After electrophoresis, data collection software creates a sample file of the raw data. Using downstream software applications, further data analysis is required to translate the collected color-data images into the corresponding nucleotide bases or fragment analysis allele cells.
Amplified fragments, along with appropriate size standards, migrate through a polymer-filled capillary and are detected using Data Collection Software (DCS). During an electrophoresis run, the DCS records the fluorescence intensity as a function of time and wavelength from regions on a CCD camera that correspond to different detection wavelength ranges. The resulting peaks are then processed according to the user-specified analysis parameters and size standard definition in the primary and secondary analysis software.
Primary Fragment Analysis
These tools convert the images gathered during Data Collection into sized fragment length peaks (Figure 2). For example, our Peak Scanner Software is a primary fragment analysis tool that can be used after data collection is completed. The Peak Scanner software application allows users to size, display, edit and print sample files. Primary fragment analysis software processes the raw data in an *.fsa file using algorithms and applies user-specified analysis settings to the results.
Secondary Fragment Analysis
These tools allow you to further refine your results. GeneMapper® Software is a flexible fragment analysis software package that provides quality DNA sizing and allele calls for all Applied Biosystems Genetic Analyzers. This software is designed to support multi-application functionality, including analysis of fragment length and/or number polymorphism applications, relative fluorescence quantitation applications, microsatellite and SNP genotyping applications, and conformation polymorphism applications. In addition to the functionality in primary fragment analysis, our secondary fragment analysis software (GeneMapper software) also performs a number of functions including allele calling and report table generation (Figure 3).
Product Selection Guide: Fragment Analysis Software for Data Analysis
|Peak Scanner 2 (Download)
||Primary Fragment Analysis Tool||
|GeneMapper Software 6||Primary and Secondary Analysis Tool||