censored.deviation: Deviation between theorietical incidence and observed data.

In R0: Estimation of R0 and Real-Time Reproduction Number from Epidemics

Deviation between theorietical incidence and observed data.

Description

When first records of incidence are unavailable, tries to impute censored cases to rebuild longer epidemic vector.

Usage

censored.deviation(optim.vect, epid, R0, GT)

Arguments

optim.vect	Vector of two elements ⁠c(multiplicative factor, log(highest imputed data))⁠ corresponding to initial values.
epid	Original epidemic vector, output of check.incid().
R0	Assumed R0 value for the original epidemic vector.
GT	Generation time distribution to be used for computations.

Details

For internal use. Called by impute.incid().

This function is not intended for stand-alone use. It computes the difference between theoretical incidence and observed epidemics, for a given vector of initial values. To find the find best-fitting incidence values, this same vector must be optimized, to minimize the value returned by SCE.

Value

The deviation between E(N_{t}) and N_{t} : sum((E(Nt) - Nt)^2).

Author(s)

Pierre-Yves Boelle, Thomas Obadia

R0 documentation built on Sept. 26, 2023, 5:10 p.m.