MAT (Model-based Analysis of Tiling-array)

Requires Affy CEL files to be in a particular format. Type 4 binary files will not work.

If you get an error message such as: 'not a valide cel file '

By default Command Console exports CEL files in type 4 format. To convert them into the correct format for MAT, use affy power tools. There's a program called: apt-cel-convert which will do the trick. It interconverts the following types:

• text: GCOS Text file format (version 3)
• xda: GCOS XDA binary file format (version 4)
• agcc: AGCC binary format

I'm not sure how to query the files to see what type they are.