BIOGRID.PSIMI25         Supported PSI-MI 2.5 XML data sources
availableXrefs          Get cross reference(s) of interactors from
                        PSI-MI 2.5 files
availableXrefs-methods
                        Methods for function availableXrefs
bait                    Extract bait, prey, participant, inhibitor,
                        pubmed, confidence value, interaction type, or
                        neutral component information from an object of
                        psimi25Interaction-class
buildPCHypergraph       Build protein complex hypergraph from PSI-MI
                        2.5 files
complexName             Accessor functions for complex
complexes               Extract complexes from psimi25ComplexEntry
eListHandler            xmlEventParse handlers for PSI-MI XML documents
getAbstractByPMID       A function to obtain the abstract information
                        via a Pubmed ID
graphConverter          maps one type of grap onto another
interactionType         Type of the interaction
interactions            List interactions in the given
                        psimi25InteractionEntry object
interactorInfo          Interactor info in a matrix
interactorInfo-methods
                        Methods for Function interactorInfo in Package
                        'RpsiXML'
interactors             Interactors of the given object
interactors-methods     Methods for Function interactors
list2Matrix             Converts list into matrix
null2na                 Turns null or NA into character "NA"
numInteractions-methods
                        Get interaction number of the given object
numInteractors-methods
                        Get interactor number of the given item
organismName-methods    Returns the organism name(s) of the given item
parseComplex            Parse complex, interactor and experiment from
                        PSI-MI 2.5 XML node
parsePsimi25Interaction
                        Parsing PSI-MI 2.5 XML documents into
                        interactions
psimi25Complex-class    Class "psimi25Complex"
psimi25ComplexEntry-class
                        Class "psimi25ComplexEntry"
psimi25Experiment-class
                        Class "psimi25Experiment"
psimi25Graph-class      Class "psimi25Graph" ~~~
psimi25Hypergraph-class
                        Class "psimi25Hypergraph"
psimi25Interaction-class
                        Class "psimi25Interaction"
psimi25InteractionEntry-class
                        Class "psimi25InteractionEntry"
psimi25Interactor-class
                        A class representing interactor from PSI-MI 2.5
                        XML files
psimi25Source-class     Class "psimi25Source"
psimi25XML2Graph        Convert a vector of PSI-MI 2.5 XML files into
                        graph objects
releaseDate             Release date of the psimi25InteractionEntry
                        object
separateXMLDataByExpt   Convert a vector of PSI-MI 2.5 XML files into
                        graph objects based on pubmedID
sourceDb                Extracts the source database of the given
                        parameter
sourceDb-methods        Get source database name
sourceId                Extracts the source database ID of the given
                        paramter
sourceId-methods        Extracting ID in the source database
taxId                   The taxonomy ID of the given parameter
taxId-methods           Methods for function taxId
translateID             Finds identifiers of a given object
translateID-methods     Translate interactors into other identifiers
uniprot                 The UniProt Identifier in the PSI-MI 2.5 XML
                        file
uniprot-methods         Methods for Function uniprot in Package
                        'RpsiXML'
validatePSIMI25         Validating PSI-MI 2.5 file with MIF25 XML
                        schema
