How do I add an Affymetrix chip and connect to NetAffx Annotation Settings?
A. Navigate to Annotation Settings > Configure… > NetAffx option. Click + button. The Add Chip dialog appears. Select the organism for which the chip is to be added. In case, the chip is added after experiment creation, the organism name is displayed by default. Enter the chip name. The chip can either be added from the local folder or by connecting to NetAffx analysis center (you should have an account with Affymetrix). In case of the later, ensure that the chip name specified is as mentioned by Affymetrix or else a message appears stating ‘Chip not found’. Click Add button to add the chip. The chip gets added to the database and is reflected in NetAffx drop down. Click Apply button to apply the settings to retrieve annotations from this chip. In case there are more than one chip for an organism, annotations are retrieved from the first chip by default.
