Fig. 11
From: Single-cell ATAC-seq signal extraction and enhancement with SCATE
Analysis of human hematopoietic differentiation cell types. a tSNE plot showing cells color-coded by their true cell types. b tSNE plot showing cells color-coded by their predicted cell types. Using the default setting, SCATE grouped cells into 14 clusters (numbers in the plot indicate cluster centers). The clusters that can be unambiguously linked to a cell type are color-coded by cell type. c Similar to b, but cells are clustered using user-specified cluster number (38 clusters). d–f Regulome reconstruction performance of different methods in the default analysis, including d correlation between reconstructed and true bulk log-CRE activities, e peak calling AUC, and f correlation between predicted and true differential log-CRE activities. g–i Regulome reconstruction performance using user-specified cluster number (38 clusters), including g correlation between reconstructed and true bulk log-CRE activities, h peak calling AUC, and i correlation between predicted and true differential log-CRE activities. j Comparison of different methods in an example genomic region in HSC cell cluster in the default analysis