I having problem in convert data into .gct format to feed into GenePattern for analysis.
I find a processed data in ArrayExpress, I upload it to GenomeSpace, then I try to convert it to GCT using GenePattern. However, when I use ExpressionFileCreator module, it failed and shows Err, and told me that "Error: No CEL files found. If you used a CLM it may have filtered out them all out." The same problem is seen even I choose a .raw file in ArrrayExpress.
Anyone have an idea how to convert this processed data into .gct format so that I can analyze it in GenePattern?