addBiopaxInstances: This function adds new instances to an existing biopax model.

In rBiopaxParser: Parses BioPax files and represents them in R

Description

This function adds new instances (supplied as a compatible data.table) to an existing biopax model via rbind. Usually you want to start out at createBiopax and addPhysicalEntity and work your way up the ontology ladder.

Usage

addBiopaxInstances(biopax, newInstancesDF)

Arguments

biopax	A biopax model
newInstancesDF	data.table or data.frame. Must be compatible with internal biopax implementation.

Value

Returns the supplied biopax model with the new instances added.

Author(s)

Frank Kramer

Examples

# load data
 data(biopaxexample)
 biopax_temp = createBiopax(level=2)
 biopax_temp = addBiopaxInstance(biopax_temp, class="protein", id="id1", properties=list(NAME="protein1",SYNONYMS="p1"))
 selectInstances(biopax_temp)
 biopax = addBiopaxInstances(biopax, selectInstances(biopax_temp))

rBiopaxParser documentation built on Nov. 8, 2020, 8:21 p.m.