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

[Scott Cain]

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