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. 2023 Jul 7;22:207. doi: 10.1186/s12936-023-04632-0

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© The Author(s) 2023

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/. 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 — Local population structure in sub-Saharan Africa. t-distributed stochastic neighbour embedding (tSNE) was computed from the variance-standardized genetic relationship matrix generated using A SNPs and indels combined, B indels only and C SNPs only. Variant data (from chromosome 1) were pruned for linkage disequilibrium and only samples with less than 20% missing genotypes (n = 3008) were kept. DRC: Democratic Republic of Congo