Tregwiki:Discover motif combinations


 * 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...