[Biojava-l] Biojava-l Digest, Vol 134, Issue 2

[Shakuntala Baichoo]

Hi!
Can anyone tell me which method is used by Alignments.getAllPairsScorers to
find the pairwise distance for global alignments? Is it the method
described by Kimura et al?

Thanks.

Shakuntala



On Tue, Apr 15, 2014 at 8:00 PM, <biojava-l-request at lists.open-bio.org>wrote:

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> Today's Topics:
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>    1. doubt about version... (Kelvin Vieira Kredens)
>    2. Re: doubt about version... (Andreas Prlic)
>
>
> ----------------------------------------------------------------------
>
> Message: 1
> Date: Mon, 14 Apr 2014 16:11:49 -0300
> From: Kelvin Vieira Kredens <kredens at gmail.com>
> Subject: [Biojava-l] doubt about version...
> To: biojava-l at lists.open-bio.org
> Message-ID:
>         <CACU5nmcdA+cRqXMDoSmgzu+eBkJSxuk=
> ZqtHzahPHerRNB-W3A at mail.gmail.com>
> Content-Type: text/plain; charset=UTF-8
>
> Hi, I'm a brazilian doctoral student in computer sciences.... I'm in the
> very beginning of my studies...
>
> I will work with DNA datasets... with some data mining questions...
>
> I found this API BioJava and I want to use it... But I've a doubt about
> what version I should use.
>
> the version 3 is new, but have little information about... and version 1 is
> older but I found lots of information...
>
> I'm thinking about use version 1... what will be the greatest problems I
> will need to deal about this choice?
>
> Is there any source of information about version 3?
>
> --
> Atenciosamente,
>
> Kelvin Vieira Kredens
> ?N?o seria ci?ncia se tivesse garantias, e, francamente, seria um pouco
> chato. Mas n?o buscar?amos algo se fosse uma causa perdida? - Rick
> Gaitskell (f?sico procurando evid?ncias de mat?ria escura)
>
>
>
> ------------------------------
>
> Message: 2
> Date: Mon, 14 Apr 2014 13:59:41 -0700
> From: Andreas Prlic <andreas at sdsc.edu>
> Subject: Re: [Biojava-l] doubt about version...
> To: Kelvin Vieira Kredens <kredens at gmail.com>
> Cc: Biojava <biojava-l at lists.open-bio.org>
> Message-ID:
>         <
> CALthepx81HNvpiWpn3Pbs7oDsBxaqdRyv0ogXKaJ2XYQj69-0A at mail.gmail.com>
> Content-Type: text/plain; charset=UTF-8
>
> Hi Kelvin,
>
> It depends what specific features you want.
>
> Take a look at the cookbook
>
> http://biojava.org/wiki/BioJava:CookBook
>
> and also the javadoc...
>
> http://www.biojava.org/docs/api/index.html
>
> Andreas
>
>
> On Mon, Apr 14, 2014 at 12:11 PM, Kelvin Vieira Kredens
> <kredens at gmail.com>wrote:
>
> > Hi, I'm a brazilian doctoral student in computer sciences.... I'm in the
> > very beginning of my studies...
> >
> > I will work with DNA datasets... with some data mining questions...
> >
> > I found this API BioJava and I want to use it... But I've a doubt about
> > what version I should use.
> >
> > the version 3 is new, but have little information about... and version 1
> is
> > older but I found lots of information...
> >
> > I'm thinking about use version 1... what will be the greatest problems I
> > will need to deal about this choice?
> >
> > Is there any source of information about version 3?
> >
> > --
> > Atenciosamente,
> >
> > Kelvin Vieira Kredens
> > ?N?o seria ci?ncia se tivesse garantias, e, francamente, seria um pouco
> > chato. Mas n?o buscar?amos algo se fosse uma causa perdida? - Rick
> > Gaitskell (f?sico procurando evid?ncias de mat?ria escura)
> >
> > _______________________________________________
> > Biojava-l mailing list  -  Biojava-l at lists.open-bio.org
> > http://lists.open-bio.org/mailman/listinfo/biojava-l
> >
>
>
>
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>
> End of Biojava-l Digest, Vol 134, Issue 2
> *****************************************
>

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