[Genome] BLAT results on Genome browser

[Brooke Rhead]

Hi Amit,

To visualize your local BLAT results on the UCSC Genome Browser, you can 
create a custom track on the mouse genome with your BLAT results.  The 
custom track feature will accept PSL-formatted data, which is the format 
that BLAT outputs.  For more information about making custom tracks, see 
the custom track user's guide, located here:

http://genome.ucsc.edu/goldenPath/help/customTrack.html

There is also an FAQ section on custom tracks:

http://genome.ucsc.edu/FAQ/FAQcustom

Please let us know if you have any further questions about how to do this.

--
Brooke Rhead
UCSC Genome Bioinformatics Group




Subject: BLAT results on Genome browser
From: "Amit Dattatreya Parhar" <amit.p at ocimumbio.com>
Date: Wed, 21 Mar 2007 18:19:31 +0530
To: <genome at soe.ucsc.edu>

Hi,
         If I use BLAT on local machine , is there a facility to link or 
visualize BLAT hits on the genome browser at UCSC <mailto:browser at UCSC>. 
This facility is available on the BLAT server. Say I am aligning a mouse 
cDNA with mouse genome localy but I would like to visualize it on genome 
browser.

thanks in advance.

*Amit*
Bioinformatics Analyst
amit.p at ocimumbio.com <mailto:amit.p at ocimumbio.com>