Difference between revisions of "Shape Filter"

(Shape Features)
(Shape Features)
Line 24: Line 24:
 
* '''Min. Feret Diameter''': the minimum distance between the two parallel tangents touching the particle outline in all directions.
 
* '''Min. Feret Diameter''': the minimum distance between the two parallel tangents touching the particle outline in all directions.
 
* '''Max. Inscr. Circle Diameter''': The diameter of the maximum inscribed circle.
 
* '''Max. Inscr. Circle Diameter''': The diameter of the maximum inscribed circle.
* '''Long Side Minimum Bounding Rectangle'''(<math>L</math>): The larger side of the minimum bounding rectangle.
+
* '''Long Side Minimum Bounding Rectangle''' (<math>L</math>): The larger side of the minimum bounding rectangle.
* '''Short Side Minimum Bounding Rectangle'''(<math>S</math>): The smaller side of the minimum bounding rectangle.
+
* '''Short Side Minimum Bounding Rectangle''' (<math>S</math>): The smaller side of the minimum bounding rectangle.
 
* '''Aspect Ratio''': Defined as <math>L/S</math>
 
* '''Aspect Ratio''': Defined as <math>L/S</math>
 
* '''Area to Perimeter Ratio''': Defined as <math>A/P</math>
 
* '''Area to Perimeter Ratio''': Defined as <math>A/P</math>

Revision as of 03:45, 20 October 2015

Shape Filter Plugin (ImageJ/Fiji)
Author Thorsten Wagner
Maintainer Thorsten Wagner (wagner@biomedical-imaging.de)
File shape_filter_x.y.z.jar [1]
Source Github [2]
Latest version v1.4.0 (21 Sep 2015)
Development status active


General Description

The ImageJ Shape Filter Plugin uses the [ij-blob] library to characterize and filter objects in binary scenes by its shape. Therefore, several features are calculated as shown below.

Shape Filter GUI.png

Shape Features

  • Area (A): The area enclosed by the outer contour of an object.
  • Area Convex Hull (C): The area enclosed by the convex hull of the outer contour of an object.
  • Perimeter (P): The perimeter of the outer contour of an object.
  • Perimeter Convex Hull (H): The perimeter of the convex hull of the particle.
  • Feret Diameter: The maximum distance between the two parallel tangents touching the particle outline in all directions.
  • Min. Feret Diameter: the minimum distance between the two parallel tangents touching the particle outline in all directions.
  • Max. Inscr. Circle Diameter: The diameter of the maximum inscribed circle.
  • Long Side Minimum Bounding Rectangle (L): The larger side of the minimum bounding rectangle.
  • Short Side Minimum Bounding Rectangle (S): The smaller side of the minimum bounding rectangle.
  • Aspect Ratio: Defined as L/S
  • Area to Perimeter Ratio: Defined as A/P
  • Circularity: Defined as P^{2}/A
  • Elongation: Defined as 1 - S/L
  • Convexity: Defined as H/P
  • Solidity: Defined as A/C
  • Number of Holes: The number of holes inside an object.
  • Thinnes Ratio: Inverse proportional to the circularity. Furthermore it normed. It is defined as 4\pi A/P^{2}
  • Contour Temperatur: It has a strong relationship to the fractal dimension, defined as \left(log_{2}\left(\frac{2P}{P-H}\right)\right)^{-1}
  • Orientation: The orientation of the major axis from in grad (measured counter clockwise from the positive x axis).
  • Fractal Box Dimension: Estimated fractal dimension by the box count algorithm. The default box-sizes are “2,3,4,6,8,12,16,32,64”.

Installation

You could simply use our update site "biomedgroup" to install the shape filter plugin.