\name{snprmaAffy}
 \alias{snprmaAffy}
 \title{Quantile normalize intensities for SNPs}
 \description{Quantile normalize intensities for SNPs to a HapMap target
   reference distribution}
 \usage{
 snprmaAffy(cnSet, mixtureSampleSize = 10^5, eps = 0.1, seed = 1, verbose = TRUE)
 }
 
 \arguments{
   \item{cnSet}{Object of class \code{CNSet}}
   \item{mixtureSampleSize}{Sample size to be use when fitting the
   mixture model. }
   \item{eps}{Stop criteria.}
   \item{seed}{Seed to be used when sampling. }
   \item{verbose}{Logical.}
 }
 
 \value{
   Returns nothing.  Normalized intensities are written to files.
 }
 \author{
 R.Scharpf
 }
 
 \seealso{
   \code{\link{snprma}}
 }
 % Add one or more standard keywords, see file 'KEYWORDS' in the
 % R documentation directory.
 \keyword{robust}