Add-On Script

Variant Classification

Author: Mike Thiesen, Golden Helix, Inc.

This script will perform Variant Classification on a marker mapped genotype spreadsheet. Variant classification examines the interactions between variants and gene transcripts in order to classify variants based on their potential effect on genes. This provides insight into which variants are most likely to have functional effects.


Download Documentation Documentation

Recommended Directory Location

Save the script to the following directory:
*..\Application Data\Local\Golden Helix SVS\UserScripts\Spreadsheet\DNA_Seq\

Note: The Application Data folder is a hidden folder on many operating systems and its location varies between operating systems. The easiest way to locate this directory on your computer is to open SVS and go to Tools >Open Folder > UserScripts Folder. If saved to the proper folder, this script will be accessible from the Spreadsheet DNA-Seq menu.

Need a Custom Script?


Need a script and don't feel you have the bioinformatics expertise to write it yourself? Click the link below to request a custom script and we'll see what we can do to help.
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What is Python?

Python is a clear and powerful object-oriented programming language, comparable to Perl, Ruby, Scheme, or Java. Integrating Python into SVS provides full programmatic access to many of the software's features enabling the augmentation of existing tools, creating entirely new ones, automation of work flows, integration with other programs and more.

Python Learning Resources