCompartmentModel().

GetUseConstrainedDiffusivity()

bool anima::MultiCompartmentModelCreator::GetUseConstrainedDiffusivity ( )

inline

Definition at line 43 of file animaMultiCompartmentModelCreator.h.

GetUseConstrainedExtraAxonalFraction()

bool anima::MultiCompartmentModelCreator::GetUseConstrainedExtraAxonalFraction ( )

inline

Definition at line 45 of file animaMultiCompartmentModelCreator.h.

GetUseConstrainedOrientationConcentration()

bool anima::MultiCompartmentModelCreator::GetUseConstrainedOrientationConcentration ( )

inline

Definition at line 44 of file animaMultiCompartmentModelCreator.h.

SetAxialDiffusivityValue()

void anima::MultiCompartmentModelCreator::SetAxialDiffusivityValue ( double  arg )

inline

Definition at line 58 of file animaMultiCompartmentModelCreator.h.

SetCompartmentType()

void anima::MultiCompartmentModelCreator::SetCompartmentType ( CompartmentType  arg )

inline

Definition at line 31 of file animaMultiCompartmentModelCreator.h.

Referenced by anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::BeforeThreadedGenerateData(), anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::GenerateOutputInformation(), anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::InitialOrientationsEstimation(), main(), and anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::ModelEstimation().

SetFreeWaterDiffusivityValue()

void anima::MultiCompartmentModelCreator::SetFreeWaterDiffusivityValue ( double  arg )

inline

Definition at line 55 of file animaMultiCompartmentModelCreator.h.

SetIRWDiffusivityValue()

void anima::MultiCompartmentModelCreator::SetIRWDiffusivityValue ( double  arg )

inline

Definition at line 56 of file animaMultiCompartmentModelCreator.h.

SetModelWithFreeWaterComponent()

void anima::MultiCompartmentModelCreator::SetModelWithFreeWaterComponent ( bool  arg )

inline

Definition at line 26 of file animaMultiCompartmentModelCreator.h.

Referenced by anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::BeforeThreadedGenerateData(), anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::EstimateFreeWaterModel(), anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::GenerateOutputInformation(), anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::InitialOrientationsEstimation(), main(), anima::MCMCorrelationImageToImageMetric< TFixedImagePixelType, TMovingImagePixelType, ImageDimension >::MCMCorrelationImageToImageMetric(), anima::MCMMeanSquaresImageToImageMetric< TFixedImagePixelType, TMovingImagePixelType, ImageDimension >::MCMMeanSquaresImageToImageMetric(), anima::MCMPairingMeanSquaresImageToImageMetric< TFixedImagePixelType, TMovingImagePixelType, ImageDimension >::MCMPairingMeanSquaresImageToImageMetric(), and anima::MTPairingCorrelationImageToImageMetric< TFixedImagePixelType, TMovingImagePixelType, ImageDimension >::MTPairingCorrelationImageToImageMetric().

SetModelWithRestrictedWaterComponent()

void anima::MultiCompartmentModelCreator::SetModelWithRestrictedWaterComponent ( bool  arg )

inline

Definition at line 28 of file animaMultiCompartmentModelCreator.h.

Referenced by anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::BeforeThreadedGenerateData(), anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::EstimateFreeWaterModel(), anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::GenerateOutputInformation(), anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::InitialOrientationsEstimation(), and main().

SetModelWithStaniszComponent()

void anima::MultiCompartmentModelCreator::SetModelWithStaniszComponent ( bool  arg )

inline

Definition at line 29 of file animaMultiCompartmentModelCreator.h.

Referenced by anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::BeforeThreadedGenerateData(), anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::EstimateFreeWaterModel(), anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::GenerateOutputInformation(), anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::InitialOrientationsEstimation(), and main().

SetModelWithStationaryWaterComponent()

void anima::MultiCompartmentModelCreator::SetModelWithStationaryWaterComponent ( bool  arg )

inline

Definition at line 27 of file animaMultiCompartmentModelCreator.h.

Referenced by anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::BeforeThreadedGenerateData(), anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::EstimateFreeWaterModel(), anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::GenerateOutputInformation(), anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::InitialOrientationsEstimation(), main(), anima::MCMCorrelationImageToImageMetric< TFixedImagePixelType, TMovingImagePixelType, ImageDimension >::MCMCorrelationImageToImageMetric(), anima::MCMMeanSquaresImageToImageMetric< TFixedImagePixelType, TMovingImagePixelType, ImageDimension >::MCMMeanSquaresImageToImageMetric(), anima::MCMPairingMeanSquaresImageToImageMetric< TFixedImagePixelType, TMovingImagePixelType, ImageDimension >::MCMPairingMeanSquaresImageToImageMetric(), and anima::MTPairingCorrelationImageToImageMetric< TFixedImagePixelType, TMovingImagePixelType, ImageDimension >::MTPairingCorrelationImageToImageMetric().

SetNumberOfCompartments()

void anima::MultiCompartmentModelCreator::SetNumberOfCompartments ( unsigned int  num )

inline

Definition at line 32 of file animaMultiCompartmentModelCreator.h.

Referenced by anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::BeforeThreadedGenerateData(), anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::EstimateFreeWaterModel(), anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::GenerateOutputInformation(), anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::InitialOrientationsEstimation(), main(), anima::MCMCorrelationImageToImageMetric< TFixedImagePixelType, TMovingImagePixelType, ImageDimension >::MCMCorrelationImageToImageMetric(), anima::MCMMeanSquaresImageToImageMetric< TFixedImagePixelType, TMovingImagePixelType, ImageDimension >::MCMMeanSquaresImageToImageMetric(), anima::MCMPairingMeanSquaresImageToImageMetric< TFixedImagePixelType, TMovingImagePixelType, ImageDimension >::MCMPairingMeanSquaresImageToImageMetric(), anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::ModelEstimation(), anima::MTPairingCorrelationImageToImageMetric< TFixedImagePixelType, TMovingImagePixelType, ImageDimension >::MTPairingCorrelationImageToImageMetric(), and anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::SparseInitializeSticks().

SetRadialDiffusivity1Value()

void anima::MultiCompartmentModelCreator::SetRadialDiffusivity1Value ( double  arg )

inline

Definition at line 59 of file animaMultiCompartmentModelCreator.h.

SetRadialDiffusivity2Value()

void anima::MultiCompartmentModelCreator::SetRadialDiffusivity2Value ( double  arg )

inline

Definition at line 60 of file animaMultiCompartmentModelCreator.h.

SetStaniszDiffusivityValue()

void anima::MultiCompartmentModelCreator::SetStaniszDiffusivityValue ( double  arg )

inline

Definition at line 57 of file animaMultiCompartmentModelCreator.h.

SetUseCommonConcentrations()

void anima::MultiCompartmentModelCreator::SetUseCommonConcentrations ( bool  arg )

inline

Definition at line 48 of file animaMultiCompartmentModelCreator.h.

Referenced by anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::ModelEstimation().

SetUseCommonDiffusivities()

void anima::MultiCompartmentModelCreator::SetUseCommonDiffusivities ( bool  arg )

inline

Definition at line 47 of file animaMultiCompartmentModelCreator.h.

Referenced by anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::InitialOrientationsEstimation().

SetUseCommonExtraAxonalFractions()

void anima::MultiCompartmentModelCreator::SetUseCommonExtraAxonalFractions ( bool  arg )

inline

Definition at line 49 of file animaMultiCompartmentModelCreator.h.

Referenced by anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::ModelEstimation().

SetUseConstrainedDiffusivity()

void anima::MultiCompartmentModelCreator::SetUseConstrainedDiffusivity ( bool  arg )

inline

Definition at line 35 of file animaMultiCompartmentModelCreator.h.

Referenced by anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::InitialOrientationsEstimation(), and anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::ModelEstimation().

SetUseConstrainedExtraAxonalFraction()

void anima::MultiCompartmentModelCreator::SetUseConstrainedExtraAxonalFraction ( bool  arg )

inline

Definition at line 37 of file animaMultiCompartmentModelCreator.h.

Referenced by anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::ModelEstimation().

SetUseConstrainedFreeWaterDiffusivity()

void anima::MultiCompartmentModelCreator::SetUseConstrainedFreeWaterDiffusivity ( bool  arg )

inline

Definition at line 38 of file animaMultiCompartmentModelCreator.h.

Referenced by anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::EstimateFreeWaterModel(), and anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::InitialOrientationsEstimation().

SetUseConstrainedIRWDiffusivity()

void anima::MultiCompartmentModelCreator::SetUseConstrainedIRWDiffusivity ( bool  arg )

inline

Definition at line 39 of file animaMultiCompartmentModelCreator.h.

Referenced by anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::EstimateFreeWaterModel(), and anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::InitialOrientationsEstimation().

SetUseConstrainedOrientationConcentration()

void anima::MultiCompartmentModelCreator::SetUseConstrainedOrientationConcentration ( bool  arg )

inline

Definition at line 36 of file animaMultiCompartmentModelCreator.h.

Referenced by anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::ModelEstimation().

SetUseConstrainedStaniszDiffusivity()

void anima::MultiCompartmentModelCreator::SetUseConstrainedStaniszDiffusivity ( bool  arg )

inline

Definition at line 40 of file animaMultiCompartmentModelCreator.h.

Referenced by anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::EstimateFreeWaterModel(), and anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::InitialOrientationsEstimation().

SetUseConstrainedStaniszRadius()

void anima::MultiCompartmentModelCreator::SetUseConstrainedStaniszRadius ( bool  arg )

inline

Definition at line 41 of file animaMultiCompartmentModelCreator.h.

Referenced by anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::EstimateFreeWaterModel(), and anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::InitialOrientationsEstimation().

SetVariableProjectionEstimationMode()

void anima::MultiCompartmentModelCreator::SetVariableProjectionEstimationMode ( bool  arg )

inline

Definition at line 33 of file animaMultiCompartmentModelCreator.h.

Referenced by anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::EstimateFreeWaterModel(), and anima::MCMEstimatorImageFilter< InputPixelType, OutputPixelType >::InitialOrientationsEstimation().

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

• animaMultiCompartmentModelCreator.h
• animaMultiCompartmentModelCreator.cxx