[BiO BB] sequence editing software

[Thomas Sicheritz-Ponten]

"martin goodson" <martingoodson at hotmail.com> writes:
> > > i am looking into sequence editing software for  genome finishing and am
> > > trying to find something that can deal with very long sequences (1Mb) or
> > > something that can integrate really easily via java (either or both).

> >Try Artemis program. You can download it from Sanger site.
> >http://www.sanger.ac.uk/Software/Artemis/

> thanks for the suggestion but I'm really looking for something that is
> more of an sequence editor than a viewer. its going to have to able to
> look at multiple aligments and edit them etc.

Do you really want to "edit" several Mb long multiple sequence alignments?

If you are trying gap-closure and sequence finishing, look into 
Consed from the Phred/Phrap/Consed/Autofinish package.
http://www.phrap.org/consed/consed.html

cheers
-thomas

-- 
Sicheritz-Ponten Thomas, Ph.D, thomas at biopython.org      (
Center for Biological Sequence Analysis                   \
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