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

ReciprocalOverlapAnnotator error for Sniffles data

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    Tiffany Miller

    Bob Handsaker any thoughts on this error?

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    Bob Handsaker

    Ideally, you should subset the input vcf to isolate the record giving the problem.

    As a guess, I might wonder if you have any records where END < POS, which is invalid.

     

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