EXPANDER Version 3 info:
-------------------------
Version 3 includes the following improvements (vs. version 2.1):

1) Running EXPANDER: a batch file has been added to allow operating EXPANDER on larger datasets, and redirecting all output messages to a log file (which will facilitate user support).
   Due to the above change, running EXPANDER, now requires a minimum RAM memory size of 1GB. 
 
2) Display:

	- Highly improved visualizations have been integrated, containing automatically generated informative complex viewes.
	- A transcription factor (TF) Binding site viewer has been added, providing a view of the binding sites of enriched TFs in the promoter sequences of the analyzed set of genes.
	- The matrix visualization has been improved, and adjusted to handle large datasets.   
	- Box plots have been added for viewing data distribution.
	- An option to predefine condition subsets has been added. This subset devision is indicated in the matrix views as well as in the pattern views. 

3) Analysis:
	- A dialog box has been added during the operation of each algorithm, displaying text regarding its progress, and enabling the user to cancel the operation at any time.
	- A bug in "Non linear baseline" normalization has been fixed, and its performance (running time) has been improved. 
	- An option to select "Whole genome" as background set in functional and promoter analysis has been added.
	- Hierarchical clustering has been set to automatically operate both on probes and conditions, and both trees are displayed in the resulting visualization. 

4) Additional features:
	- An option to save and load sessions has been added, allowing the user to keep all performed analyses and continue at another time. The session is saved as a zipped xml file.  
	- A bug in the printing functionality has been fixed, and it now works well.

5) Removed features:
	- Similarity Data is no longer supported (Can not be loaded and analyzed).
	- Similarity matrix visualization has been removed for now.
	- The "Settings" dialog box has been removed, and the options that it contained for Matrix Visualizations are no longer available. 
          The rest of the options have been moved to dialog boxes that are automatically displayed before the corresponding operations 
	 (e.g. Biclustering options are displayed in a dialog box upon selecting  Grouping>>Bi-Cluster>>SAMBA).
	- The option to operate on conditions has been removed. To perform analysis on conditions the data now must be transposed before loaded into EXPANDER.