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Shape Filter

1,512 bytes added, 17:26, 13 December 2018
Fix "list of update sites" link
{{Infobox
| software = ImageJ/Fiji
| name = Shape Smoothing Filter Plugin| author = Thorsten Wagner{{Person|Twagner}}| maintainer = Thorsten Wagner (wagner@biomedical-imaging.de){{Person|Twagner}}| filename = Shape_Smoothingshape_filter_x.y.z.jar [https://github.com/thorstenwagner/ij-shape-filter/releases/latest [1]]
| source = Github [https://github.com/thorstenwagner/ij-shape-filter [2]]
| latest version = v1.4.2.1 (16 Jul 201514 July 2016)
| status = active
}}
== General Description ==
The ImageJ Shape Filter Plugin uses use the [https://github.com/thorstenwagner/ij-blob [ij-blob]] library to characterize and filter objects in binary scenes by its shape.Therefore, several features are calculated as shown below.[[File:Shape Filter GUI.png|200px|thumb]]
= If you like to cite the Shape Features =Filter plugin in a scientific publication, please cite:
Wagner, T and Lipinski, H 2013. IJBlob: An ImageJ Library for Connected Component Analysis and Shape Analysis. Journal of Open Research Software 1(1):e6, DOI: http://dx.doi.org/10.5334/jors.ae  == Shape Features == * '''Area ''' (<math>A</math>): The area enclosed by the outer contour of an object.* '''Area Convex Hull ''' (<math>C</math>): The area enclosed by the convex hull of the outer contour of an object.* '''Perimeter''' (<math>P</math>): The perimeter of the outer contour of an object.* '''Perimeter Convex Hull''' (<math>H</math>): 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 <math>2\sqrt{\frac{A}{\pi}}</math>* '''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.* '''Aspect Ratio''': Defined as <math>L/S</math>* '''Area to Perimeter Ratio''': Defined as <math>A/P</math>* '''Circularity''':Defined as <math>P^{2}/A</math>* '''Elongation''':Defined as <math>1 - S/L</math>* '''Convexity''':Defined as <math>H/P</math>* '''Solidity''':Defined as <math>A/C</math>* '''Number of Holes''':The number of holes inside an object.* '''Thinnes Ratio''':Inverse proportional to the circularity. Furthermore it normed. It is defined as <math>4\pi A/P^{2}</math>* '''Contour Temperatur''': It has a strong relationship to the fractal dimension, defined as <math>\left(log_{2}\left(\frac{2P}{P-H}\right)\right)^{-1}</math>* '''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 "{{ListOfUpdateSites|Biomedgroup}}" to install the shape filter plugin.
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