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
For example, from a linux command line:
apt-cel-convert -f text -o CELv3 *.CEL
The -o option specifies the output directory.
I'm not sure how to query the files to see what type they are.