genetics::codon Namespace Reference

Functions and structures related to triplets of IUPAC base symbols. More...

Classes
struct	table
	Table for translating codons to amino acids. More...

Functions
char	translate (char base1, char base2, char base3, const char *aas)
	Translates a codon into an amino acid. More...
bool	is_start (char base1, char base2, char base3, const char *starts)
	Returns true if a codon is a start codon. More...
bool	is_stop (char base1, char base2, char base3, const char *aas)
	Returns true if a codon is a stop codon. More...

Detailed Description

Functions and structures related to triplets of IUPAC base symbols.

Function Documentation

is_start()

bool genetics::codon::is_start	(	char	base1,
		char	base2,
		char	base3,
		const char *	starts
	)

Returns true if a codon is a start codon.

Parameters

base1	IUPAC base code of first nucleobase, either U, T, C, A, or G.
base2	IUPAC base code of second nucleobase, either U, T, C, A, or G.
base3	IUPAC base code of third nucleobase, either U, T, C, A, or G.
starts	String of 64 IUPAC amino acid codes, in TCAG order.

Returns

true if the codon is a start codon, false otherwise.

Definition at line 73 of file codon.cpp.

is_stop()

bool genetics::codon::is_stop	(	char	base1,
		char	base2,
		char	base3,
		const char *	aas
	)

Returns true if a codon is a stop codon.

Parameters

base1	IUPAC base code of first nucleobase, either U, T, C, A, or G.
base2	IUPAC base code of second nucleobase, either U, T, C, A, or G.
base3	IUPAC base code of third nucleobase, either U, T, C, A, or G.
aas	String of 64 IUPAC amino acid codes, in TCAG order.

Returns

true if the codon is a stop codon, false otherwise.

Definition at line 79 of file codon.cpp.

translate()

char genetics::codon::translate ( char  base1, char  base2, char  base3, const char *  aas  )

inline

Translates a codon into an amino acid.

Parameters

base1	IUPAC base code of first nucleobase, either U, T, C, A, or G.
base2	IUPAC base code of second nucleobase, either U, T, C, A, or G.
base3	IUPAC base code of third nucleobase, either U, T, C, A, or G.
aas	String of 64 IUPAC amino acid codes, in TCAG order.

Returns

IUPAC amino acid code of corresponding amino acid, or - if an invalid codon was supplied.

Definition at line 65 of file codon.cpp.