Computational biology software:

1. CMF: Contrast motif finder that finds motifs with differential enrichment between two datasets.
2. HtBackground: Building a heterogeneous background model for DNA multiple alignments.
3. MultiScan: Motif scan in multiple alignments with background built from HtBackground.
4. MultiModule: Motif-module discovery in multiple species by coupling hidden Markov models.
5. CisModule: De novo motif-module discovery algorithm based on a hierarchical mixture model.
6. CisModScan: Scanning for cis-regulatory modules given PWMs.
7. GMS-MP: Gibbs motif sampler for pare correlation model.

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