
Related web sites
- MEME is the motif discovery
tool that builds the motif models that serve as input to Meta-MEME.
MEME can be used to find motifs in DNA or protein sequences.
- MAST is a database search
tool that uses multiple MEME motif models to search a protein or
DNA database. MAST differs from Meta-MEME in that MAST treats each
motif model independently, rather than combining the motif models
into a single meta-model.
- SAM is a
hidden Markov model toolkit, developed at the University of
California, Santa Cruz. Unlike Meta-MEME, SAM models are not
motif-based. However, SAM supports both DNA and protein
models.
- HMMER is another hidden
Markov model toolkit. Developed by Sean Eddy at Washington
University in St. Louis, the HMMER toolkit includes a number of
homology detection programs for specific tasks. These can be used
with Meta-MEME by converting linear Meta-MEME models into HMMER
version 1.8 models.
- The BLOCKS database
is a searchable collection of PROSITE motifs. The associated
BLOCKMAKER
software allows for the construction of new motif blocks.
- Pfam is a database of
protein domain multiple alignments and HMMs.
Return to the Meta-MEME home page.
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