- use clustermq inplace of batchtools for SBC runs. Also use Lâ€™Ecuyer CMG random number gen during SBC runs.
- expand introductory vignette with plot of ESS vs robust weight
- start using
`matrixStats`

to speed up EM algorithms & OCs - avoid warning whenever 2S normal design expanded their domain when called repeatedly
- add
`mixdist`

plot when plotting a mixture resulting from *mixfit call - add warning message when printing a
`gMAP`

analysis for which the Stan sampler had issues due to divergent transitions or non-convergence as indicated by large Rhat

- mixture density evaluations (
`dmix`

) with a defined link function did not evaluate correctly, which was visible when plotting mixtures (with more than one component) with link functions

- update references to JSS publication

- link against RcppParallel to align with new Stan requirements
- address CRAN comments

- stabilize elir ESS integration by integrating per mixture component
- comply with forthcoming and stricter stanc3 Stan transpiler
- address some warnings from ggplot2 3.3.0

- fix CI system issues
- fix issues with normal decision2S_boundary when boundaries are grown
- add demo for 2S OC simulation code for time-to-event endpoint with constant hazard assumption
- drop tidyverse dependency
- expand SBC checks to include group specifc estimates
- stop setting the ggplot2 default theme when loading package. All plots now use the bayesplot theme which can be modified with bayesplot_theme_* functions. See ?bayesplot::bayesplot_theme_get.
- correct transformation issue in MAP for variances vignette - thanks to Ping Chen
- allow for constrained fitting of beta mixtures which have a & b parameters greater than 1. This is the new default behavior which the function will inform about. The informational message will be removed in a future release.
- introduced new mixecdf plot as diagnostic for EM fits

- Now really fix n2=0 case for 2S design functions for indirect comparisons
- Update package structure to new rstantools 2.0 system

- Fix vignette MAP for variances (missing definition)

- Speedup example run time
- Avoid use of cat in functions and use message instead
- Replace dontrun in examples with donttest
- Require NOT_CRAN=true for tests to run

- Work around compiler warning with clang on fedora platform

- Fix indirect comparisons to work with normal/Poisson/binomial (inexact) to allow for n2=0 in oc2S calls.
- Make mixture quantile function more robust to work with very flat mixture priors.
- Align ESS Morita calculations with Neuenschwander B. et al.,
*pre-print*2019; arXiv:1907.04185

- Introduce elir ESS method as new default for ESS
- Allow to sample prior predictive with gMAP (argument prior_PD)
- Switch internally to ab parametrized version of EM beta algorithm

- Use Simulation Based Calibration for gMAP model qualification
- Improve covariate handling (naming of data items)
- Speedup Stan model by avoiding matrix-vector products with many zeros
- Fix index issue with differential discounting when used with covariates
- Make initialization of EM algorithms more robust
- Avoid special build hacks on MacOS

- Address issue for build process on MacOS.

- Re-create vignettes with proper MCMC sampling.
- Automate R package build process using CI/CD.

- Corrected 1.3-4 release notes to include MAP for variances vignette
- Make build process more robust (updated src/Makevars{.win})
- Added probability of success at interim vignette
- Added probability of success with co-data vignette

- Make package work with rstan 2.18.1.
- Revert BetaBinomial implementation back to R functions.
- Bugfix for decision1S_boundary for normal case for extreme parameter configurations (fixes pos1S & oc1S as well).
- Bugfix for mixcombine and plot with normal mixtures without a sigma being defined.
- Bugfix for repeated calls to decision2S_boundary for normal endpoint (fixes pos2S & oc2S as well).
- Avoid use of deprecated bayesplot function arguments whenever divergencies occured.
- (corrected) Added MAP for variances vignette

- Change numerical equality testing to use expect_equal (which uses all.equal internally accounting for machine specifc tolerances) to pass tests for no long double case. Numerical tolerances are reverted back to 1.3-1 settings.

- Adjust numerical tolerances to pass tests for no long double case

- Add Trustees of Columbia copyright for respective files in DESCRIPTION

Added probability of success calculation for 1+2 sample case.

Added decision1+2S_boundary functions (and deprecated use of y2 argument of oc functions)

Added RBesT.integrate_args option for greater control over density integrations.

Correct cumulative predictive of beta mixtures to return 0/1 for out-of-range values (instead of leaving those out).

Deprecated functions oc1+2Sdecision which are replaced by decision1+2S.

- Fix plotting procedures to work with bayesplot 1.3.0

- Further speedup example runtimes.

- Compactify reference PDF manual.
- Introduce sampling arguments to gMAP.
- Shorten runtime of examples.

- First CRAN release.
- Update of documentation.

- Redesign of reference scale handling for normal case.
- Enable standard error as sufficient statistic in function.
- Introduced plotting options.
- Increased adapt_delta default and set stepsize+max_treedepth default.
- Added RBesT.MC.{ncp, init, rescale} option.
- Corrections for Poisson OC.
- pmixdiff function now integrates over full support.
- Added argument to which enables designs based on log-odds decisions or relative risks.
- New graphical vignette and new forest plot function.
- Use as standard plotting package.

- Stabilize integration in pmixdiff for beta mixtures by logit transform.
- Set default adapt_delta to 0.975.
- Made RBesT compatible with ggplot2 2.0.
- Allowed n2=0 in function.

- Corrected Poisson stratified estimates.
- Added warning on divergent transitions.
- Added the crohn dataset.

- Minor typo fixes.

- First release.