Hi Brenda,

The examples below are labeled by the tool/user interface location where the two menus are located. Which tool are you using under "Get Data"? Perhaps "UCSC Main"?

Any tool other than "Upload File" accesses an external data source and the available data can vary. It is important to know that the data content included on externally hosted sites is managed by that sites owners. If you are using "Get Data -> UCSC Main", then you are correct in that they do not provide data for this genome, just the ones you list.

When you do locate data for this species that you wish you use (try searching for "Tribolium castaneum" with the tool " EBI SRA ENA SRA"), and import it, the Galaxy locally cached reference genome for Tcas_3.0 is available with several, but not all, mapping tools. It is likely to be added to Bowtie2/Tophat2 sometime in the future.

Thanks!

Jen
Galaxy team

On 4/10/14 2:27 PM, Brenda Oppert wrote:

Hi Jen,

When I go to "get data" and I put "insect" the only pull downs are some Drosophila and Anopheles spp. Is it somewhere else?

Thanks,

Brenda

---

From: Jennifer Jackson <jen@bx.psu.edu>
Sent: Thursday, April 10, 2014 4:18 PM
To: Brenda Oppert; galaxy-user@lists.bx.psu.edu
Subject: Re: [galaxy-user] Add Tribolium genome

 

Hello Brenda,

Are you working at http://usegalaxy.org? I just checked and it is still there. Please give this another look.

Thanks!

Jen
Galaxy team


On "Get Data -> Upload File" tool:
<Mail Attachment.png>

Under "Edit Attributes" (found by clicking on a dataset's pencil icon):
<Mail Attachment.png>

On 4/10/14 11:06 AM, Brenda Oppert wrote:

I thought that the genome sequence for Tribolium castaneum (Tcas3.0) was in the genome pull-down, but I don't see it.  Can it be added?

Thanks,

Brenda
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