SeqScape Software Version 2.1 User Guide - InfoNet
SeqScape Software Version 2.1 User Guide - InfoNet
SeqScape Software Version 2.1 User Guide - InfoNet
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Chapter 10<br />
Sample and Consensus Quality Values<br />
Types of Quality Values (QVs) . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 10-2<br />
Sample Quality Values . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 10-3<br />
Sample Quality Values . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 10-3<br />
Interpreting the Sample Quality Values . . . . . . . . . . . . . . . . . . . . 10-3<br />
Sample Score . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 10-3<br />
Consensus Quality Values . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 10-5<br />
Interpreting the Consensus Quality Values . . . . . . . . . . . . . . . . . 10-5<br />
Consensus Score . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 10-5<br />
Displaying Quality Values . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 10-6<br />
Customizing the Quality Value Display . . . . . . . . . . . . . . . . . . . . 10-7<br />
Displaying the Quality Bars and Values . . . . . . . . . . . . . . . . . . . . 10-9<br />
Editing Bases with Quality Values . . . . . . . . . . . . . . . . . . . . . . . . . . 10-10<br />
Cumulative Quality Value Scoring in Reports . . . . . . . . . . . . . . . . . . 10-11<br />
Analysis QC Report . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 10-11<br />
Mutations Report . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 10-12<br />
Specimen Statistics Report . . . . . . . . . . . . . . . . . . . . . . . . . . . . 10-13<br />
Genotyping Report . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 10-14<br />
Chapter 11<br />
Automating Analysis<br />
Integrating <strong>SeqScape</strong> and Data Collection <strong>Software</strong> . . . . . . . . . . . . . 11-2<br />
Overview . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 11-2<br />
<strong>Software</strong> Relationships . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 11-3<br />
Before You Start . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 11-4<br />
Required Files Created in <strong>SeqScape</strong> <strong>Software</strong> . . . . . . . . . . . . . . . . . 11-6<br />
Launching Autoanalysis Manger . . . . . . . . . . . . . . . . . . . . . . . . . . . . 11-7<br />
Creating Required Files in the Data Collection <strong>Software</strong> . . . . . . . . . . 11-8<br />
For More Information . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 11-8<br />
If the Files Already Exist . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 11-8<br />
Creating an Instrument Protocol . . . . . . . . . . . . . . . . . . . . . . . . . 11-9<br />
Creating an Analysis Protocol . . . . . . . . . . . . . . . . . . . . . . . . . . 11-11<br />
Creating a Results Group . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 11-14<br />
Creating a Plate Record . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 11-18<br />
Completing a Plate Record . . . . . . . . . . . . . . . . . . . . . . . . . . . . 11-20<br />
Scheduling and Starting a Run . . . . . . . . . . . . . . . . . . . . . . . . . . . . 11-22<br />
x<br />
ABI PRISM <strong>SeqScape</strong> <strong>Software</strong> v<strong>2.1</strong> <strong>User</strong> <strong>Guide</strong><br />
DRAFT<br />
August 28, 2003 3:10 pm, <strong>SeqScape</strong>UGTOC.fm
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