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Fig. 3 | Genome Biology

Fig. 3

From: scATAC-pro: a comprehensive workbench for single-cell chromatin accessibility sequencing data

Fig. 3

Quality assessment metrics for called single cells. scATAC-seq data of human PBMCs was used for illustration purpose. (A) Plot of the fraction of fragments in peaks versus the total number of unique fragments. The plot can be used to distinguish cell barcodes from non-cell barcodes. (B) Distribution of insert fragment sizes. The plot can be used to evaluate the quality of transposase reaction. (C) Transcription start site (TSS) enrichment profile. (D) Distribution of the total number of unique fragments for cell and non-cell barcodes. The plot can be used to evaluate the amount of cell debris sequenced. (E) Boxplot of fragments overlapping annotated genomic regions per cell. (F) Overall statistics of data aggregated from all called cells

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