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Agilent Genomic Workbench 6.5 Feature Extraction 10.10 Reference Guide
This document serves as a Reference Guide for the Agilent Genomic Workbench 6.5 Feature Extraction 10.10 software. It provides detailed descriptions of protocols available for use with the software, including default parameter values and results for various analyses such as gene expression (2-color and 1-color), CGH, ChIP, and miRNA experiments.
The guide explains how the Feature Extraction algorithms calculate results to help users interpret their data. It includes tables listing default settings for shipped and non-Agilent protocols, instructions on reading QC Reports, a listing of parameters in generated text files (FEPARAMS) and MAGE-ML XML files, and equations with sample calculations for the feature extraction process.
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Questions answered in these manuals
What software versions does this guide cover?
This guide is valid for the Agilent Genomic Workbench Standard Edition 6.5 software and later revisions, until superseded.
What are the main functions of the Workflow utility?
The Workflow utility allows users to extract image files with Feature Extraction software and analyze data using CGH and ChIP analysis software.
What types of experiments does this guide cover?
The guide covers gene expression (2-color and 1-color), CGH, ChIP, and miRNA experiments.
From: Agilent Genomic Workbench 6.5 Feature Extraction 10.10 Reference Guide
What file formats are generated after Feature Extraction?
The software produces text files containing parameters and results, as well as MAGE-ML XML files.
From: Agilent Genomic Workbench 6.5 Feature Extraction 10.10 Reference Guide