absValue                Function to return absolute values
apply_burn_in           Apply Burn-In
apply_thinning          Apply Thinning
baseline_data_default   Default Baseline Data
calculateBaseline       Calculate Baseline Risk
calculateEmpiricalDensity
                        Calculate Empirical Age Density
calculateNCPen          Calculate Age-Specific Non-Carrier Penetrance
calculate_weibull_parameters
                        Calculate Weibull Parameters
combine_chains          Combine Chains Function to combine the
                        posterior samples from the multiple chains.
combine_chains_noSex    Combine Chains for Non-Sex-Specific Estimation
distribution_data_default
                        Default Distribution Data
drawBaseline            Draw Ages Using the Inverse CDF Method from the
                        baseline data
drawEmpirical           Draw Ages Using the Inverse CDF Method from
                        Empirical Density
generate_density_plots
                        Generate Posterior Density Plots
generate_summary        Generate Summary
generate_summary_noSex
                        Generate Summary for Non-Sex-Specific
                        Estimation
imputeAges              Impute Missing Ages in Family-Based Data
imputeAgesInit          Initialize Age Imputation
imputeUnaffectedAges    Impute Ages for Unaffected Individuals
lik.fn                  Penetrance Function
lik_noSex               Likelihood Calculation without Sex
                        Differentiation
makePriors              Make Priors
mhChain                 Execution of a Single Chain in
                        Metropolis-Hastings for Cancer Risk Estimation
mhLogLikelihood_clipp   Calculate Log Likelihood using clipp Package
mhLogLikelihood_clipp_noSex
                        Calculate Log Likelihood without Sex
                        Differentiation
out_sim                 Simulated Output Data
penetrance              penetrance: A Package for Penetrance Estimation
plot_acf                Plot Autocorrelation for Multiple MCMC Chains
                        (Posterior Samples)
plot_loglikelihood      Plot Log-Likelihood for Multiple MCMC Chains
plot_pdf                Plot Weibull Probability Density Function with
                        Credible Intervals
plot_penetrance         Plot Weibull Distribution with Credible
                        Intervals
plot_trace              Plot MCMC Trace Plots
printRejectionRates     Print MCMC Rejection Rates
prior_params_default    Default Prior Parameters
risk_proportion_default
                        Default Risk Proportions
simulated_families      Processed Family Data
test_fam2               Processed Family Data
transformDF             Transform Data Frame
validate_allele_freq    Validate Allele Frequency Input
validate_baseline_data
                        Validate Baseline Penetrance Data
validate_weibull_parameters
                        Validate Weibull Parameters
