The MEME Suite allows the biologist to discover novel motifs in collections of unaligned nucleotide or protein sequences, and to perform a wide variety of other motif-based analyses. The MEME Suite supports motif-based analysis of DNA, RNA and protein sequences. It provides motif discovery algorithms using both probabilistic (MEME) and discrete models (MEME), which have complementary strengths. It also allows discovery of motifs with arbitrary insertions and deletions (GLAM2). In addition to motif discovery, the MEME Suite provides tools for scanning sequences for matches to motifs (FIMO, MAST and GLAM2Scan), scanning for clusters of motifs (MCAST), comparing motifs to known motifs (Tomtom), finding preferred spacings between motifs (SpaMo), predicting the biological roles of motifs (GOMo), measuring the positional enrichment of sequences for known motifs (CentriMo), and analyzing ChIP-seq and other large datasets (MEME-ChIP).
Version 5.0.1 is freely available for MetaCentrum users
module add meme-suite-5.0.1-mpi
Available binaries are:
ame centrimo dreme dreme-py3 dust fimo glam2 glam2scan gomo mast mcast meme meme-chip momo purge spamo tomtom
Notice: Sequence databases (gomo_batabases and motif_databases) are localized in the path:
meme ... -p 2 you can use command
mpirun meme without
-p parametr. Number of cpus will be taken from PBS system in this case.
Documentation is available at http://meme-suite.org/doc/overview.html?man_type=web