# Bayesian Dynamic Energy Budget Modelling

## Documentation for package ‘BayesianDEB’ version 0.2.1

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS
- Package README

## Help Pages

arrhenius | Arrhenius Temperature Correction
bdeb_data | Prepare Data for BDEB Models
bdeb_derived | Compute Derived Biological Quantities from the Posterior
bdeb_derived.bdeb_fit | Compute Derived Biological Quantities from the Posterior
bdeb_derived.default | Compute Derived Biological Quantities from the Posterior
bdeb_diagnose | MCMC Convergence Diagnostics
bdeb_ec50 | Extract EC50 and NEC from a DEBtox Fit
bdeb_fit | Fit a BDEB Model via Hamiltonian Monte Carlo
bdeb_loo | LOO Cross-Validation for Model Comparison
bdeb_model | Specify a BDEB Model
bdeb_plots | Plot Methods for BDEB Objects
bdeb_ppc | Posterior Predictive Checks for BDEB Models
bdeb_predict | Predict from a BDEB Fit
bdeb_prior-methods | Methods for 'bdeb_prior' Objects
bdeb_prior_predictive | Prior Predictive Check
bdeb_session_info | Reproducibility Report
bdeb_tox | DEBtox Model Specification
coef.bdeb_fit | Extract Point Estimates from a BDEB Fit
confint.bdeb_fit | Posterior Credible Intervals for BDEB Model Parameters
debtox_growth | Simulated DEBtox Growth Data
debtox_simulate | Simulate DEBtox Growth Under Toxicant Exposure
deb_fluxes | Compute DEB Energy Fluxes
deb_simulate | Simulate DEB Growth Trajectory
eisenia_cd | Eisenia andrei Cadmium Toxicity Data (Van Gestel 1991)
eisenia_growth | Simulated Eisenia fetida Growth Data
eisenia_neuhauser | Eisenia fetida Growth Data (Neuhauser 1980)
fitted.bdeb_fit | Fitted Values from a BDEB Fit
folsomia_repro | Simulated Folsomia candida Reproduction Data
logLik.bdeb_fit | Log-Likelihood of a BDEB Fit
nobs.bdeb_fit | Number of Observations Used in a BDEB Fit
observation_models | Observation Model Specifications
obs_lognormal | Observation Model Specifications
obs_negbinom | Observation Model Specifications
obs_normal | Observation Model Specifications
obs_poisson | Observation Model Specifications
obs_student_t | Observation Model Specifications
plot.bdeb_data | Plot a BDEB Data Object
plot.bdeb_diagnostics | Plot Convergence Diagnostics
plot.bdeb_fit | Plot a BDEB Fit
plot.bdeb_model | Plot a BDEB Model Specification
plot.bdeb_ppc | Plot Posterior Predictive Checks
plot.bdeb_prediction | Plot Posterior Predictive Trajectories
plot.bdeb_prior | Methods for 'bdeb_prior' Objects
plot_dose_response | Plot DEBtox Dose-Response
predict.bdeb_fit | Predict from a BDEB Fit
print.bdeb_data | Print a BDEB Data Object
print.bdeb_diagnostics | Print a BDEB Diagnostics Report
print.bdeb_fit | Print a BDEB Fit
print.bdeb_model | Print a BDEB Model Specification
print.bdeb_ppc | Print a BDEB Posterior Predictive Check
print.bdeb_prediction | Print a BDEB Prediction
print.bdeb_prior | Methods for 'bdeb_prior' Objects
print.summary.bdeb_data | Summary of a BDEB Data Object
print.summary.bdeb_model | Summary of a BDEB Model Specification
print.summary.bdeb_prior | Methods for 'bdeb_prior' Objects
priors | Prior Distribution Specifications for BDEB Models
prior_beta | Prior Distribution Specifications for BDEB Models
prior_default | Default Priors for DEB Parameters
prior_exponential | Prior Distribution Specifications for BDEB Models
prior_halfcauchy | Prior Distribution Specifications for BDEB Models
prior_halfnormal | Prior Distribution Specifications for BDEB Models
prior_lognormal | Prior Distribution Specifications for BDEB Models
prior_normal | Prior Distribution Specifications for BDEB Models
prior_species | Species-Specific Priors from the AmP Collection
repro_to_intervals | Convert Cumulative Reproduction to Intervals
residuals.bdeb_fit | Residuals from a BDEB Fit
summary.bdeb_data | Summary of a BDEB Data Object
summary.bdeb_diagnostics | Compact Summary of a BDEB Diagnostics Report
summary.bdeb_fit | Posterior Summary for a BDEB Fit
summary.bdeb_model | Summary of a BDEB Model Specification
summary.bdeb_prediction | Tabulate Posterior Predictive Quantiles
summary.bdeb_prior | Methods for 'bdeb_prior' Objects
vcov.bdeb_fit | Posterior Covariance Matrix of BDEB Model Parameters