A generator of morphological clones for plant species

Abstract

Detailed and realistic tree form generators have numerous applications in ecology and forestry. Here, we present an algorithm for generating morphological tree “clones” based on the detailed reconstruction of the laser scanning data, statistical measure of similarity, and a plant growth algorithm with simple stochastic rules. The algorithm is designed to produce tree forms, i.e. morphological clones, similar as a whole (coarse-grain scale), but varying in minute details of organization (fine-grain scale). We present a general procedure for obtaining these morphological clones. Although we opted for certain choices in our algorithm, its various parts may vary depending on the application. Namely, we have shown that specific multi-purpose procedural stochastic growth model can be algorithmically adjusted to produce the morphological clones replicated from the target experimentally measured tree. For this, we have developed a statistical measure of similarity (structural distance) between any given pair of trees, which allows for the comprehensive comparing of the tree morphologies in question by means of empirical distributions describing geometrical and topological features of a tree. Our algorithm can be used in variety of applications and contexts for exploration of the morphological potential of the growth models, arising in all sectors of plant science research. Summary Statement We present an algorithmic framework, based on the Bayesian inference, for generating morphological tree clones using a combination of stochastic growth models and experimentally derived tree structures.

Plant phenotyping relevance

レーザースキャンによる樹木形態の再構成と形態類似度の計算、形態クローン生成アルゴリズムが研究の中心であり、植物形態を抽出・生成する方法論研究である。

Code and data availability

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