Package inra.ijpb.measure

Class GeometricMeasures2D

java.lang.Object
inra.ijpb.measure.GeometricMeasures2D
@Deprecated
public class GeometricMeasures2D
extends java.lang.Object
Deprecated.
use IntrinsicVolumes2D instead
Provides a set of static methods to compute geometric measures such as area, perimeter, and their densities in planar binary or label images.
Author:
David Legland
See Also:
IntrinsicVolumes2D

  • Field Summary

    Fields
    Modifier and Type Field Description
    static boolean debug
    Deprecated.
    option for debugging

  • Method Summary

    Modifier and Type Method Description
    static ij.measure.ResultsTable analyzeRegions​(ij.process.ImageProcessor labelImage, double[] resol)
    Deprecated.
    static ij.measure.ResultsTable analyzeRegions​(ij.process.ImageProcessor labelImage, double[] resol, int nDirs)
    Deprecated.
    static double[] area​(ij.process.ImageProcessor image, int[] labels, double[] resol)
    Deprecated.
    use IntrinsicVolumes2D.areas(ImageProcessor, int[], Calibration) instead
    static ij.measure.ResultsTable boundingBox​(ij.process.ImageProcessor labelImage)
    Deprecated.
    use BoundingBox class instead
    static double[][] boundingBox​(ij.process.ImageProcessor labelImage, int[] labels)
    Deprecated.
    use BoundingBox class instead
    static double[][] centroids​(ij.process.ImageProcessor labelImage, int[] labels)
    Deprecated.
    replaced by Centroid.centroids
    static ij.measure.ResultsTable croftonPerimeter​(ij.process.ImageProcessor labelImage, double[] resol, int nDirs)
    Deprecated.
    use analyzeRegions instead
    static double[] croftonPerimeter​(ij.process.ImageProcessor image, int[] labels, double[] resol, int nDirs)
    Deprecated.
    replaced by IntrinsicVolumes2D
    static double[] croftonPerimeterD2​(ij.process.ImageProcessor labelImage, int[] labels, double[] resol)
    Deprecated.
    replaced by IntrinsicVolumes2D
    static double[] croftonPerimeterD4​(ij.process.ImageProcessor labelImage, int[] labels, double[] resol)
    Deprecated.
    replaced by IntrinsicVolumes2D
    static ij.measure.ResultsTable inertiaEllipse​(ij.process.ImageProcessor image)
    Deprecated.
    use inra.ijpb.measure.region2d.InertiaEllipse instead
    static ij.measure.ResultsTable maximumInscribedCircle​(ij.process.ImageProcessor labelImage)
    Deprecated.
    use class inra.ijpb.measure.region2d.largestInscribedCircle instead
    static ij.measure.ResultsTable maximumInscribedCircle​(ij.process.ImageProcessor labelImage, double[] resol)
    Deprecated.
    use class inra.ijpb.measure.region2d.largestInscribedCircle instead
    static int particleArea​(ij.process.ImageProcessor image, int label)
    Deprecated.
    static ij.measure.ResultsTable perimeterDensity​(ij.process.ImageProcessor image, double[] resol, int nDirs)
    Deprecated.

    Methods inherited from class java.lang.Object

    equals, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

  • Field Details

    • debug

      public static boolean debug
      Deprecated.
      option for debugging

  • Method Details

    • analyzeRegions

      @Deprecated public static final ij.measure.ResultsTable analyzeRegions​(ij.process.ImageProcessor labelImage, double[] resol)
      Deprecated.
      Computes several morphometric features for each region in the input label image.
      Parameters:
      labelImage - the input image containing label of particles
      resol - the spatial resolution
      Returns:
      a data table containing the area, the perimeter and the "circularity" of each labeled particle

    • analyzeRegions

      @Deprecated public static final ij.measure.ResultsTable analyzeRegions​(ij.process.ImageProcessor labelImage, double[] resol, int nDirs)
      Deprecated.
      Computes several morphometric features for each region in the input label image and specifying number of directions to use for measuring perimeter.
      Parameters:
      labelImage - the input image containing label of particles
      resol - the spatial resolution
      nDirs - the number of directions for perimeter measure
      Returns:
      a data table containing the area, the perimeter and the "circularity" of each labeled particle

    • boundingBox

      @Deprecated public static final ij.measure.ResultsTable boundingBox​(ij.process.ImageProcessor labelImage)
      Deprecated.
      use BoundingBox class instead
      Compute bounding box of each label in input stack and returns the result as a ResultsTable.
      Parameters:
      labelImage - the input image containing label of particles
      Returns:
      a data table containing for each labeled particle the extent in each dimension
      See Also:
      BoundingBox.analyzeRegions(ImageProcessor, int[], Calibration)

    • boundingBox

      @Deprecated public static final double[][] boundingBox​(ij.process.ImageProcessor labelImage, int[] labels)
      Deprecated.
      use BoundingBox class instead
      Compute bounding box of each label in input stack and returns the result as an array of double for each label.
      Parameters:
      labelImage - the input image containing label of particles
      labels - an array of unique labels in image
      Returns:
      a data table containing for each labeled particle the extent in each dimension
      See Also:
      BoundingBox.boundingBoxes(ImageProcessor, int[], Calibration)

    • area

      @Deprecated public static final double[] area​(ij.process.ImageProcessor image, int[] labels, double[] resol)
      Deprecated.
      use IntrinsicVolumes2D.areas(ImageProcessor, int[], Calibration) instead
      Computes the area for each particle in the label image, taking into account image resolution.
      Parameters:
      image - the input image containing label of particles
      labels - the array of unique labels in image
      resol - the size of a pixel in each direction
      Returns:
      the area of each region
      See Also:
      IntrinsicVolumes2D.areas(ImageProcessor, int[], Calibration)

    • particleArea

      @Deprecated public static final int particleArea​(ij.process.ImageProcessor image, int label)
      Deprecated.
      Counts the number of pixel that composes the particle with given label.
      Parameters:
      image - the input image containing label of particles
      label - the label of the region to process
      Returns:
      the number of pixels of the specified region

    • croftonPerimeter

      @Deprecated public static final ij.measure.ResultsTable croftonPerimeter​(ij.process.ImageProcessor labelImage, double[] resol, int nDirs)
      Deprecated.
      use analyzeRegions instead
      Computes perimeter of each label using Crofton method.
      Parameters:
      labelImage - the input image containing label of particles
      nDirs - the number of directions to process, either 2 or 4
      resol - the spatial resolution
      Returns:
      a data table containing the perimeter of each labeled particle
      See Also:
      analyzeRegions(ij.process.ImageProcessor, double[])

    • croftonPerimeter

      @Deprecated public static final double[] croftonPerimeter​(ij.process.ImageProcessor image, int[] labels, double[] resol, int nDirs)
      Deprecated.
      replaced by IntrinsicVolumes2D
      Compute surface area for each label given in the "labels" argument. Consists in calling the IntrinsicVolumes2D class.
      Parameters:
      image - the input image containing label of particles
      labels - the array of unique labels in image
      resol - the spatial resolution
      nDirs - the number of directions to process, either 2 or 4
      Returns:
      an array containing for each label, an estimate of the region perimeter

    • croftonPerimeterD2

      @Deprecated public static final double[] croftonPerimeterD2​(ij.process.ImageProcessor labelImage, int[] labels, double[] resol)
      Deprecated.
      replaced by IntrinsicVolumes2D
      Computes perimeter of each label using Crofton method with 2 directions. Iterates over labels, then iterates over lines in horizontal and vertical directions. Slow... Consists in calling the IntrinsicVolumes2D class.
      Parameters:
      labelImage - the input image containing label of particles
      labels - the array of unique labels in image
      resol - the spatial resolution
      Returns:
      an array containing for each label, an estimate of the region perimeter

    • croftonPerimeterD4

      @Deprecated public static final double[] croftonPerimeterD4​(ij.process.ImageProcessor labelImage, int[] labels, double[] resol)
      Deprecated.
      replaced by IntrinsicVolumes2D
      Computes perimeter of each label using Crofton method with 4 directions (orthogonal and diagonal). Iterates over labels, then iterates over lines in the four main directions. Slow... Consists in calling the IntrinsicVolumes2D class.
      Parameters:
      labelImage - the input image containing label of particles
      labels - the array of unique labels in image
      resol - the spatial resolution
      Returns:
      an array containing for each label, an estimate of the region perimeter

    • perimeterDensity

      @Deprecated public static final ij.measure.ResultsTable perimeterDensity​(ij.process.ImageProcessor image, double[] resol, int nDirs)
      Deprecated.
      Computes porosity and perimeter density of binary image.
      Parameters:
      image - the input binary image
      resol - the spatial resolution
      nDirs - the number of directions to consider, either 2 or 4
      Returns:
      a results table containing for each label, an estimate of the region perimeter

    • centroids

      @Deprecated public static final double[][] centroids​(ij.process.ImageProcessor labelImage, int[] labels)
      Deprecated.
      replaced by Centroid.centroids
      Compute centroid of each label in input stack and returns the result as an array of double for each label.
      Parameters:
      labelImage - the input image containing label of particles
      labels - the array of unique labels in image the number of directions to process, either 2 or 4
      Returns:
      an array containing for each label, the coordinates of the centroid, in pixel coordinates
      See Also:
      Centroid.centroids(ImageProcessor, int[])

    • inertiaEllipse

      @Deprecated public static final ij.measure.ResultsTable inertiaEllipse​(ij.process.ImageProcessor image)
      Deprecated.
      use inra.ijpb.measure.region2d.InertiaEllipse instead
      Computes inertia ellipse of each region in input label image.
      Parameters:
      image - the input image containing label of particles
      Returns:
      an ResultsTable containing for each label, the parameters of the inertia ellipsoid, in pixel coordinates

    • maximumInscribedCircle

      @Deprecated public static final ij.measure.ResultsTable maximumInscribedCircle​(ij.process.ImageProcessor labelImage)
      Deprecated.
      use class inra.ijpb.measure.region2d.largestInscribedCircle instead
      Computes radius and center of maximum inscribed disk of each particle. Particles must be disjoint.
      Parameters:
      labelImage - the input image containing label of particles
      Returns:
      a ResultsTable with as many rows as the number of unique labels in label image, and columns "Label", "xi", "yi" and "Radius".

    • maximumInscribedCircle

      @Deprecated public static final ij.measure.ResultsTable maximumInscribedCircle​(ij.process.ImageProcessor labelImage, double[] resol)
      Deprecated.
      use class inra.ijpb.measure.region2d.largestInscribedCircle instead
      Radius of maximum inscribed disk of each particle. Particles must be disjoint.
      Parameters:
      labelImage - the input image containing label of particles
      resol - an array containing the size of the pixel in each direction
      Returns:
      a ResultsTable with as many rows as the number of unique labels in label image, and columns "Label", "xi", "yi" and "Radius".