SimpleITK
1.0.1
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Morphological watershed transform from markers. More...
#include <sitkMorphologicalWatershedFromMarkersImageFilter.h>
Public Types | |
typedef ScalarPixelIDTypeList | PixelIDTypeList |
typedef MorphologicalWatershedFromMarkersImageFilter | Self |
Public Types inherited from itk::simple::ImageFilter< 0 > | |
typedef ImageFilter | Self |
Public Types inherited from itk::simple::ProcessObject | |
typedef ProcessObject | Self |
Public Member Functions | |
Image | Execute (const Image &image, const Image &markerImage) |
Image | Execute (const Image &image, const Image &markerImage, bool markWatershedLine, bool fullyConnected) |
Self & | FullyConnectedOff () |
Self & | FullyConnectedOn () |
bool | GetFullyConnected () const |
bool | GetMarkWatershedLine () const |
std::string | GetName () const |
Self & | MarkWatershedLineOff () |
Self & | MarkWatershedLineOn () |
MorphologicalWatershedFromMarkersImageFilter () | |
Self & | SetFullyConnected (bool FullyConnected) |
Self & | SetMarkWatershedLine (bool MarkWatershedLine) |
std::string | ToString () const |
~MorphologicalWatershedFromMarkersImageFilter () | |
Public Member Functions inherited from itk::simple::ImageFilter< 0 > | |
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 *image, const Image *markerImage) |
Private Member Functions | |
template<class TImageType1 , class TImageType2 > | |
Image | DualExecuteInternal (const Image *image, const Image *markerImage) |
Private Attributes | |
nsstd::auto_ptr< detail::DualMemberFunctionFactory< MemberFunctionType > > | m_DualMemberFactory |
bool | m_FullyConnected |
bool | m_MarkWatershedLine |
Friends | |
struct | detail::DualExecuteInternalAddressor< 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::ProcessObject * | GetActiveProcess () |
virtual void | OnActiveProcessDelete () |
virtual void | onCommandDelete (const itk::simple::Command *cmd) throw () |
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< 0 > | |
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::EventObject & | GetITKEventObject (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) |
Morphological watershed transform from markers.
The watershed transform is a tool for image segmentation that is fast and flexible and potentially fairly parameter free. It was originally derived from a geophysical model of rain falling on a terrain and a variety of more formal definitions have been devised to allow development of practical algorithms. If an image is considered as a terrain and divided into catchment basins then the hope is that each catchment basin would contain an object of interest.
The output is a label image. A label image, sometimes referred to as a categorical image, has unique values for each region. For example, if a watershed produces 2 regions, all pixels belonging to one region would have value A, and all belonging to the other might have value B. Unassigned pixels, such as watershed lines, might have the background value (0 by convention).
The simplest way of using the watershed is to preprocess the image we want to segment so that the boundaries of our objects are bright (e.g apply an edge detector) and compute the watershed transform of the edge image. Watershed lines will correspond to the boundaries and our problem will be solved. This is rarely useful in practice because there are always more regional minima than there are objects, either due to noise or natural variations in the object surfaces. Therefore, while many watershed lines do lie on significant boundaries, there are many that don't. Various methods can be used to reduce the number of minima in the image, like thresholding the smallest values, filtering the minima and/or smoothing the image.
This filter use another approach to avoid the problem of over segmentation: it let the user provide a marker image which mark the minima in the input image and give them a label. The minima are imposed in the input image by the markers. The labels of the output image are the label of the marker image.
The morphological watershed transform algorithm is described in Chapter 9.2 of Pierre Soille's book "Morphological Image Analysis: Principles and Applications", Second Edition, Springer, 2003.
This code was contributed in the Insight Journal paper: "The watershed transform in ITK - discussion and new developments" by Beare R., Lehmann G. https://hdl.handle.net/1926/202 http://www.insight-journal.org/browse/publication/92
Richard Beare. Department of Medicine, Monash University, Melbourne, Australia.
Definition at line 60 of file sitkMorphologicalWatershedFromMarkersImageFilter.h.
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Setup for member function dispatching
Definition at line 120 of file sitkMorphologicalWatershedFromMarkersImageFilter.h.
typedef ScalarPixelIDTypeList itk::simple::MorphologicalWatershedFromMarkersImageFilter::PixelIDTypeList |
Define the pixels types supported by this filter
Definition at line 72 of file sitkMorphologicalWatershedFromMarkersImageFilter.h.
typedef MorphologicalWatershedFromMarkersImageFilter itk::simple::MorphologicalWatershedFromMarkersImageFilter::Self |
Definition at line 62 of file sitkMorphologicalWatershedFromMarkersImageFilter.h.
itk::simple::MorphologicalWatershedFromMarkersImageFilter::MorphologicalWatershedFromMarkersImageFilter | ( | ) |
Default Constructor that takes no arguments and initializes default parameters
itk::simple::MorphologicalWatershedFromMarkersImageFilter::~MorphologicalWatershedFromMarkersImageFilter | ( | ) |
Destructor
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Image itk::simple::MorphologicalWatershedFromMarkersImageFilter::Execute | ( | const Image & | image, |
const Image & | markerImage | ||
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Execute the filter on the input image
Image itk::simple::MorphologicalWatershedFromMarkersImageFilter::Execute | ( | const Image & | image, |
const Image & | markerImage, | ||
bool | markWatershedLine, | ||
bool | fullyConnected | ||
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Execute the filter on the input image with the given parameters
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Definition at line 97 of file sitkMorphologicalWatershedFromMarkersImageFilter.h.
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Set the value of FullyConnected to true or false respectfully.
Definition at line 96 of file sitkMorphologicalWatershedFromMarkersImageFilter.h.
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Set/Get whether the connected components are defined strictly by face connectivity or by face+edge+vertex connectivity. Default is FullyConnectedOff. For objects that are 1 pixel wide, use FullyConnectedOn.
Definition at line 102 of file sitkMorphologicalWatershedFromMarkersImageFilter.h.
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Set/Get whether the watershed pixel must be marked or not. Default is true. Set it to false do not only avoid writing watershed pixels, it also decrease algorithm complexity.
Definition at line 88 of file sitkMorphologicalWatershedFromMarkersImageFilter.h.
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Name of this class
Implements itk::simple::ProcessObject.
Definition at line 104 of file sitkMorphologicalWatershedFromMarkersImageFilter.h.
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Definition at line 83 of file sitkMorphologicalWatershedFromMarkersImageFilter.h.
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Set the value of MarkWatershedLine to true or false respectfully.
Definition at line 82 of file sitkMorphologicalWatershedFromMarkersImageFilter.h.
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Set/Get whether the connected components are defined strictly by face connectivity or by face+edge+vertex connectivity. Default is FullyConnectedOff. For objects that are 1 pixel wide, use FullyConnectedOn.
Definition at line 93 of file sitkMorphologicalWatershedFromMarkersImageFilter.h.
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Set/Get whether the watershed pixel must be marked or not. Default is true. Set it to false do not only avoid writing watershed pixels, it also decrease algorithm complexity.
Definition at line 79 of file sitkMorphologicalWatershedFromMarkersImageFilter.h.
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Print ourselves out
Reimplemented from itk::simple::ProcessObject.
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Definition at line 122 of file sitkMorphologicalWatershedFromMarkersImageFilter.h.
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Definition at line 126 of file sitkMorphologicalWatershedFromMarkersImageFilter.h.
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Definition at line 131 of file sitkMorphologicalWatershedFromMarkersImageFilter.h.
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Definition at line 130 of file sitkMorphologicalWatershedFromMarkersImageFilter.h.