一种从三维图像中分型生菜体积和结构的方法。

IF 4.7 2区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS
Victor Bloch, Alexey Shapiguzov, Titta Kotilainen, Matti Pastell
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引用次数: 0

摘要

监测植物生长对于有效的作物管理至关重要,使用颜色和深度(RGBD)摄像机对生菜进行建模已经成为最方便和非侵入性的方法之一。近年来,深度学习技术,特别是神经网络,已经成为估计生菜鲜重的流行技术。然而,这些模型通常针对特定的数据集,缺乏领域适应性,并且经常受到开放访问数据集可用性的限制。在这项研究中,我们提出了一种基于植物几何特征的方法来估计生菜的莲座结构和体积。这种新方法与现有的从点云重建表面的方法(如Ball Pivoting和Alpha Shapes)进行了比较。提出的方法在植物的点云周围创建了一个紧密的外壳,保留了玫瑰结构的高细节,同时填充了3D相机看不到的表面孔。使用线性回归模型,我们估计了该数据集的新鲜重量,当仅使用估计的植物体积时,均方根误差(RMSE)为18.2 g,当包括体积和几何特征时,均方根误差(RMSE)为17.3 g。此外,我们引入了新的几何特征来表征叶片密度,这可能对育种应用有用。在收获前采集的生菜植株的402个点云数据集,使用一个自上而下和三个侧视3D摄像机汇编而成。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
A method for phenotyping lettuce volume and structure from 3D images.

Monitoring plant growth is crucial for effective crop management, and using color and depth (RGBD) cameras to model lettuce has emerged as one of the most convenient and non-invasive methods. In recent years, deep learning techniques, particularly neural networks, have become popular for estimating lettuce fresh weight. However, these models are typically specific to particular datasets, lack domain adaptation, and are often limited by the availability of open-access datasets. In this study, we propose a method based on plant geometric features for estimating the rosette structure and volume of lettuce. This new approach was compared to existing methods that reconstruct surfaces from point clouds, such as Ball Pivoting and Alpha Shapes. The proposed method creates a tight hull around the plant's point cloud, preserving high detail of the rosette structure while filling in surface holes in areas not visible to 3D cameras. Using a linear regression model, we estimated fresh weight for this dataset, achieving a root mean square error (RMSE) of 18.2 g when using only the estimated plant volume, and 17.3 g when both volume and geometric features were included. Additionally, we introduced new geometric features that characterize leaf density, which could be useful for breeding applications. A dataset of 402 point clouds of lettuce plants, captured before harvest, was compiled using one top-down and three side-view 3D cameras.

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来源期刊
Plant Methods
Plant Methods 生物-植物科学
CiteScore
9.20
自引率
3.90%
发文量
121
审稿时长
2 months
期刊介绍: Plant Methods is an open access, peer-reviewed, online journal for the plant research community that encompasses all aspects of technological innovation in the plant sciences. There is no doubt that we have entered an exciting new era in plant biology. The completion of the Arabidopsis genome sequence, and the rapid progress being made in other plant genomics projects are providing unparalleled opportunities for progress in all areas of plant science. Nevertheless, enormous challenges lie ahead if we are to understand the function of every gene in the genome, and how the individual parts work together to make the whole organism. Achieving these goals will require an unprecedented collaborative effort, combining high-throughput, system-wide technologies with more focused approaches that integrate traditional disciplines such as cell biology, biochemistry and molecular genetics. Technological innovation is probably the most important catalyst for progress in any scientific discipline. Plant Methods’ goal is to stimulate the development and adoption of new and improved techniques and research tools and, where appropriate, to promote consistency of methodologies for better integration of data from different laboratories.
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