Class MorphologicalWatershedFromMarkersImageFilter

java.lang.Object
org.itk.simple.ProcessObject
org.itk.simple.ImageFilter
org.itk.simple.MorphologicalWatershedFromMarkersImageFilter

public class MorphologicalWatershedFromMarkersImageFilter extends ImageFilter
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://www.insight-journal.org/browse/publication/92 Gaetan Lehmann. Biologie du Developpement et de la Reproduction, INRA de Jouy-en-Josas, France. Richard Beare. Department of Medicine, Monash University, Melbourne, Australia. See: WatershedImageFilter , MorphologicalWatershedImageFilter itk::simple::MorphologicalWatershedFromMarkers for the procedural interface itk::MorphologicalWatershedFromMarkersImageFilter for the Doxygen on the original ITK class. C++ includes: sitkMorphologicalWatershedFromMarkersImageFilter.h
  • Constructor Details

    • MorphologicalWatershedFromMarkersImageFilter

      protected MorphologicalWatershedFromMarkersImageFilter(long cPtr, boolean cMemoryOwn)
    • MorphologicalWatershedFromMarkersImageFilter

      public MorphologicalWatershedFromMarkersImageFilter()
      itk::simple::MorphologicalWatershedFromMarkersImageFilter::MorphologicalWatershedFromMarkersImageFilter() Default Constructor that takes no arguments and initializes default parameters
  • Method Details

    • getCPtr

      protected static long getCPtr(MorphologicalWatershedFromMarkersImageFilter obj)
    • swigRelease

      protected static long swigRelease(MorphologicalWatershedFromMarkersImageFilter obj)
    • finalize

      protected void finalize()
      Overrides:
      finalize in class ImageFilter
    • delete

      public void delete()
      virtual itk::simple::MorphologicalWatershedFromMarkersImageFilter::~MorphologicalWatershedFromMarkersImageFilter() Destructor
      Overrides:
      delete in class ImageFilter
    • setMarkWatershedLine

      public void setMarkWatershedLine(boolean MarkWatershedLine)
      Self& itk::simple::MorphologicalWatershedFromMarkersImageFilter::SetMarkWatershedLine(bool MarkWatershedLine) 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.
    • markWatershedLineOn

      public void markWatershedLineOn()
      Self& itk::simple::MorphologicalWatershedFromMarkersImageFilter::MarkWatershedLineOn() Set the value of MarkWatershedLine to true or false respectfully.
    • markWatershedLineOff

      public void markWatershedLineOff()
      Self& itk::simple::MorphologicalWatershedFromMarkersImageFilter::MarkWatershedLineOff()
    • getMarkWatershedLine

      public boolean getMarkWatershedLine()
      bool itk::simple::MorphologicalWatershedFromMarkersImageFilter::GetMarkWatershedLine() const 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.
    • setFullyConnected

      public void setFullyConnected(boolean FullyConnected)
      Self& itk::simple::MorphologicalWatershedFromMarkersImageFilter::SetFullyConnected(bool FullyConnected) 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.
    • fullyConnectedOn

      public void fullyConnectedOn()
      Self& itk::simple::MorphologicalWatershedFromMarkersImageFilter::FullyConnectedOn() Set the value of FullyConnected to true or false respectfully.
    • fullyConnectedOff

      public void fullyConnectedOff()
      Self& itk::simple::MorphologicalWatershedFromMarkersImageFilter::FullyConnectedOff()
    • getFullyConnected

      public boolean getFullyConnected()
      bool itk::simple::MorphologicalWatershedFromMarkersImageFilter::GetFullyConnected() const 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.
    • getName

      public String getName()
      std::string itk::simple::MorphologicalWatershedFromMarkersImageFilter::GetName() const Name of this class
      Overrides:
      getName in class ProcessObject
    • toString

      public String toString()
      std::string itk::simple::MorphologicalWatershedFromMarkersImageFilter::ToString() const Print ourselves out
      Overrides:
      toString in class ProcessObject
    • execute

      public Image execute(Image image, Image markerImage)
      Image itk::simple::MorphologicalWatershedFromMarkersImageFilter::Execute(const Image &image, const Image &markerImage) Execute the filter on the input image