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Latest commit 56a3473 Mar 21, 2014 @javieriserte Fixed a graphic glitch in the alignment explorer. In which the size of
the sequences and the size of the consesus doesn't match.
Fixed a bug where overlapping primers where not correctly filtered.
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MANUAL Improved Documentation and corrected error management. Jun 20, 2013
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VERSION Improved Documentation and corrected error management. Jun 20, 2013

README

---------------------------------------------------------------------
FAS-DPD - Family Specific Degenerate Primer Design tool Version 1.2.2
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Date: Aug 16th, 2011.

Released under the terms of the General Public License Version 3 (GPL v3)
See the file LICENCE for details.

General
-------
FAS-DPD core searching and scoring algorithms is working correctly.
Several features will be added in future versions.

Authors
-------
FAS-DPD project, including algorithms design, software implementation and experimental laboratory work, is being developed as a part of the Research Program:

	"Microbiolog�a molecular b�sica y aplicaciones biotecnol�gicas" 
		(Basic Molecular Microbiology and biotechnological applications)

And is being conducted in:
		
	LIGBCM: Laboratorio de Ingenier�a Gen�tica y Biolog�a Celular y Molecular.
		(Laboratory of Genetic Engineering and Cellular and Molecular Biology)
	Universidad Nacional de Quilmes.
		(National University Of Quilmes)
	Quilmes, Buenos Aires, Argentina.

The complete team for this project is formed by:
	Lic.  Javier A. Iserte.
	Lic.  Betina I. Stephan.
	ph.D. Sandra E. Go�i.
	ph.D. P. Daniel Ghiringhelli.
	ph.D. Mario E. Lozano.

Corresponding Authors:
	Javier A. Iserte. <jiserte@unq.edu.ar>
	Mario E. Lozano. <mlozano@unq.edu.ar>
	
Requisites
----------
JUnit (3.8.2) - http://sourceforge.net/projects/junit.
JUnit is used to run tests only. 

Running FAS-DPD
---------------
FAS-DPD is executable from command line.
See 'examples' folder and Documentations for details.

Documentation
-------------
Api documentation produced with javadoc is found in 'doc' folder.
Manual with instructions to use FAS-DPD are in file: 'MANUAL'

Package contents
----------------
  /src/                   : Code source files.
  /examples/              : Example showing how to use FAS-DPD.
  /doc/                   : API documentation.
  /bin/                   : Compiled classes.
  /lib/                   : Contains cmdGetArg_1.1.3.jar - Library for command line parsing.
                          : and FAS-DPD_1.2.2.jar - Compiled Library of FAS-DPD
  StandardCode            : File containing the standard genetic code used in FAS-DPD.
  LICENCE                 : GPL v3 license terms.
  CHANGES                 : Log with version modifications.
  TO_DO                   : Modifications of future versions of FAS-DPD.
  VERSION                 : Version Log.
  MANUAL                  : FAS-DPD manual.
  README                  : This file.
  
Bug report
----------
	Please send a mail to Javier Iserte <jiserte@unq.edu.ar> including the details of bugs.