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  • how to use samtool to see the genome mapped

    I'm a new one. Just learn bwa and samtools.
    samtools flagstat only show how many reads been mapped to genome. How can I see how many nucleotide sof the reference genome been mapped?

    Thanks!

  • #2
    samtools pileup

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    • #3
      Thanks a lot!
      Originally posted by Chipper View Post
      samtools pileup
      Last edited by elisadouzi; 04-06-2011, 03:31 PM.

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