| complexName |
Accessor functions for complex |
| availableXrefs-methods |
Methods for function availableXrefs |
| BIOGRID.PSIMI25 |
Supported PSI-MI 2.5 XML data sources |
| bait |
Extract bait, prey, participant, inhibitor, pubmed, confidence value, interaction type,
or neutral component information from an object of psimi25Interaction-class |
| eListHandler |
xmlEventParse handlers for PSI-MI XML documents |
| graphConverter |
maps one type of grap onto another |
| availableXrefs |
Get cross reference(s) of interactors from PSI-MI 2.5 files |
| complexes |
Extract complexes from psimi25ComplexEntry |
| getAbstractByPMID |
A function to obtain the abstract information via a Pubmed ID |
| buildPCHypergraph |
Build protein complex hypergraph from PSI-MI 2.5 files |
| interactors |
Get information of interactors of the given object |
| list2Matrix |
Converts list into matrix |
| null2na |
Turns null or NA into character "NA" |
| interactorInfo |
Interactor info in a matrix |
| interactions |
List interactions in the given psimi25InteractionEntry object |
| interactorInfo-methods |
Methods for Function interactorInfo in Package `RpsiXML' |
| numInteractions-methods |
Get interaction number of the given object |
| interactionType |
Type of the interaction |
| psimi25Attribute-class |
Class "psimi25Attribute" |
| parsePsimi25Interaction |
Parsing PSI-MI 2.5 XML documents into interactions |
| psimi25Experiment-class |
Class "psimi25Experiment" |
| psimi25Graph-class |
Class "psimi25Graph" ~~~ |
| psimi25Interactor-class |
A class representing interactor from PSI-MI 2.5 XML files |
| psimi25Source-class |
Class "psimi25Source" |
| psimi25InteractionEntry-class |
Class "psimi25InteractionEntry" |
| psimi25Interaction-class |
Class "psimi25Interaction" |
| psimi25Complex-class |
Class "psimi25Complex" |
| psimi25Hypergraph-class |
Class "psimi25Hypergraph" |
| psimi25ComplexEntry-class |
Class "psimi25ComplexEntry" |
| psimi25Hypergraph2GraphNEL |
Convert psimi25Hypergraph to graphNEL |
| uniprot-methods |
Methods for Function uniprot in Package `RpsiXML' |
| uniprot |
The UniProt Identifier in the PSI-MI 2.5 XML file |
| validatePSIMI25 |
Validating PSI-MI 2.5 file with MIF25 XML schema |
| sourceId-methods |
Extract or set source database name or ID in the source database |
| taxId-methods |
Get or Set the NCBI Taxonomy ID or Organism Name |
| translateID |
Finds identifiers of a given object |
| translateID-methods |
Translate interactors into other identifiers |
| separateXMLDataByExpt |
Convert a vector of PSI-MI 2.5 XML files into graph objects based on pubmedID |
| psimi25XML2Graph |
Convert a vector of PSI-MI 2.5 XML files into graph objects |
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