bayesnec: An R Package for Concentration-Response Modeling and Estimation of Toxicity Metrics
Dublin Core
Title
bayesnec: An R Package for Concentration-Response Modeling and Estimation of Toxicity Metrics
Subject
: concentration-response, no-effect-concentration, Bayesian, non-linear modeling.
Description
The bayesnec package has been developed for R to fit concentration (dose)-response
curves (CR) to toxicity data for the purpose of deriving no-effect-concentration (NEC), nosignificant-effect-concentration (NSEC), and effect-concentration (of specified percentage
“x”, ECx) thresholds from non-linear models fitted using Bayesian Hamiltonian Monte
Carlo (HMC) via R packages brms and rstan or cmdstanr. In bayesnec it is possible to fit
a single model, custom model-set, specific model-set or all of the available models. When
multiple models are specified, the bnec() function returns a model weighted average
estimate of predicted posterior values. A range of support functions and methods is also
included to work with the returned single, or multi-model objects that allow extraction
of raw, or model averaged predicted, NEC, NSEC and ECx values and to interrogate
the fitted model or model-set. By combining Bayesian methods with model averaging,
bayesnec provides a single estimate of toxicity and associated uncertainty that can be
directly integrated into risk assessment frameworks.
curves (CR) to toxicity data for the purpose of deriving no-effect-concentration (NEC), nosignificant-effect-concentration (NSEC), and effect-concentration (of specified percentage
“x”, ECx) thresholds from non-linear models fitted using Bayesian Hamiltonian Monte
Carlo (HMC) via R packages brms and rstan or cmdstanr. In bayesnec it is possible to fit
a single model, custom model-set, specific model-set or all of the available models. When
multiple models are specified, the bnec() function returns a model weighted average
estimate of predicted posterior values. A range of support functions and methods is also
included to work with the returned single, or multi-model objects that allow extraction
of raw, or model averaged predicted, NEC, NSEC and ECx values and to interrogate
the fitted model or model-set. By combining Bayesian methods with model averaging,
bayesnec provides a single estimate of toxicity and associated uncertainty that can be
directly integrated into risk assessment frameworks.
Creator
Rebecca Fisher
Source
https://www.jstatsoft.org/article/view/v110i05
Publisher
Australian Institute of Marine Science
Date
August 2024
Contributor
Fajar bagus W
Format
PDF
Language
English
Type
Text
Files
Collection
Citation
Rebecca Fisher, “bayesnec: An R Package for Concentration-Response Modeling and Estimation of Toxicity Metrics,” Repository Horizon University Indonesia, accessed April 4, 2025, https://repository.horizon.ac.id/items/show/8341.