Last Modified
  2013-06-04 10:38:06 +0000
Requires
  - tempfile
  - bio/command
  - bio/db/fasta
  - bio/io/flatfile

## Description

# bio/appl/mafft.rb - MAFFT wrapper class

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

    $Id: mafft.rb,v 1.18 2007/07/16 12:27:29 ngoto Exp $

Bio::MAFFT is a wrapper class to execute MAFFT. MAFFT is a very fast multiple sequence alignment software.

# Important Notes

Though Bio::MAFFT class currently supports only MAFFT version 3, you can use MAFFT version 5 because the class is a wrapper class.

## References

- 1. Katoh, K. Misawa, K. Kuma and T. Miyata.

  MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform. Nucleic Acids Res. 30: 3059-3066, 2002. nar.oupjournals.org/cgi/content/abstract/30/14/3059

- www.biophys.kyoto-u.ac.jp/~katoh/programs/align/mafft/