Functions dealing with file formats for Multiple Sequence Alignments (MSA) More...

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Macros
#define	VRNA_FILE_FORMAT_MSA_CLUSTAL 1U
	Option flag indicating ClustalW formatted files. More...

#define	VRNA_FILE_FORMAT_MSA_STOCKHOLM 2U
	Option flag indicating Stockholm 1.0 formatted files. More...

#define	VRNA_FILE_FORMAT_MSA_FASTA 4U
	Option flag indicating FASTA (Pearson) formatted files. More...

#define	VRNA_FILE_FORMAT_MSA_MAF 8U
	Option flag indicating MAF formatted files. More...

#define	VRNA_FILE_FORMAT_MSA_MIS 16U
	Option flag indicating most informative sequence (MIS) output. More...

#define	VRNA_FILE_FORMAT_MSA_DEFAULT
	Option flag indicating the set of default file formats. More...

#define	VRNA_FILE_FORMAT_MSA_NOCHECK 4096U
	Option flag to disable validation of the alignment. More...

#define	VRNA_FILE_FORMAT_MSA_UNKNOWN 8192U
	Return flag of vrna_file_msa_detect_format() to indicate unknown or malformatted alignment. More...

#define	VRNA_FILE_FORMAT_MSA_APPEND 16384U
	Option flag indicating to append data to a multiple sequence alignment file rather than overwriting it. More...

#define	VRNA_FILE_FORMAT_MSA_QUIET 32768U
	Option flag to suppress unnecessary spam messages on `stderr` More...

#define	VRNA_FILE_FORMAT_MSA_SILENT 65536U
	Option flag to completely silence any warnings on `stderr` More...

Functions
int	vrna_file_msa_read (const char filename, char names, char aln, char id, char *structure, unsigned int options)
	Read a multiple sequence alignment from file. More...

int	vrna_file_msa_read_record (FILE fp, char names, char aln, char id, char *structure, unsigned int options)
	Read a multiple sequence alignment from file handle. More...

unsigned int	vrna_file_msa_detect_format (const char *filename, unsigned int options)
	Detect the format of a multiple sequence alignment file. More...

int	vrna_file_msa_write (const char filename, const char names, const char aln, const char id, const char structure, const char source, unsigned int options)
	Write multiple sequence alignment file. More...

Detailed Description

Functions dealing with file formats for Multiple Sequence Alignments (MSA)

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Macros