Applied Biosystems 3730xl User Manual

Create an analysis protocol
An analysis protocol contains all the seings necessary to analyze sequencing data.
1.
In the navigation pane of the Data Collection Software, select GA
Instruments4 ga37304 Protocol Manager.
1
2
1
Instrument Protocols
2
Analysis Protocols
2.
Click New in the Analysis Protocols pane.
3.
Edit the seings as needed. See “
Analysis protocol parameters“ on page 89.
4.
Click OK.
Analysis protocol parameters
Option
If checked, the software creates…
Sequence File Formats
• Writ
e SEQ File—A SEQ file for printing the sequence as text file or for using the file
in other software.
– ABI format that is used with Applied Biosystems
™
software.
– FASTA format that is used with other software
• Write Standard Chromatogram Format file (SCF) —When selected, the software
creates a SCF file that can be used with other software. The SCF extension is not
appended to the file name.
• Write Phred (PHD.1) File —When selected and the KB
™
basecaller is used, the
software creates a PHD 1 file that can be used with other software.
Basecaller and Dye Set Select the appropriate Basecaller and DyeSet/Primer based on the chemistry and
capillary array length you are using.
Chapter 7 Create and manage instrument protocols, run modules, and analysis protocols
Create an analysis protocol
7
3730xl DNA Analyzer with 3730xl Data Collection Software 5 User Guide
89

Applied Biosystems 3730xl Specifications

General

Brand	Applied Biosystems
Model	3730xl
Category	Measuring Instruments
Language	English