R.from.r: Estimate reproduction number from exponential growth rate
In tobadia/R0: Estimation of R0 and Real-Time Reproduction Number from Epidemics

R.from.r

R Documentation

Estimate reproduction number from exponential growth rate

Description

Calculates the basic reproduction number R_{0} from the exponential growth rate obtained by either Poisson or log-linear regression.

Usage

R.from.r(r, GT)

Arguments

`r`	The exponential growth rate.
`GT`	Generation time distribution from `generation.time()`.

Details

For internal use. Called by est.R0.EG().

R_{0} is calculated as the inverse of the discretized Laplace transform, making use of the discretized generation time distirbution (output from generation.time()).

Value

A numeric value for R.

Note

The formula for the discretized Laplace transform is taken from Wallinga & Lipsitch (2007).

Author(s)

Pierre-Yves Boelle, Thomas Obadia

References

Wallinga, J., and M. Lipsitch. "How Generation Intervals Shape the Relationship Between Growth Rates and Reproductive Numbers." Proceedings of the Royal Society B: Biological Sciences 274, no. 1609 (2007): 599.

tobadia/R0 documentation built on Sept. 24, 2023, 5:16 p.m.