Constructor Detail

• AdjustedRandError

  public AdjustedRandError(ij.ImagePlus originalLabels,
                           ij.ImagePlus proposedLabels)

  Initialize adjusted Rand error metric.

  Parameters:

  originalLabels - original labels (single 2D image or stack)

  proposedLabels - proposed new labels (single 2D image or stack of the same as as the original labels)

Method Detail

• getMetricValue

  public double getMetricValue(double binaryThreshold)

  Calculate the Rand error in 2D between some original labels and the corresponding proposed labels. Both image are binarized. The adjusted Rand error is defined as the 1 - adjusted Rand index, as described by William M. Rand \cite{Rand71}. BibTeX:

   @article{Rand71,
     author    = {William M. Rand},
     title     = {Objective criteria for the evaluation of clustering methods},
     journal   = {Journal of the American Statistical Association},
     year      = {1971},
     volume    = {66},
     number    = {336},
     pages     = {846--850},
     doi       = {10.2307/2284239)
   }
   

  Specified by:

  getMetricValue in class Metrics

  Parameters:

  binaryThreshold - threshold value to binarize proposal (larger than 0 and smaller than 1)

  Returns:

  adjusted Rand error

• adjustedRandError

  public static double adjustedRandError(ij.process.ImageProcessor label,
                                         ij.process.ImageProcessor proposal,
                                         double binaryThreshold)

  Calculate the adjusted Rand error between some 2D original labels and the corresponding proposed labels. Both image are binarized. The adjusted Rand error is defined as the 1 - adjusted Rand index, as described by Lawrence Hubert and Phipps Arabie \cite{Hubert85}. BibTeX:

   @article{Hubert85,
     author    = {Lawrence Hubert and Phipps Arabie},
     title     = {Comparing partitions},
     journal   = {Journal of Classification},
     year      = {1985},
     volume    = {2},
     issue           = {1},
     pages     = {193-218},
     doi       = {10.1007/BF01908075)
   }
   

  Parameters:

  label - 2D image with the original labels

  proposal - 2D image with the proposed labels

  binaryThreshold - threshold value to binarize the input images

  Returns:

  adjusted Rand error

• getAdjustedRandErrorConcurrent

  public Callable<Double> getAdjustedRandErrorConcurrent(ij.process.ImageProcessor image1,
                                                         ij.process.ImageProcessor image2,
                                                         double binaryThreshold)

  Get adjusted Rand error between two images in a concurrent way (to be submitted to an Executor Service). Both images are binarized. The adjusted Rand error is defined as the 1 - adjusted Rand index, as described by Lawrence Hubert and Phipps Arabie \cite{Hubert85}. BibTeX:

   @article{Hubert85,
     author    = {Lawrence Hubert and Phipps Arabie},
     title     = {Comparing partitions},
     journal   = {Journal of Classification},
     year      = {1985},
     volume    = {2},
     issue           = {1},
     pages     = {193-218},
     doi       = {10.1007/BF01908075)
   }
   

  Parameters:

  image1 - first image

  image2 - second image

  binaryThreshold - threshold to apply to both images

  Returns:

  adjusted Rand error

• adjustedRandIndex

  public static double adjustedRandIndex(ij.process.ShortProcessor cluster1,
                                         ij.process.ShortProcessor cluster2)

  Calculate the adjusted Rand index between to clusters, as described by Lawrence Hubert and Phipps Arabie \cite{Rand71}. BibTeX:

   @article{Hubert85,
     author    = {Lawrence Hubert and Phipps Arabie},
     title     = {Comparing partitions},
     journal   = {Journal of Classification},
     year      = {1985},
     volume    = {2},
     issue           = {1},
     pages     = {193-218},
     doi       = {10.1007/BF01908075)
   }
   

  Parameters:

  cluster1 - 2D segmented image (objects are labeled with different numbers)

  cluster2 - 2D segmented image (objects are labeled with different numbers)

  Returns:

  adjusted Rand index