Re: [Gmod-ajax] I cannot use the UCSC plugin

[Colin <col...@gm...>]

Hi there
Can you describe what your end goal is? Is it to access tracks from UCSC on
hg19 or hg38 (these aren't generally available as a trackhub), or to access
a specific trackhub?

I just ask because you mention wanting to create a hub.txt but without
knowing what you want it is hard to advise

Note:

The trackhubs we connect to are generally from resources that have a
hub.txt e.g. from this list https://genome.ucsc.edu/cgi-bin/hgHubConnect

Also, it is a bit confusing but the UCSCPlugin is used for accessing the
UCSC REST API http://genome.ucsc.edu/goldenPath/help/api.html and this can
actually access hg19 and hg38 tracks (example link showing the SegDups
track from UCSC)
https://jbrowse.org/code/jb2/v1.7.6/?config=test_data%2Fconfig_demo.json&session=share-P44nyEajyD&password=iO0Q7

-Colin

On Mon, May 2, 2022 at 1:39 PM Miri Michaeli <mir...@an...>
wrote:

> Hello Jbrowse team!
> I tried several manuals and used almost all the info I could reach out to,
> but I got a dead-end, so I send you this desperate email in request for
> help.
> I installed the UCSC plugin
> [image: image.png]
> then to use it I do:
> [image: image.png]
> but I cannot find how to create a hub.txt even on UCSC they only have an
> example that they claim to work but I downloaded and it doesn't.
> I would appreciate any help because I have struggled with it for a long
> time..
> Thanks in advance,
> Miri
>
> --
> *Miri Michaeli*, PhD
> Bioinformatician Scientist
>
>
>
>
> 10 Hanechoshet St., 2nd Floor
> Tel Aviv, 6971072
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> www.animabiotech.com
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