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 \name{AffymetrixDataTestFiles-package}
\alias{AffymetrixDataTestFiles-package}
\alias{AffymetrixDataTestFiles}
\docType{package}

\title{Package AffymetrixDataTestFiles}


 \description{
   This package contains annotation data files and sample
data files of Affymetrix file formats.  The files originate from the
Affymetrix' Fusion SDK distribution.
   This package contains only data files.
 }

 \section{Requirements}{
   None.
 }

 \section{Installation}{
   To install this package, see \url{http://www.bioconductor.org/}.
 }

 \section{Location of data files}{
   Data files are located in two different directory tree depending if
   they are annotation data files or sample data files.
   The roots of these two directory structures are:
   \preformatted{
     system.file("annotationData", package="AffymetrixDataTestFiles")
     system.file("rawData", package="AffymetrixDataTestFiles")
   }
   Where applicable, ASCII, XDA, and Calvin files are separated in
   different subdirectories for easy access to either type.

   Directory structure:
 \preformatted{
   annotationData/
    chipTypes/
      HG-Focus/
        +-HG-Focus.PSI
        3.ASCII/
          +-HG-Focus.CDF
      Mapping10K_Xba131/
        1.XDA/
          +-Mapping10K_Xba131.CDF
        3.ASCII/
          +-Mapping10K_Xba131.CDF
      Test3/
        +-Test3.PSI
        1.XDA/
          +-Test3.CDF
        3.ASCII/
          +-Test3.CDF
  rawData/
    FusionSDK_HG-Focus/
      HG-Focus/
        +-HG-Focus-1-121502.EXP
        +-HG-Focus-2-121502.EXP
        1.XDA/
          +-HG-Focus-1-121502.CHP
          +-HG-Focus-2-121502.CHP
        2.Calvin/
          +-HG-Focus-1-121502.CEL
          +-HG-Focus-1-121502.CHP
          +-HG-Focus-2-121502.CEL
          +-HG-Focus-2-121502.CHP
        3.ASCII/
          +-HG-Focus-1-121502.CEL
          +-HG-Focus-2-121502.CEL
    FusionSDK_HG-U133A/
      HG-U133A/
        2.Calvin/
          +-ethan1-1.CEL
    FusionSDK_Test3/
      Test3/
        +-Test3-1-121502.EXP
        +-Test3-2-121502.EXP
        1.XDA/
          +-Test3-1-121502.CHP
          +-Test3-2-121502.CHP
        2.Calvin/
          +-Test3-1-121502.CEL
          +-Test3-1-121502.CHP
          +-Test3-2-121502.CEL
          +-Test3-2-121502.CHP
        3.ASCII/
          +-Test3-1-121502.CEL
          +-Test3-2-121502.CEL
 }
 }

 \author{
  Adopted from [1] by
   Henrik Bengtsson, \email{hb@stat.berkeley.edu},
   James Bullard, \email{bullard@stat.berkeley.edu} and
   Kasper Daniel Hansen, \email{khansen@stat.berkeley.edu}.
 }

 \section{License}{
   LGPL version 2.1 according to [1].
 }

 \references{
   [1] Affymetrix Inc, Fusion Software Developers Kit (SDK), 2007.
       \url{http://www.affymetrix.com/support/developer/fusion/}\cr
 }
\keyword{package}