What is Python?

Python is a clear and powerful object-oriented programming language, comparable to Perl, Ruby, Scheme, or Java. Integrating Python into SVS 7 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.

LD Pairwise Analysis Scripts

Author: Greta Peterson, Golden Helix, Inc.

This script outputs results from LD analysis, both the EM and CHM methods and both R² and D' values. 

Name	Description	Script		Documentation
LD Pairwise Analysis	Calculates LD for all pairs in spreadsheet.		Script		Documentation
LD Pairwise Analysis within Gene Regions	Calculates LD for all pairs within gene regions, defined by a user-specified gene annotation track.		Script		Documentation
LD Pairwise Analysis Matrix Output	Calculates LD for all pairs in spreadsheet. Outputs separate spreadsheets for each method and statistic in matrix format.		Script		Documentation
LD Adjacent Pairs Analysis	Calculates LD for all adjacent pairs in a spreadsheet. Does not do full pairwise comparisons.		Script		Documentation
Zip file of all LD Analysis Scripts			ALL Scripts and Documentation (Zip file)

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Need a Custom Script?

Need a script and don't feel you have the bioinformatics exptertise 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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Save the script to the following directory:
*..\Application Data\Golden Helix SVS\UserScripts\Spreadsheet\Analysis

Note: Note: The Application Data folder is a hidden folder on Windows operating systems and its location varies between XP and Vista. 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 Analysis menu.