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ascend: R package for analysis of single cell RNA-seq data

By Anne Senabouth, Samuel W. Lukowski, Jose Alquicira Hernandez, Stacey Andersen, Xin Mei, Quan Nguyen, Joseph E Powell

Posted 23 Oct 2017
bioRxiv DOI: 10.1101/207704 (published DOI: 10.1093/gigascience/giz087)

Abstract Summary: ascend is an R package comprised of fast, streamlined analysis functions optimized to address the statistical challenges of single cell RNA-seq. The package incorporates novel and established methods to provide a flexible framework to perform filtering, quality control, normalization, dimension reduction, clustering, differential expression and a wide-range of plotting. ascend is designed to work with scRNA-seq data generated by any high-throughput platform, and includes functions to convert data objects between software packages. Availability: The R package and associated vignettes are freely available at https://github.com/IMB-Computational-Genomics-Lab/ascend. Contact: joseph.powell@uq.edu.au Supplementary information: An example dataset is available at ArrayExpress, accession number E-MTAB-6108

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