Parameter-free binarization and skeletonization of fiber networks from confocal image stacks

Krauss P, Metzner C, Lange J, Lang N, Fabry B (2012)


Publication Status: Published

Publication Type: Journal article

Publication year: 2012

Journal

Original Authors: Krauss, P.,Metzner, C.,Lange, J.,Lang, N.,Fabry, B.,

Publisher: Public Library of Science

Book Volume: 7

Journal Issue: 5

DOI: 10.1371/journal.pone.0036575

Abstract

We present a method to reconstruct a disordered network of thin biopolymers, such as collagen gels, from three-dimensional (3D) image stacks recorded with a confocal microscope. The method is based on a template matching algorithm that simultaneously performs a binarization and skeletonization of the network. The size and intensity pattern of the template is automatically adapted to the input data so that the method is scale invariant and generic. Furthermore, the template matching threshold is iteratively optimized to ensure that the final skeletonized network obeys a universal property of voxelized random line networks, namely, solid-phase voxels have most likely three solid-phase neighbors in a 3×3×3 neighborhood. This optimization criterion makes our method free of user-defined parameters and the output exceptionally robust against imaging noise. © 2012 Krauss et al.

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How to cite

APA:

Krauss, P., Metzner, C., Lange, J., Lang, N., & Fabry, B. (2012). Parameter-free binarization and skeletonization of fiber networks from confocal image stacks. PLoS ONE, 7(5). https://dx.doi.org/10.1371/journal.pone.0036575

MLA:

Krauss, Patrick, et al. "Parameter-free binarization and skeletonization of fiber networks from confocal image stacks." PLoS ONE 7.5 (2012).

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