SimpleITK  2.1.0.dev86
Public Types | Public Member Functions | Private Types | Private Member Functions | Private Attributes | Friends | List of all members
itk::simple::VectorConfidenceConnectedImageFilter Class Reference

Segment pixels with similar statistics using connectivity. More...

#include <sitkVectorConfidenceConnectedImageFilter.h>

+ Inheritance diagram for itk::simple::VectorConfidenceConnectedImageFilter:
+ Collaboration diagram for itk::simple::VectorConfidenceConnectedImageFilter:

Public Types

using PixelIDTypeList = VectorPixelIDTypeList
 
using Self = VectorConfidenceConnectedImageFilter
 
- Public Types inherited from itk::simple::ImageFilter
using Self = ImageFilter
 
- Public Types inherited from itk::simple::ProcessObject
using Self = ProcessObject
 

Public Member Functions

SelfAddSeed (std::vector< unsigned int > point)
 Add SeedList point. More...
 
SelfClearSeeds ()
 Remove all SeedList points. More...
 
Image Execute (const Image &image1)
 
std::vector< double > GetCovariance () const
 
unsigned int GetInitialNeighborhoodRadius () const
 
std::vector< double > GetMean () const
 
double GetMultiplier () const
 
std::string GetName () const
 
unsigned int GetNumberOfIterations () const
 
uint8_t GetReplaceValue () const
 
std::vector< std::vector< unsigned int > > GetSeedList () const
 Get list of seeds. More...
 
SelfSetInitialNeighborhoodRadius (unsigned int InitialNeighborhoodRadius)
 
SelfSetMultiplier (double Multiplier)
 
SelfSetNumberOfIterations (unsigned int NumberOfIterations)
 
SelfSetReplaceValue (uint8_t ReplaceValue)
 
SelfSetSeedList (std::vector< std::vector< unsigned int > > SeedList)
 Set list of image indexes for seeds. More...
 
std::string ToString () const
 
 VectorConfidenceConnectedImageFilter ()
 
virtual ~VectorConfidenceConnectedImageFilter ()
 
- Public Member Functions inherited from itk::simple::ImageFilter
 ImageFilter ()
 
virtual ~ImageFilter ()=0
 
- Public Member Functions inherited from itk::simple::ProcessObject
virtual void Abort ()
 
virtual int AddCommand (itk::simple::EventEnum event, const std::function< void()> &func)
 Directly add a callback to observe an event. More...
 
virtual int AddCommand (itk::simple::EventEnum event, itk::simple::Command &cmd)
 Add a Command Object to observer the event. More...
 
virtual float GetProgress () const
 An Active Measurement of the progress of execution. More...
 
virtual bool HasCommand (itk::simple::EventEnum event) const
 Query of this object has any registered commands for event. More...
 
 ProcessObject ()
 
virtual void RemoveAllCommands ()
 Remove all registered commands. More...
 
virtual ~ProcessObject ()
 
virtual void DebugOn ()
 
virtual void DebugOff ()
 
virtual bool GetDebug () const
 
virtual void SetDebug (bool debugFlag)
 
virtual void SetNumberOfThreads (unsigned int n)
 
virtual unsigned int GetNumberOfThreads () const
 
virtual void SetNumberOfWorkUnits (unsigned int n)
 
virtual unsigned int GetNumberOfWorkUnits () const
 

Private Types

using MemberFunctionType = Image(Self::*)(const Image &image1)
 

Private Member Functions

template<class TImageType >
Image ExecuteInternal (const Image &image1)
 

Private Attributes

std::vector< double > m_Covariance {std::vector<double>()}
 
unsigned int m_InitialNeighborhoodRadius {1u}
 
std::vector< double > m_Mean {std::vector<double>()}
 
std::unique_ptr< detail::MemberFunctionFactory< MemberFunctionType > > m_MemberFactory
 
double m_Multiplier {4.5}
 
unsigned int m_NumberOfIterations {4u}
 
uint8_t m_ReplaceValue {1u}
 
std::vector< std::vector< unsigned int > > m_SeedList {std::vector< std::vector<unsigned int > >()}
 

Friends

struct detail::MemberFunctionAddressor< MemberFunctionType >
 

Additional Inherited Members

- Static Public Member Functions inherited from itk::simple::ProcessObject
static bool GetGlobalDefaultDebug ()
 
static void GlobalDefaultDebugOff ()
 
static void GlobalDefaultDebugOn ()
 
static void SetGlobalDefaultDebug (bool debugFlag)
 
static void GlobalWarningDisplayOn ()
 
static void GlobalWarningDisplayOff ()
 
static void SetGlobalWarningDisplay (bool flag)
 
static bool GetGlobalWarningDisplay ()
 
static double GetGlobalDefaultCoordinateTolerance ()
 Access the global tolerance to determine congruent spaces. More...
 
static void SetGlobalDefaultCoordinateTolerance (double)
 Access the global tolerance to determine congruent spaces. More...
 
static double GetGlobalDefaultDirectionTolerance ()
 Access the global tolerance to determine congruent spaces. More...
 
static void SetGlobalDefaultDirectionTolerance (double)
 Access the global tolerance to determine congruent spaces. More...
 
static bool SetGlobalDefaultThreader (const std::string &threader)
 Set/Get the default threader used for process objects. More...
 
static std::string GetGlobalDefaultThreader ()
 Set/Get the default threader used for process objects. More...
 
static void SetGlobalDefaultNumberOfThreads (unsigned int n)
 
static unsigned int GetGlobalDefaultNumberOfThreads ()
 Set/Get the default threader used for process objects. More...
 
- Protected Member Functions inherited from itk::simple::ImageFilter
void CheckImageMatchingDimension (const Image &image1, const Image &image2, const std::string &image2Name)
 
void CheckImageMatchingPixelType (const Image &image1, const Image &image2, const std::string &image2Name)
 
void CheckImageMatchingSize (const Image &image1, const Image &image2, const std::string &image2Name)
 
- Protected Member Functions inherited from itk::simple::ProcessObject
virtual unsigned long AddITKObserver (const itk::EventObject &, itk::Command *)
 
virtual itk::ProcessObjectGetActiveProcess ()
 
virtual void OnActiveProcessDelete ()
 
virtual void onCommandDelete (const itk::simple::Command *cmd) noexcept
 
virtual void PreUpdate (itk::ProcessObject *p)
 
virtual void RemoveITKObserver (EventCommand &e)
 
- Protected Member Functions inherited from itk::simple::NonCopyable
 NonCopyable ()=default
 
 NonCopyable (const NonCopyable &)=delete
 
NonCopyableoperator= (const NonCopyable &)=delete
 
- Static Protected Member Functions inherited from itk::simple::ImageFilter
template<class TImageType >
static void FixNonZeroIndex (TImageType *img)
 
- Static Protected Member Functions inherited from itk::simple::ProcessObject
template<class TImageType >
static TImageType::ConstPointer CastImageToITK (const Image &img)
 
template<class TPixelType , unsigned int VImageDimension, unsigned int VLength, template< typename, unsigned int > class TVector>
static Image CastITKToImage (itk::Image< TVector< TPixelType, VLength >, VImageDimension > *img)
 
template<class TImageType >
static Image CastITKToImage (TImageType *img)
 
static const itk::EventObjectGetITKEventObject (EventEnum e)
 
template<typename T >
static std::ostream & ToStringHelper (std::ostream &os, const T &v)
 
static std::ostream & ToStringHelper (std::ostream &os, const char &v)
 
static std::ostream & ToStringHelper (std::ostream &os, const signed char &v)
 
static std::ostream & ToStringHelper (std::ostream &os, const unsigned char &v)
 

Detailed Description

Segment pixels with similar statistics using connectivity.

This filter extracts a connected set of pixels whose pixel intensities are consistent with the pixel statistics of a seed point. The mean and variance across a neighborhood (8-connected, 26-connected, etc.) are calculated for a seed point. Then pixels connected to this seed point whose values are within the confidence interval for the seed point are grouped. The width of the confidence interval is controlled by the "Multiplier" variable (the confidence interval is the mean plus or minus the "Multiplier" times the standard deviation). If the intensity variations across a segment were gaussian, a "Multiplier" setting of 2.5 would define a confidence interval wide enough to capture 99% of samples in the segment.

After this initial segmentation is calculated, the mean and variance are re-calculated. All the pixels in the previous segmentation are used to calculate the mean the standard deviation (as opposed to using the pixels in the neighborhood of the seed point). The segmentation is then recalculted using these refined estimates for the mean and variance of the pixel values. This process is repeated for the specified number of iterations. Setting the "NumberOfIterations" to zero stops the algorithm after the initial segmentation from the seed point.

NOTE: the lower and upper threshold are restricted to lie within the valid numeric limits of the input data pixel type. Also, the limits may be adjusted to contain the seed point's intensity.

See also
itk::simple::VectorConfidenceConnected for the procedural interface
itk::VectorConfidenceConnectedImageFilter for the Doxygen on the original ITK class.

Definition at line 46 of file sitkVectorConfidenceConnectedImageFilter.h.

Member Typedef Documentation

◆ MemberFunctionType

Setup for member function dispatching

Definition at line 147 of file sitkVectorConfidenceConnectedImageFilter.h.

◆ PixelIDTypeList

Define the pixels types supported by this filter

Definition at line 58 of file sitkVectorConfidenceConnectedImageFilter.h.

◆ Self

Definition at line 48 of file sitkVectorConfidenceConnectedImageFilter.h.

Constructor & Destructor Documentation

◆ ~VectorConfidenceConnectedImageFilter()

virtual itk::simple::VectorConfidenceConnectedImageFilter::~VectorConfidenceConnectedImageFilter ( )
virtual

Destructor

◆ VectorConfidenceConnectedImageFilter()

itk::simple::VectorConfidenceConnectedImageFilter::VectorConfidenceConnectedImageFilter ( )

Default Constructor that takes no arguments and initializes default parameters

Member Function Documentation

◆ AddSeed()

Self& itk::simple::VectorConfidenceConnectedImageFilter::AddSeed ( std::vector< unsigned int >  point)
inline

Add SeedList point.

Definition at line 71 of file sitkVectorConfidenceConnectedImageFilter.h.

◆ ClearSeeds()

Self& itk::simple::VectorConfidenceConnectedImageFilter::ClearSeeds ( )
inline

Remove all SeedList points.

Definition at line 73 of file sitkVectorConfidenceConnectedImageFilter.h.

◆ Execute()

Image itk::simple::VectorConfidenceConnectedImageFilter::Execute ( const Image image1)

Execute the filter on the input image

◆ ExecuteInternal()

template<class TImageType >
Image itk::simple::VectorConfidenceConnectedImageFilter::ExecuteInternal ( const Image image1)
private

◆ GetCovariance()

std::vector<double> itk::simple::VectorConfidenceConnectedImageFilter::GetCovariance ( ) const
inline

Get the Covariance matrix computed during the segmentation

This is a measurement. Its value is updated in the Execute methods, so the value will only be valid after an execution.

Definition at line 129 of file sitkVectorConfidenceConnectedImageFilter.h.

◆ GetInitialNeighborhoodRadius()

unsigned int itk::simple::VectorConfidenceConnectedImageFilter::GetInitialNeighborhoodRadius ( ) const
inline

Get/Set the radius of the neighborhood over which the statistics are evaluated

Definition at line 104 of file sitkVectorConfidenceConnectedImageFilter.h.

◆ GetMean()

std::vector<double> itk::simple::VectorConfidenceConnectedImageFilter::GetMean ( ) const
inline

Get the Mean Vector computed during the segmentation

This is a measurement. Its value is updated in the Execute methods, so the value will only be valid after an execution.

Definition at line 121 of file sitkVectorConfidenceConnectedImageFilter.h.

◆ GetMultiplier()

double itk::simple::VectorConfidenceConnectedImageFilter::GetMultiplier ( ) const
inline

Set/Get the multiplier to define the confidence interval. Multiplier can be anything greater than zero. A typical value is 2.5

Definition at line 94 of file sitkVectorConfidenceConnectedImageFilter.h.

◆ GetName()

std::string itk::simple::VectorConfidenceConnectedImageFilter::GetName ( ) const
inlinevirtual

Name of this class

Implements itk::simple::ProcessObject.

Definition at line 133 of file sitkVectorConfidenceConnectedImageFilter.h.

◆ GetNumberOfIterations()

unsigned int itk::simple::VectorConfidenceConnectedImageFilter::GetNumberOfIterations ( ) const
inline

Set/Get the number of iterations

Definition at line 84 of file sitkVectorConfidenceConnectedImageFilter.h.

◆ GetReplaceValue()

uint8_t itk::simple::VectorConfidenceConnectedImageFilter::GetReplaceValue ( ) const
inline

Set/Get value to replace thresholded pixels

Definition at line 114 of file sitkVectorConfidenceConnectedImageFilter.h.

◆ GetSeedList()

std::vector< std::vector< unsigned int > > itk::simple::VectorConfidenceConnectedImageFilter::GetSeedList ( ) const
inline

Get list of seeds.

Definition at line 69 of file sitkVectorConfidenceConnectedImageFilter.h.

◆ SetInitialNeighborhoodRadius()

Self& itk::simple::VectorConfidenceConnectedImageFilter::SetInitialNeighborhoodRadius ( unsigned int  InitialNeighborhoodRadius)
inline

Get/Set the radius of the neighborhood over which the statistics are evaluated

Definition at line 99 of file sitkVectorConfidenceConnectedImageFilter.h.

◆ SetMultiplier()

Self& itk::simple::VectorConfidenceConnectedImageFilter::SetMultiplier ( double  Multiplier)
inline

Set/Get the multiplier to define the confidence interval. Multiplier can be anything greater than zero. A typical value is 2.5

Definition at line 89 of file sitkVectorConfidenceConnectedImageFilter.h.

◆ SetNumberOfIterations()

Self& itk::simple::VectorConfidenceConnectedImageFilter::SetNumberOfIterations ( unsigned int  NumberOfIterations)
inline

Set/Get the number of iterations

Definition at line 79 of file sitkVectorConfidenceConnectedImageFilter.h.

◆ SetReplaceValue()

Self& itk::simple::VectorConfidenceConnectedImageFilter::SetReplaceValue ( uint8_t  ReplaceValue)
inline

Set/Get value to replace thresholded pixels

Definition at line 109 of file sitkVectorConfidenceConnectedImageFilter.h.

◆ SetSeedList()

Self& itk::simple::VectorConfidenceConnectedImageFilter::SetSeedList ( std::vector< std::vector< unsigned int > >  SeedList)
inline

Set list of image indexes for seeds.

Definition at line 64 of file sitkVectorConfidenceConnectedImageFilter.h.

◆ ToString()

std::string itk::simple::VectorConfidenceConnectedImageFilter::ToString ( ) const
virtual

Print ourselves out

Reimplemented from itk::simple::ProcessObject.

Friends And Related Function Documentation

◆ detail::MemberFunctionAddressor< MemberFunctionType >

Definition at line 151 of file sitkVectorConfidenceConnectedImageFilter.h.

Member Data Documentation

◆ m_Covariance

std::vector<double> itk::simple::VectorConfidenceConnectedImageFilter::m_Covariance {std::vector<double>()}
private

Definition at line 169 of file sitkVectorConfidenceConnectedImageFilter.h.

◆ m_InitialNeighborhoodRadius

unsigned int itk::simple::VectorConfidenceConnectedImageFilter::m_InitialNeighborhoodRadius {1u}
private

Definition at line 162 of file sitkVectorConfidenceConnectedImageFilter.h.

◆ m_Mean

std::vector<double> itk::simple::VectorConfidenceConnectedImageFilter::m_Mean {std::vector<double>()}
private

Definition at line 167 of file sitkVectorConfidenceConnectedImageFilter.h.

◆ m_MemberFactory

std::unique_ptr<detail::MemberFunctionFactory<MemberFunctionType> > itk::simple::VectorConfidenceConnectedImageFilter::m_MemberFactory
private

Definition at line 153 of file sitkVectorConfidenceConnectedImageFilter.h.

◆ m_Multiplier

double itk::simple::VectorConfidenceConnectedImageFilter::m_Multiplier {4.5}
private

Definition at line 160 of file sitkVectorConfidenceConnectedImageFilter.h.

◆ m_NumberOfIterations

unsigned int itk::simple::VectorConfidenceConnectedImageFilter::m_NumberOfIterations {4u}
private

Definition at line 158 of file sitkVectorConfidenceConnectedImageFilter.h.

◆ m_ReplaceValue

uint8_t itk::simple::VectorConfidenceConnectedImageFilter::m_ReplaceValue {1u}
private

Definition at line 164 of file sitkVectorConfidenceConnectedImageFilter.h.

◆ m_SeedList

std::vector< std::vector<unsigned int> > itk::simple::VectorConfidenceConnectedImageFilter::m_SeedList {std::vector< std::vector<unsigned int > >()}
private

Definition at line 156 of file sitkVectorConfidenceConnectedImageFilter.h.


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