A benchmark of batch-effect correction methods for single-cell RNA sequencing data.

Hoa Thi Nhu TranKok Siong AngMarion ChevrierXiaomeng ZhangNicole Yee Shin LeeMichelle GohJinmiao Chen

Published in: Genome biology (2020)

Based on our results, Harmony, LIGER, and Seurat 3 are the recommended methods for batch integration. Due to its significantly shorter runtime, Harmony is recommended as the first method to try, with the other methods as viable alternatives.

Keyphrases

single cell
rna seq
high throughput
electronic health record
big data
machine learning
artificial intelligence