Fig. 3
From: ScRNAbox: empowering single-cell RNA sequencing on high performance computing systems
scRNAbox produces visualizations of filter applications, doublet detection, and data integration. A Violin plots visualizing the distribution of quality control metrics after filtering according to user-defined thresholds, for snRNAseq midbrain sample Control 1. B Results of doublet detection with DoubletFinder [23]. Left: violin plot displaying the distribution of the proportion of artificial nearest neighbours (pANN) across singlets and doublets for Control 1. Right: a bar plot of the number of predicted singlets and doublets for Control 1. C Uniform Manifold Approximation Projection (UMAP) plots coloured by droplet assignments (singlet or doublet) for Control 1. D UMAP of merged snRNAseq midbrain samples (six Control and five PD) coloured by sample identity. E UMAP of the same data after integration, coloured by sample identity