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Identifier Index

[ A B C D E F G H I J K L M N O P Q R S T U V W X Y Z _ ]

A

addSequence() (in cluster)	alignmentSAM (in DIGEST_functions)

C

Cigar (in DIGEST_functions)	clusterSequence (in DIGEST_functions)	ContigORF (in DIGEST_functions)
clstrParser() (in DIGEST_functions)	computeLen() (in cluster)
cluster (in DIGEST_functions)	computeMeanPourc() (in cluster)

D

delimiter (in MyDialect)	DIGEST_functions
DIGEST	doublequote (in MyDialect)

E

e (in DIGEST)	exist() (in DIGEST_functions)	ExtractFastaFromSAM
escapechar (in MyDialect)	extendTargets_allPossibility	extractORFsequences

F

fastaReader() (in DIGEST_functions)	fileLineNumber() (in DIGEST_functions)

G

geneExtended() (in DIGEST_functions)	get_parser() (in ExtractFastaFromSAM)	get_parser() (in extractORFsequences)
geneSeen() (in DIGEST_functions)	get_parser() (in SAMparser)	get_parser() (in removeIdenticalSeq)
get_parser() (in DIGEST)	get_parser() (in extendTargets_allPossibility)	get_parser() (in script-cd_hit_para_CCRT_py)

J

jobArrayLauncher() (in jobLauncher)	jobLauncher (in DIGEST_functions)	jobOneLauncher() (in jobLauncher)

L

launchJobCCRT() (in script-cd_hit_para_CCRT_py)	lineterminator (in MyDialect)

M

main() (in DIGEST)	main() (in extractORFsequences)	mpiRun() (in jobLauncher)
main() (in ExtractFastaFromSAM)	main() (in removeIdenticalSeq)	MyDialect (in DIGEST_functions)
main() (in SAMparser)	main() (in script-cd_hit_para_CCRT_py)
main() (in extendTargets_allPossibility)	metageneParser() (in DIGEST_functions)

N

nbSequenceFasta() (in DIGEST_functions)

O

ORF (in DIGEST_functions)

P

pi (in DIGEST)

Q

quotechar (in MyDialect)	quoting (in MyDialect)

R

removeIdenticalSeq	reverseComplement() (in DIGEST_functions)

S

SAMparser	sequence (in DIGEST_functions)	subjectStartStop() (in DIGEST_functions)
script-cd_hit_para_CCRT_py	skipinitialspace (in MyDialect)

W

writeJobScript() (in script-cd_hit_para_CCRT_py)	writeORF() (in DIGEST_functions)

_

__doc__ (in DIGEST)	__init__() (in Cigar)	__package__ (in DIGEST)
__doc__ (in DIGEST_functions)	__init__() (in ContigORF)	__package__ (in DIGEST_functions)
__doc__ (in ExtractFastaFromSAM)	__init__() (in ORF)	__package__ (in ExtractFastaFromSAM)
__doc__ (in SAMparser)	__init__() (in alignmentSAM)	__package__ (in SAMparser)
__doc__ (in extendTargets_allPossibility)	__init__() (in cluster)	__package__ (in extendTargets_allPossibility)
__doc__ (in extractORFsequences)	__init__() (in clusterSequence)	__package__ (in extractORFsequences)
__doc__ (in removeIdenticalSeq)	__init__() (in jobLauncher)	__package__ (in removeIdenticalSeq)
__doc__ (in script-cd_hit_para_CCRT_py)	__init__() (in sequence)	__package__ (in script-cd_hit_para_CCRT_py)