Package beagleutil

Interface Summary

Interface	Description
IntInterval	Interface IntInterval represents an interval of consecutive integers.
IntIntervalTree<E extends IntInterval>	Interface IntIntervalTree represents an interval tree whose elements are IntInterval objects.

Class Summary

Class	Description
BasicIntInterval	Class BasicIntInterval represents an interval of consecutive integers.
CenteredIntIntervalTree<E extends IntInterval & java.lang.Comparable<E>>	Class CenteredIntIntervalTree implements a centered interval tree that stores IntInterval objects.
ChromIds	Class ChromIds is a singleton class that represents a list of chromosome identifiers.
ChromInterval	Class ChromInterval represents a chromosome interval whose end points are genome coordinates.
SampleIds	Class SampleIds is a singleton class that represents a list of sample identifiers.
Samples	Class Samples stores a list of samples.
ThreadSafeIndexer<T>	Class ThreadSafeIndexer indexes objects.

Enum Summary

Enum	Description
Phase	Class Phase represents the equivalence of two phased genotypes for a marker or for a set of markers.