Uses of Class
jebl.evolution.sequences.CodonState
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Packages that use CodonState Package Description jebl.evolution.sequences -
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Uses of CodonState in jebl.evolution.sequences
Fields in jebl.evolution.sequences declared as CodonState Modifier and Type Field Description static CodonState[]
Codons. CANONICAL_STATES
static CodonState
Codons. GAP_STATE
static CodonState[]
Codons. STATES
static CodonState
Codons. UNKNOWN_STATE
Methods in jebl.evolution.sequences that return CodonState Modifier and Type Method Description static CodonState
Codons. getGapState()
static CodonState
Codons. getState(int index)
static CodonState
Codons. getState(java.lang.String code)
Gets the state object for the given code.static CodonState
Codons. getState(NucleotideState nucleotide1, NucleotideState nucleotide2, NucleotideState nucleotide3)
static CodonState
Codons. getUnknownState()
static CodonState[]
Codons. toStateArray(byte[] indexArray)
static CodonState[]
Codons. toStateArray(java.lang.String sequenceString)
Methods in jebl.evolution.sequences that return types with arguments of type CodonState Modifier and Type Method Description java.util.Set<CodonState>
GeneticCode. getCodonsForAminoAcid(AminoAcidState aminoAcidState)
java.util.Set<CodonState>
GeneticCode. getStartCodons()
java.util.Set<CodonState>
GeneticCode. getStopCodons()
Methods in jebl.evolution.sequences with parameters of type CodonState Modifier and Type Method Description AminoAcidState
GeneticCode. getTranslation(CodonState codonState)
Returns the state associated with AminoAcid represented by codonState.static boolean
Codons. isGap(CodonState state)
boolean
GeneticCode. isStartCodon(CodonState codonState)
Deprecated.boolean
GeneticCode. isStopCodon(CodonState codonState)
Deprecated.static boolean
Codons. isUnknown(CodonState state)
static NucleotideState[]
Codons. toNucleotides(CodonState state)
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