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.
Initial release of the package. Features include: