Announcement

Collapse
No announcement yet.

Different MAPPING QUALITY/PER-BASE QUALITY SCORE

Collapse
X
 
  • Filter
  • Time
  • Show
Clear All
new posts

  • Different MAPPING QUALITY/PER-BASE QUALITY SCORE

    Hi NGS users,
    someone could explain me the different between MAPPING QUALITY and PER-BASE QUALITY SCORE?

    The score for the pileup is the Phred score of mapping quality?

    I have a bit of confusion about it!
    Thanx a lot
    ME

  • #2
    The mapping quality can be extracted from SAM or BAM file. But is there a way to do this using BIO:B::SAM modules?

    To extract mapping quality using Bio:B::BAM, can I use:
    $quality = $align->qual ?
    It returns the quality score for the alignment as a whole.
    Last edited by m_elena_bioinfo; 09-02-2010, 05:53 AM.

    Comment


    • #3
      Originally posted by m_elena_bioinfo View Post
      Hi NGS users,
      someone could explain me the different between MAPPING QUALITY and PER-BASE QUALITY SCORE?

      The score for the pileup is the Phred score of mapping quality?

      I have a bit of confusion about it!
      Thanx a lot
      ME
      Read the supplementary materials in the Li et al. MAQ paper (Genome Research).

      Comment

      Working...
      X