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MUSCLE stands for MUltiple Sequence Comparison by Log-Expectation. MUSCLE is claimed to achieve both better average accuracy and better speed than ClustalW2 or T-Coffee, depending on the chosen options.This tool can align up to 500 sequences or a maximum file size of 1 MB.
Muscle is widely-used software for making multiple alignments of biological sequences. Muscle achieves highest scores on Balibase, Bralibase and Balifam benchmark tests and scales to thousands of sequences or structures on a commodity desktop computer.
Nov 12, 2021 · At the time of writing (late 2021), Muscle v5 has the highest scores on multiple alignment benchmarks including Balibase, Bralibase, Prefab and Balifam. It can align tens of thousands of sequences with high accuracy on a low-cost commodity computer (say, an 8-core Intel CPU with 32 Gb RAM).
Nov 15, 2022 · Multiple sequence alignments are widely used to predict protein structure, function, and phylogeny, but are uncertain with more diverged sequences. Muscle5 generates ensembles of alternative...
Aug 19, 2004 · Multiple Sequence Alignment Program. In a previous paper, we introduced MUSCLE, a new program for creating multiple alignments of protein sequences, giving a brief summary of the algorithm and showing MUSCLE to achieve the highest scores reported to date on four alignment accuracy benchmarks.
MUSCLE stands for MUltiple Sequence Comparison by Log-Expectation. MUSCLE creates multiple alignments of amino acid or nucleotide sequences. A range of options is provided that give you the choice of optimizing accuracy, speed, or some compromise between the two.
Mar 19, 2004 · We describe MUSCLE, a new computer program for creating multiple alignments of protein sequences. Elements of the algorithm include fast distance estimation using kmer counting, progressive alignment using a new profile function we call the log-expectation score, and refinement using tree-dependent ….
