[Biojava-dev] Feature interface change

[Keith James]

>>>>> "Matthew" == Matthew Pocock <matthew_pocock@yahoo.co.uk> writes:

[...]

    Matthew> Entities like genes or repeat types are realy first class
    Matthew> objects. You could have all sorts of information attached
    Matthew> to a Gene - phenotypes, diseases, all that biological
    Matthew> stuff. You can have hierachies or ontologies of these
    Matthew> terms. They realy exist independantly of any 'material
    Matthew> view' on a bit of DNA sequence.

[...] interesting stuff snipped

    Matthew> Any thoughts anyone?

This is exactly the way that the GUS schema
(https://sourceforge.net/projects/gusdev/) represents annotation type
data. I think it's a good idea. It also lets you represent e.g. genes
for which there is no sequence data (but there is phenotype data or
whatever).

Keith

-- 

- Keith James <kdj@sanger.ac.uk> bioinformatics programming support -
- Pathogen Sequencing Unit, The Wellcome Trust Sanger Institute, UK -