Extended Data Fig. 4: Iterative clustering for the snATAC-seq data.
From: Single-cell analysis of chromatin accessibility in the adult mouse brain
a, A multi-stage cell clustering pipeline is organized for all the nuclei passing our quality control. b, Violin plots showing the number of unique fragments per nucleus in each cell subclass. c, Violin plots showing the TSS enrichment in each nucleus of each cell subclass. d, Boxplots of acceptance rates from k-nearest neighbour batch effect test34 (kBET) for the 275 subclasses. Boxes span the first to third quartiles, horizontal line denotes the median, and whiskers show 1.5× the interquartile range. Two-sided t-tests showed no significant P-values between the values from the two boxes. e, Distribution of the local inverse Simpson’s index35 (LISI) scores for cells in each subclass.
