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. 2020 Aug 10;21:199. doi: 10.1186/s13059-020-02111-2

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© The Author(s) 2020

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. 4 — Contamination estimates with ContamLD and ANGSD for ancient individuals with different levels of contamination added. Sixty-five ancient individuals with average coverage over 0.5× had increasing levels of artificial contamination added in (from I10895, an ~ 1200BP ancient West Eurasian individual) and were then analyzed with ContamLD (with panels most genetically similar to the ancient individual and using damage-restricted correction, option 1) and ANGSD. Details of all estimates (including standard errors) are provided in Additional file 3: Table S2. The black dotted line is y = x, which would correspond to a perfect estimate of the contamination