Uses of Class
jebl.evolution.sequences.AminoAcidState
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Packages that use AminoAcidState Package Description jebl.evolution.sequences -
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Uses of AminoAcidState in jebl.evolution.sequences
Methods in jebl.evolution.sequences that return AminoAcidState Modifier and Type Method Description static AminoAcidStateAminoAcids. getGapState()static AminoAcidStateAminoAcids. getState(char code)static AminoAcidStateAminoAcids. getState(int index)static AminoAcidStateAminoAcids. getState(java.lang.String code)AminoAcidStateGeneticCode. getTranslation(java.lang.String nucleotides)Returns the state associated with AminoAcid represented by the three nucleotides.AminoAcidStateGeneticCode. getTranslation(CodonState codonState)Returns the state associated with AminoAcid represented by codonState.AminoAcidStateGeneticCode. getTranslation(NucleotideState nucleotide1, NucleotideState nucleotide2, NucleotideState nucleotide3)Returns the state associated with AminoAcid represented by the three nucleotides.static AminoAcidStateAminoAcids. getUnknownState()static AminoAcidState[]AminoAcids. toStateArray(byte[] indexArray)static AminoAcidState[]AminoAcids. toStateArray(java.lang.String sequenceString)static AminoAcidState[]Utils. translate(State[] states, GeneticCode geneticCode)Translates each of a given sequence ofNucleotideStates orCodonStates to theAminoAcidStatecorresponding to it under the given genetic code.static AminoAcidState[]Utils. translate(State[] states, GeneticCode geneticCode, int readingFrame)Translates each of a given sequence ofNucleotideStates orCodonStates to theAminoAcidStatecorresponding to it under the given genetic code.Methods in jebl.evolution.sequences that return types with arguments of type AminoAcidState Modifier and Type Method Description static java.util.List<AminoAcidState>AminoAcids. getStates()Methods in jebl.evolution.sequences with parameters of type AminoAcidState Modifier and Type Method Description java.util.Set<CodonState>GeneticCode. getCodonsForAminoAcid(AminoAcidState aminoAcidState)static java.lang.StringAminoAcids. getTripletCode(AminoAcidState state)static booleanAminoAcids. isGap(AminoAcidState state)static booleanAminoAcids. isUnknown(AminoAcidState state)
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