GSP
Quick Navigator

Search Site

Unix VPS
A - Starter
B - Basic
C - Preferred
D - Commercial
MPS - Dedicated
Previous VPSs
* Sign Up! *

Support
Contact Us
Online Help
Handbooks
Domain Status
Man Pages

FAQ
Virtual Servers
Pricing
Billing
Technical

Network
Facilities
Connectivity
Topology Map

Miscellaneous
Server Agreement
Year 2038
Credits
 

USA Flag

 

 

Man Pages
SEAVIEW(1) Seaview Manual SEAVIEW(1)

seaview - a multiplatform, graphical user interface for multiple sequence alignment and molecular phylogeny.

seaview [filename]

seaview is the program that starts the SeaView GUI.

SeaView is a graphical interface for multiple sequence alignment and molecular phylogeny. It is able to read various alignment formats (MSF, CLUSTAL, FASTA, PHYLIP, MASE, NEXUS) and the Newick tree format, and allows one to manually edit the alignment, to run DOT-PLOT, CLUSTAL or MUSCLE programs to locally improve the alignment, and also to compute, draw and edit phylogenetic trees.

If started from the command line with filename as an argument, seaview will open the alignment or tree stored in filename and display/draw it on screen. Filename can be in any of the mase, clustal, phylip, msf, fasta, or nexus alignment formats or in the Newick tree format.

-fast
Suppresses double buffering for display. This should only accelerate display on very slow systems.

-fontsize n

Sets the font size to n.

$HOME/.seaviewrc holds the user´s configuration for SeaView.

The program is fully documented online. Press the "help" button in the main window. On Debian systems, the text template for SeaView´s help can be found in /usr/share/doc/seaview/seaview.html.

Two multiple alignment programs can be called from whithin SeaView: muscle(1) and clustalw(1).

The home page of SeaView is http://pbil.univ-lyon1.fr/software/seaview.html.

SeaView usees some components of the PHYLIP package, see ‘http://evolution.genetics.washington.edu/phylip.html’.

If you use SeaView in a published work, please cite the following reference: Galtier, N., Gouy, M. and Gautier, C. (1996) SeaView and Phylo_win, two graphic tools for sequence alignment and molecular phylogeny. Comput. Applic. Biosci., 12, 543-548.

Manolo Gouy <mgouy@biomserv.univ-lyon1.fr>

Upstream author of SeaView.

Stéphane Bortzmeyer <bortzmeyer@debian.org>

Wrote this manpage in DocBook XML for the Debian distribution.

Charles Plessy <plessy@debian.org>

Updated this manpage in DocBook XML for the Debian distribution.

Copyright © 1996, 1997, 1998, 1999, 2000, 2001, 2002, 2003, 2004, 2005, 2006, 2007, 2008, 2009 Manolo Gouy
Copyright © 1999 Stéphane Bortzmeyer
Copyright © 2006, 2007, 2008, 2009 Charles Plessy

SeaView is released under the GNU General Public Licence, with a special permission to use some source files from the PHYLIP package. Because these files are used, you are not allowed generate revenue with SeaView.

You can redistribute and/or modify this manpage under same terms as SeaView itself.

On Debian systems, the complete text of the GNU General Public License version 2 can be found in /usr/share/common-licenses/GPL-2.

05/27/2009 seaview 4.0

Search for    or go to Top of page |  Section 1 |  Main Index

Powered by GSP Visit the GSP FreeBSD Man Page Interface.
Output converted with ManDoc.