scPipe: A flexible R/Bioconductor preprocessing pipeline for single-cell RNA-sequencing data
Fig 6
Comparing scPipe and CellRanger.
(A) The workflow for the comparison. An equal mixture of cells from three cell lines are sequenced using the Chromium 10X platform (see Materials and methods). Data were processed by scPipe and CellRanger. (B) The pie chart shows the overlap of cell barcode detected by scPipe and CellRanger. (C) The t-SNE plot generated using CellRanger output. Cell barcodes that only exist in CellRanger are highlighted. (D) Box plots showing the percentage of mitochondrial gene counts in cells that overlap with scPipe or only exist in the CellRanger results.