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. 2014:1079:131-46.
doi: 10.1007/978-1-62703-646-7_8.

MAFFT: iterative refinement and additional methods

Kazutaka Katoh  1 , Daron M Standley
Affiliations

MAFFT: iterative refinement and additional methods

Kazutaka Katoh et al. Methods Mol Biol. 2014.

Abstract

This chapter outlines several methods implemented in the MAFFT package. MAFFT is a popular multiple sequence alignment (MSA) program with various options for the progressive method, the iterative refinement method and other methods. We first outline basic usage of MAFFT and then describe recent practical extensions, such as dot plot and adjustment of direction in DNA alignment. We also refer to MUSCLE, another high-performance MSA program.

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