org.biojava.nbio.core.sequence.location.template

Interface Point

All Superinterfaces:

Comparable<Point>

All Known Implementing Classes:

FuzzyPoint, SimplePoint

public interface Point
extends Comparable<Point>

Holds a single point part of a location

Nested Class Summary

Nested Classes

Modifier and Type	Interface and Description
static interface	Point.Resolver<T extends Point> Used to resolve a position about a point

Method Summary

Modifier and Type	Method and Description
Point	clonePoint() Returns a copy of this point
Integer	getPosition() Returns the position held by this object
boolean	isHigher(Point point) Returns true if the point is higher in value to the current point
boolean	isLower(Point point) Returns true if the current point is at a lower position than the point given.
boolean	isUncertain() Returns a true if the exact point is unknown.
boolean	isUnknown() Returns true if the current position is unknown but is beyond the position encoded for.
Point	offset(int distance) Returns a new point offset by the given distance
Point	reverse(int length) Returns the equivalent position on the reverse strand

Methods inherited from interface java.lang.Comparable

compareTo

Method Detail

getPosition

Integer getPosition()

Returns the position held by this object

isUnknown

boolean isUnknown()

Returns true if the current position is unknown but is beyond the position encoded for. This is the same as the position

>80

as encoded by UniProt.

isUncertain

boolean isUncertain()

Returns a true if the exact point is unknown. Equivalent position from UniProt is

?80

.

reverse

Point reverse(int length)

Returns the equivalent position on the reverse strand

Parameters:

length - Length of the sequence to translate to

offset

Point offset(int distance)

Returns a new point offset by the given distance

isLower

boolean isLower(Point point)

Returns true if the current point is at a lower position than the point given.

isHigher

boolean isHigher(Point point)

Returns true if the point is higher in value to the current point

clonePoint

Point clonePoint()

Returns a copy of this point