Package index • epichains

Simulate branching processes

simulate_chain_stats(): Simulate a vector of transmission chains statistics (sizes/lengths)

simulate_chains(): Simulate transmission chains

Calculate (log)likelihoods

likelihood(): Estimate the log-likelihood/likelihood for observed branching processes

Methods for internal classes

epichains class

aggregate(<epichains>): Aggregate cases in <epichains> objects by "generation" or "time", if present

summary(<epichains>): Summary method for <epichains> class

print(<epichains>): Print an <epichains> object

head(<epichains>) tail(<epichains>): head and tail method for <epichains> class

epichains_summary

summary(<epichains_summary>): Summary method for <epichains_summary> class

print(<epichains_summary>): Print an <epichains_summary> object

Special distributions

dborel(): Density of the Borel distribution

rborel(): Generate random numbers from the Borel distribution

rgborel(): Generate random numbers from a Gamma-Borel mixture distribution

Miscellaneous

Data

Data stored in the package

covid19_sa: COVID-19 Data Repository for South Africa