ICHEC Software
Information about software packages installed on the ICHEC systems.
MEME
Versions Installed
Stokes: 4.3.0
Description
MEME is a tool for discovering motifs in a group of related DNA or protein sequences.
A motif is a sequence pattern that occurs repeatedly in a group of related protein or DNA sequences. MEME represents motifs as position-dependent letter-probability matrices which describe the probability of each possible letter at each position in the pattern. Individual MEME motifs do not contain gaps. Patterns with variable-length gaps are split by MEME into two or more separate motifs.
MEME takes as input a group of DNA or protein sequences and outputs as many motifs as requested. MEME uses statistical modeling techniques to automatically choose the best width, number of occurrences, and description for each motif.
License
The copyright for MEME is held by The Regents of the University of California. Please refer to http://meme.nbcr.net/meme4_4_0/COPYRIGHT.html for copyright details and http://invent.ucsd.edu/technology/cases/2010/SD2010-808.shtml for commercial licenses.
Benchmarks
N/A.
Additional Notes
To use the MEME, load the relevant environment module:
Further information can be obtained from http://meme.sdsc.edu/meme/meme-intro.html
How to cite MEME:
Bailey T.L. and Elkan C. (1994)
Fitting a mixture model by expectation maximization to discover motifs in biopolymers.
Proceedings of the Second International Conference on Intelligent Systems for Molecular Biology, pp. 28-36, AAAI Press, Menlo Park, California.