bio/appl/clustalw.rb - CLUSTAL W wrapper class

Copyright:	Copyright (C) 2003 GOTO Naohisa <ngoto@gen-info.osaka-u.ac.jp>
License:	The Ruby License

 $Id: clustalw.rb,v 1.19 2007/07/16 12:27:29 ngoto Exp $

Bio::ClustalW is a CLUSTAL W execution wrapper class. It can also be called as an alignment factory. CLUSTAL W is a very popular software for multiple sequence alignment.

References

Thompson,J.D., Higgins,D.G. and Gibson,T.J.. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Research, 22:4673-4680, 1994. nar.oxfordjournals.org/cgi/content/abstract/22/22/4673
www.ebi.ac.uk/clustalw/
ftp.ebi.ac.uk/pub/software/unix/clustalw/

Required files

tempfile bio/command bio/sequence bio/alignment