[Biojava-l] (no subject)

[mark.schreiber at novartis.com]

Hi Christoph,

Not sure I understand the question. Presumably any programer developing 
with BioJava would be able to use the interface to allow STRAP compatable 
sevrves to be used direct from their biojava program?

Could you possibly provide a simple example of how it might work that we 
could put on the "Biojava in Anger" page. I often find that providing such 
and example greatly increases the uptake of new (and old) features in 
biojava.

- Mark





"Dr. Christoph Gille" <christoph.gille at charite.de>
Sent by: biojava-l-bounces at portal.open-bio.org
04/08/2005 10:37 PM

 
        To:     biojava-l at biojava.org
        cc:     (bcc: Mark Schreiber/GP/Novartis)
        Subject:        [Biojava-l] (no subject)


Hi,

I am currently working  on an interface biojava <==> STRAP
(http://www.charite.de/bioinf/strap/,
http://www.charite.de/bioinf/strap/doc/index.pdf).

First I create a GappedSequence object from a StrapProtein object.
I include all STRAP anntotations and STRAP features.
The features are subsets of the sequences with annotations like
notes, URLs, TeXshade commands, Pymol commands, Rasmol commands.

Second I create a converter the other way round.
It makes a StrapProtein from a biojava Sequence with all its annotations
and features.

Does anybody has ideas, what tool could
cooperate with STRAP using this interface ?

The STRAP plugin technology alows even larger JAVA
programs to be plugged in, simply by copying the
jar-library into a special directory.
Currently a few groups are creating plugins for STRAP.
I hope that people will benefit from the biojava interface.

Christoph



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