IntaRNA::AccessibilityVrna Member List

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

accConstraint	IntaRNA::Accessibility	protected
Accessibility(const RnaSequence &sequence, const size_t maxLength, const AccessibilityConstraint *const accConstr)	IntaRNA::Accessibility	inline
AccessibilityVrna(const RnaSequence &sequence, const size_t maxLength, const AccessibilityConstraint *const accConstraint, const VrnaHandler &vrnaHandler, const size_t plFoldW=0, const double pfScale=VrnaHandler::getPfScaleDefault())	IntaRNA::AccessibilityVrna
addConstraints(vrna_fold_compound_t &fold_compound, const Accessibility &acc)	IntaRNA::AccessibilityVrna	static
callbackForStorage(FLT_OR_DBL *pr, int pr_size, int j, int max, unsigned int type, void *storageRT)	IntaRNA::AccessibilityVrna	protectedstatic
checkIndices(const size_t from, const size_t to) const	IntaRNA::Accessibility	inlineprotectedvirtual
decomposeByMaxED(const size_t maxRangeLength, const size_t winSize, const size_t minRangeLength) const	IntaRNA::Accessibility
decomposeByMaxED(IndexRangeList &ranges, const E_type maxED, const size_t minRangeLength) const	IntaRNA::Accessibility
ED_UPPER_BOUND	IntaRNA::Accessibility	static
EdMatrix typedef	IntaRNA::AccessibilityVrna	protected
edValues	IntaRNA::AccessibilityVrna	protected
fillByRNAplfold(const VrnaHandler &vrnaHandler, const size_t plFoldW, const size_t plFoldL, const double pfScale)	IntaRNA::AccessibilityVrna	protected
getAccConstraint() const	IntaRNA::Accessibility	inlinevirtual
getED(const size_t from, const size_t to) const	IntaRNA::AccessibilityVrna	inlinevirtual
getMaxLength() const	IntaRNA::Accessibility	inlinevirtual
getSequence() const	IntaRNA::Accessibility	inlinevirtual
maxLength	IntaRNA::Accessibility	protected
seq	IntaRNA::Accessibility	protected
writeBinary(std::ostream &out) const override	IntaRNA::AccessibilityVrna	inlinevirtual
IntaRNA::Accessibility::writeBinary(std::ostream &out, const UpperBandedMatrix< E_type > *matrix) const	IntaRNA::Accessibility	protected
writeRNAplfold_ED_text(std::ostream &out) const	IntaRNA::Accessibility	inline
writeRNAplfold_Pu_text(std::ostream &out, const Z_type RT) const	IntaRNA::Accessibility	inline
writeRNAplfold_text(std::ostream &out, const Z_type RT, const bool writeProbs) const	IntaRNA::Accessibility	protected
~Accessibility()	IntaRNA::Accessibility	inlinevirtual
~AccessibilityVrna()	IntaRNA::AccessibilityVrna	virtual