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General Description
The ImageJ Shape Filter Plugin use the [ij-blob] library to characterize and filter objects in binary scenes by its shape. Therefore, several features are calculated as shown below. 
If you like to cite the Shape Filter plugin in a scientific publication, please cite:
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.
- Area eq. circle diameter: Equivalent circle diameter \(2\sqrt{\frac{A}{\pi}}\)
- 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.
