scmap: projection of single-cell RNA-seq data across data sets

Nat Methods. 2018 May;15(5):359-362. doi: 10.1038/nmeth.4644. Epub 2018 Apr 2.


Single-cell RNA-seq (scRNA-seq) allows researchers to define cell types on the basis of unsupervised clustering of the transcriptome. However, differences in experimental methods and computational analyses make it challenging to compare data across experiments. Here we present scmap (; web version at, a method for projecting cells from an scRNA-seq data set onto cell types or individual cells from other experiments.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Gene Expression Profiling / methods*
  • Gene Expression Regulation / physiology*
  • Single-Cell Analysis*
  • Software*
  • Transcriptome