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Semi-local extraction of ring structures in images of biological hard tissues: application to the Bayesian interpretation of fish otoliths for age and growth estimation

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This paper deals with the analysis of images of biological tissue that involves ring structures, such as tree trunks, bivalve seashells, or fish otoliths, with a view to automating the acquisition of age and growth data. A bottom-up template-based scheme extracts meaningful ridge and valley curve data using growth-adapted time-frequency filtering. Age and growth estimation is then stated as the Bayesian selection of a subset of ring curves, which combines a measure of curve significativity and an a priori statistical growth model. Experiments on real samples demonstrate the efficiency of the proposed data extraction stage. Our Bayesian framework is shown to significantly outperform previous methods for the interpretation of a data set of 200 plaice otoliths and compares favorably with interexpert agreement rates (88% of agreement to expert interpretations).

Cet article traite de l'analyse des images de tissus biologiques à des fins d'automatisation de l'acquisition des données d'âge et de croissance. Nous développons une approche générale pour l'extraction et l'interprétation des structures géométriques concentriques dans les images de tissus biologiques, tels que les troncs d'arbres, les coquilles de bivalves et les otolithes de poissons. La première étape permet d'identifier des courbes signficatives correspondant aux crêtes et aux vallées dans l'image. Elle intègre un filtrage adapté, fonction d'un a priori sur la croissance. Dans un second temps, l'estimation de l'âge et de la croissance est formulée comme un problème de sélection bayésienne d'un sous-ensemble pertinent de courbes parmi l'ensemble des courbes extraites. Des résultats obtenus sur des images de différents tissus démontrent l'efficacité de notre méthode d'extraction des structures d'intérêt. De plus, l'évaluation du schéma bayésien d'interprétation pour un ensemble de 200 otolithes de plie valide notre approche en termes d'amélioration des résultats antérieurs obtenus par des approches automatiques et en termes de comparaison aux taux d'agrément inter-experts de 88 %.

Document Type: Research Article

Publication date: 2006-06-01

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  • Published continuously since 1901 (under various titles), this monthly journal is the primary publishing vehicle for the multidisciplinary field of aquatic sciences. It publishes perspectives (syntheses, critiques, and re-evaluations), discussions (comments and replies), articles, and rapid communications, relating to current research on cells, organisms, populations, ecosystems, or processes that affect aquatic systems. The journal seeks to amplify, modify, question, or redirect accumulated knowledge in the field of fisheries and aquatic science. Occasional supplements are dedicated to single topics or to proceedings of international symposia.
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