beadarrayMSV (version 1.0.2)

AlleleSetIllumina-class: Class to Contain Objects Describing High-Throughput Illumina BeadArrays

Description

Container for high-throughput assays and experimental metadata. "AlleleSetIllumina" class is derived from "eSet" and requires matrices intensity, theta, and SE as assay data members

Objects from the Class

new("AlleleSetIllumina", ...) new("AlleleSetIllumina", phenoData = [AnnotatedDataFrame], featureData = [AnnotatedDataFrame], experimentData = [MIAME], annotation = [character], intensity = [matrix], theta = [matrix], SE = [matrix], ...) Most arguments are optional, however usually the arguments to new include at least intensity, theta, and SE. Note that several methods requires additional assayData, phenoData, or featureData entries

"AlleleSetIllumina" instances are usually created from "BeadSetIllumina" instances using createAlleleSet or from text-files using createAlleleSetFromFiles

Extends

Class "eSet", directly. Class "VersionedBiobase", by class "eSet", distance 2. Class "Versioned", by class "eSet", distance 3.

References

L. Gidskehaug, M. Kent, B. Hayes, and S. Lien. Genotype calling and mapping of multisite variants using an Atlantic salmon iSelect SNP-array. Submitted

See Also

createAlleleSet, callGenotypes, preprocessBeadSet, BeadSetIllumina, MultiSet

Examples

showClass("AlleleSetIllumina")