DARN!

Darn is a RNA motif search tool. It finds all the subsequences that match a specifiedmotif on some input genomic sequence(s).Darn uses a weighted constraint solver to localize the portions of a genomic sequencethat match a motif. The motif is expressed in a specific language (see section 5). Somemotif descriptors are provided with the software for FMN, Lysine, RNaseP, SAM,snoRNA C/D-box and tRNA search.

Keywords for this software

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References in zbMATH (referenced in 4 articles , 1 standard article )

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  1. Xu, Hong; Satish Kumar, T. K.; Koenig, Sven: The Nemhauser-Trotter reduction and lifted message passing for the weighted CSP (2017)
  2. Carbonnel, Clément; Cooper, Martin C.: Tractability in constraint satisfaction problems: a survey (2016)
  3. Zytnicki, M.; Gaspin, C.; de Givry, S.; Schiex, T.: Bounds arc consistency for weighted CSPs (2009)
  4. Zytnicki, Matthias; Gaspin, Christine; Schiex, Thomas: DARN! A weighted constraint solver for RNA motif localization (2008)