Package org.snpeff.genotypes

Class Genotypes

  • All Implemented Interfaces:
    java.io.Serializable
    public class Genotypes
extends java.lang.Object
implements java.io.Serializable
    Simple test program
    Author:
    pcingola
    See Also:
    Serialized Form

    • Field Summary

      Fields 
      Modifier and Type Field Description
      static int MARK  

    • Constructor Summary

      Constructors 
      Constructor Description
      Genotypes()  

    • Method Summary

      All Methods Static Methods Instance Methods Concrete Methods 
      Modifier and Type Method Description
      static Genotypes load​(java.lang.String fileName)
      Read from a file
      boolean loadVcf()
      Load data
      static void main​(java.lang.String[] args)  
      void parse​(java.lang.String[] args)
      Parse command line arguments
      void save​(java.lang.String fileName)
      Save to file
      void set​(int entryNum, int sampleNum, VcfGenotype vg)
      Set an entry

      • Methods inherited from class java.lang.Object

        clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

    • Field Detail

      • MARK

        public static int MARK

    • Constructor Detail

      • Genotypes

        public Genotypes()

    • Method Detail

      • load

        public static Genotypes load​(java.lang.String fileName)
        Read from a file
        Parameters:
        fileName -

      • main

        public static void main​(java.lang.String[] args)

      • loadVcf

        public boolean loadVcf()
        Load data

      • parse

        public void parse​(java.lang.String[] args)
        Parse command line arguments

      • save

        public void save​(java.lang.String fileName)
        Save to file
        Parameters:
        fileName -

      • set

        public void set​(int entryNum,
                int sampleNum,
                VcfGenotype vg)
        Set an entry