HumRef8                 A mapping file of Illumina Probe IDs to control
                        type
HumWG6                  A mapping file of Illumina Probe IDs to control
                        type
addManifest             Add annotation data
batchAnalysis           Batch Analysis
beadAnalysis            Automated Bead Analysis
beadData-class          Class "beadData"
beadQC-class            Class "beadQC"
boxplotArrays           Plot a series of QC boxplots
boxplotQC               Plot a subset of QC boxplots
clusterplot             Plots a hierarchical cluster plot
cutoff                  Determine the number of transcripts that pass a
                        fold change cut-off criteria
detExprs                Accessor Methods for beadData class
detectionCalls          Get percentage of genes called present
dotplotArrays           Plots a series of dotplots for BeadChip QC data
dotplotQC               Plot a subset of QC dotplots
examplebeadData         An example of a beadData object
examplebeadQC           An example of a beadQC object
extract                 Extract columns from a BeadStudio file
filterData              Filter data based on detection score
getAnnot                Get annotation information
getArrayStats           Get QC values for a BeadChip
getDet                  Get detection scores for a given gene(s)
getExprs                Get expression intensities for a given gene(s)
getID                   Get expression data for a given gene ID
getQC                   Generate QC data
getQC2                  Generate QC data
htmloutput              Produce an html summary report
multiDensity            Plot multiple density functions
multiecdf               Plot multiple estimated cumulative density
                        function graphs
normalise               Normalise a beadData object
pc                      Principal component plot
plotSamples             QC sample plots
readBead                Read BeadStudio expression data file
readManifest            Read annotation data
readQC                  Reads log file data
scatterPlot             Pairwise scattergraph of data
write.beadData          Write beadData to a file
writeQC                 Writes QC data to a log file
