Created:
March 27, 2008
User Level:
Intermediate
Products:
HelixTree, CNAM, WGA Module
Affymetrix Genotyping Console 2 (free)
1. Prepare a LogR DSF File
The first step is to prepare a DSF file containing normalized LogRs using the Copy Number Analysis Module (CNAM). This tutorial will not cover this process as it is discussed in-depth in Steps 1-3 of the Whole Genome Copy Number Association tutorial.
For this tutorial you can use the following pre-processed LogR DSF file:
- Sample LogR DSF file (DSF file containing 500K LogRs from four HapMap samples)
 |
 |
TABLE OF CONTENTS |
|
| Introduction |
|
| ›› | Prepare a LogR DSF |
| Import Affymetrix marker map |
|
| Convert LogRs to CNT files |
|
| Perform copy number segmentation |
|
| Open CNT and WIG files in Affymetrix GTC Browser |
