Codons                  Table of codons and encoded amino acids
ModCon                  ModCon
calculateHZEIint        Calculate HZEI integral of nucleotide sequence
calculateMaxEntScanScore
                        Calculate MaxEntScan score of a splice site
                        sequence
cds                     CDS of firefly luciferase
changeSequenceHZEI      Adjust HZEI integral of nucleotide sequence
createCodonMatrix       Create codon matrix from coding nucleotide
                        sequence
createFilialSequencePopulation
                        Generate new sequences by recombination
decreaseGTsiteStrength
                        Remove or degrade intrinsic strength of
                        specific GT site while keeping the HZEI
                        integral neutral.
degradeSAs              Remove or degrade intrinisc strength of splice
                        acceptors while adjusting HZEI integral.
degradeSDs              Remove or degrade intrinisc strength of splice
                        donors while adjusting HZEI integral.
generateRandomCodonsPerAA
                        Randomly choose Codon to encode amino acid
                        sequence
getOverlappingVectorsFromVector
                        Create overlapping subvectors
hbg                     Donor sequences and their HBS
hex                     Hexamers and Z scores
increaseGTsiteStrength
                        Increasing intrinsic strength of specific GT
                        site while keeping the HZEI integral neutral.
mutatePopulation        Randomly exchange codons within a set of
                        sequences.
recombineTwoSequences   Generate new sequence from recombination of two
                        sequences
selectBestAndMean       Select best HZEI and mean
selectMatingIndividuals
                        Selecting mating sequences from a pool of
                        sequences
slidingWindowHZEImanipulation
                        Quickly manipulate HZEI integral of nucleotide
                        sequence
startModConApp          Start GUI of VarCon.
