| Class Specialization AminoAcid Iupac code for amino acids.
Simple Type
SimpleType
AminoAcid
AminoAcid Specialization of SimpleType Implements Simple Type Metafunctions
IsSimple | Tests type to be simple. (SimpleType)
Spec | The spec of a class. (SimpleType)
Value | Type of the items in the container. (SimpleType)
Functions
assign | Assigns one object to another object. (SimpleType)
convertResidueToFrequencyDist | Coverts a residue to a frequency distribution (profile).
ordValue | Maps an alphabet 1-to-1 to the interval [0..ValueSize). (SimpleType)
Remarks The ValueSize of AminoAcid is 24. The amino acids are enumerated from 0 to 15 in this order: 'A'=0, 'R', 'N', 'D', 'C', 'Q', 'E', 'G', 'H', 'I', 'L', 'K', 'M', 'F', 'P', 'S', 'T', 'W', 'Y', 'V'=19. The remaining 4 symbols are: 'B'=20 (Aspartic Acid, Asparagine), 'Z'=21 (Glutamic Acid, Glutamine), 'X'=22 (unknown), '*'=23 (terminator) Objects of type AminoAcid can be converted to char and vice versa. Unkown values are converted to 'X'. AminoAcid is typedef for SimpleType<char,_AminoAcid>, while _AminoAcid is a helper specialization tag class. Example Programs Alphabets See Also Peptide, PeptideIterator, ValueSize SeqAn - Sequence Analysis Library - www.seqan.de