R: Quantify Disease Transmission Within and Between Population Groups

# Quantify Disease Transmission Within and Between Population Groups

## Documentation for package ‘bumblebee’ version 0.1.0

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS

## Help Pages

counts_hiv_transmission_pairs | Observed HIV transmission pairs
c_hat | 'estimate_c_hat' Estimates probability of clustering
estimated_hiv_transmission_flows | Estimated HIV transmission flows
estimate_c_hat | 'estimate_c_hat' Estimates probability of clustering
estimate_c_hat.default | 'estimate_c_hat' Estimates probability of clustering
estimate_multinom_ci | 'estimate_multinom_ci' Estimates confidence intervals for transmission flows
estimate_multinom_ci.default | 'estimate_multinom_ci' Estimates confidence intervals for transmission flows
estimate_prob_group_pairing_and_linked | 'estimate_prob_group_pairing_and_linked' Estimates joint probability of linkage
estimate_prob_group_pairing_and_linked.default | 'estimate_prob_group_pairing_and_linked' Estimates joint probability of linkage
estimate_p_hat | 'estimate_p_hat' Estimates probability of linkage between two individuals
estimate_p_hat.default | 'estimate_p_hat' Estimates probability of linkage between two individuals
estimate_theta_hat | 'estimate_theta_hat' Estimates conditional probability of linkage (transmission flows)
estimate_theta_hat.default | '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
estimate_transmission_flows_and_ci.default | 'estimate_transmission_flows_and_ci' Estimates transmission flows and corresponding confidence intervals
estim_c_hat | 'estimate_c_hat' Estimates probability of clustering
estim_multinom_ci | 'estimate_multinom_ci' Estimates confidence intervals for transmission flows
estim_p_hat | 'estimate_p_hat' Estimates probability of linkage between two individuals
estim_theta_hat | 'estimate_theta_hat' Estimates conditional probability of linkage (transmission flows)
est_c_hat | 'estimate_c_hat' Estimates probability of clustering
est_multinom_ci | 'estimate_multinom_ci' Estimates confidence intervals for transmission flows
est_p_hat | 'estimate_p_hat' Estimates probability of linkage between two individuals
est_theta_hat | 'estimate_theta_hat' Estimates conditional probability of linkage (transmission flows)
flows_and_ci | 'estimate_transmission_flows_and_ci' Estimates transmission flows and corresponding confidence intervals
phat | 'estimate_p_hat' Estimates probability of linkage between two individuals
pp | 'prep_p_hat' Prepares input data to estimate 'p_hat'
prep_phat | 'prep_p_hat' Prepares input data to estimate 'p_hat'
prep_p_hat | 'prep_p_hat' Prepares input data to estimate 'p_hat'
prep_p_hat.default | 'prep_p_hat' Prepares input data to estimate 'p_hat'
prob_group_pairing_and_linked | 'estimate_prob_group_pairing_and_linked' Estimates joint probability of linkage
p_hat | 'estimate_p_hat' Estimates probability of linkage between two individuals
sampling_frequency | Sampling fequency
theta_hat | 'estimate_theta_hat' Estimates conditional probability of linkage (transmission flows)