Valid Post-clustering Differential Analysis for Single-Cell RNA-Seq


Single-cell computational pipelines involve two critical steps: organizing cells (clustering) and identifying the markers driving this organization (differential expression analysis). State-of-the-art pipelines perform differential analysis after clustering on the same dataset. Stanford University researchers observe that because clustering “forces” separation, reusing the same dataset generates artificially low p values and hence false discoveries. They introduce a valid post-clustering differential analysis framework, which corrects for this problem.

Availability – The developers provide software at

Zhang JM, Kamath GM, Tse DN. (2019) Valid Post-clustering Differential Analysis for Single-Cell RNA-Seq. Cell Systems [Epub ahead of print]. [abstract]

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