bait |
A function that obtains the bait protein from the IntAct Interactions |
bait,intactInteraction-method |
Class "intactInteraction" |
bait,interactionEntry-method |
Class "interactionEntry" |
complexEntry-class |
Class "complexEntry" |
complexes |
A function that obtains the complex information from the IntAct Curated Protein Complexes |
complexes,complexEntry-method |
Class "complexEntry" |
eListHandler |
xmlEventParse handlers for MIF XML documents from EBI intact |
iListHandler |
xmlEventParse handlers for MIF XML documents from EBI intact |
initialize,intactHyperGraph-method |
Class "intactHyperGraph" |
intactComplex-class |
Class "intactComplex" |
intactGraph-class |
Class "intactGraph" |
intactHyperGraph-class |
Class "intactHyperGraph" |
intactInteraction-class |
Class "intactInteraction" |
intactXML2Graph |
A function that takes a vector of IntAct XML file names and converts them to graph objects. |
interactionEntry-class |
Class "interactionEntry" |
interactions |
A function that obtains the interaction information from the IntAct repository. |
interactions,interactionEntry-method |
Class "interactionEntry" |
interactors |
A function that obtains the interactors either in a binary interaction or a complex co-membership interaction. |
interactors,complexEntry-method |
Class "complexEntry" |
interactors,interactionEntry-method |
Class "interactionEntry" |
list2Matrix |
A function that takes a named list representation of a bipartite graph and transforms it into a matrix representation. |
organismName |
A method to obtain all the unique organism names from the PSI-MI 2.5 XML files upon which the data is based |
organismName,interactionEntry-method |
Class "interactionEntry" |
prey |
A function that obtains the prey protein from the IntAct Interactions |
prey,intactInteraction-method |
Class "intactInteraction" |
prey,interactionEntry-method |
Class "interactionEntry" |
psi25complex |
parser for PSI-MI 2.5 XML documents from EBI intact |
psi25interaction |
parser for PSI-MI 2.5 XML documents from EBI intact |
releaseDate |
A method to return the release date of the PSI-MI 2.5 XML file |
releaseDate,interactionEntry-method |
Class "interactionEntry" |
separateXMLDataByExpt |
A function that takes a vector of IntAct XML file name locations and converts them to graph objects. |
show,complexEntry-method |
Class "complexEntry" |
show,intactComplex-method |
Class "intactComplex" |
show,intactGraph-method |
Class "intactGraph" |
show,intactHyperGraph-method |
Class "intactHyperGraph" |
show,intactInteraction-method |
Class "intactInteraction" |
show,interactionEntry-method |
Class "interactionEntry" |
taxId |
A method to return all the unique taxonomy IDs indexing the unique organisms upon which the data is based |
taxId,interactionEntry-method |
Class "interactionEntry" |
translateIntactID |
A function that translates the IntAct accession codes for molecules to other common identifiers. |
translateIntactID,intactGraph-method |
Class "intactGraph" |
translateIntactID,intactHyperGraph-method |
Class "intactHyperGraph" |