Uses of Class
jebl.evolution.sequences.AminoAcidState

Packages that use AminoAcidState

jebl.evolution.sequences

Uses of AminoAcidState in jebl.evolution.sequences

Fields in jebl.evolution.sequences declared as AminoAcidState

static AminoAcidState	AminoAcids.A_STATE
static AminoAcidState	AminoAcids.B_STATE
static AminoAcidState	AminoAcids.C_STATE
static AminoAcidState[]	AminoAcids.CANONICAL_STATES
static AminoAcidState	AminoAcids.D_STATE
static AminoAcidState	AminoAcids.E_STATE
static AminoAcidState	AminoAcids.F_STATE
static AminoAcidState	AminoAcids.G_STATE
static AminoAcidState	AminoAcids.GAP_STATE
static AminoAcidState	AminoAcids.H_STATE
static AminoAcidState	AminoAcids.I_STATE
static AminoAcidState	AminoAcids.K_STATE
static AminoAcidState	AminoAcids.L_STATE
static AminoAcidState	AminoAcids.M_STATE
static AminoAcidState	AminoAcids.N_STATE
static AminoAcidState	AminoAcids.P_STATE
static AminoAcidState	AminoAcids.Q_STATE
static AminoAcidState	AminoAcids.R_STATE
static AminoAcidState	AminoAcids.S_STATE
static AminoAcidState[]	AminoAcids.STATES
static AminoAcidState	AminoAcids.STOP_STATE
static AminoAcidState	AminoAcids.T_STATE
static AminoAcidState	AminoAcids.UNKNOWN_STATE
static AminoAcidState	AminoAcids.V_STATE
static AminoAcidState	AminoAcids.W_STATE
static AminoAcidState	AminoAcids.X_STATE
static AminoAcidState	AminoAcids.Y_STATE
static AminoAcidState	AminoAcids.Z_STATE

Methods in jebl.evolution.sequences that return AminoAcidState

static AminoAcidState	AminoAcids.getGapState()
static AminoAcidState	AminoAcids.getState(char code)
static AminoAcidState	AminoAcids.getState(int index)
static AminoAcidState	AminoAcids.getState(String code)
AminoAcidState	GeneticCode.getTranslation(CodonState codonState) Returns the state associated with AminoAcid represented by codonState.
static AminoAcidState	AminoAcids.getUnknownState()
static AminoAcidState[]	AminoAcids.toStateArray(byte[] indexArray)
static AminoAcidState[]	AminoAcids.toStateArray(String sequenceString)
static AminoAcidState[]	Utils.translate(State[] states, GeneticCode geneticCode)

Methods in jebl.evolution.sequences that return types with arguments of type AminoAcidState

static List<AminoAcidState>

AminoAcids.getStates()

Methods in jebl.evolution.sequences with parameters of type AminoAcidState

Set<CodonState>	GeneticCode.getCodonsForAminoAcid(AminoAcidState aminoAcidState)
static String	AminoAcids.getTripletCode(AminoAcidState state)
static boolean	AminoAcids.isGap(AminoAcidState state)
static boolean	AminoAcids.isUnknown(AminoAcidState state)