Meme

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Description

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The MEME Suite allows you to:

  • discover motifs using MEME, DREME (DNA only) or GLAM2 on groups of related DNA or protein sequences,
  • search sequence databases with motifs using MAST, FIMO, MCAST or GLAM2SCAN,
  • compare a motif to all motifs in a database of motifs,
  • associate motifs with Gene Ontology terms via their putative target genes, and
  • analyse motif enrichment using SpaMo or CentriMo.

Template:App Location

Available versions

  • 3.0.13, 4.3.0, 4.6.1 (EL5)
  • 4.8.1 (EL6)

Running the application using modules

To use meme with the environment modules system at HPC the following commands are available:

Get module information for meme:

$module spider meme

Load the default application module:

$module load meme

The modulefile for this software adds the directory with executable files to the shell execution PATH and sets the following environment variables:

  • HPC_MEME_DIR - directory where meme is located.
  • HPC_MEME_BIN - executable directory

The core meme module provides single-threaded versions of MEME tools. To make the MPI-enabled meme_p binary available load the appropriate modules:

module load intel/2012 openmpi/1.6 meme