MUSCLE
From BioPerl
Bob Edgar's Multiple Sequence Alignment tool is available here. This module produces either FASTA multiple alignment format or ClustalW multiple alignment format which is parseable through Bio::AlignIO.
References
- Edgar RC. MUSCLE: a multiple sequence alignment method with reduced time and space complexity. BMC Bioinformatics 2004 Aug 19; 5 113. doi:10.1186/1471-2105-5-113 pmid:15318951.
- Edgar RC. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 2004; 32(5) 1792-7. doi:10.1093/nar/gkh340 pmid:15034147.
