/prs_disparities

Primary LanguageR

prs_disparities

Figure 1 (GWAS participants over time)

  • gwas_disparities_time.R

Figure 2 (GWAS catalog sites and pairwise ancestry LD matrices)

  • gwas_sfs_pop.R and ld_matrices.py

Figure 3 (empirical R^2 across populations with EUR GWAS)

  • multiethnic_prs_empirical.R

Figure 4 (compare symmetric prediction accuracy in BBJ and UKBB)

  • Run same-sized holdout GWAS: run_holdout_gwas.py
  • Compute PRS in holdout samples: run_prs_holdout.py
  • Aggregate PRS statistics: holdout_ukbb_bbj_r2.R
  • Plot R^2 values: plot_ukbb_bbj_r2.R