HOMER

HOMER (Hypergeometric Optimization of Motif EnRichment) is a suite of tools for Motif Discovery and ChIP-Seq analysis. It is a collection of command line programs for unix-style operating systems written in mostly perl and c++. Homer was primarily written as a de novo motif discovery algorithm that is well suited for finding 8-12 bp motifs in large scale genomics data.

Availability and Restrictions

The following versions of HOMER are available on OSC clusters:

Version Oakley owens
4.8 X* X*
*: Current default version

You can use  module spider homer  to view available modules for a given machine. Feel free to contact OSC Help if you need other versions for your work.

Access

HOMER is available to all OSC users without restriction.

Usage on Oakley

Set-up

To configure your environment for use of HOMER, run the following command:   module load homer. The default version will be loaded. To select a particular HOMER version, use module load homer/version. For example, use  module load homer/4.8 to load HOMER 4.8.

Usage on Owens

Set-up

To configure your environment for use of HOMER, run the following command:   module load homer. The default version will be loaded. To select a particular HOMER version, use module load homer/version. For example, use module load homer/4.8 to load HOMER 4.8.

Further Reading

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