bayesmanecfit of models fitted with the brms packageMultiple models fitted with the
bayesnec package are
represented as a bayesmanecfit object, which contains the original
brmsfit fitted objects, names of non-linear models that
were fitted, model averaging WAIC stats, sample size, mean posterior
no-effect toxicity values (NEC, NSEC or N(S)EC), mean model averaged
predictions on the data scale, model averaged residuals, full posterior
distribution of predicated values, and summary statistics of no-effect
toxicity.
mod_fitsA list of fitted model outputs of class
prebayesnecfit for each of the fitted models.
success_modelsA character vector indicating the
name of the successfully fitted models.
mod_statsA data.frame of model fit statistics.
sample_sizeThe size of the posterior sample. Information on the priors used in the model.
w_ne_posteriorThe model-weighted posterior estimate of the no-effect toxicity estimate.
w_predicted_yThe model-weighted predicted values for the observed data.
w_residualsModel-weighted residual values (i.e. observed - w_predicted_y).
w_pred_valsA list containing model-weighted
posterior predicted values based on the supplied resolution and
x_range.
w_neThe summary stats (median and 95% credibility intervals) of w_ne_posterior.
ne_typeA character vector indicating the type of
no-effect toxicity estimate. Where the fitted model(s) are NEC models
(threshold models, containing a step function) the no-effect estimate is
a true no-effect-concentration (NEC, see Fox 2010). Where the fitted
model(s) are
smooth ECx models with no step function, the no-effect estimate is a
no-significant-effect-concentration (NSEC, see Fisher and Fox 2023).
In the
case of a bayesmanecfit that contains a mixture of both NEC and
ECx models, the no-effect estimate is a model averaged combination of the NEC
and NSEC estimates, and is reported as the N(S)EC
(see Fisher et al. 2023).
See methods(class = "bayesmanecfit") for an overview of
available methods.
Fisher R, Barneche DR, Ricardo GF, Fox, DR (2024) An R Package for Concentration-Response Modeling and Estimation of Toxicity Metrics doi:10.18637/jss.v110.i05.
Fisher R, Fox DR (2023). Introducing the no significant effect concentration (NSEC).Environmental Toxicology and Chemistry, 42(9), 2019–2028. doi: 10.1002/etc.5610.
Fisher R, Fox DR, Negri AP, van Dam J, Flores F, Koppel D (2023). Methods for estimating no-effect toxicity concentrations in ecotoxicology. Integrated Environmental Assessment and Management. doi:10.1002/ieam.4809.
Fox DR (2010). A Bayesian Approach for Determining the No Effect Concentration and Hazardous Concentration in Ecotoxicology. Ecotoxicology and Environmental Safety, 73(2), 123–131. doi: 10.1016/j.ecoenv.2009.09.012.
bayesnec,
bnec,
bayesnecfit