Dear All

I wish to know how can i obtein the Confidence Intervals for Odds Ratio interaction (OR_INT) in epistasis analysis with PLINK.

I'd try with --ci 0.95 but is not work.

    plink --file mydata --epistasis --ci 0.95

Thanks in advance!

Adolph


For future reference, this is answered by https://groups.google.com/d/msg/plink2-users/KMB9YoZqVMQ/7AlJRmobAAAJ .


    No, this isn't directly supported by PLINK 1.x (though it's a planned optional column set for PLINK 2.0 --epistasis).
    
    For now, you can infer this from the relation between the beta/odds-ratio and the chi-square statistic:
      BETA_INT = ln(OR_INT)
      chi-square STAT = (BETA_INT / SE)^2
      -> SE = BETA_INT / sqrt(STAT)
      95% confidence interval for BETA_INT is [BETA_INT - 1.96 * SE, BETA_INT + 1.96 * SE]; exponentiate these values to get the OR_INT confidence interval

