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. 2022 May 19;12:8470. doi: 10.1038/s41598-022-12037-3

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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 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/.

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Community profiling metrics for the ISE sample (in silico even abundance) (A) and for the ISS sample (in silico staggered abundance) (B). Values for default settings of taxonomy profiling tools are highlighted in red. The Kraken2/Bracken combination identified all expected species, as opposed to MetaPhlAn2. Various Kraken2 confidence threshold values were tested to reach a higher weighted precision level and lower RMSE.