template<class TInputImage, class TOutputImage = TInputImage>
class itk::ThresholdMaximumConnectedComponentsImageFilter< TInputImage, TOutputImage >
Finds the threshold value of an image based on maximizing the number of objects in the image that are larger than a given minimal size.
- This method is based on Topological Stable State Thresholding to calculate the threshold set point. This method is particularly effective when there are a large number of objects in a microscopy image. Compiling in Debug mode and enable the debug flag for this filter to print debug information to see how the filter focuses in on a threshold value. Please see the Insight Journal's MICCAI 2005 workshop for a complete description. References are below.
- Parameters
- The MinimumObjectSizeInPixels parameter is controlled through the class Get/SetMinimumObjectSizeInPixels() method. Similar to the standard itk::BinaryThresholdImageFilter the Get/SetInside and Get/SetOutside values of the threshold can be set. The GetNumberOfObjects() and GetThresholdValue() methods return the number of objects above the minimum pixel size and the calculated threshold value.
- Automatic Thresholding in ITK
- There are multiple methods to automatically calculate the threshold intensity value of an image. As of version 4.0, ITK has a Thresholding ( ITKThresholding ) module which contains numerous automatic thresholding methods.implements two of these. Topological Stable State Thresholding works well on images with a large number of objects to be counted.
- References:
- 1) Urish KL, August J, Huard J. "Unsupervised segmentation for myofiber
counting in immunoflourescent images". Insight Journal. ISC/NA-MIC/MICCAI Workshop on Open-Source Software (2005) Dspace handle: http://hdl.handle.net/1926/48 2) Pikaz A, Averbuch, A. "Digital image thresholding based on topological
stable-state". Pattern Recognition, 29(5): 829-843, 1996.
- Questions: email Ken Urish at ken.urish(at)gmail.com Please cc the itk list serve for archival purposes.
Definition at line 74 of file itkThresholdMaximumConnectedComponentsImageFilter.h.
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SizeValueType | ComputeConnectedComponents (void) |
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void | GenerateData (void) |
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void | PrintSelf (std::ostream &os, Indent indent) const |
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| ThresholdMaximumConnectedComponentsImageFilter () |
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| ~ThresholdMaximumConnectedComponentsImageFilter () |
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virtual void | CallCopyInputRegionToOutputRegion (OutputImageRegionType &destRegion, const InputImageRegionType &srcRegion) |
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virtual void | CallCopyOutputRegionToInputRegion (InputImageRegionType &destRegion, const OutputImageRegionType &srcRegion) |
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virtual void | GenerateInputRequestedRegion () |
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virtual void | VerifyInputInformation () |
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void | PushBackInput (const DataObject *input) |
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void | PushFrontInput (const DataObject *input) |
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| ImageToImageFilter () |
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| ~ImageToImageFilter () |
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virtual void | AfterThreadedGenerateData () |
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virtual void | AllocateOutputs () |
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virtual void | BeforeThreadedGenerateData () |
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| ImageSource () |
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virtual unsigned int | SplitRequestedRegion (unsigned int i, unsigned int num, OutputImageRegionType &splitRegion) |
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virtual void | ThreadedGenerateData (const OutputImageRegionType &outputRegionForThread, ThreadIdType threadId) |
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virtual | ~ImageSource () |
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virtual void | AddInput (DataObject *input) |
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virtual void | AddOutput (DataObject *output) |
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bool | AddRequiredInputName (const DataObjectIdentifierType &) |
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virtual void | CacheInputReleaseDataFlags () |
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virtual void | GenerateOutputInformation () |
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virtual void | GenerateOutputRequestedRegion (DataObject *output) |
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virtual const
DataObjectPointerArraySizeType & | GetNumberOfRequiredOutputs () |
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bool | IsIndexedInputName (const DataObjectIdentifierType &) const |
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bool | IsIndexedOutputName (const DataObjectIdentifierType &) const |
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bool | IsRequiredInputName (const DataObjectIdentifierType &) const |
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| itkLegacyMacro (virtual void RemoveInput(DataObject *input)) |
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| itkLegacyMacro (virtual void RemoveOutput(DataObject *output)) |
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| itkLegacyMacro (void SetNumberOfInputs(DataObjectPointerArraySizeType num)) |
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| itkLegacyMacro (void SetNumberOfOutputs(DataObjectPointerArraySizeType num)) |
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DataObjectPointerArraySizeType | MakeIndexFromInputName (const DataObjectIdentifierType &name) const |
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DataObjectPointerArraySizeType | MakeIndexFromOutputName (const DataObjectIdentifierType &name) const |
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DataObjectIdentifierType | MakeNameFromInputIndex (DataObjectPointerArraySizeType idx) const |
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DataObjectIdentifierType | MakeNameFromOutputIndex (DataObjectPointerArraySizeType idx) const |
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| ProcessObject () |
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virtual void | PropagateResetPipeline () |
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virtual void | ReleaseInputs () |
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virtual void | RemoveInput (const DataObjectIdentifierType &key) |
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virtual void | RemoveInput (DataObjectPointerArraySizeType) |
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virtual void | RemoveOutput (const DataObjectIdentifierType &key) |
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virtual void | RemoveOutput (DataObjectPointerArraySizeType idx) |
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bool | RemoveRequiredInputName (const DataObjectIdentifierType &) |
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virtual void | RestoreInputReleaseDataFlags () |
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virtual void | SetInput (const DataObjectIdentifierType &key, DataObject *input) |
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virtual void | SetNthInput (DataObjectPointerArraySizeType num, DataObject *input) |
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virtual void | SetNthOutput (DataObjectPointerArraySizeType num, DataObject *output) |
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void | SetNumberOfIndexedInputs (DataObjectPointerArraySizeType num) |
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void | SetNumberOfIndexedOutputs (DataObjectPointerArraySizeType num) |
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virtual void | SetNumberOfRequiredOutputs (DataObjectPointerArraySizeType _arg) |
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virtual void | SetOutput (const DataObjectIdentifierType &key, DataObject *output) |
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virtual void | SetPrimaryInput (DataObject *input) |
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virtual void | SetPrimaryOutput (DataObject *output) |
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void | SetRequiredInputNames (const NameArray &) |
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virtual void | VerifyPreconditions () |
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| ~ProcessObject () |
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DataObject * | GetInput (const DataObjectIdentifierType &key) |
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const DataObject * | GetInput (const DataObjectIdentifierType &key) const |
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DataObject * | GetInput (DataObjectPointerArraySizeType) |
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const DataObject * | GetInput (DataObjectPointerArraySizeType idx) const |
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DataObject * | GetPrimaryInput () |
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const DataObject * | GetPrimaryInput () const |
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virtual void | SetPrimaryInputName (const DataObjectIdentifierType &key) |
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virtual const char * | GetPrimaryInputName () const |
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DataObject * | GetOutput (const DataObjectIdentifierType &key) |
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const DataObject * | GetOutput (const DataObjectIdentifierType &key) const |
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virtual void | SetPrimaryOutputName (const DataObjectIdentifierType &key) |
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virtual const char * | GetPrimaryOutputName () const |
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DataObject * | GetOutput (DataObjectPointerArraySizeType idx) |
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const DataObject * | GetOutput (DataObjectPointerArraySizeType idx) const |
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DataObject * | GetPrimaryOutput () |
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const DataObject * | GetPrimaryOutput () const |
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virtual void | SetNumberOfRequiredInputs (DataObjectPointerArraySizeType) |
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virtual const
DataObjectPointerArraySizeType & | GetNumberOfRequiredInputs () |
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| Object () |
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bool | PrintObservers (std::ostream &os, Indent indent) const |
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virtual void | SetTimeStamp (const TimeStamp &time) |
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virtual | ~Object () |
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virtual LightObject::Pointer | InternalClone () const |
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| LightObject () |
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virtual void | PrintHeader (std::ostream &os, Indent indent) const |
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virtual void | PrintTrailer (std::ostream &os, Indent indent) const |
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virtual | ~LightObject () |
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