[Biojava-l] Request suggestions for demo applet

[Brian Gilman]

Hello there, 

	I'd love to see an applet that simply allowed me to enter my
favorite list of genes as genbank accessions and simply showed me sequence
and perhaps predicted protein with protein family membership info
attached. I think you can do all this with BioJava. 

	I think alphaworks has a tool to strip a jar file down....

				Best, 

					-B

-----------------------
Brian Gilman <gilmanb@genome.wi.mit.edu>
Group Leader Medical & Population Genetics Dept.
MIT/Whitehead Inst. Center for Genome Research
One Kendall Square, Bldg. 300 / Cambridge, MA 02139-1561 USA
phone +1 617  252 1069 / fax +1 617 252 1902


On Thu, 9 May 2002, Matthew Pocock wrote:

> Robert Byrnes wrote:
> > Hello, all--
> > 
> > I am thinking of using the BioJava classes to create an applet that
> > showcases my skills in Java and Bioinformatics on my personal web site.
> > I would no doubt use an abbreviated version of BioJava, along with
> > sockets to get sequences from databases (if necessary).
> > 
> > Does anyone have any suggestions as to an original, or not-so-original,
> > use for an applet?
> > 
> > --Bob
> > 
> > _______________________________________________
> > Biojava-l mailing list  -  Biojava-l@biojava.org
> > http://biojava.org/mailman/listinfo/biojava-l
> > 
> 
> Good luck Bob,
> 
> I have run BioJava-enabled applets in mozilla, explorer 5.? and 6 
> without hideous side-effects. Some silly ideas:
> 
> Paste in a genbank/embl entry or enter an accession and view it graphicaly?
> 
> Submit a blast job and view the results as a list of dot-plots?
> 
> Paste sequence in, get out CDS predictions and their translations?
> 
> You will need to double check a) that the browser supports Java2 (jre 
> 1.2 or higher) and b) that you can make any necissary socket connections 
> via the web host (due to applet security). You may want to use a 
> webstart app instead of an applet, or perhaps a BioJava-enabled servlet 
> or .jsp and a dumb web client since this gives you total control over 
> the execution environment.
> 
> Have fun,
> 
> Matthew
> 
> ps I don't know of any tool that will allow you to strip down a jar, but 
> it should be possible to write one - recursive javap and cp should get 
> you there - yet another fun way to waste an afternoon
> 
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