Uses of Class
org.biojava.bio.symbol.SoftMaskedAlphabet

Packages that use SoftMaskedAlphabet
org.biojava.bio.symbol Representation of the Symbols that make up a sequence, and locations within them. 
 

Uses of SoftMaskedAlphabet in org.biojava.bio.symbol
 

Methods in org.biojava.bio.symbol that return SoftMaskedAlphabet
static SoftMaskedAlphabet SoftMaskedAlphabet.getInstance(FiniteAlphabet alphaToMask)
          Generates a soft masked Alphabet where lowercase tokens are assumed to be soft masked.
static SoftMaskedAlphabet SoftMaskedAlphabet.getInstance(FiniteAlphabet alphaToMask, SoftMaskedAlphabet.MaskingDetector maskingDetector)
          Creates a compound alphabet that is a hybrid of the alphabet that is to be soft masked and a binary alphabet that indicates if any Symbol is soft masked or not.