intactXML2Graph {Rintact} | R Documentation |
The intactXML2Graph
takes in a vector of related XML files
and generates a graph object based on the type of XML file.
intactXML2Graph(intactFiles, type="interaction", directed=TRUE)
intactFiles |
A vector of IntAct XML file names. If the data of a single experiment has been split into multiple XML files (e.g. Ewing et al 2007), then each entry of the vector should contain one of these XML files. NB - different datasets should not be put into the same vector. |
type |
A character string which is either "interaction" if the XML file contains experimental physical data or "complex" if the XML file contains curated protein complex membership data. |
directed |
A logical. User defined parameter so that the return value with either be a directed or undirected graph object. |
If type = "interaction," then a resulting intactGraph object is genertated on the aggregate of the XML files. If type = "complex," then a resulting intactHyperGraph object is generated on the aggregate of the XML files.
T Chiang
The IntAct Database http://www.ebi.ac.uk/intact/site/contents/downloads.jsf.
interactionEntry-class
, complexEntry-class
# parse complex data