Hello Matt,
If you are using the public Main Galaxy instance or a Cloud Galaxy AMI,
the genome should be available. But on a local instance, reference
genomes need to be set up. These are the instructions:
http://wiki.galaxyproject.org/Admin/Data%20Integration
http://wiki.galaxyproject.org/Admin/NGS%20Local%20Setup#May_29th_2013_FTP_login_resolution
If you are on a local, you will probably want to start asking questions
about local set-up on the galaxy-...@bx.psu.edu mailing list and also
consider subscribing/following it.
http://wiki.galaxyproject.org/Support#Mailing_Lists
Take care,
Jen
Galaxy team
On 7/29/13 10:51 AM, Matthew Girgenti wrote:
Hi I'm currently using the Galaxy pipeline to analyze my illumina chip-seq data. When I try
to use "NGA: Mapping>Map with Bowtie for Illumina" to map my reads there is no
rat reference genome. I says I should contact galaxy. Should I simply upload the genome to
proceed with analysis?
Thanks
Matt
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Galaxy Support and Training
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___________________________________________________________
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/
To search Galaxy mailing lists use the unified search at:
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