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Quality values are used to assess confidence and accuracy of sequencing as well as mutation calling. Specifically, they can be used to help minimize false positive calls by identifying regions of low quality in the trace files. Quality values can be assigned to measure single nucleotide quality, such as Phred Score and signal to noise ratio values. These scores can then be collectively used to measure the quality of an entire trace. Additional scores that help assess the overall trace quality include the Base Score, Lane Quality and Signal Strength. To evaluate the confidence of a mutation call, scores such as the Mutation Score, Indel Quality Score and NM_score can be displayed.

Contents of this video

00:00 Introduction to Quality Values in Mutation Surveyor
01:03 Phred Score
05:37 Signal to Noise Ratio
08:27 Base Score
08:47 Lane Quality
12:16 Signal Strength
12:43 Mutation Score
15:56 NM_Score
18:01 Quality Value Options in Mutation Project Settings
18:44 Displaying Quality Values
19:24 Reporting Quality Values using Graphical Reports
21:20 Reporting Quality Values using Tabular Reports