Alphabets

The following alphabets are available

Nucleotide based	Amino acid based	Quality based
ivs::dna4	ivs::aa27	ivs::pthred42
ivs::dna5	ivs::aa20	ivs::pthred63
ivs::rna4	ivs::aa10li	ivs::pthred68solexa
ivs::rna5	ivs::aa10murphy	ivs::pthred94
ivs::iupac
ivs::dna3bs
ivs::d_dna4
ivs::d_dna5
ivs::d_rna4
ivs::d_rna5
ivs::d_iupac
ivs::d_dna3bs

Nucleotide based

Alphabets starting with d_ are alphabets with a additional delimiter $ as rank 0. - size_t size() - uint8_t char_to_rank(char) - char rank_to_char(uint8_t) - char normalize_char(char) - char complement_char(char) - uint8_t complement_rank(uint8_t)

All functions are guaranteed to not throw.

Amino acid based

• size_t size()
• uint8_t char_to_rank(char)
• char rank_to_char(uint8_t)
• char normalize_char(char)

All functions are guaranteed to not throw.

Quality based

• size_t size()
• uint8_t char_to_rank(char)
• char rank_to_char(uint8_t)
• char normalize_char(char)

All functions are guaranteed to not throw.