Fig. 4
From: DrImpute: imputing dropout events in single cell RNA sequencing data
DrImpute greatly improved the performance of Monocle and TSCAN in lineage reconstruction. a The barplots of averaged Kendall’s rank correlation score and POS of 100 repeated runs of Monocle and TSCAN on three time series scRNA-seq datasets. Blue interval represents one plus or minus standard deviation of the category. Black interval represents one plus or minus standard error of the category. Both TSCAN and Monocle are deterministic with 0 variation before imputation. Wilcoxon rank sum test was utilized to compare Kendall’s rank correlation score and POS from different tools (***p value <0.001). b Visualization of lineage reconstruction of mouse early mesoderm using TSCAN. The left and right panels, respectively, show the results of lineage reconstruction by TSCAN using the un-imputed scRNA-seq data or data preprocessed using DrImpute. The “Flk1+” cell population represents mesodermal cells. “Epiblast” is the outermost layer of an embryo before it differentiates into ectoderm and mesoderm around mouse developmental day (E) 6.5. The CD41+/Flk1- cell population represents the mature hematopoietic lineage, and CD41+/Flk1+ cell population represents an early hematopoietic lineage where CD41 and Flk1 are co-expressed. c Visualization of lineage reconstruction for human preimplantation embryo using Monocle. The left and right panels, respectively, show the results of lineage reconstruction by Monocle without and with preprocessing the scRNA-seq data using DrImpute