umms.core.coordinatesystem.CoordinateSpace Member List

This is the complete list of members for umms.core.coordinatesystem.CoordinateSpace, including all inherited members.

getChromosomeNames()	umms.core.coordinatesystem.CoordinateSpace
getEntireChromosome(String chrName)	umms.core.coordinatesystem.CoordinateSpace
getFragment(String chr, int start, int end)	umms.core.coordinatesystem.CoordinateSpace
getFragment(Annotation annotation)	umms.core.coordinatesystem.CoordinateSpace
getLength()	umms.core.coordinatesystem.CoordinateSpace
getLength(String chr)	umms.core.coordinatesystem.CoordinateSpace
getOverlappingRegion(String chr, int start, int end)	umms.core.coordinatesystem.CoordinateSpace
getReferenceAnnotation(String name)	umms.core.coordinatesystem.CoordinateSpace
getReferenceAnnotations()	umms.core.coordinatesystem.CoordinateSpace
getReferenceNames()	umms.core.coordinatesystem.CoordinateSpace
getSize(Annotation region)	umms.core.coordinatesystem.CoordinateSpace
getWindowIterator(int windowSize, String chr, int start, int end, int overlap)	umms.core.coordinatesystem.CoordinateSpace
getWindowIterator(String chr, int windowSize, int overlap)	umms.core.coordinatesystem.CoordinateSpace
getWindowIterator(int windowSize, int overlap)	umms.core.coordinatesystem.CoordinateSpace
getWindowIterator(Collection< Gene > baseGenes, int windowSize, int overlap)	umms.core.coordinatesystem.CoordinateSpace
getWindowIterator(Annotation window, int windowSize, int overlap)	umms.core.coordinatesystem.CoordinateSpace
hasChromosome(String chr)	umms.core.coordinatesystem.CoordinateSpace
isValidWindow(Annotation window)	umms.core.coordinatesystem.CoordinateSpace
permuteAnnotation(Annotation a)	umms.core.coordinatesystem.CoordinateSpace
permuteAnnotation(Annotation a, Annotation bounds)	umms.core.coordinatesystem.CoordinateSpace