Input files

ErmineJ uses files provided by the user together with files we provide to analyze your data. ErmineJ accepts four different types of input files, which you should read about by following these links:

• Gene scores - supplied by you (optional for correlation scores)
• Gene expression profiles - supplied by you (optional except for correlation scores)
• Gene Set descriptions (GO) - required, supplied by the GO consortium.
• Gene annotations - required, supplied by us (though in principle you can provide your own).

In addition, individual gene sets can be defined or modified by the user. These are saved in files described here.

Finally, there is an explanation of the output format.

Please note that all files are text files, not Excel spreadsheets or other binary formatted files. To convert your files to text in Excel, see these instructions .