Alphabet.h File Reference

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Classes

class  CAlphabet
 The class Alphabet implements an alphabet and alphabet utility functions. More...

Enumerations

enum  EAlphabet {
  DNA = 0, RAWDNA = 1, RNA = 2, PROTEIN = 3,
  ALPHANUM = 5, CUBE = 6, RAWBYTE = 7, IUPAC_NUCLEIC_ACID = 8,
  IUPAC_AMINO_ACID = 9, NONE = 10, UNKNOWN = 11
}
 

Alphabet of charfeatures/observations.

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Enumeration Type Documentation

enum EAlphabet

Alphabet of charfeatures/observations.

Enumerator:
DNA 

DNA - letters A,C,G,T,*,N,n.

RAWDNA 

RAWDNA - letters 0,1,2,3.

RNA 

RNA - letters A,C,G,U,*,N,n.

PROTEIN 

PROTEIN - letters a-z.

ALPHANUM 

ALPHANUM - [0-9a-z].

CUBE 

CUBE - [1-6].

RAWBYTE 

RAW BYTE - [0-255].

IUPAC_NUCLEIC_ACID 

IUPAC_NUCLEIC_ACID.

IUPAC_AMINO_ACID 

IUPAC_AMINO_ACID.

NONE 

NONE - type has no alphabet.

UNKNOWN 

unknown alphabet

Definition at line 20 of file Alphabet.h.


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