Data Analysis Software
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.
These tools convert the images gathered during Data Collection into all four colors, representing the four corresponding nucleotide bases (Figure 1). For example, our Sequence Analysis Software is a primary analysis tool that must be used after collection is completed. The Sequence Analysis software application allows users to basecall and re-basecall, trim data ends, display, edit and print sample files.
The selected basecaller processes the fluorescence signals, then assigns a base to each peak (A, C, G, T, or N). If the KB™ basecaller is used, it also provides per-base quality value predictions, optional mixed base calling, and automatic identification of failed samples (Figure 1).
These tools allow you to further refine your results. Algorithms in our secondary analysis software products perform a number of functions supporting applications such as mutation detection and genotyping, and produce graphical outputs.
|Sequencing Analysis Software v5.4 with KB™ Basecaller v1.4.1||Primary Analysis Tool|
|Sequence Scanner Software v1.0||Software Viewing Tool|
|SeqScape® Software for Mutation Profiling v2.7||Secondary Analysis Tool|
|Variant Reporter® Software v1.1||Secondary Analysis Tool|
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.
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 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 analysis software processes the raw data in an *.fsa file using algorithms and applies user-specified analysis settings to the results.
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 analysis, our secondary analysis software (GeneMapper software) also performs a number of functions including allele calling and report table generation (Figure 3).
|Peak Scanner v1.0||Primary Analysis Tool|
|GeneMapper® Software v4.1||Primary and Secondary Analysis Tool|