Sentence examples for mapping quality is from inspiring English sources

In any case where there are two or more equally likely alignments (multiple locations a query can map to), the mapping quality is zero.

For MaxSSmap we consider the read mapped only if mapping quality is above −100 log2.9=15.2.

If an alignment algorithm guarantees to find all local alignments, mapping quality is determined by these local alignments only.

We use different thresholds because we know that MAQ's mapping quality is underestimated, while BWA's is overestimated.

Following the work of Li and Durbin [ 23], the mapping quality is defined as the Phred-scaled probability that the insert was sequenced from a different genomic location.

The alignment did not limit the number of mismatches allowed, but the most seen was 4, indicating that mapping quality is too low for anything with higher mismatches.

Average mapping quality was 30.

The mapping quality was assessed with SAMStat software [ 41].

Read mapping quality was assessed using Samtools v 0.1.19 [ 50].

The consensus mapping quality was also used to weed out low-quality assemblies.

BAQ computation was disabled and the coefficient for downgrading mapping quality was set to 50.