This GitHub repository provides the code of the three different implementations of cohort state-transition model (cSTM), explained in the following manuscript:
- Alarid-Escudero F, Krijkamp EM, Enns EA, Yang A, Hunink MGM, Pechlivanoglou P, Jalal H. Cohort state-transition models in R: A Tutorial. arXiv:200107824v1. 2020:1-31.
We recommend to first read the manuscript before using the code. Understanding of the use of the multidimensional dynamics array described in
- Krijkamp EM, Alarid-Escudero F, Enns EA, Pechlivanoglou P, Hunink MGM, Yang A, Jalal HJ. A multidimensional array representation of state-transition model dynamics. Medical Decision Making, 2020;40(2):242-248. https://doi.org/10.1177/0272989X19893973
is recommended.
The R folder includes three different scripts corresponding to the different implementations of the cSTM:
STM_01.R: time-independent cSTMSTM_02.R: age-dependent cSTM with calculations of epidemiological outcomesSTM_03.R: age- and history-dependent cSTM
In addition we include the data folder with age-specific mortality for the age-dependent and age- and history-dependent cSTM.
To run the cost-effectiveness analysis, you require The Decision Analytic Modeling Package (dampack), an R package for analyzing and visualizing the health economic outputs of decision models.