broad.pda.seq.segmentation.GenomeWithGaps Class Reference

Collaboration diagram for broad.pda.seq.segmentation.GenomeWithGaps:

Public Member Functions
	GenomeWithGaps (Collection< Alignments > gaps, String chr, int genomeSize, int windowSize, int startPosition)
Collection< Annotation >	getGaps ()
IntervalTree< Annotation >	getCDNAs ()
boolean	hasNext ()
Gene	getNextWindow ()
Gene	getNextWindow (int position)

Constructor & Destructor Documentation

broad.pda.seq.segmentation.GenomeWithGaps.GenomeWithGaps	(	Collection< Alignments >	gaps,
		String	chr,
		int	genomeSize,
		int	windowSize,
		int	startPosition
	)

Member Function Documentation

IntervalTree<Annotation> broad.pda.seq.segmentation.GenomeWithGaps.getCDNAs

(

)

Collection<Annotation> broad.pda.seq.segmentation.GenomeWithGaps.getGaps

(

)

Gene broad.pda.seq.segmentation.GenomeWithGaps.getNextWindow

(

)

Gene broad.pda.seq.segmentation.GenomeWithGaps.getNextWindow

(

int

position

)

boolean broad.pda.seq.segmentation.GenomeWithGaps.hasNext

(

)

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The documentation for this class was generated from the following file:

• java/broad/pda/seq/segmentation/GenomeWithGaps.java