org.broadinstitute.hellbender.tools.spark.sv.evidence

Class BreakpointEvidence.WeirdTemplateSize

java.lang.Object

org.broadinstitute.hellbender.tools.spark.sv.evidence.BreakpointEvidence

org.broadinstitute.hellbender.tools.spark.sv.evidence.BreakpointEvidence.ReadEvidence

org.broadinstitute.hellbender.tools.spark.sv.evidence.BreakpointEvidence.DiscordantReadPairEvidence

org.broadinstitute.hellbender.tools.spark.sv.evidence.BreakpointEvidence.WeirdTemplateSize

Enclosing class:

BreakpointEvidence

public static final class BreakpointEvidence.WeirdTemplateSize
extends BreakpointEvidence.DiscordantReadPairEvidence

Nested Class Summary

Nested Classes

Modifier and Type	Class and Description
static class	BreakpointEvidence.WeirdTemplateSize.Serializer

Nested classes/interfaces inherited from class org.broadinstitute.hellbender.tools.spark.sv.evidence.BreakpointEvidence

BreakpointEvidence.DiscordantReadPairEvidence, BreakpointEvidence.ExternalEvidence, BreakpointEvidence.InterContigPair, BreakpointEvidence.LargeIndel, BreakpointEvidence.MateUnmapped, BreakpointEvidence.OutiesPair, BreakpointEvidence.ReadEvidence, BreakpointEvidence.SameStrandPair, BreakpointEvidence.SplitRead, BreakpointEvidence.TemplateSizeAnomaly, BreakpointEvidence.WeirdTemplateSize

Field Summary

Fields inherited from class org.broadinstitute.hellbender.tools.spark.sv.evidence.BreakpointEvidence.DiscordantReadPairEvidence

MATE_ALIGNMENT_LENGTH_UNCERTAINTY, target, targetForwardStrand, targetQuality

Method Summary

Modifier and Type	Method and Description
protected void	serialize(com.esotericsoftware.kryo.Kryo kryo, com.esotericsoftware.kryo.io.Output output)
java.lang.String	toString()

Methods inherited from class org.broadinstitute.hellbender.tools.spark.sv.evidence.BreakpointEvidence.DiscordantReadPairEvidence

getDistalTargets, getMateForwardStrand, getMateTargetInterval, hasDistalTargets

Methods inherited from class org.broadinstitute.hellbender.tools.spark.sv.evidence.BreakpointEvidence.ReadEvidence

getCigarString, getFragmentOrdinal, getMappingQuality, getTemplateName, getTemplateSize, isEvidenceUpstreamOfBreakpoint, stringRep

Methods inherited from class org.broadinstitute.hellbender.tools.spark.sv.evidence.BreakpointEvidence

equalFields, getLocation, getWeight, isValidated, setValidated

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Method Detail

serialize

protected void serialize(com.esotericsoftware.kryo.Kryo kryo,
                         com.esotericsoftware.kryo.io.Output output)

Overrides:

serialize in class BreakpointEvidence.DiscordantReadPairEvidence

toString

public java.lang.String toString()

Overrides:

toString in class BreakpointEvidence.ReadEvidence