RactIP

RactIP is an integer programming-based method that integrates approximate information on an ensemble of equilibrium joint structures into the objective function. Results from real data demonstrate that RactIP is at least as accurate as existing state-of-the-art methods but runs much faster.

Topic

Structure prediction;RNA

Detail

  • Operation: Structure prediction;Prediction

  • Software interface: Command-line user interface, web user interface

  • Language: C, Perl

  • License: -

  • Cost: Free

  • Version name: 1.0.1

  • Credit: Young Scientists (B) (KAKENHI) from Ministry of Education, Culture, Sports, Science and Technology (MEXT), Japan.

  • Input: FASTA

  • Output: -

  • Contact: Yuki Kato ykato@kuicr.kyoto-u.ac.jp, Kengo Sato satoken@k.u-tokyo.ac.jp

  • Collection: -

  • Maturity: -

Publications

  • RactIP: fast and accurate prediction of RNA-RNA interaction using integer programming.
  • Kato Y, et al. RactIP: fast and accurate prediction of RNA-RNA interaction using integer programming. RactIP: fast and accurate prediction of RNA-RNA interaction using integer programming. 2010; 26:i460-6. doi: 10.1093/bioinformatics/btq372
  • https://doi.org/10.1093/bioinformatics/btq372
  • PMID: 20823308
  • PMC: PMC2935440

Download and documentation

< Back to DB search