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Revision as of 13:35, 18 December 2009
, 13:35, 18 December 2009no edit summary
MapQuality = SumBaseQual(best) / (Sigma_i (SumBaseQual(i))
MapQuality = SumBaseQual(best) / (Sigma_i (SumBaseQual(i))
For paired end reads, we calculate SUM_BASE_Q as the sum of base quality scores at mismatched bases for both reads.
== Reference ==
== Reference ==
Li H, Ruan J, Durbin R. (2008) Mapping short DNA sequencing reads and calling variants using mapping quality scores. ''Genome Research'' '''18''':1851-8.
Li H, Ruan J, Durbin R. (2008) Mapping short DNA sequencing reads and calling variants using mapping quality scores. ''Genome Research'' '''18''':1851-8.
