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

Variant Filtration - FS and SOR are not supported


1 comment

  • Official comment
    Bhanu Gandham

    This is happening because you wrote the threshold values as integers but some of the annotations can have decimals, so the evaluation fails. This limitation is documented in the filtering docs. You can fix this by using the decimal notation instead for the failing annotations. For example, for QD you would make the threshold value 2.0 instead of 2.

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