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Packages that use NucleotideState | |
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jebl.evolution.sequences |
Uses of NucleotideState in jebl.evolution.sequences |
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Fields in jebl.evolution.sequences declared as NucleotideState | |
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static NucleotideState |
Nucleotides.A_STATE
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static NucleotideState |
Nucleotides.B_STATE
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static NucleotideState |
Nucleotides.C_STATE
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static NucleotideState[] |
Nucleotides.CANONICAL_STATES
Deprecated. |
static NucleotideState[] |
Nucleotides.COMPLEMENTARY_STATES
Deprecated. |
static NucleotideState |
Nucleotides.D_STATE
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static NucleotideState |
Nucleotides.G_STATE
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static NucleotideState |
Nucleotides.GAP_STATE
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static NucleotideState |
Nucleotides.H_STATE
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static NucleotideState |
Nucleotides.K_STATE
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static NucleotideState |
Nucleotides.M_STATE
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static NucleotideState |
Nucleotides.N_STATE
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static NucleotideState |
Nucleotides.R_STATE
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static NucleotideState |
Nucleotides.S_STATE
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static NucleotideState[] |
Nucleotides.STATES
Deprecated. |
static NucleotideState |
Nucleotides.T_STATE
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static NucleotideState |
Nucleotides.UNKNOWN_STATE
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static NucleotideState |
Nucleotides.V_STATE
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static NucleotideState |
Nucleotides.W_STATE
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static NucleotideState |
Nucleotides.Y_STATE
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Methods in jebl.evolution.sequences that return NucleotideState | |
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static NucleotideState[] |
Utils.complement(NucleotideState[] sequence)
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static NucleotideState |
Nucleotides.getComplementaryState(NucleotideState state)
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static NucleotideState |
Nucleotides.getGapState()
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static NucleotideState |
Nucleotides.getState(char code)
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static NucleotideState |
Nucleotides.getState(int index)
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static NucleotideState |
Nucleotides.getState(java.lang.String code)
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static NucleotideState |
Nucleotides.getUnknownState()
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static NucleotideState[] |
Utils.reverseComplement(NucleotideState[] sequence)
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static NucleotideState[] |
Codons.toNucleotides(CodonState state)
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static NucleotideState[] |
Nucleotides.toStateArray(byte[] indexArray)
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static NucleotideState[] |
Nucleotides.toStateArray(java.lang.String sequenceString)
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Methods in jebl.evolution.sequences that return types with arguments of type NucleotideState | |
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static java.util.List<NucleotideState> |
Nucleotides.getCanonicalStates()
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Methods in jebl.evolution.sequences with parameters of type NucleotideState | |
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static NucleotideState[] |
Utils.complement(NucleotideState[] sequence)
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static NucleotideState |
Nucleotides.getComplementaryState(NucleotideState state)
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static CodonState |
Codons.getState(NucleotideState nucleotide1,
NucleotideState nucleotide2,
NucleotideState nucleotide3)
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AminoAcidState |
GeneticCode.getTranslation(NucleotideState nucleotide1,
NucleotideState nucleotide2,
NucleotideState nucleotide3)
Returns the state associated with AminoAcid represented by the three nucleotides. |
static boolean |
Nucleotides.isGap(NucleotideState state)
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static boolean |
Nucleotides.isUnknown(NucleotideState state)
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static NucleotideState[] |
Utils.reverseComplement(NucleotideState[] sequence)
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