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  • arkal
    advancing one byte at a time!
    • Jun 2011
    • 56
    #1

    dbsnp rod file for hg19

    Hey!

    So i want to run GATK tools on y data which i've aligned to hg19 and i need the dbsnp rod file for hg19 (i believe it's dbsnp_132_hg19.rod right?) but i can't find it anywhere

    the resource bundle i got from the broad ftp has the files for hg18, b36 and b37 but not for hg19. can anyone help me out here?

    i HAVE seen a previous post on seqanswers on this topic and the answer said we can build our own rod file and linked to a page in the old GATK wiki (which we all know isn't used anymore and just redirects us to the new page) and the new page doesn't have anything on this.

    Thanks in advance
    -Arkal
    Tags: None
    • etorstenson
      Member
      • Jun 2012
      • 10
      #2
      What version of GATK are you using? I think recent versions use the vcf files.

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