broad.core.util.CollapseByIntersection Member List

This is the complete list of members for broad.core.util.CollapseByIntersection, including all inherited members.

collapseByIntersection(Collection<?extends Annotation > alignments, boolean intersection)	broad.core.util.CollapseByIntersection	static
CollapseGenesByIntersection(Collection< Gene > temp, boolean intersection)	broad.core.util.CollapseByIntersection	static
DecollapseByIntronLocation(Collection< Annotation > exons, Collection< Annotation > introns, String strand)	broad.core.util.CollapseByIntersection	static
DecollapseByIntronLocation(Collection< Annotation > exons, Collection< Annotation > introns)	broad.core.util.CollapseByIntersection	static
DecollapseByIntronLocationOld(Collection< Annotation > exons, Collection< Annotation > introns)	broad.core.util.CollapseByIntersection	static
DecollapseByIntronLocationWorking(Collection< Annotation > exons, Collection< Annotation > introns)	broad.core.util.CollapseByIntersection	static
filter(Collection< Annotation > introns, String strand)	broad.core.util.CollapseByIntersection	static
makeIntervalTree(Collection<?extends Annotation > alignments)	broad.core.util.CollapseByIntersection	static
makeIntervalTreeForGeneExons(Collection< Gene > genes)	broad.core.util.CollapseByIntersection	static
makeIntervalTreeForGenes(Collection< Gene > alignments)	broad.core.util.CollapseByIntersection	static
updateBoundariesWithoutCrossingIntrons(Collection< Gene > genes)	broad.core.util.CollapseByIntersection	static