[Bioperl-l] GenBank subseq retrieval

Brian Osborne osborne1 at optonline.net
Fri Dec 16 23:42:00 EST 2005


Bug 1405, or enhancement 1405, is fixed. Try it out and see if it works for

Brian O.

On 12/16/05 1:39 PM, "Chris Fields" <cjfields at uiuc.edu> wrote:

> I saw in Bugzilla that there was an attempt to add seq_start and seq_end
> (among other features) to Bio::DB::Genbank to allow subsequence retrieval
> through the efetch interface at NCBI:
> http://bugzilla.bioperl.org/show_bug.cgi?id=1405.
> I didn't see the proposed updates in bioperl-live CVS.  Is this implemented
> yet or is there an alternative way to do this w/o downloading the entire
> sequence?  I am parsing rnamotif hits from GenBank files to determine the
> genomic context of the region where the hit occurred.
> Christopher Fields
> Postdoctoral Researcher - Switzer Lab
> Dept. of Biochemistry
> University of Illinois Urbana-Champaign
> _______________________________________________
> Bioperl-l mailing list
> Bioperl-l at portal.open-bio.org
> http://portal.open-bio.org/mailman/listinfo/bioperl-l

More information about the Bioperl-l mailing list