umms.core.annotation.AnnotationCollection< T extends Annotation > Member List

This is the complete list of members for umms.core.annotation.AnnotationCollection< T extends Annotation >, including all inherited members.

addFilter(Predicate< T > filter)	umms.core.annotation.AnnotationCollection< T extends Annotation >
addFilters(Collection< Predicate< T >> filters)	umms.core.annotation.AnnotationCollection< T extends Annotation >
collapse(Annotation region, boolean fullyContained)	umms.core.annotation.AnnotationCollection< T extends Annotation >
getAverageCoverage(Annotation region)	umms.core.annotation.AnnotationCollection< T extends Annotation >
getBasesCovered(Annotation region, boolean fullyContained)	umms.core.annotation.AnnotationCollection< T extends Annotation >
getBasesCovered(Annotation region)	umms.core.annotation.AnnotationCollection< T extends Annotation >
getCoordinateSpace()	umms.core.annotation.AnnotationCollection< T extends Annotation >
getCount(Annotation region, boolean fullyContained)	umms.core.annotation.AnnotationCollection< T extends Annotation >
getCount(Annotation region)	umms.core.annotation.AnnotationCollection< T extends Annotation >
getCount(AnnotationList<?extends Annotation > set)	umms.core.annotation.AnnotationCollection< T extends Annotation >
getCount(AnnotationList<?extends Annotation > set, boolean fullyContained)	umms.core.annotation.AnnotationCollection< T extends Annotation >
getCountExcludingRegion(Annotation region, Annotation excluded)	umms.core.annotation.AnnotationCollection< T extends Annotation >
getCountStrandedExcludingRegion(Annotation region, Annotation excluded)	umms.core.annotation.AnnotationCollection< T extends Annotation >
getGlobalCount()	umms.core.annotation.AnnotationCollection< T extends Annotation >
getOverlappingAnnotations(Annotation region)	umms.core.annotation.AnnotationCollection< T extends Annotation >
getOverlappingAnnotations(Annotation region, boolean fullyContained)	umms.core.annotation.AnnotationCollection< T extends Annotation >
getPermutedAnnotations(Annotation region)	umms.core.annotation.AnnotationCollection< T extends Annotation >
getRefSequenceLambda(String refname)	umms.core.annotation.AnnotationCollection< T extends Annotation >
getTotalCoverage(Annotation region)	umms.core.annotation.AnnotationCollection< T extends Annotation >
iterator()	umms.core.annotation.AnnotationCollection< T extends Annotation >
scan(int windowSize, int overlap)	umms.core.annotation.AnnotationCollection< T extends Annotation >
scan(int windowSize, int overlap, WindowProcessor< W > processor)	umms.core.annotation.AnnotationCollection< T extends Annotation >
scan(Annotation region, int windowSize, int overlap, WindowProcessor< W > processor)	umms.core.annotation.AnnotationCollection< T extends Annotation >
scan(Annotation region, int windowSize, int overlap)	umms.core.annotation.AnnotationCollection< T extends Annotation >
size()	umms.core.annotation.AnnotationCollection< T extends Annotation >