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. 2020 May 11;11:2338. doi: 10.1038/s41467-020-15851-3

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© The Author(s) 2020

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. 8 — The black line is the smoothed expression curve when cells from all batches are included. The red, green, and blue lines are the smoothed expression curves for cells from T1, T2, and T3, respectively. Pseudotime from all methods was scaled to [0, 1] for comparison. a Low-dimensional representation from DESC as input; b CCA components from Seurat 3.0 as input; c CCA components from method CCA as input; d PCA components of corrected gene expression values from MNN as input; e low-dimensional representation from scVI as input; f low-dimensional representation from BERMUDA as input; g low-dimensional representation from scanorama as input; h raw gene count matrix as input.