cdaAli Struct Reference

#include <cda.h>

Collaboration diagram for cdaAli:

[legend]

Data Fields
cdaAli *	next
char *	name
int	baseCount
short	milliScore
bits16	chromIx
char	strand
char	direction
UBYTE	isEmbryonic
UBYTE	hasIntrons
int	orientation
int	chromStart
int	chromEnd
short	blockCount
cdaBlock *	blocks

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Detailed Description

Definition at line 28 of file cda.h.

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Field Documentation

struct cdaAli* cdaAli::next [read]

Definition at line 30 of file cda.h.

Referenced by cdaCoalesceAll(), cdaFreeAliList(), cdaRcList(), and cdaWrite().

char* cdaAli::name

Definition at line 31 of file cda.h.

Referenced by cdaFreeAli(), cdaLoadOne(), and cdaWriteOne().

int cdaAli::baseCount

Definition at line 32 of file cda.h.

Referenced by cdaAliFromFfAli(), cdaLoadOne(), cdaRcOne(), and cdaWriteOne().

short cdaAli::milliScore

Definition at line 33 of file cda.h.

Referenced by cdaLoadOne(), and cdaWriteOne().

bits16 cdaAli::chromIx

Definition at line 34 of file cda.h.

Referenced by cdaLoadOne(), and cdaWriteOne().

char cdaAli::strand

Definition at line 35 of file cda.h.

Referenced by cdaAliFromFfAli(), cdaCloneIsReverse(), cdaLoadOne(), and cdaWriteOne().

char cdaAli::direction

Definition at line 36 of file cda.h.

Referenced by cdaAliFromFfAli(), cdaCloneIsReverse(), cdaLoadOne(), and cdaWriteOne().

UBYTE cdaAli::isEmbryonic

Definition at line 37 of file cda.h.

Referenced by cdaLoadOne(), and cdaWriteOne().

UBYTE cdaAli::hasIntrons

Definition at line 38 of file cda.h.

int cdaAli::orientation

Definition at line 39 of file cda.h.

Referenced by cdaAliFromFfAli().

int cdaAli::chromStart

Definition at line 41 of file cda.h.

Referenced by cdaFixChromStartEnd().

int cdaAli::chromEnd

Definition at line 41 of file cda.h.

Referenced by cdaFixChromStartEnd().

short cdaAli::blockCount

Definition at line 42 of file cda.h.

Referenced by cdaAliFromFfAli(), cdaCoalesceOne(), cdaFixChromStartEnd(), cdaLoadOne(), cdaRcOne(), cdaShowAlignmentTrack(), and cdaWriteOne().

struct cdaBlock* cdaAli::blocks [read]

Definition at line 43 of file cda.h.

Referenced by cdaAliFromFfAli(), cdaCoalesceOne(), cdaFixChromStartEnd(), cdaFreeAli(), cdaLoadOne(), cdaRcOne(), cdaShowAlignmentTrack(), and cdaWriteOne().

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

• inc/cda.h

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