getParticipants: This function is used internally by pathway2Graph to obtain...

Description Usage Arguments Author(s)

View source: R/pathway2Graph.R

Description

This function is used internally by pathway2Graph to obtain physical entities participating in an interaction.

Usage

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getParticipants(pwComponentList, instance, biopaxlevel,
  splitComplexMolecules = FALSE, useIDasNodenames = TRUE)

Arguments

pwComponentList

List of pathway components

instance

Biopax instance id

biopaxlevel

integer. Set the biopax level here if you supply a data.table directly.

splitComplexMolecules

logical. If TRUE complexes are split up into their components and the annotation of the components is added.

useIDasNodenames

logical. If TRUE nodes of the graph are named by their molecule IDs instead of using the NAME property. This can help with badly annotated/formatted databases.

Author(s)

Nirupama Benis


rBiopaxParser documentation built on Oct. 31, 2019, 2:20 a.m.