counts_hiv_transmission_pairs
                        Observed HIV transmission pairs
estimate_c_hat          'estimate_c_hat' Estimates probability of
                        clustering
estimate_multinom_ci    'estimate_multinom_ci' Estimates confidence
                        intervals for transmission flows
estimate_p_hat          'estimate_p_hat' Estimates probability of
                        linkage between two individuals
estimate_prob_group_pairing_and_linked
                        'estimate_prob_group_pairing_and_linked'
                        Estimates joint probability of linkage
estimate_theta_hat      'estimate_theta_hat' Estimates conditional
                        probability of linkage (transmission flows)
estimate_transmission_flows_and_ci
                        'estimate_transmission_flows_and_ci' Estimates
                        transmission flows and corresponding confidence
                        intervals
estimated_hiv_transmission_flows
                        Estimated HIV transmission flows
prep_p_hat              'prep_p_hat' Prepares input data to estimate
                        'p_hat'
sampling_frequency      Sampling fequency
