\HeaderA{agPATH}{Mappings between probe identifiers and KEGG pathway identifiers}{agPATH}
\keyword{datasets}{agPATH}
\begin{Description}\relax
KEGG (Kyoto Encyclopedia of Genes and Genomes) maintains pathway data
for various organisms. agPATH maps probe identifiers to the
identifiers used by KEGG for pathways in which the genes represented
by the probe identifiers are involved
\end{Description}
\begin{Details}\relax
Each KEGG pathway has a name and identifier. Pathway name for a given pathway
identifier can be obtained using the KEGG data package that can either be
built using AnnBuilder or downloaded from Bioconductor
\url{http://www.bioconductor.org}.

Graphic presentations of pathways are searchable at
url{http://www.genome.ad.jp/kegg/pathway.html} by using pathway identifiers as
keys.   

Mappings were based on data provided by: KEGG GENOME ( ftp://ftp.genome.jp/pub/kegg/genomes ) on 2008-Apr1
\end{Details}
\begin{References}\relax
\url{http://www.genome.ad.jp/kegg/}
\end{References}
\begin{Examples}
\begin{ExampleCode}
        x <- agPATH
        # Get the probe identifiers that are mapped to a KEGG pathway ID
        mapped_probes <- mappedkeys(x)
        # Convert to a list
        xx <- as.list(x[mapped_probes])
        if(length(xx) > 0) {
          # Get the PATH for the first five probes
          xx[1:5]
          # Get the first one
          xx[[1]]
        }
\end{ExampleCode}
\end{Examples}

