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. 2022 Aug 4;23:168. doi: 10.1186/s13059-022-02734-7

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© The Author(s) 2022

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. 3 — Comparison of different methods for spatial domain detection and cell type clustering in simulations with multiple tissue sections. A Boxplots of ARI show the accuracy of BASS for spatial domain detection (y-axis) in the presence of 1, 2, 5, or 10 tissue sections (x-axis). B Line plots display the median ARI by different methods for cell type clustering across 50 simulation replicates (y-axis) in the presence of 1, 2, 5, or 10 tissue sections (x-axis). Compared methods for cell type clustering include BASS, Seurat, and SC3. C Barplots show the median RMSE between the estimated cell type compositions and the true compositions across 50 simulation replicates (y-axis) in the presence of 1, 2, 5, or 10 tissue sections (x-axis). Simulations were conducted under Scenario I, Scenario II, Scenario III, and Scenario IV, with the simulation parameters set as the baseline setting: the number of genes (nGenes) = 200, the proportion of genes that were differentially expressed in each cell type versus the others (de. prob) = 0.2, and the DE strength (de. facloc) = 1.1