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

gatk legacy bundles (where to get Mills_and_1000G_gold_standard.indels.hg19.sites.vcf.gz)

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    Sonia Wolf

    Hi Nick,

     

    Can't help but am looking for the same thing so would be interested in the answers!

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    Nick Kinney

    Sonia Wolf for some reason the ftp site wasn't working for me and all of a sudden worked. Who knows, try 

    wget ftp://gsapubftp-anonymous@ftp.broadinstitute.org/bundle/hg19/Mills_and_1000G_gold_standard.indels.hg19.sites.vcf.gz

    If you get stuck ill sent it to you, regardless, I still dont see all the legacy files in the google bucket.

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    Genevieve Brandt (she/her)

    Thanks for the update Nick Kinney! Does this answer all your above questions?

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