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  • caswater
    Member
    • Jun 2011
    • 47
    #1

    question about GATK tranches plot

    Hi, after running GATK VQSR recalibration, the program generated a plot for the tranches used for training. It looks a bit weird for me, and do you have any comments on it? Can I use the results? or what shall I do to improve the snp-calling?

    Thanks a lot for your advice.
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    • caswater
      Member
      • Jun 2011
      • 47
      #2
      Hello, I made the plot available now. Could you please take a look, and give some comments on it? Is the plot okay? I just feel it is a bit weird...
      Thanks!

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