Uses of Class
org.biojava.bio.symbol.IntegerAlphabet.IntegerSymbol

Packages that use IntegerAlphabet.IntegerSymbol
org.biojava.bio.program.phred Parser for Phred output 
org.biojava.bio.symbol Representation of the Symbols that make up a sequence, and locations within them. 
 

Uses of IntegerAlphabet.IntegerSymbol in org.biojava.bio.program.phred
 

Methods in org.biojava.bio.program.phred that return IntegerAlphabet.IntegerSymbol
static IntegerAlphabet.IntegerSymbol PhredTools.integerSymbolFromPhred(Symbol phredSym)
          Retrives the IntegerSymbol component of the Phred BasisSymbol from the PHRED alphabet.
 

Methods in org.biojava.bio.program.phred with parameters of type IntegerAlphabet.IntegerSymbol
static double PhredTools.pFromQuality(IntegerAlphabet.IntegerSymbol quality)
          Calculates the probability of an error from the quality score via the formula P_e = 10**(QV/-10)
 

Uses of IntegerAlphabet.IntegerSymbol in org.biojava.bio.symbol
 

Methods in org.biojava.bio.symbol that return IntegerAlphabet.IntegerSymbol
 IntegerAlphabet.IntegerSymbol IntegerAlphabet.getSymbol(int val)
          Retrieve the Symbol for an int.
 IntegerAlphabet.IntegerSymbol IntegerAlphabet.SubIntegerAlphabet.getSymbol(int val)