UKBB Genetic Architecture & PGS Performance

Different genetic architectures of complex traits and their relevance to polygenic score performance in diverse populations

bioRxiv link (preprint): https://www.biorxiv.org/content/10.1101/2022.10.29.514295v1

Contents

• code_part1/: contains scripts that lead to the creation of the traits table that contains all trait-relevant information. Also contains small input data created by us that is needed.
• code_part2/: contains scripts that visualize the data and perform supplementary analyses
• input_data/: directory for input data needed for other code to run
• generated_data/: contains data generated by scripts in this repository
• generated_figures/: contains figures generated by scripts in this repository

Click on each folder on Github to see further README information

Software and Packages Used

Analysis

• PLINK 1.9
• PLINK 2
• R
• R: tidyverse
• R: data.table
• R: psych (supplemental only)

Visualization

• R: GGally
• R: ggpubr
• R: rlang
• R: extrafont
• R: gt

Contact

The bulk of this code was written by Nuno R. G. Carvalho. Feel free to contact regarding any questions.