epigrowthfit - Nonlinear Mixed Effects Models of Epidemic Growth
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>.
