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RNAlib-2.2.5
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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.
Macros | |
| #define | VRNA_OPTION_MULTILINE 32U |
| Tell a function that an input is assumed to span several lines. More... | |
| #define | VRNA_CONSTRAINT_MULTILINE 32U |
| parse multiline constraint More... | |
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... | |
| char * | vrna_extract_record_rest_structure (const char **lines, unsigned int length, unsigned int option) |
| Extract a dot-bracket structure string from (multiline)character array. 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_t * | vrna_file_constraints_read (const char *filename, unsigned int length, unsigned int options) |
| Read constraints from an input file. 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... | |
| unsigned int | read_record (char **header, char **sequence, char ***rest, unsigned int options) |
| Get a data record from stdin. More... | |
Functions dealing with file formats for RNA sequences, structures, and alignments.