Log Ratio Tails

Author: Christophe Lambert and Bryce Christensen, Golden Helix, Inc.

This script calculates percentile values for the upper and lower tails of the log ratios using two user-specified thresholds. Missing values are skipped. A log ratio call rate is returned with the results. This script may also be used to identify percentiles for real-value data other than log ratios.

Assumes:

  • Samples are columns of the spreadsheet
  • A marker map is applied or active data is from autosomes only
  • There are columns of real-valued log ratios.

Log Ratio Tails.py

Download Documentation Documentation

Recommended Directory Location

Save the script to the following directory:
*..\Application Data\Golden Helix SVS\UserScripts\Spreasheet\QualityAssurance\CNV

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 Quality Assurance menu, CNV submenu.


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