- Tan06MagnesiumCorrection - Class in melting.ionCorrection.magnesiumCorrections
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This class represents the magnesium correction model tanmg06.
- Tan06MagnesiumCorrection() - Constructor for class melting.ionCorrection.magnesiumCorrections.Tan06MagnesiumCorrection
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- Tan06SodiumCorrection - Class in melting.ionCorrection.sodiumCorrections
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This class represents the sodium correction model tanna06.
- Tan06SodiumCorrection() - Constructor for class melting.ionCorrection.sodiumCorrections.Tan06SodiumCorrection
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- Tan07MagnesiumCorrection - Class in melting.ionCorrection.magnesiumCorrections
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This class represents the magnesium correction model tanmg07.
- Tan07MagnesiumCorrection() - Constructor for class melting.ionCorrection.magnesiumCorrections.Tan07MagnesiumCorrection
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- Tan07MixedNaMgCorrection - Class in melting.ionCorrection.mixedNaMgCorrections
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This class represents the mixed (Na,Mg) correction model tanmix07.
- Tan07MixedNaMgCorrection() - Constructor for class melting.ionCorrection.mixedNaMgCorrections.Tan07MixedNaMgCorrection
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- Tan07SodiumCorrection - Class in melting.ionCorrection.sodiumCorrections
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This class represents the sodium correction model tanna07.
- Tan07SodiumCorrection() - Constructor for class melting.ionCorrection.sodiumCorrections.Tan07SodiumCorrection
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- Tanaka04 - Class in melting.patternModels.cricksPair
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This class represents the nearest neighbor model tan04.
- Tanaka04() - Constructor for class melting.patternModels.cricksPair.Tanaka04
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- Tanaka04SingleBulgeLoop - Class in melting.patternModels.singleBulge
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This class represents the single bulge loop model tan04.
- Tanaka04SingleBulgeLoop() - Constructor for class melting.patternModels.singleBulge.Tanaka04SingleBulgeLoop
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- tandemLockedAcidMethod - Static variable in class melting.configuration.OptionManagement
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Option name for the choice of tandem locked nucleic acid computation method.
- tandemMismatchMethod - Static variable in class melting.configuration.OptionManagement
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Option name for the choice of tandem mismatches computation method.
- temperatureCorrection - Static variable in class melting.ionCorrection.magnesiumCorrections.Owczarzy08MagnesiumCorrection
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temperature formula
- ThermodynamicParameterError - Exception in melting.exceptions
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This class represents a problem with the thermodynamic parameters.
- ThermodynamicParameterError() - Constructor for exception melting.exceptions.ThermodynamicParameterError
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- ThermodynamicParameterError(String, Throwable) - Constructor for exception melting.exceptions.ThermodynamicParameterError
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- ThermodynamicParameterError(Throwable) - Constructor for exception melting.exceptions.ThermodynamicParameterError
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- ThermodynamicParameterError(String) - Constructor for exception melting.exceptions.ThermodynamicParameterError
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- Thermodynamics - Class in melting
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This class represents the thermodynamic energy.
- Thermodynamics(double, double) - Constructor for class melting.Thermodynamics
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- ThermoHandler - Class in melting.handlers
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This class represents a Handler to parse the subnodes to the data nodes in the xml files.
- ThermoHandler(String) - Constructor for class melting.handlers.ThermoHandler
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creates a ThermoHandler object and initialises the instance variables of this object.
- ThermoResult - Class in melting
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This class extends Thermodynamics.
- ThermoResult(double, double, double) - Constructor for class melting.ThermoResult
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creates a ThermoResult object initialised with the double enthalpy, double entropy and double Tm.
- threshold - Static variable in class melting.configuration.OptionManagement
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Option name for the threshold value.
- Turner06 - Class in melting.patternModels.cricksPair
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This class represents the nearest neighbor model tur06.
- Turner06() - Constructor for class melting.patternModels.cricksPair.Turner06
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- Turner06InternalLoop - Class in melting.patternModels.InternalLoops
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This class represents the internal loop model tur06.
- Turner06InternalLoop() - Constructor for class melting.patternModels.InternalLoops.Turner06InternalLoop
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- Turner06mm - Class in melting.patternModels.singleMismatch
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This class represents the single mismatch model tur06.
- Turner06mm() - Constructor for class melting.patternModels.singleMismatch.Turner06mm
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- Turner99_06LongBulgeLoop - Class in melting.patternModels.longBulge
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This class represents the long bulge loop model tur06.
- Turner99_06LongBulgeLoop() - Constructor for class melting.patternModels.longBulge.Turner99_06LongBulgeLoop
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- Turner99_06SingleBulgeLoop - Class in melting.patternModels.singleBulge
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This class represents the single bulge loop model tur06.
- Turner99_06SingleBulgeLoop() - Constructor for class melting.patternModels.singleBulge.Turner99_06SingleBulgeLoop
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- Turner99_06tanmm - Class in melting.patternModels.tandemMismatches
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This class represents the tandem mismatches model tur06.
- Turner99_06tanmm() - Constructor for class melting.patternModels.tandemMismatches.Turner99_06tanmm
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- Turner99Wobble - Class in melting.patternModels.wobble
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This class represents the GU base pair model tur99.
- Turner99Wobble() - Constructor for class melting.patternModels.wobble.Turner99Wobble
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