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

VariantAnnotator Follow


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    Qihan Long

    Hi, nice documentation, but the demo commands have a minor problem

       VariantAnnotator \
       -R reference.fasta \
       -I input.bam \
       -V input.vcf \
       -o output.vcf \
       -A Coverage \
       --dbsnp dbsnp.vcf

    The output flag should be capitalized to "-O".


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    Jonathan Klonowski

    Is -A PossibleDeNovo no longer an option?

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