[Bioperl-l] Bio::SeqFeature::Annotated API change
bix at sendu.me.uk
Fri Oct 26 10:48:27 EDT 2007
Hilmar Lapp wrote:
> On Oct 11, 2007, at 6:40 AM, Sendu Bala wrote:
>> Usage : $obj->seq_id($newval)
>> Function: holds a string corresponding to the unique
>> seq_id of the sequence underlying the feature
>> (e.g. database accession or primary key).
>> Returns : a Bio::Annotation::SimpleValue object representing the
> type() and source() should be ontology-typed in a TypedSeqFeatureI (and
> therefore be instances of Bio::Annotation::OntologyTerm, not
> Bio::Annotation::SimpleValue) to be more GFF3-compliant, but I don't
> understand what the benefit of typing seq_id() any stronger than a
> string would be.
Would there be any problem with having source() return a string, but
still allow access to the OntologyTerm object via
get_Annotations('source')? (Ditto with type?)
I think that's the way I'm going to go for now.
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