\HeaderA{qc.get.alpha1}{Get or set the alpha values for the current QC environment}{qc.get.alpha1}
\aliasA{qc.get.alpha2}{qc.get.alpha1}{qc.get.alpha2}
\aliasA{qc.get.tau}{qc.get.alpha1}{qc.get.tau}
\aliasA{qc.set.alpha1}{qc.get.alpha1}{qc.set.alpha1}
\aliasA{qc.set.alpha2}{qc.get.alpha1}{qc.set.alpha2}
\keyword{misc}{qc.get.alpha1}
\begin{Description}\relax
Alpha1 and Alpha2 are used to define the P/M/A thresholds for
detection calling algorithm see -
\code{\LinkA{detection.p.val}{detection.p.val}}. These are array dependent, these
functions set or get their values.
Tau is a constant parameter within the calculation and is not array
specific.
\end{Description}
\begin{Usage}
\begin{verbatim}
 qc.get.alpha1()
 qc.set.alpha1(value)
 qc.get.alpha2()
 qc.set.alpha2(value)
 qc.get.tau()
\end{verbatim}
\end{Usage}
\begin{Arguments}
\begin{ldescription}
\item[\code{value}] A double representing the alpha1 or alpha2 threshold for
defining detection calls. See
\code{\LinkA{detection.p.val}{detection.p.val}} for more details.
\end{ldescription}
\end{Arguments}
\begin{Value}
\code{qc.set.alpha1} and \code{qc.set.alpha2} return
nothing. \code{qc.get.alpha1} and \code{qc.get.alpha2} return a double.
\end{Value}
\begin{Note}\relax
\end{Note}
\begin{Author}\relax
Crispin J Miller
\end{Author}
\begin{References}\relax
http://bioinformatics.picr.man.ac.uk/
\end{References}
\begin{SeeAlso}\relax
\code{\LinkA{detection.p.val}{detection.p.val}}
\end{SeeAlso}
\begin{Examples}
\begin{ExampleCode}
  setQCEnvironment("hgu133plus2cdf")
  qc.get.alpha1()
  qc.get.alpha2()
  qc.set.alpha1(0.05)
  qc.get.alpha1()
  qc.set.alpha2(0.05)
  qc.get.alpha2()
\end{ExampleCode}
\end{Examples}