Package ngs
Interface Pileup
- All Superinterfaces:
PileupEvent
,PileupEventIterator
- All Known Subinterfaces:
PileupIterator
Represents a slice through a stack of Alignments at a given position on the Reference
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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
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Method Summary
Modifier and TypeMethodDescriptionint
getPileupDepthchar
long
getReferencePositiongetReferenceSpecMethods inherited from interface ngs.PileupEvent
getAlignmentBase, getAlignmentId, getAlignmentPosition, getAlignmentQuality, getEventIndelType, getEventRepeatCount, getEventType, getFirstAlignmentPosition, getInsertionBases, getInsertionQualities, getLastAlignmentPosition, getMappingQuality
Methods inherited from interface ngs.PileupEventIterator
nextPileupEvent, resetPileupEvent
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Method Details
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getReferenceSpec
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getReferencePosition
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getReferenceBase
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getPileupDepth
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