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. 2021 Nov 18;12:6744. doi: 10.1038/s41467-021-26938-w

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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 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. 1 — All panels are strong zoom-ins, focusing on (different) areas of interest. Global views of these panels are provided in Supplementary Fig. 7. a Precision and recall of an average of two whole genome sequenced single cells IL-11 and IL-12 against their kindred clone IL-1C as ground truth genotypes. b Precision and recall average of the five whole-exome sequenced single granulocytes against their pedigree-based germline genotype ground truth. c Precision and recall average of 16 tumor and 16 normal single cells sequenced at the whole exome level. ⁻^b The germline ground truth induces an artificial increase of recall for SCIPhI’s sensitive and ProSolo’s imputation mode; these modes should thus be disregarded for a fair comparison on the granulocyte dataset in panel b. Threshold parameters (not comparable across tools): MonoVar --t; ProSolo --fdr; SCAN-SNV --fdr; SCcaller -a cutoff; SCIPhI prosolo --fdr. Software modes: MonoVar with consensus filtering (default) or without (no consensus); ProSolo with minimum coverage 1 in single-cell (default), or imputing zero coverage sites based on bulk sample (imputation); SCcaller with recommended settings (default) or with a more sensitive calling; SCIPhI with default parameters (default) or all heuristics off (sensitive).