BASH: a tool for managing BeadArray spatial artefacts

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    Author
    Cairns, JM; Dunning, MJ; Ritchie, ME; Russell, R; Lynch, AG
    Date
    2008-12-15
    Source Title
    Bioinformatics
    Publisher
    OXFORD UNIV PRESS
    University of Melbourne Author/s
    Ritchie, Matthew
    Affiliation
    Medical Biology (W.E.H.I.)
    Metadata
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    Document Type
    Journal Article
    Citations
    Cairns, J. M., Dunning, M. J., Ritchie, M. E., Russell, R. & Lynch, A. G. (2008). BASH: a tool for managing BeadArray spatial artefacts. BIOINFORMATICS, 24 (24), pp.2921-2922. https://doi.org/10.1093/bioinformatics/btn557.
    Access Status
    Open Access
    URI
    http://hdl.handle.net/11343/256768
    DOI
    10.1093/bioinformatics/btn557
    Abstract
    SUMMARY: With their many replicates and their random layouts, Illumina BeadArrays provide greater scope fordetecting spatial artefacts than do other microarray technologies. They are also robust to artefact exclusion, yet there is a lack of tools that can perform these tasks for Illumina. We present BASH, a tool for this purpose. BASH adopts the concepts of Harshlight, but implements them in a manner that utilizes the unique characteristics of the Illumina technology. Using bead-level data, spatial artefacts of various kinds can thus be identified and excluded from further analyses. AVAILABILITY: The beadarray Bioconductor package (version 1.10 onwards), www.bioconductor.org

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