Residualplot            plot the residuals against the number of
                        quantified peptides/PSMs.
VarianceBoxplot         generate a boxplot of the variance
VarianceScatterplot     generate a scatter plot of the variance
equalMedianNormalization
                        normalize to have equal medians in all samples
farmsSummary            summarize peptide/PSM intensity into protein
                        level relative abundance by factor analysis
medianSummary           summarize peptide/PSM intensity into protein
                        level relative abundance estimate by taking the
                        median
medianSweeping          summarize peptide/PSM intensity into protein
                        level relative abundance estimate by median
                        sweeping method
medpolishSummary        summarize peptide/PSM intensity into protein
                        level relative abundance estimate by Turkey
                        median polish procedure
outputResult            output the DEqMS analysis results in a data
                        frame
peptideProfilePlot      plot log2 intensities of all peptides for one
                        gene in different samples
spectraCounteBayes      Peptide/Spectra Count Based Empirical Bayes
                        Statistics for Differential Expression
