IntaRNA::SeedHandlerMfe Member List

This is the complete list of members for IntaRNA::SeedHandlerMfe, including all inherited members.

addSeeds(Interaction &i) const	IntaRNA::SeedHandler	virtual
areLoopOverlapping(const size_t i1, const size_t i2, const size_t k1, const size_t k2) const	IntaRNA::SeedHandler	virtual
decodeSeedLength1(const size_t code) const	IntaRNA::SeedHandlerMfe	inlineprotected
decodeSeedLength2(const size_t code) const	IntaRNA::SeedHandlerMfe	inlineprotected
encodeSeedLength(const size_t l1, const size_t l2) const	IntaRNA::SeedHandlerMfe	inlineprotected
energy	IntaRNA::SeedHandler	protected
fillSeed(const size_t i1, const size_t j1, const size_t i2, const size_t j2)	IntaRNA::SeedHandlerMfe	virtual
getConstraint() const	IntaRNA::SeedHandler	inlinevirtual
getInteractionEnergy() const	IntaRNA::SeedHandler	inlinevirtual
getSeedE(const size_t i1, const size_t i2) const	IntaRNA::SeedHandlerMfe	inlinevirtual
getSeedE(const size_t i1, const size_t i2, const size_t bpInbetween, const size_t u1, const size_t u2) const	IntaRNA::SeedHandlerMfe	inlineprotected
getSeedLength1(const size_t i1, const size_t i2) const	IntaRNA::SeedHandlerMfe	inlinevirtual
getSeedLength2(const size_t i1, const size_t i2) const	IntaRNA::SeedHandlerMfe	inlinevirtual
isFeasibleSeedBasePair(const size_t i1, const size_t i2, const bool atEndOfSeed=false) const	IntaRNA::SeedHandler	virtual
isSeedBound(const size_t i1, const size_t i2) const	IntaRNA::SeedHandlerMfe	inlinevirtual
offset1	IntaRNA::SeedHandlerMfe	protected
offset2	IntaRNA::SeedHandlerMfe	protected
seed	IntaRNA::SeedHandlerMfe	protected
seedConstraint	IntaRNA::SeedHandler	protected
seedE_rec	IntaRNA::SeedHandlerMfe	protected
SeedHandler(const InteractionEnergy &energy, const SeedConstraint &seedConstraint)	IntaRNA::SeedHandler	inline
SeedHandlerMfe(const InteractionEnergy &energy, const SeedConstraint &seedConstraint)	IntaRNA::SeedHandlerMfe	inline
SeedIndex typedef	IntaRNA::SeedHandlerMfe
SeedMatrix typedef	IntaRNA::SeedHandlerMfe
SeedRecMatrix typedef	IntaRNA::SeedHandlerMfe
setSeedE(const size_t i1, const size_t i2, const size_t bpInbetween, const size_t u1, const size_t u2, const E_type E)	IntaRNA::SeedHandlerMfe	inlineprotected
traceBackSeed(Interaction &interaction, const size_t i1, const size_t i2) const	IntaRNA::SeedHandlerMfe	inlinevirtual
traceBackSeed(Interaction &interaction, const size_t i1, const size_t i2, const size_t bp, const size_t u1, const size_t u2) const	IntaRNA::SeedHandlerMfe	protected
updateToNextSeed(size_t &i1, size_t &i2, const size_t i1min=0, const size_t i1max=RnaSequence::lastPos, const size_t i2min=0, const size_t i2max=RnaSequence::lastPos) const	IntaRNA::SeedHandler	virtual
~SeedHandler()	IntaRNA::SeedHandler	inlinevirtual
~SeedHandlerMfe()	IntaRNA::SeedHandlerMfe	inlinevirtual