FinnGen Handbook

What covariates are used in FinnGen's core GWAS analyses?

The following covariates are used:

  • Age

  • Sex

  • First 10 principal components

  • Genotyping batch (all batches only used in R1-R6. In R7 it was observed that it's not necessary anymore to use all batches as covariates, which is good for null compute speed. Instead, from R7 onward we're using FinnGen v1 chip as baseline and FinnGen v2 and all legacy batches as covariates.)

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