strings.h File Reference

General utility- and helper-functions for RNA sequence and structure strings used throughout the ViennaRNA Package. More...

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Macros
#define	XSTR(s)   STR(s)
	Stringify a macro after expansion.
#define	STR(s)   #s
	Stringify a macro argument.
#define	FILENAME_MAX_LENGTH   80
	Maximum length of filenames that are generated by our programs. More...
#define	FILENAME_ID_LENGTH   42
	Maximum length of id taken from fasta header for filename generation. More...

Functions
char *	vrna_strdup_printf (const char *format,...)
	Safely create a formatted string. More...
char *	vrna_strdup_vprintf (const char *format, va_list argp)
	Safely create a formatted string. More...
int	vrna_strcat_printf (char **dest, const char *format,...)
	Safely append a formatted string to another string. More...
int	vrna_strcat_vprintf (char **dest, const char *format, va_list args)
	Safely append a formatted string to another string. More...
char **	vrna_strsplit (const char *string, const char *delimiter)
	Split a string into tokens using a delimiting character. More...
char *	vrna_random_string (int l, const char symbols[])
	Create a random string using characters from a specified symbol set. More...
int	vrna_hamming_distance (const char *s1, const char *s2)
	Calculate hamming distance between two sequences. More...
int	vrna_hamming_distance_bound (const char *s1, const char *s2, int n)
	Calculate hamming distance between two sequences up to a specified length. More...
void	vrna_seq_toRNA (char *sequence)
	Convert an input sequence (possibly containing DNA alphabet characters) to RNA alphabet. More...
void	vrna_seq_toupper (char *sequence)
	Convert an input sequence to uppercase. More...
char *	vrna_seq_ungapped (const char *seq)
	Remove gap characters from a nucleotide sequence. More...
char *	vrna_cut_point_insert (const char *string, int cp)
	Add a separating '&' character into a string according to cut-point position. More...
char *	vrna_cut_point_remove (const char *string, int *cp)
	Remove a separating '&' character from a string. More...
void	str_uppercase (char *sequence)
	Convert an input sequence to uppercase. More...
void	str_DNA2RNA (char *sequence)
	Convert a DNA input sequence to RNA alphabet. More...
char *	random_string (int l, const char symbols[])
	Create a random string using characters from a specified symbol set. More...
int	hamming (const char *s1, const char *s2)
	Calculate hamming distance between two sequences. More...
int	hamming_bound (const char *s1, const char *s2, int n)
	Calculate hamming distance between two sequences up to a specified length. More...

Detailed Description

General utility- and helper-functions for RNA sequence and structure strings used throughout the ViennaRNA Package.

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Function Documentation

void str_uppercase

(

char *

sequence

)

Convert an input sequence to uppercase.

Deprecated:

Use vrna_seq_toupper() instead!

void str_DNA2RNA

(

char *

sequence

)

Convert a DNA input sequence to RNA alphabet.

Deprecated:

Use vrna_seq_toRNA() instead!

char* random_string	(	int	l,
		const char	symbols[]
	)

Create a random string using characters from a specified symbol set.

Deprecated:

Use vrna_random_string() instead!

int hamming	(	const char *	s1,
		const char *	s2
	)

Calculate hamming distance between two sequences.

Deprecated:

Use vrna_hamming_distance() instead!

int hamming_bound	(	const char *	s1,
		const char *	s2,
		int	n
	)

Calculate hamming distance between two sequences up to a specified length.

Deprecated:

Use vrna_hamming_distance_bound() instead!