how to generate the common site file for hg38 (CNV analysis)

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yang S

• July 10, 2023 04:27
• Edited

how to generate the common site file for hg38 (CNV analysis) or where to download the common site file

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  Andrey Smirnov

  • July 17, 2023 07:22

  Hi yang S, you can find a common site file you can use here gs://gatk-test-data/cnv/somatic/somatic-hg38_af-only-gnomad.hg38.AFgt0.02.interval_list.

  You can also find instructions on how to generate a common file in the somatic CNV tutorial here: https://gatk.broadinstitute.org/hc/en-us/articles/360035531092--How-to-part-I-Sensitively-detect-copy-ratio-alterations-and-allelic-segments.

   

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  yang S

  • July 17, 2023 20:06

  Thank you for your quick response.

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