<span>I</span> agree with Scott. The software scales well to many short contigs.<br><br>Lincoln<br><br><div class="gmail_quote">On Fri, Apr 11, 2008 at 12:05 PM, Scott Cain <<a href="mailto:cain.cshl@gmail.com">cain.cshl@gmail.com</a>> wrote:<br>
<blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;">Hello Wenhan,<br>
<br>
I'm cc'ing this email to the gbrowse mailing list.<br>
<br>
There is no reason that I can think of that it couldn't be used with<br>
short contigs--there are groups that use it for proteins and their<br>
features/domains, and those are certainly going to be shorter than<br>
typical metagenomic contigs.<br>
<br>
Scott<br>
<div><div></div><div class="Wj3C7c"><br>
On Fri, 2008-04-11 at 11:51 -0400, Wenhan Zhu wrote:<br>
> Dear Gmod team,<br>
><br>
> Recently, I started to use GBrowse and found it very useful. I have a<br>
> quick question:<br>
><br>
> I understand that the genome browser is designed to be used for a long<br>
> stretch of sequence(a complete sequenced genome).<br>
><br>
> I am wondering:<br>
> The new metagenomic sequences become popular nowadays. The dataset<br>
> usually has thousands of contigs, each one has 1-2kb short sequences.<br>
> Is there any resources that can accomodate GBrowse for this type of<br>
> dataset?<br>
><br>
> Thank you so much,<br>
> Best regards,<br>
><br>
> Wenhan<br>
> --<br>
</div></div><font color="#888888">--<br>
------------------------------------------------------------------------<br>
Scott Cain, Ph. D. <a href="mailto:cain@cshl.edu">cain@cshl.edu</a><br>
GMOD Coordinator (<a href="http://www.gmod.org/" target="_blank">http://www.gmod.org/</a>) 216-392-3087<br>
Cold Spring Harbor Laboratory<br>
<br>
</font></blockquote></div><br><br clear="all"><br>-- <br>Lincoln D. Stein<br>Cold Spring Harbor Laboratory<br>1 Bungtown Road<br>Cold Spring Harbor, NY 11724<br>(516) 367-8380 (voice)<br>(516) 367-8389 (fax)<br>FOR URGENT MESSAGES & SCHEDULING, <br>
PLEASE CONTACT MY ASSISTANT, <br>SANDRA MICHELSEN, AT <a href="mailto:michelse@cshl.edu">michelse@cshl.edu</a>