\HeaderA{fc2Cond}{Select probes based on fold change calculation}{fc2Cond}
\keyword{documentation}{fc2Cond}
\keyword{utilities}{fc2Cond}
\begin{Description}\relax
Takes a Codelink object and calculate fold changes (M) between two conditions 
(samples). Then select genes based on those who pass the passed cutoff.
\end{Description}
\begin{Usage}
\begin{verbatim}
  fc2Cond(object, cond1=NULL, cond2=NULL, fc=1.0, verbose=FALSE)
\end{verbatim}
\end{Usage}
\begin{Arguments}
\begin{ldescription}
\item[\code{object}] an object of class "Codelink".
\item[\code{cond1}] numeric or character; First condition to compute M.
\item[\code{cond2}] numeric or character; Second condition to compute M.
\item[\code{fc}] value of the fold change cutoff
\item[\code{verbose}] logical; if some information is printed on the console.
\end{ldescription}
\end{Arguments}
\begin{Details}\relax
Conditions can be passed as characters or as numeric index from the sample 
slot. The intensities are internally transformed to log2 if needed. The M value 
is computed as:

M = cond1 - cond2
\end{Details}
\begin{Value}
A logical vector indicating which genes pass the cutoff
\end{Value}
\begin{Author}\relax
Diego Diez
\end{Author}

