API for alyst/RpsiXML
R interface to PSI-MI 2.5 files

Global functions
"sourceDb<-"-methods	Man page
"sourceId<-"-methods	Man page
BIOGRID.PSIMI25	Man page
CORUM.PSIMI25	Man page
DIP.PSIMI25	Man page
HPRD.PSIMI25	Man page
INTACT.PSIMI25	Man page
MATRIXDB.PSIMI25	Man page
MINT.PSIMI25	Man page
MIPS.PSIMI25	Man page
MPACT.PSIMI25	Man page
XMLattributeValueByPath	Source code
XMLvalueByPath	Source code
abstract,psimi25GraphBase-method	Man page
annotateComplexWithInteractors	Source code
attributesList	Man page
attributesList,attributesListBase-method	Man page
availableXrefs	Man page
availableXrefs,list-method	Man page
availableXrefs,psimi25InteractionEntry-method	Man page
availableXrefs,psimi25Interactor-method	Man page
availableXrefs-methods	Man page
bait	Man page
bait,psimi25Interaction-method	Man page
buildPCHypergraph	Man page Source code
complexEntry2graph	Man page Source code
complexName	Man page
complexName,psimi25Complex-method	Man page
complexes	Man page
complexes,psimi25ComplexEntry-method	Man page
complexes,psimi25Hypergraph-method	Man page
confidenceValue	Man page
confidenceValue,psimi25Interaction-method	Man page
eListHandler	Man page Source code
edgeLabel	Man page
edgeLabel,psimi25Hypergraph-method	Man page
genBPGraph	Source code Source code
getAbstractByPMID	Man page Source code
getDesired	Source code
getEntryBasePath	Source code
getExperimentNodeSetPath	Source code
getHorizontalSepLine	Source code
getInteractionNodeSet	Source code
getInteractionNodeSetPath	Source code
getInteractionPubmedPath	Source code
getReleaseDatePath	Source code
getValueByMatchingMatrixColumn	Source code
getXmlExperimentNodeSet	Source code
graphConverter	Man page Source code
hyperGraphConverter	Man page Source code
hyperedgeNodes	Man page
hyperedgeNodes,Hypergraph-method	Man page
hyperedgeNodes,psimi25Hypergraph-method	Man page
iListHandler	Man page Source code
iValue,psimi25Attribute-method	Man page
iValue<-,psimi25Attribute-method	Man page
inhibitor	Man page
inhibitor,psimi25Interaction-method	Man page
initialize,Hypergraph-method	Man page
initialize,psimi25Hypergraph-method	Man page
interactionEntry2graph	Man page Source code
interactionType	Man page
interactionType,psimi25Interaction-method	Man page
interactionType,psimi25InteractionElementType-method	Man page
interactions	Man page
interactions,psimi25InteractionEntry-method	Man page
interactorInfo	Man page
interactorInfo,list-method	Man page
interactorInfo,psimi25ComplexEntry-method	Man page
interactorInfo,psimi25Graph-method	Man page
interactorInfo,psimi25Hypergraph-method	Man page
interactorInfo,psimi25InteractionEntry-method	Man page
interactorInfo-methods	Man page
interactors	Man page
interactors,interactorListBase-method	Man page
interactors,psimi25ComplexEntry-method	Man page
interactors,psimi25InteractionEntry-method	Man page
interactors-methods	Man page
interactors<-	Man page
interactors<-,interactorListBase,NULL-method	Man page
interactors<-,interactorListBase,list-method	Man page
interactors<--methods	Man page
isEmptyNodeSet	Source code
isLengthOneAndNA	Source code
list2Matrix	Man page Source code
members	Man page
members,psimi25Complex-method	Man page
name,psimi25Attribute-method	Man page
name<-,psimi25Attribute,ANY-method	Man page
name<-,psimi25Attribute,character-method	Man page
nameAc,psimi25Attribute-method	Man page
nameAc<-,psimi25Attribute-method	Man page
neutralComponent	Man page
neutralComponent,psimi25Interaction-method	Man page
nonNullXMLattributeValueByPath	Source code
nonNullXMLvalueByPath	Source code
null2na	Man page
numEdges,psimi25Hypergraph-method	Man page
numInteractions	Man page
numInteractions,psimi25InteractionEntry-method	Man page
numInteractions-methods	Man page
numInteractors	Man page
numInteractors,interactorListBase-method	Man page
numInteractors-methods	Man page
organismName	Man page
organismName,organismTaxIdAndName-method	Man page
organismName,psimi25Hypergraph-method	Man page
organismName,psimi25InteractionEntry-method	Man page
organismName-methods	Man page
organismName<-	Man page
organismName<-,organismTaxIdAndName,character-method	Man page
parsePsimi25Complex	Man page Source code
parsePsimi25Interaction	Man page
parseReleaseDate	Source code
parseXmlAttribute	Source code
parseXmlAttributeNodeSet	Source code
parseXmlAttributesListByPath	Source code
parseXmlComplexNode	Source code
parseXmlEntryInteractors	Source code
parseXmlEntryNode	Source code
parseXmlEntryNodeSet	Source code
parseXmlExperimentNode	Source code
parseXmlExperimentNodeSet	Source code
parseXmlInteractionNode	Source code
parseXmlInteractionNodeSet	Source code
parseXmlInteractorNode	Source code
parseXmlInteractorNodeSet	Source code
participant	Man page
participant,psimi25Interaction-method	Man page
prey	Man page
prey,psimi25Interaction-method	Man page
printManyItems	Source code
psimi25Attribute-class	Man page
psimi25Complex-class	Man page
psimi25ComplexEntry-class	Man page
psimi25Experiment-class	Man page
psimi25Graph-class	Man page
psimi25Hypergraph-class	Man page
psimi25Hypergraph2GraphNEL	Man page Source code
psimi25Interaction-class	Man page
psimi25InteractionEntry-class	Man page
psimi25Interactor-class	Man page
psimi25Source-class	Man page
psimi25XML2Graph	Man page Source code
pubmedID	Man page
pubmedID,psimi25Interaction-method	Man page
pubmedID,psimi25InteractionEntry-method	Man page
quiteAsInteger	Source code
releaseDate	Man page
releaseDate,psimi25Entry-method	Man page
releaseDate-methods	Man page
removeHypergraphNAnode	Source code
revInciMat	Man page
revInciMat,matrix-method	Man page
separateXMLDataByExpt	Man page Source code
show,pattributesListBase-method	Man page
show,psimi25Attribute-method	Man page
show,psimi25AvailabilityType-method	Man page
show,psimi25Complex-method	Man page
show,psimi25ComplexEntry-method	Man page
show,psimi25DbReferenceType-method	Man page
show,psimi25Graph-method	Man page
show,psimi25Hypergraph-method	Man page
show,psimi25Interaction-method	Man page
show,psimi25InteractionEntry-method	Man page
show,psimi25Interactor-method	Man page
show,psimi25NamesType-method	Man page
showHorizontalSepLine	Source code
showListWithoutNames	Source code
sourceDb	Man page
sourceDb,psimi25Source-method	Man page
sourceDb,sourceDbAndId-method	Man page
sourceDb-methods	Man page
sourceDb<-	Man page
sourceDb<-,sourceDbAndId,character-method	Man page
sourceId	Man page
sourceId,sourceDbAndId-method	Man page
sourceId-methods	Man page
sourceId<-	Man page
sourceId<-,sourceDbAndId,character-method	Man page
statusDisplay	Source code
statusIndicator	Source code
taxId	Man page
taxId,organismTaxIdAndName-method	Man page
taxId,psimi25InteractionEntry-method	Man page
taxId-methods	Man page
taxId<-	Man page
taxId<-,organismTaxIdAndName,character-method	Man page
translateID	Man page
translateID,list-method	Man page
translateID,psimi25Graph-method	Man page
translateID,psimi25Hypergraph-method	Man page
translateID,psimi25Interactor-method	Man page
translateID-methods	Man page
uniprot	Man page
uniprot,psimi25Interactor-method	Man page
uniprot,psimi25Source-method	Man page
uniprot-methods	Man page
validatePSIMI25	Man page Source code
value<-,psimi25Attribute-method	Man page
xref	Man page
xref,psimi25CommonNameRef-method	Man page
xref,psimi25Interactor-method	Man page