\HeaderA{alleleSummary}{Summary of allele information}{alleleSummary}
\keyword{misc}{alleleSummary}
\begin{Description}\relax
Summary of allele information.
\end{Description}
\begin{Usage}
\begin{verbatim}
alleleSummary(object, 
              by = NULL, 
              confidence = 0.95, 
              alpha = 1 - confidence, 
              show = TRUE, 
              verbose = FALSE, 
              includeOverall = FALSE, 
              omitRepeats = TRUE, 
              ...)
\end{verbatim}
\end{Usage}
\begin{Arguments}
\begin{ldescription}
\item[\code{object}] geneSet object  
\item[\code{by}] optional column name, by which the summary is
desired. Default is NULL.  
\item[\code{confidence}] confidence intervals of Genotype frequencies within
each marker (default is 95\%) 
\item[\code{alpha}] Type -1 error rate = (1- confidence)
\item[\code{show}] No longer used  
\item[\code{verbose}] Logical value (TRUE/FALSE), showing whether every 50th
marker should be printed, default = FALSE 
\item[\code{includeOverall}] logical value (TRUE/FALSE) indicating whether
overall summary is also needed, default = FALSE  
\item[\code{omitRepeats}] logical value (TRUE/FALSE) indicating whether
Gene name and marker name should be printed repeatedly for each
Genotype, default = TRUE 
\item[\code{...}] Optional arguments
\end{ldescription}
\end{Arguments}
\begin{Author}\relax
Nitin Jain \email{nitin.jain@pfizer.com}
\end{Author}
\begin{Examples}
\begin{ExampleCode}

library(GeneticsBase)
data(CAMP)

temp <- alleleSummary(CAMP)

print(temp) # display
txt(temp, filename="alleleSummary.txt")   # txt file
html(temp, filename="alleleSummary.html") # html file
latex(temp, filename="alleleSummary.tex") # latex file

\end{ExampleCode}
\end{Examples}

