applyttest              Utility to apply a t-test to all rows of a
                        matrix
applyttestPep           Function to apply t-test separately for all
                        peptides of each protein
buildSpectraLibPair     Build a spectra library by integrating a pair
                        of spectrum libraries
canonicalFormat         Standardise a sprectrum library data frame
checkQuality            Checking for the integration quality of two
                        libraries
cleanLib                Spectrum library cleanining
ionCorGS                Gold standard relative ion intensity
                        correlation (spearman)
medianNorm              Utility to median normalize a matrix by columns
mlr                     Function to implement mlr normalization
mlrGroup                Function to do mlr normalization for a matrix
                        group
mlrrep                  Function to do mlr normalizatiopn on a matrix
                        of replicates
outputLib               output a spectrum library into a PeakView
                        format file
plotAll                 Plot statistical plots for two libraries
plotDensities           Utility to do side by side density plots
plotErrorBarsLines      Utility for clustering plots to plot lines and
                        an overall trend
plotRIICor              Plot relative ion intensity correlation of two
                        libraries
plotRTCor               Plot for retention time correlation of two
                        libraries
plotRTResd              Plot residuals for retention time prediction of
                        two libraries
plotRelativeDensities   Plotting utility to overlay all relative
                        densities
readLibFile             Load a spectrum library into a data frame
