Extended Data Fig. 2: Quality control metrics of the snATAC-seq datasets at the bulk level.
From: Single-cell analysis of chromatin accessibility in the adult mouse brain
a, Box plots showing the distribution of mapping ratios (the fraction of the mapped sequencing reads) in replicates (rep) 1 and 2 of the snATAC-seq experiments from each brain dissection. b, Box plots showing the distribution of the number of proper read pairs (reads are correctly oriented) in rep 1 and 2 of the snATAC-seq experiments. c, Box plots showing the distribution of numbers of unique chromatin fragments detected in rep 1 and 2 of the snATAC-seq experiments. d, Box plots showing the distribution of the number of unique barcodes captured in replicates 1 and 2 of snATAC-seq experiments. In a-d, the number per each boxplot (rep1 or rep2) is 117. In each boxplot, the box spans the first to third quartiles, the horizontal line denotes the median, and whiskers show 1.5x the interquartile range. e, Frequency distribution plot showing the fragment size distribution of each snATAC-seq sample or datasets (234 samples/datasets in total). f, Heat map showing the pairwise Spearman correlation coefficients of the mapping correlations of the bam files between the snATAC-seq datasets. The column and row names consist of two parts: brain region name and replicate label. Study represents dissections covered by our previous study (Last) or updated in the current study (New).
