Tregwiki:Discover motif combinations

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  • Bayes Promoter scans your sequences for matrix matches and tries to infer a combinations of matrices, with preferred distances and orientation which in turn can be used to scan other sequences.
  • a recent paper describes software similar to DPM
  • MODULATOR in the cread library (see this wiki, APIs)
  • ModuleSearcher
  • DASS is a general purpose module finder and claims to be applicable to this problem...