Hello -

Few more links that may be helpful:

http://bitbucket.org/galaxy/galaxy-central/wiki/DataTables
https://bitbucket.org/galaxy/galaxy-central/wiki/ToolDependencies

Thanks!

Jen


On 4/20/11 1:49 PM, Jennifer Jackson wrote:
Hello Giovanni,

Galaxy does not (yet) support genome downloads, but a recommended source
(it was ours) would be the UCSC Genome browser. Here is a link to their
downloads ftp site. Instructions are in the README files within the file
directories. Be sure to use FTP (direct unix or a client such as
FileZilla, a web browser download will fail on a file of this size, as
you might already know!).

http://hgdownload.cse.ucsc.edu/downloads.html#c_elegans

To create the files for use with TopHat in Galaxy, please see these
instructions in our wiki:
https://bitbucket.org/galaxy/galaxy-central/wiki/NGSLocalSetup
scroll to: "Setting Up the Reference Genomes for NGS Tools"


Best!

Jen
Galaxy team

On 4/4/11 8:15 AM, giovanni stefani wrote:
Hello everybody,

I would like to download the C. elegans ce6/WS190 bowtie index (six
.ebwt files and the make_c_elegans_ws120.sh) that is in use in galaxy
Tophat as reference genome.
Is that possible, and how do I go about that?
Thank you very much,

Giovanni
___________________________________________________________
The Galaxy User list should be used for the discussion of
Galaxy analysis and other features on the public server
at usegalaxy.org. Please keep all replies on the list by
using "reply all" in your mail client. For discussion of
local Galaxy instances and the Galaxy source code, please
use the Galaxy Development list:

http://lists.bx.psu.edu/listinfo/galaxy-dev

To manage your subscriptions to this and other Galaxy lists,
please use the interface at:

http://lists.bx.psu.edu/


--
Jennifer Jackson
http://usegalaxy.org
http://galaxyproject.org
___________________________________________________________
The Galaxy User list should be used for the discussion of
Galaxy analysis and other features on the public server
at usegalaxy.org.  Please keep all replies on the list by
using "reply all" in your mail client.  For discussion of
local Galaxy instances and the Galaxy source code, please
use the Galaxy Development list:

 http://lists.bx.psu.edu/listinfo/galaxy-dev

To manage your subscriptions to this and other Galaxy lists,
please use the interface at:

 http://lists.bx.psu.edu/

Reply via email to