ITK  4.2.0
Insight Segmentation and Registration Toolkit
Public Types | Public Member Functions | Static Public Member Functions | Static Public Attributes | Protected Member Functions | Private Member Functions | Private Attributes
itk::STAPLEImageFilter< TInputImage, TOutputImage > Class Template Reference

#include <itkSTAPLEImageFilter.h>

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

List of all members.

Public Types

typedef SmartPointer< const SelfConstPointer
typedef InputImageType::Pointer InputImagePointer
typedef TInputImage InputImageType
typedef TInputImage::PixelType InputPixelType
typedef OutputImageType::Pointer OutputImagePointer
typedef
Superclass::OutputImageRegionType 
OutputImageRegionType
typedef TOutputImage OutputImageType
typedef TOutputImage::PixelType OutputPixelType
typedef SmartPointer< SelfPointer
typedef NumericTraits
< InputPixelType >::RealType 
RealType
typedef STAPLEImageFilter Self
typedef ImageToImageFilter
< TInputImage, TOutputImage > 
Superclass
- Public Types inherited from itk::ImageToImageFilter< TInputImage, TOutputImage >
typedef
InputImageType::ConstPointer 
InputImageConstPointer
typedef InputImageType::PixelType InputImagePixelType
typedef InputImageType::RegionType InputImageRegionType
typedef
Superclass::OutputImagePixelType 
OutputImagePixelType
- Public Types inherited from itk::ImageSource< TOutputImage >
typedef
Superclass::DataObjectIdentifierType 
DataObjectIdentifierType
typedef DataObject::Pointer DataObjectPointer
typedef
Superclass::DataObjectPointerArraySizeType 
DataObjectPointerArraySizeType
- Public Types inherited from itk::ProcessObject
typedef std::vector
< DataObjectPointer
DataObjectPointerArray
typedef std::vector
< DataObjectIdentifierType
NameArray
- Public Types inherited from itk::Object
- Public Types inherited from itk::LightObject

Public Member Functions

virtual ::itk::LightObject::Pointer CreateAnother (void) const
virtual unsigned int GetElapsedIterations () const
virtual const char * GetNameOfClass () const
const std::vector< double > & GetSensitivity () const
const std::vector< double > & GetSpecificity () const
 typedef (Concept::HasNumericTraits< InputPixelType >) InputHasNumericTraitsCheck
virtual void SetForegroundValue (InputPixelType _arg)
virtual InputPixelType GetForegroundValue () const
double GetSensitivity (unsigned int i)
double GetSpecificity (unsigned int i)
virtual void SetMaximumIterations (unsigned int _arg)
virtual unsigned int GetMaximumIterations () const
virtual void SetConfidenceWeight (double _arg)
virtual double GetConfidenceWeight () const
- Public Member Functions inherited from itk::ImageToImageFilter< TInputImage, TOutputImage >
const InputImageTypeGetInput (void) const
const InputImageTypeGetInput (unsigned int idx) const
virtual void PopBackInput ()
virtual void PopFrontInput ()
virtual void PushBackInput (const InputImageType *image)
virtual void PushFrontInput (const InputImageType *image)
virtual void SetInput (const InputImageType *image)
virtual void SetInput (unsigned int, const TInputImage *image)
- Public Member Functions inherited from itk::ImageSource< TOutputImage >
OutputImageTypeGetOutput (unsigned int idx)
virtual void GraftNthOutput (unsigned int idx, DataObject *output)
virtual void GraftOutput (DataObject *output)
virtual void GraftOutput (const DataObjectIdentifierType &key, DataObject *output)
OutputImageTypeGetOutput (void)
const OutputImageTypeGetOutput (void) const
virtual
ProcessObject::DataObjectPointer 
MakeOutput (ProcessObject::DataObjectPointerArraySizeType idx)
- Public Member Functions inherited from itk::ProcessObject
virtual void AbortGenerateDataOff ()
virtual void AbortGenerateDataOn ()
virtual void EnlargeOutputRequestedRegion (DataObject *)
virtual const bool & GetAbortGenerateData ()
NameArray GetInputNames () const
MultiThreader * GetMultiThreader () const
DataObjectPointerArraySizeType GetNumberOfIndexedInputs () const
DataObjectPointerArraySizeType GetNumberOfInputs () const
DataObjectPointerArraySizeType GetNumberOfOutputs () const
virtual
DataObjectPointerArraySizeType 
GetNumberOfValidRequiredInputs () const
NameArray GetOutputNames () const
virtual const float & GetProgress ()
NameArray GetRequiredInputNames () const
bool HasInput (const DataObjectIdentifierType &key) const
bool HasOutput (const DataObjectIdentifierType &key) const
virtual DataObjectPointer MakeOutput (const DataObjectIdentifierType &)
virtual void PrepareOutputs ()
virtual void PropagateRequestedRegion (DataObject *output)
virtual void ResetPipeline ()
virtual void SetAbortGenerateData (bool _arg)
virtual void SetProgress (float _arg)
virtual void Update ()
virtual void UpdateLargestPossibleRegion ()
virtual void UpdateOutputData (DataObject *output)
virtual void UpdateOutputInformation ()
void UpdateProgress (float amount)
DataObjectPointerArray GetInputs ()
DataObjectPointerArray GetOutputs ()
DataObjectPointerArray GetIndexedInputs ()
DataObjectPointerArray GetIndexedOutputs ()
DataObjectPointerArraySizeType GetNumberOfIndexedOutputs () const
virtual void SetReleaseDataFlag (bool flag)
virtual bool GetReleaseDataFlag () const
void ReleaseDataFlagOn ()
void ReleaseDataFlagOff ()
virtual void SetReleaseDataBeforeUpdateFlag (bool _arg)
virtual const bool & GetReleaseDataBeforeUpdateFlag ()
virtual void ReleaseDataBeforeUpdateFlagOn ()
virtual void ReleaseDataBeforeUpdateFlagOff ()
virtual void SetNumberOfThreads (ThreadIdType _arg)
virtual const ThreadIdTypeGetNumberOfThreads ()
- Public Member Functions inherited from itk::Object
unsigned long AddObserver (const EventObject &event, Command *)
unsigned long AddObserver (const EventObject &event, Command *) const
virtual void DebugOff () const
virtual void DebugOn () const
CommandGetCommand (unsigned long tag)
bool GetDebug () const
MetaDataDictionaryGetMetaDataDictionary (void)
const MetaDataDictionaryGetMetaDataDictionary (void) const
virtual unsigned long GetMTime () const
virtual const TimeStampGetTimeStamp () const
bool HasObserver (const EventObject &event) const
void InvokeEvent (const EventObject &)
void InvokeEvent (const EventObject &) const
virtual void Modified () const
virtual void Register () const
void RemoveAllObservers ()
void RemoveObserver (unsigned long tag)
void SetDebug (bool debugFlag) const
void SetMetaDataDictionary (const MetaDataDictionary &rhs)
virtual void SetReferenceCount (int)
virtual void UnRegister () const
- Public Member Functions inherited from itk::LightObject
virtual void Delete ()
virtual int GetReferenceCount () const
 itkCloneMacro (Self)
void Print (std::ostream &os, Indent indent=0) const

Static Public Member Functions

static Pointer New ()

Static Public Attributes

static const unsigned int ImageDimension = TOutputImage::ImageDimension
- Static Public Attributes inherited from itk::ImageToImageFilter< TInputImage, TOutputImage >
static const unsigned int InputImageDimension = TInputImage::ImageDimension
static const unsigned int OutputImageDimension = TOutputImage::ImageDimension
- Static Public Attributes inherited from itk::ImageSource< TOutputImage >

Protected Member Functions

void GenerateData ()
void PrintSelf (std::ostream &, Indent) const
virtual ~STAPLEImageFilter ()
 STAPLEImageFilter ()
- Protected Member Functions inherited from itk::ImageToImageFilter< TInputImage, TOutputImage >
virtual void CallCopyInputRegionToOutputRegion (OutputImageRegionType &destRegion, const InputImageRegionType &srcRegion)
virtual void CallCopyOutputRegionToInputRegion (InputImageRegionType &destRegion, const OutputImageRegionType &srcRegion)
virtual void GenerateInputRequestedRegion ()
 ImageToImageFilter ()
virtual void VerifyInputInformation ()
 ~ImageToImageFilter ()
void PushBackInput (const DataObject *input)
void PushFrontInput (const DataObject *input)
- Protected Member Functions inherited from itk::ImageSource< TOutputImage >
virtual void AfterThreadedGenerateData ()
virtual void AllocateOutputs ()
virtual void BeforeThreadedGenerateData ()
 ImageSource ()
virtual unsigned int SplitRequestedRegion (unsigned int i, unsigned int num, OutputImageRegionType &splitRegion)
virtual void ThreadedGenerateData (const OutputImageRegionType &outputRegionForThread, ThreadIdType threadId)
virtual ~ImageSource ()
- Protected Member Functions inherited from itk::ProcessObject
virtual void AddInput (DataObject *input)
virtual void AddOutput (DataObject *output)
bool AddRequiredInputName (const DataObjectIdentifierType &)
virtual void CacheInputReleaseDataFlags ()
virtual void GenerateOutputInformation ()
virtual void GenerateOutputRequestedRegion (DataObject *output)
virtual const
DataObjectPointerArraySizeType
GetNumberOfRequiredInputs ()
virtual const
DataObjectPointerArraySizeType
GetNumberOfRequiredOutputs ()
bool IsIndexedName (const DataObjectIdentifierType &) const
bool IsRequiredInputName (const DataObjectIdentifierType &) const
 itkLegacyMacro (virtual void RemoveInput(DataObject *input))
 itkLegacyMacro (virtual void RemoveOutput(DataObject *output))
 itkLegacyMacro (void SetNumberOfInputs(DataObjectPointerArraySizeType num))
 itkLegacyMacro (void SetNumberOfOutputs(DataObjectPointerArraySizeType num))
DataObjectPointerArraySizeType MakeIndexFromName (const DataObjectIdentifierType &) const
DataObjectIdentifierType MakeNameFromIndex (DataObjectPointerArraySizeType) const
 ProcessObject ()
virtual void PropagateResetPipeline ()
virtual void ReleaseInputs ()
virtual void RemoveInput (const DataObjectIdentifierType &key)
virtual void RemoveInput (DataObjectPointerArraySizeType)
virtual void RemoveOutput (const DataObjectIdentifierType &key)
virtual void RemoveOutput (DataObjectPointerArraySizeType idx)
bool RemoveRequiredInputName (const DataObjectIdentifierType &)
virtual void RestoreInputReleaseDataFlags ()
virtual void SetInput (const DataObjectIdentifierType &key, DataObject *input)
virtual void SetNthInput (DataObjectPointerArraySizeType num, DataObject *input)
virtual void SetNthOutput (DataObjectPointerArraySizeType num, DataObject *output)
void SetNumberOfIndexedInputs (DataObjectPointerArraySizeType num)
void SetNumberOfIndexedOutputs (DataObjectPointerArraySizeType num)
virtual void SetNumberOfRequiredInputs (DataObjectPointerArraySizeType)
virtual void SetNumberOfRequiredOutputs (DataObjectPointerArraySizeType _arg)
virtual void SetOutput (const DataObjectIdentifierType &key, DataObject *output)
virtual void SetPrimaryInput (DataObject *input)
virtual void SetPrimaryOutput (DataObject *output)
void SetRequiredInputNames (const NameArray &)
virtual void VerifyPreconditions ()
 ~ProcessObject ()
DataObjectGetInput (const DataObjectIdentifierType &key)
const DataObjectGetInput (const DataObjectIdentifierType &key) const
DataObjectGetInput (DataObjectPointerArraySizeType)
const DataObjectGetInput (DataObjectPointerArraySizeType idx) const
DataObjectGetPrimaryInput ()
const DataObjectGetPrimaryInput () const
DataObjectGetOutput (const DataObjectIdentifierType &key)
const DataObjectGetOutput (const DataObjectIdentifierType &key) const
DataObjectGetOutput (DataObjectPointerArraySizeType idx)
const DataObjectGetOutput (DataObjectPointerArraySizeType idx) const
DataObjectGetPrimaryOutput ()
const DataObjectGetPrimaryOutput () const
- Protected Member Functions inherited from itk::Object
 Object ()
bool PrintObservers (std::ostream &os, Indent indent) const
virtual void SetTimeStamp (const TimeStamp &time)
virtual ~Object ()
- 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 ()

Private Member Functions

void operator= (const Self &)
 STAPLEImageFilter (const Self &)

Private Attributes

double m_ConfidenceWeight
unsigned int m_ElapsedIterations
InputPixelType m_ForegroundValue
unsigned int m_MaximumIterations
std::vector< double > m_Sensitivity
std::vector< double > m_Specificity

Additional Inherited Members

- Protected Types inherited from itk::ImageToImageFilter< TInputImage, TOutputImage >
typedef
ImageToImageFilterDetail::ImageRegionCopier
< itkGetStaticConstMacro(OutputImageDimension),
itkGetStaticConstMacro(InputImageDimension) > 
InputToOutputRegionCopierType
typedef
ImageToImageFilterDetail::ImageRegionCopier
< itkGetStaticConstMacro(InputImageDimension),
itkGetStaticConstMacro(OutputImageDimension) > 
OutputToInputRegionCopierType

Detailed Description

template<typename TInputImage, typename TOutputImage>
class itk::STAPLEImageFilter< TInputImage, TOutputImage >

The STAPLE filter implements the Simultaneous Truth and Performance Level Estimation algorithm for generating ground truth volumes from a set of binary expert segmentations.

The STAPLE algorithm treats segmentation as a pixelwise classification, which leads to an averaging scheme that accounts for systematic biases in the behavior of experts in order to generate a fuzzy ground truth volume and simultaneous accuracy assessment of each expert. The ground truth volumes produced by this filter are floating point volumes of values between zero and one that indicate probability of each pixel being in the object targeted by the segmentation.

The STAPLE algorithm is described in

S. Warfield, K. Zou, W. Wells, "Validation of image segmentation and expert quality with an expectation-maximization algorithm" in MICCAI 2002: Fifth International Conference on Medical Image Computing and Computer-Assisted Intervention, Springer-Verlag, Heidelberg, Germany, 2002, pp. 298-306

INPUTS
Input volumes to the STAPLE filter must be binary segmentations of an image, that is, there must be a single foreground value that represents positively classified pixels (pixels that are considered to belong inside the segmentation). Any number of background pixel values may be present in the input images. You can, for example, input volumes with many different labels as long as the structure you are interested in creating ground truth for is consistently labeled among all input volumes. Pixel type of the input volumes does not matter. Specify the label value for positively classified pixels using SetForegroundValue. All other labels will be considered to be negatively classified pixels (background).

Input volumes must all contain the same size RequestedRegions.

OUTPUTS
The STAPLE filter produces a single output volume with a range of floating point values from zero to one. IT IS VERY IMPORTANT TO INSTANTIATE THIS FILTER WITH A FLOATING POINT OUTPUT TYPE (floats or doubles). You may threshold the output above some probability threshold if you wish to produce a binary ground truth.
PARAMETERS
The STAPLE algorithm requires a number of inputs. You may specify any number of input volumes using the SetInput(i, p_i) method, where i ranges from zero to N-1, N is the total number of input segmentations, and p_i is the SmartPointer to the i-th segmentation.

The SetConfidenceWeight parameter is a modifier for the prior probability that any pixel would be classified as inside the target object. This implementation of the STAPLE algorithm automatically calculates prior positive classification probability as the average fraction of the image volume filled by the target object in each input segmentation. The ConfidenceWeight parameter allows for scaling the of this default prior probability: if g_t is the prior probability that a pixel would be classified inside the target object, then g_t is set to g_t * ConfidenceWeight before iterating on the solution. In general ConfidenceWeight should be left to the default of 1.0.

You must provide a foreground value using SetForegroundValue that the STAPLE algorithm will use to identify positively classified pixels in the the input images. All other values in the image will be treated as background values. For example, if your input segmentations consist of 1's everywhere inside the segmented region, then use SetForegroundValue(1).

The STAPLE algorithm is an iterative E-M algorithm and will converge on a solution after some number of iterations that cannot be known a priori. After updating the filter, the total elapsed iterations taken to converge on the solution can be queried through GetElapsedIterations(). You may also specify a MaximumNumberOfIterations, after which the algorithm will stop iterating regardless of whether or not it has converged. This implementation of the STAPLE algorithm will find the solution to within seven digits of precision unless it is stopped early.

Once updated, the Sensitivity (true positive fraction, q) and Specificity (true negative fraction, q) for each expert input volume can be queried using GetSensitivity(i) and GetSpecificity(i), where i is the i-th input volume.

REQUIRED PARAMETERS
The only required parameters for this filter are the ForegroundValue and the input volumes. All other parameters may be safely left to their default values. Please see the paper cited above for more information on the STAPLE algorithm and its parameters. A proper understanding of the algorithm is important for interpreting the results that it produces.
EVENTS
This filter invokes IterationEvent() at each iteration of the E-M algorithm. Setting the AbortGenerateData() flag will cause the algorithm to halt after the current iteration and produce results just as if it had converged. The algorithm makes no attempt to report its progress since the number of iterations needed cannot be known in advance.

Definition at line 121 of file itkSTAPLEImageFilter.h.


Member Typedef Documentation

template<typename TInputImage , typename TOutputImage >
typedef SmartPointer< const Self > itk::STAPLEImageFilter< TInputImage, TOutputImage >::ConstPointer

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

Definition at line 129 of file itkSTAPLEImageFilter.h.

template<typename TInputImage , typename TOutputImage >
typedef InputImageType::Pointer itk::STAPLEImageFilter< TInputImage, TOutputImage >::InputImagePointer

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

Definition at line 150 of file itkSTAPLEImageFilter.h.

template<typename TInputImage , typename TOutputImage >
typedef TInputImage itk::STAPLEImageFilter< TInputImage, TOutputImage >::InputImageType

Image typedef support

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

Definition at line 149 of file itkSTAPLEImageFilter.h.

template<typename TInputImage , typename TOutputImage >
typedef TInputImage::PixelType itk::STAPLEImageFilter< TInputImage, TOutputImage >::InputPixelType

Definition at line 140 of file itkSTAPLEImageFilter.h.

template<typename TInputImage , typename TOutputImage >
typedef OutputImageType::Pointer itk::STAPLEImageFilter< TInputImage, TOutputImage >::OutputImagePointer

Reimplemented from itk::ImageSource< TOutputImage >.

Definition at line 152 of file itkSTAPLEImageFilter.h.

template<typename TInputImage , typename TOutputImage >
typedef Superclass::OutputImageRegionType itk::STAPLEImageFilter< TInputImage, TOutputImage >::OutputImageRegionType

Superclass typedefs.

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

Definition at line 155 of file itkSTAPLEImageFilter.h.

template<typename TInputImage , typename TOutputImage >
typedef TOutputImage itk::STAPLEImageFilter< TInputImage, TOutputImage >::OutputImageType

Some convenient typedefs.

Reimplemented from itk::ImageSource< TOutputImage >.

Definition at line 151 of file itkSTAPLEImageFilter.h.

template<typename TInputImage , typename TOutputImage >
typedef TOutputImage::PixelType itk::STAPLEImageFilter< TInputImage, TOutputImage >::OutputPixelType

Extract some information from the image types. Dimensionality of the two images is assumed to be the same.

Definition at line 135 of file itkSTAPLEImageFilter.h.

template<typename TInputImage , typename TOutputImage >
typedef SmartPointer< Self > itk::STAPLEImageFilter< TInputImage, TOutputImage >::Pointer

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

Definition at line 128 of file itkSTAPLEImageFilter.h.

template<typename TInputImage , typename TOutputImage >
typedef NumericTraits< InputPixelType >::RealType itk::STAPLEImageFilter< TInputImage, TOutputImage >::RealType

Definition at line 141 of file itkSTAPLEImageFilter.h.

template<typename TInputImage , typename TOutputImage >
typedef STAPLEImageFilter itk::STAPLEImageFilter< TInputImage, TOutputImage >::Self

Standard class typedefs.

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

Definition at line 126 of file itkSTAPLEImageFilter.h.

template<typename TInputImage , typename TOutputImage >
typedef ImageToImageFilter< TInputImage, TOutputImage > itk::STAPLEImageFilter< TInputImage, TOutputImage >::Superclass

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

Definition at line 127 of file itkSTAPLEImageFilter.h.


Constructor & Destructor Documentation

template<typename TInputImage , typename TOutputImage >
itk::STAPLEImageFilter< TInputImage, TOutputImage >::STAPLEImageFilter ( )
inlineprotected

End concept checking

Definition at line 231 of file itkSTAPLEImageFilter.h.

template<typename TInputImage , typename TOutputImage >
virtual itk::STAPLEImageFilter< TInputImage, TOutputImage >::~STAPLEImageFilter ( )
inlineprotectedvirtual

Definition at line 240 of file itkSTAPLEImageFilter.h.

template<typename TInputImage , typename TOutputImage >
itk::STAPLEImageFilter< TInputImage, TOutputImage >::STAPLEImageFilter ( const Self )
private

Member Function Documentation

template<typename TInputImage , typename TOutputImage >
virtual::itk::LightObject::Pointer itk::STAPLEImageFilter< TInputImage, TOutputImage >::CreateAnother ( void  ) 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.

template<typename TInputImage , typename TOutputImage >
void itk::STAPLEImageFilter< TInputImage, TOutputImage >::GenerateData ( )
protectedvirtual

A version of GenerateData() specific for image processing filters. This implementation will split the processing across multiple threads. The buffer is allocated by this method. Then the BeforeThreadedGenerateData() method is called (if provided). Then, a series of threads are spawned each calling ThreadedGenerateData(). After all the threads have completed processing, the AfterThreadedGenerateData() method is called (if provided). If an image processing filter cannot be threaded, the filter should provide an implementation of GenerateData(). That implementation is responsible for allocating the output buffer. If a filter an be threaded, it should NOT provide a GenerateData() method but should provide a ThreadedGenerateData() instead.

See also:
ThreadedGenerateData()

Reimplemented from itk::ImageSource< TOutputImage >.

template<typename TInputImage , typename TOutputImage >
virtual double itk::STAPLEImageFilter< TInputImage, TOutputImage >::GetConfidenceWeight ( ) const
virtual

Scales the estimated prior probability that a pixel will be inside the targeted object of segmentation. The default prior probability g_t is calculated automatically as the average fraction of positively classified pixels to the total size of the volume (across all input volumes). ConfidenceWeight will scale this default value as g_t = g_t * ConfidenceWeight. In general, ConfidenceWeight should be left to the default of 1.0.

template<typename TInputImage , typename TOutputImage >
virtual unsigned int itk::STAPLEImageFilter< TInputImage, TOutputImage >::GetElapsedIterations ( ) const
virtual

Get the number of elapsed iterations of the iterative E-M algorithm.

template<typename TInputImage , typename TOutputImage >
virtual InputPixelType itk::STAPLEImageFilter< TInputImage, TOutputImage >::GetForegroundValue ( ) const
virtual

Set get the binary ON value of the input image.

template<typename TInputImage , typename TOutputImage >
virtual unsigned int itk::STAPLEImageFilter< TInputImage, TOutputImage >::GetMaximumIterations ( ) const
virtual

Set/Get the maximum number of iterations after which the STAPLE algorithm will be considered to have converged. In general this SHOULD NOT be set and the algorithm should be allowed to converge on its own.

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

Run-time type information (and related methods)

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

template<typename TInputImage , typename TOutputImage >
const std::vector< double >& itk::STAPLEImageFilter< TInputImage, TOutputImage >::GetSensitivity ( ) const
inline

After the filter is updated, this method returns a std::vector<double> of all Sensitivity (true positive fraction, p) values for the expert input volumes.

Definition at line 173 of file itkSTAPLEImageFilter.h.

template<typename TInputImage , typename TOutputImage >
double itk::STAPLEImageFilter< TInputImage, TOutputImage >::GetSensitivity ( unsigned int  i)
inline

After the filter is updated, this method returns the Sensitivity (true positive fraction, p) value for the i-th expert input volume.

Definition at line 180 of file itkSTAPLEImageFilter.h.

template<typename TInputImage , typename TOutputImage >
const std::vector< double >& itk::STAPLEImageFilter< TInputImage, TOutputImage >::GetSpecificity ( ) const
inline

After the filter is updated, this method returns a std::vector<double> of all Specificity (true negative fraction, q) values for the expert input volumes.

Definition at line 165 of file itkSTAPLEImageFilter.h.

template<typename TInputImage , typename TOutputImage >
double itk::STAPLEImageFilter< TInputImage, TOutputImage >::GetSpecificity ( unsigned int  i)
inline

After the filter is updated, this method returns the Specificity (true negative fraction, q) value for the i-th expert input volume.

Definition at line 192 of file itkSTAPLEImageFilter.h.

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

Method for creation through the object factory.

Reimplemented from itk::Object.

template<typename TInputImage , typename TOutputImage >
void itk::STAPLEImageFilter< TInputImage, TOutputImage >::operator= ( const Self )
private

PushBackInput(), PushFronInput() in the public section force the input to be the type expected by an ImageToImageFilter. However, these methods end of "hiding" the versions from the superclass (ProcessObject) whose arguments are DataObjects. Here, we re-expose the versions from ProcessObject to avoid warnings about hiding methods from the superclass.

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

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

Methods invoked by Print() to print information about the object including superclasses. Typically not called by the user (use Print() instead) but used in the hierarchical print process to combine the output of several classes.

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

template<typename TInputImage , typename TOutputImage >
virtual void itk::STAPLEImageFilter< TInputImage, TOutputImage >::SetConfidenceWeight ( double  _arg)
virtual

Scales the estimated prior probability that a pixel will be inside the targeted object of segmentation. The default prior probability g_t is calculated automatically as the average fraction of positively classified pixels to the total size of the volume (across all input volumes). ConfidenceWeight will scale this default value as g_t = g_t * ConfidenceWeight. In general, ConfidenceWeight should be left to the default of 1.0.

template<typename TInputImage , typename TOutputImage >
virtual void itk::STAPLEImageFilter< TInputImage, TOutputImage >::SetForegroundValue ( InputPixelType  _arg)
virtual

Set get the binary ON value of the input image.

template<typename TInputImage , typename TOutputImage >
virtual void itk::STAPLEImageFilter< TInputImage, TOutputImage >::SetMaximumIterations ( unsigned int  _arg)
virtual

Set/Get the maximum number of iterations after which the STAPLE algorithm will be considered to have converged. In general this SHOULD NOT be set and the algorithm should be allowed to converge on its own.

template<typename TInputImage , typename TOutputImage >
itk::STAPLEImageFilter< TInputImage, TOutputImage >::typedef ( Concept::HasNumericTraits< InputPixelType )

Begin concept checking This class requires InputHasNumericTraitsCheck in the form of ( Concept::HasNumericTraits< InputPixelType > )


Member Data Documentation

template<typename TInputImage , typename TOutputImage >
const unsigned int itk::STAPLEImageFilter< TInputImage, TOutputImage >::ImageDimension = TOutputImage::ImageDimension
static

Extract some information from the image types. Dimensionality of the two images is assumed to be the same.

Definition at line 146 of file itkSTAPLEImageFilter.h.

template<typename TInputImage , typename TOutputImage >
double itk::STAPLEImageFilter< TInputImage, TOutputImage >::m_ConfidenceWeight
private

Definition at line 252 of file itkSTAPLEImageFilter.h.

template<typename TInputImage , typename TOutputImage >
unsigned int itk::STAPLEImageFilter< TInputImage, TOutputImage >::m_ElapsedIterations
private

Definition at line 249 of file itkSTAPLEImageFilter.h.

template<typename TInputImage , typename TOutputImage >
InputPixelType itk::STAPLEImageFilter< TInputImage, TOutputImage >::m_ForegroundValue
private

Definition at line 248 of file itkSTAPLEImageFilter.h.

template<typename TInputImage , typename TOutputImage >
unsigned int itk::STAPLEImageFilter< TInputImage, TOutputImage >::m_MaximumIterations
private

Definition at line 250 of file itkSTAPLEImageFilter.h.

template<typename TInputImage , typename TOutputImage >
std::vector< double > itk::STAPLEImageFilter< TInputImage, TOutputImage >::m_Sensitivity
private

Definition at line 254 of file itkSTAPLEImageFilter.h.

template<typename TInputImage , typename TOutputImage >
std::vector< double > itk::STAPLEImageFilter< TInputImage, TOutputImage >::m_Specificity
private

Definition at line 255 of file itkSTAPLEImageFilter.h.


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