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The descriptive files include IDF, SDRF and Array Design Files. Note that the MAGE-TAB format Array Design File (designated as ADF) is not mandatory in caArray, since array design files for the common arrays are usually available from their respective array providers. If an array design file (which may not be MAGE-TAB format) is available from its array provider, it should be chosen over an ADF file. MAGE-TAB ADF files are not parsed by caArray. Also note that third party array Array design files, whether native or ADF, are uploaded using the Manage Array Design interface under Curation on the caArray left sidebar. A The MAGE-TAB ADF file types, IDF, SDRF and data matrix files, on the other hand, is are uploaded together with the rest of MAGE-TAB fileson the Manage Data page.

Array data files consist of raw array data and/or derived array data. A variety of raw data files, produced by several different scanner makes and models, are supported by the caArray MAGE-TAB parser even though these raw data may not be in MAGE-TAB format. Derived array data refers to either normalized array data, or a data file with data combined from more than one hybridization or scan. The caArray MAGE-TAB parser supports some of these non-MAGE-TAB files, as well. Derived array data files in MAGE-TAB format are called data matrix files. The only data matrix files that caArray supports are copy number data matrix files. For more information, see File Types in caArray.

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