[Bioperl-l] NCBI taxonomy database

[Dave Messina]

Hi snoze,

I think you will want to take a look at the docs for the Bio::Taxon module
http://doc.bioperl.org/releases/bioperl-current/bioperl-live/Bio/Taxon.html


and these scripts:
scripts/taxa/local_taxonomydb_query.PLS<http://cvs.bioperl.org/cgi-bin/viewcvs/viewcvs.cgi/bioperl-live/scripts/taxa/local_taxonomydb_query.PLS?rev=HEAD&cvsroot=bioperl&content-type=text/vnd.viewcvs-markup>
Script
that accesses a local taxonomy database and retrieves species or
TaxonIDs<http://www.bioperl.org/wiki/TaxonID>.
 scripts/taxa/query_entrez_taxa.PLS<http://cvs.bioperl.org/cgi-bin/viewcvs/viewcvs.cgi/bioperl-live/scripts/taxa/query_entrez_taxa.PLS?rev=HEAD&cvsroot=bioperl&content-type=text/vnd.viewcvs-markup>
Demonstrate
how to retrieve the NCBI <http://www.bioperl.org/wiki/NCBI>
TaxonID<http://www.bioperl.org/wiki/TaxonID>for a given species. Also
retrieve
TaxonID <http://www.bioperl.org/wiki/TaxonID> for a given accession
number<http://www.bioperl.org/wiki/Accession_number>.
 scripts/taxa/taxid4species.PLS<http://cvs.bioperl.org/cgi-bin/viewcvs/viewcvs.cgi/bioperl-live/scripts/taxa/taxid4species.PLS?rev=HEAD&cvsroot=bioperl&content-type=text/vnd.viewcvs-markup>
Retrieve
the NCBI <http://en.wikipedia.org/wiki/NCBI>
TaxonID<http://www.bioperl.org/wiki/TaxonID>for a given species.

Dave