Journal article

Splatter: simulation of single-cell RNA sequencing data

Luke Zappia, Belinda Phipson, Alicia Oshlack

GENOME BIOLOGY | BIOMED CENTRAL LTD | Published : 2017

Abstract

As single-cell RNA sequencing (scRNA-seq) technologies have rapidly developed, so have analysis methods. Many methods have been tested, developed, and validated using simulated datasets. Unfortunately, current simulations are often poorly documented, their similarity to real data is not demonstrated, or reproducible code is not available. Here, we present the Splatter Bioconductor package for simple, reproducible, and well-documented simulation of scRNA-seq data. Splatter provides an interface to multiple simulation methods including Splat, our own simulation, based on a gamma-Poisson distribution. Splat can simulate single populations of cells, populations with multiple cell types, or diffe..

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Grants

Awarded by National Health and Medical Research Council Career Development Fellowship


Funding Acknowledgements

Luke Zappia is supported by an Australian Government Research Training Program (RTP) Scholarship. Alicia Oshlack is supported through a National Health and Medical Research Council Career Development Fellowship APP1126157. MCRI is supported by the Victorian Government's Operational Infrastructure Support Program.