formula.egf

formula.egf_no_fit

Extracts from a model object the mixed effects model formula
corresponding to a top level nonlinear model parameter.

Maximum likelihood estimation of nonlinear mixed effects models of
epidemic growth using Template Model Builder ('TMB'). Enables
joint estimation for collections of disease incidence time series,
including time series that describe multiple epidemic waves.
Supports a set of widely used phenomenological models: exponential,
logistic, Richards (generalized logistic), subexponential,
and Gompertz. Provides methods for interrogating model objects
and several auxiliary functions, including one for computing basic
reproduction numbers from fitted values of the initial exponential
growth rate.
Preliminary versions of this software were applied
in Ma et al. (2014) <doi:10.1007/s11538-013-9918-2> and
in Earn et al. (2020) <doi:10.1073/pnas.2004904117>.

Mikael Jagan

epigrowthfit

Nonlinear Mixed Effects Models of Epidemic Growth

Ben Bolker

Jonathan Dushoff

David Earn

Junling Ma

formula.egf function

<dl><dt>x</dt>
<dd>an <code>egf</code> object.</dd><dt>top</dt>
<dd>a character string specifying a top level nonlinear model parameter.</dd><dt>split</dt>
<dd>a logical flag. If <code>TRUE</code>, then random effect terms are deleted
 from the formula and preserved as an attribute.</dd><dt>...</dt>
<dd>unused optional arguments.</dd></dl>

Arguments

Extract Model Formulae — formula.egf

<dl>

<dt>x</dt>
<dd>an <code>egf</code> object.</dd>

<dt>top</dt>
<dd>a character string specifying a top level nonlinear model parameter.</dd>

<dt>split</dt>
<dd>a logical flag. If <code>TRUE</code>, then random effect terms are deleted
 from the formula and preserved as an attribute.</dd>

<dt>...</dt>
<dd>unused optional arguments.</dd>

</dl>

formula.egf: Extract Model Formulae

Description

Usage

Value

Arguments

See Also