org.forester.sequence
Interface Sequence

All Known Implementing Classes:

BasicSequence

public interface Sequence

Nested Class Summary

static class

Sequence.TYPE

Field Summary

static java.lang.String	AA_REGEXP
static java.lang.String	DNA_REGEXP
static char	GAP
static java.lang.String	GAP_STR
static java.lang.String	RNA_REGEXP
static char	TERMINATE
static char	UNSPECIFIED_AA
static char	UNSPECIFIED_NUC

Method Summary

java.lang.Object	getIdentifier()
int	getLength()
char[]	getMolecularSequence()
int	getNumberOfGapResidues()
char	getResidueAt(int position)
Sequence.TYPE	getType()

Field Detail

UNSPECIFIED_AA

static final char UNSPECIFIED_AA

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Constant Field Values

UNSPECIFIED_NUC

static final char UNSPECIFIED_NUC

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Constant Field Values

GAP

static final char GAP

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Constant Field Values

GAP_STR

static final java.lang.String GAP_STR

TERMINATE

static final char TERMINATE

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Constant Field Values

AA_REGEXP

static final java.lang.String AA_REGEXP

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Constant Field Values

DNA_REGEXP

static final java.lang.String DNA_REGEXP

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Constant Field Values

RNA_REGEXP

static final java.lang.String RNA_REGEXP

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Constant Field Values

Method Detail

getIdentifier

java.lang.Object getIdentifier()

getLength

int getLength()

getNumberOfGapResidues

int getNumberOfGapResidues()

getMolecularSequence

char[] getMolecularSequence()

getResidueAt

char getResidueAt(int position)

getType

Sequence.TYPE getType()