TrIdentClassifier       Classify contigs as Prophage-like, Sloping,
                        HighCovNoPattern, and NoPattern
plotTrIdentResults      Plot read coverage graphs of contigs classified
                        as Prophage-like, Sloping, or HighCovNoPattern
specializedTransductionID
                        Identify potential specialized transduction
                        events on contigs classified as Prophage-like
