### - r -

- Randomize() : Multilign_object
- ReadAlignmentConstraints() : Dynalign_object
- ReadConstraints() : RNA
- ReadDSO() : RNA
- ReadExperimentalPairBonus() : RNA
- ReadSHAPE() : RNA
- ReadSSO() : RNA
- ReadThermodynamic() : Thermodynamics
- ReFoldSingleStrand() : RNA
- RemoveBasePair() : RNA
- RemoveConstraints() : RNA
- RemoveOneInput() : Multilign_object
- RemovePairs() : RNA
- RNA() : RNA