Here is a "best of" collection of links to manuals and tools for Microarray workflow. For other instruments refer to Collection of Support Documents
Collection of Microarray Resources
For SureScan Dx Microarray Scanner resources, please see here
SureScan Microarray Scanner
General
G4900DA SureScan Microarray Scanner System User Guide
Agilent Microarray Scanner Software Versions A.8.3 Release Notes
Agilent G2565BA Microarray Scanner Bar Code and Glass Specifications
Technical and Application Notes
A Method for Quantifying the Performance of a DNA Microarray Scanner
Maintenance and Troubleshooting
CGH + (SNP) Microarray Analysis Platform
General
Oligonucleotide Array-Based CGH for Single Cell Analysis - Enzymatic Labeling Protocol - User Manual
Oligonucleotide aCGH for Genomic DNA Analysis - ULS Labeling - User Manual
Technical and Application Notes
Maintenance and Troubleshooting
Microarray Gene Expression Portfolio
General
Technical and Application Notes
Maintenance and Troubleshooting
Microarray miRNA Portfolio
General
Technical and Application Notes
Maintenance and Troubleshooting