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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

FuncotatorDataSourceDownloader problem at google

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    Gökalp Çelik

    Hi Robert Bremel

    Looks like there is a problem with the bucket we use to store that data. We are working on a fix. 

    We are sorry for any inconvenience.

    Regards. 

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    Robert Bremel

    Thanks!

     

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    Gökalp Çelik

    Hi again.

    Funcotator bucket is now fixed. You should be able to download datasources again.

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    Kiarash Behrouzfar

    Hi, 

    I can't download the funcotator resources using 

    gatk FuncotatorDataSourceDownloader

    , but I can do that manually by signing to their google bucket and download that. Is FuncotatorDataSourceDownloader not usable anymore?

     

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    Robert Bremel

    Also have a problem with funcotator.  Error indicates that it is the same problem as 2 months ago in above post

     

     

     

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    Kiarash Behrouzfar

    I've downloaded the latest version of funcotator manually from the google bucket and it fixed the problem. You have to sign up for using google bucket and assign a project name for that bucket, so then you can download any version of resources from funcotator. It is still not fast and handy, as you can't use FuncotatorDataSourceDownloader. 

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    Robert Bremel

    I don't think that is possible with Docker version.  With docker the a set of genome and exome resources are maintained locally and then google is queried as things progress.

     

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