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Table 1 Overview of the benchmark datasets

From: pipeComp, a general framework for the evaluation of computational pipelines, reveals performant single cell RNA-seq preprocessing tools

Dataset # features # cells Protocol Description
Koh 33922 531 SMARTer 9 FACS purified differentiation stages
Kumar 41930 246 SMARTer Mouse ESC cultured in 3 different conditions
Zhengmix4eq 10434 3994 10x Mixtures of FACS purified PBMCs
Zhengmix4uneq 11369 6498 10x Mixtures of FACS purified PBMCs
Zhengmix8eq 10600 3994 10x Mixtures of FACS purified PBMCs
mixology10x3cl 16208 902 10x Mixture of 3 cancer cell lines from CellBench
mixology10x5cl 11786 3918 10x Mixture of 5 cancer cell lines from CellBench
simMix1 3696 2500 10x-based Simulation of 10 human cell subpopulations
simMix2 8893 3000 10x-based Simulation of 9 mouse cell subpopulations
  1. # features indicates the number of features detected in at least 10 cells