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. 2022 Nov 28;7(12):2128–2150. doi: 10.1038/s41564-022-01266-x

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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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Extended Data Fig. 8 — a, Distribution of the percentage of microbial taxa for which co-occurrences were strong. Strong co-occurrence was defined as having a co-occurrence strength (that is, rank, or log conditional probability) ≥ 2. The overall distribution of co-occurrence strengths is shown in the inset (n = 26,784,120). For values > 0 (n = 13,851,755), the minimum = –10.17, maximum = 12.69, mean = 2.40 x 10^-18, median = 0.08, and mode = 1.22. For values ≥ 2 (n = 3,496,639), the minimum = 2.00, maximum = 12.69, mean = 2.87, median = 2.63, and mode = 4.26. b, The percentage of microbial taxa for which co-occurrences were strong (that is, ≥ 2), across metabolite pathways. c, The percentage of microbial taxa for which co-occurrences were strong (that is, ≥ 2), across metabolite superclasses. For panels b and c, points were jittered horizontally for clarity, and n = 4,765 metabolites. Boxplots are in the style of Tukey, where the center line indicates the median, lower and upper hinges the first- and third quartiles, respectively, and each whisker 1.5 x the interquartile range (IQR) from its respective hinge.