Holds the algorithm parameter values and the motif instance(s) found by the appropriate motif discovery algorithm.
Note: There are various known problems with the motif finding in SeqAn. We plan to fix this in an upcoming release.
MotifFinder<TValue, TSpec, TRng>
Include Headers
The motif finding algorithm to search with.
The type of sequences to be analyzed.
Metafunctions: Value
Types: AminoAcid, Dna
The Rng specialization to use for random number generation.
Default: GetDefaultRng<MotifFinderClass>::Type
EPatternBranching Represents the ePatternBranching algorithm of Davila and Rajasekaran.
Pms1 Represents the Pms1 algorithm developed by Rajasekaran et al.
Pmsp Represents the Pmsp algorithm of Davila et al.
Projection Represents the PROJECTION algorithm of Buhler and Tompa.
ValueType of the items in the container or behind an iterator.
displayResultDisplays all found motif candidates. In the case of the Projection Motif Finder the function displays the consensus pattern of the found motif candidate.
findMotifRepresents the main function which is used to start the search for noticeable motif patterns.
getMotifGets the motif out of a MotifFinder. If pos is given, the pos-th motif is returned, otherwise the first motif is returned.
motifCountGets number of motifs in the MotifFinder.
Example Programs
SeqAn - Sequence Analysis Library -

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