Agilent GeneSpring GX GCRMA Probe Summarization Guide

About this manual

The document details the GCRMA (GC-content Robust Multi-array Average) method, a technique used to convert .CEL files into expression sets by performing background correction, normalization, and probe summarization. It highlights that GeneSpring GX 9.0 includes an additional 'Optical Correction' component compared to version 7.3.1.

What's inside

• Probe Summarization Algorithms
• Definition and Applications
• GCRMA Background Correction
• Normalization Methods
• Summarization Techniques
• Analyzing Affymetrix Expression Data
• Importing Data in GeneSpring GX 7.3.1
• Selecting Preprocessor Options
• Probe Summarization and Normalization Options

Specifications

Frequently asked questions

What is the main difference between GCRMA in GeneSpring GX 7.3.1 and 9.0?

GeneSpring GX 9.0 includes an additional 'Optical Correction' component during background correction, which was not performed in version 7.3.1.

Which summarization algorithm is recommended for Affymetrix data?

The document recommends selecting 'GCRMA' from the drop-down list for probe summarization.