embest


Data type hash_list

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

Attributes

NameTypeDescription
namechar*Name
offsetunsigned longOffset
text_offsetunsigned longText offset
nextstruct hash_list*Next in list


Enum directions

Path matrix cell type and direction

Enumerated value(s)

Name
INTRONIntron
DIAGONALDiagonal in path
DELETE_ESTDelete in EST sequence
DELETE_GENOMEDelete in genome sequence
FORWARD_SPLICED_INTRONForward spliced intron
REVERSE_SPLICED_INTRONReverse spliced intron


Enum donor_acceptor

Donors and acceptors for slice site junctions

Enumerated value(s)

Name
NOT_A_SITENot a splice site
DONORDonor site
ACCEPTORAcceptor site


Data type EmbPEstAlign

NUCLEUS data structure for EST alignments (originally for est2genome)

Attributes

NameTypeDescription
gstartajintGenomic start
estartajintEST start
gstopajintGenomic stop
estopajintEST stop
scoreajintScore
lenajintLength
align_pathajint*Path