API for rBiopaxParser
Parses BioPax files and represents them in R
| Global functions | |
|---|---|
| CLASS_INHERITANCE_BP2 | Man page |
| CLASS_INHERITANCE_BP3 | Man page |
| CLASS_PROPERTIES_BP2 | Man page |
| CLASS_PROPERTIES_BP3 | Man page |
| DATABASE_BIOPAX | Man page |
| addBiochemicalReaction | Man page Source code |
| addBiopaxInstance | Man page Source code |
| addBiopaxInstances | Man page Source code |
| addControl | Man page Source code |
| addPathway | Man page Source code |
| addPathwayComponents | Man page Source code |
| addPhysicalEntity | Man page Source code |
| addPhysicalEntityParticipant | Man page Source code |
| addPropertiesToBiopaxInstance | Man page Source code |
| addhash | Man page Source code |
| addns | Man page Source code |
| biopax | Man page |
| biopaxLevel3Example | Man page |
| biopaxexample | Man page |
| calcGraphOverlap | Man page Source code |
| checkValidity | Man page Source code |
| colorGraphNodes | Man page Source code |
| combineNodes | Man page Source code |
| createBiopax | Man page Source code |
| diffGraphs | Man page Source code |
| downloadBiopaxData | Man page Source code |
| generateNewUniqueID | Man page Source code |
| getClassProperties | Man page Source code |
| getInstanceClass | Man page Source code |
| getInstanceProperty | Man page Source code |
| getNeighborhood | Man page Source code |
| getParticipants | Man page Source code |
| getReferencedIDs | Man page Source code |
| getReferencingIDs | Man page Source code |
| getSubClasses | Man page Source code |
| getSuperClasses | Man page Source code |
| getXrefAnnotations | Man page Source code |
| hasProperty | Man page |
| internal_NrOfXMLNodes | Man page Source code |
| internal_XMLInstance2DF | Man page Source code |
| internal_checkArguments | Man page Source code |
| internal_generateXMLfromBiopax | Man page Source code |
| internal_getBiopaxModelAsDataFrame | Man page |
| internal_propertyListToDF | Man page Source code |
| internal_resolvePhysicalEntityParticipant | Man page Source code |
| intersectGraphs | Man page Source code |
| isOfClass | Man page |
| isOfNamespace | Man page Source code |
| isURL | Man page Source code |
| layoutRegulatoryGraph | Man page Source code |
| listComplexComponents | Man page Source code |
| listInstances | Man page |
| listInteractionComponents | Man page Source code |
| listPathwayComponents | Man page Source code |
| listPathways | Man page Source code |
| mergePathways | Man page Source code |
| pathway2AdjacancyMatrix | Man page Source code |
| pathway2Geneset | Man page Source code |
| pathway2Graph | Man page |
| pathway2RegulatoryGraph | Man page Source code |
| plotRegulatoryGraph | Man page Source code |
| print.biopax | Man page Source code |
| rBiopaxParser | Man page |
| rBiopaxParser-package | Man page |
| readBiopax | Man page Source code |
| removeDisconnectedParts | Man page Source code |
| removeInstance | Man page Source code |
| removeNodes | Man page Source code |
| removeProperties | Man page Source code |
| selectInstances | Man page |
| splitComplex | Man page Source code |
| striphash | Man page Source code |
| stripns | Man page Source code |
| transitiveClosure | Man page Source code |
| transitiveReduction | Man page Source code |
| unfactorize | Man page |
| uniteGraphs | Man page Source code |
| writeBiopax | Man page Source code |
