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    Splatter: simulation of single-cell RNA sequencing data

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    Author
    Zappia, L; Phipson, B; Oshlack, A
    Date
    2017-09-12
    Source Title
    Genome Biology
    Publisher
    BIOMED CENTRAL LTD
    University of Melbourne Author/s
    Oshlack, Alicia; Phipson, Belinda; Zappia, Luke
    Affiliation
    School of Physics
    Paediatrics (RCH)
    Metadata
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    Document Type
    Journal Article
    Citations
    Zappia, L., Phipson, B. & Oshlack, A. (2017). Splatter: simulation of single-cell RNA sequencing data. GENOME BIOLOGY, 18 (1), https://doi.org/10.1186/s13059-017-1305-0.
    Access Status
    Open Access
    URI
    http://hdl.handle.net/11343/257114
    DOI
    10.1186/s13059-017-1305-0
    NHMRC Grant code
    NHMRC/1126157
    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 differentiation paths.

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