[Bioperl-l] Re: entrezgene binary ASN
skirov at utk.edu
Sun Oct 2 15:08:42 EDT 2005
Yes, Hilmar is right- there should be Bio::Index::entrezgene to do that.
I agree this functionality is better kept separated from Bio::SeqIO parser.
Hilmar Lapp wrote:
> On Oct 2, 2005, at 8:27 AM, Michael Seewald wrote:
>> On 10/2/05, Hilmar Lapp <hlapp at gmx.net> wrote:
>>> On Oct 1, 2005, at 1:01 PM, Stefan Kirov wrote:
>>>> As of now the parser does not seek through the streem, but hopefully
>>>> it will as soon as I can sit down and do it
>>> What advantage would that have?
>> You could create an index and seek by gene id. Could be handy in some
>> although I wouldn't use it (personally).
>> The "streaming use" shouldn't be affected. BTW, there are other bioperl
>> modules that use indices.
> Right, but they use a different implementation (module) for indexing,
> not the SeqIO parser (it only parses the entry).
>> Best wishes,
>> Bioperl-l mailing list
>> Bioperl-l at portal.open-bio.org
Stefan Kirov, Ph.D.
University of Tennessee/Oak Ridge National Laboratory
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e-mail: skirov at utk.edu
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