[Bioperl-l] New analysis interface; name space question

[Heikki Lehvaslaiho]

On Thu, 2003-04-03 at 11:54, Richard Adams wrote:
> I think we need to distinguish RNA ,DNA and protein modules,
> especially with regard to features such as secondary structure , which
> apply
> to all molecules. Unless contributors can be relied upon to prefix a

The reason why I proposed 'Nucleic', is that BioPerl does not
traditionally type nucleotide sequences very tightly, which is very
convenient. For example, you can translate both rna and dna sequences.
translation. Application classes are supposed to be able deal with this
transparently.

	-Heikki

> module
> name with the molecule type or otherwise make it obvious I think it
> would avoid confusion if a dedicated namespace is provided for
> the molecule type,
> whether in Bio::Analysis or Bio::Tools::Analysis .
> 
> --
> Dr Richard Adams
> Bioinformatician,
> Psychiatric Genetics Group,
> Medical Genetics,
> Molecular Medicine Centre,
> Western General Hospital,
> Crewe Rd West,
> Edinburgh UK
> EH4 2XU
> 
> Tel: 44 131 651 1084
> richard.adams at ed.ac.uk
> 
> 
> 
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-- 
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      _/      _/                      http://www.ebi.ac.uk/mutations/
     _/  _/  _/  Heikki Lehvaslaiho          heikki at ebi.ac.uk
    _/_/_/_/_/  EMBL Outstation, European Bioinformatics Institute
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