• Initial support for CmdStanMCMC objects from CmdStanR

• Moved rsconnect package from Imports to Suggests as requested by CRAN

Notes:

• New website with online documentation: http://mc-stan.org/shinystan

• Fixed problem with extracting info from fits reconstructed from CSV files (#128,#158), thanks to @martinmodrak

• launch_shinystan is now an S3 generic with methods. This allows developers of packages that use shinystan to create their own launch_shinystan methods instead of using a different function name or creating a naming conflict.

Fixes

• Fix various issues resulting in errors for models fit using static HMC (thanks to Cole Monnahan).
• Deprecate burnin argument to as.shinystan. Use warmup instead. Only relevant for models not fit using Stan.

New features

• Add NUTS energy diagnostic plots to Diagnose page
• Allowing passing sampler_params to as.shinystan. This makes it possible to display sampler diagnositcs for HMC/NUTS even if not using Stan's implementation of those algorithms (thanks to Cole Monnahan).

Installation

Installation instructions for the latest version of the shinystan R package

Notes

• Compatibility with latest releases of the shinyjs and DT packages
• shinystan::launch_shinystan_demo() now works without first having to load the package with a call to library
• Unless running on a server, the app now stops running when browser tab is closed

Installation

Installation instructions for the latest version of the shinystan R package

Notes

• Add optional argument pars to the as.shinystan method for stanfit objects, allowing a subset of parameters to be selected for inclusion in the resulting shinystan object.
• Introduce drop_parameters function for removing parameters from a shinystan object (useful for very large objects when you only want to look at a subset of parameters).
• Allow selecting yrep from global environment for posterior predictive checks.
• Change as.shinystan to S4 generic with methods.
• Rename some of the internal slots in shinystan objects. The update_sso function can be used to ensure that old shinystan objects have an internal structure compatible with this release.
• Improve line coverage of api tests.
• In DESCRIPTION, add rsconnect to Imports, move rstan from Suggests to Imports, add rstanarm to Suggests.

Installation

Installation instructions for the latest version of the shinystan R package

Notes

• Compatibility with recent ggplot2 update
• Select parameters via regular expressions in parameters plot ('Estimate' page)
• Fix error when selecting an entire parameter group in parameters plot ('Estimate' page)

Installation

Installation instructions for the latest version of the shinystan R package

Notes

• Fixes small bugs and typos
• Adds support for stanreg objects
• Moves ggplot2 from Depends to Imports

Installation

Installation instructions for the latest version of the shinystan R package

Notes

Version 2.0.0 has a new look, a new(ish) name, and a lot of new functionality. Many bugs have also been fixed (see issue tracker).

Names

• The name of the R package is shinystan and the app/GUI is ShinyStan.

Deploy ShinyStan apps to shinyapps.io (RStudio's ShinyApps service)

• The deploy_shinystan function lets you easily deploying ShinyStan apps to RStudio's shinyapps.io for any of your models. Each of your apps (i.e. each of your models) will have a unique url.

Some of the new features in ShinyStan app

• Rebranding (new look to reflect changes to Stan logo and website)
• Interactive HMC/NUTS diagnostic plots ('Diagnose' page, 'NUTS (plots)' tab)
• Specify transformations (e.g. log, logit, sqrt, etc.) for density, histogram, bivariate, trivariate plots (on 'Explore' page) and NUTS diagnostics plots.
• Many plots can now also be saved as pdf
• Bivariate scatterplot plot also shows divergent transitions and max treedepth saturation (on 'Explore' page)
• More detailed glossary entries
• (Experimental) Introduce basic graphical posterior predictive checking ('Diagnose' page, 'PPcheck' tab) for limited class of models
• Option to show partial autocorrelations ('Diagnose' page, 'Autocorrelation' tab)
• Better customization of of posterior summary statistics table
• Many improvements to GUI design

Initial release

shinyStan is an R package and Shiny app for exploring Markov chain Monte Carlo output via interactive visualizations and tables.

For installation instructions see Installing shinyStan.