├── .Rbuildignore ├── .Rprofile ├── .covrignore ├── .github ├── .gitignore └── workflows │ ├── R-CMD-check.yaml │ ├── downloads-history-plot.yaml │ ├── pkgdown.yaml │ └── test-coverage.yaml ├── .gitignore ├── DESCRIPTION ├── LICENSE.md ├── NAMESPACE ├── NEWS.md ├── R ├── adaptr-package.R ├── calibrate_trial.R ├── check_performance.R ├── check_remaining_arms.R ├── extract_results.R ├── find_beta_params.R ├── get_ys_and_draws.R ├── gp_opt.R ├── plot_convergence.R ├── plot_history.R ├── plot_metrics_ecdf.R ├── plot_status.R ├── print.R ├── prob_funs.R ├── run_trial.R ├── run_trials.R ├── setup_cluster.R ├── setup_trial.R ├── summary.R ├── test_helpers.R ├── update_saved.R ├── utils.R ├── utils_plots.R └── zzz.R ├── README.Rmd ├── README.md ├── _pkgdown.yml ├── adaptr.Rproj ├── cran-comments.md ├── inst ├── CITATION └── testdata │ ├── binom___calibration___setup2_arms__no_difference___rar.RData │ ├── binom__result__3_arms__common_control__equivalence__futility__softened.RData │ ├── binom__result__3_arms__no_control__equivalence__softened.RData │ ├── binom__result__3_arms__no_control__equivalence__softened__sparse.RData │ ├── binom__results__3_arms__common_control__equivalence__futility__softened.RData │ ├── binom__results__3_arms__no_control__equivalence__softened.RData │ ├── binom__results__3_arms__no_control__equivalence__softened__sparse.RData │ ├── binom__results__3_arms__no_control__equivalence__stopping.RData │ ├── binom__setup__3_arms__common_control__equivalence__futility__softened.RData │ ├── binom__setup__3_arms__no_control__equivalence__softened.RData │ ├── norm__result__3_arms__common_control__fixed__all_arms_fixed.RData │ ├── norm__results__3_arms__common_control__fixed__all_arms_fixed.RData │ ├── norm__setup__3_arms__common_control__fixed__all_arms_fixed.RData │ └── norm__setup__3_arms__common_control__matched__varying_probs.RData ├── man ├── adaptr-package.Rd ├── assert_pkgs.Rd ├── calculate_idp.Rd ├── calibrate_trial.Rd ├── cat0.Rd ├── check_performance.Rd ├── check_remaining_arms.Rd ├── cov_mat.Rd ├── dispatch_trial_runs.Rd ├── equivalent_funs.Rd ├── extract_history.Rd ├── extract_results.Rd ├── extract_results_batch.Rd ├── extract_statuses.Rd ├── figures │ ├── README-plot-1.png │ ├── README-plot-2.png │ ├── README-unnamed-chunk-10-1.png │ ├── README-unnamed-chunk-11-1.png │ ├── README-unnamed-chunk-12-1.png │ ├── README-unnamed-chunk-14-1.png │ ├── README-unnamed-chunk-15-1.png │ ├── README-unnamed-chunk-9-1.png │ └── adaptr.png ├── find_beta_params.Rd ├── fmt_dig.Rd ├── fmt_pct.Rd ├── get_draws_binom.Rd ├── get_draws_generic.Rd ├── get_draws_norm.Rd ├── get_ys_binom.Rd ├── get_ys_norm.Rd ├── gp_opt.Rd ├── make_x_scale.Rd ├── make_y_scale.Rd ├── plot_convergence.Rd ├── plot_history.Rd ├── plot_metrics_ecdf.Rd ├── plot_status.Rd ├── pow_abs_dist.Rd ├── print.Rd ├── prob_all_equi.Rd ├── prob_best.Rd ├── prob_better.Rd ├── prog_breaks.Rd ├── reallocate_probs.Rd ├── replace_nonfinite.Rd ├── replace_null.Rd ├── rescale.Rd ├── run_trial.Rd ├── run_trials.Rd ├── setup_cluster.Rd ├── setup_trial.Rd ├── setup_trial_binom.Rd ├── setup_trial_norm.Rd ├── stop0_warning0.Rd ├── summarise_dist.Rd ├── summarise_num.Rd ├── summary.Rd ├── update_saved_calibration.Rd ├── update_saved_trials.Rd ├── validate_trial.Rd ├── vapply_helpers.Rd ├── verify_int.Rd └── which_nearest.Rd ├── tests ├── testthat.R └── testthat │ ├── _snaps │ ├── calibrate_trial.md │ ├── calibrate_trial │ │ └── gaussian-process-based-calibration-plot.svg │ ├── check_performance.md │ ├── check_remaining_arms.md │ ├── extract.md │ ├── plot_convergence │ │ ├── convergence-plot-binomial-2-splits.svg │ │ ├── convergence-plot-binomial-prob-concl-prob-sup-idp.svg │ │ ├── convergence-plot-binomial-prob-select-arm-a.svg │ │ ├── convergence-plot-binomial-size-mean-rmse-selected.svg │ │ ├── convergence-plot-binomial-size-mean-superior.svg │ │ └── convergence-plot-binomial-size-mean.svg │ ├── plot_history │ │ ├── history-plot-binomial-multiple-pct-followed-n-2-cores.svg │ │ ├── history-plot-binomial-multiple-pct-followed-n.svg │ │ ├── history-plot-binomial-multiple-pct-total-n.svg │ │ ├── history-plot-binomial-multiple-pct.svg │ │ ├── history-plot-binomial-multiple-prob.svg │ │ ├── history-plot-binomial-single-n-look.svg │ │ ├── history-plot-binomial-single-pct-all-look.svg │ │ ├── history-plot-binomial-single-pct-look.svg │ │ ├── history-plot-binomial-single-prob-followed-n.svg │ │ ├── history-plot-binomial-single-prob-total-n.svg │ │ ├── history-plot-binomial-single-prob.svg │ │ ├── history-plot-binomial-single-ratio-ys-all-look.svg │ │ └── history-plot-binomial-single-ratio-ys-look.svg │ ├── plot_metrics_ecdf │ │ ├── errors.svg │ │ ├── no-restriction.svg │ │ ├── selected.svg │ │ ├── size-only.svg │ │ └── superior.svg │ ├── plot_status.md │ ├── plot_status │ │ ├── status-plot-across-arms-binomial.svg │ │ ├── status-plot-for-all-arms-binomial.svg │ │ └── status-plot-for-arm-c-binom.svg │ ├── 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