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Workaround for issue #2 #3
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The check I implemented is not needed if the ordering of the functions and commands are used in a clever way. I would say: 1) Iterating over the samples. 2) Get Genotype and check it (homRef or noCall). 3) Generate VariantAnnotations and iterate over them.
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Hotfix of the Ti/Tv ratio Bug. I implemented two checks.
The checks I implemented are not needed if the ordering of the functions
and commands are used in a clever way.
I would say: