An efficient protocol and data set for automated otolith image analysis,Geoscience Data Journal

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An efficient protocol and data set for automated otolith image analysis
Geoscience Data Journal ( IF 3.3 ) Pub Date : 2020-01-06 , DOI: 10.1002/gdj3.86
Savannah Carolyn Myers ₁ , Anders Thorsen ₁ , Szymon Smoliński ₁ , Jane Aanestad Godiksen ₁ , Ketil Malde _{1,

2} , Nils Olav Handegard ₁

Affiliation

Information on fish age constitutes one of the most important biological variables for a fish stock, and an accurate estimation of the age structure of the fish populations is essential for the reliable management of these natural resources. The age of individual cod (Gadus morhua) is determined by manually examining the layered structure of otoliths, a calcium carbonate structure of the inner ear. Image‐based methods to age otoliths have been investigated for over 4 decades with varying results, but recent developments in automatic image analysis techniques are promising. The objective of this paper is to describe a method to efficiently image a manually broken otolith (avoiding the time‐consuming embedding and cross‐sectioning process) and to describe the organization and acquisition of imaged broken otolith images with associated metadata for a collection of north‐east Arctic cod otoliths. A single‐lens reflex camera was used for capturing photographs of the broken otoliths. A total of six images were acquired for each subject, consisting of three images in the first position with three different light exposures and three images in the second position with three different light exposures. This results in a simple and efficient procedure for capturing clear, satisfactory, and reproducible images of broken fish otoliths, and a more straightforward and less labour‐intensive alternative to the commonly used methods that involve embedding and cross‐sectioning of the otolith.

中文翻译：

用于自动耳石图像分析的有效协议和数据集

关于鱼类年龄的信息是鱼类种群最重要的生物学变量之一，准确估计鱼类种群的年龄结构对于可靠管理这些自然资源至关重要。鳕鱼的个体年龄（Gadus morhua）是通过人工检查耳石的分层结构（内耳的碳酸钙结构）确定的。基于图像的方法对耳石进行老化的研究已经进行了超过40年，结果有所不同，但是自动图像分析技术的最新发展是有希望的。本文的目的是描述一种方法，以有效地对手动破碎的耳石进行成像（避免耗时的嵌入和横截过程），并描述与相关元数据相关的破碎的耳石图像的组织和获取，以收集北东部北极鳕鱼耳石。使用单镜头反光相机拍摄破碎的耳石的照片。每个主题共获取六张图像，包括第一位置的三个图像和三个不同的光照，第二位置的三个图像和三个不同的光照。这样就产生了一个简单而有效的过程，可以捕获破碎的鱼耳石的清晰，令人满意和可再现的图像，并且可以替代涉及埋入耳石和截取耳石的常用方法，从而获得一种更直接，更省力的替代方法。

更新日期：2020-01-06

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