\HeaderA{GFFutils}{GFF utility functions}{GFFutils}
\aliasA{gff.extract.exon}{GFFutils}{gff.extract.exon}
\aliasA{gff.extract.exonParentFeatures}{GFFutils}{gff.extract.exonParentFeatures}
\aliasA{gff.extract.gene}{GFFutils}{gff.extract.gene}
\aliasA{gff.read}{GFFutils}{gff.read}
\keyword{utilities}{GFFutils}
\keyword{manip}{GFFutils}
\begin{Description}\relax
Some functions to read a GFF file and extract the exon
and gene information from it.
\end{Description}
\begin{Usage}
\begin{verbatim}
  gff.read(file, nrows=-1, verbose=FALSE)
  gff.extract.gene(gff)
  gff.extract.exonParentFeatures(gff)
  gff.extract.exon(gff)
\end{verbatim}
\end{Usage}
\begin{Arguments}
\begin{ldescription}
\item[\code{file}] The GFF file to read.

\item[\code{nrows}] The number of rows (GFF records) to read.

\item[\code{verbose}] If \code{TRUE} then \code{gff.read} will print the number of records
effectively read.

\item[\code{gff}] The GFF table (data frame) returned by \code{gff.read}.

\end{ldescription}
\end{Arguments}
\begin{Details}\relax
\end{Details}
\begin{Value}
\end{Value}
\begin{Author}\relax
H. Pages
\end{Author}
\begin{SeeAlso}\relax
\end{SeeAlso}
\begin{Examples}
\begin{ExampleCode}
\end{ExampleCode}
\end{Examples}

