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The most common way to associate the array designs is to select them when the experiment is created, as shown in Figure 1 below. By selecting array design(s) this way, you are telling caArray that the selected array design(s) correspond to the data files to be uploaded. 
If only one array design is selected, caArray will associate all uploaded data files with that array design and will parse the data accordingly.
If more than one array design is selected, and if the data and sample annotations are in the MAGE-TAB format, additional information needs to be provided in the form of a SDRF metadata file, which is in the CSV file format. In the SDRF file, which lists all the experiment's samples, a column named “Array Design REF” shows the array design reference for each sample, as shown in Figure 2 below. This allows caArray to associate the correct array design with its corresponding array data files.
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