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Questions tagged [genotyping]

Determination of the genotype (for example SNP, allele, heterozygote mutant, etc.) of a sample.

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Why does GATK produce both 0/1 and 1/0 genotypes in the same file? Are the two not equivalent?

I have always thought that 1/0 and 0/1 in VCF genotype fields are equivalent. And yet, GATK uses both. For example, these are ...
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