NewWave: a scalable R/Bioconductor package for the dimensionality reduction and batch effect removal of single-cell RNA-seq data.

ABSTRACT:

Summary

We present NewWave, a scalable R/Bioconductor package for the dimensionality reduction and batch effect removal of single-cell RNA sequencing data. To achieve scalability, NewWave uses mini-batch optimization and can work with out-of-memory data, enabling users to analyze datasets with millions of cells.

Availability and implementation

NewWave is implemented as an open-source R package available through the Bioconductor project at https://bioconductor.org/packages/NewWave/.

Supplementary information

Supplementary data are available at Bioinformatics online.

SUBMITTER: Agostinis F 

PROVIDER: S-EPMC9048694 | biostudies-literature | 2022 Apr

REPOSITORIES: biostudies-literature