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. 2022 Oct 17;19(11):1438–1448. doi: 10.1038/s41592-022-01639-4

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© The Author(s) 2022

Open Access This 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 license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license 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 license, visit http://creativecommons.org/licenses/by/4.0/.

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Fig. 5 — a, Volume slice in the A. thaliana 3D training set. Black arrows denote over-segmentation in the ground truth labels. Red corresponds to the cell in b–d. b, Selected cell in context of ground-truth data. c, Ground-truth distance field for selected cell in b. d, Steps of the suppressed Euler integration for selected cell in b. Boundary pixels shown, colored by overall displacement (dark to light red). e, Performance of Omnipose (OP, plant_omni) and Cellpose (CP, plant_cp) on the full test dataset (n = 604) and on a subset without excluded regions (Methods) depicted in f–h (n = 73). f–h, Ground-truth masks (f) and segmentation results of A. thaliana using Omnipose (g) and Cellpose (h). Scale bars, 20 μM.