Hi All, Sorry, I don't have many time in this week but, I did see many question in list about MultAlign using Biojava, but Biojava DON'T have a Class to make MultAlign. So In my teses I´d want to use a set of pre-aligned sequences, then I create a Class to do it calling ClustalW as a external executable.
A Simple Example founds at: http://biojava.org/wiki/BioJava:Tutorial:MultiAlignClustalW Sorry, I don't make any comments and any comments or javadoc in that class, but I'll do, for now I have other things to do at this week and don't have much time :( I accept sugestions too, and thanks for all. []s -- Dickson S. Guedes /* * UNISUL - Universidade do Sul de Santa Catarina * ATI - Assessoria de Tecnologia da Informação * Tubarão - Santa Catarina - Brasil * (0xx48) 621-3200 - http://www.unisul.br * * "Quis custodiet ipsos custodes?" */ > -----Mensagem original----- > De: [EMAIL PROTECTED] > [mailto:[EMAIL PROTECTED] Em nome de > [EMAIL PROTECTED] > Enviada em: quarta-feira, 17 de maio de 2006 02:44 > Para: [email protected] > Assunto: [Biojava-l] external processes > > Hi all - > > I noticed that someone has posted a tutorial to the wiki page > (http://biojava.org/wiki/BioJava:Tutorial:MultiAlignClustalW) > showing how to launch ClustalW from biojava which is very > much appreciated. The tutorial makes use of the standard Java > Runtime and Process classes. > Developers may also be interested in the ExecRunner class > that is in the utils package of biojava1.4. > > There is also an entire API for handelling external processes > in the CVS version of biojava (org.biojava.utils.process) > which makes handling of external processes much simpler. > > - Mark > > Mark Schreiber > Research Investigator (Bioinformatics) > > Novartis Institute for Tropical Diseases (NITD) 10 Biopolis Road > #05-01 Chromos > Singapore 138670 > www.nitd.novartis.com > > phone +65 6722 2973 > fax +65 6722 2910 > > _______________________________________________ > Biojava-l mailing list - [email protected] > http://lists.open-bio.org/mailman/listinfo/biojava-l > _______________________________________________ Biojava-l mailing list - [email protected] http://lists.open-bio.org/mailman/listinfo/biojava-l
