The main features of the package include:

• gamma_shapescale2mucv: convert shape and scale of a Gamma distribution to mean and CV

• gamma_mucv2shapescale: convert mean and CV of a Gamma distribution to shape and scale

• gamma_log_likelihood: Gamma log-likelihood using mean and CV

• r2R0: convert growth rate into a reproduction number

• lm2R0_sample: generates a distribution of R0 from a log-incidence linear model

• fit_disc_gamma: fits a discretised Gamma distribution to data (typically useful for describing delays)

• clean_labels: generate portable labels by removing non-standard characters or replacing them with their closest alphanumeric matches, standardising separators, etc.

• hash_names: generate unique, anonymised, reproducible labels from various data fields (e.g. First name, Last name, Date of birth).

• emperical_incubation_dist() will estimate the empirical incubation distribution if given a data frame with dates of onset and a range of exposure dates.

• fit_gamma_incubation_dist() wraps empirical_incubation_dist() and fit_disc_gamma() to fit a discretized gamma distribution to an empirical incubation distribution