Export Impute2 Genotype Probabilities
Author: Greta Peterson
From a spreadsheet containing marker-mapped genotypic columns, this script saves the spreadsheet in a series of Imput2 chr*.gen files with the corresponding chr*.sample files to the specified directory. For more information see Impute2 website
Recommended Directory Location
Save the script to the following directory:
*..\Application Data\Golden Helix SVS\UserScripts\Spreadsheet\File
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 File 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.