Harmony: Fast, sensitive and accurate integration of single-cell data with Harmony

MNN: Batch effects in single-cell RNA-sequencing data are corrected by matching mutual nearest neighbors | Nature Biotechnology|

ComBAT: ComBat-seq: batch effect adjustment for RNA-seq count data - PMC

scVI: Deep generative modeling for single-cell transcriptomics | Nature Methods

https://academic.oup.com/bib/article/26/3/bbaf247/8178400

• Benchmark review/comparison of different methods
• Additional Papers for getting ideas