[Bioperl-l] Refseq Version
sharmashalu.bio at gmail.com
Fri Feb 5 09:55:55 EST 2010
Thanks for your response.
I am getting the number of sequence in the database but not the release
number (like 38, 39).
This is what i did:
$ fastacmd -I -d /db/ncbiblast/refseq/refseq_protein
Database: NCBI Protein Reference Sequences
7,585,993 sequences; 2,644,770,521 total letters
Date: Jan 30, 2010 8:34 PM Version: 4 Longest sequence: 36,805 res
Date: Jan 30, 2010 8:34 PM Version: 4 Longest sequence: 33,403 res
Date: Jan 30, 2010 8:34 PM Version: 4 Longest sequence: 15,830 res
I am still confuse that how i can get the release number. I know refseq 39
was released on Jan 30, 2010 but i don't know how to confirm this. I also
tried look refseq release file but was not able to get any thing.
I would really appreciate if anyone can help me out with this.
On Thu, Feb 4, 2010 at 6:39 PM, Smithies, Russell <
Russell.Smithies at agresearch.co.nz> wrote:
> If you have access to the blast database, use fastacmd -I -d databasename
> Otherwise, it's usually at the bottom of your blast result.
> > -----Original Message-----
> > From: bioperl-l-bounces at lists.open-bio.org [mailto:bioperl-l-
> > bounces at lists.open-bio.org] On Behalf Of shalu sharma
> > Sent: Friday, 5 February 2010 11:02 a.m.
> > To: bioperl-l at lists.open-bio.org
> > Subject: [Bioperl-l] Refseq Version
> > Hi All,
> > This is not a bioperl query.
> > Is there any way to check refseq version (release). Actually i am using
> > some
> > server to blast my sequences (blastall) against refseq. Is there any way
> > can get the version information on the refseq database (from the blast
> > file
> > or directly from the database)?
> > Thanks
> > Shalu
> > _______________________________________________
> > Bioperl-l mailing list
> > Bioperl-l at lists.open-bio.org
> > http://lists.open-bio.org/mailman/listinfo/bioperl-l
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