Class ThresholderAutoIJ

Object
AnchorBean<VoxelsThresholder>
InitializableBean<VoxelsThresholder, NullInitialization>
NullParametersBean<VoxelsThresholder>
Thresholder
ThresholderAutoIJ
public class ThresholderAutoIJ extends Thresholder
Applies automatic thresholding using ImageJ's Auto_Threshold plugin.

  • Constructor Summary

    Constructors
    Constructor
    Description
    ThresholderAutoIJ()
     

  • Method Summary

    Modifier and Type
    Method
    Description
    String
    getMethod()
    The thresholding method to use.
    boolean
    isNoBlack()
    If true, the thresholding algorithm will not consider black pixels (value 0) in its calculations.
    void
    setMethod(String method)
    The thresholding method to use.
    void
    setNoBlack(boolean noBlack)
    If true, the thresholding algorithm will not consider black pixels (value 0) in its calculations.
    BinaryVoxels<UnsignedByteBuffer>
    threshold(VoxelsUntyped inputBuffer, BinaryValuesByte binaryValues, Optional<Histogram> histogram, Optional<ObjectMask> objectMask)
     

    Methods inherited from class org.anchoranalysis.image.bean.threshold.Thresholder

    threshold, threshold

    Methods inherited from class org.anchoranalysis.bean.NullParametersBean

    initializeRecursive, onInitialization, onInitialization

    Methods inherited from class org.anchoranalysis.bean.initializable.InitializableBean

    getInitialization, getLogger, getPropertyInitializer, initialize, initializeRecursive, initRecursiveWithInitializer, isInitialized

    Methods inherited from class org.anchoranalysis.bean.AnchorBean

    checkMisconfigured, describeBean, describeChildren, duplicateBean, fields, findFieldsOfClass, getBeanName, getLocalPath, localise, toString

    Methods inherited from class java.lang.Object

    clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

  • Constructor Details

    • ThresholderAutoIJ

      public ThresholderAutoIJ()

  • Method Details

    • threshold

      public BinaryVoxels<UnsignedByteBuffer> threshold(VoxelsUntyped inputBuffer, BinaryValuesByte binaryValues, Optional<Histogram> histogram, Optional<ObjectMask> objectMask) throws OperationFailedException
      Specified by:
      threshold in class Thresholder
      Throws:
      OperationFailedException

    • getMethod

      public String getMethod()
      The thresholding method to use.

      One of the following strings to identify ImageJ's thresholding algorithms: Default, Huang, "Intermodes", "IsoData", "Li", "MaxEntropy", "Mean", "MinError(I)", "Minimum", "Moments", "Otsu", "Percentile", "RenyiEntropy", "Shanbhag", "Triangle", "Yen"

      An empty string will use the Default method.

    • setMethod

      public void setMethod(String method)
      The thresholding method to use.

      One of the following strings to identify ImageJ's thresholding algorithms: Default, Huang, "Intermodes", "IsoData", "Li", "MaxEntropy", "Mean", "MinError(I)", "Minimum", "Moments", "Otsu", "Percentile", "RenyiEntropy", "Shanbhag", "Triangle", "Yen"

      An empty string will use the Default method.

    • isNoBlack

      public boolean isNoBlack()
      If true, the thresholding algorithm will not consider black pixels (value 0) in its calculations.

    • setNoBlack

      public void setNoBlack(boolean noBlack)
      If true, the thresholding algorithm will not consider black pixels (value 0) in its calculations.