aaGamma                 Obtain Gamma Distributed Amino Acid Selection
                        Coefficients
aaGauss                 Obtain Gaussian Distributed Amino Acid
                        Selection Coefficients
alignsim                Simulate Codon Sequence Alignment
aminoSC-class           Amino Acid Selection Coefficients
biTree                  Generate a Balanced Bifurcating Evolutionary
                        Tree
codonCoeffs             Transform Amino Acid to Codon Selection
                        Coefficients
codonFreq               Generate Codon Frequencies From Selection
                        Coefficients
codonvalues-class       Codon Frequencies and Selection Coefficients
discrete-class          (Deterministic) Episodic Simulation Model Input
discreteInput           Populate (Deterministic) Episodic Seascape
                        Model Parameters
dndsCalculator          Estimate dN/dS Value Analytically
fixMatrix               Construct Fixation Rate Matrix
hbInput                 Generate Halpern-Bruno Substitution Model
                        Parameters
hbParameters-class      Halpern-Bruno Mutation-Selection Evolutionary
                        Model Input
omega-class             Frequency-Dependent Evolutionary Model Object
ou-class                Ornstein-Uhlenbeck Stochastic Simulation Model
                        Object
ouEvolve                Simulate the Trend of an Ornstein-Uhlenbeck
                        Process
ouInput                 Populate Parameters of the Ornstein-Uhlenbeck
                        Algorithm
scoup                   Simulate Codons with Darwinian Selection
                        Imposed as an OU Process
scoup-class             Output from the 'scoup::alignsim' Genetic
                        Sequence Simulator
seqDetails              Populate Sequence Alignment Information
seqParameters-class     Codon Sequence Structure
seqWriter               Write Numeric Codon Alignment to a NEXUS File
subsMatrix              Build Mutation-Selection Codon Substitution
                        Matrix
wInput                  Populate Frequency-Dependent Simulation Model
                        Parameters
