[Owl-devel] new interface ResidueContactScoringFunction

Dan Bolser dan.bolser at gmail.com
Fri Apr 30 07:11:10 EDT 2010

On 30 April 2010 11:34, Jose M. Duarte <jose.m.duarte at gmail.com> wrote:
> Hi Dan
>> > Below you mention that you have two scoring functions almost ready...
>> > which classes are they in? I'd like to work on trying to make them
>> > implement the interface.
>> The package owl.decoyscoring contains some scoring functions,
>> which were implemented by Jose based on your BMCBI paper.
> You can try to run the scoreDecoys class from the default package (right
> click and Run As Java Application). That will give you a taste of what the
> decoys scoring does.
> Actually you will first need to compile the scoring matrices. For that you
> need to run ResCountScorer or ResTypeScorer classes from the decoyScoring
> package (you'll need pdbase but you can tunnel that). Once you have the
> scoring matrices you can then run the scoreDecoys executable.

When I saw that functionality I was really impressed!

> Whenever I get some time I will try to adapt the existing code to the new
> interface. It shouldn't be difficult.

Thanks all for help, when I make any progress I'll get back to you ;-)


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