Are there any tools that will simulate 3' end tag-based single-cell RNA-seq reads? For example, Drop-seq, 10X Chromium, CEL-seq?

There are tools that simulate scRNA-seq gene count data (e.g. Splatter), but I can't find anything that will simulate reads or even counts at the transcript level.


1 Answer 1


Looks like a couple options have become available:

Minnow: article code

scReadSim: preprint code


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