Files in benenns/OUD-Model
Semi-Markov Decision Model
.Rbuildignore
.Rhistory
.gitignore
01_deterministic_analysis.Rmd
01_deterministic_analysis.html
02_DSA.Rmd
02_DSA.html
Additional Code/00_benchmark.R
Additional Code/CascadeCEA-Interventions-3-Plot-Ellipse(PSA).R
Additional Code/OPTIMA_Extra_Code.R
Additional Code/OPTIMA_TEST.R
Additional Code/OPTIMA_rate_prob_conversions.R
Additional Code/OPTIMA_sandbox.R
Additional Code/SAMPLE_CALIB_CODE.R
Additional Code/combine_PSA.R
Additional Code/deterministic_analysis_functions.R
Additional Code/generate_psa_parameter_functions.R
Additional Code/model_debug.R
Additional Code/sensitivity_analysis_functions.R
Additional Code/validation_functions.R
Analysis/00_load_parameters.R
Analysis/01_calibration.R
Analysis/02_trace_plots.R
Analysis/03_main_analysis.R
Analysis/04_PSA.R
Analysis/05_DSA-costs.R
Analysis/05_DSA-overdose.R
Analysis/05_DSA-qalys.R
Analysis/05_DSA-threshold.R
Analysis/05_DSA-tornado.R
Analysis/05_DSA-transitions.R
Analysis/05_DSA.R
Analysis/model_benchmark.R
DESCRIPTION
Data/2016-2018_Tbl-eng.xlsx
Data/Archive/CA_EB_Replication/CA_EB_Trace.docx
Data/Archive/CA_EB_Replication/CA_TEST_TDP.csv
Data/Archive/CA_EB_Replication/CombinedInputs-V27-EvidenceBased.xlsx
Data/Archive/CA_EB_Replication/all_cause_mortality_CA_EB.csv
Data/Archive/CA_EB_Replication/costs_CA_EB.csv
Data/Archive/CA_EB_Replication/crime_costs_CA_EB.csv
Data/Archive/CA_EB_Replication/death_hr_CA_EB.csv
Data/Archive/CA_EB_Replication/frailty_CA_EB.csv
Data/Archive/CA_EB_Replication/hiv_sero_CA_EB.csv
Data/Archive/CA_EB_Replication/init_dist_CA_EB.csv
Data/Archive/CA_EB_Replication/init_params_CA_EB.csv
Data/Archive/CA_EB_Replication/qalys_CA_EB.csv
Data/Archive/CA_EB_Replication/unconditional_TP_CA_EB.csv
Data/Archive/CA_EB_Replication/weibull_scale_CA_EB.csv
Data/Archive/CA_EB_Replication/weibull_shape_CA_EB.csv
Data/Archive/Original Specification/costs.csv
Data/Archive/Original Specification/crime_costs.csv
Data/Archive/Original Specification/init_params.csv
Data/Archive/Original Specification/qalys.csv
Data/Archive/Original Specification/unconditional.csv
Data/Archive/Original Specification/weibull.csv
Data/Archive/costs.csv
Data/Archive/crime_costs.csv
Data/Archive/crime_costs_age.csv
Data/Archive/frailty.csv
Data/Archive/init_params.csv
Data/Archive/qalys.csv
Data/Archive/unconditional.csv
Data/Archive/weibull.csv
Data/Archive/weibull_scale.csv
Data/Archive/weibull_shape.csv
Data/Calibration/fentanyl.csv
Data/Calibration/init_params.csv
Data/Calibration/unconditional.csv
Data/Calibration/weibull.csv
Data/DSA/Modified Model Specification/DSA_tornado_labels.csv
Data/DSA/Modified Model Specification/DSA_tornado_labels_costs.csv
Data/DSA/Modified Model Specification/DSA_tornado_labels_qalys.csv
Data/DSA/Modified Model Specification/HRU_costs.csv
Data/DSA/Modified Model Specification/crime_costs.csv
Data/DSA/Modified Model Specification/qalys.csv
Data/DSA/Modified Model Specification/threshold.csv
Data/DSA/Modified Model Specification/threshold_AB.csv
Data/DSA/Modified Model Specification/threshold_BC.csv
Data/DSA/Modified Model Specification/threshold_CAN.csv
Data/DSA/Modified Model Specification/threshold_ON.csv
Data/DSA/Modified Model Specification/threshold_QC.csv
Data/DSA/fentanyl.csv
Data/DSA/frailty.csv
Data/DSA/overdose.csv
Data/Modified Model Specification/Archive/unconditional-OUD-cohort.csv
Data/Modified Model Specification/Archive/unconditional_Mar14.csv
Data/Modified Model Specification/May-6-2022/unconditional.csv
Data/Modified Model Specification/May-6-2022/weibull.csv
Data/Modified Model Specification/costs.csv
Data/Modified Model Specification/crime_costs.csv
Data/Modified Model Specification/init_params.csv
Data/Modified Model Specification/qalys.csv
Data/Modified Model Specification/unconditional.csv
Data/Modified Model Specification/weibull.csv
Data/PSA/qalys_3l_MMS.csv
Data/PSA/qalys_3l_TS.csv
Data/Trial Specification/Archive/crime_costs.csv
Data/Trial Specification/Archive/qalys.csv
Data/Trial Specification/Archive/unconditional_bup_Mar14.csv
Data/Trial Specification/Archive/unconditional_bup_Mar8.csv
Data/Trial Specification/Archive/unconditional_met_Mar14.csv
Data/Trial Specification/Archive/unconditional_met_Mar8.csv
Data/Trial Specification/Archive/weibull_OPTIMA_data.csv
Data/Trial Specification/costs.csv
Data/Trial Specification/costs_bup.csv
Data/Trial Specification/costs_met.csv
Data/Trial Specification/crime_costs_bup.csv
Data/Trial Specification/crime_costs_met.csv
Data/Trial Specification/init_params.csv
Data/Trial Specification/qalys_bup.csv
Data/Trial Specification/qalys_met.csv
Data/Trial Specification/unconditional_bup.csv
Data/Trial Specification/unconditional_met.csv
Data/Trial Specification/weibull.csv
Data/all_cause_mortality.csv
Data/cali_target_odf.csv
Data/cali_target_odn.csv
Data/data_all_cause_mortality.R
Data/data_calib_post_dist.R
Data/data_calib_post_map.R
Data/data_calibration_targets.R
Data/data_cea_psa.R
Data/data_init_params.R
Data/data_posterior_summ.R
Data/data_psa_object.R
Data/death_hr.csv
Data/fentanyl.csv
Data/frailty.csv
Data/hcv_sero.csv
Data/hiv_sero.csv
Data/init_dist.csv
Data/init_dist_bup.csv
Data/init_dist_met.csv
Data/overdose.csv
OPTIMA-Model.Rproj
Plots/Benchmark/Office Desktop/model_benchmark_PSA.png
Plots/Benchmark/Office Desktop/model_benchmark_PSA_5yr.png
Plots/Benchmark/Office Desktop/model_benchmark_PSA_lifetime.png
Plots/Benchmark/archive/model_benchmark_cali.png
Plots/Benchmark/model_benchmark.png
Plots/Benchmark/model_benchmark_PSA.png
Plots/Benchmark/model_benchmark_cali.png
Plots/Calibration/Archive/Feb-2-2022/posterior_distribution_joint.png
Plots/Calibration/Archive/Feb-2-2022/posterior_distribution_marginal.png
Plots/Calibration/Archive/Feb-2-2022/prior-v-posterior.pdf
Plots/Calibration/Archive/Feb-2-2022/prior-v-posterior.png
Plots/Calibration/Archive/Feb-2-2022/target-fit-ODF.png
Plots/Calibration/Archive/Feb-2-2022/target-fit-ODN.png
Plots/Calibration/Archive/Feb-3-2022 (Gamma-base)/posterior_distribution_joint.png
Plots/Calibration/Archive/Feb-3-2022 (Gamma-base)/posterior_distribution_marginal.png
Plots/Calibration/Archive/Feb-3-2022 (Gamma-base)/prior-v-posterior.pdf
Plots/Calibration/Archive/Feb-3-2022 (Gamma-base)/prior-v-posterior.png
Plots/Calibration/Archive/Feb-3-2022 (Gamma-base)/target-fit-ODF.png
Plots/Calibration/Archive/Feb-3-2022 (Gamma-base)/target-fit-ODN.png
Plots/Calibration/Archive/Feb-7-2022/posterior_distribution_joint.png
Plots/Calibration/Archive/Feb-7-2022/posterior_distribution_marginal.png
Plots/Calibration/Archive/Feb-7-2022/prior-v-posterior.pdf
Plots/Calibration/Archive/Feb-7-2022/prior-v-posterior.png
Plots/Calibration/Archive/Feb-7-2022/target-fit-ODF.png
Plots/Calibration/Archive/Feb-7-2022/target-fit-ODN.png
Plots/Calibration/Archive/Jan-14-2022/prior-v-posterior.pdf
Plots/Calibration/Archive/Jan-14-2022/prior-v-posterior.png
Plots/Calibration/Archive/Jan-14-2022/target-fit-ODF.png
Plots/Calibration/Archive/Jan-14-2022/target-fit-ODN.png
Plots/Calibration/Archive/Jan-19-2022/cali_base_od_prior_post.pdf
Plots/Calibration/Archive/Jan-19-2022/posterior_distribution_joint.png
Plots/Calibration/Archive/Jan-19-2022/posterior_distribution_marginal.png
Plots/Calibration/Archive/Jan-19-2022/prior-v-posterior.pdf
Plots/Calibration/Archive/Jan-19-2022/prior-v-posterior.png
Plots/Calibration/Archive/Jan-19-2022/target-fit-ODF.png
Plots/Calibration/Archive/Jan-19-2022/target-fit-ODN.png
Plots/Calibration/Archive/Jan-20-2022/posterior_distribution_joint.png
Plots/Calibration/Archive/Jan-20-2022/posterior_distribution_marginal.png
Plots/Calibration/Archive/Jan-20-2022/prior-v-posterior.pdf
Plots/Calibration/Archive/Jan-20-2022/prior-v-posterior.png
Plots/Calibration/Archive/Jan-20-2022/target-fit-ODF.png
Plots/Calibration/Archive/Jan-20-2022/target-fit-ODN.png
Plots/Calibration/Archive/Mar-15-2022/posterior_distribution_marginal.png
Plots/Calibration/Archive/Mar-15-2022/prior-v-posterior.pdf
Plots/Calibration/Archive/Mar-15-2022/prior-v-posterior.png
Plots/Calibration/Archive/Mar-15-2022/target-fit-ODF.png
Plots/Calibration/Archive/Mar-15-2022/target-fit-ODN.png
Plots/Calibration/Archive/Mar-16-2022/posterior_distribution_marginal.png
Plots/Calibration/Archive/Mar-16-2022/prior-v-posterior.pdf
Plots/Calibration/Archive/Mar-16-2022/prior-v-posterior.png
Plots/Calibration/Archive/Mar-16-2022/target-fit-ODF.png
Plots/Calibration/Archive/Mar-16-2022/target-fit-ODN.png
Plots/Calibration/Archive/May-6-2022/posterior_distribution_joint.png
Plots/Calibration/Archive/May-6-2022/posterior_distribution_marginal.png
Plots/Calibration/Archive/May-6-2022/prior-v-posterior.pdf
Plots/Calibration/Archive/May-6-2022/prior-v-posterior.png
Plots/Calibration/Archive/May-6-2022/target-fit-ODF.png
Plots/Calibration/Archive/May-6-2022/target-fit-ODN.png
Plots/Calibration/posterior_distribution_joint.png
Plots/Calibration/posterior_distribution_marginal.png
Plots/Calibration/prior-v-posterior.pdf
Plots/Calibration/prior-v-posterior.png
Plots/Calibration/target-fit-ODF.png
Plots/Calibration/target-fit-ODN.png
Plots/Calibration/target-fit-comb.png
Plots/DSA/Archive/DSA-BNX-threshold-costs-MMS.png
Plots/DSA/Archive/DSA-BNX-threshold-qalys-MMS.png
Plots/DSA/Archive/tornado_overdose_costs.png
Plots/DSA/Archive/tornado_overdose_qalys.png
Plots/DSA/Archive/tornado_transitions_costs.png
Plots/DSA/Archive/tornado_transitions_qalys.png
Plots/DSA/Modified Model Spec/tornado_costs.png
Plots/DSA/Modified Model Spec/tornado_qalys.png
Plots/DSA/Threshold SA/Archive/DSA-BNX-threshold-costs-MMS.png
Plots/DSA/Threshold SA/Archive/DSA-BNX-threshold-costs-TS.png
Plots/DSA/Threshold SA/Archive/DSA-BNX-threshold-icer-MMS.png
Plots/DSA/Threshold SA/Archive/DSA-BNX-threshold-icer-TS.png
Plots/DSA/Threshold SA/Archive/DSA-BNX-threshold-qalys-MMS.png
Plots/DSA/Threshold SA/Archive/DSA-BNX-threshold-qalys-TS.png
Plots/DSA/Threshold SA/DSA-BNX-threshold-combined-MMS.png
Plots/DSA/Threshold SA/DSA-BNX-threshold-costs-MMS.png
Plots/DSA/Threshold SA/DSA-BNX-threshold-qalys-MMS.png
Plots/Markov Trace/Archive/Trial Spec/Archive/full_trace_BUP.pdf
Plots/Markov Trace/Archive/Trial Spec/Archive/full_trace_MET.pdf
Plots/Markov Trace/Archive/Trial Spec/full_trace_BUP_TS.pdf
Plots/Markov Trace/Archive/Trial Spec/full_trace_MET_TS.pdf
Plots/Markov Trace/Archive/full_trace.pdf
Plots/Markov Trace/Archive/time_states.pdf
Plots/Markov Trace/Archive/time_states_CA_EB.pdf
Plots/Markov Trace/Archive/time_states_CA_EB.png
Plots/Markov Trace/Archive/trace_sero.pdf
Plots/Markov Trace/Archive/trace_states.pdf
Plots/Markov Trace/Archive/trace_states_CA_EB.pdf
Plots/Markov Trace/Archive/trace_states_CA_EB.png
Plots/Markov Trace/Archive/trace_states_full_OPTIMA_model.pdf
Plots/Markov Trace/Modified Model Spec/Archive/May-8-2022/full_trace_BUP_MMS.pdf
Plots/Markov Trace/Modified Model Spec/Archive/May-8-2022/full_trace_MET_MMS.pdf
Plots/Markov Trace/Modified Model Spec/Archive/May-8-2022/trace_sero_BUP.pdf
Plots/Markov Trace/Modified Model Spec/Archive/May-8-2022/trace_sero_MET.pdf
Plots/Markov Trace/Modified Model Spec/full_trace_BUP_MMS.pdf
Plots/Markov Trace/Modified Model Spec/full_trace_BUP_MMS.png
Plots/Markov Trace/Modified Model Spec/full_trace_MET_MMS.pdf
Plots/Markov Trace/Modified Model Spec/full_trace_MET_MMS.png
Plots/Markov Trace/Modified Model Spec/trace_sero_BUP.pdf
Plots/Markov Trace/Modified Model Spec/trace_sero_MET.pdf
Plots/PSA/Archive/Jan-28-2022/PSA-MMS-1yr-Health-Sector.png
Plots/PSA/Archive/Jan-28-2022/PSA-MMS-1yr.png
Plots/PSA/Archive/Jan-28-2022/PSA-MMS-5yr-Health-Sector.png
Plots/PSA/Archive/Jan-28-2022/PSA-MMS-5yr.png
Plots/PSA/Archive/Jan-28-2022/PSA-TS-1yr-Health-Sector.png
Plots/PSA/Archive/Jan-28-2022/PSA-TS-1yr.png
Plots/PSA/Archive/Jan-28-2022/PSA-TS-5yr-Health-Sector.png
Plots/PSA/Archive/Jan-28-2022/PSA-TS-5yr.png
Plots/PSA/Archive/Jun-21-2022/PSA-Ellipse-zoom.png
Plots/PSA/Archive/Jun-21-2022/PSA-Ellipse.png
Plots/PSA/Archive/Jun-21-2022/PSA-MMS-10yr-Health-Sector.png
Plots/PSA/Archive/Jun-21-2022/PSA-MMS-10yr.png
Plots/PSA/Archive/Jun-21-2022/PSA-MMS-6mo-Health-Sector.png
Plots/PSA/Archive/Jun-21-2022/PSA-MMS-6mo.png
Plots/PSA/Archive/Mar-29-2022/PSA-Ellipse-zoom.png
Plots/PSA/Archive/Mar-29-2022/PSA-Ellipse.png
Plots/PSA/Archive/Mar-29-2022/PSA-MMS-1yr-Health-Sector.png
Plots/PSA/Archive/Mar-29-2022/PSA-MMS-1yr.png
Plots/PSA/Archive/Mar-29-2022/PSA-MMS-5yr-Health-Sector.png
Plots/PSA/Archive/Mar-29-2022/PSA-MMS-5yr.png
Plots/PSA/Archive/Mar-29-2022/PSA-TS-1yr-Health-Sector.png
Plots/PSA/Archive/Mar-29-2022/PSA-TS-1yr.png
Plots/PSA/Archive/Nov-08-2022/PSA-Ellipse.png
Plots/PSA/PSA-Ellipse.png
Plots/posterior_distribution_joint.png
Plots/posterior_distribution_marginal.png
Previous Code/OPTIMA-00-input_parameters.R
Previous Code/OPTIMA_00_input_parameter_functions_CA_TEST.R
Previous Code/OPTIMA_01_model_setup_functions_CA_TEST.R
Previous Code/OPTIMA_03_calibration_functions.R
Previous Code/OPTIMA_05_trace_plot_ICER_functions.R
Previous Code/OPTIMA_05a_probabilistic_analysis_functions.R
Previous Code/OPTIMA_05a_trace_plot_functions_CA_TEST.R
Previous Code/OPTIMA_05b_deterministic_analysis_functions.R
Previous Code/OPTIMA_Test_Trace_Module.R
Previous Code/PSA-CE-Plane_v4_RR2.R
R/ICER_functions.R
R/calibration_functions.R
R/generate_psa_parameters.R
R/input_parameter_functions.R
R/model_setup_functions.R
R/open_guide.R
R/plot_functions.R
README.Rmd
README.md
Reports/01_deterministic_analysis.Rmd
checks/PSA/df_dirichlet_UP.csv
checks/UP/a_UP_1.csv
checks/UP/a_UP_2.csv
checks/UP/a_UP_3.csv
checks/UP/a_UP_first_1.csv
checks/UP/a_UP_first_2.csv
checks/UP/a_UP_first_3.csv
checks/archive/K2.csv
checks/archive/K3.csv
checks/archive/OD_prob.csv
checks/archive/df_UP.csv
checks/archive/df_dirichlet_UP.csv
checks/archive/initial_full.csv
checks/archive/m_M_agg_trace.csv
checks/archive/m_UP.csv
checks/archive/m_UP_4wk.csv
checks/archive/n_samp.csv
checks/archive/priors.csv
checks/df_dirichlet_UP.csv
checks/full array/array_2018_1m.csv
checks/full array/array_2018_24m.csv
checks/full array/array_2018_last.csv
checks/full array/array_2019_1m.csv
checks/full array/array_2019_24m.csv
checks/full array/array_2019_last.csv
checks/full array/array_2020_1m.csv
checks/full array/array_2020_24m.csv
checks/full array/array_2020_last.csv
checks/full trace array/a_M_trace_1.csv
checks/full trace array/a_M_trace_2.csv
checks/full trace array/a_M_trace_3.csv
checks/initial/v_s_init.csv
checks/mortality/m_mort.csv
checks/overdose/m_ODF.csv
checks/overdose/m_ODF_first.csv
checks/overdose/m_ODN.csv
checks/overdose/m_ODN_first.csv
checks/overdose/overdose_check_trace.csv
checks/state transitions/a_TDP_post_OD_2018.csv
checks/state transitions/a_TDP_post_OD_2019.csv
checks/state transitions/a_TDP_post_OD_2020.csv
checks/state transitions/a_TDP_pre_OD_2018.csv
checks/state transitions/a_TDP_pre_OD_2019.csv
checks/state transitions/a_TDP_pre_OD_2020.csv
checks/state transitions/a_UP_2018.csv
checks/state transitions/a_UP_2019.csv
checks/state transitions/a_UP_2020.csv
checks/state transitions/a_UP_first_2018.csv
checks/state transitions/a_UP_first_2019.csv
checks/state transitions/a_UP_first_2020.csv
checks/state-time dependent transitions/m_TDP_1.csv
checks/state-time dependent transitions/m_TDP_1_non_OD.csv
checks/state-time dependent transitions/m_TDP_2.csv
checks/state-time dependent transitions/m_TDP_2_non_OD.csv
checks/state-time dependent transitions/m_TDP_3.csv
checks/state-time dependent transitions/m_TDP_3_non_OD.csv
checks/state-time dependent transitions/m_leave_1.csv
checks/state-time dependent transitions/m_leave_1_non_OD.csv
checks/state-time dependent transitions/m_leave_2.csv
checks/state-time dependent transitions/m_leave_2_non_OD.csv
checks/state-time dependent transitions/m_leave_3.csv
checks/state-time dependent transitions/m_leave_3_non_OD.csv
docs/404.html
docs/authors.html
docs/bootstrap-toc.css
docs/bootstrap-toc.js
docs/docsearch.css
docs/docsearch.js
docs/index.html
docs/link.svg
docs/pkgdown.css
docs/pkgdown.js
docs/pkgdown.yml
docs/reference/index.html
outputs/Archive/May-5-2022/main_output_det_MMS.csv
outputs/Archive/May-5-2022/main_output_det_TS.csv
outputs/Archive/main_output_det_TS.csv
outputs/Calibration/Archive/Feb-2-2022/imis_output.RData
outputs/Calibration/Archive/Feb-2-2022/summary_posterior.RData
outputs/Calibration/Archive/Feb-3-2022 (Gamma-base)/imis_output.RData
outputs/Calibration/Archive/Feb-3-2022 (Gamma-base)/summary_posterior.RData
outputs/Calibration/Archive/Jan-20-2022/imis_output.RData
outputs/Calibration/Archive/Jan-20-2022/summary_posterior.RData
outputs/Calibration/Archive/Jun-27-2022 (Main 5000)/calibration_log.txt
outputs/Calibration/Archive/Jun-27-2022 (Main 5000)/imis_output.RData
outputs/Calibration/Archive/Jun-27-2022 (Main 5000)/model_targets_ODF.RData
outputs/Calibration/Archive/Jun-27-2022 (Main 5000)/model_targets_ODN.RData
outputs/Calibration/Archive/Jun-27-2022 (Main 5000)/summary_posterior.RData
outputs/Calibration/Archive/Mar-15-2022 (Unif-Fentanyl)/imis_output.RData
outputs/Calibration/Archive/Mar-15-2022 (Unif-Fentanyl)/summary_posterior.RData
outputs/Calibration/Archive/Mar-16-2022/imis_output.RData
outputs/Calibration/Archive/Mar-16-2022/summary_posterior.RData
outputs/Calibration/Archive/May-6-2022/imis_output.RData
outputs/Calibration/Archive/May-6-2022/summary_posterior.RData
outputs/Calibration/cali_stats.RData
outputs/Calibration/cali_stats.csv
outputs/Calibration/calibration_log.txt
outputs/Calibration/imis_output.RData
outputs/Calibration/model_targets_ODF.RData
outputs/Calibration/model_targets_ODN.RData
outputs/Calibration/summary_posterior.RData
outputs/DSA/Archive/Trial Specification/df_threshold_TS.RData
outputs/DSA/Archive/Trial Specification/ftable_crime_costs_TS_out.RData
outputs/DSA/Archive/Trial Specification/ftable_overdose_fatal_costs_TS_out.RData
outputs/DSA/Archive/Trial Specification/ftable_overdose_fatal_qalys_TS_out.RData
outputs/DSA/Archive/Trial Specification/ftable_overdose_nonfatal_costs_TS_out.RData
outputs/DSA/Archive/Trial Specification/ftable_overdose_nonfatal_qalys_TS_out.RData
outputs/DSA/Archive/Trial Specification/ftable_qalys_TS_out.RData
outputs/DSA/Modified Model Specification/df_costs_MMS.RData
outputs/DSA/Modified Model Specification/df_overdose_costs_MMS.RData
outputs/DSA/Modified Model Specification/df_overdose_qalys_MMS.RData
outputs/DSA/Modified Model Specification/df_qalys_MMS.RData
outputs/DSA/Modified Model Specification/df_threshold_MMS.RData
outputs/DSA/Modified Model Specification/df_transitions_costs_MMS.RData
outputs/DSA/Modified Model Specification/df_transitions_qalys_MMS.RData
outputs/DSA/Modified Model Specification/ftable_crime_costs_TS_out.RData
outputs/DSA/Modified Model Specification/ftable_crime_costs_out.RData
outputs/DSA/Modified Model Specification/ftable_overdose_fatal_costs_MMS_out.RData
outputs/DSA/Modified Model Specification/ftable_overdose_fatal_qalys_MMS_out.RData
outputs/DSA/Modified Model Specification/ftable_overdose_nonfatal_costs.RData
outputs/DSA/Modified Model Specification/ftable_overdose_nonfatal_costs_MMS_out.RData
outputs/DSA/Modified Model Specification/ftable_overdose_nonfatal_costs_TS_out.RData
outputs/DSA/Modified Model Specification/ftable_overdose_nonfatal_qalys.RData
outputs/DSA/Modified Model Specification/ftable_overdose_nonfatal_qalys_MMS_out.RData
outputs/DSA/Modified Model Specification/ftable_overdose_nonfatal_qalys_TS_out.RData
outputs/DSA/Modified Model Specification/ftable_qalys_out.RData
outputs/ICER/Archive/May-5-2022/icer_det_MMS.csv
outputs/ICER/Archive/May-5-2022/icer_det_TS.csv
outputs/ICER/Archive/May-5-2022/incremental_det_MMS.csv
outputs/ICER/Archive/May-5-2022/incremental_det_TS.csv
outputs/ICER/Archive/icer_det_TS.csv
outputs/ICER/Archive/incremental_det_TS.csv
outputs/ICER/icer_det_MMS.csv
outputs/ICER/incremental_det_MMS.RData
outputs/ICER/incremental_det_MMS.csv
outputs/PSA/Archive/ICER_PSA.RData
outputs/PSA/Archive/ICER_PSA.csv
outputs/PSA/Archive/ICER_PSA_MMS.csv
outputs/PSA/Archive/ICER_PSA_qalys_3L_MMS.csv
outputs/PSA/Archive/Trial Specification/Archive/ICER_PSA_qalys_3L_TS.RData
outputs/PSA/Archive/Trial Specification/Archive/ICER_PSA_qalys_3L_TS.csv
outputs/PSA/Archive/Trial Specification/Archive/incremental_PSA_qalys_3L_TS.RData
outputs/PSA/Archive/Trial Specification/Archive/incremental_PSA_qalys_3L_TS.csv
outputs/PSA/Archive/Trial Specification/Archive/outcomes_BUP_PSA_qalys_3L_TS.RData
outputs/PSA/Archive/Trial Specification/Archive/outcomes_BUP_PSA_qalys_3L_TS.csv
outputs/PSA/Archive/Trial Specification/Archive/outcomes_MET_PSA_qalys_3L_TS.RData
outputs/PSA/Archive/Trial Specification/Archive/outcomes_MET_PSA_qalys_3L_TS.csv
outputs/PSA/Archive/Trial Specification/ICER_PSA_TS.RData
outputs/PSA/Archive/Trial Specification/ICER_PSA_TS.csv
outputs/PSA/Archive/Trial Specification/incremental_PSA_MMS.RData
outputs/PSA/Archive/Trial Specification/incremental_PSA_TS.RData
outputs/PSA/Archive/Trial Specification/incremental_PSA_TS.csv
outputs/PSA/Archive/Trial Specification/input_PSA_BUP_TS.csv
outputs/PSA/Archive/Trial Specification/input_PSA_MET_TS.csv
outputs/PSA/Archive/Trial Specification/outcomes_BUP_PSA_TS.RData
outputs/PSA/Archive/Trial Specification/outcomes_BUP_PSA_TS.csv
outputs/PSA/Archive/Trial Specification/outcomes_MET_PSA_TS.RData
outputs/PSA/Archive/Trial Specification/outcomes_MET_PSA_TS.csv
outputs/PSA/Archive/Work Desktop (1000 runs)/ICER_PSA_MMS.csv
outputs/PSA/Archive/Work Desktop (1000 runs)/incremental_PSA_MMS.csv
outputs/PSA/Archive/Work Desktop (Mar25)/ICER_PSA_MMS.RData
outputs/PSA/Archive/Work Desktop (Mar25)/ICER_PSA_MMS.csv
outputs/PSA/Archive/Work Desktop (Mar25)/incremental_PSA_MMS.RData
outputs/PSA/Archive/Work Desktop (Mar25)/incremental_PSA_MMS.csv
outputs/PSA/Archive/Work Desktop (Mar25)/outcomes_BUP_PSA_MMS.RData
outputs/PSA/Archive/Work Desktop (Mar25)/outcomes_BUP_PSA_MMS.csv
outputs/PSA/Archive/Work Desktop (Mar25)/outcomes_MET_PSA_MMS.RData
outputs/PSA/Archive/Work Desktop (Mar25)/outcomes_MET_PSA_MMS.csv
outputs/PSA/Archive/incremental_PSA_MMS.csv
outputs/PSA/Archive/incremental_PSA_qalys_3L_MMS.csv
outputs/PSA/Archive/outcomes_BUP_PSA.RData
outputs/PSA/Archive/outcomes_BUP_PSA.csv
outputs/PSA/Archive/outcomes_MET_PSA.RData
outputs/PSA/Archive/outcomes_MET_PSA.csv
outputs/PSA/Modified Model Specification/Archive/ICER_PSA_MMS.RData
outputs/PSA/Modified Model Specification/Archive/ICER_PSA_qalys_3L_MMS.RData
outputs/PSA/Modified Model Specification/Archive/Jan-25-2022/ICER_PSA_MMS.RData
outputs/PSA/Modified Model Specification/Archive/Jan-25-2022/incremental_PSA_MMS.RData
outputs/PSA/Modified Model Specification/Archive/Jan-25-2022/outcomes_BUP_PSA_MMS.RData
outputs/PSA/Modified Model Specification/Archive/Jan-25-2022/outcomes_BUP_PSA_MMS.csv
outputs/PSA/Modified Model Specification/Archive/Jan-25-2022/outcomes_MET_PSA_MMS.RData
outputs/PSA/Modified Model Specification/Archive/Jan-25-2022/outcomes_MET_PSA_MMS.csv
outputs/PSA/Modified Model Specification/Archive/Work Desktop 1000 runs lifetime/ICER_PSA_MMS.RData
outputs/PSA/Modified Model Specification/Archive/Work Desktop 1000 runs lifetime/ICER_PSA_MMS.csv
outputs/PSA/Modified Model Specification/Archive/Work Desktop 1000 runs lifetime/incremental_PSA_MMS.RData
outputs/PSA/Modified Model Specification/Archive/Work Desktop 1000 runs lifetime/input_PSA_MMS.csv
outputs/PSA/Modified Model Specification/Archive/Work Desktop 1000 runs lifetime/outcomes_BUP_PSA_MMS.RData
outputs/PSA/Modified Model Specification/Archive/Work Desktop 1000 runs lifetime/outcomes_BUP_PSA_MMS.csv
outputs/PSA/Modified Model Specification/Archive/Work Desktop 1000 runs lifetime/outcomes_MET_PSA_MMS.RData
outputs/PSA/Modified Model Specification/Archive/Work Desktop 1000 runs lifetime/outcomes_MET_PSA_MMS.csv
outputs/PSA/Modified Model Specification/Archive/Work Desktop 1000 runs lifetime/summary_ICER_PSA_MMS.csv
outputs/PSA/Modified Model Specification/Archive/Work Desktop 1000 runs lifetime/summary_incremental_PSA_MMS.csv
outputs/PSA/Modified Model Specification/Archive/Work Desktop 1000 runs lifetime/summary_outcomes_BUP_PSA_MMS.csv
outputs/PSA/Modified Model Specification/Archive/Work Desktop 1000 runs lifetime/summary_outcomes_MET_PSA_MMS.csv
outputs/PSA/Modified Model Specification/Archive/incremental_PSA_MMS.RData
outputs/PSA/Modified Model Specification/Archive/incremental_PSA_qalys_3L_MMS.RData
outputs/PSA/Modified Model Specification/Archive/outcomes_BUP_PSA_MMS.RData
outputs/PSA/Modified Model Specification/Archive/outcomes_BUP_PSA_qalys_3L_MMS.RData
outputs/PSA/Modified Model Specification/Archive/outcomes_BUP_PSA_qalys_3L_MMS.csv
outputs/PSA/Modified Model Specification/Archive/outcomes_MET_PSA_MMS.RData
outputs/PSA/Modified Model Specification/Archive/outcomes_MET_PSA_qalys_3L_MMS.RData
outputs/PSA/Modified Model Specification/Archive/outcomes_MET_PSA_qalys_3L_MMS.csv
outputs/PSA/Modified Model Specification/Blockwise-PSA-May-16/May-16-500runs/ICER_PSA_MMS.RData
outputs/PSA/Modified Model Specification/Blockwise-PSA-May-16/May-16-500runs/ICER_PSA_MMS.csv
outputs/PSA/Modified Model Specification/Blockwise-PSA-May-16/May-16-500runs/incremental_PSA_MMS.RData
outputs/PSA/Modified Model Specification/Blockwise-PSA-May-16/May-16-500runs/incremental_PSA_MMS.csv
outputs/PSA/Modified Model Specification/Blockwise-PSA-May-16/May-16-500runs/outcomes_BUP_PSA_MMS.RData
outputs/PSA/Modified Model Specification/Blockwise-PSA-May-16/May-16-500runs/outcomes_BUP_PSA_MMS.csv
outputs/PSA/Modified Model Specification/Blockwise-PSA-May-16/May-16-500runs/outcomes_MET_PSA_MMS.RData
outputs/PSA/Modified Model Specification/Blockwise-PSA-May-16/May-16-500runs/outcomes_MET_PSA_MMS.csv
outputs/PSA/Modified Model Specification/Blockwise-PSA-May-16/May-19-1500runs/ICER_PSA_MMS.RData
outputs/PSA/Modified Model Specification/Blockwise-PSA-May-16/May-19-1500runs/ICER_PSA_MMS.csv
outputs/PSA/Modified Model Specification/Blockwise-PSA-May-16/May-19-1500runs/incremental_PSA_MMS.RData
outputs/PSA/Modified Model Specification/Blockwise-PSA-May-16/May-19-1500runs/incremental_PSA_MMS.csv
outputs/PSA/Modified Model Specification/Blockwise-PSA-May-16/May-19-1500runs/outcomes_BUP_PSA_MMS.RData
outputs/PSA/Modified Model Specification/Blockwise-PSA-May-16/May-19-1500runs/outcomes_BUP_PSA_MMS.csv
outputs/PSA/Modified Model Specification/Blockwise-PSA-May-16/May-19-1500runs/outcomes_MET_PSA_MMS.RData
outputs/PSA/Modified Model Specification/Blockwise-PSA-May-16/May-19-1500runs/outcomes_MET_PSA_MMS.csv
outputs/PSA/Modified Model Specification/Blockwise-PSA-May-16/May-24-3000runs/ICER_PSA_MMS.RData
outputs/PSA/Modified Model Specification/Blockwise-PSA-May-16/May-24-3000runs/ICER_PSA_MMS.csv
outputs/PSA/Modified Model Specification/Blockwise-PSA-May-16/May-24-3000runs/incremental_PSA_MMS.RData
outputs/PSA/Modified Model Specification/Blockwise-PSA-May-16/May-24-3000runs/incremental_PSA_MMS.csv
outputs/PSA/Modified Model Specification/Blockwise-PSA-May-16/May-24-3000runs/input_PSA_MMS.csv
outputs/PSA/Modified Model Specification/Blockwise-PSA-May-16/May-24-3000runs/outcomes_BUP_PSA_MMS.RData
outputs/PSA/Modified Model Specification/Blockwise-PSA-May-16/May-24-3000runs/outcomes_BUP_PSA_MMS.csv
outputs/PSA/Modified Model Specification/Blockwise-PSA-May-16/May-24-3000runs/outcomes_MET_PSA_MMS.RData
outputs/PSA/Modified Model Specification/Blockwise-PSA-May-16/May-24-3000runs/outcomes_MET_PSA_MMS.csv
outputs/PSA/Modified Model Specification/ICER_PSA_MMS.RData
outputs/PSA/Modified Model Specification/ICER_PSA_MMS.csv
outputs/PSA/Modified Model Specification/PSA-5000-June-21/ICER_PSA_MMS.RData
outputs/PSA/Modified Model Specification/PSA-5000-June-21/ICER_PSA_MMS.csv
outputs/PSA/Modified Model Specification/PSA-5000-June-21/incremental_PSA_MMS.RData
outputs/PSA/Modified Model Specification/PSA-5000-June-21/incremental_PSA_MMS.csv
outputs/PSA/Modified Model Specification/PSA-5000-June-21/input_PSA_MMS.csv
outputs/PSA/Modified Model Specification/PSA-5000-June-21/outcomes_BUP_PSA_MMS.RData
outputs/PSA/Modified Model Specification/PSA-5000-June-21/outcomes_BUP_PSA_MMS.csv
outputs/PSA/Modified Model Specification/PSA-5000-June-21/outcomes_MET_PSA_MMS.RData
outputs/PSA/Modified Model Specification/PSA-5000-June-21/outcomes_MET_PSA_MMS.csv
outputs/PSA/Modified Model Specification/PSA-5000-June-21/summary_ICER_PSA_MMS.csv
outputs/PSA/Modified Model Specification/PSA-5000-June-21/summary_dom_MMS.csv
outputs/PSA/Modified Model Specification/PSA-5000-June-21/summary_incremental_PSA_MMS.RData
outputs/PSA/Modified Model Specification/PSA-5000-June-21/summary_incremental_PSA_MMS.csv
outputs/PSA/Modified Model Specification/PSA-5000-June-21/summary_outcomes_BUP_PSA_MMS.csv
outputs/PSA/Modified Model Specification/PSA-5000-June-21/summary_outcomes_MET_PSA_MMS.csv
outputs/PSA/Modified Model Specification/incremental_PSA_MMS.RData
outputs/PSA/Modified Model Specification/incremental_PSA_MMS.csv
outputs/PSA/Modified Model Specification/input_PSA_MMS.csv
outputs/PSA/Modified Model Specification/outcomes_BUP_PSA_MMS.RData
outputs/PSA/Modified Model Specification/outcomes_BUP_PSA_MMS.csv
outputs/PSA/Modified Model Specification/outcomes_MET_PSA_MMS.RData
outputs/PSA/Modified Model Specification/outcomes_MET_PSA_MMS.csv
outputs/PSA/Modified Model Specification/summary_ICER_PSA_MMS.csv
outputs/PSA/Modified Model Specification/summary_dom_PSA_MMS.csv
outputs/PSA/Modified Model Specification/summary_incremental_PSA_MMS.RData
outputs/PSA/Modified Model Specification/summary_incremental_PSA_MMS.csv
outputs/PSA/Modified Model Specification/summary_outcomes_BUP_PSA_MMS.csv
outputs/PSA/Modified Model Specification/summary_outcomes_MET_PSA_MMS.csv
outputs/benchmark/deterministic.txt
outputs/costs/Archive/costs_BUP.csv
outputs/costs/Archive/costs_MET.csv
outputs/costs/Archive/crime_costs_BUP.csv
outputs/costs/Archive/crime_costs_MET.csv
outputs/costs/Archive/hru_costs_BUP.csv
outputs/costs/Archive/hru_costs_MET.csv
outputs/costs/Archive/tx_costs_BUP.csv
outputs/costs/Archive/tx_costs_MET.csv
outputs/costs/Modified Model Specification/Archive/May-9-2022/costs_BUP.csv
outputs/costs/Modified Model Specification/Archive/May-9-2022/costs_MET.csv
outputs/costs/Modified Model Specification/Archive/May-9-2022/crime_costs_BUP.csv
outputs/costs/Modified Model Specification/Archive/May-9-2022/crime_costs_MET.csv
outputs/costs/Modified Model Specification/Archive/May-9-2022/hru_costs_BUP.csv
outputs/costs/Modified Model Specification/Archive/May-9-2022/hru_costs_MET.csv
outputs/costs/Modified Model Specification/Archive/May-9-2022/tx_costs_BUP.csv
outputs/costs/Modified Model Specification/Archive/May-9-2022/tx_costs_MET.csv
outputs/costs/Modified Model Specification/costs_BUP.csv
outputs/costs/Modified Model Specification/costs_MET.csv
outputs/costs/Modified Model Specification/crime_costs_BUP.csv
outputs/costs/Modified Model Specification/crime_costs_MET.csv
outputs/costs/Modified Model Specification/hru_costs_BUP.csv
outputs/costs/Modified Model Specification/hru_costs_MET.csv
outputs/costs/Modified Model Specification/tx_costs_BUP.csv
outputs/costs/Modified Model Specification/tx_costs_MET.csv
outputs/costs/Trial Specification/costs_BUP.csv
outputs/costs/Trial Specification/costs_MET.csv
outputs/costs/Trial Specification/crime_costs_BUP.csv
outputs/costs/Trial Specification/crime_costs_MET.csv
outputs/costs/Trial Specification/hru_costs_BUP.csv
outputs/costs/Trial Specification/hru_costs_MET.csv
outputs/costs/Trial Specification/tx_costs_BUP.csv
outputs/costs/Trial Specification/tx_costs_MET.csv
outputs/main_output_det_MMS.csv
outputs/outcomes/Archive/May-5-2022/ICER_MMS.RData
outputs/outcomes/Archive/May-5-2022/ICER_TS.RData
outputs/outcomes/Archive/May-5-2022/df_outcomes_TS.RData
outputs/outcomes/Archive/May-5-2022/outcomes_BUP_MMS.RData
outputs/outcomes/Archive/May-5-2022/outcomes_BUP_TS.RData
outputs/outcomes/Archive/May-5-2022/outcomes_MET_MMS.RData
outputs/outcomes/Archive/May-5-2022/outcomes_MET_TS.RData
outputs/outcomes/Archive/May-5-2022/outcomes_MMS.RData
outputs/outcomes/Archive/May-5-2022/outcomes_TS.RData
outputs/outcomes/ICER_MMS.RData
outputs/outcomes/ICER_TS.RData
outputs/outcomes/df_outcomes_TS.RData
outputs/outcomes/outcomes_BUP_MMS.RData
outputs/outcomes/outcomes_BUP_TS.RData
outputs/outcomes/outcomes_MET_MMS.RData
outputs/outcomes/outcomes_MET_TS.RData
outputs/outcomes/outcomes_MMS.RData
outputs/outcomes/outcomes_TS.RData
outputs/qalys/Modified Model Specification/Archive/May-9-2022/qalys_BUP.csv
outputs/qalys/Modified Model Specification/Archive/May-9-2022/qalys_MET.csv
outputs/qalys/Modified Model Specification/qalys_BUP.csv
outputs/qalys/Modified Model Specification/qalys_MET.csv
outputs/qalys/Trial Specification/qalys_BUP.csv
outputs/qalys/Trial Specification/qalys_MET.csv
outputs/qalys/qalys_BUP.csv
outputs/qalys/qalys_MET.csv
outputs/trace/Modified Model Specification/Archive/May-9-2022/full_trace_costs_BUP.csv
outputs/trace/Modified Model Specification/Archive/May-9-2022/full_trace_costs_MET.csv
outputs/trace/Modified Model Specification/Archive/May-9-2022/trace_BUP.csv
outputs/trace/Modified Model Specification/Archive/May-9-2022/trace_MET.csv
outputs/trace/Modified Model Specification/full_trace_costs_BUP.csv
outputs/trace/Modified Model Specification/full_trace_costs_MET.csv
outputs/trace/Modified Model Specification/trace_BUP.csv
outputs/trace/Modified Model Specification/trace_MET.csv
outputs/trace/Modified Model Specification/trace_validation.csv
outputs/trace/Trial Specification/full_trace_costs_BUP.csv
outputs/trace/Trial Specification/full_trace_costs_MET.csv
outputs/trace/Trial Specification/trace_BUP.csv
outputs/trace/Trial Specification/trace_MET.csv
outputs/trace/m_M_agg_trace.csv
tables/Archive/summary_posterior_Jun27(main5000).csv
tables/Archive/summary_posterior_Mar14.csv
tables/Archive/summary_posterior_Mar16.csv
tables/Archive/summary_posterior_May6.csv
tables/summary_posterior.csv
vignettes/aa-introduction.Rmd
