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

DepthOfCoverage Error: Refseq file contains transcripts with zero coding length



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    Genevieve Brandt (she/her)

    Hi ashgorden,

    The gene statistics file issue is on our radar and we have already made changes to fix the issue. Please see this link. We are going to be releasing a new GATK version in the next week or so with this change contained. If you do not want to wait, you can download the nightly release docker container.

    Once you try it out, let us know if that fixes the issue.



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    Hi Genevieve Brandt (she/her),

    Thank you for the reply. Will definitely let you know after trying it on the new version.

    Looking forward to the new release!


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