speeds up the read substantially.  This package is supporting
the Aroma framework and should not be used elsewhere.)

Suggests: R.utils (>= 1.26.2), R.huge (>= 0.5.0), affxparser
Description: THIS PACKAGE HAS BEEN DEPRECATED. (The (in-house) APD file format was initially developed to store Affymetrix probe-level data, e.g. normalized CEL intensities.  Chip types can be added to APD file and similar to methods in the affxparser package, this package provides methods to read APDs organized by units (probesets).  In addition, the probe elements can be arranged optimally such that the elements are guaranteed to be read in order when, for instance, data is read unit by unit.  This speeds up the read substantially.  This package is supporting the Aroma framework and should not be used elsewhere.)

Title: A Probe-Level Data File Format Used by 'aroma.affymetrix'
Description: DEPRECATED. Do not start building new projects based on this package. (The (in-house) APD file format was initially developed to store Affymetrix probe-level data, e.g. normalized CEL intensities.  Chip types can be added to APD file and similar to methods in the affxparser package, this package provides methods to read APDs organized by units (probesets).  In addition, the probe elements can be arranged optimally such that the elements are guaranteed to be read in order when, for instance, data is read unit by unit.  This speeds up the read substantially.  This package is supporting the Aroma framework and should not be used elsewhere.)

Title: Copy-number analysis of large microarray data sets
Author: Henrik Bengtsson and Pierre Neuvial
Description: Package for analysis of copy-number estimates obtained
biocViews: ProprietaryPlatforms, aCGH, CopyNumberVariants, SNP,

Imports: matrixStats (>= 0.2.2), R.oo (>= 1.8.0)

Imports: matrixStats (>= 0.2.2), R.oo (>= 1.8.1)

Imports: matrixStats (>= 0.3.0), R.oo (>= 1.8.3)
Description: Package for analysis of copy-number estimates obtained from various platforms.

Imports: matrixStats (>= 0.4.0), R.oo (>= 1.8.3)