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Cohort dynamics for a human / host model

Source: R/xde_cohort.R
xds_solve_cohort.Rd

Compute the states for a model \(\cal X\) in a cohort of humans / hosts as it ages, up to age \(A\) years of age

Usage

xds_solve_cohort(pars, bday = 0, A = 10, da = 10, times = NULL)

Arguments

pars

an xds object

bday

the cohort birthday

A

the maximum age to compute (in years)

da

the output interval (age, in days)

times

the output times

Value

an xds object

Details

This method substitutes age for time: a model $$\cal X(t)$$ is solved with respect to age \(a\): $$\cal X(a),$$ where the daily EIR is computed by a trace function with four elements:

  • \(\bar E\) or eir, the mean daily EIR,

  • \(\omega(a)\) or F_age, a function of age

  • \(S(t)\) or F_season, a function of time of year

  • \(T(t)\) or F_trend, a function describing a trend

For a cohort born on day \(B\), the function creates a mesh on age / time, where time and age are related by the formula: $$t = B + a$$ and the trace function is: $$E(a, t) = \hat E \; \omega(a) \; S(t)\; T(t) $$ The output is returned as pars$outputs$cohort