• PhyloBioRuby - forester - Tutorial for multiple sequence alignments and phylogenetic methods in BioRuby -- under development! -
  #!/usr/bin/env ruby require 'bio' # Reads in a ClustalW-formatted multiple sequence alignment # from a file named "infile_clustalw.aln" and stores it in 'report'. report = Bio::ClustalW::Report.new(File.read('infile_clustalw.aln')) # Accesses the actual alignment. msa = report.alignment # Goes through all sequences in 'msa' and prints the # actual molecular sequence. msa.each do |entry|   puts entry.seq end
  By aunderwo in Public bookmarks with alignment bioruby msa report.alignment ruby
• nms - web scripts written by experts
  By fjordaan in Public bookmarks with formmail matt msa nms perl scripts sourceforge by 2 users

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