Uses of Class
jebl.evolution.sequences.NucleotideState
Packages that use NucleotideState
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Uses of NucleotideState in jebl.evolution.sequences
Fields in jebl.evolution.sequences declared as NucleotideStateModifier and TypeFieldDescriptionstatic final NucleotideState
Nucleotides.A_STATE
static final NucleotideState
Nucleotides.B_STATE
static final NucleotideState
Nucleotides.C_STATE
static final NucleotideState[]
Nucleotides.CANONICAL_STATES
Deprecated.static final NucleotideState[]
Nucleotides.COMPLEMENTARY_STATES
Deprecated.static final NucleotideState
Nucleotides.D_STATE
static final NucleotideState
Nucleotides.G_STATE
static final NucleotideState
Nucleotides.GAP_STATE
static final NucleotideState
Nucleotides.H_STATE
static final NucleotideState
Nucleotides.K_STATE
static final NucleotideState
Nucleotides.M_STATE
static final NucleotideState
Nucleotides.N_STATE
static final NucleotideState
Nucleotides.R_STATE
static final NucleotideState
Nucleotides.S_STATE
static final NucleotideState[]
Nucleotides.STATES
Deprecated.static final NucleotideState
Nucleotides.T_STATE
static final NucleotideState
Nucleotides.UNKNOWN_STATE
static final NucleotideState
Nucleotides.V_STATE
static final NucleotideState
Nucleotides.W_STATE
static final NucleotideState
Nucleotides.Y_STATE
Methods in jebl.evolution.sequences that return NucleotideStateModifier and TypeMethodDescriptionstatic NucleotideState[]
Utils.complement
(NucleotideState[] sequence) static NucleotideState
Nucleotides.getComplementaryState
(NucleotideState state) static NucleotideState
Nucleotides.getGapState()
static NucleotideState
Nucleotides.getState
(char code) static NucleotideState
Nucleotides.getState
(int index) static NucleotideState
static NucleotideState
Nucleotides.getUnknownState()
static NucleotideState[]
Utils.reverseComplement
(NucleotideState[] sequence) static NucleotideState[]
Codons.toNucleotides
(CodonState state) static NucleotideState[]
Codons.toNucleotides
(State[] states) static NucleotideState[]
Nucleotides.toStateArray
(byte[] indexArray) static NucleotideState[]
Nucleotides.toStateArray
(String sequenceString) Methods in jebl.evolution.sequences that return types with arguments of type NucleotideStateMethods in jebl.evolution.sequences with parameters of type NucleotideStateModifier and TypeMethodDescriptionstatic NucleotideState[]
Utils.complement
(NucleotideState[] sequence) static NucleotideState
Nucleotides.getComplementaryState
(NucleotideState state) static CodonState
Codons.getState
(NucleotideState nucleotide1, NucleotideState nucleotide2, NucleotideState nucleotide3) 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) static boolean
Nucleotides.isUnknown
(NucleotideState state) static NucleotideState[]
Utils.reverseComplement
(NucleotideState[] sequence)