===== 3D Mathematical Morphology  =====
Various algorithms for 3D Mathematical Morphology.

===== Author =====
Thomas Boudier

===== Description =====

3D mathematical **operations** (erosion, dilatation, ...) are available in [[plugin:filter:3d_filters:start|3D filters]] using minimum and maximum filters. 

A 3D **Fill Holes** is available, works the same way as in 2D but will not fill holes if it is not closed in the Z dimension. 

A 3D **Euclidean Distance Map** is available that takes into account the calibration of the image stack. A 3D normalized dsitance map (called Eroded Volume Fraction, or **EVF**) is also available.

In the case of labelled objects (as count masks) a **Binary Close Labels** is available, that permits to performs closing on individual objects, hence avoiding objects to touch during dilatation operation. 


===== Download =====
For details go to the [[plugin:stacks:3d_ij_suite:start|3D ImageJ Suite]].

===== Citation =====
When using the //3D Mathematical Morphology// plugins for publication, please refer to :

J. Ollion, J. Cochennec, F. Loll, C. Escudé, T. Boudier. (**2013**) TANGO: A Generic Tool for High-throughput 3D Image Analysis for Studying Nuclear Organization. //Bioinformatics// 2013 Jul 15;29(14):1840-1. [[http://dx.doi.org/10.1093/bioinformatics/btt276|doi]]

===== License =====
GPL distribution (see [[http://www.cecill.info/index.en.html|license]]). Sources for plugins are available freely. Sources for core are available on request. 


===== Changelog =====

* 30/03/2016 V3.74: bug fixed in EDT