scmap - A tool for unsupervised projection of single cell RNA-seq data

Abstract

Single-cell RNA-seq (scRNA-seq) is widely used to investigate the composition of complex tissues^{1⇓⇓⇓⇓⇓⇓⇓–9} since the technology allows researchers to define cell-types using unsupervised clustering of the transcriptome^8,10. However, due to differences in experimental methods and computational analyses, it is often challenging to directly compare the cells identified in two different experiments. Here, we present scmap (http://bioconductor.org/packages/scmap), a method for projecting cells from a scRNA-seq experiment onto the cell-types or individual cells identified in other experiments (the application can be run for free, without restrictions, from http://www.hemberg-lab.cloud/scmap).