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  • Per Base Error Rate for Next-Gen Sequencing

    Hiya,

    Given an alignment coverage table data (for Next-Gen), how would one go about computing the per base error rate?

    Thx,
    Bertie

  • #2
    samtools -pileup can produce base mapping and mutation information, does this help you ?

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    • #3
      Originally posted by BertieWooster View Post
      Hiya,

      Given an alignment coverage table data (for Next-Gen), how would one go about computing the per base error rate?

      Thx,
      Bertie
      Do you have the alignments in SAM/BAM format? If so, you can use the "dbamerrordist" program found in the DNAA package.

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