ij.plugin.filter
Class FractalBoxCounter

java.lang.Object
  ij.plugin.filter.FractalBoxCounter

All Implemented Interfaces:

PlugInFilter

public class FractalBoxCounter
extends java.lang.Object
implements PlugInFilter

Calculate the so-called "capacity" fractal dimension. The algorithm is called, in fractal parlance, the "box counting" method. In the simplest terms, the routine counts the number of boxes of a given size needed to cover a one pixel wide, binary (black on white) border. The procedure is repeated for boxes that are 2 to 64 pixels wide. The output consists of two columns labeled "size" and "count". A plot is generated with the log of size on the x-axis and the log of count on the y-axis and the data is fitted with a straight line. The slope (S) of the line is the negative of the fractal dimension, i.e. D=-S. A full description of the technique can be found in T. G. Smith, Jr., G. D. Lange and W. B. Marks, Fractal Methods and Results in Cellular Morphology, which appeared in J. Neurosci. Methods, 69:1123-126, 1996. --- 12/Jun/2006 G. Landini added "set is white" option, otherwise the plugin assumes that the object is always low-dimensional (i.e. the phase with the smallest number of pixels). Now it works fine for sets with D near to 2.0

Field Summary

Fields inherited from interface ij.plugin.filter.PlugInFilter

DOES_16, DOES_32, DOES_8C, DOES_8G, DOES_ALL, DOES_RGB, DOES_STACKS, DONE, NO_CHANGES, NO_IMAGE_REQUIRED, NO_UNDO, ROI_REQUIRED, STACK_REQUIRED, SUPPORTS_MASKING

Constructor Summary

FractalBoxCounter()

Method Summary

void	run(ImageProcessor ip) Filters use this method to process the image.
int[]	s2ints(java.lang.String s) Breaks the specified string into an array of ints.
int	setup(java.lang.String arg, ImagePlus imp) This method is called once when the filter is loaded.

Methods inherited from class java.lang.Object

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

Constructor Detail

FractalBoxCounter

public FractalBoxCounter()

Method Detail

setup

public int setup(java.lang.String arg,
                 ImagePlus imp)

Description copied from interface: PlugInFilter

This method is called once when the filter is loaded. 'arg', which may be blank, is the argument specified for this plugin in IJ_Props.txt. 'imp' is the currently active image. This method should return a flag word that specifies the filters capabilities.

Specified by:

setup in interface PlugInFilter

run

public void run(ImageProcessor ip)

Description copied from interface: PlugInFilter

Filters use this method to process the image. If the SUPPORTS_STACKS flag was set, it is called for each slice in a stack. ImageJ will lock the image before calling this method and unlock it when the filter is finished.

Specified by:

run in interface PlugInFilter

s2ints

public int[] s2ints(java.lang.String s)

Breaks the specified string into an array of ints. Returns null if there is an error.