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. 2019 Nov 28;10:5436. doi: 10.1038/s41467-019-13225-y

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© The Author(s) 2019

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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Fig. 4 — Phasing performance on high-coverage sequence data (GIAB). a Switch error rates with 95% binomial confidence intervals for each combination tested of sequencing reads and haplotype scaffold. b Same information than in a measured only at variants with minor allele frequency (MAF) above 1%. c Switch error rates measured only at variants belonging to phase sets (i.e., haplotype assembly) before (squares) and after (triangles) refinement by SHAPEIT4. Results are shown here assuming 0.01% error rate in the phase sets. Source data are provided as a Source Data file.