ITK  5.2.0
Insight Toolkit
Public Types | Public Member Functions | Static Public Member Functions | Static Public Attributes | List of all members
itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage > Class Template Reference
Group Filtering » Module ITKBiasCorrection

#include <itkMRIBiasFieldCorrectionFilter.h>

+ Inheritance diagram for itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >:
+ Collaboration diagram for itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >:

Public Types

using BiasFieldType = MultivariateLegendrePolynomial
 
using ConstPointer = SmartPointer< const Self >
 
using EnergyFunctionPointer = typename EnergyFunctionType::Pointer
 
using EnergyFunctionType = MRIBiasEnergyFunction< InternalImageType, ImageMaskType, BiasFieldType >
 
using ImageMaskPointer = typename ImageMaskType::Pointer
 
using ImageMaskRegionType = typename ImageMaskType::RegionType
 
using ImageMaskType = TMaskImage
 
using InputImageIndexType = typename TInputImage::IndexType
 
using InputImagePixelType = typename TInputImage::PixelType
 
using InputImagePointer = typename TInputImage::Pointer
 
using InputImageRegionType = typename TInputImage::RegionType
 
using InputImageSizeType = typename TInputImage::SizeType
 
using InputImageType = TInputImage
 
using InternalImagePixelType = typename InternalImageType::PixelType
 
using InternalImagePointer = typename InternalImageType::Pointer
 
using InternalImageRegionType = typename InternalImageType::RegionType
 
using InternalImageType = Image< float, Self::ImageDimension >
 
using MRASlabIdentifierType = MRASlabIdentifier< InputImageType >
 
using NormalVariateGeneratorType = Statistics::NormalVariateGenerator
 
using OptimizerType = OnePlusOneEvolutionaryOptimizer
 
using OutputImageIndexType = typename TOutputImage::IndexType
 
using OutputImagePixelType = typename TOutputImage::PixelType
 
using OutputImagePointer = typename TOutputImage::Pointer
 
using OutputImageRegionType = typename TOutputImage::RegionType
 
using OutputImageSizeType = typename TOutputImage::SizeType
 
using OutputImageType = TOutputImage
 
using Pointer = SmartPointer< Self >
 
using ScheduleType = Array2D< unsigned int >
 
using Self = MRIBiasFieldCorrectionFilter
 
using SlabRegionVectorIteratorType = typename SlabRegionVectorType::iterator
 
using SlabRegionVectorType = typename MRASlabIdentifierType::SlabRegionVectorType
 
using Superclass = ImageToImageFilter< TInputImage, TOutputImage >
 
- Public Types inherited from itk::ImageToImageFilter< TInputImage, TOutputImage >
using ConstPointer = SmartPointer< const Self >
 
using InputImageConstPointer = typename InputImageType::ConstPointer
 
using InputImagePixelType = typename InputImageType::PixelType
 
using InputImagePointer = typename InputImageType::Pointer
 
using InputImageRegionType = typename InputImageType::RegionType
 
using InputImageType = TInputImage
 
using OutputImagePixelType = typename Superclass::OutputImagePixelType
 
using OutputImageRegionType = typename Superclass::OutputImageRegionType
 
using Pointer = SmartPointer< Self >
 
using Self = ImageToImageFilter
 
using Superclass = ImageSource< TOutputImage >
 
- Public Types inherited from itk::ImageSource< TOutputImage >
using ConstPointer = SmartPointer< const Self >
 
using DataObjectIdentifierType = Superclass::DataObjectIdentifierType
 
using DataObjectPointer = DataObject::Pointer
 
using DataObjectPointerArraySizeType = Superclass::DataObjectPointerArraySizeType
 
using OutputImagePixelType = typename OutputImageType::PixelType
 
using OutputImagePointer = typename OutputImageType::Pointer
 
using OutputImageRegionType = typename OutputImageType::RegionType
 
using OutputImageType = TOutputImage
 
using Pointer = SmartPointer< Self >
 
using Self = ImageSource
 
using Superclass = ProcessObject
 
- Public Types inherited from itk::ProcessObject
using ConstPointer = SmartPointer< const Self >
 
using DataObjectIdentifierType = DataObject::DataObjectIdentifierType
 
using DataObjectPointer = DataObject::Pointer
 
using DataObjectPointerArray = std::vector< DataObjectPointer >
 
using DataObjectPointerArraySizeType = DataObjectPointerArray::size_type
 
using MultiThreaderType = MultiThreaderBase
 
using NameArray = std::vector< DataObjectIdentifierType >
 
using Pointer = SmartPointer< Self >
 
using Self = ProcessObject
 
using Superclass = Object
 
- Public Types inherited from itk::Object
using ConstPointer = SmartPointer< const Self >
 
using Pointer = SmartPointer< Self >
 
using Self = Object
 
using Superclass = LightObject
 
- Public Types inherited from itk::LightObject
using ConstPointer = SmartPointer< const Self >
 
using Pointer = SmartPointer< Self >
 
using Self = LightObject
 

Public Member Functions

virtual ::itk::LightObject::Pointer CreateAnother () const
 
virtual const char * GetNameOfClass () const
 
- Public Member Functions inherited from itk::ImageToImageFilter< TInputImage, TOutputImage >
const InputImageType * GetInput () const
 
const InputImageType * GetInput (unsigned int idx) const
 
void PopBackInput () override
 
void PopFrontInput () override
 
virtual void PushBackInput (const InputImageType *input)
 
virtual void PushFrontInput (const InputImageType *input)
 
virtual void SetInput (const DataObjectIdentifierType &key, DataObject *input)
 
virtual void SetInput (const InputImageType *input)
 
virtual void SetInput (unsigned int, const TInputImage *image)
 
virtual void SetCoordinateTolerance (double _arg)
 
virtual double GetCoordinateTolerance () const
 
virtual void SetDirectionTolerance (double _arg)
 
virtual double GetDirectionTolerance () const
 
- Public Member Functions inherited from itk::ImageSource< TOutputImage >
OutputImageType * GetOutput ()
 
const OutputImageType * GetOutput () const
 
OutputImageType * GetOutput (unsigned int idx)
 
virtual void GraftOutput (DataObject *graft)
 
virtual void GraftOutput (const DataObjectIdentifierType &key, DataObject *graft)
 
virtual void GraftNthOutput (unsigned int idx, DataObject *graft)
 
ProcessObject::DataObjectPointer MakeOutput (ProcessObject::DataObjectPointerArraySizeType idx) override
 
ProcessObject::DataObjectPointer MakeOutput (const ProcessObject::DataObjectIdentifierType &) override
 
- Public Member Functions inherited from itk::ProcessObject
virtual void AbortGenerateDataOff ()
 
virtual void AbortGenerateDataOn ()
 
virtual void EnlargeOutputRequestedRegion (DataObject *)
 
virtual const bool & GetAbortGenerateData () const
 
DataObjectPointerArray GetIndexedInputs ()
 
DataObjectPointerArray GetIndexedOutputs ()
 
NameArray GetInputNames () const
 
DataObjectPointerArray GetInputs ()
 
DataObjectPointerArraySizeType GetNumberOfIndexedInputs () const
 
DataObjectPointerArraySizeType GetNumberOfIndexedOutputs () const
 
DataObjectPointerArraySizeType GetNumberOfInputs () const
 
DataObjectPointerArraySizeType GetNumberOfOutputs () const
 
virtual DataObjectPointerArraySizeType GetNumberOfValidRequiredInputs () const
 
NameArray GetOutputNames () const
 
DataObjectPointerArray GetOutputs ()
 
virtual float GetProgress () const
 
NameArray GetRequiredInputNames () const
 
bool HasInput (const DataObjectIdentifierType &key) const
 
bool HasOutput (const DataObjectIdentifierType &key) const
 
void IncrementProgress (float increment)
 
virtual void PropagateRequestedRegion (DataObject *output)
 
virtual void ResetPipeline ()
 
virtual void SetAbortGenerateData (bool _arg)
 
virtual void Update ()
 
virtual void UpdateLargestPossibleRegion ()
 
virtual void UpdateOutputData (DataObject *output)
 
virtual void UpdateOutputInformation ()
 
void UpdateProgress (float progress)
 
virtual void SetReleaseDataFlag (bool val)
 
virtual bool GetReleaseDataFlag () const
 
void ReleaseDataFlagOn ()
 
void ReleaseDataFlagOff ()
 
virtual void SetReleaseDataBeforeUpdateFlag (bool _arg)
 
virtual const bool & GetReleaseDataBeforeUpdateFlag () const
 
virtual void ReleaseDataBeforeUpdateFlagOn ()
 
virtual void ReleaseDataBeforeUpdateFlagOff ()
 
virtual void SetNumberOfWorkUnits (ThreadIdType _arg)
 
virtual const ThreadIdType & GetNumberOfWorkUnits () const
 
MultiThreaderType * GetMultiThreader () const
 
void SetMultiThreader (MultiThreaderType *threader)
 
virtual void PrepareOutputs ()
 
- Public Member Functions inherited from itk::Object
unsigned long AddObserver (const EventObject &event, Command *)
 
unsigned long AddObserver (const EventObject &event, Command *) const
 
unsigned long AddObserver (const EventObject &event, std::function< void(const EventObject &)> function) const
 
virtual void DebugOff () const
 
virtual void DebugOn () const
 
Command * GetCommand (unsigned long tag)
 
bool GetDebug () const
 
MetaDataDictionary & GetMetaDataDictionary ()
 
const MetaDataDictionary & GetMetaDataDictionary () const
 
virtual ModifiedTimeType GetMTime () const
 
virtual const TimeStamp & GetTimeStamp () const
 
bool HasObserver (const EventObject &event) const
 
void InvokeEvent (const EventObject &)
 
void InvokeEvent (const EventObject &) const
 
virtual void Modified () const
 
void Register () const override
 
void RemoveAllObservers ()
 
void RemoveObserver (unsigned long tag)
 
void SetDebug (bool debugFlag) const
 
void SetReferenceCount (int) override
 
void UnRegister () const noexcept override
 
void SetMetaDataDictionary (const MetaDataDictionary &rhs)
 
void SetMetaDataDictionary (MetaDataDictionary &&rrhs)
 
virtual void SetObjectName (std::string _arg)
 
virtual const std::string & GetObjectName () const
 
- Public Member Functions inherited from itk::LightObject
Pointer Clone () const
 
virtual void Delete ()
 
virtual int GetReferenceCount () const
 
void Print (std::ostream &os, Indent indent=0) const
 

Static Public Member Functions

static Pointer New ()
 
- Static Public Member Functions inherited from itk::ImageToImageFilter< TInputImage, TOutputImage >
static void SetGlobalDefaultDirectionTolerance (double)
 
static double GetGlobalDefaultDirectionTolerance ()
 
static void SetGlobalDefaultCoordinateTolerance (double)
 
static double GetGlobalDefaultCoordinateTolerance ()
 
- Static Public Member Functions inherited from itk::Object
static bool GetGlobalWarningDisplay ()
 
static void GlobalWarningDisplayOff ()
 
static void GlobalWarningDisplayOn ()
 
static Pointer New ()
 
static void SetGlobalWarningDisplay (bool val)
 
- Static Public Member Functions inherited from itk::LightObject
static void BreakOnError ()
 
static Pointer New ()
 

Static Public Attributes

static constexpr unsigned int ImageDimension = TOutputImage::ImageDimension
 
- Static Public Attributes inherited from itk::ImageToImageFilter< TInputImage, TOutputImage >
static constexpr unsigned int InputImageDimension = TInputImage::ImageDimension
 
static constexpr unsigned int OutputImageDimension = TOutputImage::ImageDimension
 
- Static Public Attributes inherited from itk::ImageSource< TOutputImage >
static constexpr unsigned int OutputImageDimension = TOutputImage::ImageDimension
 
EnergyFunctionPointer m_EnergyFunction
 
NormalVariateGeneratorType::Pointer m_NormalVariateGenerator
 
ImageMaskPointer m_InputMask
 
ImageMaskPointer m_OutputMask
 
InternalImagePointer m_InternalInput
 
SlabRegionVectorType m_Slabs
 
int m_SlicingDirection
 
bool m_BiasFieldMultiplicative { true }
 
bool m_UsingInterSliceIntensityCorrection
 
bool m_UsingSlabIdentification { false }
 
bool m_UsingBiasFieldCorrection { true }
 
bool m_GeneratingOutput { true }
 
unsigned int m_SlabNumberOfSamples { 200 }
 
InputImagePixelType m_SlabBackgroundMinimumThreshold
 
double m_SlabTolerance { 0.0 }
 
int m_BiasFieldDegree { 3 }
 
unsigned int m_NumberOfLevels { 0 }
 
ScheduleType m_Schedule
 
BiasFieldType::CoefficientArrayType m_BiasFieldCoefficients
 
BiasFieldType::CoefficientArrayType m_EstimatedBiasFieldCoefficients
 
int m_VolumeCorrectionMaximumIteration { 2000 }
 
int m_InterSliceCorrectionMaximumIteration { 4000 }
 
double m_OptimizerInitialRadius { 1.01 }
 
double m_OptimizerGrowthFactor { 1.05 }
 
double m_OptimizerShrinkFactor
 
Array< double > m_TissueClassMeans
 
Array< double > m_TissueClassSigmas
 
static bool IsScheduleDownwardDivisible (const ScheduleType &schedule)
 
void SetInputMask (ImageMaskType *inputMask)
 
virtual ImageMaskType * GetModifiableInputMask ()
 
virtual const ImageMaskType * GetInputMask () const
 
void SetOutputMask (ImageMaskType *outputMask)
 
virtual ImageMaskType * GetModifiableOutputMask ()
 
virtual const ImageMaskType * GetOutputMask () const
 
void IsBiasFieldMultiplicative (bool flag)
 
virtual void SetBiasFieldMultiplicative (bool _arg)
 
virtual bool GetBiasFieldMultiplicative () const
 
virtual void BiasFieldMultiplicativeOn ()
 
virtual void BiasFieldMultiplicativeOff ()
 
bool IsBiasFieldMultiplicative ()
 
virtual void SetUsingInterSliceIntensityCorrection (bool _arg)
 
virtual bool GetUsingInterSliceIntensityCorrection () const
 
virtual void UsingInterSliceIntensityCorrectionOn ()
 
virtual void UsingInterSliceIntensityCorrectionOff ()
 
virtual void SetUsingSlabIdentification (bool _arg)
 
virtual bool GetUsingSlabIdentification () const
 
virtual void UsingSlabIdentificationOn ()
 
virtual void UsingSlabIdentificationOff ()
 
virtual void SetSlabBackgroundMinimumThreshold (InputImagePixelType _arg)
 
virtual const InputImagePixelType & GetSlabBackgroundMinimumThreshold () const
 
virtual void SetSlabNumberOfSamples (unsigned int _arg)
 
virtual const unsigned int & GetSlabNumberOfSamples () const
 
virtual void SetSlabTolerance (double _arg)
 
virtual const double & GetSlabTolerance () const
 
virtual void SetUsingBiasFieldCorrection (bool _arg)
 
virtual bool GetUsingBiasFieldCorrection () const
 
virtual void UsingBiasFieldCorrectionOn ()
 
virtual void UsingBiasFieldCorrectionOff ()
 
virtual void SetGeneratingOutput (bool _arg)
 
virtual bool GetGeneratingOutput () const
 
virtual void GeneratingOutputOn ()
 
virtual void GeneratingOutputOff ()
 
virtual void SetSlicingDirection (int _arg)
 
virtual int GetSlicingDirection () const
 
virtual void SetBiasFieldDegree (int _arg)
 
virtual int GetBiasFieldDegree () const
 
void SetInitialBiasFieldCoefficients (const BiasFieldType::CoefficientArrayType &coefficients)
 
BiasFieldType::CoefficientArrayType GetEstimatedBiasFieldCoefficients ()
 
void SetTissueClassStatistics (const Array< double > &means, const Array< double > &sigmas)
 
virtual void SetVolumeCorrectionMaximumIteration (int _arg)
 
virtual int GetVolumeCorrectionMaximumIteration () const
 
virtual void SetInterSliceCorrectionMaximumIteration (int _arg)
 
virtual int GetInterSliceCorrectionMaximumIteration () const
 
virtual void SetOptimizerInitialRadius (double _arg)
 
virtual double GetOptimizerInitialRadius () const
 
virtual void SetOptimizerGrowthFactor (double _arg)
 
virtual double GetOptimizerGrowthFactor () const
 
virtual void SetOptimizerShrinkFactor (double _arg)
 
virtual double GetOptimizerShrinkFactor () const
 
void SetNumberOfLevels (unsigned int num)
 
virtual unsigned int GetNumberOfLevels () const
 
void SetSchedule (const ScheduleType &schedule)
 
virtual const ScheduleType & GetSchedule () const
 
void SetStartingShrinkFactors (unsigned int factor)
 
void SetStartingShrinkFactors (const unsigned int *factors)
 
const unsigned int * GetStartingShrinkFactors () const
 
void Initialize ()
 
BiasFieldType EstimateBiasField (InputImageRegionType region, unsigned int degree, int maximumIteration)
 
void CorrectImage (BiasFieldType &bias, InputImageRegionType region)
 
void CorrectInterSliceIntensityInhomogeneity (InputImageRegionType region)
 
 MRIBiasFieldCorrectionFilter ()
 
 ~MRIBiasFieldCorrectionFilter () override=default
 
void PrintSelf (std::ostream &os, Indent indent) const override
 
bool CheckMaskImage (ImageMaskType *mask)
 
void Log1PImage (InternalImageType *source, InternalImageType *target)
 
void ExpImage (InternalImageType *source, InternalImageType *target)
 
template<typename TSource , typename TTarget >
void CopyAndConvertImage (const TSource *source, TTarget *target, typename TTarget::RegionType requestedRegion)
 
void GetBiasFieldSize (InputImageRegionType region, BiasFieldType::DomainSizeType &biasSize)
 
void AdjustSlabRegions (SlabRegionVectorType &slabs, OutputImageRegionType requestedRegion)
 
void GenerateData () override
 

Additional Inherited Members

- Protected Types inherited from itk::ImageToImageFilter< TInputImage, TOutputImage >
using InputToOutputRegionCopierType = ImageToImageFilterDetail::ImageRegionCopier< Self::OutputImageDimension, Self::InputImageDimension >
 
using OutputToInputRegionCopierType = ImageToImageFilterDetail::ImageRegionCopier< Self::InputImageDimension, Self::OutputImageDimension >
 
- Protected Member Functions inherited from itk::ImageToImageFilter< TInputImage, TOutputImage >
 ImageToImageFilter ()
 
 ~ImageToImageFilter () override=default
 
void VerifyInputInformation () ITKv5_CONST override
 
void GenerateInputRequestedRegion () override
 
virtual void CallCopyOutputRegionToInputRegion (InputImageRegionType &destRegion, const OutputImageRegionType &srcRegion)
 
virtual void CallCopyInputRegionToOutputRegion (OutputImageRegionType &destRegion, const InputImageRegionType &srcRegion)
 
void PushBackInput (const DataObject *input) override
 
void PushFrontInput (const DataObject *input) override
 
- Protected Member Functions inherited from itk::ImageSource< TOutputImage >
 ImageSource ()
 
 ~ImageSource () override=default
 
void ClassicMultiThread (ThreadFunctionType callbackFunction)
 
virtual void ThreadedGenerateData (const OutputImageRegionType &region, ThreadIdType threadId)
 
virtual void DynamicThreadedGenerateData (const OutputImageRegionType &outputRegionForThread)
 
virtual void AllocateOutputs ()
 
virtual void BeforeThreadedGenerateData ()
 
virtual void AfterThreadedGenerateData ()
 
virtual const ImageRegionSplitterBase * GetImageRegionSplitter () const
 
virtual unsigned int SplitRequestedRegion (unsigned int i, unsigned int pieces, OutputImageRegionType &splitRegion)
 
virtual bool GetDynamicMultiThreading () const
 
virtual void SetDynamicMultiThreading (bool _arg)
 
virtual void DynamicMultiThreadingOn ()
 
virtual void DynamicMultiThreadingOff ()
 
- Protected Member Functions inherited from itk::ProcessObject
 ProcessObject ()
 
 ~ProcessObject () override
 
DataObject * GetInput (const DataObjectIdentifierType &key)
 
const DataObject * GetInput (const DataObjectIdentifierType &key) const
 
DataObject * GetInput (DataObjectPointerArraySizeType idx)
 
const DataObject * GetInput (DataObjectPointerArraySizeType idx) const
 
virtual void SetInput (const DataObjectIdentifierType &key, DataObject *input)
 
virtual void SetNthInput (DataObjectPointerArraySizeType idx, DataObject *input)
 
virtual void AddInput (DataObject *input)
 
virtual void RemoveInput (const DataObjectIdentifierType &key)
 
virtual void RemoveInput (DataObjectPointerArraySizeType)
 
DataObject * GetPrimaryInput ()
 
const DataObject * GetPrimaryInput () const
 
virtual void SetPrimaryInputName (const DataObjectIdentifierType &key)
 
virtual const char * GetPrimaryInputName () const
 
virtual void SetPrimaryInput (DataObject *object)
 
void SetNumberOfIndexedInputs (DataObjectPointerArraySizeType num)
 
virtual void SetNumberOfRequiredInputs (DataObjectPointerArraySizeType)
 
virtual const DataObjectPointerArraySizeType & GetNumberOfRequiredInputs () const
 
bool RemoveRequiredInputName (const DataObjectIdentifierType &)
 
bool IsRequiredInputName (const DataObjectIdentifierType &) const
 
void SetRequiredInputNames (const NameArray &)
 
bool AddRequiredInputName (const DataObjectIdentifierType &)
 
bool AddRequiredInputName (const DataObjectIdentifierType &, DataObjectPointerArraySizeType idx)
 
void AddOptionalInputName (const DataObjectIdentifierType &)
 
void AddOptionalInputName (const DataObjectIdentifierType &, DataObjectPointerArraySizeType idx)
 
DataObject * GetOutput (const DataObjectIdentifierType &key)
 
const DataObject * GetOutput (const DataObjectIdentifierType &key) const
 
virtual void SetPrimaryOutputName (const DataObjectIdentifierType &key)
 
virtual const char * GetPrimaryOutputName () const
 
DataObject * GetOutput (DataObjectPointerArraySizeType i)
 
const DataObject * GetOutput (DataObjectPointerArraySizeType i) const
 
virtual void SetOutput (const DataObjectIdentifierType &name, DataObject *output)
 
virtual void RemoveOutput (const DataObjectIdentifierType &key)
 
DataObject * GetPrimaryOutput ()
 
const DataObject * GetPrimaryOutput () const
 
virtual void SetPrimaryOutput (DataObject *object)
 
virtual void SetNthOutput (DataObjectPointerArraySizeType idx, DataObject *output)
 
virtual void AddOutput (DataObject *output)
 
virtual void RemoveOutput (DataObjectPointerArraySizeType idx)
 
virtual void SetNumberOfRequiredOutputs (DataObjectPointerArraySizeType _arg)
 
virtual const DataObjectPointerArraySizeType & GetNumberOfRequiredOutputs () const
 
void SetNumberOfIndexedOutputs (DataObjectPointerArraySizeType num)
 
DataObjectIdentifierType MakeNameFromInputIndex (DataObjectPointerArraySizeType idx) const
 
DataObjectIdentifierType MakeNameFromOutputIndex (DataObjectPointerArraySizeType idx) const
 
DataObjectPointerArraySizeType MakeIndexFromInputName (const DataObjectIdentifierType &name) const
 
DataObjectPointerArraySizeType MakeIndexFromOutputName (const DataObjectIdentifierType &name) const
 
bool IsIndexedInputName (const DataObjectIdentifierType &) const
 
bool IsIndexedOutputName (const DataObjectIdentifierType &) const
 
virtual void VerifyPreconditions () ITKv5_CONST
 
virtual void GenerateOutputRequestedRegion (DataObject *output)
 
virtual void GenerateOutputInformation ()
 
virtual void PropagateResetPipeline ()
 
virtual void ReleaseInputs ()
 
virtual void CacheInputReleaseDataFlags ()
 
virtual void RestoreInputReleaseDataFlags ()
 
virtual bool GetThreaderUpdateProgress () const
 
virtual void ThreaderUpdateProgressOn ()
 
virtual void ThreaderUpdateProgressOff ()
 
virtual void SetThreaderUpdateProgress (bool arg)
 
- Protected Member Functions inherited from itk::Object
 Object ()
 
 ~Object () override
 
bool PrintObservers (std::ostream &os, Indent indent) const
 
virtual void SetTimeStamp (const TimeStamp &timeStamp)
 
- 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 ()
 
- Static Protected Member Functions inherited from itk::ImageSource< TOutputImage >
static const ImageRegionSplitterBase * GetGlobalDefaultSplitter ()
 
static ITK_THREAD_RETURN_FUNCTION_CALL_CONVENTION ThreaderCallback (void *arg)
 
- Static Protected Member Functions inherited from itk::ProcessObject
static constexpr float progressFixedToFloat (uint32_t fixed)
 
static uint32_t progressFloatToFixed (float f)
 
- Protected Attributes inherited from itk::ImageSource< TOutputImage >
bool m_DynamicMultiThreading
 
- Protected Attributes inherited from itk::ProcessObject
bool m_Updating
 
TimeStamp m_OutputInformationMTime
 
- Protected Attributes inherited from itk::LightObject
std::atomic< int > m_ReferenceCount
 

Detailed Description

template<typename TInputImage, typename TOutputImage, typename TMaskImage>
class itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >

Corrects 3D MRI bias field.

This class is templated over the type of the input image (TInputImage) and the type of the output image (TOutputImage).

In MRI images, intensity inhomogeneities which are caused by magnetic settings, patients' position, and other factors are not unusual. The main purpose of this filter is to reduce such bias field. To estimate the bias field, we use Legendre polynomials. The 1+1 evolutionary optimizer searches for the best parameters of a Legendre polynomial (bias field estimate) which minimizes the total energy value of each image after bias field is eliminated. The default Legendre polynomial degree is 3.

The correction performs by default a multiplicative bias field correction by first log-transforming the input image. This log transform only works on images with grayscale values bigger than 0. The log-transform can be disabled and the filter computes an additive bias field.

There are three major processes in the whole bias correction scheme: slab identification, inter-slice intensity correction, and actual bias correction process. Users can turn on and off each process within the whole bias correction scheme using SetUsingSlabIdentification(bool, false by default), SetUsingInterSliceIntensityCorrection(bool, true by default), and SetUsingBiasFieldCorrection(bool, true by default) member function.

Only the last process (the actual bias field correction) is implemented in a multiresolution framework (without smoothing). Default is a standard level 2 multiresolution schedule (2 2 2 1 1 1).

The bias field correction method was initially developed and implemented by Martin Styner, Univ. of North Carolina at Chapel Hill, and his colleagues.

The multiresolution pyramid implementation is based on itkMultiTesolutionPyramidImageFilter (without Gaussian smoothing)

For more details. refer to the following articles. "Parametric estimate of intensity inhomogeneities applied to MRI" Martin Styner, Guido Gerig, Christian Brechbuehler, Gabor Szekely, IEEE TRANSACTIONS ON MEDICAL IMAGING; 19(3), pp. 153-165, 2000, (http://www.cs.unc.edu/~styner/docs/tmi00.pdf)

"Evaluation of 2D/3D bias correction with 1+1ES-optimization" Martin Styner, Prof. Dr. G. Gerig (IKT, BIWI, ETH Zuerich), TR-197 (http://www.cs.unc.edu/~styner/docs/StynerTR97.pdf)

Definition at line 232 of file itkMRIBiasFieldCorrectionFilter.h.

Member Typedef Documentation

◆ BiasFieldType

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
using itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::BiasFieldType = MultivariateLegendrePolynomial

Bias field object type definition.

Definition at line 285 of file itkMRIBiasFieldCorrectionFilter.h.

◆ ConstPointer

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
using itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::ConstPointer = SmartPointer<const Self>

Definition at line 242 of file itkMRIBiasFieldCorrectionFilter.h.

◆ EnergyFunctionPointer

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
using itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::EnergyFunctionPointer = typename EnergyFunctionType::Pointer

Definition at line 289 of file itkMRIBiasFieldCorrectionFilter.h.

◆ EnergyFunctionType

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
using itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::EnergyFunctionType = MRIBiasEnergyFunction<InternalImageType, ImageMaskType, BiasFieldType>

Energy function type definition.

Definition at line 288 of file itkMRIBiasFieldCorrectionFilter.h.

◆ ImageMaskPointer

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
using itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::ImageMaskPointer = typename ImageMaskType::Pointer

Definition at line 270 of file itkMRIBiasFieldCorrectionFilter.h.

◆ ImageMaskRegionType

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
using itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::ImageMaskRegionType = typename ImageMaskType::RegionType

Definition at line 271 of file itkMRIBiasFieldCorrectionFilter.h.

◆ ImageMaskType

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
using itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::ImageMaskType = TMaskImage

Mask image related type definitions.

Definition at line 269 of file itkMRIBiasFieldCorrectionFilter.h.

◆ InputImageIndexType

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
using itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::InputImageIndexType = typename TInputImage::IndexType

Definition at line 263 of file itkMRIBiasFieldCorrectionFilter.h.

◆ InputImagePixelType

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
using itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::InputImagePixelType = typename TInputImage::PixelType

Definition at line 264 of file itkMRIBiasFieldCorrectionFilter.h.

◆ InputImagePointer

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
using itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::InputImagePointer = typename TInputImage::Pointer

Definition at line 262 of file itkMRIBiasFieldCorrectionFilter.h.

◆ InputImageRegionType

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
using itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::InputImageRegionType = typename TInputImage::RegionType

Definition at line 266 of file itkMRIBiasFieldCorrectionFilter.h.

◆ InputImageSizeType

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
using itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::InputImageSizeType = typename TInputImage::SizeType

Definition at line 265 of file itkMRIBiasFieldCorrectionFilter.h.

◆ InputImageType

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
using itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::InputImageType = TInputImage

Definition at line 261 of file itkMRIBiasFieldCorrectionFilter.h.

◆ InternalImagePixelType

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
using itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::InternalImagePixelType = typename InternalImageType::PixelType

Definition at line 275 of file itkMRIBiasFieldCorrectionFilter.h.

◆ InternalImagePointer

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
using itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::InternalImagePointer = typename InternalImageType::Pointer

Definition at line 276 of file itkMRIBiasFieldCorrectionFilter.h.

◆ InternalImageRegionType

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
using itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::InternalImageRegionType = typename InternalImageType::RegionType

Definition at line 277 of file itkMRIBiasFieldCorrectionFilter.h.

◆ InternalImageType

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
using itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::InternalImageType = Image<float, Self::ImageDimension>

Internal (temporary) image related type definitions.

Definition at line 274 of file itkMRIBiasFieldCorrectionFilter.h.

◆ MRASlabIdentifierType

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
using itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::MRASlabIdentifierType = MRASlabIdentifier<InputImageType>

Regions of the MRI slab identifier return.

Definition at line 280 of file itkMRIBiasFieldCorrectionFilter.h.

◆ NormalVariateGeneratorType

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
using itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::NormalVariateGeneratorType = Statistics::NormalVariateGenerator

Normal variate Generator Type

Definition at line 292 of file itkMRIBiasFieldCorrectionFilter.h.

◆ OptimizerType

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
using itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::OptimizerType = OnePlusOneEvolutionaryOptimizer

Optimizer type definition.

Definition at line 295 of file itkMRIBiasFieldCorrectionFilter.h.

◆ OutputImageIndexType

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
using itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::OutputImageIndexType = typename TOutputImage::IndexType

Definition at line 256 of file itkMRIBiasFieldCorrectionFilter.h.

◆ OutputImagePixelType

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
using itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::OutputImagePixelType = typename TOutputImage::PixelType

Definition at line 257 of file itkMRIBiasFieldCorrectionFilter.h.

◆ OutputImagePointer

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
using itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::OutputImagePointer = typename TOutputImage::Pointer

Definition at line 255 of file itkMRIBiasFieldCorrectionFilter.h.

◆ OutputImageRegionType

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
using itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::OutputImageRegionType = typename TOutputImage::RegionType

Definition at line 259 of file itkMRIBiasFieldCorrectionFilter.h.

◆ OutputImageSizeType

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
using itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::OutputImageSizeType = typename TOutputImage::SizeType

Definition at line 258 of file itkMRIBiasFieldCorrectionFilter.h.

◆ OutputImageType

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
using itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::OutputImageType = TOutputImage

Input and output image related type definitions.

Definition at line 254 of file itkMRIBiasFieldCorrectionFilter.h.

◆ Pointer

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
using itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::Pointer = SmartPointer<Self>

Definition at line 241 of file itkMRIBiasFieldCorrectionFilter.h.

◆ ScheduleType

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
using itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::ScheduleType = Array2D<unsigned int>

ScheduleType type alias support

Definition at line 298 of file itkMRIBiasFieldCorrectionFilter.h.

◆ Self

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
using itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::Self = MRIBiasFieldCorrectionFilter

Standard class type aliases.

Definition at line 239 of file itkMRIBiasFieldCorrectionFilter.h.

◆ SlabRegionVectorIteratorType

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
using itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::SlabRegionVectorIteratorType = typename SlabRegionVectorType::iterator

Definition at line 282 of file itkMRIBiasFieldCorrectionFilter.h.

◆ SlabRegionVectorType

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
using itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::SlabRegionVectorType = typename MRASlabIdentifierType::SlabRegionVectorType

Definition at line 281 of file itkMRIBiasFieldCorrectionFilter.h.

◆ Superclass

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
using itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::Superclass = ImageToImageFilter<TInputImage, TOutputImage>

Definition at line 240 of file itkMRIBiasFieldCorrectionFilter.h.

Constructor & Destructor Documentation

◆ MRIBiasFieldCorrectionFilter()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::MRIBiasFieldCorrectionFilter ( )
protected

Energy function object pointer.

◆ ~MRIBiasFieldCorrectionFilter()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::~MRIBiasFieldCorrectionFilter ( )
overrideprotecteddefault

Energy function object pointer.

Member Function Documentation

◆ AdjustSlabRegions()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::AdjustSlabRegions ( SlabRegionVectorType &  slabs,
OutputImageRegionType  requestedRegion 
)
protected

Find overlapping regions between the slab regions and the output image's requested region. And then replace the original slab regions with the resulting overlapping regions.

◆ BiasFieldMultiplicativeOff()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::BiasFieldMultiplicativeOff ( )
virtual

Energy function object pointer.

◆ BiasFieldMultiplicativeOn()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::BiasFieldMultiplicativeOn ( )
virtual

Energy function object pointer.

◆ CheckMaskImage()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
bool itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::CheckMaskImage ( ImageMaskType *  mask)
protected

Checks if the mask image's dimensionality and size matches with those of the input image.

◆ CopyAndConvertImage()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
template<typename TSource , typename TTarget >
void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::CopyAndConvertImage ( const TSource *  source,
TTarget *  target,
typename TTarget::RegionType  requestedRegion 
)
inlineprotected

Converts pixel type, and copies image data from source to target.

Definition at line 547 of file itkMRIBiasFieldCorrectionFilter.h.

◆ CorrectImage()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::CorrectImage ( BiasFieldType &  bias,
InputImageRegionType  region 
)

Correct the internal image using the bias field estimate created by EstimateBiasField() member function and the internal image data that are in the specified region.

◆ CorrectInterSliceIntensityInhomogeneity()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::CorrectInterSliceIntensityInhomogeneity ( InputImageRegionType  region)

Internally calls EstimateBiasField() and CorrectImage() member functions for each slice to correct inter-slice intensity inhomogeneities.

◆ CreateAnother()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual::itk::LightObject::Pointer itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::CreateAnother ( ) const
virtual

Create an object from an instance, potentially deferring to a factory. This method allows you to create an instance of an object that is exactly the same type as the referring object. This is useful in cases where an object has been cast back to a base class.

Reimplemented from itk::Object.

◆ EstimateBiasField()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
BiasFieldType itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::EstimateBiasField ( InputImageRegionType  region,
unsigned int  degree,
int  maximumIteration 
)

Optimizes the bias field only using the image data that are in the specified region.

◆ ExpImage()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::ExpImage ( InternalImageType *  source,
InternalImageType *  target 
)
protected

Converts image data from source to target applying std::exp(pixel) - 1 to all pixels.

◆ GenerateData()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::GenerateData ( )
overrideprotectedvirtual

Energy function object pointer.

Reimplemented from itk::ImageSource< TOutputImage >.

◆ GeneratingOutputOff()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::GeneratingOutputOff ( )
virtual

Energy function object pointer.

◆ GeneratingOutputOn()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::GeneratingOutputOn ( )
virtual

Energy function object pointer.

◆ GetBiasFieldDegree()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual int itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::GetBiasFieldDegree ( ) const
virtual

Energy function object pointer.

◆ GetBiasFieldMultiplicative()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual bool itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::GetBiasFieldMultiplicative ( ) const
virtual

Energy function object pointer.

◆ GetBiasFieldSize()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::GetBiasFieldSize ( InputImageRegionType  region,
BiasFieldType::DomainSizeType &  biasSize 
)
protected

Converts ImageRegion type (region) to DomainSize type (std::vector). NOTE: if the size of the last dimension of the image region is one, then the dimension of the resulting domain size will be one less than that of he image region.

◆ GetEstimatedBiasFieldCoefficients()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
BiasFieldType::CoefficientArrayType itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::GetEstimatedBiasFieldCoefficients ( )
inline

Get the result bias field coefficients after the bias field estimation (does not apply to the inter-slice intensity correction).

Definition at line 413 of file itkMRIBiasFieldCorrectionFilter.h.

◆ GetGeneratingOutput()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual bool itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::GetGeneratingOutput ( ) const
virtual

Energy function object pointer.

◆ GetInputMask()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual const ImageMaskType* itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::GetInputMask ( ) const
virtual

Energy function object pointer.

◆ GetInterSliceCorrectionMaximumIteration()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual int itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::GetInterSliceCorrectionMaximumIteration ( ) const
virtual

Energy function object pointer.

◆ GetModifiableInputMask()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual ImageMaskType* itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::GetModifiableInputMask ( )
virtual

Energy function object pointer.

◆ GetModifiableOutputMask()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual ImageMaskType* itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::GetModifiableOutputMask ( )
virtual

Energy function object pointer.

◆ GetNameOfClass()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual const char* itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::GetNameOfClass ( ) const
virtual

Run-time type information (and related methods)

Reimplemented from itk::ImageToImageFilter< TInputImage, TOutputImage >.

◆ GetNumberOfLevels()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual unsigned int itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::GetNumberOfLevels ( ) const
virtual

Get the number of multi-resolution levels.

◆ GetOptimizerGrowthFactor()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual double itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::GetOptimizerGrowthFactor ( ) const
virtual

Energy function object pointer.

◆ GetOptimizerInitialRadius()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual double itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::GetOptimizerInitialRadius ( ) const
virtual

Energy function object pointer.

◆ GetOptimizerShrinkFactor()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual double itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::GetOptimizerShrinkFactor ( ) const
virtual

Energy function object pointer.

◆ GetOutputMask()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual const ImageMaskType* itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::GetOutputMask ( ) const
virtual

Energy function object pointer.

◆ GetSchedule()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual const ScheduleType& itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::GetSchedule ( ) const
virtual

Get the multi-resolution schedule.

◆ GetSlabBackgroundMinimumThreshold()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual const InputImagePixelType& itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::GetSlabBackgroundMinimumThreshold ( ) const
virtual

Energy function object pointer.

◆ GetSlabNumberOfSamples()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual const unsigned int& itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::GetSlabNumberOfSamples ( ) const
virtual

Energy function object pointer.

◆ GetSlabTolerance()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual const double& itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::GetSlabTolerance ( ) const
virtual

Energy function object pointer.

◆ GetSlicingDirection()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual int itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::GetSlicingDirection ( ) const
virtual

Energy function object pointer.

◆ GetStartingShrinkFactors()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
const unsigned int* itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::GetStartingShrinkFactors ( ) const

Get the starting shrink factors.

◆ GetUsingBiasFieldCorrection()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual bool itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::GetUsingBiasFieldCorrection ( ) const
virtual

Energy function object pointer.

◆ GetUsingInterSliceIntensityCorrection()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual bool itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::GetUsingInterSliceIntensityCorrection ( ) const
virtual

Energy function object pointer.

◆ GetUsingSlabIdentification()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual bool itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::GetUsingSlabIdentification ( ) const
virtual

Energy function object pointer.

◆ GetVolumeCorrectionMaximumIteration()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual int itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::GetVolumeCorrectionMaximumIteration ( ) const
virtual

Energy function object pointer.

◆ Initialize()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::Initialize ( )

Initializes the energy function object and optimizer objects and creates the internal image object copying the input image data to it. Also, if the bias field is multiplicative, applies logarithm to pixel intensity values, tissue classes' statistics values and the optimizer's initial radius NOTE: If the tissue class statistics values (mean and sigma values) then it will throw exception.

◆ IsBiasFieldMultiplicative() [1/2]

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
bool itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::IsBiasFieldMultiplicative ( )
inline

If the bias field is multiplicative, it returns true.

Definition at line 337 of file itkMRIBiasFieldCorrectionFilter.h.

◆ IsBiasFieldMultiplicative() [2/2]

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::IsBiasFieldMultiplicative ( bool  flag)
inline

If this value is true, the filter assumes the bias field is multiplicative and internally uses log intensity values for every calculation.

Definition at line 320 of file itkMRIBiasFieldCorrectionFilter.h.

◆ IsScheduleDownwardDivisible()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
static bool itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::IsScheduleDownwardDivisible ( const ScheduleType &  schedule)
static

Test if the schedule is downward divisible. This method returns true if at every level, the shrink factors are divisible by the shrink factors at the next level.

◆ Log1PImage()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::Log1PImage ( InternalImageType *  source,
InternalImageType *  target 
)
protected

Converts image data from source to target applying std::log(pixel + 1) to all pixels. If the source pixel has negative value, it sets the value of the corresponding pixel in the targe image as zero.

◆ New()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
static Pointer itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::New ( )
static

Method for creation through the object factory.

◆ PrintSelf()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::PrintSelf ( std::ostream &  os,
Indent  indent 
) const
overrideprotectedvirtual

Energy function object pointer.

Reimplemented from itk::ImageToImageFilter< TInputImage, TOutputImage >.

◆ SetBiasFieldDegree()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::SetBiasFieldDegree ( int  _arg)
virtual

Set/Get the degree of the bias field estimate.

◆ SetBiasFieldMultiplicative()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::SetBiasFieldMultiplicative ( bool  _arg)
virtual

Set/Get the multiplicative nature of the filter's bias field: if true, the filter assumes the bias field is multiplicative and internally uses log intensity values for every calculation.

◆ SetGeneratingOutput()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::SetGeneratingOutput ( bool  _arg)
virtual

Set/Get the flag. If the flag is true, the output image (corrected image) will be created when this filter is updated (default value is true).

◆ SetInitialBiasFieldCoefficients()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::SetInitialBiasFieldCoefficients ( const BiasFieldType::CoefficientArrayType &  coefficients)
inline

Sets the initial 3D bias field estimate coefficients that will be used for correcting each slab.

Definition at line 402 of file itkMRIBiasFieldCorrectionFilter.h.

◆ SetInputMask()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::SetInputMask ( ImageMaskType *  inputMask)

Set/Get the input mask image pointer. Without this mask, this filter calculates the energy value using all pixels in the input image.

◆ SetInterSliceCorrectionMaximumIteration()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::SetInterSliceCorrectionMaximumIteration ( int  _arg)
virtual

Set/Get the maximum iteration termination condition parameter for the inter-slice intensity inhomogeneity correction.

◆ SetNumberOfLevels()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::SetNumberOfLevels ( unsigned int  num)

Set the number of multi-resolution levels. The matrix containing the schedule will be resized accordingly. The schedule is populated with default values. At the coarsest (0) level, the shrink factors are set 2^(nlevel - 1) for all dimension. These shrink factors are halved for subsequent levels. The number of levels is clamped to a minimum value of 1. All shrink factors are also clamped to a minimum value of 1.

◆ SetOptimizerGrowthFactor()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::SetOptimizerGrowthFactor ( double  _arg)
virtual

Set/Get the search radius grow factor.

◆ SetOptimizerInitialRadius()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::SetOptimizerInitialRadius ( double  _arg)
virtual

Set/Get the initial search radius.

◆ SetOptimizerShrinkFactor()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::SetOptimizerShrinkFactor ( double  _arg)
virtual

Set/Get the search radius shrink factor.

◆ SetOutputMask()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::SetOutputMask ( ImageMaskType *  outputMask)

Get/Set the out mask image pointer. Without this mask, this filter corrects every pixel in the input image.

◆ SetSchedule()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::SetSchedule ( const ScheduleType &  schedule)

Set a multi-resolution schedule. The input schedule must have only ImageDimension number of columns and NumberOfLevels number of rows. For each dimension, the shrink factor must be non-increasing with respect to subsequent levels. This function will clamp shrink factors to satisfy this condition. All shrink factors less than one will also be clamped to the value of 1.

◆ SetSlabBackgroundMinimumThreshold()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::SetSlabBackgroundMinimumThreshold ( InputImagePixelType  _arg)
virtual

Energy function object pointer.

◆ SetSlabNumberOfSamples()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::SetSlabNumberOfSamples ( unsigned int  _arg)
virtual

Energy function object pointer.

◆ SetSlabTolerance()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::SetSlabTolerance ( double  _arg)
virtual

Energy function object pointer.

◆ SetSlicingDirection()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::SetSlicingDirection ( int  _arg)
virtual

Sets the direction of slicing. 0 - x axis, 1 - y axis, 2 - z axis

◆ SetStartingShrinkFactors() [1/2]

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::SetStartingShrinkFactors ( const unsigned int *  factors)

Energy function object pointer.

◆ SetStartingShrinkFactors() [2/2]

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::SetStartingShrinkFactors ( unsigned int  factor)

Set the starting shrink factor for the coarsest (0) resolution level. The schedule is then populated with defaults values obtained by halving the factors at the previous level. All shrink factors are clamped to a minimum value of 1.

◆ SetTissueClassStatistics()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::SetTissueClassStatistics ( const Array< double > &  means,
const Array< double > &  sigmas 
)

Set the tissue class statistics for energy function initialization If the numbers of elements in the means and the sigmas are not equal it will throw an exception.

◆ SetUsingBiasFieldCorrection()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::SetUsingBiasFieldCorrection ( bool  _arg)
virtual

Set/Get the bias correction flag. If the flag is true, bias field correction runs. This flag sounds odd. But if users want to use only the inter-slice intensity correction without actual bias correction, disabling bias field correction would be an useful option (default value is true).

◆ SetUsingInterSliceIntensityCorrection()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::SetUsingInterSliceIntensityCorrection ( bool  _arg)
virtual

Set/Get the intensity correction flag. If the flag is true, inter-slice intensity correction will be applied before bias field correction (default value is true for 3D input images, and false for 2D input images).

◆ SetUsingSlabIdentification()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::SetUsingSlabIdentification ( bool  _arg)
virtual

Set/Get the slab correction flag. If the flag is true, inter-slice intensity correction and bias field correction will be performed slab by slab which is identified by the slab identifier (default value is false). NOTE: if users want to slab identification, all the input image data should be buffered.

◆ SetVolumeCorrectionMaximumIteration()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::SetVolumeCorrectionMaximumIteration ( int  _arg)
virtual

Set/Get the maximum iteration termination condition parameter for the bias field correction.

◆ UsingBiasFieldCorrectionOff()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::UsingBiasFieldCorrectionOff ( )
virtual

Energy function object pointer.

◆ UsingBiasFieldCorrectionOn()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::UsingBiasFieldCorrectionOn ( )
virtual

Energy function object pointer.

◆ UsingInterSliceIntensityCorrectionOff()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::UsingInterSliceIntensityCorrectionOff ( )
virtual

Energy function object pointer.

◆ UsingInterSliceIntensityCorrectionOn()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::UsingInterSliceIntensityCorrectionOn ( )
virtual

Energy function object pointer.

◆ UsingSlabIdentificationOff()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::UsingSlabIdentificationOff ( )
virtual

Energy function object pointer.

◆ UsingSlabIdentificationOn()

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
virtual void itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::UsingSlabIdentificationOn ( )
virtual

Energy function object pointer.

Member Data Documentation

◆ ImageDimension

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
constexpr unsigned int itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::ImageDimension = TOutputImage::ImageDimension
staticconstexpr

The dimension of the image.

Definition at line 251 of file itkMRIBiasFieldCorrectionFilter.h.

◆ m_BiasFieldCoefficients

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
BiasFieldType::CoefficientArrayType itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::m_BiasFieldCoefficients
private

Storage for the initial 3D bias field estimate coefficients that will be used for correcting each slab.

Definition at line 628 of file itkMRIBiasFieldCorrectionFilter.h.

◆ m_BiasFieldDegree

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
int itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::m_BiasFieldDegree { 3 }
private

The degree of the bias field estimate.

Definition at line 618 of file itkMRIBiasFieldCorrectionFilter.h.

◆ m_BiasFieldMultiplicative

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
bool itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::m_BiasFieldMultiplicative { true }
private

Bias Field character if true, multiplicative. if false, additive.

Definition at line 605 of file itkMRIBiasFieldCorrectionFilter.h.

◆ m_EnergyFunction

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
EnergyFunctionPointer itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::m_EnergyFunction
private

Energy function object pointer.

Definition at line 584 of file itkMRIBiasFieldCorrectionFilter.h.

◆ m_EstimatedBiasFieldCoefficients

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
BiasFieldType::CoefficientArrayType itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::m_EstimatedBiasFieldCoefficients
private

Storage for the resulting 3D bias field estimate coefficients after optimization.

Definition at line 632 of file itkMRIBiasFieldCorrectionFilter.h.

◆ m_GeneratingOutput

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
bool itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::m_GeneratingOutput { true }
private

Energy function object pointer.

Definition at line 611 of file itkMRIBiasFieldCorrectionFilter.h.

◆ m_InputMask

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
ImageMaskPointer itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::m_InputMask
private

Input mask image smart pointer.

Definition at line 590 of file itkMRIBiasFieldCorrectionFilter.h.

◆ m_InternalInput

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
InternalImagePointer itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::m_InternalInput
private

Internal image smart pointer.

Definition at line 596 of file itkMRIBiasFieldCorrectionFilter.h.

◆ m_InterSliceCorrectionMaximumIteration

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
int itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::m_InterSliceCorrectionMaximumIteration { 4000 }
private

Energy function object pointer.

Definition at line 636 of file itkMRIBiasFieldCorrectionFilter.h.

◆ m_NormalVariateGenerator

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
NormalVariateGeneratorType::Pointer itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::m_NormalVariateGenerator
private

Normal variate generator smart pointer.

Definition at line 587 of file itkMRIBiasFieldCorrectionFilter.h.

◆ m_NumberOfLevels

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
unsigned int itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::m_NumberOfLevels { 0 }
private

The number of levels for the multires schedule.

Definition at line 621 of file itkMRIBiasFieldCorrectionFilter.h.

◆ m_OptimizerGrowthFactor

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
double itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::m_OptimizerGrowthFactor { 1.05 }
private

Storage for the optimizer's search radius grow factor.

Definition at line 642 of file itkMRIBiasFieldCorrectionFilter.h.

◆ m_OptimizerInitialRadius

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
double itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::m_OptimizerInitialRadius { 1.01 }
private

Storage for the optimizer's initial search radius.

Definition at line 639 of file itkMRIBiasFieldCorrectionFilter.h.

◆ m_OptimizerShrinkFactor

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
double itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::m_OptimizerShrinkFactor
private

Storage for the optimizer's search radius shrink factor.

Definition at line 645 of file itkMRIBiasFieldCorrectionFilter.h.

◆ m_OutputMask

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
ImageMaskPointer itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::m_OutputMask
private

Output mask image smart pointer.

Definition at line 593 of file itkMRIBiasFieldCorrectionFilter.h.

◆ m_Schedule

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
ScheduleType itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::m_Schedule
private

The multires schedule

Definition at line 624 of file itkMRIBiasFieldCorrectionFilter.h.

◆ m_SlabBackgroundMinimumThreshold

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
InputImagePixelType itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::m_SlabBackgroundMinimumThreshold
private

Energy function object pointer.

Definition at line 614 of file itkMRIBiasFieldCorrectionFilter.h.

◆ m_SlabNumberOfSamples

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
unsigned int itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::m_SlabNumberOfSamples { 200 }
private

Energy function object pointer.

Definition at line 613 of file itkMRIBiasFieldCorrectionFilter.h.

◆ m_Slabs

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
SlabRegionVectorType itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::m_Slabs
private

Storage for the MRI slab identifier return.

Definition at line 599 of file itkMRIBiasFieldCorrectionFilter.h.

◆ m_SlabTolerance

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
double itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::m_SlabTolerance { 0.0 }
private

Energy function object pointer.

Definition at line 615 of file itkMRIBiasFieldCorrectionFilter.h.

◆ m_SlicingDirection

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
int itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::m_SlicingDirection
private

[0 - x, 1 - y, 2 - z].

Definition at line 602 of file itkMRIBiasFieldCorrectionFilter.h.

◆ m_TissueClassMeans

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
Array<double> itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::m_TissueClassMeans
private

Storage for tissue classes' mean values.

Definition at line 648 of file itkMRIBiasFieldCorrectionFilter.h.

◆ m_TissueClassSigmas

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
Array<double> itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::m_TissueClassSigmas
private

Storage for tissue classes' variance values.

Definition at line 651 of file itkMRIBiasFieldCorrectionFilter.h.

◆ m_UsingBiasFieldCorrection

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
bool itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::m_UsingBiasFieldCorrection { true }
private

Energy function object pointer.

Definition at line 610 of file itkMRIBiasFieldCorrectionFilter.h.

◆ m_UsingInterSliceIntensityCorrection

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
bool itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::m_UsingInterSliceIntensityCorrection
private

operation selection flags.

Definition at line 608 of file itkMRIBiasFieldCorrectionFilter.h.

◆ m_UsingSlabIdentification

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
bool itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::m_UsingSlabIdentification { false }
private

Energy function object pointer.

Definition at line 609 of file itkMRIBiasFieldCorrectionFilter.h.

◆ m_VolumeCorrectionMaximumIteration

template<typename TInputImage , typename TOutputImage , typename TMaskImage >
int itk::MRIBiasFieldCorrectionFilter< TInputImage, TOutputImage, TMaskImage >::m_VolumeCorrectionMaximumIteration { 2000 }
private

Energy function object pointer.

Definition at line 634 of file itkMRIBiasFieldCorrectionFilter.h.

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