Uses of Class
com.hfg.bio.KaSet

Packages that use KaSet

Package	Description
com.hfg.bio
com.hfg.bio.proteinproperty	Classes for calculating physical properties of proteins.
com.hfg.bio.seq

Uses of KaSet in com.hfg.bio

Fields in com.hfg.bio declared as KaSet

Modifier and Type	Field and Description
static KaSet	KaSet.BJELLQVIST Bjellqvist B, Hughes GJ, Pasquali C, et al.
static KaSet	KaSet.EMBOSS Method from EMBOSS's iep tool.
static KaSet	KaSet.EXPASY Method from Expasy's Compute pI/Mw tool which implements the values from Bjellqvist but mistakenly treats C-terminal Asp and Glu sidechain values as C-terminal values.
static KaSet	KaSet.GRIMSLEY Grimsley GR, Scholtz JM, Pace CN (2009).
static KaSet	KaSet.PATRICKIOS_SIMPLE Patrickios, CS, Yamasaki, EN.
static KaSet	KaSet.SILLERO Sillero A, Ribeiro JM.
static KaSet	KaSet.SILLERO_ABRIDGED Sillero A, Ribeiro JM.
static KaSet	KaSet.STRYER_1995 Biochemistry by Lubert Stryer, 1995
static KaSet	KaSet.TAYLOR_NATIVE Intended for use with native proteins.

Methods in com.hfg.bio that return KaSet

Modifier and Type	Method and Description
KaSet	KaSet.addpKa(AminoAcid inResidue, float inpKa, Charge inProtonatedForm) Adds a pKa value for the specified amino acid to the set.
KaSet	KaSet.addpKa(Molecule inMolecule, IonizableGroup inIonizableGroup) Adds a pKa value for the specified molecule to the set.
KaSet	KaSet.clone()
KaSet	KaSet.lock()
KaSet	KaSet.setCTerminalpKa(AminoAcid inResidue, float inpKa, Charge inProtonatedForm)
KaSet	KaSet.setCTerminalpKa(CTerminalGroup inCTerminalGroup, float inpKa, Charge inProtonatedForm)
KaSet	KaSet.setCTerminalSidechainpKa(AminoAcid inResidue, float inpKa, Charge inProtonatedForm)
KaSet	KaSet.setDefaultProteinAnalysisMode(ProteinAnalysisMode inValue)
KaSet	KaSet.setName(String inValue)
KaSet	KaSet.setNTerminalpKa(AminoAcid inResidue, float inpKa, Charge inProtonatedForm)
KaSet	KaSet.setNTerminalpKa(NTerminalGroup inNTerminalGroup, float inpKa, Charge inProtonatedForm)
static KaSet	KaSet.valueOf(String inName)

Methods in com.hfg.bio that return types with arguments of type KaSet

Modifier and Type	Method and Description
static Collection<KaSet>	KaSet.values()

Methods in com.hfg.bio with parameters of type KaSet

Modifier and Type	Method and Description
int	KaSet.compareTo(KaSet inObj2)

Uses of KaSet in com.hfg.bio.proteinproperty

Methods in com.hfg.bio.proteinproperty that return KaSet

Modifier and Type	Method and Description
protected KaSet	IsoelectricPoint.getKaSet()

Methods in com.hfg.bio.proteinproperty with parameters of type KaSet

Modifier and Type	Method and Description
protected void	IsoelectricPoint.setKaSet(KaSet inValue)
static IsoelectricPoint	IsoelectricPoint.valueOf(KaSet inKaSet)

Constructors in com.hfg.bio.proteinproperty with parameters of type KaSet

Constructor and Description
IsoelectricPoint(KaSet inKaSet)
IsoelectricPoint(KaSet inKaSet, String inReference)
IsoelectricPoint(String inName, KaSet inKaSet)

Uses of KaSet in com.hfg.bio.seq

Methods in com.hfg.bio.seq with parameters of type KaSet

Modifier and Type	Method and Description
Float	Protein.getIsoelectricPoint(KaSet inKaSet) Determines the isoelectric point (the pH at which the net charge is zero) for the protein assuming reducing conditions.
Float	Protein.getIsoelectricPoint(KaSet inKaSet, ProteinAnalysisMode inMode) Determines the isoelectric point (the pH at which the net charge is zero) for the protein.
Double	Protein.getNetCharge(double pH, KaSet inKaSet) Estimates the protein's net charge at the specified pH assuming reducing conditions.
Double	Protein.getNetCharge(double pH, KaSet inKaSet, ProteinAnalysisMode inMode) Estimates the protein's net charge at the specified pH.