[Bioperl-l] NCBI Genbank ID to TaxonID via Bioperl?
jason.stajich at duke.edu
Wed Jun 22 09:42:04 EDT 2005
cool - i don't remember that being part of the eutils interface
before - I'll see about adding it to the Bio::DB::Taxonomy module now.
On Jun 22, 2005, at 2:46 AM, Rob Edwards wrote:
> Possibly the easiest way to do this is using the eutils facilities.
> This url will retrieve the tax id for gi 1234
> will return:
> On Jun 21, 2005, at 6:27 AM, Michael Spitzer wrote:
>> Dear All,
>> For a list of approx. 20 GI numbers (NCBI GenBank IDs) I need the
>> taxon ID as given in the corresponding full GenBank record. Which
>> is the easiest way to accomplish this task automatically? Does
>> Bioperl help? Can one access this function via the NCBI website
>> (possibly, using Bioperl)? Or, does one have to download the whole
>> GenBank database?
>> All I could find out is that there is a function 'gi2taxid' in the
>> NCBI toolkit, but I have no experience with using the toolkit, and
>> I hope that there is an easier 'Bioperl' way to solve the problem
>> - could BIO::DB::NCBIHelper be the way to go? Any help or hints
>> are greatly appreciated!
>> Kind regards,
>> Michael Spitzer
>> Bioperl-l mailing list
>> Bioperl-l at portal.open-bio.org
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