A 3D segmentation algorithm for ellipsoidal shapes. Application to nuclei extraction.

Emmanuel Soubiès 1 Pierre Weiss 2, * Xavier Descombes 3
* Auteur correspondant
2 PRIMO, ITAV, UMS3039
IMT - Institut de Mathématiques de Toulouse UMR5219, ITAV - Institut des Technologies Avancées en sciences du Vivant
3 MORPHEME - Morphologie et Images
CRISAM - Inria Sophia Antipolis - Méditerranée , IBV - Institut de Biologie Valrose : U1091, SIS - Signal, Images et Systèmes
Abstract : We propose some improvements of the Multiple Birth and Cut algorithm (MBC) in order to extract nuclei in 2D and 3D images. This algorithm based on marked point processes was proposed recently in (Gamal Eldin et al., 2012). We introduce a new contrast invariant energy that is robust to degradations encountered in fluorescence microscopy (e.g. local radiometry attenuations). Another contribution of this paper is a fast algorithm to determine whether two ellipses (2D) or ellipsoids (3D) intersect. Finally, we propose a new heuristic that strongly improves the convergence rates. The algorithm alternates between two birth steps. The first one consists in generating objects uniformly at random and the second one consists in perturbing the current configuration locally. Performance of this modified birth step is evaluated and examples on various image types show the wide applicability of the method in the field of bio-imaging.
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Communication dans un congrès
ICPRAM - International Conference on Pattern Recognition Applications and Methods, Feb 2013, Barcelona, Spain. pp.97-105, 2013
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Contributeur : Pierre Weiss <>
Soumis le : mardi 18 septembre 2012 - 11:08:44
Dernière modification le : vendredi 26 août 2016 - 01:00:49
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Emmanuel Soubiès, Pierre Weiss, Xavier Descombes. A 3D segmentation algorithm for ellipsoidal shapes. Application to nuclei extraction.. ICPRAM - International Conference on Pattern Recognition Applications and Methods, Feb 2013, Barcelona, Spain. pp.97-105, 2013. <hal-00733187>

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