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. 2020 Jul 28;16:100. doi: 10.1186/s13007-020-00642-0

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© The Author(s) 2020

Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated in a credit line to the data.

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Fig. 2 — Flowchart of the procedure. a A plant sample (Arabidopsis seedling) prepared for analysis. b Basic raw imaging data for cellular outlines acquired by various 2D (two dimensional) and 3D imaging techniques used for this procedure; large-scale 3D images can be split into arbitrary 2D sections if needed. c Pre-processing, clarity adjustment, and parameter identification by ImageJ software. d Polygon creation, establishment of a Voronoï diagram, and object/cluster identification together with quantitative data generated and exported by SR-Tesseler software