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Never Let the Important Become Urgent: A reflection on the genetics supply chain and our need to increase value to the end patient
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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 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.
Python Learning Resources
» SVS 7 Scripting Reference
» Python.org
» Beginners Guide to Python
Consensus and Combination of Two Arrays
Author: Greta Peterson and Christophe Lambert, Golden Helix
This script takes genotypes from two different arrays and creates a consensus spreadsheet, and two optional spreadsheets.
In order to run this script two spreadsheets of mapped genotype data are required. The spreadsheets may also contain non-marker mapped columns as they will be skipped when the spreadsheets are processed. Both spreadsheets can use either SNP ID’s or RS ID’s as marker names, or one spreadsheet can use SNP ID’s and the other RS ID’s as long as the spreadsheet with SNP ID’s has an RS ID field in its applied marker map. Both spreadsheets should have genotypes coded in the same manner; either both have A/B alleles or both have nucleotide alleles, AGCT, assigned using the same strand.
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Recommended Directory Location
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.
Save the script to the following directory:
*..\Application Data\Golden Helix SVS\UserScripts\SVS\Tools
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 project navigator Tools menu.
