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1KG SNPs and Indels file

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  • 1KG SNPs and Indels file

    Greetings,

    Is there any place to download 1000 genome SNPs and Indels data in a single merged file for each pilot (pilot 1 , 2 , and 3) ?
    I am trying to use GATK and thought to use 1KG indels and SNPs vcf files to recalibrate my calls.

    I apprecite your input.

  • #2
    found them here:

    ftp://ftp.1000genomes.ebi.ac.uk/vol1..._data/release/

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    • #3
      I have the same question but I can't figure out which files to use. There are many folders and looks confusing to me.

      Can you or someone please explain which files to use?

      Thanks in advance.

      .

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      • #4
        Originally posted by mpiro View Post
        You can just download all the Phase 1 data already merged from them. Check the 1000genomes.org site and the December update.

        pirooz, there's a README in with the Phase 1 release from December that explains what everything is.
        Mendelian Disorder: A blogshare of random useful information for general public consumption. [Blog]
        Breakway: A Program to Identify Structural Variations in Genomic Data [Website] [Forum Post]
        Projects: U87MG whole genome sequence [Website] [Paper]

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        • #5
          Thanks Michael ... appreciate your comment.

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