Data Quality Alerts; Sizecalling And Basecalling Quality Alerts - Thermo Scientific Applied Biosystems SeqStudio Genetic Analyzer User Manual

Data quality alerts

Quality alert
Offscale peaks. Adjust the injection
parameters and/or the sample
concentration.
No sample was detected.

Sizecalling and basecalling quality alerts

Table 5 Sizecalling quality alerts
Quality alert
Sizing quality value is low due to poor size
standard peak quality. Peak height uniformity is
low or the fitting quality in sizing is poor.
Sizecaller found broad peak(s) in the size
standard peak(s).
Sizing quality value is in the intermediate range;
check size standard data quality.
The number of size standard peaks detected is
less than what is defined in the size standard.
SeqStudio Genetic Analyzer Instrument and Software User Guide
™
5. Touch a sample file name, then touch View.
If you select more than one sample file name, the View button is dimmed.
If the data triggered any quality alerts, a QC alerts screen is displayed.
For information on quality alerts, see:
Click View data to display the trace for the sample. See "Fragment/HID analysis
trace" on page 113 or "Sequence analysis trace" on page 115.
6. Touch and drag the thumbnail view of the analyzed trace (below the trace) to
scroll left or right.
7. Touch or to scroll to the raw data or EPT Plot.
Description
At least 10 scans have saturated the
CCD camera.
Poor signal‑to‑noise ratio with low
signal detected.
Low resolution or poor quality
data is present.
Size standard definition
includes peaks that are not
present in the sample. Example:
Sample peaks are detected up
to 500 bp, but the size standard
definition includes peak sizes
that are >500 bp.
Chapter 8 View and analyze results
View results on the instrument
• Reduce the injection voltage or
time.
• Dilute the sample.
• Verify that the sample volume
follows recommendations in the
user manual.
• Troubleshoot upstream PCR and
sequencing steps.
Description
Use or create a size standard
definition with the appropriate
number of peaks and peak
sizes.
Action
Action
• Re-inject the sample.
• If the problem persists,
check the sample quality.
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