Fig. 2: Preserving biological zeros in purified PBMC populations.
From: Zero-preserving imputation of single-cell RNA-seq data
A After low-rank approximation, ALRA recovers biological zeros of each gene by thresholding (red line) the expression values of that gene in all cells at the magnitude of the p = 0.001 quantile of that gene (blue line). B Preserving biological zeros in genes known to be specific to each cell population. C Biological zeros were defined as genes which should not be expressed in a cell type (based on bulk RNA-seq). The ratio of these biological zeros preserved (ZP) is shown alongside the ratio of total zeros completed (TC). D Percentage of biological zeros preserved (left) and technical zeros completed (right) in a simulated scRNA-seq dataset as sequencing depth increases. DCA not shown for (C) and (D), as it imputes every zero to a positive number.
