README.md
In syzoekao/CEAutil: Utility function for Cost-effectiveness analysis at UMN

This repository is an R package for the CEA class at UMN. To directly download this package, type

if (!require(devtools)) install.packages("devtools")
devtools::install_github("syzoekao/CEAutil", dependencies = TRUE)

To have a physical copy and to edit the code, you can also clone the repository by clicking the "Clone or download" button.

This package include three primary functionalities: (1) functions that transform the decision tree created by Amua software to R function that can be called by dampack CEA functions; (2) a template Markov model function and a Markov model wrapper that can be called by dampack CEA functions; (3) a function generate R code to run gen_psa_samp() in dampack.

Decision tree related functions

parse_amua_tree(): generates the list of parameters and the body of decision tree from the R code exported from the Amua software.
dectree_wrapper(): takes the output object from parse_amua_tree() and transforms the object to a decision tree model that can be used for run_owsa_det(), run_twsa_det(), and run_psa() in dampack.

Markov model related functiosn

markov_model(): This is the Markov model for the tanning decision problem in Ontario. This model could be regarded as a Markov model template. The function only take one strategy at a time.
markov_decision_wrapper(): This function is a wrapper function for the markov_model() and returns the outcomes for each strategy.

Generate R code for `gen_psa_samp()` in `dampack`

gen_psa_samp_code(): generates the R code to run gen_psa_samp() in dampack. This function does not allow bootstrap sampling.

You can also generate the R code via a built in R shiny app. Run the following code:

fpath <- system.file("app", package="CEAutil")
shiny::runApp(paste0(fpath, "/app.R"))

The code would launch a Shiny app interface.

You can fill out the name of the paramter, the distribution, and the parameters of the distribution in the input area on the left-hand side. Each parameter that you input will generate a row in the parameter table on the right-hand side. After you finish filling out the information of all the parameters. Click the "generate code" button. The app will generate the gen_psa_samp code for you.