deBInfer: Bayesian Inference for Differential Equations

A Bayesian framework for parameter inference in differential equations. This approach offers a rigorous methodology for parameter inference as well as modeling the link between unobservable model states and parameters, and observable quantities. Provides templates for the DE model, the observation model and data likelihood, and the model parameters and their prior distributions. A Markov chain Monte Carlo (MCMC) procedure processes these inputs to estimate the posterior distributions of the parameters and any derived quantities, including the model trajectories. Further functionality is provided to facilitate MCMC diagnostics and the visualisation of the posterior distributions of model parameters and trajectories.

AuthorPhilipp H Boersch-Supan [aut, cre], Leah R Johnson [aut], Sadie J Ryan [aut]
Date of publication2016-09-14 21:44:04
MaintainerPhilipp H Boersch-Supan <pboesu@gmail.com>
LicenseGPL-3
Version0.4.1

View on CRAN

Files in this package

deBInfer
deBInfer/inst
deBInfer/inst/CITATION
deBInfer/inst/doc
deBInfer/inst/doc/deBInfer_compiled_code.pdf
deBInfer/inst/doc/logistic_ode_example.pdf
deBInfer/inst/doc/chytrid_dede_example.pdf
deBInfer/inst/doc/chytrid_dede_example.R
deBInfer/inst/doc/deBInfer_compiled_code.pdf.asis
deBInfer/inst/doc/logistic_ode_example.R
deBInfer/inst/doc/chytrid_dede_example.Rmd
deBInfer/inst/doc/logistic_ode_example.Rmd
deBInfer/tests
deBInfer/tests/testthat.R
deBInfer/tests/testthat
deBInfer/tests/testthat/test_likelihood_eval.R
deBInfer/tests/testthat/test_inference_logistic.R
deBInfer/tests/testthat/test_debinfer_par.R
deBInfer/NAMESPACE
deBInfer/data
deBInfer/data/logistic.rda
deBInfer/data/chytrid.rda
deBInfer/R
deBInfer/R/setup_mcmc.R deBInfer/R/de_solver.R deBInfer/R/de_mcmc_rev.R deBInfer/R/data_doc.R deBInfer/R/mcmc_plotting.R deBInfer/R/debinfer_utils.R
deBInfer/vignettes
deBInfer/vignettes/methods-in-ecology-and-evolution.csl
deBInfer/vignettes/debinfer.bib
deBInfer/vignettes/deBInfer_compiled_code.pdf.asis
deBInfer/vignettes/epsilon-sensitivity.pdf
deBInfer/vignettes/chytrid_dede_example.Rmd
deBInfer/vignettes/logistic_ode_example.Rmd
deBInfer/README.md
deBInfer/MD5
deBInfer/build
deBInfer/build/vignette.rds
deBInfer/DESCRIPTION
deBInfer/man
deBInfer/man/log_post_params.Rd deBInfer/man/debinfer_par.Rd deBInfer/man/pairs.debinfer_result.Rd deBInfer/man/summary.debinfer_result.Rd deBInfer/man/plot.debinfer_result.Rd deBInfer/man/depars.Rd deBInfer/man/logd_prior.Rd deBInfer/man/logistic.Rd deBInfer/man/post_prior_densplot.Rd deBInfer/man/solve_de.Rd deBInfer/man/prior_draw_rev.Rd deBInfer/man/plot.post_sim_list.Rd deBInfer/man/is.debinfer_result.Rd deBInfer/man/update_sample_rev.Rd deBInfer/man/de_mcmc.Rd deBInfer/man/log_prior_params.Rd deBInfer/man/propose_joint_rev.Rd deBInfer/man/propose_single_rev.Rd deBInfer/man/post_sim.Rd deBInfer/man/setup_debinfer.Rd deBInfer/man/reshape_post_sim.Rd deBInfer/man/chytrid.Rd deBInfer/man/deinits.Rd

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