Proxy Variant SNP for PRS
Hi,
I'm relatively new to calculating PRS and I have a quick question regarding proxy variants. If SNPs that are in the GWAS are not present in my target dataset and I find proxies with high r^2 (~0.99), how do I implement this? Do I swap the proxy with the variant in the GWAS in my target data? What happens if the alleles don't match? How do I account for that?
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curious_butterfly •
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curious_butterfly •
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Have you tried performing imputation on your target data?