Files in escalation

A Modular Approach to Dose-Finding Clinical Trials

NEWS.md README.md R/selector.R R/phase1_tite_sim.R R/phase1_sim.R R/spread_paths.R R/select_dose_by_cibp.R R/num_cohort_outcomes.R R/trialr_efftox_selector.R R/calculate_probabilities.R R/eff_tox_selector_factory.R R/boin_selector.R R/simulations_collection.R R/phase1_2_dose_paths.R R/get_empiric_crm_skeleton_weights.R R/boin12_selector.R R/check_dose_selector_consistency.R R/boin12_logic.R R/mtpi2_selector.R R/demand_n_at_dose.R R/follow_path.R R/parse_phase1_outcomes.R R/phase1_outcomes_to_cohorts.R R/select_boin_mtd.R R/select_mtpi_mtd.R R/convergence_plot.R R/selector_factory.R R/parse_phase1_2_outcomes.R R/mtpi_selector.R R/num_dose_path_nodes.R R/tpi_selector.R R/phase1_2_sim.R R/enforce_three_plus_three.R R/expit.R R/dose_finding_path_node.R R/select_mtpi2_mtd.R R/dfcrm_selector.R R/dose_selector_summary_methods.R R/stack_sims_vert.R R/stop_at_n_selector.R R/get_dose_paths.R R/simulations.R R/simulate_compare.R R/stop_when_too_toxic.R R/three_plus_three.R R/dont_skip_doses.R R/simulate_trials.R R/dose_paths.R R/correlated_patient_sample.R R/stop_when_tox_ci_covered.R R/graph_paths.R R/eff_tox_selector.R R/select_tpi_mtd.R R/select_boin12_obd.R R/stop_when_n_at_dose_selector.R R/wages_tait_selector.R R/three_plus_three_selector.R R/linear_tolerance_weight.R R/patient_sample.R R/escalation-package.R R/phase1_2_outcomes_to_cohorts.R R/phase1_dose_paths.R R/helpers.R R/trialr_nbg_selector.R R/interface.R R/crystallised_dose_paths.R R/random_dose_selector.R R/trialr_crm_selector.R R/derived_dose_selector_factory.R R/get_potential_outcomes.R R/try_rescue_dose.R R/tox_selector_factory.R R/derived_dose_selector.R inst/doc/A700-Simulation.R inst/doc/A700-Simulation.Rmd inst/doc/A220-mTPI.R inst/doc/A100-DoseSelectors.R inst/doc/A600-DosePaths.Rmd inst/doc/A205-CRM.R inst/doc/A205-CRM.Rmd inst/doc/A210-TPI.Rmd inst/doc/A600-DosePaths.R inst/doc/A710-SimulationComparison.R inst/doc/A230-BOIN.Rmd inst/doc/A207-NBG.Rmd inst/doc/A207-NBG.R inst/doc/A100-DoseSelectors.Rmd inst/doc/A710-SimulationComparison.Rmd inst/doc/A230-BOIN.R inst/doc/A220-mTPI.Rmd inst/doc/A210-TPI.R tests/testthat.R tests/testthat/test_boin12.R tests/testthat/test_boin.R tests/testthat/test_follow_path.R tests/testthat/test_parse_phase1_outcomes.R tests/testthat/test_tpi.R tests/testthat/test_wages_tait.R tests/testthat/test_trialr_nbg.R tests/testthat/test_stop_at_n.R tests/testthat/test_stop_when_n_at_dose.R tests/testthat/test_select_dose_by_cibp.R tests/testthat/test_select_tpi_mtd.R tests/testthat/test_linear_follow_up_weight.R tests/testthat/test_trialr_efftox.R tests/testthat/test_stop_when_too_toxic.R tests/testthat/test_stop_when_tox_ci_covered.R tests/testthat/test_crystallised_dose_paths.R tests/testthat/test_patient_sample.R tests/testthat/test_trialr_crm.R tests/testthat/test_dose_paths.R tests/testthat/test_num_dose_path_nodes.R tests/testthat/test_three_plus_three.R tests/testthat/test_dfcrm.R tests/testthat/test_select_mtpi2_mtd.R tests/testthat/test_demand_n_at_dose.R tests/testthat/test_parse_phase1_2_outcomes.R tests/testthat/test_select_boin_mtd.R tests/testthat/test_mtpi2.R tests/testthat/test_random_selector.R tests/testthat/test_enforce_three_plus_three.R tests/testthat/test_mtpi.R tests/testthat/test_dont_skip_doses.R tests/testthat/test_select_mtpi_mtd.R tests/testthat/test_num_cohort_outcomes.R tests/testthat/test_try_rescue_dose.R tests/testthat/test_correlated_patient_sample.R tests/testthat/test_simulate_trials.R vignettes/A700-Simulation.Rmd vignettes/A600-DosePaths.Rmd vignettes/A205-CRM.Rmd vignettes/A210-TPI.Rmd vignettes/A230-BOIN.Rmd vignettes/A207-NBG.Rmd vignettes/A100-DoseSelectors.Rmd vignettes/A710-SimulationComparison.Rmd vignettes/A220-mTPI.Rmd man/get_trialr_crm.Rd man/simulate_compare.Rd man/median_prob_tox.Rd man/tox_limit.Rd man/stop_when_too_toxic.Rd man/select_tpi_mtd.Rd man/tox.Rd man/mean_prob_eff.Rd man/simulation_function.Rd man/dont_skip_doses.Rd man/PatientSample.Rd man/fit.Rd man/get_dose_paths.Rd man/get_trialr_nbg_tite.Rd man/get_potential_outcomes.Rd man/trial_duration.Rd man/selector_factory.Rd man/num_patients.Rd man/num_dose_path_nodes.Rd man/empiric_tox_rate.Rd man/stop_when_tox_ci_covered.Rd man/dose_admissible.Rd man/get_trialr_crm_tite.Rd man/mean_prob_tox.Rd man/weight.Rd man/eff_limit.Rd man/get_dfcrm_tite.Rd man/as_tibble.dose_paths.Rd man/stack_sims_vert.Rd man/supports_sampling.Rd man/phase1_2_outcomes_to_cohorts.Rd man/empiric_eff_rate.Rd man/prob_tox_exceeds.Rd man/calculate_probabilities.Rd man/eff_at_dose.Rd man/recommended_dose.Rd man/prob_tox_samples.Rd man/utility.Rd man/crystallised_dose_paths.Rd man/try_rescue_dose.Rd man/num_doses.Rd man/num_tox.Rd man/escalation-package.Rd man/select_dose_by_cibp.Rd man/spread_paths.Rd man/cohorts_of_n.Rd man/prob_recommend.Rd man/get_tpi.Rd man/is_randomising.Rd man/get_wages_and_tait.Rd man/n_at_dose.Rd man/get_mtpi.Rd man/simulations.Rd man/select_mtpi_mtd.Rd man/check_dose_selector_consistency.Rd man/get_boin12.Rd man/prob_eff_quantile.Rd man/prob_administer.Rd man/median_prob_eff.Rd man/phase1_outcomes_to_cohorts.Rd man/as_tibble.simulations_collection.Rd man/get_boin.Rd man/tox_target.Rd man/get_trialr_nbg.Rd man/get_trialr_efftox.Rd man/enforce_three_plus_three.Rd man/dose_paths.Rd man/simulate_trials.Rd man/follow_path.Rd man/graph_paths.Rd man/doses_given.Rd man/stop_when_n_at_dose.Rd man/get_mtpi2.Rd man/num_eff.Rd man/dose_indices.Rd man/num_cohort_outcomes.Rd man/as_tibble.selector.Rd man/three_plus_three.Rd man/convergence_plot.Rd man/parse_phase1_2_outcomes.Rd man/get_dfcrm.Rd man/get_three_plus_three.Rd man/stop_at_n.Rd man/CorrelatedPatientSample.Rd man/dose_paths_function.Rd man/selector.Rd man/prob_tox_quantile.Rd man/get_empiric_crm_skeleton_weights.Rd man/demand_n_at_dose.Rd man/tox_at_dose.Rd man/eff.Rd man/model_frame.Rd man/n_at_recommended_dose.Rd man/get_random_selector.Rd man/parse_phase1_outcomes.Rd man/select_boin_mtd.Rd man/cohort.Rd man/select_mtpi2_mtd.Rd man/continue.Rd man/select_boin12_obd.Rd man/simulations_collection.Rd man/linear_follow_up_weight.Rd