TABLE 1.

Selected scRNAseq data integration methods.

Tool	Input	Strategy	Reference
ComBat-seq	raw counts	linear model	Zhang et al. (2020)
limma	logcounts	linear model	Leek et al. (2012)
MNN	logcounts	mutual nearest neighbors (gene expression space)	Haghverdi et al. (2018)
scMerge	logcounts	stably expressed genes + RUV model	Lin et al. (2019)
Seurat	logcounts	canonical correlation analysis + mutual nearest neighbors	Stuart et al. (2019)
Scanorama	raw counts	mutual nearest neighbors (reduced space) + panoraming stiching	Hie et al. (2019)