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Hierarchy For All Packages
Package Hierarchies:
PIP.Collections
,
PIP.Collections.Distribution
,
PIP.Collections.Map
,
PIP.Collections.Persistent
,
PIP.Core
,
PIP.Domains
,
PIP.Domains.Family
,
PIP.Domains.Interactions
,
PIP.Domains.Orientation
,
PIP.Domains.SequenceSimilarity
,
PIP.ExampleCode
,
PIP.IO
,
PIP.IO.Blast
,
PIP.IO.CreateJDODatabase
,
PIP.IO.CreatePeripheralData
,
PIP.IO.MSD
,
PIP.IO.StampPackage
Class Hierarchy
java.lang.Object
PIP.Collections.Persistent.
AbstractCollection
<E> (implements java.util.Collection<E>)
PIP.Collections.Persistent.
AbstractList
<E> (implements java.util.List<E>)
PIP.Collections.
Pair
<O>
PIP.Collections.
SymmetricPair
<E>
PIP.Collections.
Piecewise
<T> (implements java.io.Serializable)
PIP.Domains.
Domain
(implements java.io.Serializable)
PIP.Collections.
Range
<E> (implements java.io.Serializable)
PIP.Collections.Persistent.
SArrayList
<T> (implements java.io.Serializable)
java.util.AbstractCollection<E> (implements java.util.Collection<E>)
PIP.Collections.
UniformSampler
<E>
PIP.Collections.Persistent.
AbstractMap
<K,V> (implements java.util.Map<K,V>)
PIP.Collections.
MultiMap
<K,V> (implements java.io.Serializable)
PIP.Collections.Persistent.
SHashMap
<K,V> (implements java.io.Serializable)
PIP.IO.StampPackage.
Alignments
PIP.Core.
App
PIP.Core.
Assembly
(implements PIP.Core.
MSDID
, java.io.Serializable)
PIP.Core.
Atom
(implements PIP.Core.
MSDID
, java.io.Serializable, PIP.Core.
Spatial
)
PIP.IO.
Bash
PIP.IO.
BatchCommiter
PIP.IO.Blast.
Blaster
PIP.IO.Blast.
BlastStats
PIP.Core.
Chain
(implements PIP.Core.
MSDID
, java.io.Serializable)
PIP.IO.CreatePeripheralData.
CheckAllOrientationFilesArePresent
PIP.Domains.Orientation.
ClassifyByOrientation
PIP.IO.
ClearLogs
PIP.Collections.
CollectionFactory
PIP.Collections.
CollectionSizeComparator
(implements java.util.Comparator<T>)
PIP.Collections.
CollectionUtility
PIP.Collections.
ComparatorUtility
PIP.ExampleCode.
ConnectionToJDODatabase
PIP.ExampleCode.
ConnectionTOMSDDatabase
PIP.IO.CreateJDODatabase.
CreateDB
PIP.IO.CreatePeripheralData.
CreatePDBFiles
PIP.Domains.Interactions.
DistanceFactory
(implements PIP.Domains.Interactions.
DomainInteractionFactory
)
PIP.Collections.Distribution.
Distribution
<F>
PIP.Collections.Distribution.
Histogram
<F>
PIP.Domains.Interactions.
DomainInteraction
PIP.Domains.Interactions.
DistanceInteraction
PIP.Domains.Interactions.
DomainInteractionOrdered
PIP.Domains.Interactions.
DomainInteractions
PIP.IO.MSD.
DomainReader
PIP.IO.MSD.
CSReaderNew
PIP.IO.MSD.
CathReaderNew
PIP.IO.MSD.
ScopReaderNew
PIP.Domains.
Domains
PIP.Core.
Element
(implements java.io.Serializable)
PIP.Core.
Elements
(implements java.io.Serializable)
PIP.Core.
Entries
PIP.Core.
Entry
(implements PIP.Core.
MSDID
, java.io.Serializable)
PIP.IO.MSD.
EntryReader
PIP.Core.
ExperimentType
(implements java.io.Serializable)
PIP.Core.
ExperimentTypes
(implements java.io.Serializable)
PIP.Domains.Family.
FamilyComparator
(implements java.util.Comparator<T>)
PIP.Domains.Family.
FamilyType
PIP.Domains.Family.
HFType
PIP.IO.
FixDatabases
PIP.IO.Blast.
FormatDBFileCreator
PIP.Collections.
General
PIP.IO.CreatePeripheralData.
GenerateOrientationFiles
PIP.ExampleCode.
HelpfulFunctions
PIP.Domains.Family.
HierarchicalFamily
(implements PIP.Domains.Family.
Family
)
PIP.Domains.Family.
Cath
PIP.Domains.Family.
Scop
PIP.Domains.Family.
Subfamily
PIP.Domains.
HighestResolutionDomainComp
(implements java.util.Comparator<T>)
PIP.Domains.
HighestResolutionInteractionComp
(implements java.util.Comparator<T>)
PIP.Collections.Distribution.
HistogramUtility
PIP.IO.CreatePeripheralData.
IdListCreator
PIP.Collections.
IntegerComparator
(implements java.util.Comparator<T>)
PIP.Domains.Interactions.
InteractionSourceType
PIP.Domains.Interactions.
InteractionSurface
PIP.IO.
IOUtility
PIP.IO.StampPackage.
IRMSDCalc
PIP.ExampleCode.
IteratingThroughDataBasedOnDomainInteractions
PIP.ExampleCode.
IteratingThroughDataBasedOnDomains
PIP.ExampleCode.
IteratingThroughDataBasedOnEntryHeirarchy
PIP.IO.
JDBCUtility
PIP.IO.
JoinResults
PIP.Collections.Map.
MapKeyComparator
<K,V> (implements java.util.Comparator<T>)
PIP.Collections.Map.
MapValueComparator
<K,V> (implements java.util.Comparator<T>)
PIP.Core.
MathUtility
PIP.IO.StampPackage.
MatrixFactory
PIP.Domains.Interactions.
NumberInteractingAtomsMeasure
(implements PIP.Domains.Interactions.
Measure
)
PIP.Domains.Interactions.
NumberInteractingResiduesMeasure
(implements PIP.Domains.Interactions.
Measure
)
PIP.Domains.Interactions.
NumberOfUniqueDomainInteractionsComparator
(implements java.util.Comparator<T>)
PIP.Domains.Orientation.
OrientatedDomInt
PIP.Domains.Orientation.
OrientationSimilarInteractions
PIP.Collections.
PairsIterator
<E> (implements java.util.Iterator<E>)
PIP.IO.Blast.
ParseBlastOutput
PIP.IO.
PBFactory
PIP.IO.CreatePeripheralData.
PDBFile
PIP.IO.CreatePeripheralData.
PDBFileChainBased
PIP.IO.CreatePeripheralData.
PDBFileDomainBased
PIP.IO.CreateJDODatabase.
PersistDatabase
PIP.IO.CreateJDODatabase.
PersistDomainInteractions
PIP.IO.CreateJDODatabase.
PersistEntries
PIP.IO.CreateJDODatabase.
PersistOritentationInteractions
PIP.IO.CreateJDODatabase.
PersistPeripheral
PIP.Domains.Family.
Pfam
(implements PIP.Domains.Family.
Family
)
PIP.IO.MSD.
PfamReader
PIP.IO.
PymolScript
PIP.Core.
Residue
(implements PIP.Core.
MSDID
, java.io.Serializable, PIP.Core.
Spatial
)
PIP.Core.
ResidueName
(implements java.io.Serializable)
PIP.Core.
ResidueNames
(implements java.io.Serializable)
PIP.IO.StampPackage.
RMSDComponents
PIP.IO.StampPackage.
RunStamp
PIP.Collections.
SArrayListFactory
(implements org.apache.commons.collections.Factory)
PIP.Domains.SequenceSimilarity.
SequenceClassifiedDIs
PIP.IO.StampPackage.
StampComparison
PIP.IO.StampPackage.
Stamper
PIP.Domains.Family.
SubfamilyComparator
(implements java.util.Comparator<T>)
PIP.IO.StampPackage.
Transform
PIP.IO.StampPackage.
Transformations
PIP.Collections.
UniformSamplerIterator
<E> (implements java.util.Iterator<E>)
Interface Hierarchy
PIP.Domains.Interactions.
DomainInteractionFactory
PIP.Domains.Interactions.
Measure
PIP.Core.
MSDID
java.io.Serializable
PIP.Domains.Family.
Family
PIP.Core.
Spatial
Overview
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