Table 2 Tools for scRNA-seq data analysis
From: Advances in single-cell sequencing: insights from organ transplantation
Challenge | Method | References |
|---|---|---|
Multiple biases | "Seurat" is an R package designed for quality control, analysis, and exploration of scRNA-seq data | |
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 | |
"Harmony" is an efficient batch algorithm method to integrate multiple datasets and requires fewer computational resources | [65] |