Package dev.pcvolkmer.mv64e.model

Class Cnv

java.lang.Object

dev.pcvolkmer.mv64e.model.Cnv

public class Cnv
extends java.lang.Object

Nested Class Summary

Nested Classes

Modifier and Type	Class	Description
static class	Cnv.Builder

Field Summary

Fields

Modifier and Type	Field	Description
static java.lang.String	JSON_PROPERTY_CHROMOSOME
static java.lang.String	JSON_PROPERTY_CN_A
static java.lang.String	JSON_PROPERTY_CN_B
static java.lang.String	JSON_PROPERTY_COPY_NUMBER_NEUTRAL_LO_H
static java.lang.String	JSON_PROPERTY_END_RANGE
static java.lang.String	JSON_PROPERTY_EXTERNAL_IDS
static java.lang.String	JSON_PROPERTY_ID
static java.lang.String	JSON_PROPERTY_LOCALIZATION
static java.lang.String	JSON_PROPERTY_PATIENT
static java.lang.String	JSON_PROPERTY_RELATIVE_COPY_NUMBER
static java.lang.String	JSON_PROPERTY_REPORTED_AFFECTED_GENES
static java.lang.String	JSON_PROPERTY_REPORTED_FOCALITY
static java.lang.String	JSON_PROPERTY_START_RANGE
static java.lang.String	JSON_PROPERTY_TOTAL_COPY_NUMBER
static java.lang.String	JSON_PROPERTY_TYPE

Constructor Summary

Constructors

Constructor	Description
Cnv()

Method Summary

Modifier and Type	Method	Description
Cnv	addCopyNumberNeutralLoHItem(Coding copyNumberNeutralLoHItem)
Cnv	addExternalIdsItem(VariantExternalId externalIdsItem)
Cnv	addLocalizationItem(BaseVariantLocalizationCoding localizationItem)
Cnv	addReportedAffectedGenesItem(Coding reportedAffectedGenesItem)
static Cnv.Builder	builder()
Cnv	chromosome(Chromosome chromosome)
Cnv	cnA(@Nullable java.math.BigDecimal cnA)
Cnv	cnB(@Nullable java.math.BigDecimal cnB)
Cnv	copyNumberNeutralLoH(@Nullable java.util.Set<Coding> copyNumberNeutralLoH)
Cnv	endRange(@Nullable CnvEndRange endRange)
boolean	equals(java.lang.Object o)
Cnv	externalIds(@Nullable java.util.List<VariantExternalId> externalIds)
Chromosome	getChromosome()
@Nullable java.math.BigDecimal	getCnA()
@Nullable java.math.BigDecimal	getCnB()
@Nullable java.util.Set<Coding>	getCopyNumberNeutralLoH()
@Nullable CnvEndRange	getEndRange()
@Nullable java.util.List<VariantExternalId>	getExternalIds()
java.lang.String	getId()
@Nullable java.util.Set<BaseVariantLocalizationCoding>	getLocalization()
Reference	getPatient()
@Nullable java.math.BigDecimal	getRelativeCopyNumber()
@Nullable java.util.Set<Coding>	getReportedAffectedGenes()
@Nullable java.lang.String	getReportedFocality()
@Nullable CnvStartRange	getStartRange()
@Nullable java.lang.Integer	getTotalCopyNumber()
CnvTypeCoding	getType()
int	hashCode()
Cnv	id(java.lang.String id)
Cnv	localization(@Nullable java.util.Set<BaseVariantLocalizationCoding> localization)
Cnv	patient(Reference patient)
Cnv	relativeCopyNumber(@Nullable java.math.BigDecimal relativeCopyNumber)
Cnv	reportedAffectedGenes(@Nullable java.util.Set<Coding> reportedAffectedGenes)
Cnv	reportedFocality(@Nullable java.lang.String reportedFocality)
void	setChromosome(Chromosome chromosome)
void	setCnA(@Nullable java.math.BigDecimal cnA)
void	setCnB(@Nullable java.math.BigDecimal cnB)
void	setCopyNumberNeutralLoH(@Nullable java.util.Set<Coding> copyNumberNeutralLoH)
void	setEndRange(@Nullable CnvEndRange endRange)
void	setExternalIds(@Nullable java.util.List<VariantExternalId> externalIds)
void	setId(java.lang.String id)
void	setLocalization(@Nullable java.util.Set<BaseVariantLocalizationCoding> localization)
void	setPatient(Reference patient)
void	setRelativeCopyNumber(@Nullable java.math.BigDecimal relativeCopyNumber)
void	setReportedAffectedGenes(@Nullable java.util.Set<Coding> reportedAffectedGenes)
void	setReportedFocality(@Nullable java.lang.String reportedFocality)
void	setStartRange(@Nullable CnvStartRange startRange)
void	setTotalCopyNumber(@Nullable java.lang.Integer totalCopyNumber)
void	setType(CnvTypeCoding type)
Cnv	startRange(@Nullable CnvStartRange startRange)
Cnv.Builder	toBuilder()
java.lang.String	toString()
Cnv	totalCopyNumber(@Nullable java.lang.Integer totalCopyNumber)
Cnv	type(CnvTypeCoding type)

Methods inherited from class java.lang.Object

clone, finalize, getClass, notify, notifyAll, wait, wait, wait

Field Detail

JSON_PROPERTY_LOCALIZATION

public static final java.lang.String JSON_PROPERTY_LOCALIZATION

See Also:

Constant Field Values

JSON_PROPERTY_REPORTED_FOCALITY

public static final java.lang.String JSON_PROPERTY_REPORTED_FOCALITY

See Also:

Constant Field Values

JSON_PROPERTY_REPORTED_AFFECTED_GENES

public static final java.lang.String JSON_PROPERTY_REPORTED_AFFECTED_GENES

See Also:

Constant Field Values

JSON_PROPERTY_TOTAL_COPY_NUMBER

public static final java.lang.String JSON_PROPERTY_TOTAL_COPY_NUMBER

See Also:

Constant Field Values

JSON_PROPERTY_CN_A

public static final java.lang.String JSON_PROPERTY_CN_A

See Also:

Constant Field Values

JSON_PROPERTY_EXTERNAL_IDS

public static final java.lang.String JSON_PROPERTY_EXTERNAL_IDS

See Also:

Constant Field Values

JSON_PROPERTY_START_RANGE

public static final java.lang.String JSON_PROPERTY_START_RANGE

See Also:

Constant Field Values

JSON_PROPERTY_TYPE

public static final java.lang.String JSON_PROPERTY_TYPE

See Also:

Constant Field Values

JSON_PROPERTY_PATIENT

public static final java.lang.String JSON_PROPERTY_PATIENT

See Also:

Constant Field Values

JSON_PROPERTY_END_RANGE

public static final java.lang.String JSON_PROPERTY_END_RANGE

See Also:

Constant Field Values

JSON_PROPERTY_CHROMOSOME

public static final java.lang.String JSON_PROPERTY_CHROMOSOME

See Also:

Constant Field Values

JSON_PROPERTY_ID

public static final java.lang.String JSON_PROPERTY_ID

See Also:

Constant Field Values

JSON_PROPERTY_CN_B

public static final java.lang.String JSON_PROPERTY_CN_B

See Also:

Constant Field Values

JSON_PROPERTY_RELATIVE_COPY_NUMBER

public static final java.lang.String JSON_PROPERTY_RELATIVE_COPY_NUMBER

See Also:

Constant Field Values

JSON_PROPERTY_COPY_NUMBER_NEUTRAL_LO_H

public static final java.lang.String JSON_PROPERTY_COPY_NUMBER_NEUTRAL_LO_H

See Also:

Constant Field Values

Constructor Detail

Cnv

public Cnv()

Method Detail

localization

public Cnv localization(@Nullable java.util.Set<BaseVariantLocalizationCoding> localization)

addLocalizationItem

public Cnv addLocalizationItem(BaseVariantLocalizationCoding localizationItem)

getLocalization

public @Nullable java.util.Set<BaseVariantLocalizationCoding> getLocalization()

setLocalization

public void setLocalization(@Nullable java.util.Set<BaseVariantLocalizationCoding> localization)

reportedFocality

public Cnv reportedFocality(@Nullable java.lang.String reportedFocality)

getReportedFocality

public @Nullable java.lang.String getReportedFocality()

setReportedFocality

public void setReportedFocality(@Nullable java.lang.String reportedFocality)

reportedAffectedGenes

public Cnv reportedAffectedGenes(@Nullable java.util.Set<Coding> reportedAffectedGenes)

addReportedAffectedGenesItem

public Cnv addReportedAffectedGenesItem(Coding reportedAffectedGenesItem)

getReportedAffectedGenes

public @Nullable java.util.Set<Coding> getReportedAffectedGenes()

setReportedAffectedGenes

public void setReportedAffectedGenes(@Nullable java.util.Set<Coding> reportedAffectedGenes)

totalCopyNumber

public Cnv totalCopyNumber(@Nullable java.lang.Integer totalCopyNumber)

getTotalCopyNumber

public @Nullable java.lang.Integer getTotalCopyNumber()

setTotalCopyNumber

public void setTotalCopyNumber(@Nullable java.lang.Integer totalCopyNumber)

cnA

public Cnv cnA(@Nullable java.math.BigDecimal cnA)

getCnA

public @Nullable java.math.BigDecimal getCnA()

setCnA

public void setCnA(@Nullable java.math.BigDecimal cnA)

externalIds

public Cnv externalIds(@Nullable java.util.List<VariantExternalId> externalIds)

addExternalIdsItem

public Cnv addExternalIdsItem(VariantExternalId externalIdsItem)

getExternalIds

public @Nullable java.util.List<VariantExternalId> getExternalIds()

setExternalIds

public void setExternalIds(@Nullable java.util.List<VariantExternalId> externalIds)

startRange

public Cnv startRange(@Nullable CnvStartRange startRange)

getStartRange

public @Nullable CnvStartRange getStartRange()

setStartRange

public void setStartRange(@Nullable CnvStartRange startRange)

type

public Cnv type(CnvTypeCoding type)

getType

public CnvTypeCoding getType()

setType

public void setType(CnvTypeCoding type)

patient

public Cnv patient(Reference patient)

getPatient

public Reference getPatient()

setPatient

public void setPatient(Reference patient)

endRange

public Cnv endRange(@Nullable CnvEndRange endRange)

getEndRange

public @Nullable CnvEndRange getEndRange()

setEndRange

public void setEndRange(@Nullable CnvEndRange endRange)

chromosome

public Cnv chromosome(Chromosome chromosome)

getChromosome

public Chromosome getChromosome()

setChromosome

public void setChromosome(Chromosome chromosome)

id

public Cnv id(java.lang.String id)

getId

public java.lang.String getId()

setId

public void setId(java.lang.String id)

cnB

public Cnv cnB(@Nullable java.math.BigDecimal cnB)

getCnB

public @Nullable java.math.BigDecimal getCnB()

setCnB

public void setCnB(@Nullable java.math.BigDecimal cnB)

relativeCopyNumber

public Cnv relativeCopyNumber(@Nullable java.math.BigDecimal relativeCopyNumber)

getRelativeCopyNumber

public @Nullable java.math.BigDecimal getRelativeCopyNumber()

setRelativeCopyNumber

public void setRelativeCopyNumber(@Nullable java.math.BigDecimal relativeCopyNumber)

copyNumberNeutralLoH

public Cnv copyNumberNeutralLoH(@Nullable java.util.Set<Coding> copyNumberNeutralLoH)

addCopyNumberNeutralLoHItem

public Cnv addCopyNumberNeutralLoHItem(Coding copyNumberNeutralLoHItem)

getCopyNumberNeutralLoH

public @Nullable java.util.Set<Coding> getCopyNumberNeutralLoH()

setCopyNumberNeutralLoH

public void setCopyNumberNeutralLoH(@Nullable java.util.Set<Coding> copyNumberNeutralLoH)

equals

public boolean equals(java.lang.Object o)

Overrides:

equals in class java.lang.Object

hashCode

public int hashCode()

Overrides:

hashCode in class java.lang.Object

toString

public java.lang.String toString()

Overrides:

toString in class java.lang.Object

builder

public static Cnv.Builder builder()

toBuilder

public Cnv.Builder toBuilder()