package org.broadinstitute.sting.utils; public class BaseUtils { static public int simpleBaseToBaseIndex(char base) { switch (base) { case 'A': case 'a': return 0; case 'C': case 'c': return 1; case 'G': case 'g': return 2; case 'T': case 't': return 3; default: return -1; } } static public char baseIndexToSimpleBase(int baseIndex) { switch (baseIndex) { case 0: return 'A'; case 1: return 'C'; case 2: return 'G'; case 3: return 'T'; default: return '.'; } } }