Class SamHeaderRecordSq

java.lang.Object
org.snpeff.sam.SamHeaderRecord
org.snpeff.sam.SamHeaderRecordSq

public class SamHeaderRecordSq extends SamHeaderRecord
SQ header: Reference sequence dictionary. The order of @SQ lines defines the alignment sorting order.
Author:
pcingola
  • Constructor Details

    • SamHeaderRecordSq

      public SamHeaderRecordSq(String line)
  • Method Details

    • getAssembly

      public String getAssembly()
    • getLength

      public int getLength()
    • getMd5

      public String getMd5()
    • getSequenceName

      public String getSequenceName()
    • getSpecies

      public String getSpecies()
    • getUri

      public String getUri()
    • init

      protected void init()
      Description copied from class: SamHeaderRecord
      Initialize records before parsing
      Overrides:
      init in class SamHeaderRecord
    • parseField

      protected void parseField(String tag, String value)
      Description copied from class: SamHeaderRecord
      Parse a field for this record
      Specified by:
      parseField in class SamHeaderRecord
      Parameters:
      tag -
      value -
    • toString

      public String toString()
      Overrides:
      toString in class Object