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