MAF Filtering on Recoded Spreadsheet
Author: Autumn Laughbaum, GHI
This script calculates minor allele frequency (MAF) on recoded data created by Recode Genotypes with X Chromosome Adjustment.
MAF Filtering on Recoded Spreadsheet.py
Recommended Directory Location
Save the script to the following directory:
*..\Application Data\Golden Helix SVS\UserScripts\Spreadsheet\Genotype\Quality_Assurance
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 Genotype > Quality Assurance menu.
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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.