[Genome] adding links to UCSC genome browser

[Rachel Harte]

Hello Asaf,

It is not a problem for you to create links to the Genome Browser - see
http://genome.ucsc.edu/FAQ/FAQlink

In order to create links with certain tracks on, you will need to specify
the tracks as CGI variables in the URL e.g. trackName = visibility. If for
human hg18, you would like to have the SGP Genes track on with dense
visibility, you would specify:

sgpGene=dense
in the URL e.g.

http://genome.ucsc.edu/cgi-bin/hgTracks?clade=vertebrate&org=Human&db=hg18
&position=chrX%3A151%2C073%2C054-151%2C383%2C976?sgpGene=dense

You should remove the hgsid parameter from any URL that you find in the
Browser, because it is just a temporary internally-used parameter. When
you have a particular combination of tracks switched on in the Genome
Browser, you can view the page source in your web browser and see the names
of the tracks and their visibilities.

I hope that this helps you. Please let us know if you have further
questions.

Rachel


Rachel Harte
UCSC Genome Bioinformatics Group
http://genome.ucsc.edu


On Mon, 15 Jan 2007, asaf levy wrote:

> Hi,
>
> I developed a database of retro-elements located inside protein coding genes
> in human and mouse.
>
> I would like to add links from each accession to the appropriate location in
> the genome browser.
>
> 1. Is there any legal problem with this? (my website and database is a fully
> academic website)
>
> 2. How can I create a link to the browser to be opened automatically with
> certain tracks on?
>
>
>
> Regards,
>
> Asaf
>
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