\HeaderA{agGO}{Map between Manufacturer IDs and Gene Ontology (GO)}{agGO}
\keyword{datasets}{agGO}
\begin{Description}\relax
agGO is an R environment that provides mappings between
manufacturer ids and GO ids.
\end{Description}
\begin{Details}\relax
Each manufacturer id is mapped to a named vector of GO ids. The name
associated with each GO id corresponds to the evidence code for that
GO id. Evidence codes currently in use include:

IMP: inferred from mutant phenotype  

IGI: inferred from genetic interaction

IPI: inferred from physical interaction  

ISS: inferred from sequence similarity 

IDA: inferred from direct assay  

IEP: inferred from expression pattern  

IEA: inferred from electronic annotation  

TAS: traceable author statement  

NAS: non-traceable author statement  

ND: no biological data available  

IC: inferred by curator

Mappings between probe ids and GO information were obtained through
their mappings to Entrez Gene ids. NAs are assigned to probe identifiers
that can not be mapped to any Gene Ontology information. Mappings
between Gene Ontology ids an Gene Ontology terms and other information
are available in a separate data package named GO.

Mappings were based on data provided by:

Entrez Gene:\url{http://gopher5/compbio/annotationSourceData/ftp.ncbi.nlm.nih.gov/gene/DATA/}. Built: Source data downloaded from Entrez Gene on Tue May 17 18:26:20 2005

Gene Ontology:\url{http://gopher5/compbio/annotationSourceData/www.godatabase.org/dev/database/archive/latest//go_200504-termdb.rdf-xml.gz}. Built: 200504

Package built Tue May 17 18:29:49 2005
\end{Details}
\begin{Examples}
\begin{ExampleCode}
    # Convert to a list
    xx <- as.list(agGO)
    # Remove all the NAs
    xx <- xx[!is.na(xx)]
    if(length(xx) > 0){
            # Try the firest one
            got <- xx[[1]]           
            got[[1]][["GOID"]]
            got[[1]][["Ontology"]]
            got[[1]][["Evidence"]]

    }
\end{ExampleCode}
\end{Examples}

