\HeaderA{DEDS-class}{DEDS Result List - class}{DEDS.Rdash.class}
\aliasA{DEDS}{DEDS-class}{DEDS}
\keyword{classes}{DEDS-class}
\keyword{data}{DEDS-class}
\begin{Description}\relax
A simple list-based class to store DEDS results.\code{DEDS} objects
are usually created  by functions \code{\LinkA{deds.pval}{deds.pval}},
\code{\LinkA{deds.stat}{deds.stat}} and \code{\LinkA{deds.stat.linkC}{deds.stat.linkC}}.
\end{Description}
\begin{Section}{Slots/List Components}
\code{DEDS} objects can be created by \code{new("DEDS",deds)} where
\code{deds} is a list. This class contains no slots, but objects
should contain the following list components:
\Tabular{ll}{
\code{E}: & A numeric vector of the most extreme point in the direction
of differential expression. \\
\code{p}: & A numeric vector of q- or adjusted p-values.  \\
\code{geneOrder}:  & An integer vector giving the index of the top genes
in terms of differential expression. \\
\code{stats}: & A matrix of p values or statistics. \\
\code{options}: & A character vector of options used in the test.
}
\end{Section}
\begin{Section}{Methods}
This class inherits directly from class \code{list}, so any operation
appropriate for lists will work on objects of this class. In addition,
Other functions which operate on \code{DEDS} objects include
\code{\LinkA{pairs}{pairs}} and \code{\LinkA{hist}{hist}}.
\end{Section}
\begin{Author}\relax
Yuanyuan Xiao, \email{yxiao@itsa.ucsf.edu}, \\
Jean Yee Hwa Yang, \email{jean@biostat.ucsf.edu}.
\end{Author}
\begin{SeeAlso}\relax
\code{\LinkA{deds.pval}{deds.pval}}, \code{\LinkA{deds.stat}{deds.stat}},
\code{\LinkA{deds.stat.linkC}{deds.stat.linkC}}
\end{SeeAlso}

