Applied Biosystems SOLiD™ 4 System SETS Software User Guide ...

Define primary
analysis settings
Applied Biosystems SOLiD 4 System SETS Software User Guide
Chapter 2 Prepare Run Settings
Set analysis parameters 2
The Secondary analysis (sequence data alignments to a reference
sequence) will not occur without a preloaded reference sequence.
Perform secondary and tertiary analysis with the BioScope
Software. See “Load a Reference Sequence” on page 37.
In SETS, you can define the traffic light thresholds as a part of your
setup for primary analysis.
To modify the threshold settings:
1. Log into SETS.
2. Go to Main Menu
�Analysis�Primary
Analysis Settings.
3. Click [New...] to begin
modifying the threshold settings.
Note: Click to delete an existing setting
or to edit one.
4. Enter a new value for the Low or High percentage setting for
any of the following parameters:
– Stringency
– Panel alignment
– HQ bead
– Bead retention
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