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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. Version 5 of MUSCLE achieves highest scores on Balibase, Bralibase and Balifam benchmark tests and scales to thousands of sequences on a commodity desktop computer.
Nov 12, 2021 · Muscle v5 is a major re-write of MUSCLE based on new algorithms. Highest accuracy, scalable to thousands of sequences. Compared to previous versions, Muscle v5 is much more accurate, is often faster, and scales to much larger datasets.
MUltiple Sequence Comparison by Log-Expectation ( MUSCLE) is a computer software for multiple sequence alignment of protein and nucleotide sequences. It is licensed as public domain. The method was published by Robert C. Edgar in two papers in 2004.
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 v5 documentation. Download and install. Making alignments and ensembles. Commands. Topics. 120,000 new RNA virus species discovered by mining the SRA ( paper ). Syncmers are better than minimizers ( paper ). Video talks on 16S data analysis posted. URMAP ultra-fast read mapper ( paper).
Jun 24, 2024 · It allows protein sequence analysis by integrating sequence similarity / homology search (SIMSEARCH: BLAST, FASTA, SSEARCH, HMMER3), multiple sequence alignment (MSA: KALIGN, MUSCLE, MAFFT), protein secondary structure prediction (DSC, GOR4, SOPMA, MLRC), miscellaneous primary structure analysis (PRIMANAL: amino acid coloring, helix-turn-helix ...
