Package htsjdk.tribble.bed

Class FullBEDFeature.Exon

java.lang.Object
htsjdk.tribble.bed.FullBEDFeature.Exon
Enclosing class:
FullBEDFeature
public class FullBEDFeature.Exon extends Object
A sub region of a feature. For example, a Gene exon

  • Constructor Details

    • Exon

      public Exon(int start, int end)
      Constructs ...
      Parameters:
      start -
      end -

  • Method Details

    • setMrnaBase

      public void setMrnaBase(int base)

    • setUTR

      public void setUTR(boolean utr)
      Flag indicating that the entire exon is the UTR.
      Parameters:
      utr -

    • setCodingStart

      public void setCodingStart(int codingStart)
      Method description
      Parameters:
      codingStart -

    • setCodingEnd

      public void setCodingEnd(int codingEnd)
      Method description
      Parameters:
      codingEnd -

    • setReadingFrame

      public void setReadingFrame(int offset)
      Method description
      Parameters:
      offset -

    • setPhase

      public void setPhase(int phase)
      Method description
      Parameters:
      phase -

    • getCdStart

      public int getCdStart()
      Method description
      Returns:

    • getCdEnd

      public int getCdEnd()
      Method description
      Returns:

    • getCodingLength

      public int getCodingLength()
      Method description
      Returns:

    • getValueString

      public String getValueString(double position)

    • getNumber

      public int getNumber()

    • setNumber

      public void setNumber(int number)