Class GcBiasUtils

java.lang.Object
picard.analysis.GcBiasUtils
public class GcBiasUtils extends Object
Utilities to calculate GC Bias Created by kbergin on 9/23/15.

  • Constructor Summary

    Constructors
    Constructor
    Description
    GcBiasUtils()
     

  • Method Summary

    Modifier and Type
    Method
    Description
    static byte[]
    calculateAllGcs(byte[] refBases, int lastWindowStart, int windowSize)
    //////////////////////////////////////////////////////////////////////////
    static int
    calculateGc(byte[] bases, int startIndex, int endIndex, picard.analysis.GcBiasUtils.CalculateGcState state)
    //////////////////////////////////////////////////////////////////////////
    static int[]
    calculateRefWindowsByGc(int windows, File referenceSequence, int windowSize)
    //////////////////////////////////////////////////////////////////////////

    Methods inherited from class Object

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

  • Constructor Details

    • GcBiasUtils

      public GcBiasUtils()

  • Method Details

    • calculateGc

      public static int calculateGc(byte[] bases, int startIndex, int endIndex, picard.analysis.GcBiasUtils.CalculateGcState state)
      //////////////////////////////////////////////////////////////////////////

    • calculateRefWindowsByGc

      public static int[] calculateRefWindowsByGc(int windows, File referenceSequence, int windowSize)
      //////////////////////////////////////////////////////////////////////////

    • calculateAllGcs

      public static byte[] calculateAllGcs(byte[] refBases, int lastWindowStart, int windowSize)
      //////////////////////////////////////////////////////////////////////////