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About the read depth of coverage

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  • About the read depth of coverage

    Hello,

    I am a beginner. I want to find all the copy number variations

    in the genome of pig by the Illumina/Solexa Squencing but I do not

    know what the coverage will be proper---20x, 10x, 5x, 1x, or smaller?

    If the coverage is too high, the cost will also increase too much.

    Thanks in advance.
    Last edited by El Mariachi; 11-29-2010, 08:14 PM.

  • #2
    Take a look to the CNV analysis tools in the wiki. Some of them have publications
    associated. You'll see they work with pretty low coverage.
    -drd

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    • #3
      Originally posted by drio View Post
      Take a look to the CNV analysis tools in the wiki. Some of them have publications
      associated. You'll see they work with pretty low coverage.
      Thank you for your suggestion, I am going to have a try between 1x and 4x.

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