[Fwd: Re: [Bioperl-l] aligning one sequence o a preformed alignment]

[avilella]

And you can even try:

bioperl-run/scripts/bioperl_application_installer.PLS

which will (try to) automatically download, compile and install the
programs (clustalw, EMBOSS, tcoffee, and paml, right now) you choose.

It will even remember you to set, in your case, a $CLUSTALDIR
environmental variable in the right place,

    Albert.

PD: Note the (try to). It works on my linux box, but I haven't tested it
on Win32 or Mac OS X. So try it and submit bugs if fails...


On Wed, 2004-05-19 at 20:50, Barry Moore wrote:
> Luisa-
> 
> Must have replied only to you since I did see this show up on the list, 
> so I'll repost it.
> 
> ClustalW will do this.  Bio::Tools::Run::Alignment::Clustalw if you've 
> got a local installation.  Bio::Tools::Run::PiseApplication::clustalw to 
> run it on the Pise server.
> 
> Barry
> 
> luisa pugliese wrote:
> 
> > Hi Bioperlers,
> > I would like to align a sequence to an alignment I already have, without
> > changing the alignment between the other sequences involved in it. Does
> > anybody knows if there is a module within bioperl or a program that can be
> > run by bioperl-run that could do this job?
> > Thank you to all
> > Luisa
> > =============================
> > Luisa Pugliese, Ph.D.
> > luisa.pugliese at safan-bioinformatics.it
> > S.A.F.AN. BIOINFORMATICS
> > Corso Tazzoli 215/13 -10137 Torino - ITALY
> > tel +39 011 3026230
> > cell. +39 333 6130644
> >
> >
> > _______________________________________________
> > Bioperl-l mailing list
> > Bioperl-l at portal.open-bio.org
> > http://portal.open-bio.org/mailman/listinfo/bioperl-l
> 
> 
> -- 
> Barry Moore
> Dept. of Human Genetics
> University of Utah
> Salt Lake City, UT
> 
>