Data Output; Secondary Analysis Software - Thermo Scientific Applied Biosystems SeqStudio Genetic Analyzer User Manual

Data output

Secondary analysis software

Analysis
Sequencing
Variant Analysis (VA) module
Next‑generation Confirmation
SeqStudio Genetic Analyzer Instrument and Software User Guide
™
SeqStudio ™ Data Collection Software generates an electropherogram (intensity plot)
for each dye that is based on the migration of DNA fragments through the capillaries
during a run.
The format of the sample data files is determined by the type of experiment that is
specified at the time of plate setup.
• Sequencing experiments use basecalling (the algorithms and settings required to
determine the fragment base sequences) and generate an AB1 file.
• Fragment/HID analysis experiments use sizecalling (the algorithms and settings
required to determine the fragment sizes) and generate an FSA file.
The AB1 and FSA file formats can be analyzed by secondary analysis software.
Secondary analysis software is available for desktop computers and on your Connect
cloud-based platform account.
Visit thermofisher.com/connect for the latest available secondary analysis
applications.
Note: Data from the SeqStudio

secondary analysis software.

Secondary analysis apps on the Connect cloud-based platform
App
Quality Check (QC) module
(NGC) module
™
Genetic Analyzer may be labeled as "3200" in
Description
• Automatically checks sequence trace quality.
• Provides a results summary that is based on quality
parameter settings.
• Auto-flags lower-quality traces for further inspection.
• Finds variants in samples that are sequenced on Applied
™
Biosystems genetic analyzers.
• Reports variants at genomic coordinates.
• Allows export of variant calls in standard Variant Call
Format.
• Confirms next-generation sequencing (NGS) variants
using CE technology.
• Allows visualization of the variants that are detected by
both NGS and CE platforms.
• Allows export of confirmed variants in standard Variant
Call Format.
Chapter 1 Product information

Data output

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