Package Bio :: Package Align :: Package Applications :: Module _Mafft
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Module _Mafft

source code

Command line wrapper for the multiple alignment programme MAFFT.

http://align.bmr.kyushu-u.ac.jp/mafft/software/

Citations:

Katoh, Toh (BMC Bioinformatics 9:212, 2008) Improved accuracy of multiple ncRNA alignment by incorporating structural information into a MAFFT-based framework (describes RNA structural alignment methods)

Katoh, Toh (Briefings in Bioinformatics 9:286-298, 2008) Recent developments in the MAFFT multiple sequence alignment program (outlines version 6) Katoh, Toh (Bioinformatics 23:372-374, 2007) Errata PartTree: an algorithm to build an approximate tree from a large number of unaligned sequences (describes the PartTree algorithm)

Katoh, Kuma, Toh, Miyata (Nucleic Acids Res. 33:511-518, 2005) MAFFT version 5: improvement in accuracy of multiple sequence alignment (describes [ancestral versions of] the G-INS-i, L-INS-i and E-INS-i strategies) Katoh, Misawa, Kuma, Miyata (Nucleic Acids Res. 30:3059-3066, 2002)

Last checked against version: 6.626b (2009/03/16)

Classes [hide private]
  MafftCommandline
Command line wrapper for the multiple alignment program MAFFT.
Variables [hide private]
  __package__ = 'Bio.Align.Applications'