addBiopaxInstance: This function adds a new instance to an existing biopax...

In rBiopaxParser: Parses BioPax files and represents them in R

Description

This function adds a new instance to an existing biopax model. "properties" is a named list of vectors, with the vector name as the name of the property and every entry of the vector a property value. Please note: case sensitivity! In Biopax Level 2 all properties are written in all capital letters. This will change in Biopax Level 3.

Usage

addBiopaxInstance(
  biopax,
  class,
  id,
  properties = list(NAME = c()),
  verbose = TRUE
)

Arguments

biopax	A biopax model
class	string. Class name
id	string. ID of the instance
properties	named list of properties.
verbose	logical. Be verbose about what was added.

Value

Returns the supplied biopax model with the new instance added.

Author(s)

Frank Kramer

Examples

biopax = createBiopax(level=2)
biopax = addBiopaxInstance(biopax, class="protein", id="id1", properties=list(NAME="protein1",SYNONYMS="p1"))
biopax$dt

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