bayesDiagnostics: Comprehensive Bayesian Model Diagnostics | Overview of Package Functions | Part 1: MCMC Convergence Diagnostics | 1.1 Quick MCMC Diagnostics Summary | 1.2 Effective Sample Size Diagnostics | 1.3 Hierarchical Model Convergence | Part 2: Posterior Predictive Checks (PPC) | 2.1 Comprehensive Posterior Predictive Checks | 2.2 Automated PPC | 2.3 Graphical PPC | 2.4 LOO Cross-Validation PPC | 2.5 Custom Bayesian P-Values | Part 3: Prior Specification & Sensitivity Analysis | 3.1 Prior Elicitation Helper | 3.2 Prior Sensitivity Analysis | 3.3 Prior Robustness Analysis | Part 4: Model Comparison | 4.1 Comprehensive Model Comparison Suite | 4.2 Bayes Factor Comparison | 4.3 Predictive Performance Evaluation | Part 5: Utilities & Comprehensive Reporting | 5.1 Extract Posterior (Unified Interface) | 5.2 Diagnostic Report Generation | Complete Workflow Example | Interpretation Guidelines | Convergence (MCMC) | Posterior Predictive Checks | Prior Sensitivity | Model Comparison | Summary Table: All Functions | Further Reading | Books | Papers | Packages | Getting Help
Package: bayesDiagnostics 0.1.0
bayesDiagnostics: Comprehensive Bayesian Model Diagnostics and Comparison Tools
Provides comprehensive tools for Bayesian model diagnostics and comparison. Includes prior sensitivity analysis, posterior predictive checks (Gelman et al. (2013) <doi:10.1201/b16018>), advanced model comparison using Pareto-smoothed importance sampling leave-one-out cross-validation (Vehtari et al. (2017) <doi:10.1007/s11222-016-9696-4>), convergence diagnostics, and prior elicitation tools. Integrates with 'brms' (Burkner (2017) <doi:10.18637/jss.v080.i01>), 'rstan', and 'rstanarm' packages for comprehensive Bayesian workflow diagnostics.
Authors:
bayesDiagnostics_0.1.0.tar.gz
bayesDiagnostics_0.1.0.zip(r-4.7-any)bayesDiagnostics_0.1.0.zip(r-4.6-any)bayesDiagnostics_0.1.0.zip(r-4.5-any)
bayesDiagnostics_0.1.0.tgz(r-4.6-any)bayesDiagnostics_0.1.0.tgz(r-4.5-any)
bayesDiagnostics_0.1.0.tar.gz(r-4.7-any)bayesDiagnostics_0.1.0.tar.gz(r-4.6-any)
bayesDiagnostics_0.1.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
bayesDiagnostics/json (API)
| # Install 'bayesDiagnostics' in R: |
| install.packages('bayesDiagnostics', repos = c('https://ikrakib.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/ikrakib/bayesdiagnostics/issues
Last updated from:19a7dbcba9. Checks:9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel | OK | 288 | ||
| source / vignettes | OK | 242 | ||
| linux-release | OK | 289 | ||
| macos-release | OK | 212 | ||
| macos-oldrel | OK | 348 | ||
| windows-devel | OK | 291 | ||
| windows-release | OK | 310 | ||
| windows-oldrel | OK | 264 | ||
| wasm-release | OK | 146 |
Exports:automated_ppcbayes_factor_comparisonbayesian_p_valuesdiagnostic_reporteffective_sample_size_diagnosticsextract_posterior_unifiedgraphical_ppchierarchical_convergencemcmc_diagnostics_summarymodel_comparison_suiteposterior_predictive_checkppc_crossvalidationpredictive_performanceprior_elicitation_helperprior_robustnessprior_sensitivity
Dependencies:abindbackportsbayesplotBHbridgesamplingbrmsBrobdingnagcallrcheckmateclicodacodetoolscpp11descdigestdistributionaldplyrfarverfuturefuture.applygenericsggdistggplot2ggridgesglobalsgluegridExtragtableinlineisobandlabelinglatticelifecyclelistenvloomagrittrMatrixmatrixStatsmgcvmvtnormnleqslvnlmenumDerivotelparallellypillarpkgbuildpkgconfigplyrposteriorprocessxpspurrrquadprogQuickJSRR6RColorBrewerRcppRcppEigenRcppParallelreshape2rlangrstanrstantoolsS7scalesStanHeadersstringistringrtensorAtibbletidyrtidyselectutf8vctrsviridisLitewithr
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Automated Posterior Predictive Checks | automated_ppc |
| Bayesian Factor Comparison Between Models | bayes_factor_comparison |
| bayesDiagnostics Package | bayesDiagnostics-package bayesDiagnostics |
| Calculate Bayesian P-Values | bayesian_p_values |
| Diagnostic Report for Bayesian Models | diagnostic_report |
| Effective Sample Size Diagnostics | effective_sample_size_diagnostics plot.ess_diagnostics print.ess_diagnostics |
| Extract Posterior Draws (Unified Interface) | extract_posterior_unified |
| Graphical Posterior Predictive Checks | graphical_ppc |
| Hierarchical Model Convergence Diagnostics | hierarchical_convergence plot.hierarchical_convergence print.hierarchical_convergence |
| MCMC Diagnostics Summary | mcmc_diagnostics_summary |
| Comprehensive Model Comparison Suite | model_comparison_suite |
| Plot Bayes Factor Comparison Results | plot.bayes_factor_comparison |
| Posterior Predictive Checks | plot.posterior_predictive_check posterior_predictive_check print.posterior_predictive_check |
| PPC Cross-Validation (LOO-PIT) | ppc_crossvalidation |
| Predictive Performance Evaluation | predictive_performance |
| Print Bayes Factor Comparison Results | print.bayes_factor_comparison |
| Prior Elicitation Helper | print.prior_elicitation prior_elicitation_helper |
| Prior Robustness Analysis | print.prior_robustness prior_robustness |
| Prior Sensitivity Analysis | plot.prior_sensitivity print.prior_sensitivity prior_sensitivity |