\name{AffySNPPDInfoPkgSeed2-class}
\Rdversion{1.1}
\docType{class}
\alias{AffySNPPDInfoPkgSeed2-class}
%% \alias{chipName,AffySNPPDInfoPkgSeed2-method}

\title{Class "AffySNPPDInfoPkgSeed2"}
\description{A generic annotation package builder for Affymetrix SNP
  arrays. This is a simplified version of the annotation package and
  \code{crlmm} will *not* work for them.}
\section{Objects from the Class}{
Objects can be created by calls of the form \code{new("AffySNPPDInfoPkgSeed2", cdfFile, csvAnnoFile, csvSeqFile, ...)}.
}
\section{Slots}{
  \describe{
    \item{\code{cdfFile}:}{CDF file for the design.}
    \item{\code{csvAnnoFile}:}{Affymetrix CSV Annotation file.}
    \item{\code{csvSeqFile}:}{Affymetrix Probe Sequence file.}

    \item{\code{chipName}:}{Name of the chip or platform}
    \item{\code{manufacturer}:}{chip/platform manufacturer}
    \item{\code{url}:}{chip URL}
    \item{\code{genomebuild}:}{The genome build this platform is based
      upon.}
    \item{\code{organism}:}{ organism for chip. }
    \item{\code{species}:}{ species for chip. }  
    \item{\code{version}:}{A character vector giving the version
      number of the package.}
    \item{\code{license}:}{The license of the package}
    \item{\code{author}:}{Author of the package}
    \item{\code{email}:}{An email address to use in the Maintainer field}
    \item{\code{biocViews}:}{Character data for the biocViews field of
    the DESCRIPTION file}
  }
}
\section{Methods}{
  \describe{
    \item{chipName}{\code{signature(object = "AffySNPPDInfoPkgSeed2")}: ... }
  }
}

\note{
  This is a simplified annotation package. CRLMM won't work for these
  objects.

  The user may need to rename the columns or even add column names to
  the annotation and sequence files. In case problems are found, column
  names are suggested.
  }

\examples{
showClass("AffySNPPDInfoPkgSeed2")
}
\keyword{classes}