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Day-06 - imputation

posted Jun 20, 2011, 8:10 AM by Colm O'Dushlaine   [ updated Oct 15, 2014, 10:02 AM ]
Exploring various imputation approaches. Beagle is an obvious choice and the latest version of PLINK has a --recode-beagle option, making it easy to run the program. I have also used PLINK's imputation (with the caveat that it's not as good, but fine if you are just using SNPs imputed with high confidence). A natural next step would be to e.g. upload any additional SNPs I get onto Promethease and Interpretome (if possible).