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. 2021 Mar 19;11:6408. doi: 10.1038/s41598-021-85354-8

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© The Author(s) 2021

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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Comparison of somatic SNV calls from short-read and Nanopore data sets. (A) Venn diagram to show the overlap between somatic SNV calls from the short-read (green) and Nanopore (purple) data for chromosome 17. The two numbers in the Nanopore-only sector show the number of calls before (top) and after (bottom) subtraction of short-read germline calls. Note that the total number of Nanopore calls prior to subtraction is 9912 + 40 = 9952, and the total after subtraction is 3580 + 40 = 3620. (B) Read depth, average mapping quality and average base quality calculated from Nanopore reads covering each of the 123 sites at which an SNV is called in the short-read data. Sites are portioned into those at which an SNV was called vs uncalled in the Nanopore data. Boxes span the interquartile range, with the median marked as a horizontal bar, while whiskers mark the farthest points that are not outliers.