update README

README.Rmd

@@ -9,7 +9,7 @@ output: github_document
 
 This GitHub repository provides the code of the tutorial on how to implement time-dependent cohort state-transition models (cSTMs) in R using a cost-effectiveness analysis (CEA) example, explained in the following manuscript: 
 
-- Alarid-Escudero F, Krijkamp EM, Enns EA, Yang A, Hunink MGM, Pechlivanoglou P, Jalal H. [A Tutorial on Time-Dependent Cohort State-Transition Models in R using a Cost-Effectiveness Analysis Example](https://arxiv.org/abs/2108.13552). arXiv:2021.13552v1. 2021:1-37.
+- Alarid-Escudero F, Krijkamp EM, Enns EA, Yang A, Hunink MGM, Pechlivanoglou P, Jalal H. [A Tutorial on Time-Dependent Cohort State-Transition Models in R using a Cost-Effectiveness Analysis Example](https://arxiv.org/abs/2108.13552). arXiv:2108.13552v2. 2022:1-37.
 
 The release that accompanies the published article has been archived in zenodo: https://zenodo.org/badge/latestdoi/357371663
 
@@ -26,11 +26,11 @@ The R scripts require loading functions that synthesize cSTMs outputs and conduc
 
 ## How to cite this R code in your article
 
-You can cite the R code in this repository like this "we based our analysis using the R code from Alarid-Escudero F et al. (2021)". Here is the full bibliographic reference to include in your reference list for the manuscript and the R code (don't forget to update the 'last accessed' date):
+You can cite the R code in this repository like this "we based our analysis using the R code from Alarid-Escudero F et al. (2022)". Here is the full bibliographic reference to include in your reference list for the manuscript and the R code (don't forget to update the 'last accessed' date):
 
-> Alarid-Escudero F, Krijkamp EM, Enns EA, Yang A, Hunink MGM, Pechlivanoglou P, Jalal H. A Tutorial on Time-Dependent Cohort State-Transition Models in R using a Cost-Effectiveness Analysis Example (https://arxiv.org/abs/2108.13552). arXiv:2108.13552v1. 2021:1-37.
+> Alarid-Escudero F, Krijkamp EM, Enns EA, Yang A, Hunink MGM, Pechlivanoglou P, Jalal H. A Tutorial on Time-Dependent Cohort State-Transition Models in R using a Cost-Effectiveness Analysis Example (https://arxiv.org/abs/2108.13552). arXiv:2108.13552v2. 2022:1-37.
 
-> Alarid-Escudero F, Krijkamp EM, Enns EA, Yang A, Hunink MGM, Pechlivanoglou P, Jalal H (2021). R Code for A Tutorial on Time-Dependent Cohort State-Transition Models in R using a Cost-Effectiveness Analysis Example (Version v0.1.0). Zenodo. [10.5281/zenodo.5338819](https://www.doi.org/10.5281/zenodo.5338819). Last accessed 30 August 2021.
+> Alarid-Escudero F, Krijkamp EM, Enns EA, Yang A, Hunink MGM, Pechlivanoglou P, Jalal H (2021). R Code for A Tutorial on Time-Dependent Cohort State-Transition Models in R using a Cost-Effectiveness Analysis Example (Version v0.1.0). Zenodo. [10.5281/zenodo.5338819](https://www.doi.org/10.5281/zenodo.5338819). Last accessed 7 June 2022.
 
 If you adapted the code, you should indicate "Adapted from:" or "Based on" so it is understood that you modified the code. For more information on how to cite computer code, we refer the user to review [Writing Code (from MIT Research Guide)](https://integrity.mit.edu/handbook/writing-code), which provides examples of how and when to cite computer code.
 
@@ -60,7 +60,7 @@ devtools::install_github("DARTH-git/darthtools")
 
 We recommend reading our introductory tutorial on time-independent cSTMs in R:
 
-- Alarid-Escudero F, Krijkamp EM, Enns EA, Yang A, Hunink MGM, Pechlivanoglou P, Jalal H. [An Introductory Tutorial on Cohort State-Transition Models in R Using a Cost-Effectiveness Analysis Example](http://arxiv.org/abs/2001.07824). arXiv:200107824v4. 2022:1-26,
+- Alarid-Escudero F, Krijkamp EM, Enns EA, Yang A, Hunink MGM, Pechlivanoglou P, Jalal H. [An Introductory Tutorial on Cohort State-Transition Models in R Using a Cost-Effectiveness Analysis Example](https://journals.sagepub.com/doi/full/10.1177/0272989X221103163). [Medical Decision Making](https://journals.sagepub.com/home/mdm), 2022 (Online First):1-18. https://doi.org/10.1177/0272989X221103163
 
 and understanding the use of multidimensional arrays to represent cSTM dynamics in R described in:
 

README.md

@@ -13,8 +13,8 @@ following manuscript:
 -   Alarid-Escudero F, Krijkamp EM, Enns EA, Yang A, Hunink MGM,
     Pechlivanoglou P, Jalal H. [A Tutorial on Time-Dependent Cohort
     State-Transition Models in R using a Cost-Effectiveness Analysis
-    Example](https://arxiv.org/abs/2108.13552). arXiv:2021.13552v1.
-    2021:1-37.
+    Example](https://arxiv.org/abs/2108.13552). arXiv:2108.13552v2.
+    2022:1-37.
 
 The release that accompanies the published article has been archived in
 zenodo: <https://zenodo.org/badge/latestdoi/357371663>
@@ -57,23 +57,23 @@ folder:
 ## How to cite this R code in your article
 
 You can cite the R code in this repository like this “we based our
-analysis using the R code from Alarid-Escudero F et al. (2021)”. Here is
+analysis using the R code from Alarid-Escudero F et al. (2022)”. Here is
 the full bibliographic reference to include in your reference list for
 the manuscript and the R code (don’t forget to update the ‘last
 accessed’ date):
 
 > Alarid-Escudero F, Krijkamp EM, Enns EA, Yang A, Hunink MGM,
 > Pechlivanoglou P, Jalal H. A Tutorial on Time-Dependent Cohort
 > State-Transition Models in R using a Cost-Effectiveness Analysis
-> Example (<https://arxiv.org/abs/2108.13552>). arXiv:2108.13552v1.
-> 2021:1-37.
+> Example (<https://arxiv.org/abs/2108.13552>). arXiv:2108.13552v2.
+> 2022:1-37.
 
 > Alarid-Escudero F, Krijkamp EM, Enns EA, Yang A, Hunink MGM,
 > Pechlivanoglou P, Jalal H (2021). R Code for A Tutorial on
 > Time-Dependent Cohort State-Transition Models in R using a
 > Cost-Effectiveness Analysis Example (Version v0.1.0). Zenodo.
 > [10.5281/zenodo.5338819](https://www.doi.org/10.5281/zenodo.5338819).
-> Last accessed 30 August 2021.
+> Last accessed 7 June 2022.
 
 If you adapted the code, you should indicate “Adapted from:” or “Based
 on” so it is understood that you modified the code. For more information
@@ -123,8 +123,10 @@ in R:
 -   Alarid-Escudero F, Krijkamp EM, Enns EA, Yang A, Hunink MGM,
     Pechlivanoglou P, Jalal H. [An Introductory Tutorial on Cohort
     State-Transition Models in R Using a Cost-Effectiveness Analysis
-    Example](http://arxiv.org/abs/2001.07824). arXiv:200107824v4.
-    2022:1-26,
+    Example](https://journals.sagepub.com/doi/full/10.1177/0272989X221103163).
+    [Medical Decision Making](https://journals.sagepub.com/home/mdm),
+    2022 (Online First):1-18.
+    <https://doi.org/10.1177/0272989X221103163>
 
 and understanding the use of multidimensional arrays to represent cSTM
 dynamics in R described in: