EvryRNA : RNA-SC

RNA-SC

Tutorial

  • It's the number of matchings in the reference structure, which are correctly predicted. This factor can be used for evaluating the homology degree for the two structures.
  • It's the number of present matchings in the reference structure, which are not predicted.
  • It's the number of present matchings in the predicted structure, which are not in the reference structure.
  • As defined by Gardner and Giegerich
    • Gardner Paul P and Giegerich Robert A comprehensive comparison of comparative RNA structure prediction approaches. BMC Bioinformatics 5:140. 2004. doi:10.1186/1471-2105-5-140
  • This factor evaluate the capacity of the software to find stems.
  • This factor evaluate the capacity of the software to find true positive stems.
    • This factor evaluate simultaneously the sensibility and the selectivity. The MCC requires the sequence length, in order to calculate True Negative (TN).
    • TN corresponds to all possible matchings:
    • Position paired format
    • Bracket format
  • Positions paired with the name, the sequence and the structure of the RNA.

  • OR
  •  
  • Positions paired with only the RNA structure.
  • Bracket format with the name, the sequence and the structure or the RNA.
For any questions, comments or suggestions about miRNAFold, please feel free to contact: fariza.tahi@ibisc.univ-evry.fr