What is MEME Suite?
MEME Suite is a collection of tools for the discovery of novel motifs in groups of unaligned nucleotide or protein sequences and, a wide variety of motif-based analyses. It supports motif-based analysis of DNA, RNA and protein sequences.
- Motif Discovery: MEME, MEME-ChIP, DRMEM, GLAM2
- Motif Enrichment Analysis: AME, CentriMo, SpaMo, GOMO
- Motif Search: FIMO, MAST, MCAST, MOTIPH, GLAM2Scan
- Motif Comparison: Tomtom
- Additional Primary Tools: AMA
- Motif Format Conversion Scripts: beeml2meme, chen2meme, elm2meme, iupac2meme, jaspar2meme, matrix2meme, meme2meme, nmica2meme, priority2meme, rna2meme, scpd2meme, sites2meme, taipale2meme, tamo2meme, transfac2meme, uniprobe2meme
- File Format Conversion Utilities: clustalw2fasta, clustalw2phylip, glam2format, obo2dag
- Other Utilities:alphtype, ama-qvalues, ceqlogo, compute-prior-dist, create-priors, dust, fasta-center, fasta-dinucleotide-shuffle, fasta-get-markov, fasta-grep, fasta-shuffle-letters, fasta-subsample, fitevd, gendb, getsize, glam2mask, etc.
Using MEME Suite
The MEME Suite is installed under /share1/meme/ in our cluster systems. Please note that sequence databases are not installed in our system. User can download specific sequence database upon your requirements with links provided at http://meme-suite.org/db/sequences.
| System | Version | Command |
|---|---|---|
| HPC2021 | 5.4.1 | module load meme/5.4.1 |
Additional Information
Official MEME Website: http://meme-suite.org/
MEME Suite Manual: http://meme-suite.org/doc/overview.html
Sequence Databases: http://meme-suite.org/db/sequences