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09-02-2010, 05:56 AM
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#1 |
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Member
Location: Ospedali Riuniti di Bergamo, ITALY Join Date: Oct 2009
Posts: 99
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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 |
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09-02-2010, 05:59 AM
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Member
Location: Ospedali Riuniti di Bergamo, ITALY Join Date: Oct 2009
Posts: 99
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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 at 06:53 AM. |
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09-02-2010, 10:00 AM
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Nils Homer
Location: Boston, MA, USA Join Date: Nov 2008
Posts: 1,285
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