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Hierarchy For All Packages
Package Hierarchies:
annodb
,
biosql
,
blastxml
,
CircLocTest
,
das
,
dist
,
dp
,
eventbasedparsing
,
game
,
gff
,
indexing
,
nativeapps
,
performance
,
process
,
prot
,
search
,
seq
,
seqviewer
,
ssaha
,
ssbind
,
structure
,
symbol
,
tagvalue
,
unigene
,
xff
Class Hierarchy
java.lang.
Object
performance.
AlignProteins
seqviewer.
BeadDemo
eventbasedparsing.
Blast2HTML
eventbasedparsing.
BlastLike2XML
nativeapps.
BlastLike2XML
blastxml.
BlastParser
seqviewer.
CircularEmblViewer
CircLocTest.
CircularLocationTester
java.awt.
Component
(implements java.awt.image.
ImageObserver
, java.awt.
MenuContainer
, java.io.
Serializable
)
java.awt.
Container
java.awt.
Window
(implements javax.accessibility.
Accessible
)
java.awt.
Frame
(implements java.awt.
MenuContainer
)
javax.swing.
JFrame
(implements javax.accessibility.
Accessible
, javax.swing.
RootPaneContainer
, javax.swing.
WindowConstants
)
CircLocTest.
TestFrame
performance.
UserDisplay
ssaha.
CreateDNAFastaHashTable
ssaha.
CreateDNAFastaHashTableCompact
ssaha.
CreateDNAFastaHashTableLarge
ssaha.
CreateEmblHashTable
ssaha.
CreateEmblHashTableLarge
indexing.
CreateFAIndex
indexing.
CreateIndex
annodb.
CreateIndexDB
indexing.
CreateSPIndex
unigene.
CreateUnigeneFlat
dp.
Dice
biosql.
DummyFromGFF
ssbind.
Echoer
(implements org.biojava.bio.search.SearchContentHandler)
gff.
EmblToGffFasta
seqviewer.
EmblViewer
seqviewer.
EmblViewer2
eventbasedparsing.
Fasta2XML
seqviewer.
FastBeadDemo
seq.
FetchSeq
seqviewer.
GappedViewer
seq.
GCContent
gff.
GenbankToGffFasta
gff.
GFFCompare
gff.
GFFFilter
gff.
GFFMask
gff.
GFFToFeatures
tagvalue.
Grep
tagvalue.
Index
search.
IndexFastaDB
biosql.
LargeSequenceTest
indexing.
ListIDs
structure.
LoadStructure
symbol.
MatrixValue
seq.
MotifFinder2
dp.
PairwiseAlignment
tagvalue.
Parse
tagvalue.
ParseEmbl
unigene.
ParseLibInfo
tagvalue.
ParseSwissprot
unigene.
ParseUnigene
symbol.
PatternDemo
dp.
PatternFinder
eventbasedparsing.
Pdb2XML
nativeapps.
Pdb2XML
structure.
PDBView
structure.
PhiPsiCalculation
tagvalue.
PrintFormat
ssbind.
ProcessBlastReport
process.
ProcessToolsTest
performance.
ReadFasta
performance.
ReadFastaX
performance.
ReadFastaX2
indexing.
ReadRaw
indexing.
ReadRawSecondary
ssaha.
ResultPrinter
(implements org.biojava.bio.program.ssaha.SearchListener)
performance.
ReverseComplement
seq.
ReverseComplement
org.biojava.bio.search.SearchContentAdapter (implements org.biojava.bio.search.SearchContentHandler)
ssbind.
CountHits
ssbind.
CountSubHits
ssbind.
ListQueries
ssbind.
ListSubjects
ssbind.
PropertyEchoer
org.biojava.bio.search.SearchContentFilter (implements org.biojava.bio.search.SearchContentHandler)
ssbind.
AlignmentBuilder
ssbind.
SubHitBuilder
ssbind.
SubHitFilter
ssbind.
FilterByValue
dp.
SearchProfile
unigene.
SearchUnigeneFlat
biosql.
SeqDumper
biosql.
SeqEMBL
biosql.
SeqGFF
org.biojava.bio.seq.io.SeqIOAdapter (implements org.biojava.bio.seq.io.SeqIOListener)
game.
SeqIOTatler
biosql.
SequenceTest
seq.
SimpleAssemblyTest
performance.
SmithWatermanExample
ssaha.
SSAHA
ssaha.
SSAHALarge
ssaha.
SSAHASeq
ssaha.
SSAHASeqLarge
structure.
SuperimposeStructures
gff.
SwissprotToGffFasta
symbol.
TestAlphabetIndexers
symbol.
TestAmbiguity
das.
TestDAS
das.
TestDASG
das.
TestDASH
prot.
TestDigestIO
dist.
TestDistribution
das.
TestDSN
seq.
TestEmbl
seq.
TestEmbl2
game.
TestGAME
symbol.
TestGappedSymbolList
seq.
TestGenbank
symbol.
TestIndexedIntegers
symbol.
TestLocation
dist.
TestOrderNAlphabet
dist.
TestOrderNDistribution
symbol.
TestOrderNSymbolList
seq.
TestRefSeqPrt
symbol.
TestSimpleAlignment
seq.
TestSubSequence
seq.
TestSwissprot
seq.
TestTranslation
symbol.
TestWindowedSymbolList
xff.
TestXFFStreaming
dist.
Tools
symbol.
Tools
seqviewer.
TraceViewer
eventbasedparsing.
TutorialEx1
seq.
UniProtDemo
biosql.
UploadFlat
dp.
ViterbiAlign
symbol.
WindowCount
gff.
XFF2GFF
Interface Hierarchy
symbol.
TestLocation.BooleanBinaryOp
symbol.
TestLocation.LocationBinaryOp
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