base.stacking.thermodynamics
                        Base-stacking thermodynamic parameters
calcGC                  Calculate GC percent
calcGC-methods          Calculate GC percent (methods)
calcPrototype           Calculate prototype
calcPrototype-methods   Calculate prototype (methods)
calcTm                  Calculate Tm
calcTm-methods          Calculate Tm (methods)
combineData             Combine data
combineData-methods     Combine data (methods)
createWiggle            Create wiggle track
createWiggle-methods    Create wiggle track (methods)
exprs2                  Retrieve microarray data (for signal channel 2)
                        from ExpressionSets
exprs2-methods          Retrieve microarray data (for signal channel 2)
                        from ExpressionSets (methods)
fuzzyMatches            Fuzzy matching
fuzzyMatches-methods    Fuzzy matching (methods)
getFeatures             Get features (methods)
getFeatures-methods     Get features (methods)
getSamples              Get samples
getSamples-methods      Get samples (methods)
plotBins                Plot bins
plotBins-methods        Plot bins (methods)
plotChip                Plot chip image
plotChip-methods        Plot chip image (methods)
plotFeature             Plot feature versus two-color intensity
plotFeature-methods     Plot feature versus two-color intensity
                        (methods)
plotPairs               Plot tree-pairs
plotPairs-methods       Plot tree-pairs (methods)
quantileNormalize       Quantile normalization
quantileNormalize-methods
                        Quantile normalization (methods)
readDesign              Read NimbleGen design files
readDesign-methods      Read NimbleGen design files (methods)
readPairs               Read Nimblegen .pair files
readPairs-methods       Read Nimblegen .pair files (methods)
readSampleKey           Read sample key
