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Derek Caetano-Anolles

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Latest activity by Derek Caetano-Anolles
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    Derek Caetano-Anolles created an article,

    DRAGEN-GATK Webinar [December 2, 2020]

    On December 2, 2021, instructors from the Broad Institute taught a 1-hr virtual webinar open to the GATK community, with guests from Illumina joining to present and and answer questions. It was hos...

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    Derek Caetano-Anolles created an article,

    Introducing DRAGMAP, the new genome mapper in DRAGEN-GATK

    As you may know from previous posts, we’ve been working with the DRAGEN team at Illumina to produce a new version of our Best Practices pipeline for germline short variant calling, called DRAGEN-GA...

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    Derek Caetano-Anolles created an article,

    GATK 4.2.3.0 release

    The latest GATK release is out, with changes corresponding to the period of August 18, 2021 - November 2, 2021. As always, we highly recommend updating to the newest version, as it will help to cor...

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    Derek Caetano-Anolles commented,

    It's pronounced GATK, using the same sound as in GIF. Hope that clears it up for you, Bob Chen!

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    Derek Caetano-Anolles commented,

    Fantastic, I'm glad it was an easy fix. Best of luck with your project!

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    Derek Caetano-Anolles commented,

    Hi Ekin, it seems like GATK cannot find your reference file and/or index file. You'll encounter that "A USER ERROR has occurred" message if the files are missing, or if they are not formatted corre...

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    Derek Caetano-Anolles commented,

    Hello, Ekin. Your BAM should work regardless of what method you used to create it, assuming it was properly converted. If you are receiving an index reference error, please post your error log and ...

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    Derek Caetano-Anolles commented,

    Hi Lait,The CreateSomaticPanelOfNormals tool is still in beta, and we are aware of a bug that creates an empty PON file in certain instances. Could you please review the following post and follow t...

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    Derek Caetano-Anolles commented,

    Hello! Unfortunately, our GATK support team is primarily focused on questions involving GATK issues or abnormal results. You can see our support policy here. For questions regarding Cromwell, we en...

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    Derek Caetano-Anolles created an article,

    GATK on the cloud with Terra

    Terra (formally called FireCloud) is our web-based bioinformatics platform, capable of running scalable analysis on the cloud. Terra is provided as an accessible service by the Broad Institute's D...