Variant Reporter® Software v1.1, Initial License - FAQs

The improved basecalling algorithm (the KB Basecaller) is designed to accurately call more bases out of sequencing data, and reduce manual data review time by providing per-base quality value (QV) assignment, which is a measure of basecaller accuracy. The KB Basecaller supports most chemistries and run modules available on the Applied Biosystems 3130 Series Genetic Analyzers running Data Collection v3.0 and v.3.1 Software, and is also integrated in the Applied Biosystems Sequencing Analysis v. 5.X Software and SeqScape v2.X Software. In previous versions of Data Collection Software, resolution performance for all run modules was calibrated with a 98.5% basecalling accuracy (1.5% probability of error) specification using the ABI Basecaller. Utilizing the KB Basecaller v1.2 release for Data Collection v3.0 Software, resolution performance for the all the run modules was calibrated with a quality score cutoff of QV20 (99% basecalling accuracy or a 1% probability of error) using a sliding window of 20 bases from the 3' end. Therefore, while shorter read length specifications are generated with the KB Basecaller, the calibrations are of higher basecalling accuracy. In this release, we are using the same specifications for 98.5% basecalling accuracy, which is on the conservative end, to keep the specifications uniform.

Find additional tips, troubleshooting help, and resources within our Capillary Electrophoresis Instruments Support Center.

The following capillary electrophoresis secondary analysis software are compatible with Windows 10 (and also Windows 7):

-Sequencing Analysis Software v7
-SeqScape Software v4
-Variant Reporter Software v3
-GeneMapper Software v6
-Minor Variant Finder v1.2
-MicrobeBridge v1.1

Find additional tips, troubleshooting help, and resources within our Capillary Electrophoresis Software Support Center.

Please visit our Applied Biosystems Genetic Analyzer Freeware and Patches website: https://www.thermofisher.com/sangerpatches

Find additional tips, troubleshooting help, and resources within our Capillary Electrophoresis Software Support Center.

For importing data, there are many ways to do so:

More information on backing up the Data Store can be found in the Variant Reporter Help Contents under the keyword “Back-up”.

1. Select the Data Store where you would like the data imported to. To choose a Data Store:
a. Click the Manage button in the Data Store section of the Dashboard View.
b. Highlight the Data Store you wish to use and click on Change Location to select it. Click Close to close the window.

Find additional tips, troubleshooting help, and resources within our Capillary Electrophoresis Software Support Center.

To archive a Variant Reporter software project from the Dashboard:

1. Open the Dashboard View.
2. In the Project tab select the project you want to archive, then click .
3. In the Archive Destination dialog box, browse to the folder where you want the project archived.
4. Click OK. The project file you archived will no longer appear in the Variant Reporter Dashboard.

More information on archiving Project data can be found in the Variant Reporter Help Contents under the keyword “Archive”.

Find additional tips, troubleshooting help, and resources within our Capillary Electrophoresis Software Support Center.

To back up the Data Store:

1. Open the Dashboard View.
2. Click .
3. In the Browse for Back-up Folder Destination dialog box, select the folder that you want to back up the Data Store to, then click OK. Your project will start to get backed up.

Note: All associated Projects, Analysis Parameters, and References contained in the current Data Store will be copied to the folder you selected when you back up the Variant Reporter Data Store.

Find additional tips, troubleshooting help, and resources within our Capillary Electrophoresis Software Support Center.

More information on exporting data can be found in the Variant Reporter Help Contents under the keyword “Export”.
To export a Project, Analysis Parameter, or Reference from the Dashboard:
Open the Dashboard View (see below), then click on the Tab (Projects, Analysis Parameters, or References) where the file you want to export is located and left-click on the file name to select it.
Click Export to open the Export File dialog box.
Select the location you want to save the file in, then click Save.

Find additional tips, troubleshooting help, and resources within our Capillary Electrophoresis Software Support Center.

For exporting and backing up the data, there are many ways to do so:

Export: takes the Project, Analysis Parameters, and Reference Data of your choice and saves them to a location of your choice. You can use this option for backing up data or sending data to support personnel. Exported files will not be removed from the Dashboard unless you delete them.

Archive: for Projects only: will take a selected Project and export it to a location of your choice. The Project is then removed from the Project Dashboard. You cannot archive Analysis Parameters or Reference Data.

Back-up: will duplicate all of the information in the Data Store (Projects, Analysis Parameters, and Reference Data) to a folder of your choice. This is an all-or-nothing option - you cannot select specific files for back-up. If you wish to have specific files backed up, please use the Export option.

Find additional tips, troubleshooting help, and resources within our Capillary Electrophoresis Software Support Center.

The Variant Reporter Software v.1.1 is compatible with the following data files:

-310 PC, Data Collection Software v.3.1
-3130 series Data Collection Software v.3.1
-3730 series Data Collection Software v.3.1
-3500 series Data Collection Software v.1.0

Please note, ABI PRISM 310 data will have to be pre-analyzed in Sequencing Analysis Software before importing into Variant Reporter. For more information, please click here for the Variant Reporter Software v.1.1 datasheet (https://www.thermofisher.com/content/dam/LifeTech/Documents/PDFs/Variant-Reporter-Software-v-1-1-datasheet.pdf).

Find additional tips, troubleshooting help, and resources within our Capillary Electrophoresis Software Support Center.

The computer requirements are as follows:

-Minimum: 2.8 GHz Pentium IV CPU or faster
-512 MB RAM
-40 GB hard disk space for application

Recommended CPU: Core 2 Duo E8400/3.0 GHz
-1 GB RAM
-320 GB hard disk space

For the operating system, Variant Reporter Software v.1.1 requires either Windows XP Professional, service pack 3, or Windows Vista (32-bit Business Edition), service pack 1. Please click here for the Variant Reporter Software v.1.1 datasheet (https://www.thermofisher.com/content/dam/LifeTech/Documents/PDFs/Variant-Reporter-Software-v-1-1-datasheet.pdf).

Find additional tips, troubleshooting help, and resources within our Capillary Electrophoresis Software Support Center.

Unfortunately, Variant Reporter Software v.1.1 is not Windows 7 compatible. Please click here for the Variant Reporter Software v.1.1 datasheet (https://www.thermofisher.com/content/dam/LifeTech/Documents/PDFs/Variant-Reporter-Software-v-1-1-datasheet.pdf).

Find additional tips, troubleshooting help, and resources within our Capillary Electrophoresis Software Support Center.