[Bioperl-l] Full uniprot annotation extraction

Brian Osborne brian_osborne at cognia.com
Mon Mar 14 08:20:12 EST 2005


You should take a look at the Feature and Annotation HOWTO

You might also want to consider using bioperl-db, it has scripts that load
sequence into a BioSql database (Oracle, Mysql, Postgres). This package is
available at http://bioperl.org/Core/Latest/index.shtml.

Brian O.

-----Original Message-----
From: bioperl-l-bounces at portal.open-bio.org
[mailto:bioperl-l-bounces at portal.open-bio.org]On Behalf Of SG Edwards
Sent: Monday, March 14, 2005 3:17 AM
To: bioperl-l at portal.open-bio.org
Subject: [Bioperl-l] Full uniprot annotation extraction


I am parsing uniprot flat files and I need to extract as many of the lines
possible for insertion into a RDBMS.

I use Bio::DB::SwissProt to get the major annotation (e.g. primary accession
number) but is there a way to get other annotation also (e.g. date of the

Bioperl-l mailing list
Bioperl-l at portal.open-bio.org

More information about the Bioperl-l mailing list