SimpleITK  1.3.0.dev165
Public Types | Public Member Functions | Private Types | Private Member Functions | Private Attributes | Friends | List of all members
itk::simple::ConfidenceConnectedImageFilter Class Reference

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

#include <sitkConfidenceConnectedImageFilter.h>

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

Public Types

typedef BasicPixelIDTypeList PixelIDTypeList
 
typedef ConfidenceConnectedImageFilter Self
 
- Public Types inherited from itk::simple::ImageFilter< 1 >
typedef ImageFilter Self
 
- Public Types inherited from itk::simple::ProcessObject
typedef ProcessObject Self
 

Public Member Functions

SelfAddSeed (const std::vector< unsigned int > &idx)
 
SelfClearSeeds ()
 
 ConfidenceConnectedImageFilter ()
 
Image Execute (const Image &image1)
 
Image Execute (const Image &image1, const std::vector< std::vector< unsigned int > > &seedList, unsigned int numberOfIterations, double multiplier, unsigned int initialNeighborhoodRadius, uint8_t replaceValue)
 
unsigned int GetInitialNeighborhoodRadius () const
 
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
 
double GetVariance () const
 
SelfSetInitialNeighborhoodRadius (unsigned int InitialNeighborhoodRadius)
 
SelfSetMultiplier (double Multiplier)
 
SelfSetNumberOfIterations (unsigned int NumberOfIterations)
 
SelfSetReplaceValue (uint8_t ReplaceValue)
 
SelfSetSeed (const std::vector< unsigned int > &idx)
 
SelfSetSeedList (const std::vector< std::vector< unsigned int > > &t)
 
std::string ToString () const
 
virtual ~ConfidenceConnectedImageFilter ()
 
- Public Member Functions inherited from itk::simple::ImageFilter< 1 >
 ImageFilter ()
 
virtual ~ImageFilter ()=0
 
- Public Member Functions inherited from itk::simple::ProcessObject
virtual void Abort ()
 
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
 

Private Types

typedef Image(Self::* MemberFunctionType) (const Image &image1)
 

Private Member Functions

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

Private Attributes

unsigned int m_InitialNeighborhoodRadius
 
double m_Mean
 
nsstd::auto_ptr< detail::MemberFunctionFactory< MemberFunctionType > > m_MemberFactory
 
double m_Multiplier
 
unsigned int m_NumberOfIterations
 
uint8_t m_ReplaceValue
 
std::vector< std::vector< unsigned int > > m_SeedList
 
double m_Variance
 

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 void SetGlobalDefaultNumberOfThreads (unsigned int n)
 
static unsigned int GetGlobalDefaultNumberOfThreads ()
 
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...
 
- 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) SITK_NOEXCEPT
 
virtual void PreUpdate (itk::ProcessObject *p)
 
virtual void RemoveITKObserver (EventCommand &e)
 
- Protected Member Functions inherited from itk::simple::NonCopyable
 NonCopyable ()
 
- Static Protected Member Functions inherited from itk::simple::ImageFilter< 1 >
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 TImageType >
static Image CastITKToImage (TImageType *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)
 
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 recalculated 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::ConfidenceConnected for the procedural interface
itk::ConfidenceConnectedImageFilter for the Doxygen on the original ITK class.

Definition at line 46 of file sitkConfidenceConnectedImageFilter.h.

Member Typedef Documentation

typedef Image(Self::* itk::simple::ConfidenceConnectedImageFilter::MemberFunctionType) (const Image &image1)
private

Setup for member function dispatching

Definition at line 169 of file sitkConfidenceConnectedImageFilter.h.

Define the pixels types supported by this filter

Definition at line 58 of file sitkConfidenceConnectedImageFilter.h.

Definition at line 48 of file sitkConfidenceConnectedImageFilter.h.

Constructor & Destructor Documentation

virtual itk::simple::ConfidenceConnectedImageFilter::~ConfidenceConnectedImageFilter ( )
virtual

Destructor

itk::simple::ConfidenceConnectedImageFilter::ConfidenceConnectedImageFilter ( )

Default Constructor that takes no arguments and initializes default parameters

Member Function Documentation

Self& itk::simple::ConfidenceConnectedImageFilter::AddSeed ( const std::vector< unsigned int > &  idx)
inline

AddSeed - Add a seed to the end of the list

Definition at line 145 of file sitkConfidenceConnectedImageFilter.h.

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

ClearSeeds - Clear out all seeds in the list

Definition at line 130 of file sitkConfidenceConnectedImageFilter.h.

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

Execute the filter on the input image

Image itk::simple::ConfidenceConnectedImageFilter::Execute ( const Image image1,
const std::vector< std::vector< unsigned int > > &  seedList,
unsigned int  numberOfIterations,
double  multiplier,
unsigned int  initialNeighborhoodRadius,
uint8_t  replaceValue 
)

Execute the filter on the input image with the given parameters

template<class TImageType >
Image itk::simple::ConfidenceConnectedImageFilter::ExecuteInternal ( const Image image1)
private
unsigned int itk::simple::ConfidenceConnectedImageFilter::GetInitialNeighborhoodRadius ( ) const
inline

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

Definition at line 90 of file sitkConfidenceConnectedImageFilter.h.

double itk::simple::ConfidenceConnectedImageFilter::GetMean ( ) const
inline

Method to get access to the mean of the pixels accepted in the output region. This method should only be invoked after the filter has been executed using the Update() method.

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 107 of file sitkConfidenceConnectedImageFilter.h.

double itk::simple::ConfidenceConnectedImageFilter::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 80 of file sitkConfidenceConnectedImageFilter.h.

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

Name of this class

Implements itk::simple::ProcessObject.

Definition at line 152 of file sitkConfidenceConnectedImageFilter.h.

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

Set/Get the number of iterations

Definition at line 70 of file sitkConfidenceConnectedImageFilter.h.

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

Set/Get value to replace thresholded pixels

Definition at line 100 of file sitkConfidenceConnectedImageFilter.h.

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

Get SeedList

Definition at line 124 of file sitkConfidenceConnectedImageFilter.h.

double itk::simple::ConfidenceConnectedImageFilter::GetVariance ( ) const
inline

Method to get access to the variance of the pixels accepted in the output region. This method should only be invoked after the filter has been executed using the Update() method.

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 115 of file sitkConfidenceConnectedImageFilter.h.

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

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

Definition at line 85 of file sitkConfidenceConnectedImageFilter.h.

Self& itk::simple::ConfidenceConnectedImageFilter::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 75 of file sitkConfidenceConnectedImageFilter.h.

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

Set/Get the number of iterations

Definition at line 65 of file sitkConfidenceConnectedImageFilter.h.

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

Set/Get value to replace thresholded pixels

Definition at line 95 of file sitkConfidenceConnectedImageFilter.h.

Self& itk::simple::ConfidenceConnectedImageFilter::SetSeed ( const std::vector< unsigned int > &  idx)
inline

SetSeed - Set list to a single seed

Definition at line 137 of file sitkConfidenceConnectedImageFilter.h.

Self& itk::simple::ConfidenceConnectedImageFilter::SetSeedList ( const std::vector< std::vector< unsigned int > > &  t)
inline

Set SeedList

Definition at line 118 of file sitkConfidenceConnectedImageFilter.h.

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

Print ourselves out

Reimplemented from itk::simple::ProcessObject.

Friends And Related Function Documentation

Definition at line 173 of file sitkConfidenceConnectedImageFilter.h.

Member Data Documentation

unsigned int itk::simple::ConfidenceConnectedImageFilter::m_InitialNeighborhoodRadius
private

Definition at line 180 of file sitkConfidenceConnectedImageFilter.h.

double itk::simple::ConfidenceConnectedImageFilter::m_Mean
private

Definition at line 183 of file sitkConfidenceConnectedImageFilter.h.

nsstd::auto_ptr<detail::MemberFunctionFactory<MemberFunctionType> > itk::simple::ConfidenceConnectedImageFilter::m_MemberFactory
private

Definition at line 175 of file sitkConfidenceConnectedImageFilter.h.

double itk::simple::ConfidenceConnectedImageFilter::m_Multiplier
private

Definition at line 179 of file sitkConfidenceConnectedImageFilter.h.

unsigned int itk::simple::ConfidenceConnectedImageFilter::m_NumberOfIterations
private

Definition at line 178 of file sitkConfidenceConnectedImageFilter.h.

uint8_t itk::simple::ConfidenceConnectedImageFilter::m_ReplaceValue
private

Definition at line 181 of file sitkConfidenceConnectedImageFilter.h.

std::vector< std::vector<unsigned int> > itk::simple::ConfidenceConnectedImageFilter::m_SeedList
private

List of interor seed points used to initialize the region growing segmentation

Definition at line 189 of file sitkConfidenceConnectedImageFilter.h.

double itk::simple::ConfidenceConnectedImageFilter::m_Variance
private

Definition at line 185 of file sitkConfidenceConnectedImageFilter.h.


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