Bclean                  Remove Noise with the Beta Distribution
SetupBasicExample       Setup Basic Example
alphabetacalc           Calculate Alpha and Beta from Mean and Variance
alphabetacalctau        Calculate Alpha and Beta from Mean, Tau, and
                        Error rate.
alphabetacalctauvec     Vector-based - Calculate Alpha and Beta from
                        Mean, Tau, and Error rate.
alphabetacalcvec        Vector-based - Calculate Alpha and Beta from
                        Mean and Variance
bestquack               Model Selection - Expectation Maximization -
                        Optimal Distribution and Type
denoise_data            Denoise Data
emstepB                 Expectation maximization - Beta Distribution
emstepB3                Expectation maximization - Beta + Beta + Beta
                        Distribution
emstepBB                Expectation maximization - Beta-Binomial
                        Distribution
emstepBBU               Expectation maximization - Beta-Binomial and
                        Uniform Distributions
emstepBU                Expectation maximization - Beta and Uniform
                        Distributions
emstepN                 Expectation maximization - Normal Distribution
emstepNA                Expectation maximization - Normal Distribution
emstepNU                Expectation maximization - Normal and Uniform
                        Distribution
emstepNUA               Expectation maximization - Normal Distribution
estepB3                 E-Step for Expectation Maximization - Beta +
                        Beta + Beta Distribution
muvarcalcvec            Variance calculation from Mean, Tau, and
                        Sequencing Error
nQuire_reformat         Data Preparation - Use nQuire's Data
prepare_data            Prepare Data - Step 1
process_data            Process Data - Step 2
process_nquire          Use nQuire's Data
process_rcpp            Data Preparation - Matrix Filtering
quackBeta               Model Selection - Expectation Maximization -
                        Beta Mixture
quackBetaBinom          Model Selection - Expectation Maximization -
                        Beta-Binomial Mixture
quackNboots             Bootstrapping - Expectation Maximization -
                        Optimal Distribution and Type
quackNormal             Model Selection - Expectation Maximization -
                        Normal Mixture
quackNormalNQ           Model Selection - Expectation Maximization -
                        Normal Mixture (nQuire)
quackit                 Model Selection - Based on BIC or
                        Log-Likelihood
resample_xm             Calculate Alpha and Beta from Mean and Variance
setconvert              Calculate Variance from Mean, Tau, and
                        Sequencing Error
sim.ind.BB              Simulate Allele Counts for Single Individual -
                        Beta-Binomial Distribution
sim.ind.BB.tau          Simulate Allele Counts for Single Individual -
                        Beta-Binomial Distribution with Overdispersion
                        and Error
sim.ind.simple          Simulate Allele Counts for Single Individual -
                        Simple Approach
