scPipe: A flexible R/Bioconductor preprocessing pipeline for single-cell RNA-sequencing data
Fig 5
Analysis results produced with SingleCellExperiment-compatible packages from Bioconductor.
(A) Differential gene expression results from comparing B-lymphocytes and T-lymphocytes known a priori in the CEL-seq2 mouse blood dataset. Highlighted points are genes determined to be significantly differentially expressed from LRT with 0.05 FDR cutoff. (B) tSNE coloured by cell type predictions obtained for SC3 clusters for the first spleen sample from the Human Cell Atlas ischaemic sensitivity dataset. The 10 clusters from SC3 were assigned to 5 distinct cell types from the reference set of 12 lineages.