[Bioperl-l] Behavior of Bio::Species object

[Hilmar Lapp]

> -----Original Message-----
> From: Ewan Birney [mailto:birney@ebi.ac.uk]
> Sent: Sunday, October 20, 2002 11:51 PM
> To: Michael Muratet
> Cc: bioperl-l@bioperl.org
> Subject: Re: [Bioperl-l] Behavior of Bio::Species object
> 
<snip/>
> As it happens, on the species object I believe there is the method
> "binomial_name" which gives the genus species from the 
> classification, not
> parsing the common name slot

$species->binomial
# or, with possibly subspecies included:
$species->binomial('FULL')

> 
> I think Hilmar suggested a new slot coming into Bio::Species to handle
> more of this.
> 

This is $species->variant to store strain, isolate, cultivar, and similar information, which is found in e.g. Swissprot and does change the NCBI TaxonID. (OT, the UK in biosql is now (binomial,variant).)

	-hilmar