SEQALN_SEQUENCE Struct Reference

#include <seqaln.h>

List of all members.

Public Attributes
int	len
char	name [MAXSEQNAME]
int	reverse
int	complement
int	revcomp
int	xlated
char *	seq
char *	code
int	bstart
int	bend
int	fstart
int	fend
double *	freq
char *	fname
FILE *	fptr
long	fposn
SEQALN_FTYPE	ftype
SEQALN_DBTYPE	dbtype
int	maxlen
int	resized

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Member Data Documentation

int SEQALN_SEQUENCE::len

Referenced by code2seq(), compseq(), initmaxS(), load_seq(), load_seq_fromstr(), localS(), lsdeclump(), main(), make_seq(), dyaln::outputTab(), dyaln::outputTabPos(), parseargs(), pfitS(), results_init(), revseq(), rpt_row(), rpt_scores(), and xlate().

char SEQALN_SEQUENCE::name

Referenced by load_seq(), load_seq_fromstr(), dyaln::outputTab(), dyaln::outputTabPos(), rpt_align(), and rpt_alignment().

int SEQALN_SEQUENCE::reverse

Referenced by revcomp(), revseq(), rpt_align(), and rpt_alignment().

int SEQALN_SEQUENCE::complement

Referenced by compseq(), revcomp(), rpt_align(), and rpt_alignment().

int SEQALN_SEQUENCE::revcomp

Referenced by revcomp().

int SEQALN_SEQUENCE::xlated

Referenced by parseargs(), and xlate().

char * SEQALN_SEQUENCE::seq

Referenced by code2seq(), compseq(), load_seq(), load_seq_fromstr(), lsdeclump(), main(), norm_gen(), parseargs(), revseq(), rpt_alignment(), rpt_row(), rpt_scores(), and xlate().

char * SEQALN_SEQUENCE::code

Referenced by code2seq(), compseq(), load_seq(), load_seq_fromstr(), localS(), lsdeclump(), make_seq(), norm_gen(), parseargs(), pfitS(), revseq(), rpt_alignment(), trace(), and xlate().

int SEQALN_SEQUENCE::bstart

int SEQALN_SEQUENCE::bend

int SEQALN_SEQUENCE::fstart

Referenced by load_seq(), load_seq_fromstr(), dyaln::outputTab(), dyaln::outputTabPos(), rpt_align(), and xlate().

int SEQALN_SEQUENCE::fend

Referenced by load_seq(), and load_seq_fromstr().

double * SEQALN_SEQUENCE::freq

Referenced by make_seq().

char * SEQALN_SEQUENCE::fname

Referenced by load_seq(), load_seq_fromstr(), parseargs(), and parseargs_str_new().

FILE * SEQALN_SEQUENCE::fptr

Referenced by load_seq(), and main().

long SEQALN_SEQUENCE::fposn

Referenced by load_seq().

SEQALN_FTYPE SEQALN_SEQUENCE::ftype

SEQALN_DBTYPE SEQALN_SEQUENCE::dbtype

int SEQALN_SEQUENCE::maxlen

Referenced by load_seq(), and load_seq_fromstr().

int SEQALN_SEQUENCE::resized

Referenced by load_seq(), load_seq_fromstr(), and results_init().

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The documentation for this struct was generated from the following files:

• seqaln/seqaln/kzaln/seqaln.h
• seqaln/seqaln/src/seqaln.h