DiscrSI                 Function to ensure compatibility with EpiEstim
                        versions <2.0
EstimateR               Function to ensure compatibility with EpiEstim
                        versions <2.0
Flu1918                 Data on the 1918 H1N1 influenza pandemic in
                        Baltimore.
Flu2009                 Data on the 2009 H1N1 influenza pandemic in a
                        school in Pennsylvania.
Measles1861             Data on the 1861 measles epidemic in Hagelloch,
                        Germany.
MockRotavirus           Mock data on a rotavirus epidemic.
OverallInfectivity      Function to ensure compatibility with EpiEstim
                        versions <2.0
SARS2003                Data on the 2003 SARS epidemic in Hong Kong.
Smallpox1972            Data on the 1972 smallpox epidemic in Kosovo
WT                      Function to ensure compatibility with EpiEstim
                        versions <2.0
check_cdt_samples_convergence
                        Checking convergence of an MCMC chain by using
                        the Gelman-Rubin algorithm
coarse2estim            Link coarseDataTools and EpiEstim
discr_si                Discretized Generation Time Distribution
                        Assuming A Shifted Gamma Distribution
estimate_R              Estimated Instantaneous Reproduction Number
estimate_R_plots        Wrapper for plot.estimate_R
flu_2009_NYC_school     Data on the 2009 H1N1 influenza pandemic in a
                        school in New York city
init_mcmc_params        'init_mcmc_params' Finds clever starting points
                        for the MCMC to be used to estimate the serial
                        interval, e.g. when using option 'si_from_data'
                        in 'estimate_R'
make_config             Set and check parameter settings of estimate_R
make_mcmc_control       make_mcmc_control Creates a list of mcmc
                        control parameters to be used in
                        'config$mcmc_control', where 'config' is an
                        argument of the 'estimate_R' function. This is
                        used to configure the MCMC chain used to
                        estimate the serial interval within
                        'estimate_R' (with method "si_from_data").
mers_2014_15            Data on Middle East Respiratory Syndrome (MERS)
                        in Saudi Arabia.
overall_infectivity     Overall Infectivity Due To Previously Infected
                        Individuals
plot.estimate_R         Plot outputs of estimate_r
sample_posterior_R      sample from the posterior R distribution
wallinga_teunis         Estimation of the case reproduction number
                        using the Wallinga and Teunis method
