Calculating PRS in a large cohort
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16 months ago
haasroni • 0

Hi everyone,

I have a merged vcf file with genotypes for a very large number of individuals. I have a list of SNPs and their weights that can be used to calculate the PRSs for a trait, and I want to calculate the PRSs using the large vcf file (can be converted to plink). Is there an efficient way to do that with PLINK, or any other software? Could anyone please help with a command for example?

Thank you!

PRS • 819 views
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Thank you! Do you know if possible to give a score file (--score) that has chr and positions instead of SNP IDs?

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If anyone is wondering about the same thing, the discussion with the developer about this can be found here.

https://groups.google.com/g/plink2-users/c/FFoYaGoosRw/m/jM6eO2_VAAAJ?utm_medium=email&utm_source=footer

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