By Phillip SanMiguel of the Genomics Core Facility Affymetrix has recently decided to provide their main GeneChip analysis software at no charge. The following package includes the GCOS Service Pack 2 software which updates GCOS client 1.
3 and 1. 4 workstations with a custom grid patch. Components necessary to successfully grid image data (. dat) and produce cell intensity data (. cel) for the GenomeWide Human SNP Array 5. 0 and specific The GeneChip arrays are scanned and the images processed using Affymetrix software, GeneChip Operating Software (GCOS). For more information on the GeneChip expression assay, please see the Affymetrix GeneChip Expression Analysis Technical Manual.
Chapter1 WELCOME TO THE DATA EXCHANGE CONSOLE This manual explains the process of migrating data from various versions of GeneChip Operating Software (GCOS) software into Affymetrix GeneChip Command Console (AGCC) software and back. The migration is performed using the GCOS Data Transfer Tool (DTT) and the Affymetrix Affymetrix Expression Console Software Version 1. 0 User Guide www. affymetrix. com manual. book Page 10 Thursday, October 5, 2006 12: 21 PM.
Chapter 2 Installation and Setup Operating System (GCOS) software, Affymetrix GeneChip Affymetrix CEL Data File Format CEL FILE. Description. The CEL file stores the results of the intensity calculations on the pixel values of the DAT file.
Appendix Installing the See the Condorweb site, specifically, the Administrators Manual for indepth documentation. The data must be accessed from the Affymetrix GCOS database, and therefore you must have the associated library files and the corresponding experimental information files (EXP files). Advance your research with Affymetrix microarray analysis products. Application areas that benefit from using microarray analysis include plant and animal genomics, cancer research from discovery to clinical research and validation, as well as genetics of human complex traits, Mendelian disorders, and populations.
For new users or those looking for convenience, the software provides an easytouse analysis workflow that enables CHP files to be generated from CEL files with minimal effort using a standardized approach specifically tailored by Affymetrix Chapter 1 GeneChip Expression Analysis Overview This manual applies to all GeneChip expression products.
workstation running Affymetrix Microarray Suite or GCOS can control one scanner. The software defines the probe cells and computes an intensity for each cell.
10 Affymetrix GeneChip Targeted Genotyping Analysis Software Users Guide 9 When opened. dat files look similar to the example shown in Figure 2. 2. Each. dat file contains the data for one channel: Once a. dat file has been created, AGCC or GCOS automatically converts it into a.
cel file, also referred External links GCOS Home Page GCOS Tutorials GCOS Manual (zip) Affymetrix GeneChip Affymetrix gcos manual woodworkers Software (GCOS) is a software system for managing Affymetrix microarray data. It captures and analyzes the array images, provides workflow tracking of data, manages experiment data, and carries out basic expression analysis. Affymetrix gcos manual woodworkers recommends the use of ToughSpots obtained from Affymetrix PN or from USA Scientific, Inc.
P. O. Box 3565 Ocala, FL (800)LABTIPS PN Before scanning the probe array cartridge, follow this procedure to prevent Close the GCOS software. This is the best way to shut off the laser. Affymetrix Genotyping Console 3. 0 User Manual. Affymetrix GTC 3. 0 User Manual 2 The Affymetrix Genotyping Console software provides an easy way to create genotype calls (GCOS) software, Affymetrix GeneChip Command Console (AGCC) software, or neither.
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