| clusterInfectors |
Clusters the infectors based on their transmission probabilities |
| estimateR |
Estimates the effective reproductive number |
| estimateRi |
Estimates individual-level reproductive numbers |
| estimateRt |
Estimates time-level reproductive numbers |
| estimateRtAvg |
Estimates the average effective reproductive number |
| estimateSI |
Estimates the generation/serial interval distribution |
| indData |
Individual-level simulated outbreak dataset |
| indToPair |
Transforms a dataset of individuals to a dataset of pairs |
| nbHeatmap |
Plots a heatmap of the relative transmission probabilities |
| nbNetwork |
Plots a network of the relative transmission probabilities |
| nbProbabilities |
Estimates relative transmission probabilities |
| nbResults |
Dataset with results of 'nbProbabilities' |
| pairData |
Pair-level simulated outbreak dataset |
| performNB |
Performs naive bayes classification |
| performPEM |
Executes the PEM algorthim to estimate the generation/serial interval distribution |
| plotRt |
Creates a plot of the effective reproductive number |
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