[Biojava-l] fjoin algorithm implementation in Java (submission to BioJava)

[mark.schreiber at novartis.com]

Hi -

If you wish to contribute the code you could give it to someone with a 
development account (Andreas Prilc might be the best option). 
Alternatively if you think you will be regularly contributing you could 
apply for a development account.

Because fjoin works on features and locations and as BioJava already has a 
detailed location model it would be good if your code makes use of the 
BioJava location/ feature API (at least in the public interface).

- Mark

biojava-l-bounces at lists.open-bio.org wrote on 03/24/2009 08:51:49 PM:

> Hi there at BioJava,
> 
> I have implemented an algorithm in Java for efficient computation of 
feature
> overlap (fjoin algorithm: described in
> http://www.liebertonline.com/doi/abs/10.1089/cmb.2006.13.1457 and the 
actual
> paper here 
http://www.liebertonline.com/doi/pdf/10.1089/cmb.2006.13.1457) as
> part of an MSc project in Bioinformatics at Imperial College (London).
> 
> I have looked at biojava to see if the implementation of this algorithm
> already exists and it didn't (a simple search for "fjoin" returns no
> results) so after I implemented it I thought I'd submit it and maybe 
spare a
> few hours development to someone else (or in the true open source spirit
> someone might find a bug or improve this).
> 
> Is this possible and how do I go about moving this forward (I did have a
> read through the website, and could find anythign related to 
submission).
> 
> Any pointers would be greatly appreciated.
> 
> Keep up the Good Work,
> Jean-Paul Ebejer, Malta.
> _______________________________________________
> Biojava-l mailing list  -  Biojava-l at lists.open-bio.org
> http://lists.open-bio.org/mailman/listinfo/biojava-l

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