This repository contains code and data to reproduce analysis in the research articles:
- "Tocilizumab in COVID-19 – A Bayesian reanalysis of RECOVERY" (preprint)
- "Mortality Rates Among Hospitalized Patients with COVID-19 Infection Treated With Tocilizumab and Corticosteroids: A Bayesian Reanalysis of a Previous Meta-analysis" (now published on JAMA Network Open)
Authors: Arthur M. Albuquerque, Lucas Tramujas, Lorenzo R. Sewanan, Donald R. Williams and James M. Brophy
There are three main folders in this repository:
01_preregistration, which corresponds to files regarding our preregistered project in OSF02_preprint, which corresponds to files regarding our preprint "Tocilizumab in COVID-19 – A Bayesian reanalysis of RECOVERY"03_updated_analyses_who, which corresponds to files regarding our newest research article "Mortality Rates Among Hospitalized Patients with COVID-19 Infection Treated With Tocilizumab and Corticosteroids: A Bayesian Reanalysis of a Previous Meta-analysis"
In each folder, one can find further instructions on how to reproduce the analysis (in the corresponding README.md file).
All analyses were conducted in R (R Environment version 4.0.4).
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To download all files and reproduce our analyses, clone this repository using Git's integration with RStudio. Here is a tutorial article in case you are not familiar with cloning repositories:
Vuorre M, Curley JP. Curating Research Assets: A Tutorial on the Git Version Control System. Advances in Methods and Practices in Psychological Science 2018;1:219–36. https://doi.org/10.1177%2F2515245918754826
After cloning this repository, open the
tocilizumab_reanalysis.Rprojfile and you will be able to run all files. -
We used the R package {renv} to make this R project as reproducible as possible. In summary, {renv} guarantees that all required R packages for this project are downloaded to your computer in the necessary versions. Please check their "Get Started" vignette in case you would like to learn more about it.