racExSet-class {GGBase}R Documentation

Class "racExSet" – container for genotype data in 'rare allele count' form and expression data. Approaching obsolescence, see smlSet for more efficient representation.

Description

Class "racExSet" – container for genotype data in 'rare allele count' form and expression data. Approaching obsolescence, see smlSet for more efficient representation.

Objects from the Class

Objects can be created by calls of the form new("racExSet", phenoData, experimentData, annotation, exprs, racs, rarebase, SNPalleles).

Slots

racAssays:
Object of class "AssayData" S x N matrix holding rare allele counts
rarebase:
Object of class "character" nucleotide code for rare allele of each SNP in the population assayed
SNPalleles:
Object of class "character" nucleotide code for polymorphism
assayData:
Object of class "AssayData" expression data container
phenoData:
Object of class "AnnotatedDataFrame" sample data container
featureData:
Object of class "AnnotatedDataFrame" expression feature metadata container
experimentData:
Object of class "MIAME" experiment level metadata
annotation:
Object of class "character" Bioconductor annotation package name
.__classVersion__:
Object of class "Versions" class version metadata

Extends

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

Methods

initialize
signature(.Object = "racExSet"): ...

Author(s)

VJ Carey <stvjc@channing.harvard.edu>

See Also

murine examples in GGtools continue to use this structure

Examples

showClass("racExSet")

[Package GGBase version 2.0.4 Index]