Bifurcation Analysis of Ordinary Differential Equation Systems
c(person("Andre M.", "de Roos", email = "A.M.deRoos@uva.nl", role = c("aut", "cre")))
Shiny application that performs bifurcation and phaseplane analysis of systems of ordinary
differential equations. The package allows for computation of equilibrium curves as a function of
a single free parameter, detection of transcritical, saddle-node and hopf bifurcation points along
these curves, and computation of curves representing these transcritical, saddle-node and hopf
bifurcation points as a function of two free parameters. The shiny-based GUI allows visualization
of the results in both 2D- and 3D-plots. The implemented methods for solution localisation and curve
continuation are based on the book "Elements of applied bifurcation theory" (Kuznetsov, Y. A., 1995;
ISBN: 0-387-94418-4).
graphics, deSolve (>= 1.3), rootSolve (>= 1.8), rstudioapi (>=
0.13), shiny (>= 1.7), shinyjs (>= 2.0), shinydashboard (>=
0.7), shinydashboardPlus (>= 2.0)

Parameter Inference for Systems of Differential Equation
c(person("Benn", "Macdonald", email = "Benn.Macdonald@glasgow.ac.uk", role = c("aut")),
person("Frank", "Dondelinger", email = "fdondelinger.work@gmail.com", role = c("aut", "cre")))
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.
Benn Macdonald [aut],
Frank Dondelinger [aut, cre]

General solvers for ordinary differential equations (ODE) and for differential algebraic equations (DAE)
Karline Soetaert <k.soetaert@nioo.knaw.nl>, Thomas Petzoldt <thomas.petzoldt@tu-dresden.de>, R. Woodrow Setzer <setzer.woodrow@epa.gov>
Functions that solve a system of first-order ordinary differential equations (ODE) and of differential algebraic equations (DAE).
The functions provide an interface to the fortran functions \code{lsoda}, \code{lsodar}, \code{lsode}, \code{lsodes}, \code{dvode} and \code{daspk}.
The package also contains routines designed for solving uni-and multicomponent 1-D and 2-D reactive transport models.