Impute missing GT based on AF ?
Hello, I have a multi-sample VCF file and I would like to replace missing genotypes with whatever allele that has an AF > 0.5. For example: 2 2 2 2 2 2 -1 2 2 -1 1 2 2 would go to 2 2 2 2 2 2 2 2 2 2 1 2 2.
Any suggestions on how to do this?
Thanks in advance
-Steve
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stevenlang123
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