Package org.forester.phylogeny.data

Class Confidence

java.lang.Object
org.forester.phylogeny.data.Confidence
All Implemented Interfaces:
Comparable<Confidence>, PhylogenyData
public class Confidence extends Object implements PhylogenyData, Comparable<Confidence>

  • Field Details

  • Constructor Details

    • Confidence

      public Confidence()

    • Confidence

      public Confidence(double value, String type)

    • Confidence

      public Confidence(double value, String type, double sd)

  • Method Details

    • asSimpleText

      public StringBuffer asSimpleText()
      Specified by:
      asSimpleText in interface PhylogenyData

    • asText

      public StringBuffer asText()
      Specified by:
      asText in interface PhylogenyData

    • compareTo

      public int compareTo(Confidence confidence)
      Specified by:
      compareTo in interface Comparable<Confidence>

    • copy

      public PhylogenyData copy()
      Description copied from interface: PhylogenyData
      Creates a new PhylogenyData object with identical values as this PhylogenyData. This ~should~ return a deep copy, but not there yet.
      Specified by:
      copy in interface PhylogenyData
      Returns:
      a ~deep~ copy of this PhylogenyData

    • getType

      public String getType()

    • getValue

      public double getValue()

    • getStandardDeviation

      public double getStandardDeviation()

    • init

      public void init()

    • isEqual

      public boolean isEqual(PhylogenyData confidence)
      Description copied from interface: PhylogenyData
      Compares this PhylogenyData to PhylogenyData data. In general, this should return true if and only if all fiels are exactly identical.
      Specified by:
      isEqual in interface PhylogenyData
      Returns:
      in general, true if and only if all fiels are exactly identical, false otherwise

    • setType

      public void setType(String type)

    • setValue

      public void setValue(double value)

    • setStandardDeviation

      public void setStandardDeviation(double sd)

    • toNHX

      public StringBuffer toNHX()
      Specified by:
      toNHX in interface PhylogenyData

    • toPhyloXML

      public void toPhyloXML(Writer writer, int level, String indentation) throws IOException
      Description copied from interface: PhylogenyData
      Writes a phyloXML representation of this phylogeny data.
      Specified by:
      toPhyloXML in interface PhylogenyData
      Throws:
      IOException

    • toString

      public String toString()
      Overrides:
      toString in class Object