K2N

K2N is a tool that provides several different algorithms to remove pseudoknots to make knotted RNA structures to nested structures.

Topic

RNA;Nucleic acid structure analysis;Software engineering;Structure prediction;Gene transcripts

Detail

  • Operation: RNA secondary structure prediction;Structure visualisation;RNA structure prediction;RNA structure covariance model generation

  • Software interface: Web user interface

  • Language: Python

  • License: -

  • Cost: Free

  • Version name: -

  • Credit: The Centre for Medical Systems Biology; the Netherlands Genomics Initiative, funded by the Dutch government.

  • Input: -

  • Output: -

  • Contact: ibivu@few.vu.nl | rob@spot.colorado.edu | Sandra Smit S.Smit@few.vu.nl

  • Collection: -

  • Maturity: -

Publications

  • From knotted to nested RNA structures: a variety of computational methods for pseudoknot removal.
  • Smit S, et al. From knotted to nested RNA structures: a variety of computational methods for pseudoknot removal. From knotted to nested RNA structures: a variety of computational methods for pseudoknot removal. 2008; 14:410-6. doi: 10.1261/rna.881308
  • https://doi.org/10.1261/rna.881308
  • PMID: 18230758
  • PMC: PMC2248259

Download and documentation

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