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  • ashkot
    Member
    • Nov 2011
    • 59
    #1

    Issue with LiftOver

    Hi all,
    I have a lot if variants (more than 30K) with HG18 coordinates and i wanted HG19 coordinates for each one of them.

    Aware that this can be done using liftover, the problem is i have to input as chr1:123-1234 (for e.g), i tried in BED format and it keeps giving an error.

    The issue is i don't have any way to put an identifier on the returned data. So when i am parsing the output i want to be a 100% sure about updating my database.

    Any ideas how this can be done?

    Thanks,
    Ashwin
    Tags: None
  • Heisman
    Senior Member
    • Dec 2010
    • 534
    #2
    I don't understand your problem? What error did it give? Could you post a couple of input lines?

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