[Gmod-help] GBrowse for metagenomics multi-fasta contig

[Scott Cain]

Except that I didn't cc it to the gbrowse mailing list. :-)

Now I did.

Scott

On Fri, 2008-04-11 at 12:05 -0400, Scott Cain wrote:
> Hello Wenhan,
> 
> I'm cc'ing this email to the gbrowse mailing list.
> 
> There is no reason that I can think of that it couldn't be used with
> short contigs--there are groups that use it for proteins and their
> features/domains, and those are certainly going to be shorter than
> typical metagenomic contigs.
> 
> Scott
> 
> On Fri, 2008-04-11 at 11:51 -0400, Wenhan Zhu wrote:
> > Dear Gmod team,
> > 
> > Recently, I started to use GBrowse and found it very useful. I have a
> > quick question:
> > 
> > I understand that the genome browser is designed to be used for a long
> > stretch of sequence(a complete sequenced genome).
> > 
> > I am wondering:
> > The new metagenomic sequences become popular nowadays. The dataset
> > usually has thousands of contigs, each one has 1-2kb short sequences. 
> > Is there any resources that can accomodate GBrowse for this type of
> > dataset?
> > 
> > Thank you so much,
> > Best regards,
> > 
> > Wenhan
> > --
-- 
------------------------------------------------------------------------
Scott Cain, Ph. D.                                         cain at cshl.edu
GMOD Coordinator (http://www.gmod.org/)                     216-392-3087
Cold Spring Harbor Laboratory