From: Multi-objective optimization for RNA design with multiple target secondary structures
Method | Property | Str. | Package |
---|---|---|---|
RNAfold | MFE,SIM | y | |
RNAfold-pa | MFE,EFE,PB,SIM | y | |
RNAeval | FE | - | |
FindPathb | BAR | - | |
Fold | MFE,SIM | y | RNAstructure [42] |
foldc | FE | - | RNAstructure [42] |
EnsembleEnergy | EFE | - | RNAstructure [42] |
CentroidFold | FEd,SIM | y | |
centroidfoldc | FE | - | |
IPknote | GCPAIR,SIM | y | |
mfee | MFE,SIM | y | NUPACK [35] |
pfunce | EFE,PF | - | NUPACK [35] |
energye | FE | - | NUPACK [35] |
probe | PB | - | NUPACK [35] |
defecte | DEF,NDEF | - | NUPACK [35] |
UNAFold | MFE,SIM | y | UNAFold [46] |
pknotsRGe | MFE,SIM | y | RNA studio [47] |
HotKnotse | MFE,SIM | y | RNAsoft [48] |
GCe | CONT | - | - |