deGradInfer

Parameter Inference for Systems of Differential Equation

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.

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Description file content

Package
deGradInfer
Title
Parameter Inference for Systems of Differential Equation
Version
1.0.0
Description
Efficient Bayesian parameter inference for systems of ordinary differential equations. The inference is based on adaptive gradient matching (AGM, Dondelinger et al. 2013 , Macdonald 2017 ), 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.
Depends
R (>= 3.3.1)
License
GPL-3
Encoding
UTF-8
LazyData
true
Imports
deSolve, gdata, gptk, graphics, stats
RoxygenNote
6.0.1
Suggests
testthat, knitr, rmarkdown, ggplot2
VignetteBuilder
knitr
NeedsCompilation
no
Packaged
2017-12-05 12:47:44 UTC; dondelin
Author
Benn Macdonald [aut], Frank Dondelinger [aut, cre]
Maintainer
Frank Dondelinger
Repository
CRAN
Date/Publication
2017-12-05 18:14:24 UTC

install.packages('deGradInfer')

1.0.0

8 days ago

Frank Dondelinger

GPL-3

Depends on

R (>= 3.3.1)

Imports

deSolve, gdata, gptk, graphics, stats

Suggests

testthat, knitr, rmarkdown, ggplot2

Discussions