Uses of Interface
org.biojavax.bio.seq.Position

Packages that use Position

Package	Description
org.biojavax.bio.seq	Rich implementations of Sequences, Locations and Features.

Uses of Position in org.biojavax.bio.seq

Classes in org.biojavax.bio.seq that implement Position

Modifier and Type	Class and Description
class	SimplePosition A simple implementation of the Position interface.

Fields in org.biojavax.bio.seq declared as Position

Modifier and Type	Field and Description
static Position	Position.EMPTY_POSITION The empty position lies nowhere.

Methods in org.biojavax.bio.seq that return Position

Modifier and Type	Method and Description
Position	EmptyRichLocation.getMaxPosition() Retrieves the end position of this location.
Position	RichLocation.getMaxPosition() Retrieves the end position of this location.
Position	MultiSourceCompoundRichLocation.getMaxPosition() Retrieves the end position of this location.
Position	SimpleRichLocation.getMaxPosition() Retrieves the end position of this location.
Position	EmptyRichLocation.getMinPosition() Retrieves the start position of this location.
Position	RichLocation.getMinPosition() Retrieves the start position of this location.
Position	MultiSourceCompoundRichLocation.getMinPosition() Retrieves the start position of this location.
Position	SimpleRichLocation.getMinPosition() Retrieves the start position of this location.
protected Position	SimpleRichLocation.posmax(Position a, Position b)
protected Position	SimpleRichLocation.posmin(Position a, Position b)
Position	Position.translate(int distance) Takes this position and returns a copy translated by 'distance' bases.
Position	SimplePosition.translate(int distance) Takes this position and returns a copy translated by 'distance' bases.

Methods in org.biojavax.bio.seq with parameters of type Position

Modifier and Type	Method and Description
int	PositionResolver.getMax(Position end) Resolves the maximum possible base for this position.
int	PositionResolver.MaximalResolver.getMax(Position e) Resolves the maximum possible base for this position.
int	PositionResolver.MinimalResolver.getMax(Position e) Resolves the maximum possible base for this position.
int	PositionResolver.AverageResolver.getMax(Position e) Resolves the maximum possible base for this position.
int	PositionResolver.getMin(Position start) Resolves the minimum possible base for this position.
int	PositionResolver.MaximalResolver.getMin(Position s) Resolves the minimum possible base for this position.
int	PositionResolver.MinimalResolver.getMin(Position s) Resolves the minimum possible base for this position.
int	PositionResolver.AverageResolver.getMin(Position s) Resolves the minimum possible base for this position.
protected Position	SimpleRichLocation.posmax(Position a, Position b)
protected Position	SimpleRichLocation.posmin(Position a, Position b)
protected void	SimpleRichLocation.setMaxPosition(Position max)
protected void	SimpleRichLocation.setMinPosition(Position min)

Constructors in org.biojavax.bio.seq with parameters of type Position

Constructor and Description
SimpleRichLocation(Position pos, int rank) Creates a new instance of SimpleRichSequenceLocation that points to a single position on the positive strand.
SimpleRichLocation(Position pos, int rank, RichLocation.Strand strand) Creates a new instance of SimpleRichSequenceLocation that points to a single position.
SimpleRichLocation(Position pos, int rank, RichLocation.Strand strand, CrossRef crossRef) Creates a new instance of SimpleRichSequenceLocation that points to a single position on another sequence.
SimpleRichLocation(Position min, Position max, int rank) Creates a new instance of SimpleRichSequenceLocation that points to a range position on the positive strand.
SimpleRichLocation(Position min, Position max, int rank, RichLocation.Strand strand) Creates a new instance of SimpleRichSequenceLocation that points to a range position.
SimpleRichLocation(Position min, Position max, int rank, RichLocation.Strand strand, CrossRef crossRef) Creates a new instance of SimpleRichSequenceLocation that points to a range position on another sequence.