getODEGradient

Times at which to calculate the ODE gradients

timePoints

params

Auxiliary variables (including function for ODE gradients)

auxVars

Which species to return (default=all)

species

Calculate gradients from ODE system

Efficient Bayesian parameter inference for systems of ordinary
differential equations. The inference is based on adaptive gradient matching
(AGM, Dondelinger et al. 2013 <http://proceedings.mlr.press/v31/dondelinger13a.pdf>,
Macdonald 2017 <http://theses.gla.ac.uk/7987/1/2017macdonaldphd.pdf>),
which offers orders-of-magnitude improvements in computational
efficiency over standard methods that require solving the differential
equation system. Features of the package include flexible specification
of custom ODE systems as R functions, support for missing variables,
Bayesian inference via population MCMC.

getODEGradient: Calculate gradients from ODE system

Description

Usage

Arguments

Value