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Sprite tree: an efficient image-based representation for networked virtual environments

Zhu, Minhui and Morin, Géraldine and Charvillat, Vincent and Ooi, Wei Tsang Sprite tree: an efficient image-based representation for networked virtual environments. (2016) The Visual Computer : International Journal of Computer Graphics, 2016. pp. 1-18. ISSN 0178-2789

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Official URL: http://dx.doi.org/10.1007/s00371-016-1286-0

Abstract

In this paper we present a pipeline for automatic analysis of neuronal morphology: from detection, modeling to digital reconstruction. First, we present an automatic, unsupervised object detection framework using stochastic marked point process. It extracts connected neuronal networks by fitting special configuration of marked objects to the centreline of the neurite branches in the image volume giving us position, local width and orientation information. Semantic modeling of neuronal morphology in terms of critical nodes like bifurcations and terminals, generates various geometric and morphology descriptors such as branching index, branching angles, total neurite length, internodal lengths for statistical inference on characteristic neuronal features. From the detected branches we reconstruct neuronal tree morphology using robust and efficient numerical fast marching methods. We capture a mathematical model abstracting out the relevant position, shape and connectivity information about neuronal branches from the microscopy data into connected minimum spanning trees. Such digital reconstruction is represented in standard SWC format, prevalent for archiving, sharing, and further analysis in the neuroimaging community. Our proposed pipeline outperforms state of the art methods in tracing accuracy and minimizes the subjective variability in reconstruction, inherent to semi-automatic methods.

Item Type:Article
Additional Information:Thanks to Springer editor. The definitive version is available at http://link.springer.com The original PDF of this chapter can be found at: http://link.springer.com/article/10.1007/s00371-016-1286-0
HAL Id:hal-01475014
Audience (journal):International peer-reviewed journal
Uncontrolled Keywords:
Institution:French research institutions > Centre National de la Recherche Scientifique - CNRS (FRANCE)
Université de Toulouse > Institut National Polytechnique de Toulouse - INPT (FRANCE)
Université de Toulouse > Université Paul Sabatier-Toulouse III - UPS (FRANCE)
Université de Toulouse > Université Toulouse - Jean Jaurès - UT2J (FRANCE)
Université de Toulouse > Université de Toulouse I-Sciences Sociales - UT1 (FRANCE)
Other partners > National University of Singapore - NUS (REPUBLIC OF SINGAPORE)
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Deposited By: IRIT IRIT
Deposited On:02 Feb 2017 14:11

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