-------------------
Version: 1.1
Date: 2011-07-08

	* depends : New function mmds.3D.plot depends on "rgl" package to work.

	* kmeans.run : "kmean" object class added to kmean.run return.

	* read.fasta, read.msf : "align" object class added to list returned by functions.
	
	* write.mmds.pdb : Dimension axis added to outfile pdb format.

	* mmds.2D.plot : "axes" parameters added. 

	* mmds.3D.plot : New function for 3D device visualization of "mmds" object. 

	* extract.cluster : New function to extract the sequences of the clusters from "align" object, the clusters are defined by "kmean" object. 

	* write.fasta : New function to write outfile of "align" object in fasta format.

-------------------
Version: 1.2
Date: 2011-12-21

	* read.fasta, read.msf : Function names changed to import.fasta and import.msf. 

	* write.fasta : Function name changed to export.fasta. 
	
	* mmds.2D.plot, mmds.3D.plot, mmds.plot : Implementation of new 'project' object class. 

	* mmds.2D.multi : New function to visualize multiple 'project' objects with a barycenter representation. 

	* mmds : Projection of supplementary elements removed and 'mmds' object structure modified.

	* mmds.project : New function to perform projection of supplementary elements on 'mmds' object, returns 'project' object.
	
	* mat.dif, mat.dis : Upgraded in order to gain execution time, 'sqrt' option added, gtools dependence removed.
	
	* gpcr(data) : Modification of sub 'mmds' with the new structure of the MDS analysis return.


-------------------
Version: 1.2.1
Date: 2012-03-19

	* mmds.2D.plot, mmds.2D.multi : Dependance to the alpha function from the ggplot2 package changed to the alpha function from the scales package.  

-------------------
Version: 1.2.2
Date: 2012-06-01

	* write.mmds.pdb : "file.pml" parameters added. Correction of projection bug.  

	* kmeans.run : Correction of kmeans bug.  

	* col.group : Removing "data" option.