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I'm currently trying to extract de novo mutations from my multi-sample vcf files (trios). I've already read the VCF file specification documentation but wanted to check if I got this right.
So I would call a de novo mutation candidate in the following cases:
1.Child has the genotype 0|1 , 1|0 or 1|1 and both parents have 0|0
2.Child has the genotype 1|0 or 1|1 and the mother 0|0
3.Child: 0|1 or 1|1 and the father 0|0
Is this correct ? And are there any other cases which indicate a de novo mutation which I missed so far ?