RNAlib-2.2.0

Functions dealing with file formats for RNA sequences, structures, and alignments. More...

+ Include dependency graph for file_formats.h:

Go to the source code of this file.

Functions

void vrna_file_helixlist (const char *seq, const char *db, float energy, FILE *file)
 Print a secondary structure as helix list. More...
 
void vrna_file_connect (const char *seq, const char *db, float energy, const char *identifier, FILE *file)
 Print a secondary structure as connect table. More...
 
void vrna_file_bpseq (const char *seq, const char *db, FILE *file)
 Print a secondary structure in bpseq format. More...
 
void vrna_file_json (const char *seq, const char *db, double energy, const char *identifier, FILE *file)
 Print a secondary structure in jsonformat. More...
 
unsigned int vrna_file_fasta_read_record (char **header, char **sequence, char ***rest, FILE *file, unsigned int options)
 Get a (fasta) data set from a file or stdin. More...
 
void vrna_extract_record_rest_constraint (char **cstruc, const char **lines, unsigned int option)
 Extract a hard constraint encoded as pseudo dot-bracket string. More...
 
int vrna_file_SHAPE_read (const char *file_name, int length, double default_value, char *sequence, double *values)
 Read data from a given SHAPE reactivity input file. More...
 
vrna_plist_tvrna_file_constraints_read (const char *filename, unsigned int length, unsigned int options)
 Read constraints from an input file. More...
 
unsigned int read_record (char **header, char **sequence, char ***rest, unsigned int options)
 Get a data record from stdin. More...
 

Detailed Description

Functions dealing with file formats for RNA sequences, structures, and alignments.

See also
Constraints Definition File