Question: Homer for Motif search
gravatar for sjn
2.9 years ago by
sjn10 wrote:


   I would like to use HOMER to search for enriched motif on a ChIPseq analysis I did using Galaxy. How can I use the tool that is available in Toolshed. From basic search I found that one can add anything from Toolshed to local galaxy by signing in as admin. But I am using public server and my account do not have admin option. Any suggestions?


galaxy • 783 views
ADD COMMENTlink modified 2.9 years ago by Jennifer Hillman Jackson25k • written 2.9 years ago by sjn10
gravatar for Jennifer Hillman Jackson
2.9 years ago by
United States
Jennifer Hillman Jackson25k wrote:


Public servers have a fixed set of tools set by the owners/administrators. Tools choices are often based on the available compute these groups have available to share with public users and/or the servers focus on specific analysis pathways. Galaxy Main ( will not be including HOMER for at least the near term. You can reach out to other groups and ask about their plans directly: PublicGalaxyServers

Setting up a Local Galaxy and adding tools is designed to a be a simple process. The key requirement for successful tool execution is providing enough compute resource. In the most general terms, the resource required by a tool when executed line-command is roughly the same as Galaxy would require to execute it. See any tool's manual for computing requirements (or the tool author's support channels/forums).

The other option is to use a Cloud Galaxy. AWS offers research grants to help with costs.

Both options are covered here: and here

Hope one of these works out for you! Jen, Galaxy team

ADD COMMENTlink modified 2.9 years ago • written 2.9 years ago by Jennifer Hillman Jackson25k
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 179 users visited in the last hour