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

IndexFeatureFile Follow


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    Warren Andrews

    This documentation is wrong for version 4.2.5:

    --input,-I <GATKPath>         Feature file (eg., VCF or BED file) to index. Must be in a tribble-supported format 

    Why would you change your argument for a minor revision/release?

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    Laura Sanz

    Please update for GATK 4.3

    "A USER ERROR has occurred: feature-file is not a recognized option"

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