Package gov.nih.mipav.model.algorithms.levelset

Class LseThreshold3

  • public class LseThreshold3
extends LseEvolve3
    A level-set evolver for 3D images. The PDE to be solved numerically for I(x,t) is:

       dI/dt = -b*P(x)*|grad(I)| + c*F(x)*K(x,t)*|grad(I)|, t > 0
       I(x,0) = I0(x)

    where the feature image is typically

       F(x) = 1/(1+|grad(convolve(G,I0))|) or F(x) = exp(-|grad(convolve(G,I0))|)

    where G(x,t) is the Gaussian kernel and where K(x,t) is the curvature of I(x,t). The propagation image, P(x), is computed from the feature image, F(x), as follows. A lower threshold L and an upper threshold U are selected by the user; then

       P(x) = F(x) - L, if F(x) < (U+L)/2

       P(x) = U - F(x), if F(x) >= (U+L)/2

    The constant b is the propagation weight and the constant c is the curvature weight.
    Version:
    0.1 November 7, 2006
    Author:
    David Eberly

    • Field Detail

      • m_fZeroTolerance

        protected float m_fZeroTolerance
        The threshold below which the feature image values are clamped to this tolerance. The value is hard-coded as 1e-06.

      • m_aaafFeature

        protected float[][][] m_aaafFeature
        The feature image to control the segmentation.

      • m_aaafPropagation

        protected float[][][] m_aaafPropagation
        The propagation image to control the segmentation.

    • Constructor Detail

      • LseThreshold3

        public LseThreshold3​(int iXBound,
                     int iYBound,
                     int iZBound,
                     float fXSpacing,
                     float fYSpacing,
                     float fZSpacing,
                     float[] afData,
                     boolean[] abMask,
                     float fBorderValue,
                     int eScaleType,
                     float[] afFeature,
                     float fLowerThreshold,
                     float fUpperThreshold,
                     float fPropagationWeight,
                     float fCurvatureWeight)
        Create a new level-set evolver for 2D images.
        Parameters:
        iXBound - The x-bound of the image.
        iYBound - The y-bound of the image.
        iZBound - The z-bound of the image.
        fXSpacing - The x-spacing of the image.
        fYSpacing - The y-spacing of the image.
        fZSpacing - The z-spacing of the image.
        afData - The image elements, stored in lexicographical order.
        abMask - The image mask, stored in lexicographical order. A pixel value is processed by the PDE solver only when the mask value is false.
        fBorderValue - Specifies how to handle the image value. When set to Float.MAX_VALUE, Neumann conditions are in use, in which case zero-valued derivatives are assumed on the image border. Otherwise, Dirichlet conditions are used, in which case the image is assumed to be constant on the border with value specified by fBorderValue.
        eScaleType - The type of scaling to apply to the input image. The choices are NONE, UNIT, SYMMETRIC, or PRESERVE_ZERO.
        afFeature - The feature image to control the evolution.
        fLowerThreshold - The lower threshold L used in computing P(x).
        fUpperThreshold - The lower threshold U used in computing P(x).
        fPropagationWeight - The propagation coefficient 'b' in the PDE that controls the evolution.
        fCurvatureWeight - The curvature coefficient 'c' in the PDE that controls the evolution.

    • Method Detail

      • computePropagationSpeed

        protected float computePropagationSpeed​(int iX,
                                        int iY,
                                        int iZ)
        Compute the propagation speed at voxel (x,y,z). In this evolver, the propagation speed is obtained simply by a lookup into the feature image.
        Overrides:
        computePropagationSpeed in class LseEvolve3
        Parameters:
        iX - The x-coordinate of the voxel.
        iY - The y-coordinate of the voxel.
        iZ - The z-coordinate of the voxel.
        Returns:
        The propagation speed at the voxel.

      • computeCurvatureSpeed

        protected float computeCurvatureSpeed​(int iX,
                                      int iY,
                                      int iZ)
        Compute the curvature speed at voxel (x,y,z). In this evolver, the curvature speed is obtained simply by a lookup into the feature image.
        Overrides:
        computeCurvatureSpeed in class LseEvolve3
        Parameters:
        iX - The x-coordinate of the voxel.
        iY - The y-coordinate of the voxel.
        iZ - The z-coordinate of the voxel.
        Returns:
        The curvature speed at the voxel.