Table 2.

Tools for scRNA-seq data analysis

Challenge	Method	References
Multiple biases	"Seurat" is an R package designed for quality control, analysis, and exploration of scRNA-seq data	[54, 57]
	BISCUIT provides the graphical algorithm and imputes dropouts, improving both clustering and normalization and reducing the technical biases from biological signals	[58]
Dimension	tSNE, PhenoGraph and ZIFA are used for high dimensional data. UMAP and SNN project the data into lower dimensions	[59–64]
	"Harmony" is an efficient batch algorithm method to integrate multiple datasets and requires fewer computational resources	[65]