mirror of
https://github.com/Ponce/slackbuilds
synced 2024-11-06 08:26:50 +01:00
35 lines
1.6 KiB
Text
35 lines
1.6 KiB
Text
The MEME suite: motif based sequence analysis tools
|
|
|
|
The MEME suite provides tools for discovering and using protein and
|
|
DNA sequence motifs. A motif is a pattern of nucleotides or amino acids
|
|
that appears repeatedly in a group of related DNA or protein sequences.
|
|
|
|
The MEME suite represents motifs as position-dependent scoring matrices.
|
|
It consists of programs which allow you to:
|
|
|
|
- meme - discovery of motifs shared by a group of sequences
|
|
- mast - search of databases for sequences containing these motifs
|
|
- tomtom - searching databases of motifs for similar motifs
|
|
- gomo - finding Gene Ontology terms linked to the motifs
|
|
- glam2 - discovery of gapped motifs
|
|
- glam2scan - scanning sequences with gapped motifs
|
|
- fimo - scanning sequences with motifs
|
|
- mcast - finding motif clusters
|
|
- meme-chip - analysis of large DNA datasets like ChIPseq output
|
|
- spamo - finding motif complexes by analysing motif spacing
|
|
- dreme - discovery of short regular expression motifs
|
|
|
|
Note: building on a 32bit architecture fails at the 'make test' step
|
|
(check script). If the step is disabled, the suite builds, however it
|
|
may or may NOT work properly. Therefore, 32bit is set as 'UNTESTED'.
|
|
The 'make test' step will also fail if you don't build in a proper root
|
|
environment.
|
|
|
|
To cite the full MEME suite:
|
|
Timothy L. Bailey, Mikael Bodén, Fabian A. Buske, Martin Frith,
|
|
Charles E. Grant, Luca Clementi, Jingyuan Ren, Wilfred W. Li,
|
|
William S. Noble, "MEME SUITE: tools for motif discovery and searching",
|
|
Nucleic Acids Research, 37:W202-W208, 2009.
|
|
|
|
To cite individual tools, please check the citation page:
|
|
http://meme-suite.org/doc/cite.html
|