Minnesota Supercomputing Institute
Wednesday, December 7, 2016
MUSCLE, MUltiple Sequence Comparison by Log-Expectation, is a program for creating multiple alignments of amino acid or nucleotide sequences. MUSCLE is claimed to achieve both better average accuracy and better speed than ClustalW2 or T-Coffee, depending on the chosen options.
To run this software interactively in a Linux environment run the commands:
module load muscle
muscle -in <seqs.fa> -out <alignedseqs.fa>
For documentation, refer to MUSCLE Homepage.