Package ij.plugin.filter
Class FractalBoxCounter
java.lang.Object
ij.plugin.filter.FractalBoxCounter
- All Implemented Interfaces:
PlugInFilter
public class FractalBoxCounter extends 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.
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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
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Field Summary
Fields inherited from interface ij.plugin.filter.PlugInFilter
CONVERT_TO_FLOAT, DOES_16, DOES_32, DOES_8C, DOES_8G, DOES_ALL, DOES_RGB, DOES_STACKS, DONE, FINAL_PROCESSING, KEEP_THRESHOLD, NO_CHANGES, NO_IMAGE_REQUIRED, NO_UNDO, NO_UNDO_RESET, PARALLELIZE_IMAGES, PARALLELIZE_STACKS, ROI_REQUIRED, SNAPSHOT, STACK_REQUIRED, SUPPORTS_MASKING
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Constructor Summary
Constructors Constructor Description FractalBoxCounter()
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Method Summary
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Constructor Details
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FractalBoxCounter
public FractalBoxCounter()
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Method Details
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setup
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 or in the plugins.config file of a jar archive containing the plugin. 'imp' is the currently active image. This method should return a flag word that specifies the filters capabilities.For Plugin-filters specifying the
PlugInFilter.FINAL_PROCESSING
flag, the setup method will be called again, this time with arg = "final" after all other processing is done.- Specified by:
setup
in interfacePlugInFilter
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run
Description copied from interface:PlugInFilter
Filters use this method to process the image. If thePlugInFilter.DOES_STACKS
flag was set, it is called for each slice in a stack. WithPlugInFilter.CONVERT_TO_FLOAT
, the filter is called with the image data converted to a FloatProcessor (3 times per image for RGB images). ImageJ will lock the image before calling this method and unlock it when the filter is finished. For PlugInFilters specifying thePlugInFilter.NO_IMAGE_REQUIRED
flag and not thePlugInFilter.DONE
flag, run(ip) is called once with the argumentnull
.- Specified by:
run
in interfacePlugInFilter
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s2ints
Breaks the specified string into an array of ints. Returns null if there is an error.
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