No-U-Turn MCMC Sampling for 'ADMB' and 'TMB' Models


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Documentation for package ‘adnuts’ version 1.0.0

Help Pages

adnuts-package adnuts: No-U-turn sampling for Template Model Builder and AD Model Builder
adnuts adnuts: No-U-turn sampling for Template Model Builder and AD Model Builder
extract_sampler_params Extract sampler parameters from a fit.
extract_samples Extract posterior samples from a model fit.
launch_shinyadmb Launch shinystan for an ADMB fit.
launch_shinytmb Launch shinystan for a TMB fit.
pairs_admb Plot pairwise parameter posteriors and optionally the MLE points and confidence ellipses.
sample_admb Bayesian inference of an ADMB model using the no-U-turn sampler.
sample_admb_nuts Run a single NUTS chain for an ADMB model
sample_admb_rwm Run a single random walk Metropolis chain for an ADMB model
sample_tmb Bayesian inference of a TMB model using the no-U-turn sampler.
sample_tmb_hmc Draw MCMC samples from a model posterior using a static HMC sampler.
sample_tmb_nuts Draw MCMC samples from a model posterior using the No-U-Turn (NUTS) sampler with dual averaging.
sample_tmb_rwm [Deprecated] Draw MCMC samples from a model posterior using a Random Walk Metropolis (RWM) sampler.