[Bioperl-l] RE: How to check mRNA

[Heikki Lehvaslaiho]

Sounds like breaking a good old system. 

Why not :
moltype() eq alphabet()

molecule() could be a shortcut into source/sequenced_mol
    and is it is not defined use the value from ID/Locus line

I am being difficult?

	-Heikki


Ewan Birney wrote:
> 
> Thanks Lifeng - I thought we had this information somewhere.
> 
> So - what I think the long term (1.0) solution for this should be is to go
> for
> 
>    ->alphabet()  # returns one of 'dna' 'rna' 'protein'
>    ->moltype()/molecule # returns one of 'mrna' etc
> 
> question is which interfaces (PrimarySeqI, SeqI or RichSeqI) should
> moltype go on (I presume alphabet should go on PrimarySeqI)
> 
> what do you think of this Heikki?
> 
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-- 
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      _/      _/                      http://www.ebi.ac.uk/mutations/
     _/  _/  _/  Heikki Lehvaslaiho          heikki@ebi.ac.uk
    _/_/_/_/_/  EMBL Outstation, European Bioinformatics Institute
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