Motivation

Developing methods to efficiently analyze 3D point cloud data of plant architectures remains challenging for many phenotyping applications. Here, we describe a tool that tackles four core phenotyping tasks: classification of cloud points into stem and lamina points; graph skeletonization of the stem points; segmentation of individual lamina; and whole leaf labeling. These four tasks are critical for numerous downstream phenotyping goals, such as quantifying plant biomass, performing morphological analyses of plant shapes, and uncovering genotype to phenotype relationships. The P3D tool provides an intuitive graphical user interface, a fast 3D rendering engine for visualizing plants with millions of cloud points, and several graph-theoretic and machine learning algorithms for 3D architecture analyses.

Availability and implementation

P3D is open-source and implemented in C ++. Source code and Windows installer are freely available at: https://github.com/iziamtso/P3D/.

中文翻译：

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Plant 3D（P3D）：用于3D点云的植物表型分析工具包。

动机

对于许多表型应用而言，开发有效分析植物架构的3D点云数据的方法仍然具有挑战性。在这里，我们描述了一种解决四个核心表型任务的工具：将云点分为茎点和叶片点；茎点的图形骨架化；单个薄片的分割；和整个叶子的标签。这四个任务对于许多下游表型目标至关重要，例如量化植物生物量，对植物形状进行形态分析以及揭示基因型与表型之间的关系。P3D工具提供了直观的图形用户界面，用于可视化具有数百万个云点的植物的快速3D渲染引擎，以及用于3D架构分析的几种图形理论和机器学习算法。

可用性和实施

P3D是开源的，并在C ++中实现。可从以下网址免费获得源代码和Windows安装程序：https：//github.com/iziamtso/P3D/。