BASH: a tool for managing BeadArray spatial artefacts
Bioinformatics, 2008•academic.oup.com
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 …
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 …
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
Contact: andy.lynch@cancer.org.uk
Supplementary information: Additional information and a vignette are included in the beadarray package.
Oxford University Press