DBPDInfo-class          Class "DBPDInfo"
ExonFeatureSet-class    "FeatureSet" Extensions
FeatureSet-class        Classes for Feature level data
PDInfo-class            Classes "PDInfo" and "SNPPDInfo"
SnpCallSet-class        "SnpSet" Extensions
SnpQSet-class           Class "SnpQSet"
antisenseThetaA         Summarized Measures for SNP
basecontent             Sequence Base Contents
boxplot                 Boxplot
calls                   Accessors for SnpCallSet
chromosome              Accessor for chromosome information
cnConfidence            Accessors for SnpCopyNumberSet objects
crlmm                   Genotype Calls
featureIndex            Indexes for features in the expression matrix
genomeBuild             Genome Build Information
getA                    Compute average log-intensities / log-ratios
getChrXIndex            Internals
getPlatformDesign       Retrieve Platform Design object
hist                    Density estimate
image                   Display a Color Image
kind                    Array type
list.celfiles           List CEL/XYS files
listFeatureFields       List fields in the (pm/mm)feature table
manufacturer            Accessor to the manufacturer slot.
mm                      Accessor to the PM/MM matrices
mmSequence              Probe Sequeces
mmindex                 Extract PM or MM indexes
nProbes                 Count number of probes
ncol                    ~~function to do ... ~~
oligo-package           The oligo package: a tool for analysis of
                        oligonucleotide arrays
platform                Retrieve/replace platform information
platformDesign-class    Class "platformDesign"
plotDensity             Plot density of intensities.
pmAllele                Access the allele information for PM probes.
pmPosition              Accessor to position information
pmStrand                Accessor to the strand information
probeNames              Accessor to feature names
read.celfiles           Parser to CEL files
read.xysfiles           Parser to XYS files
rma                     RMA
sequenceDesignMatrix    Create design matrix for sequences
snprma                  Preprocessing SNP Arrays
