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User Manuals
Agilent ProSize data analysis software Readme (PDF)

This document lists changes of ProSize Data Analysis software, lists system requirements and provides installation instructions.

  • Created: 28 Apr 2026
  • 288 KB
  • PDF
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User Manuals
Agilent ProSize data analysis software Readme for ProteoAnalyzer (PDF)

This document lists changes of ProSize Data Analysis software revision 6.0.1, lists system requirements and provides installation instructions.

  • Created: 14 Feb 2025
  • 294 KB
  • PDF
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Brochures
Eliminate Fragment Analysis Bottlenecks - Agilent ZAG DNA Analyzer System (PDF)

The Agilent ZAG DNA Analyzer system is designed to alleviate fragment analysis bottlenecks by allowing labs to load up to 864 samples at once and separate more than 4,608 samples per day.

  • Publication Part Number: 5994-0426EN
  • Created: 16 Nov 2021
  • 4 MB
  • PDF
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Brochures
Fast Separation, Ultra Sensitivity, One Instrument - Agilent Femto Pulse System (PDF)

The Agilent Femto Pulse system separates high molecular weight (HMW) DNA fragments and detects nucleic acids into the femtogram range from low concentration samples.

  • Publication Part Number: 5994-0410EN
  • Created: 20 Jan 2022
  • 4 MB
  • PDF
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Brochures
Reliable Results for Nucleic Acid Analysis. Agilent 5200, 5300, and 5400 Fragment Analyzer Systems. (PDF)

Using automated parallel capillary electrophoresis, the Fragment Analyzer systems offer nucleic acid quality control for a range of applications, including NGS libraries and cfDNA QC.

  • Publication Part Number: 5994-0414EN
  • Created: 15 Nov 2021
  • 5 MB
  • PDF
Community Search Results

ProSize Data Analysis Software - Overlay function not working

ProSize Data Analysis Software - Overlay function not working

Hello, I am using ProSize Data Analysis Software to analyze data from Oligo Pro II system. I am trying to overlay samples. The first way to overlap shows weird baseline shape (scare line - picture 1).

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Report Template Editor crashing Data Analysis software

Report Template Editor crashing Data Analysis software

Hi there, I have run into an issue where every time I attempt to open the editor for report templates my data analysis software crashes. The report preview screen works and generates the desired preview, but as soon as I switch to editor mode I am given an error screen (shown below) and the data analysis software freezes and closes.

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ZAG DNA Analyzer

ZAG DNA Analyzer

Links to user manuals , application resources and technical notes , quick guides , software and consumables and supplies on Agilent.com . User Manuals Title Type ZAG DNA Analyzer System Manual Capillary Array Removal and Installation (page 85) Preventative Maintenance Schedule (page 142) Capillary Array Cleaning (page 144) User Manual ProSize Data Analysis Software Manual User Manual Capillary Array Installation on Parallel Capillary Electrophoresis Instruments Knowledge Portal Article Collecting Troubleshooting Information - Event, Error reports and Zipped data folder Instruction Guide Steps for Long- term Instrument Storage Knowledge Portal Article Syringe Replacement Knowledge Portal Article Quick Guides Title Type ZAG-105 dsDNA Kit Quick Guide ZAG-110 dsDNA Kit Quick Guide ZAG-130 dsDNA Kit Quick Guide ZAG-135 dsDNA Kit Quick Guide Application Resources and Technical Notes Title Description Type Arabidopsis thaliana Ecotypes Differentiated by Simple Sequence Repeats DNA Application Note Detection and Analysis of Restriction-Digested Plasmid Fragments DNA Application Note Separation Resolution Capabilities of the Agilent ZAG 135 and 110 dsDNA Kits and the Agilent Fragment Analyzer dsDNA 935 and 915 Reagents Kits DNA Technical Overview Comparison of the Agilent ZAG DNA Analyzer and Agilent Fragment Analyzer Systems DNA Technical Overview Eliminate Fragment Analysis Bottlenecks - Agilent ZAG DNA Analyzer System DNA Brochure Software Title Description Software Download ZAG DNA Analyzer System | Agilent Agilent ProSize Data Analysis Software Revision 5.0.1.6 ProSize Data Analysis Software Tutorial Videos ZAG DNA Analyzer Controller Software Revision 2.1.0.4 Software ReadMe file Agilent ProSize Data Analysis Software for the Agilent Fragment Analyzer, Femto Pulse and ZAG DNA Analyzer Parallel Electrophoresis Systems Software Data Sheet Recommended PC Setup ZAG DNA Analyzer Recommended PC Setup Consumables and Supplies Title Description ZAG DNA Analyzer Consumables Analysis kits and capillary arrays For Research Use Only.

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Femto Pulse

Femto Pulse

Links to user manuals , application resources and technical notes , quick guides , software , and consumables and supplies on Agilent.com . User Manuals Title Type Femto Pulse User Manual Capillary Alignment (page 51) Capillary Array Removal and Installation (page 90) Preventative Maintenance Schedule (page 143) Capillary Array Cleaning (page 144) Capillary Array Window Cleaning (page 151) User Manual ProSize Data Analysis Software Manual User Manual Capillary Array Installation on Parallel Capillary Electrophoresis Instruments Knowledge Portal Article Steps for Long- term Instrument Storage Knowledge Portal Article Syringe Replacement Knowledge Portal Article Collecting Troubleshooting information - Event, Error reports and Zipped data folder Instruction Guide Quick Guides Title Type FP-1101 Ultra Sensitivity NGS Kit Quick Guide FP-1002 Genomic DNA 165 kb Kit Quick Guide FP-1004 165kb BAC kit Quick Guide FP-1003 55kb BAC Kit Quick Guide FP-1201 Ultra Sensitivity RNA Kit Quick Guide Application Resources and Technical Notes Title Description Type Agilent Femto Pulse System DNA & RNA Brochure Genomic DNA Sizing and Quality Control on the Agilent Femto Pulse System DNA Application Note Quality Assessment of Genomic DNA for Biobanking Samples with the Agilent Femto Pulse System DNA Application Note cfDNA Separated on the Agilent Femto Pulse System DNA Application Note Quality Metrics for Nucleic Acids with the Agilent Fragment Analyzer and Femto Pulse Systems DNA & RNA Application Note Quality Control of Nucleic Acids: Best Practices for Biobanks and Biorepositories DNA & RNA Application Note Sample Quality Control in Next-Generation Sequencing Workflows Application compendium DNA & RNA Application Compendium The Importance of Quality Control in NGS Preparation Workflows: A Review of Applications using the Agilent Automated Electrophoresis Portfolio DNA & RNA White Paper Genomic DNA Extractions Compared with the Agilent Femto Pulse System DNA Application Note Comparison of BAC Fragment Sizing with the Agilent Femto Pulse System and Pulsed-Field Gel Electrophoresis DNA Application Note Genomic DNA Handling and the Agilent Femto Pulse System DNA Application Note Comparison of Agilent Femto Pulse System Sizing with Long-Read Sequencing Read Length DNA Application Note Comparison of Different Methods to Isolate HMW DNA from Bacteria for Nanopore Sequencing DNA Application Note Bacterial Artificial Chromosome Analysis on the Agilent Femto Pulse System DNA Application Note Comparison of Constant- and Pulsed Field Electrophoresis Technologies for Analysis of High Molecular Weight and Large DNA Fragments DNA Application Note Visualizing DNA for Long-Read Sequencing by Moles, Not Mass DNA Application Note Quality Control in the PacBio HiFi Whole Genome Sequencing Library Preparation Workflow Genomics Application Note Software Title Description Software Download for Agilent Femto Pulse Systems Agilent ProSize Data Analysis Software Revision 5.0.1.6 ProSize Data Analysis Software Tutorial Videos Femto Pulse Controller Software Revision 2.0.0.3 Genomic DNA 165 kb Kit Method/Configuration Files The 165 kb BAC Kit Method/Configuration Files Agilent ProSize Data Analysis Software for the Agilent Fragment Analyzer, Femto Pulse and ZAG DNA Analyzer Parallel Electrophoresis Systems Software Data Sheet Recommended PC Setup Femto Pulse Recommended PC Setup Consumables and Supplies Title Description Femto Pulse Consumables Analysis kits and capillary array For Research Use Only.

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Applications
Quality Metrics for Nucleic Acids with the Agilent Fragment Analyzer and Femto Pulse Systems (PDF)

The Agilent 5200 Fragment Analyzer system and the Agilent Femto Pulse system offer quick and easy user-friendly metrics for evaluating DNA, RNA, and genomic DNA quality and integrity.

  • Publication Part Number: 5994-0521EN
  • Created: 06 Mar 2019
  • 499 KB
  • PDF
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User Manuals
ProSize data analysis software user manual (PDF)

This document includes system overviews, analytical methods, maintenance procedures, software operation, troubleshooting guide, and instrument shutdown procedures.

  • Publication Part Number: D0002111 Rev. D
  • Created: 04 July 2025
  • 9 MB
  • PDF
Supporting Documents
Chinese (Simplified) (China) Complete (PDF)
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General Article
ProSize data analysis software

For the integrity verification of the ProSize Data Analysis Software revision 3.0.1.6 by a checksum routine

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General Article
Agilent ProSize Data Analysis Software Revision 6.0.1

Download the ProSize Data Analysis and ZAG DNA Analyzer Controller Software for instrument control, data acquisition and analysis of ZAG DNA Analyzer system.

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General Article
Agilent ProSize Data Analysis Software Revision 6.0.1

Download the ProSize Data Analysis Software and Fragment Analzyer Controller Software for instrument control, data acquisition and analysis of Fragment Analyzer systems.

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General Article
Agilent ProSize Data Analysis Software Revision 6.0.1

Download the ProSize Data Analysis and Femto Pulse Controller Software for instrument control, data acquisition and analysis of Femto Pulse system.

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General Article
How-to Videos for ProSize Data Analysis Software

ProSize data analysis software determines the size, concentration, and quality scores of your DNA and RNA samples separated with the Fragment Analyzer, Femto Pulse or ZAG DNA Analyzer system. Learn more about how to use ProSize by watching the...

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Specifications
ProteoAnalyzer Controller Software Rev. 2.0.0 and ProSize Data Analysis Software Rev. 6.0.1 (PDF)

This data sheet describes the ProteoAnalyzer Controller Software Rev. 2.0.0 and ProSize Data Analysis Software Rev. 6.0.1.

  • Publication Part Number: 5994-8824EN
  • Created: 16 Dec 2025
  • 198 KB
  • PDF
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ProteoAnalyzer Software

A comprehensive software solution for streamlined protein data acquisition and analysis for the Agilent ProteoAnalyzer system

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The Agilent ProteoAnalyzer controller software is optimized to acquire data for protein analysis. The easy-to-use versatile software interface provides tested methods for consistent electrokinetic injections and voltage separations of both reduced and non-reduced proteins.|The ProSize data analysis software generates digital data for the fast and easy visual analysis of protein samples. It provides a digital gel image as well as an electropherogram to accelerate detailed protein analysis. Size and relative concentration of proteins are automatically calculated. The ability to create calibration curves allows for the absolute quantification of samples against comprehensive reference resources, empowers users to make informed decisions.
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Fragment Analyzer Software Security Module

Fragment Analyzer Security Module designed to meet compliance requirements of FDA 21 CFR Part 11, EU Annex 11, and GxP laboratories.

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The Agilent Fragment Analyzer software security module is designed for laboratories that must comply with the guidelines of FDA 21 CFR Part 11, EU Annex 11, GxP, and similar national electronic record regulations. This software module supports system access control, traceability for data analysis visible in audit trails, and approval workflow with eSignature functionality.|The Fragment Analyzer software security module operates autonomously as a standalone package, consisting of the Administration Software, Fragment Analyzer controller, and ProSize data analysis software.
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Fragment Analyzer Software

The software enables acquisition and analysis of DNA and RNA quality data from the Agilent 5200, 5300 and 5400 Fragment Analyzer systems.

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The Agilent Fragment Analyzer controller software is optimized to acquire data from Fragment Analyzer systems for low- to ultrahigh-throughput laboratories. It offers preloaded methods to ensure consistent electrokinetic injections and precise voltage separations for nucleic acid molecules, streamlining the analytical process.|The Agilent ProSize data analysis software generates digital data for easy and rapid visual analysis of DNA and RNA size, concentration, and quality. It provides objective DNA and RNA quality metrics and can be used to analyze a wide range of nucleic acids samples. These include genomic DNA, NGS libraries, plasmids, microsatellites, PCR amplicons, restriction digests, IVT mRNA, small RNA, and total RNA.
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Femto Pulse Software

Software for acquiring and analyzing nucleic acid quality data from the Agilent Femto Pulse system.

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The powerful and intuitive Agilent Femto Pulse controller software is optimized for acquiring data from pulsed-field electrophoresis runs. The multifeatured interface is user-friendly and intuitive. It offers validated methods to ensure consistent electrokinetic injections and precise voltage separations of nucleic acid samples, enhancing laboratory efficiency and reliability.|The Agilent ProSize data analysis software provides digital electrophoresis data for visual analysis of DNA fragments, high-molecular-weight DNA, cell-free DNA, and RNA samples separated with the Femto Pulse system. It offers detailed reports on size, concentration, and DNA and RNA quality metrics with the genomic quality number (GQN) and the RNA quality number (RQN).

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Ultra Sensitivity RNA Kit

Quality control analysis of low concentration mRNA and total RNA

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The Ultra Sensitivity RNA kit is used for the assessment of low concentration RNA, capable of detecting RNA as low as 2.5 pg/µL. Two separation methods are optimized for the analysis of total RNA and mRNA quality control (QC), essential for NGS library preparation and gene expression analysis workflows.|ProSize data analysis software simplifies the RNA QC process by providing an RNA Quality Number (RQN) for total RNA and calculates percent ribosomal RNA contamination for mRNA samples. These quality metrics are automatically generated, ensuring objective and efficient analysis during RNA QC.
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ZAG DNA Analyzer Software

Software to enable the acquisition and analysis of data with the ZAG DNA Analyzer system.

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The ZAG DNA Controller software is optimized for automated high-throughput DNA screening and fragment analysis. This easy-to-use DNA analysis software uses batch processing to automatically process samples and flag wells that meet your defined criteria, making it simpler than ever to obtain the information that matters most to you.|The ProSize data analysis software provides digital data for quick and easy visual analysis of DNA size. It is ideal for DNA analyses such as genotyping, microsatellites/SSR, and restriction digests. After the electrophoretic separation the software generates reports in multiple formats.
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BAC Kits

Quality control of BAC digests and large DNA fragments using pulsed-field capillary electrophoresis

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The 55 kb BAC kit for the Femto Pulse system is designed for quality control of bacterial artificial chromosome (BAC) digests and large DNA fragments with accurate sizing up to 55 kb. Using a highly optimized pulsed-field method, this kit prevents peak broadening, ensuring high-resolution and accurate sizing of BAC digests and large DNA fragments in just 1.5 hours.|The 165 kb BAC kit for the Femto Pulse system is designed for pulsed-field CE separation and sizing of large BAC fragments. The kit provides unparalleled fragment resolution, sensitivity, and accuracy for sizing high molecular weight DNA fragments, such as BAC libraries ranging from 75 to 165,000 bp, with single-fragment detection sensitivity down to 1.6 pg/μL and up to 50 pg/μL.

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