IntaRNA 3.4.1
RNA-RNA interaction prediction | C++ API
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IntaRNA::InteractionEnergyVrna Member List

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

accS1IntaRNA::InteractionEnergyprotected
accS2IntaRNA::InteractionEnergyprotected
areComplementary(const size_t i1, const size_t i2) constIntaRNA::InteractionEnergyinlinevirtual
bpCGIntaRNA::InteractionEnergyVrnaprotected
bpGCIntaRNA::InteractionEnergyVrnaprotected
computeES(const Accessibility &acc, EsMatrix &esToFill)IntaRNA::InteractionEnergyVrnaprotected
computeIntraEall(const Accessibility &acc) constIntaRNA::InteractionEnergyVrnaprotected
Eall1IntaRNA::InteractionEnergyVrnamutableprotected
Eall2IntaRNA::InteractionEnergyVrnamutableprotected
energyAddIntaRNA::InteractionEnergyprotected
energyWithDanglesIntaRNA::InteractionEnergyprotected
ES_multi_1only enum valueIntaRNA::InteractionEnergy
ES_multi_2only enum valueIntaRNA::InteractionEnergy
ES_multi_both enum valueIntaRNA::InteractionEnergy
ES_multi_mode enum nameIntaRNA::InteractionEnergy
EsMatrix typedefIntaRNA::InteractionEnergyVrnaprotected
esValues1IntaRNA::InteractionEnergyVrnaprotected
esValues2IntaRNA::InteractionEnergyVrnaprotected
foldModelIntaRNA::InteractionEnergyVrnaprotected
foldParamsIntaRNA::InteractionEnergyVrnaprotected
getAccessibility1() constIntaRNA::InteractionEnergyinlinevirtual
getAccessibility2() constIntaRNA::InteractionEnergyinlinevirtual
getBasePair(const size_t i1, const size_t i2) constIntaRNA::InteractionEnergyinlinevirtual
getBoltzmannWeight(const E_type energy) constIntaRNA::InteractionEnergyinlinevirtual
getBoltzmannWeight(const Z_type energy) constIntaRNA::InteractionEnergyinlinevirtual
getE(const size_t i1, const size_t j1, const size_t i2, const size_t j2, const E_type hybridE) constIntaRNA::InteractionEnergyinlinevirtual
getE(const Z_type Z) constIntaRNA::InteractionEnergyinlinevirtual
getE_contributions(const Interaction &interaction) constIntaRNA::InteractionEnergyvirtual
getE_danglingLeft(const size_t i1, const size_t i2) constIntaRNA::InteractionEnergyVrnainlinevirtual
getE_danglingRight(const size_t j1, const size_t j2) constIntaRNA::InteractionEnergyVrnainlinevirtual
getE_endLeft(const size_t i1, const size_t i2) constIntaRNA::InteractionEnergyVrnainlinevirtual
getE_endRight(const size_t j1, const size_t j2) constIntaRNA::InteractionEnergyVrnainlinevirtual
getE_init() constIntaRNA::InteractionEnergyVrnainlinevirtual
getE_interLeft(const size_t i1, const size_t j1, const size_t i2, const size_t j2) constIntaRNA::InteractionEnergyVrnainlinevirtual
getE_multi(const size_t i1, const size_t j1, const size_t i2, const size_t j2, const ES_multi_mode ES_mode) constIntaRNA::InteractionEnergyinlinevirtual
getE_multiClosing() constIntaRNA::InteractionEnergyVrnainlinevirtual
getE_multiHelix(const size_t j1, const size_t j2) constIntaRNA::InteractionEnergyVrnainlinevirtual
getE_multiUnpaired(const size_t numUnpaired) constIntaRNA::InteractionEnergyVrnainlinevirtual
getEall1() constIntaRNA::InteractionEnergyVrnainlinevirtual
getEall2() constIntaRNA::InteractionEnergyVrnainlinevirtual
getED1(const size_t i1, const size_t j1) constIntaRNA::InteractionEnergyinlinevirtual
getED2(const size_t i2, const size_t j2) constIntaRNA::InteractionEnergyinlinevirtual
getEnergyAdd() constIntaRNA::InteractionEnergyinlinevirtual
getES1(const size_t i1, const size_t j1) constIntaRNA::InteractionEnergyVrnainlinevirtual
getES2(const size_t i2, const size_t j2) constIntaRNA::InteractionEnergyVrnainlinevirtual
getIndex1(const Interaction::BasePair &bp) constIntaRNA::InteractionEnergyinlinevirtual
getIndex2(const Interaction::BasePair &bp) constIntaRNA::InteractionEnergyinlinevirtual
getMaxInternalLoopSize1() constIntaRNA::InteractionEnergyinline
getMaxInternalLoopSize2() constIntaRNA::InteractionEnergyinline
getPr_danglingLeft(const size_t i1, const size_t j1, const size_t i2, const size_t j2) constIntaRNA::InteractionEnergyinlinevirtual
getPr_danglingRight(const size_t i1, const size_t j1, const size_t i2, const size_t j2) constIntaRNA::InteractionEnergyinlinevirtual
getRT() constIntaRNA::InteractionEnergyVrnainlinevirtual
InteractionEnergy(const Accessibility &accS1, const ReverseAccessibility &accS2, const size_t maxInternalLoopSize1, const size_t maxInternalLoopSize2, const E_type energyAdd, const bool energyWithDangle, const bool internalLoopGU)IntaRNA::InteractionEnergyinline
InteractionEnergyVrna(const Accessibility &accS1, const ReverseAccessibility &accS2, VrnaHandler &vrnaHandler, const size_t maxInternalLoopSize1=16, const size_t maxInternalLoopSize2=16, const bool initES=false, const E_type energyAdd=Ekcal_2_E(0.0), const bool energyWithDangles=true, const bool internalLoopGU=true)IntaRNA::InteractionEnergyVrna
internalLoopGUIntaRNA::InteractionEnergyprotected
isAccessible1(const size_t i) constIntaRNA::InteractionEnergyinlinevirtual
isAccessible2(const size_t i) constIntaRNA::InteractionEnergyinlinevirtual
isAllowedLoopRegion(const RnaSequence &seq, const size_t i, const size_t j, const size_t maxInternalLoopSize)IntaRNA::InteractionEnergyinlineprotectedstatic
isGC(const size_t i1, const size_t i2) constIntaRNA::InteractionEnergyVrnainlineprotected
isGU(const size_t i1, const size_t i2) constIntaRNA::InteractionEnergyinlinevirtual
isInternalLoopGUallowed() constIntaRNA::InteractionEnergyinline
isValidInternalLoop(const size_t i1, const size_t j1, const size_t i2, const size_t j2) constIntaRNA::InteractionEnergyinlinevirtual
maxInternalLoopSize1IntaRNA::InteractionEnergyprotected
maxInternalLoopSize2IntaRNA::InteractionEnergyprotected
RTIntaRNA::InteractionEnergyVrnaprotected
size1() constIntaRNA::InteractionEnergyinlinevirtual
size2() constIntaRNA::InteractionEnergyinlinevirtual
~InteractionEnergy()IntaRNA::InteractionEnergyinlinevirtual
~InteractionEnergyVrna()IntaRNA::InteractionEnergyVrnavirtual
Backofen Lab University of Freiburg · IntaRNA C++ API
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