shinystan: Interactive Visual and Numerical Diagnostics and Posterior Analysis for Bayesian Models

A graphical user interface for interactive Markov chain Monte Carlo (MCMC) diagnostics and plots and tables helpful for analyzing a posterior sample. The interface is powered by RStudio's Shiny web application framework and works with the output of MCMC programs written in any programming language (and has extended functionality for Stan models fit using the rstan and rstanarm packages).

AuthorJonah Gabry [aut, cre], Stan Development Team [ctb], Michael Andreae [ctb], Michael Betancourt [ctb], Bob Carpenter [ctb], Yuanjun Gao [ctb], Andrew Gelman [ctb], Ben Goodrich [ctb], Daniel Lee [ctb], Dongying Song [ctb], Rob Trangucci [ctb]
Date of publication2017-02-01 08:34:48
MaintainerJonah Gabry <jsg2201@columbia.edu>
LicenseGPL (>= 3)
Version2.3.0
https://github.com/stan-dev/shinystan/
http://mc-stan.org/

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shinystan
shinystan/inst
shinystan/inst/CITATION
shinystan/inst/ShinyStan
shinystan/inst/ShinyStan/ui.R
shinystan/inst/ShinyStan/server.R
shinystan/inst/ShinyStan/server_files
shinystan/inst/ShinyStan/server_files/tooltips
shinystan/inst/ShinyStan/server_files/tooltips/tooltips.R
shinystan/inst/ShinyStan/server_files/debounce.R
shinystan/inst/ShinyStan/server_files/pages
shinystan/inst/ShinyStan/server_files/pages/explore
shinystan/inst/ShinyStan/server_files/pages/explore/ui
shinystan/inst/ShinyStan/server_files/pages/explore/ui/ui_trivariate_select_x.R
shinystan/inst/ShinyStan/server_files/pages/explore/server
shinystan/inst/ShinyStan/server_files/pages/explore/server/multiview.R
shinystan/inst/ShinyStan/server_files/pages/explore/server/histogram.R
shinystan/inst/ShinyStan/server_files/pages/explore/server/density.R
shinystan/inst/ShinyStan/server_files/pages/explore/server/bivariate.R
shinystan/inst/ShinyStan/server_files/pages/explore/server/summary_stats_param.R
shinystan/inst/ShinyStan/server_files/pages/explore/server/trivariate.R
shinystan/inst/ShinyStan/server_files/pages/more
shinystan/inst/ShinyStan/server_files/pages/more/notes_and_code.R
shinystan/inst/ShinyStan/server_files/pages/diagnose
shinystan/inst/ShinyStan/server_files/pages/diagnose/ui
shinystan/inst/ShinyStan/server_files/pages/diagnose/ui/multitrace_customize.R
shinystan/inst/ShinyStan/server_files/pages/diagnose/server
shinystan/inst/ShinyStan/server_files/pages/diagnose/server/summary_stats_sampler.R
shinystan/inst/ShinyStan/server_files/pages/diagnose/server/autocorr.R
shinystan/inst/ShinyStan/server_files/pages/diagnose/server/diagnostics.R
shinystan/inst/ShinyStan/server_files/pages/diagnose/server/rhat_neff_mcse.R
shinystan/inst/ShinyStan/server_files/pages/diagnose/server/multitrace.R
shinystan/inst/ShinyStan/server_files/pages/diagnose/ppcheck
shinystan/inst/ShinyStan/server_files/pages/diagnose/ppcheck/ui
shinystan/inst/ShinyStan/server_files/pages/diagnose/ppcheck/ui/pp_get_y_and_yrep.R
shinystan/inst/ShinyStan/server_files/pages/diagnose/ppcheck/server
shinystan/inst/ShinyStan/server_files/pages/diagnose/ppcheck/server/hists_test_statistics.R
shinystan/inst/ShinyStan/server_files/pages/diagnose/ppcheck/server/hists_rep_vs_obs.R
shinystan/inst/ShinyStan/server_files/pages/diagnose/ppcheck/server/y_vs_avg_rep.R
shinystan/inst/ShinyStan/server_files/pages/diagnose/ppcheck/server/rep_vs_resid_rep.R
shinystan/inst/ShinyStan/server_files/pages/diagnose/ppcheck/server/rstanarm.R
shinystan/inst/ShinyStan/server_files/pages/diagnose/ppcheck/server/pp_utils.R
shinystan/inst/ShinyStan/server_files/pages/diagnose/ppcheck/server/hists_resids.R
shinystan/inst/ShinyStan/server_files/pages/diagnose/ppcheck/ppcheck_helpers.R
shinystan/inst/ShinyStan/server_files/pages/estimate
shinystan/inst/ShinyStan/server_files/pages/estimate/ui
shinystan/inst/ShinyStan/server_files/pages/estimate/ui/multiparam_selectize.R
shinystan/inst/ShinyStan/server_files/pages/estimate/server
shinystan/inst/ShinyStan/server_files/pages/estimate/server/summary_stats_latex.R
shinystan/inst/ShinyStan/server_files/pages/estimate/server/summary_stats.R
shinystan/inst/ShinyStan/server_files/pages/estimate/server/multiparameter_plot.R
shinystan/inst/ShinyStan/server_files/utilities
shinystan/inst/ShinyStan/server_files/utilities/par_samps_reactive.R
shinystan/inst/ShinyStan/server_files/utilities/extract_sso.R
shinystan/inst/ShinyStan/server_files/utilities/make_param_list_with_groups_sort.R
shinystan/inst/ShinyStan/markdown
shinystan/inst/ShinyStan/markdown/pp_check_tutorial.md
shinystan/inst/ShinyStan/www
shinystan/inst/ShinyStan/www/wide_ensemble.png
shinystan/inst/ShinyStan/www/stan_logo.png
shinystan/inst/ShinyStan/www/wide_funnel.png
shinystan/inst/ShinyStan/global_utils.R
shinystan/inst/ShinyStan/css
shinystan/inst/ShinyStan/css/ShinyStan_dygraphs.css
shinystan/inst/ShinyStan/css/ShinyStan.css
shinystan/inst/ShinyStan/css/ShinyStan_datatables.css
shinystan/inst/ShinyStan/ui_utils.R
shinystan/inst/ShinyStan/ggplot_fns.rda
shinystan/inst/ShinyStan/helper_functions
shinystan/inst/ShinyStan/helper_functions/shinystan_helpers.R
shinystan/inst/ShinyStan/helper_functions/summary_stats_helpers.R
shinystan/inst/ShinyStan/helper_functions/hmc_diagnostics_helpers.R
shinystan/inst/ShinyStan/helper_functions/gg_theme_elements.R
shinystan/inst/ShinyStan/ui_files
shinystan/inst/ShinyStan/ui_files/hist_customize.R
shinystan/inst/ShinyStan/ui_files/rhat_neff_mcse_layout.R
shinystan/inst/ShinyStan/ui_files/table_latex_sidebar.R
shinystan/inst/ShinyStan/ui_files/diagnostics_sample.R
shinystan/inst/ShinyStan/ui_files/trivariate_select.R
shinystan/inst/ShinyStan/ui_files/multiparam_customize.R
shinystan/inst/ShinyStan/ui_files/PAGE_more_menu.R
shinystan/inst/ShinyStan/ui_files/sampler_stats_customize.R
shinystan/inst/ShinyStan/ui_files/diagnostics_stepsize.R
shinystan/inst/ShinyStan/ui_files/diagnostics_customize.R
shinystan/inst/ShinyStan/ui_files/PAGE_explore.R
shinystan/inst/ShinyStan/ui_files/diagnostics_by_parameter.R
shinystan/inst/ShinyStan/ui_files/diagnostics_ndivergent.R
shinystan/inst/ShinyStan/ui_files/about.R
shinystan/inst/ShinyStan/ui_files/table_customize.R
shinystan/inst/ShinyStan/ui_files/trivariate_customize.R
shinystan/inst/ShinyStan/ui_files/model_code.R
shinystan/inst/ShinyStan/ui_files/diagnostics_energy.R
shinystan/inst/ShinyStan/ui_files/PAGE_diagnose.R
shinystan/inst/ShinyStan/ui_files/density_customize.R
shinystan/inst/ShinyStan/ui_files/glossary.R
shinystan/inst/ShinyStan/ui_files/help.R
shinystan/inst/ShinyStan/ui_files/autocorr_customize.R
shinystan/inst/ShinyStan/ui_files/PAGE_home.R
shinystan/inst/ShinyStan/ui_files/PAGE_estimate.R
shinystan/inst/ShinyStan/ui_files/diagnostics_treedepth.R
shinystan/inst/ShinyStan/ui_files/pp_navlist.R
shinystan/inst/ShinyStan/ui_files/pp_about.R
shinystan/inst/ShinyStan/ui_files/dynamic_trace_helptext.R
shinystan/inst/ShinyStan/ui_files/table_latex_main.R
shinystan/inst/ShinyStan/ui_files/bivariate_customize.R
shinystan/inst/ShinyStan/ui_files/diagnostics_help.R
shinystan/inst/ShinyStan/ui_files/notepad.R
shinystan/inst/ShinyStan/ui_files/pp_navlist_rstanarm.R
shinystan/inst/ShinyStan/global.R
shinystan/inst/ShinyStan/html
shinystan/inst/ShinyStan/html/energy.html
shinystan/inst/ShinyStan/html/neff.html
shinystan/inst/ShinyStan/html/ndivergent.html
shinystan/inst/ShinyStan/html/rhat.html
shinystan/inst/ShinyStan/html/treedepth.html
shinystan/inst/ShinyStan/html/accept_stat.html
shinystan/inst/ShinyStan/html/citation.html
shinystan/inst/ShinyStan/html/home_page_links.html
shinystan/inst/ShinyStan/html/mcse.html
shinystan/inst/ShinyStan/html/nleapfrog.html
shinystan/inst/ShinyStan/html/contribs.html
shinystan/inst/ShinyStan/html/nuts.html
shinystan/inst/ShinyStan/html/stepsize.html
shinystan/inst/ShinyStan/text
shinystan/inst/ShinyStan/text/quick_mcse.txt
shinystan/inst/ShinyStan/text/quick_neff.txt
shinystan/inst/ShinyStan/text/quick_rhat.txt
shinystan/inst/ShinyStan/server_utils.R
shinystan/inst/doc
shinystan/inst/doc/deploy_shinystan.html
shinystan/inst/doc/shinystan-package.html
shinystan/inst/doc/deploy_shinystan.Rmd
shinystan/inst/doc/shinystan-package.Rmd
shinystan/tests
shinystan/tests/testthat.R
shinystan/tests/testthat
shinystan/tests/testthat/test_misc.R
shinystan/tests/testthat/test_creating_sso.R
shinystan/tests/testthat/stanfit2_for_tests.rda
shinystan/tests/testthat/test_using_sso.R
shinystan/tests/testthat/retrieve_sso_answers
shinystan/tests/testthat/retrieve_sso_answers/test_answer_quantiles.rds
shinystan/tests/testthat/retrieve_sso_answers/test_answer_accept_stat.rds
shinystan/tests/testthat/retrieve_sso_answers/test_answer_median.rds
shinystan/tests/testthat/retrieve_sso_answers/test_answer_treedepth.rds
shinystan/tests/testthat/retrieve_sso_answers/test_answer_mcse.rds
shinystan/tests/testthat/retrieve_sso_answers/test_answer_divergent.rds
shinystan/tests/testthat/retrieve_sso_answers/test_answer_ess.rds
shinystan/tests/testthat/retrieve_sso_answers/test_answer_rhat.rds
shinystan/tests/testthat/retrieve_sso_answers/test_answer_sd.rds
shinystan/tests/testthat/retrieve_sso_answers/test_answer_stepsize.rds
shinystan/tests/testthat/retrieve_sso_answers/test_answer_mean.rds
shinystan/tests/testthat/old_sso_for_tests.rda
shinystan/tests/testthat/data_for_retrieve_tests.R
shinystan/tests/testthat/test_deploy_shinystan.R
shinystan/NAMESPACE
shinystan/NEWS.md
shinystan/data
shinystan/data/eight_schools.rda
shinystan/R
shinystan/R/retrieve.R shinystan/R/shinystan-objects.R shinystan/R/update_sso.R shinystan/R/sso-metadata.R shinystan/R/rhat_ess_monitor_fns.R shinystan/R/drop_parameters.R shinystan/R/generate_quantity.R shinystan/R/launch_shinystan.R shinystan/R/misc.R shinystan/R/zzz.R shinystan/R/deploy_shinystan.R shinystan/R/shinystan-package.R
shinystan/vignettes
shinystan/vignettes/deploy_shinystan.Rmd
shinystan/vignettes/shinystan-package.Rmd
shinystan/MD5
shinystan/build
shinystan/build/vignette.rds
shinystan/DESCRIPTION
shinystan/man
shinystan/man/figures
shinystan/man/figures/stanlogo.png
shinystan/man/as.shinystan.Rd shinystan/man/launch_shinystan.Rd shinystan/man/update_sso.Rd shinystan/man/launch_shinystan_demo.Rd shinystan/man/retrieve.Rd shinystan/man/rename_model.Rd shinystan/man/drop_parameters.Rd shinystan/man/deploy_shinystan.Rd shinystan/man/shinystan-class.Rd shinystan/man/shinystan-metadata.Rd shinystan/man/shinystan-package.Rd shinystan/man/generate_quantity.Rd

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