• Created : 
  • Modified : 
  • Category :  Agilent Knowledge Portal
  • Entry Type :  Article
  • Product Type :  Automated Electrophoresis Software
  • Component :  Femto Pulse Software Fragment Analyzer Software ZAG DNA Software
  • Product Name :  ProSize data analysis software
  • Task :  Operation
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How to Export and Import a Ladder for Agilent Parallel Capillary Electrophoresis Data

Answer

This Information Applies To: 5200/5300/5400 Fragment Analyzer, Femto Pulse, ZAG DNA Analyzer, ProSize Data Analysis Software

Issue

How to export a ladder as a size calibration file and import it into a different run in ProSize. 

Background

In the Agilent ProSize analysis software, you can calibrate the size of sample fragments in two ways. You can, either by running a standard DNA or RNA Ladder in a well of the sample plate (recommended), or by import a previously calculated and exported size calibration file (*.scal extension).

  
Caution: When using an imported size calibration, the separation gel, capillary array dimensions, injection/run voltage, and markers should be identical for the analyzed data and imported calibration to maximize sizing accuracy.
It is important to ensure the sample containing the size calibration ladder has all ladder fragments integrated correctly with no additional peaks before analyzing the remaining samples.
Differences between the analyzed and imported conditions will adversely affect the sizing accuracy. It is recommended to only use a .scal file for one week after creation for accurate results. The most accurate data can only be gathered by running a ladder with each set of samples. (A caution message advise readers that failure to take or avoid a specific action could result in damage to equipment or loss of data.)

 

Steps to Follow

To export a .scal file, carry out the following steps, which are also shown in Figure 1.

  1. Open the run with ladder that you want to export in ProSize.
  2. Select Analysis > Show Size Calibration.
  3. Click the Export button in the bottom right of the Calibration Curve menu. 
  4. Open the File Explorer menu to name and save the .scal file in the desired location
  5. Save the .scal file by clicking OK.


Figure 1. Exporting a .scal ladder file

To import a .scal file, carry out the following steps. These steps are shown in Figure 2.

  1. In ProSize, open the file that you wish to import the size calibration.
  2. Select Analysis > Show Size Calibration.
  3. Select Use Imported Ladder Profile.
  4. In the File Explorer menu, select the .scal file that you wish to import and select OK.


Figure 2. Importing a .scal ladder file

 

 
Learn how to effectively maintain and operate your parallel capillary electrophoresis instrument:
5200, 5300, and 5400 Fragment Analyzer System Manual on Agilent.com
Femto Pulse user manual on Agilent.com
ZAG DNA Analyzer system manual on Agilent.com

For Research Use Only. Not for use in diagnostic procedures.

PR7001-0838

 

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