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handcurated.20k.intervals

Hi,

where can I find and download this list:

JointGenotyping.unpadded_intervals_file: "gs://gatk-test-data/intervals/hg38.even.handcurated.20k.intervals"

All the best

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  • SheilaSheila Broad InstituteMember, Broadie, Moderator admin
    Accepted Answer

    @manolis
    Hi,

    You should be able to access it here.

    -Sheila

  • Hi,

    And where can I find and download for b37 wgs intervals?

    gs://gatk-legacy-bundles/b37/scattered_wgs_intervals/scatter-50/temp_0001_of_50/scattered.interval_list
    ..
    ..

    Thank you in advance

  • shleeshlee CambridgeMember, Broadie ✭✭✭✭✭
    edited September 2018

    Hi @aschluter,

    You already have the location of the files you want. All you have to do is download and install the GoogleCloud SDK and gsutil cp gs://gatk-legacy-bundles/b37/scattered_wgs_intervals/scatter-50/temp_*_of_50/scattered.interval_list . from a terminal.

    To download from a browser UI, add https://console.cloud.google.com/storage/browser/ + <bucket address without the 'gs://' portion> to create the URL, e.g. https://console.cloud.google.com/storage/browser/gatk-legacy-bundles/b37/scattered_wgs_intervals/scatter-50.

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