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

Packages that use IntegerAlphabet.IntegerSymbol

Package	Description
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

Modifier and Type	Method and Description
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

Modifier and Type	Method and Description
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

Modifier and Type	Method and Description
IntegerAlphabet.IntegerSymbol	IntegerAlphabet.getSymbol(int val) Retrieve the Symbol for an int.
IntegerAlphabet.IntegerSymbol	IntegerAlphabet.SubIntegerAlphabet.getSymbol(int val)