Package picard.arrays.illumina
Class IlluminaBPMLocusEntry
- java.lang.Object
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- picard.arrays.illumina.IlluminaBPMLocusEntry
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public class IlluminaBPMLocusEntry extends Object
A simple class to represent a locus entry in an Illumina Bead Pool Manifest (BPM) file
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Constructor Summary
Constructors Constructor Description IlluminaBPMLocusEntry()
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Method Summary
All Methods Instance Methods Concrete Methods Modifier and Type Method Description int
getAddressA()
int
getAddressB()
String
getAlleleAProbeSeq()
String
getAlleleBProbeSeq()
int
getAssayType()
String
getChrom()
String
getCustomerStrand()
int
getExpClusters()
float
getFracA()
float
getFracC()
float
getFracG()
float
getFracT()
String
getGenomeBuild()
String
getIlmnId()
IlluminaManifestRecord.IlluminaStrand
getIlmnStrand()
int
getIndex()
int
getMapInfo()
String
getName()
int
getNormalizationId()
String
getPloidy()
htsjdk.tribble.annotation.Strand
getRefStrand()
String
getSnp()
String
getSource()
String
getSourceSeq()
IlluminaManifestRecord.IlluminaStrand
getSourceStrand()
String
getSourceVersion()
String
getSpecies()
String
getTopGenomicSeq()
int
getVersion()
boolean
isIntensityOnly()
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Method Detail
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getVersion
public int getVersion()
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getIlmnId
public String getIlmnId()
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getName
public String getName()
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getIndex
public int getIndex()
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getIlmnStrand
public IlluminaManifestRecord.IlluminaStrand getIlmnStrand()
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getSnp
public String getSnp()
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getChrom
public String getChrom()
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getPloidy
public String getPloidy()
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getSpecies
public String getSpecies()
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getMapInfo
public int getMapInfo()
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getCustomerStrand
public String getCustomerStrand()
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getAddressA
public int getAddressA()
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getAlleleAProbeSeq
public String getAlleleAProbeSeq()
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getAddressB
public int getAddressB()
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getAlleleBProbeSeq
public String getAlleleBProbeSeq()
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getGenomeBuild
public String getGenomeBuild()
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getSource
public String getSource()
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getSourceVersion
public String getSourceVersion()
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getSourceStrand
public IlluminaManifestRecord.IlluminaStrand getSourceStrand()
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getSourceSeq
public String getSourceSeq()
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getTopGenomicSeq
public String getTopGenomicSeq()
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getExpClusters
public int getExpClusters()
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isIntensityOnly
public boolean isIntensityOnly()
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getAssayType
public int getAssayType()
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getFracA
public float getFracA()
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getFracC
public float getFracC()
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getFracT
public float getFracT()
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getFracG
public float getFracG()
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getRefStrand
public htsjdk.tribble.annotation.Strand getRefStrand()
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getNormalizationId
public int getNormalizationId()
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