Question: How do I add a new array platform in caIntegrator?

Topic: caIntegrator Usage

Release: caIntegrator 1.2 and above

Date entered: 03/23/2011

Answer

You can create a study without genomic data, but you cannot add genomic data to a caIntegrator study without a corresponding supported array platform. Currently, caIntegrator only supports following types of platforms: Affymetrix Gene Expression, Affymetrix Copy Number, Agilent Gene Expression, and Agilent Copy Number. Please refer to the User Guide for step-by-step instructions on how to create a new platform.

To add a new platform, the array annotation file is required. For Affymetrix platforms, please refer to https://cabig-kc.nci.nih.gov/Molecular/KC/index.php/GeWorkbench025 GeWorkbench025 for how to obtain the annotation file. For other platforms, please refer to the following resources:

• caArray

• GEO

• Arrayexpress

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