Package org.snpeff.stats

Class ChrPosStats

  • Direct Known Subclasses:
    PosStats
    public class ChrPosStats
extends java.lang.Object
    How many changes per position do we have in a chromosome. Summary by dividing the chromosome into MAX_BINS bins
    Author:
    pcingola

    • Field Summary

      Fields 
      Modifier and Type Field Description
      static boolean debug  

    • Constructor Summary

      Constructors 
      Constructor Description
      ChrPosStats​(java.lang.String chrName, int length)  

    • Method Summary

      All Methods Instance Methods Concrete Methods 
      Modifier and Type Method Description
      int getCount​(int idx)  
      int getTotal()  
      int[] posArray()  
      void sample​(int position)
      Use 'num' as a sample
      int size()  
      java.lang.String toString()  
      java.lang.String toStringHistoPlot​(java.lang.String title, java.lang.String xAxisLabel, java.lang.String yAxisLabel)
      Create a histogram plot using Google charts

      • Methods inherited from class java.lang.Object

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

    • Field Detail

      • debug

        public static boolean debug

    • Constructor Detail

      • ChrPosStats

        public ChrPosStats​(java.lang.String chrName,
                   int length)

    • Method Detail

      • getCount

        public int getCount​(int idx)

      • getTotal

        public int getTotal()

      • posArray

        public int[] posArray()

      • sample

        public void sample​(int position)
        Use 'num' as a sample
        Parameters:
        num -

      • size

        public int size()

      • toString

        public java.lang.String toString()
        Overrides:
        toString in class java.lang.Object

      • toStringHistoPlot

        public java.lang.String toStringHistoPlot​(java.lang.String title,
                                          java.lang.String xAxisLabel,
                                          java.lang.String yAxisLabel)
        Create a histogram plot using Google charts
        Returns: