applyThresholdCompartment
                        Apply thresholds to compartments
applyThresholdNeighborhood
                        Apply thresholds to neighborhood classification
calRowMean              Compute the means of replicates
calculateCoveredProtein
                        Evaluate marker protein coverage
candidateRelocatedProteins
                        Identify candidate relocated proteins
computeThresholdCompartment
                        Probability threshold for compartment
                        classification
computeThresholdNeighborhood
                        Probability threshold for neighborhood
                        classification
hcc827Ctrl              HCC827 Control Cell Line
hcc827CtrlPSMCount      Minimum PSM Count in HCC827Ctrl Cell Line.
hcc827GEF               Gefitinib treated HCC827 Cell Line
hcc827GEFClass          Gefitinib treated HCC827 Cell Line
                        Classification
hcc827GefPSMCount       Minimum PSM Count in HCC827 Gefitinib Cell
                        Line.
loadData                Load the fractionated proteomics data
markerProteins          Marker Proteins Source
markerQualityControl    Evaluate the quality of the marker proteins
mergeCls                Merge compartment and neighborhood
                        classification
mergeProbability        Merge compartment probabilities to neighborhood
                        probabilities
plotBarcode             Visualize the SubCellBarCode
plotMultipleProtein     Visualization of multiple protein localizations
replacePrediction       Replace compartment predictions to neighborhood
                        predictions
sankeyPlot              Sankey plot for condition-dependent protein
                        relocalization
sumProbability          Sum compartment test data probabilities to
                        neighborhood probabilities
svmClassification       Protein subcellular localization classification
tsneVisualization       Visualization of marker proteins by t-SNE map
