Mulitple alignment editor

Kay Hofmann khofmann at isrec-sun1.unil.ch
Mon Oct 28 08:28:44 EST 1996


Guy Perriere (perriere at biomserv.univ-lyon1.fr) wrote:

: Ewan Birney <birney at sanger.ac.uk> writes:
: >As always, I am looking for a multiple alignment editor
: >which works on SGI/alpha. 

: Mano Gouy in our department has developed SeaView, a very good multiple
: alignment editor that runs on SGI, Alpha, Sun, HP/UX and AIX. You can
: find informations about this program at URL:

:        http://acnuc.univ-lyon1.fr/phylogeny/seaview.html

: This page also gives access to our FTP server where you can download the
: program.

While this editor certainly looks nice, I understand that it can
save the alignments only in a strange 'mase' format and works with none
of the standard formats (it can read MSF, though).
This makes seaview not very convenient for people who have to 
integrate the alignment editor into a set of already existing software.
And a new sequence format is the last thing we need right now.

I think GDE is far from optimal (with all its strange features
and weird behaviour under x-windows) but it is still the most
usable I have seen up to now. But I would love to learn of other,
maybe better alternatives. (As Ewan might know, I have to edit
LOTS of multiple alignments)

BTW, for downloading GDE, see
http://golgi.harvard.edu/ftp/GDE2.2/


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Kay Hofmann                                Tel. +41 (21) 692-5892
ISREC Bioinformatics Group                 FAX  +41 (21) 652-6933
Swiss Institute for Experimental Cancer Research
CH-1066 Epalinges s/Lausanne          URL: http://ulrec3.unil.ch/
Switzerland                        E-mail: khofmann at isrec.unil.ch




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