To setup this project
cp config-template.env config.env
Update the paths in config.env.
Use renv to install relevant packages. In R:
install.packages("renv")
renv::restore()
bash scripts/download-data.sh
Rscript scripts/download-pan-cancer-clinical.r
Rscript scripts/extract-data.r
Rscript scripts/clean-clinical.r
Rscript scripts/predict-proteins.r
Rscript scripts/combine.r
Rscript scripts/analysis.r