MUSCLE

Category(ies): Bioinformatics

Author / Distributor:
Edgar, Robert C. (2004), MUSCLE: multiple sequence alignment with high accuracy and high throughput, Nucleic Acids Research 32(5), 1792-97.

Description:

MUSCLE is public domain multiple alignment software for protein and nucleotide sequences. MUSCLE stands for multiple sequence comparison by log-expectation.

altix: running program | Documentation | Installation | System

Running Program:

muscle -in seqs.fa -out seqs.afa

where seqs.fa as input sequence file and seqs.afa as output. The sample file can be copied at

cp /usr/local/src/muscle3.6_src/seqs.fa seqs.fa

Documentation: http://www.drive5.com/muscle/muscle.html

Installation:

Source code downloaded from http://www.drive5.com/muscle/downloads.htm
Compiled by gcc

System(s): Unix

inQuiry: not available at inQuiry

pcluster: Not available on pcluster

rcluster,IOB: running program | Documentation | Installation | System

Running Program: also refer to submit jobs to queues at rcluster,IOB

bsub -q queueName muscle -in seqs.fa -out seqs.afa

where seqs.fa as input sequence file and seqs.afa as output. The sample file can be copied at

cp /usr/local/src/muscle3.6_src/seqs.fa seqs.fa

Documentation: Same as altix

Installation: Same as altix

System(s): Unix