Package ngs
Interface PileupIterator
- All Superinterfaces:
Pileup,PileupEvent,PileupEventIterator
Iterates across a list of Pileups
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Field Summary
Fields inherited from interface ngs.PileupEvent
alignment_minus_strand, alignment_start, alignment_stop, deletion, insertion, insertion_before_deletion, insertion_before_match, insertion_before_mismatch, intron_minus, intron_plus, intron_unknown, match, mismatch, normal_indel, read_gap, read_overlap, replacement -
Method Summary
Modifier and TypeMethodDescriptionbooleanAdvance to first Pileup on initial invocation advance to next Pileup subsequentlyMethods inherited from interface ngs.Pileup
getPileupDepth, getReferenceBase, getReferencePosition, getReferenceSpecMethods inherited from interface ngs.PileupEvent
getAlignmentBase, getAlignmentId, getAlignmentPosition, getAlignmentQuality, getEventIndelType, getEventRepeatCount, getEventType, getFirstAlignmentPosition, getInsertionBases, getInsertionQualities, getLastAlignmentPosition, getMappingQualityMethods inherited from interface ngs.PileupEventIterator
nextPileupEvent, resetPileupEvent
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Method Details
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nextPileup
Advance to first Pileup on initial invocation advance to next Pileup subsequently- Returns:
- false if no more Pileups are available.
- Throws:
ErrorMsg- if more Pileups should be available, but could not be accessed.
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