R code to run, validate, and submit the analysis for the ards project.
To install this package in R:
devtools::install_github("https://github.com/covidclinical/Phase2.1ardsRPackage", subdir="FourCePhase2.1ards", upgrade=FALSE)
To run the analysis
library(FourCePhase2.1ards)
FourCePhase2.1ards::runAnalysis()
Finally, please submit the results to https://github.com/covidclinical/Phase2.1ardsRSummariesPublic:
FourCePhase2.1ards::submitAnalysis()
Share with @bertrandmoal your GitHub handle via direct message or the #ards_young Slack channel so you can be added as contributor to the repository. Note that you would need to use a token to access private repos, see here. https://docs.github.com/en/github/authenticating-to-github/creating-a-personal-access-token
Briefly, to generate a new token, go to your GitHub settings -> Developer settings -> Personal access tokens -> Generate.
If somehow submitAnalysis() didn’t allow you to upload the results to Phase2.1ardsRSummariesPublic, you can share the results file with @bertrandmoal via the #ards_young Slack channel.