MUSCLE performs multiple sequence alignments of nucleotide or amino acid sequences.
An object of class
Logical, whether to prevent printing of the progress of the algorithm to the screen. Defaults to FALSE.
Arguments (options and flags) for the MUSCLE algorithm (see Details).
Arguments for the MUSCLE algorithm are either options or flags. Options take a variety of values, but flags are always logicals (TRUE or FALSE). All options and flags are explained in detail on the MUSCLE website: http://www.drive5.com/muscle/muscle_userguide3.8.html
Output is an object of class
For further details see the MUSCLE website: http://www.drive5.com/muscle/
Algorithm by Robert C. Edgar. Ported into R by Alex T. Kalinka firstname.lastname@example.org
Edgar, R.C. (2004) MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 32, 1792-1797.
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