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. 2020 Jul 10;21:170. doi: 10.1186/s13059-020-02083-3

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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. 3 — Evaluation of imputation performance by FISH. a and b were based on the MELANOMA dataset. a Scatter plots of Gini coefficients of 19 overlapped genes between FISH and RAW/the imputation, RMSE scores are shown. Two genes with different dropout levels are also shown, WNT5A and SOX10, with dropout levels of 99.85 and 85.18%, respectively. b Scatter plot of WNT5A and SOX10 expression levels between FISH and the imputation/RAW. FF scores were calculated across 13,564 cells in FISH and 8498 cells in the other plots. c RMSE of Gini coefficients of the RAW/the imputation against FISH in MELANOMA (19 genes) and SSCORTEX (33 genes). d FF scores of gene-gene distributions of the RAW/the imputation against FISH in MELANOMA (81 gene pairs) and SSCORTEX (528 gene pairs). e CMD of gene co-expression of the RAW/the imputation against FISH in MELANOMA (81 gene pairs) and SSCORTEX (528 gene pairs)