homoData-class {annotate}R Documentation

Class "homoData"

Description

A class to present data for HomologGene data of a matching sequence

Objects from the Class

Objects can be created by calls of the form new("homoData", ...).

Slots

homoOrg:
Object of class "character" the scientific name of the organism of interest
homoLL:
Object of class "numeric" the LocusLink id of the gene of interest
homoType:
Object of class "character" the type of similarity. Valid values include B - a recipiprocal best best between 3 or more organisms, b - a reciprocal best match, and c - a curated homology relationship
homoPS:
Object of class "numeric" percent similarity value
homoURL:
Object of class "character" the URL for curated homology relationship
homoACC:
Object of class "character" the accession number
homoHGID:
Object of class "numeric" the internal HomologGeneID

Methods

homoPS
signature(object = "homoData"): the get function for slot homoPS
homoLL
signature(object = "homoData"): the get function for slot homoLL
homoOrg
signature(object = "homoData"): the get function for slot homoOrg
homoType
signature(object = "homoData"): the get function for slot homoType
homoURL
signature(object = "homoData"): the get function for slot homoURL
homoACC
signature(object = "homoData"): the get function for slot homoACC
homoHGID
signature(object = "homoHGID"): the get function for slot homoHGID

Note

This function is part of the Bioconductor project at Dana-Farber Cancer Institute to provide Bioinfomatics functionalities throug R

Author(s)

Jianhua Zhang

References

ftp://ftp.ncbi.nih.gov/pub/HomoloGene/README

Examples

    new("homoData", homoPS = 82.3, homoLL = 2324853, homoOrg = "Homo sapins",
homoType = "B", homoURL = "", homoHGID = 12345)

[Package annotate version 1.8.0 Index]