annotateVEGAS: Annotate a VEGAS genelist

In alexploner/VEGAStools: Basic manipulations of VEGAS gene lists

Description

Adds gene name and Entrez identifier for genes in a VEGAS gene list

Usage

annotateVEGAS(x, anndb)

Arguments

x	A gene list of class VEGAS
anndb	An annotation database for an organism of class OrgDb-class, available from Bioconductor. The default is org.Hs.eg.db.

Details

This only works if an annotation database for the organism under study is locally available. Also, current matching of gene names does not account for aliases and does not work terribly well (FIXME).

Value

If a valid annotation database is specified, an object of class annVEGAS which inherits from class VEGAS and has two extra columns (Description and Entrez). If no valid annotation database is specified or the default database is not available, the original VEGAS object and a warning are returned.

alexploner/VEGAStools documentation built on May 10, 2019, 8:57 a.m.