Genome Analysis Toolkit

Variant Discovery in High-Throughput Sequencing Data

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Developed in the Data Sciences Platform at the Broad Institute, the toolkit offers a wide variety of tools with a primary focus on variant discovery and genotyping. Its powerful processing engine and high-performance computing features make it capable of taking on projects of any size. Learn more

Genotype and AD in Mutect2 vcf output


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    David Benjamin

    Ester Feldmesserin The GT field in Mutect2 is basically meaningless -- 0/1 in the tumor and 0/0 in the normal is merely an indicator of a somatic variant, but the concept of an integer genotype isn't really well-defined when it comes to somatic calling.

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