Fix for REF variants in amplicon pileup mode

AstraZeneca-NGS / VarDictJava

VarDict Java port

MIT License

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Closed PolinaBevad closed 4 years ago

PolinaBevad commented 4 years ago

Fixed type REF for variant in case when ref==alt (for pileup mode) - issue #294 .
Also found and fixed case when "bad" amplicons were counted in REF variants. Now they will be zero.
Test was updated.