Hi Rad, Jorge,

Sorry for the delay in reply.  We have not yet released a pre-canned workflow to do this. However, if you are looking to associate one set of Genomic interval/region data with another set, Galaxy's interval operation tools are a good place to begin. There are good examples of using these tools available through screencasts (http://galaxycast.org), Galaxy 101 (http://usegalaxy.org/galaxy101),  as well as the wiki (http://wiki.g2.bx.psu.edu/Learn/Interval%20Operations). 

Please let us know if we can provide additional information.


Thanks for using Galaxy,

Dan


On Jun 23, 2011, at 9:41 AM, Radhouane Aniba wrote:

Thanks Jennifer

Rad

2011/6/23 Jorge Andrade <andrade.jorge@gmail.com>
Please keep me on the loop as I am also interested in similar workflow.
Many thanks and best regards,
Jorge


On Thu, Jun 23, 2011 at 3:21 AM, Jennifer Jackson <jen@bx.psu.edu> wrote:
Hello Rad,

Dan will be able to help you get started and build up a workflow for your analysis. He is currently on vacation, but will be returning soon and will contact you directly when he returns.

We are very sorry about the delayed reply. Please know that we definitely want to help you to use Galaxy for your project,

We will be in touch,

Best,

Jen
Galaxy team



On 6/17/11 10:55 AM, Radhouane Aniba wrote:
Hi everyone,

I have a list of genomic regions with some variants and would like to
study the correlation between theses variants and epigenomics marks such
as histone modifications.

 From Encode download page, i got some files corresponding to peaks of
these hsitone modifications and would like to know if there is a way to
create a pipeline using galaxy to map my variants, depending on genomic
regions to the information I have from the histone modification peaks.

Is there someone who can point me to a step by step to do things to
start using Galaxy ?

Thank you

Rad




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--
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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,
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--
Radhouane Aniba
Bioinformatics Postdoctoral Research Scientist
Institute for Advanced Computer Studies
Center for Bioinformatics and Computational Biology (CBCB)
University of Maryland, College Park
MD 20742

___________________________________________________________
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/