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muscle
Langue: en
Version: 02/06/2008 (debian - 07/07/09)
Section: 1 (Commandes utilisateur)
NAME
muscle - Multiple Protein Sequence AlignmentSYNOPSIS
- muscle -in input file (fasta) [-out output file (default fasta)] [-diags] [-log log file] [-maxiters n] [-maxhours n] [-maxmb m] [-html] [-msf] [-clw] [-clwstrict] [-log[a] logfile] [-quiet] [-stable] [-group] [-version]
DESCRIPTION
- This manual page documents briefly the muscle command.
muscle aligns protein sequences and is considered superior and faster than Clustal W.
OPTIONS
-in input file
- Path to FASTA formatted input file
-out output file
- Path to output file, FASTA formatted by default
-diags
- Find diagonals (faster for similar sequences)
-maxiters n
- Maximum number of iterations (integer, default 16)
-maxhours n
- Maximum time to iterate in hours (default no limit)
-maxmb m
- Maximum memory to allocate in Mb (default 80% of RAM)
-html
- Write output in HTML format (default FASTA)
-msf
- Write output in MSF format (default FASTA)
-clw
- Write output in Clustal W format (default FASTA)
-clwstrict
- As -clw, with 'CLUSTAL W (1.81)' header
-log[a] logfile
- Log to file (append if -loga, overwrite if -log)
-quiet
- Do not write progress messages to stderr
-stable
- Output sequences in input order (default is -group)
-group
- Group sequences by similarity (this is the default)
-version
- Display version information and exit
SEE ALSO
clustalw(1), seaview(1), t_coffee(1).
AUTHORS
Robert Elgar
- Wrote Muscle.
Steffen Moeller <moeller@debian.org>
- Wrote this manpage.
Charles Plessy <charles-debian-nospam@plessy.org>
- Updated this manpage.
COPYRIGHT
Copyright © 2003, 2004 Steffen Moeller (manpage)Copyright © 2007, 2008 Charles Plessy (manpage)
Muscle is in the public domain, and therefore not subjected to copyright.
This manual page was written by Steffen Moeller moeller@debian.org for the Debian(TM) system (but may be used by others). Permission is granted to copy, distribute and/or modify this document as if it were in public domain.
Contenus ©2006-2024 Benjamin Poulain
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