There is no MSA in biojava. CLUSTALW, TCoffee etc are probably much
better.
"Dickson S. Guedes" <[EMAIL PROTECTED]>
01/28/2006 12:09 AM
To: Mark Schreiber/GP/[EMAIL PROTECTED]
cc: [email protected], Matthew Pocock <[EMAIL PROTECTED]>
Subject: Re: [Biojava-l] Alignment with GAPs
Hi Mark,
Ok. I´ll test it, thanks.
Curious? :) ... I´m testing somethings about progressive alignment,
because I dont´t found how to do Multiple Sequence Aligments (MSA) using
with only Biojava. I´m wrong?
I make some tests with strap but it´s not what I need. Have you any
suggestion about MSA with BioJava?
Thanks all!
[EMAIL PROTECTED] escreveu:
> Hi -
>
> I think the DP class should accept a GappedSequence. To get the result
you
> want you will probably need to have at least one match state that can
emit
> gaps. I'm curious to know why you would want to do that kind of
alignment
> though?
>
> - Mark
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