tomsumner/Variance_SA_TB

This contains the code used in "Variance-based sensitivity analysis of TB transmission models": Model_1_intervention_event.R <- function for model 1 (serial infected states) with intervention coded as an event (using package FME); Model_2_intervention_event.R <- function for model 2 (parallel infected states) with intervention coded as an event (using package FME); intervention_event.R <- fucntion to define the intervention as a event for use in the ODE models; SS_1_beta.R <- code to solve steady state solution for model 1 (serial infected states) for beta; SS_2_beta.R <- code to solve steady state solution for model 2 (parallel infected states) for beta; Par_dist_gen <- fits distributions to input quantiles taken from literature, uses package RRiskDistributions; Run_model <- code to run the model for each row in an input matrix and return the reductions in incidence and mortality over 1 and 10 years; Sobol_analysis_intervention_event_individual.R <- code to calculate the Sobol indicies for individual inputs and generate outputs, uses Sensobol package; Sobol_analysis_intervention_event_grouped.R <- code to calculate the Sobol indicies for grouped inputs and generate outputs, uses Sensobol package.

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