R code to generate boxplot figures for the paper SPP1 as a potential stage-specific marker of colorectal cancer

Repository organisation

• data/: Contains the original excel file with control vs case data, and the json files generated by scripts/excel_to_json.R
• scripts/: Contains the R scripts to generate the json files, and then the boxplots.
• plots/: Contains the generated boxplots in PNG format. The plots visible in the paper are in paper_plots/, and additional individual plots for each gene are in individual_plots/.

Dependencies

• All R packages are loaded using pacman, which will install any missing ones automatically. No manual setup needed.
• R version used: 4.4.1
• Exact specifications can be found in session_info.txt