Preprocessing a data matrix yield an other data matrix with transformed measurements.
The processed matrix is stored in a new text file tab delimited.
In this file:
Arrays or samples are arranged in columns.
Genes, spots or features are set in rows.
Some header lines may be included at the beginning of the file. They will all start by #.
One of those header lines, starting by #NAMES will contain the names of the arrays in your dataset.
The first column contains feature identifiers. For Agilent one color arrays, Babelomics tries to figure out which is the best feature id among those provided within the raw data files. Some other feature ids will we reported in the Feature Data File.