embest

Data type hash_list

NUCLEUS internal data structure for est2genome EMBOSS application to maintain internal hash lists.

Attributes

Name Type Description

name char* Name

offset unsigned long Offset

text_offset unsigned long Text offset

next struct hash_list* Next in list

Name	Type	Description
name	char*	Name
offset	unsigned long	Offset
text_offset	unsigned long	Text offset
next	struct hash_list*	Next in list

Enum directions

Path matrix cell type and direction

Enumerated value(s)

Name

INTRON Intron

DIAGONAL Diagonal in path

DELETE_EST Delete in EST sequence

DELETE_GENOME Delete in genome sequence

FORWARD_SPLICED_INTRON Forward spliced intron

REVERSE_SPLICED_INTRON Reverse spliced intron

Name
INTRON	Intron
DIAGONAL	Diagonal in path
DELETE_EST	Delete in EST sequence
DELETE_GENOME	Delete in genome sequence
FORWARD_SPLICED_INTRON	Forward spliced intron
REVERSE_SPLICED_INTRON	Reverse spliced intron

Enum donor_acceptor

Donors and acceptors for slice site junctions

Enumerated value(s)

Name

NOT_A_SITE Not a splice site

DONOR Donor site

ACCEPTOR Acceptor site

Name
NOT_A_SITE	Not a splice site
DONOR	Donor site
ACCEPTOR	Acceptor site

Data type EmbPEstAlign

NUCLEUS data structure for EST alignments (originally for est2genome)

Attributes

Name Type Description

gstart ajint Genomic start

estart ajint EST start

gstop ajint Genomic stop

estop ajint EST stop

score ajint Score

len ajint Length

align_path ajint* Path

Name	Type	Description
gstart	ajint	Genomic start
estart	ajint	EST start
gstop	ajint	Genomic stop
estop	ajint	EST stop
score	ajint	Score
len	ajint	Length
align_path	ajint*	Path