Class IlluminaManifestRecord

java.lang.Object
picard.arrays.illumina.IlluminaManifestRecord
Direct Known Subclasses:
Build37ExtendedIlluminaManifestRecord

public class IlluminaManifestRecord extends Object
A class to represent a record (line) from an Illumina Manifest [Assay] entry
  • Field Details

  • Method Details

    • getLine

      public String getLine()
    • getIlmnId

      public String getIlmnId()
    • getName

      public String getName()
    • getIlmnStrand

      public IlluminaManifestRecord.IlluminaStrand getIlmnStrand()
    • getSnp

      public String getSnp()
    • isIndel

      public boolean isIndel()
    • isAmbiguous

      public boolean isAmbiguous()
    • isSnp

      public boolean isSnp()
    • getAddressAId

      public String getAddressAId()
    • getAlleleAProbeSeq

      public String getAlleleAProbeSeq()
    • getAddressBId

      public String getAddressBId()
    • getAlleleBProbeSeq

      public String getAlleleBProbeSeq()
    • getGenomeBuild

      public String getGenomeBuild()
    • getMajorGenomeBuild

      public String getMajorGenomeBuild()
    • getHgGenomeBuild

      public String getHgGenomeBuild()
    • setHgGenomeBuild

      public void setHgGenomeBuild(String hgGenomeBuild)
    • getChr

      public String getChr()
    • getPosition

      public int getPosition()
    • getPloidy

      public String getPloidy()
    • getSpecies

      public String getSpecies()
    • getSource

      public String getSource()
    • getSourceVersion

      public String getSourceVersion()
    • getSourceStrand

      public IlluminaManifestRecord.IlluminaStrand getSourceStrand()
    • getSourceSeq

      public String getSourceSeq()
    • getTopGenomicSeq

      public String getTopGenomicSeq()
    • getBeadSetId

      public int getBeadSetId()
    • getExpClusters

      public String getExpClusters()
    • getRefStrand

      public htsjdk.tribble.annotation.Strand getRefStrand()
    • getIntensityOnly

      public boolean getIntensityOnly()
    • getIndex

      public int getIndex()
    • toString

      public String toString()
      Overrides:
      toString in class Object