Introduction

This folder contains .R files for functions and experiments illustrated in the paper “Bayesian active questionnaire design for cause-of-death assignment using verbal autopsies” by T. Yoshida, T.S. Fan, T. McCormick, Z. Wu & Z.R. Li. (2023) (The AHLI Conference on Health, Inference, and Learning (CHIL) )

File Structure

• rcodes
  • ‘functions.R’ : Contain all functions used for experiments
  • ‘0-simulate-data.R’ : Generate synthetic data (correctly specified model and misspecified model)
  • ‘1-experiment-nonstop.R’ : Conduct an experiment to compare accuracy over iterations with synthetic data
  • ‘2-experiment-stopping.R’ : Conduct an experiment to compare different stopping rules with synthetic data
  • ‘3-experiment-penalty.R’ : Conduct an experiment to compare different noise settings (‘h’) and different jumping penalization parameters (‘lambda’) with synthetic data
  • ‘4-experiment-phmrc-nonstop-CV.R’ : Conduct an experiment to compare accuracy over iterations with PHMRC data
  • ‘5-experiment-phmrc-stopping-CV.R’ : Conduct an experiment to compare different stopping rules with PHMRC data
  • ‘6-experiment-phmrc-stopping-process-CV.R’ : Conduct an experiment to compare different noise settings (‘h’) and different jumping penalization parameters (‘lambda’) with PHMRC data
  • cpp
    • ‘PWKL.cpp’: Run PWKL algorithm
  • ‘output’ : Store CV results
  • ‘table’ : Store tables for stopping rule experiments
  • ‘input_data’ : Store synthetic and PHMRC data
  • ‘fig’ : Store figures
  • ‘data’ : Dataset for PHMRC