censored.deviation: Impute censored cases to rebuild longer epidemic vector

View source: R/censored.deviation.R

censored.deviationR Documentation

Impute censored cases to rebuild longer epidemic vector

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 sum((E(Nt)-Nt)^2)

Author(s)

Pierre-Yves Boelle, Thomas Obadia


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