Aaron T. L. Lun

beachmat: a Bioconductor C++ API for accessing single-cell genomics data from a variety of R matrix types

Abstract Recent advances in single-cell RNA sequencing have dramatically increased the number of cells that can be profiled in a single experiment. This provides unparalleled re...

Batch effects in single-cell RNA-sequencing data are corrected by matching mutual nearest neighbors

Large-scale single-cell RNA sequencing (scRNA-seq) data sets that are produced in different laboratories and at different times contain batch effects that may compromise the int...

EmptyDrops: distinguishing cells from empty droplets in droplet-based single-cell RNA sequencing data

Scater: pre-processing, quality control, normalization and visualization of single-cell RNA-seq data in R

Abstract Motivation Single-cell RNA sequencing (scRNA-seq) is increasingly used to study gene expression at the level of individual cells. However, preparing raw sequence data f...